##gff-version 2 ##date 2001-04-10 ##sequence-region CHROMOSOME_II 1 15173999 CHROMOSOME_II assembly_tag Finished 157 159 . + . Note "Left: 2L52" CHROMOSOME_II assembly_tag Clone 4419 4422 . - . Note "left end: C01B12" CHROMOSOME_II assembly_tag Finished 4545 4548 . + . Note "Right: 2L52" CHROMOSOME_II assembly_tag Finished 7801525 7801528 . - . Note "Left: T05A6" CHROMOSOME_II assembly_tag Clone 7801621 7801624 . - . Note "right end: C06A8" CHROMOSOME_II assembly_tag annotation 7823224 7823237 . + . Note "variable number of Ts\n11 or 12 (majority)" CHROMOSOME_II assembly_tag Clone 7831812 7831815 . + . Note "left end: T09A5" CHROMOSOME_II assembly_tag annotation 7831817 7831821 . + . Note "Start of T09A5" CHROMOSOME_II assembly_tag Finished 7831912 7831915 . - . Note "Right: T05A6" CHROMOSOME_II assembly_tag annotation 7870414 7870417 . + . Note "left end of T01H3" CHROMOSOME_II assembly_tag annotation 7870415 7870419 . + . Note "Beginnig of T01H3" CHROMOSOME_II assembly_tag annotation 7878733 7878735 . + . Note "mis-ligation" CHROMOSOME_II assembly_tag annotation 7883273 7883273 . + . Note "mutation on term" CHROMOSOME_II assembly_tag annotation 7883646 7883646 . + . Note "This is a false join between the 2 contigs across a gap. This gap comprises part of a tandem repeat. We can see a number of different units in this repeat. The most obvious are unit 1 35bp unit 2 26bp These 2 units are repeated in various order across the region and are interspersed with other smaller repeated motifs Restriction digest and pcr data across the area both suggest a further 200bp missing. Primary analysis suggests that this repetitive region is not coding, so no further work is being planned to complete the region." CHROMOSOME_II assembly_tag annotation 7885653 7885653 . + . Note "Missing base" CHROMOSOME_II assembly_tag annotation 7892183 7892186 . + . Note "Beginning of ZK675 @ position 1 Overlapping with T01H3" CHROMOSOME_II assembly_tag ignore 7892183 7892186 . + . Note "cutoff (cloning vector): " CHROMOSOME_II assembly_tag annotation 7892183 7892186 . + . Note "left end of ZK675" CHROMOSOME_II assembly_tag comment 7892187 7892192 . + . Note "start of left with T01H3" CHROMOSOME_II assembly_tag annotation 7892280 7892283 . + . Note "end of t01h3 finishing bit" CHROMOSOME_II assembly_tag annotation 7914786 7914789 . + . Note "beginning of ZK669" CHROMOSOME_II assembly_tag annotation 7916662 7916671 . + . Note "single read has deletion of 11bp at this point" CHROMOSOME_II assembly_tag annotation 7917522 7917522 . + . Note "single read has a point mutation T > C" CHROMOSOME_II assembly_tag annotation 7919309 7919355 . + . Note "because of the dificulty of sequencing through the 18 Gs, not every base is clear on both strands. All bases are clear on one or other strand, and 18Gs confirmed by sequenase terminators" CHROMOSOME_II assembly_tag annotation 7924139 7924145 . + . CHROMOSOME_II assembly_tag annotation 7926286 7926295 . + . Note "deletion in single clone" CHROMOSOME_II assembly_tag annotation 7931936 7931940 . + . Note "end of ZK675" CHROMOSOME_II assembly_tag annotation 7942689 7942689 . + . Note "point mutation C > A on single read" CHROMOSOME_II assembly_tag Clone 7947054 7947057 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 7947054 7947057 . + . Note "beginning of overlap with C04H4" CHROMOSOME_II assembly_tag annotation 7950322 7950323 . + . Note "single strand with term for 2 bases" CHROMOSOME_II assembly_tag Clone 7951890 7951892 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 7951890 7951893 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 7968570 7968622 . + . Note "Single stranded with terminator across region" CHROMOSOME_II assembly_tag annotation 7971286 7971313 . + . Note "difficult region to resolce sequence many terminators across region. Slight chance of error" CHROMOSOME_II assembly_tag annotation 7978821 7978882 . + . Note "Single stranded with terminator across" CHROMOSOME_II assembly_tag annotation 7980374 7980377 . + . Note "putative lh end of DH11" CHROMOSOME_II assembly_tag Clone 7980374 7980378 . + . Note "right end: putative Right hand clone for DH11" CHROMOSOME_II assembly_tag annotation 7983949 7983951 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 7984102 7984103 . + . Note "Very big gap between this C and G on neg. reads, but term. looks O.K.?? ok to edit according to term and other reads" CHROMOSOME_II assembly_tag annotation 7984881 7984885 . + . Note "Possible point mutation" CHROMOSOME_II assembly_tag annotation 7986760 7986765 . + . Note "RH end of C04H4" CHROMOSOME_II assembly_tag annotation 7995576 7995584 . + . Note "This single read gives a different sequence, possiblly mutation" CHROMOSOME_II assembly_tag annotation 7996353 7996355 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8000324 8000333 . + . CHROMOSOME_II assembly_tag annotation 8002594 8002598 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8003301 8003306 . + . Note "Single read disagreement/mutation " CHROMOSOME_II assembly_tag annotation 8005113 8005122 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8006465 8006489 . + . Note "Deleted clone" CHROMOSOME_II assembly_tag annotation 8006522 8006528 . + . Note "Deleting clone" CHROMOSOME_II assembly_tag annotation 8006935 8006942 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8006950 8006955 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8016040 8016043 . + . Note "left end of C08B11" CHROMOSOME_II assembly_tag annotation 8016040 8016043 . + . Note "The beginning of C08B11 @ position 1 End of DH11 @ 4646" CHROMOSOME_II assembly_tag annotation 8016044 8016048 . + . Note "pJB8 " CHROMOSOME_II assembly_tag annotation 8042261 8042264 . + . Note "beginning of T05H10" CHROMOSOME_II assembly_tag annotation 8044370 8044657 . + . Note "single-stranded with terminators" CHROMOSOME_II assembly_tag annotation 8045481 8045481 . + . Note "point mutation C > A on single read" CHROMOSOME_II assembly_tag annotation 8049746 8049752 . + . Note "2 pcr reads diverge here, but a restriction digest of the cosmid suggests assembly is correct" CHROMOSOME_II assembly_tag annotation 8049844 8049844 . + . CHROMOSOME_II assembly_tag annotation 8056617 8056620 . + . Note "end of C08B11" CHROMOSOME_II assembly_tag annotation 8057062 8057062 . + . Note "point mutation C > G on single read" CHROMOSOME_II assembly_tag annotation 8065049 8065049 . + . Note "point mutation A > G" CHROMOSOME_II assembly_tag annotation 8068843 8068846 . + . Note "beginning of K02C4" CHROMOSOME_II assembly_tag annotation 8068848 8068852 . + . Note "Start of K02C4" CHROMOSOME_II assembly_tag annotation 8069554 8069556 . + . Note "Single read with a point mutation." CHROMOSOME_II assembly_tag annotation 8071989 8071989 . + . Note "Point mutation. " CHROMOSOME_II assembly_tag annotation 8080258 8080260 . + . Note "Point mutatation on read yb53d6 " CHROMOSOME_II assembly_tag annotation 8080577 8080580 . + . Note "Possible point mutation" CHROMOSOME_II assembly_tag annotation 8081160 8081164 . + . Note "End of T05H10" CHROMOSOME_II assembly_tag annotation 8099387 8099391 . + . Note "Start of C41C4" CHROMOSOME_II assembly_tag Clone 8099388 8099391 . + . Note "left end: Start of C41C4" CHROMOSOME_II assembly_tag annotation 8105418 8105423 . + . Note "668 only has 3 A's otherwise fine" CHROMOSOME_II assembly_tag Clone 8105581 8105584 . + . Note "right end: End of K02C4" CHROMOSOME_II assembly_tag annotation 8111828 8111839 . + . Note "This read diverges, but I think it is a mis-ligation as anoSingle read diverges" CHROMOSOME_II assembly_tag annotation 8118021 8118021 . + . Note "Point mutation " CHROMOSOME_II assembly_tag annotation 8121884 8121884 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8122793 8122793 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8124495 8124495 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8128536 8128536 . + . Note "missing base" CHROMOSOME_II assembly_tag Clone 8139039 8139042 . + . Note "left end: Start of F10B5" CHROMOSOME_II assembly_tag annotation 8139039 8139042 . + . Note "Left hand end of F10B5." CHROMOSOME_II assembly_tag annotation 8141254 8141257 . + . Note "End of C41C4 @ position 2219" CHROMOSOME_II assembly_tag annotation 8149922 8149922 . + . Note "Point mutation on a single m13 clone. T changed to an A" CHROMOSOME_II assembly_tag annotation 8157491 8157491 . + . Note "Ponit mutation on 2 terminator clones. T changed to a C" CHROMOSOME_II assembly_tag annotation 8164446 8164446 . + . Note "Point mutation on a single m13 clone. T changed to an A." CHROMOSOME_II assembly_tag annotation 8165691 8165691 . + . Note "One clone has a missing C." CHROMOSOME_II assembly_tag annotation 8166041 8166041 . + . Note "Two clones have a point mutation. A changed to a G." CHROMOSOME_II assembly_tag annotation 8168070 8168073 . + . Note "End of F10B5. (T05C12??? - SJJ)" CHROMOSOME_II assembly_tag Clone 8168070 8168073 . + . Note "left end: left end T05C12" CHROMOSOME_II assembly_tag annotation 8182472 8182472 . + . Note "Point Mutation on 188 A changed for C" CHROMOSOME_II assembly_tag Clone 8183248 8183251 . + . Note "right end: right hand end of F10B5" CHROMOSOME_II assembly_tag Clone 8201750 8201753 . + . Note "left end: left hand end of M110" CHROMOSOME_II assembly_tag Clone 8201750 8201753 . + . Note "left end: beginning of M110" CHROMOSOME_II assembly_tag Clone 8206629 8206632 . + . Note "right end: end of T05C12" CHROMOSOME_II assembly_tag annotation 8229596 8229855 . + . Note "single-stranded with terms" CHROMOSOME_II assembly_tag annotation 8230034 8230137 . + . Note "ss with terms" CHROMOSOME_II assembly_tag Clone 8235729 8235732 . + . Note "left end: LH of f35c11" CHROMOSOME_II assembly_tag Clone 8235729 8235732 . + . Note "left end: beginning of F35C11" CHROMOSOME_II assembly_tag Clone 8242954 8242957 . + . Note "right end: right hand end of M110" CHROMOSOME_II assembly_tag annotation 8242954 8242957 . + . Note "end of m110" CHROMOSOME_II assembly_tag annotation 8244706 8244709 . + . Note "4 bases single stranded with -ve termimator across " CHROMOSOME_II assembly_tag Clone 8250866 8250869 . + . Note "left end: Left hand end of K01C8." CHROMOSOME_II assembly_tag annotation 8261076 8261080 . + . Note "This is the end of f35c11 finishing but not the end of the cosmid. This cosmid has a large overlap with k01c8." CHROMOSOME_II assembly_tag annotation 8261077 8261080 . + . Note "Editing for K01C8 starts here @ position 15674" CHROMOSOME_II assembly_tag annotation 8262575 8262575 . + . Note "point mutation, 2 reads have C at this position." CHROMOSOME_II assembly_tag annotation 8262620 8262620 . + . Note "point mutation 3 reads have G at this point." CHROMOSOME_II assembly_tag annotation 8262636 8262636 . + . Note "point mutation 3 reads have T at tthis point." CHROMOSOME_II assembly_tag annotation 8262650 8262650 . + . Note "point mutation three reads have T at this point." CHROMOSOME_II assembly_tag annotation 8262692 8262699 . + . Note "These 8 bases are not double stranded but there is a terminator there to check for compressions." CHROMOSOME_II assembly_tag annotation 8262723 8262723 . + . Note "point mutation 1 read has a T here" CHROMOSOME_II assembly_tag annotation 8262954 8262954 . + . Note "point mutation 2 reads have an A at this point." CHROMOSOME_II assembly_tag annotation 8262970 8262970 . + . Note "point mutation 1 read has a C here" CHROMOSOME_II assembly_tag annotation 8263015 8263015 . + . Note "point mutation 3 reads have an A here" CHROMOSOME_II assembly_tag annotation 8268052 8268052 . + . Note "point mutation 1 read has a G" CHROMOSOME_II assembly_tag Clone 8271598 8271601 . + . Note "right end: Right hand end of F35C11 @ position 26198 " CHROMOSOME_II assembly_tag annotation 8277220 8277266 . + . Note "These 48 bases are not double stranded but threre is terminator there to check for compressions." CHROMOSOME_II assembly_tag Finished 8285702 8285705 . + . Note "Left: Y1E3A" CHROMOSOME_II assembly_tag Clone 8285798 8285801 . + . Note "right end: Right hand end of K01C8 @ position 40398 " CHROMOSOME_II assembly_tag Clone 8285798 8285801 . + . Note "right end: K01C8" CHROMOSOME_II assembly_tag annotation 8288332 8292879 . + . Note "[x] Tandem repeat [ ] Single clone region [ ] Forced join [ ] Other CommentEach repeat element is 79 bp long. Thesize of the tandem repeat region in thisassembly has not been checked against a restriction digest. Some base pair differences have been edited." CHROMOSOME_II assembly_tag Finished 8293834 8293834 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8293834 8293837 . + . Note "left end: beginning of F14F11" CHROMOSOME_II assembly_tag Clone 8293834 8293837 . + . Note "left end: F14F11" CHROMOSOME_II assembly_tag annotation 8293834 8293874 . + . Note "awaiting pcr from YAC to bridge gap between 2 cosmids and double-strand this region" CHROMOSOME_II assembly_tag Finished 8293930 8293933 . + . Note "Right: Y1E3A" CHROMOSOME_II assembly_tag annotation 8295775 8295775 . + . Note "point mutation T > G on single read" CHROMOSOME_II assembly_tag annotation 8295977 8295977 . + . Note "pt mutation A > T on a single read" CHROMOSOME_II assembly_tag Clone 8300325 8300325 . + . Note "right end: O.K.?" CHROMOSOME_II assembly_tag Finished 8319076 8319076 . + . Note "Left: Finish starts here." CHROMOSOME_II assembly_tag Clone 8319076 8319079 . + . Note "left end: Left hand end of C26D10." CHROMOSOME_II assembly_tag Clone 8319076 8319079 . + . Note "left end: beginning of C26D10" CHROMOSOME_II assembly_tag Finished 8319183 8319183 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8331143 8331146 . + . Note "right end: Possibly the Right hand end of F14F11." CHROMOSOME_II assembly_tag Finished 8351527 8351527 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8351527 8351530 . + . Note "left end: left end of M195" CHROMOSOME_II assembly_tag Clone 8351527 8351530 . + . Note "left end: Left hand end of M195." CHROMOSOME_II assembly_tag Finished 8351626 8351626 . + . Note "Right: Finished up to here." CHROMOSOME_II assembly_tag Clone 8362678 8362681 . + . Note "right end: rh end of C26D10" CHROMOSOME_II assembly_tag Clone 8377393 8377396 . + . Note "left end: left end of F49E12" CHROMOSOME_II assembly_tag Clone 8377393 8377396 . + . Note "left end: F49E12" CHROMOSOME_II assembly_tag Finished 8377496 8377496 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8392647 8392650 . + . Note "right end: right end of M191" CHROMOSOME_II assembly_tag Clone 8401912 8401915 . + . Note "left end: lh end of F14F11" CHROMOSOME_II assembly_tag Clone 8417839 8417842 . + . Note "right end: right end of F49E12" CHROMOSOME_II assembly_tag Clone 8417839 8417842 . + . Note "right end: right end of F49E12" CHROMOSOME_II assembly_tag Clone 8442353 8442356 . + . Note "left end: ?left hand end F22B5" CHROMOSOME_II assembly_tag Clone 8442353 8442356 . + . Note "left end: Beginning of F22B5 Edit starts here." CHROMOSOME_II assembly_tag annotation 8442353 8442363 . + . Note "These 11 bases are not double stranded, but they have a terminator to check for compressions." CHROMOSOME_II assembly_tag Clone 8446959 8446962 . + . Note "right end: Right hand end of F14E5." CHROMOSOME_II assembly_tag annotation 8448107 8448111 . + . Note "Two positve walks showed TGGG-G here. The negative clones all read TTTTT. Edited to TTTTT" CHROMOSOME_II assembly_tag annotation 8449245 8449245 . + . Note "One terminator reads a G here. All other reads including a terminator walk show a C here. " CHROMOSOME_II assembly_tag annotation 8455346 8455362 . + . Note "These 17 bases are not double stranded but they have terminators across them to check for compressions." CHROMOSOME_II assembly_tag Finished 8468075 8468078 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8468075 8468078 . + . Note "left end: Left hand end of M05D6." CHROMOSOME_II assembly_tag Clone 8468075 8468078 . + . Note "left end: Start of M05D6 (lh)" CHROMOSOME_II assembly_tag annotation 8470372 8470372 . + . Note "missing base" CHROMOSOME_II assembly_tag annotation 8481315 8481315 . + . Note "missing base" CHROMOSOME_II assembly_tag annotation 8483981 8483981 . + . Note "point mutation" CHROMOSOME_II assembly_tag Clone 8484073 8484076 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 8488615 8488615 . + . Note "edited to A on basis of forward read and additional long gel not entered into database" CHROMOSOME_II assembly_tag annotation 8492404 8492447 . + . Note "single stranded with terms" CHROMOSOME_II assembly_tag annotation 8492516 8492641 . + . Note "single-stranded with term across" CHROMOSOME_II assembly_tag Finished 8496539 8496539 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8496539 8496542 . + . Note "left end: left end of T13H5" CHROMOSOME_II assembly_tag Clone 8496539 8496542 . + . Note "left end: T13H5" CHROMOSOME_II assembly_tag Finished 8496636 8496641 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 8496757 8496757 . + . Note "Point mutation " CHROMOSOME_II assembly_tag Clone 8509340 8509343 . + . Note "right end: M05D6 right end" CHROMOSOME_II assembly_tag annotation 8510129 8510129 . + . Note "Point mutation? yes" CHROMOSOME_II assembly_tag annotation 8512609 8512609 . + . Note "point mutation T > A on single read" CHROMOSOME_II assembly_tag annotation 8522498 8522498 . + . Note "drop out at this base on all reads single trace (pcr from cosmid) shows a clear G, so it has been edited accordingly" CHROMOSOME_II assembly_tag annotation 8522604 8522604 . + . Note "Majority of reads (this includes m13 reads, walks and pcrs from the cosmid) show what appears to be an A at this point. However, many have low signal at this base. In addition, we have a single read (pcr from the cosmid) which shows a clear T peak. This may be a Taq error. " CHROMOSOME_II assembly_tag annotation 8522638 8522638 . + . Note "This base is most probably a G. Some reads see to show an A but they all have a G background underneath and are not as clear as those that show a G. Various types of sequencing have been tried but without improvement, hence edited to G." CHROMOSOME_II assembly_tag annotation 8523757 8523758 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8530868 8530868 . + . Note "Point mutation" CHROMOSOME_II assembly_tag Finished 8532275 8532275 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8532342 8532345 . + . Note "right end: T13H5" CHROMOSOME_II assembly_tag Clone 8532342 8532345 . + . Note "right end: T13H5" CHROMOSOME_II assembly_tag Finished 8532345 8532345 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8532649 8532652 . + . Note "left end: W01C9 left hand end." CHROMOSOME_II assembly_tag Clone 8532649 8532652 . + . Note "left end: W01C9" CHROMOSOME_II assembly_tag annotation 8532649 8532661 . + . Note "These 13 bases are not double stranded but they have a terminator across them to check for compressions." CHROMOSOME_II assembly_tag Finished 8532749 8532749 . + . Note "Right: " CHROMOSOME_II assembly_tag repeat 8533192 8533255 . + . CHROMOSOME_II assembly_tag repeat 8533192 8533256 . + . CHROMOSOME_II assembly_tag annotation 8534681 8534701 . + . Note "These 21 bases are not double standed. They have a terminator to check the sequenece for any compressions." CHROMOSOME_II assembly_tag repeat 8534763 8534793 . + . CHROMOSOME_II assembly_tag repeat 8534763 8534806 . + . CHROMOSOME_II assembly_tag repeat 8534776 8534819 . + . CHROMOSOME_II assembly_tag repeat 8534789 8534819 . + . CHROMOSOME_II assembly_tag annotation 8535534 8535589 . + . Note "Position 2890 - 2945 is not double stranded. This area has a terminator to check for compressions. " CHROMOSOME_II assembly_tag Clone 8554041 8554044 . + . Note "left end: Left hand end of F54C9" CHROMOSOME_II assembly_tag Clone 8554041 8554044 . + . Note "left end: Left hand end of F54C9." CHROMOSOME_II assembly_tag Clone 8565167 8565174 . + . Note "right end: Right hand end of W01C9." CHROMOSOME_II assembly_tag annotation 8570874 8570884 . + . Note "These 11 bases are not double stranded but they ahve a terminator across them to check for compressions." CHROMOSOME_II assembly_tag annotation 8570951 8570963 . + . Note "These 13 bases are not double stranded but have a terminator to check for compressions." CHROMOSOME_II assembly_tag annotation 8582093 8582093 . + . Note "One clone when terminated shows a clear C here, all other clones show an A." CHROMOSOME_II assembly_tag Finished 8588773 8588773 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8588879 8588882 . + . Note "right end: Right hand end of F54C9" CHROMOSOME_II assembly_tag Clone 8588879 8588882 . + . Note "right end: F54C9 " CHROMOSOME_II assembly_tag annotation 8594538 8594538 . + . Note "point mutation on yo16h12" CHROMOSOME_II assembly_tag Clone 8612708 8612711 . + . Note "left end: T22C8" CHROMOSOME_II assembly_tag Clone 8612708 8612711 . + . Note "left end: left end of T22C8" CHROMOSOME_II assembly_tag Finished 8612804 8612804 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 8615312 8615312 . + . Note "point mutation T > C" CHROMOSOME_II assembly_tag Clone 8617993 8617996 . + . Note "right end: right end of T18F6" CHROMOSOME_II assembly_tag Finished 8640362 8640362 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8640362 8640365 . + . Note "left end: left end of D2085" CHROMOSOME_II assembly_tag Clone 8640362 8640365 . + . Note "left end: left end of D2085" CHROMOSOME_II assembly_tag Clone 8648935 8648938 . + . Note "right end: end of T22C8" CHROMOSOME_II assembly_tag Clone 8672179 8672182 . + . Note "left end: left end of C34C6" CHROMOSOME_II assembly_tag Clone 8672179 8672182 . + . Note "left end: Left end of C34C6" CHROMOSOME_II assembly_tag Finished 8672285 8672285 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8680821 8680824 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 8680822 8680825 . + . Note "right end: D2085" CHROMOSOME_II assembly_tag annotation 8708081 8708134 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 8711317 8711320 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 8711321 8711490 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag Clone 8711559 8711562 . + . Note "left end: beginning of T01B7 " CHROMOSOME_II assembly_tag Clone 8711559 8711562 . + . Note "left end: T01B7" CHROMOSOME_II assembly_tag Clone 8711559 8711562 . + . Note "left end: Left hand end of T01B7. " CHROMOSOME_II assembly_tag Clone 8715230 8715233 . + . Note "right end: The expected right hand end of C34C6. No C34C6 clones go into vector and they all stop before this point." CHROMOSOME_II assembly_tag annotation 8716024 8716040 . + . Note "These 17 bases are not double stranded but they have a terminator to check for compressions." CHROMOSOME_II assembly_tag Finished 8737639 8737639 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8737639 8737642 . + . Note "left end: left end of K08F8" CHROMOSOME_II assembly_tag Clone 8737639 8737642 . + . Note "left end: Left hand end of K08F8." CHROMOSOME_II assembly_tag Clone 8750153 8750156 . + . Note "right end: right hand end of T01B7" CHROMOSOME_II assembly_tag Finished 8778784 8778784 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8778881 8778884 . + . Note "right end: probable right end of K08F8" CHROMOSOME_II assembly_tag Clone 8778881 8778884 . + . Note "right end: right end of K08F8" CHROMOSOME_II assembly_tag Finished 8778884 8778884 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8809913 8809913 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8810010 8810013 . + . Note "right end: F07H5" CHROMOSOME_II assembly_tag Clone 8810010 8810013 . + . Note "right end: F07H5" CHROMOSOME_II assembly_tag Finished 8810013 8810013 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8810075 8810078 . + . Note "left end: F46C5" CHROMOSOME_II assembly_tag Finished 8810175 8810175 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8842068 8842068 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8842068 8842071 . + . Note "left end: T14D7" CHROMOSOME_II assembly_tag Clone 8842068 8842071 . + . Note "left end: left end of T14D7" CHROMOSOME_II assembly_tag Clone 8850974 8850977 . + . Note "right end: F46C5" CHROMOSOME_II assembly_tag Clone 8862760 8862763 . + . Note "left end: T07D4" CHROMOSOME_II assembly_tag Clone 8862760 8862765 . + . Note "left end: Left hand end of T07D4" CHROMOSOME_II assembly_tag repeat 8862760 8862908 . + . CHROMOSOME_II assembly_tag repeat 8862760 8863107 . + . CHROMOSOME_II assembly_tag cosmid 8862760 8862763 . - . Note "vector: " CHROMOSOME_II assembly_tag Finished 8862860 8862860 . + . Note "Right: " CHROMOSOME_II assembly_tag repeat 8862909 8863105 . + . CHROMOSOME_II assembly_tag repeat 8863198 8863454 . + . CHROMOSOME_II assembly_tag Comment 8869486 8869495 . + . Note "Here all negative strands are clear\nbut none of the possitive strands\nare.\ndo a term on the + strand" CHROMOSOME_II assembly_tag cosmid 8871359 8871372 . - . Note "vector: " CHROMOSOME_II assembly_tag cosmid 8878272 8878272 . + . Note "vector: " CHROMOSOME_II assembly_tag Comment 8878676 8878684 . + . Note "do + term" CHROMOSOME_II assembly_tag Clone 8880350 8880353 . + . Note "right end: right end of T14D7" CHROMOSOME_II assembly_tag Comment 8881611 8881642 . + . Note "ds" CHROMOSOME_II assembly_tag Finished 8885183 8885183 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8885183 8885186 . + . Note "left end: left end of B0457" CHROMOSOME_II assembly_tag Clone 8885183 8885186 . + . Note "left end: left end of B0457" CHROMOSOME_II assembly_tag Comment 8885458 8885461 . + . Note "edit to TTTC on strength of 169" CHROMOSOME_II assembly_tag comment 8885864 8885865 . - . Note "?" CHROMOSOME_II assembly_tag Comment 8886284 8886290 . + . Note "do yf62a6 as a term to sort out compression and hopefully ds" CHROMOSOME_II assembly_tag comment 8889167 8889170 . + . Note "end of Becky's bit" CHROMOSOME_II assembly_tag Clone 8897134 8897137 . + . Note "right end: right hand end of T07D4" CHROMOSOME_II assembly_tag Finished 8925713 8925716 . + . Note "Left: VT21B10L" CHROMOSOME_II assembly_tag Clone 8925813 8925816 . + . Note "right end: B0457" CHROMOSOME_II assembly_tag Clone 8925813 8925816 . + . Note "right end: right hand end of B0457" CHROMOSOME_II assembly_tag Finished 8925816 8925816 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8928490 8928490 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8928490 8928493 . + . Note "left end: left end of T21B10" CHROMOSOME_II assembly_tag Clone 8928490 8928493 . + . Note "left end: T21B10" CHROMOSOME_II assembly_tag Finished 8928590 8928593 . + . Note "Right: VT21B10L" CHROMOSOME_II assembly_tag annotation 8948497 8948503 . + . Note "?misligation??" CHROMOSOME_II assembly_tag Finished 8960187 8960187 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8960187 8960190 . + . Note "left end: Left hand end of C18E9." CHROMOSOME_II assembly_tag Clone 8960187 8960190 . + . Note "left end: left end of C18E9?" CHROMOSOME_II assembly_tag Finished 8960289 8960289 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8964671 8964674 . + . Note "right end: Right hand end of T21B10." CHROMOSOME_II assembly_tag annotation 8966702 8966702 . + . Note "Point mutation, a single clone has swapped from an A to a G." CHROMOSOME_II assembly_tag annotation 8974717 8974722 . + . Note "BamHI site. The next BamHI site generates a 5.5kb fragment, 450bp smaller than that found from the restriction digest. Within this area there are tandem repeats suggesting there should be a further 4-5 copies of the repeat. Thisgives a total of around 20-21 copies. " CHROMOSOME_II assembly_tag annotation 8975891 8976228 . + . Note "This area in the tandem repeat region is not double stranded or terminated. Position 15816 is either a C or an A." CHROMOSOME_II assembly_tag annotation 8976003 8976003 . + . Note "position 15816 either C or A" CHROMOSOME_II assembly_tag annotation 8976717 8976986 . + . Note "This area in the tandem repeat region is not double stranded or terminated." CHROMOSOME_II assembly_tag annotation 8977702 8977985 . + . Note "A single read to the right of a tandem repeat area, which has been terminated. Identified by screening m13 library with oligos. No further work planned on this region." CHROMOSOME_II assembly_tag annotation 8980261 8980266 . + . Note "BamHI site. This produces a 5551 base size, it should be 6024 in size. There are probably 450 bases missing. Suggesting there should be 4-5 more copies of the tandem repeat." CHROMOSOME_II assembly_tag Clone 8994110 8994113 . + . Note "left end: Left hand end of F44G4." CHROMOSOME_II assembly_tag Clone 8994110 8994113 . + . Note "left end: Left hand end of F44G4." CHROMOSOME_II assembly_tag Finished 8994210 8994210 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9005439 9005442 . + . Note "right end: Right hand end of C18E9." CHROMOSOME_II assembly_tag Clone 9016551 9016554 . + . Note "left end: Left hand end of F37B12." CHROMOSOME_II assembly_tag Clone 9033525 9033528 . + . Note "right end: right end of F44G4" CHROMOSOME_II assembly_tag Finished 9050312 9050312 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9050312 9050315 . + . Note "left end: T24B8" CHROMOSOME_II assembly_tag annotation 9052740 9052808 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 9052808 9052895 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9052895 9052896 . + . CHROMOSOME_II assembly_tag Clone 9056425 9056428 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 9058696 9058816 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9058817 9058886 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9060665 9060905 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag Clone 9061453 9061456 . + . Note "left end: left end of C07H4" CHROMOSOME_II assembly_tag annotation 9063962 9063969 . + . Note "This run go G's is dited according to trace 1443 yg46b9.s1t, this was sequenced using a modified enzyme." CHROMOSOME_II assembly_tag annotation 9066511 9066582 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 9066582 9066654 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9066655 9066938 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9066938 9067172 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9067352 9067670 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9067671 9067951 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9068045 9068301 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9068301 9068606 . + . CHROMOSOME_II assembly_tag annotation 9068607 9068701 . + . CHROMOSOME_II assembly_tag Finished 9088990 9088990 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9089087 9089090 . + . Note "right end: T24B8" CHROMOSOME_II assembly_tag Clone 9089087 9089090 . + . Note "right end: T24B8" CHROMOSOME_II assembly_tag Finished 9089090 9089090 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 9090381 9090410 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag annotation 9091339 9091358 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag annotation 9091363 9091371 . + . Note "11bp covered by single read and it's terminator. A further read from a cosmid pcr covers this region and although the data is not of the highest quality it is in agreement with the sequence." CHROMOSOME_II assembly_tag annotation 9091371 9091487 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9091488 9091722 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9091723 9091749 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9092345 9092549 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9092550 9092617 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9093655 9093718 . + . Note "singles stranded" CHROMOSOME_II assembly_tag annotation 9094906 9095024 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9096742 9096810 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9096943 9096963 . + . CHROMOSOME_II assembly_tag annotation 9096957 9096958 . + . Note "two g's but yg45g6 shows a point mutation " CHROMOSOME_II assembly_tag annotation 9096963 9097113 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9097114 9097201 . + . Note "single stranded" CHROMOSOME_II assembly_tag Finished 9097202 9097202 . + . Note "Left: T24H10" CHROMOSOME_II assembly_tag Clone 9097202 9097205 . + . Note "left end: T24H10" CHROMOSOME_II assembly_tag Clone 9097202 9097205 . + . Note "left end: T24H10" CHROMOSOME_II assembly_tag Finished 9097302 9097302 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9097941 9097944 . + . Note "left end: C16D2" CHROMOSOME_II assembly_tag annotation 9112283 9112283 . + . Note "Point mutation" CHROMOSOME_II assembly_tag Finished 9131770 9131773 . + . Note "Left: C16D2" CHROMOSOME_II assembly_tag Clone 9131866 9131869 . + . Note "right end: T24H10" CHROMOSOME_II assembly_tag Clone 9131866 9131869 . + . Note "right end: T24H10" CHROMOSOME_II assembly_tag Finished 9131869 9131869 . + . Note "Right: T24H10" CHROMOSOME_II assembly_tag Finished 9142657 9142660 . + . Note "Left: Y9C2UA" CHROMOSOME_II assembly_tag Clone 9142753 9142756 . + . Note "right end: C16D2" CHROMOSOME_II assembly_tag Finished 9142753 9142756 . + . Note "Right: C16D2" CHROMOSOME_II assembly_tag Clone 9142753 9142756 . - . Note "right end: C16D2" CHROMOSOME_II assembly_tag Clone 9148592 9148595 . + . Note "left end: W07A12" CHROMOSOME_II assembly_tag Finished 9148688 9148691 . + . Note "Right: Y9C2UA" CHROMOSOME_II assembly_tag Finished 9164715 9164715 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9164715 9164718 . + . Note "left end: left end of T23G7" CHROMOSOME_II assembly_tag Clone 9171320 9171323 . + . Note "right end: rh end of W07A12" CHROMOSOME_II assembly_tag Finished 9184547 9184547 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9184547 9184550 . + . Note "left end: ZK1067" CHROMOSOME_II assembly_tag Clone 9184547 9184550 . + . Note "left end: left end of ZK1067" CHROMOSOME_II assembly_tag Finished 9184648 9184648 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9200576 9200579 . + . Note "right end: right end of T23G7" CHROMOSOME_II assembly_tag Clone 9216158 9216161 . + . Note "left end: left end ofT26C5" CHROMOSOME_II assembly_tag Finished 9227222 9227222 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9227321 9227324 . + . Note "right end: Right hand end of ZK1067." CHROMOSOME_II assembly_tag Clone 9227321 9227324 . + . Note "right end: right end of ZK1067" CHROMOSOME_II assembly_tag Finished 9227324 9227324 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 9248488 9248490 . + . Note "One clone has these 3 bases missing (gtg)." CHROMOSOME_II assembly_tag Finished 9252618 9252621 . + . Note "Left: H32K21" CHROMOSOME_II assembly_tag Clone 9252769 9252772 . + . Note "right end: Right hand end of T26C5." CHROMOSOME_II assembly_tag Clone 9252769 9252772 . + . Note "right end: T26C5" CHROMOSOME_II assembly_tag Finished 9252772 9252772 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9256257 9256260 . + . Note "left end: C01G6" CHROMOSOME_II assembly_tag annotation 9256257 9256265 . + . Note "start of C01G6" CHROMOSOME_II assembly_tag Finished 9256357 9256360 . + . Note "Right: H32K21" CHROMOSOME_II assembly_tag annotation 9275538 9275555 . + . Note "start of C14B2" CHROMOSOME_II assembly_tag annotation 9298449 9298468 . + . Note "end of C01G6" CHROMOSOME_II assembly_tag annotation 9299513 9299530 . + . Note "beginning of D2013" CHROMOSOME_II assembly_tag annotation 9321135 9321164 . + . Note "end of C14B2" CHROMOSOME_II assembly_tag annotation 9340353 9340379 . + . Note "F42A8 starts here" CHROMOSOME_II assembly_tag annotation 9343517 9343538 . + . Note "Overlap with D2013 ends here, and F42A8 unique sequence begins." CHROMOSOME_II assembly_tag annotation 9345386 9345386 . + . Note "Point mutation G on the trace should be an A." CHROMOSOME_II assembly_tag annotation 9347714 9347717 . + . CHROMOSOME_II assembly_tag annotation 9347718 9347735 . + . Note "Base calling not clear, PCR product used to double strand." CHROMOSOME_II assembly_tag annotation 9348130 9348207 . + . Note "Base calling not too clear on +ve PCR product." CHROMOSOME_II assembly_tag annotation 9348363 9348363 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348580 9348580 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348587 9348587 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348617 9348617 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348732 9348744 . + . Note "Of these 13 bases, 7 form a hairpin loop between a 420 base-pair inverted repeat. Despite numerous walks, and a pcr sub-clone, double- stranding is proved impossible." CHROMOSOME_II assembly_tag annotation 9348788 9348788 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348875 9348875 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348877 9348877 . + . Note "Trace differs due to point mutation of PCR subclone." CHROMOSOME_II assembly_tag annotation 9348910 9348910 . + . Note "Base insertion due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9349135 9349136 . + . Note "Ponit mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9351805 9351813 . + . Note "F42A8 unique sequence ends, and overlap with C06C3 begins." CHROMOSOME_II assembly_tag annotation 9361532 9361536 . + . Note "No' of A's differs on this trace. 10 traces show one extra A which is the correct sequence!" CHROMOSOME_II assembly_tag annotation 9378489 9378508 . + . Note "end of F42A8/start of unique C06C3" CHROMOSOME_II assembly_tag annotation 9391443 9391445 . + . Note "3 bases lacking + strand TA repeat region Opposite strand (-) has been terminated" CHROMOSOME_II assembly_tag Finished 9393688 9393691 . + . Note "Left: Y51B9A" CHROMOSOME_II assembly_tag annotation 9393775 9393791 . + . Note "next to YAC bridge, no cosmid overlap" CHROMOSOME_II assembly_tag Clone 9393788 9393791 . + . Note "right end: C06C3" CHROMOSOME_II assembly_tag annotation 9403817 9403871 . + . Note "[ ] Tandem repeat \n[x] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nThis region is covered by a single clone.\nIt is also covered from sonicated small\ninserts taken from this clone.\n" CHROMOSOME_II assembly_tag annotation 9404985 9404987 . + . Note "[ ] Tandem repeat \n[ ] Single clone region \n[x] Forced join \n[ ] Other \nComment\nTandem repeat region. Repeat element is 25bp. BamHI digest suggests that there is approximately 1.5kb of repeat sequence missing from the assembly." CHROMOSOME_II assembly_tag Clone 9409990 9409993 . + . Note "left end: M176" CHROMOSOME_II assembly_tag Clone 9409990 9409993 . + . Note "left end: M176" CHROMOSOME_II assembly_tag annotation 9409990 9409993 . + . Note "START OF M176" CHROMOSOME_II assembly_tag Finished 9410091 9410094 . + . Note "Right: Y51B9A" CHROMOSOME_II assembly_tag Clone 9438106 9438111 . + . Note "left end: R09D1" CHROMOSOME_II assembly_tag Clone 9438106 9438111 . + . Note "left end: Left end of R09D1 " CHROMOSOME_II assembly_tag Finished 9438206 9438209 . + . Note "Right: M176" CHROMOSOME_II assembly_tag Clone 9453303 9453306 . + . Note "right end: Right end of M176 " CHROMOSOME_II assembly_tag annotation 9455634 9455676 . + . Note "Region of poor d.s from 17530 to 17570 (40 bp) but data confirmed by terminator on opposite strand" CHROMOSOME_II assembly_tag annotation 9457841 9457991 . + . Note "Missing - d.s. from 19736 to 19886 bp (about 150bp) but region covered by a terminator. Also region of tandem repeat elements (RcB1 ??)." CHROMOSOME_II assembly_tag annotation 9467631 9467634 . + . Note "beginning of T19H5" CHROMOSOME_II assembly_tag Clone 9467631 9467634 . + . Note "left end: Left end of T19H5. " CHROMOSOME_II assembly_tag annotation 9470494 9470499 . + . Note "pJB8 RH end of R09D1" CHROMOSOME_II assembly_tag annotation 9498343 9498348 . + . Note "beginning of R134" CHROMOSOME_II assembly_tag annotation 9498343 9498348 . + . Note "LH end of R134 pJB8 vector" CHROMOSOME_II assembly_tag annotation 9502850 9502853 . + . Note "end of T19H5" CHROMOSOME_II assembly_tag annotation 9512469 9512472 . + . Note "beginning AH6" CHROMOSOME_II assembly_tag annotation 9512469 9512472 . + . Note "beginning AH6" CHROMOSOME_II assembly_tag annotation 9542491 9542496 . + . Note "end of R134" CHROMOSOME_II assembly_tag annotation 9550157 9550160 . + . Note "beginning of F35H8" CHROMOSOME_II assembly_tag annotation 9550157 9550172 . + . Note "beginning of F35H8" CHROMOSOME_II assembly_tag annotation 9553378 9553402 . + . Note "end of AH6" CHROMOSOME_II assembly_tag annotation 9563105 9563175 . + . Note "poor coverage over this region : unique sequence between 2 elements of a large inverted repeat" CHROMOSOME_II assembly_tag annotation 9563476 9563476 . + . Note "in a single read from a PCR product of an M13 clone, this C is replaced by T" CHROMOSOME_II assembly_tag annotation 9565114 9565127 . + . Note "beginning of E02H1" CHROMOSOME_II assembly_tag annotation 9567559 9567761 . + . Note "poor quality double-stranding data from Taq terminator read (+). Very clear reads on all - strands Part of a large inverted repeat" CHROMOSOME_II assembly_tag annotation 9568187 9568244 . + . Note "58bp of double stranding (-) missing Part of a large inverted repeat (approx 1kb in each half of the repeat)" CHROMOSOME_II assembly_tag annotation 9588536 9588539 . + . Note "end of F35H8 start of unique E02H1" CHROMOSOME_II assembly_tag annotation 9595290 9595293 . + . Note "beginning of T15H9 end of unique E02H1" CHROMOSOME_II assembly_tag annotation 9603014 9603035 . + . Note "end of E02H1" CHROMOSOME_II assembly_tag annotation 9603028 9603031 . + . Note "end of E02H1" CHROMOSOME_II assembly_tag annotation 9622915 9622925 . + . Note "beginning of ZK1307" CHROMOSOME_II assembly_tag cosmid 9629622 9629644 . + . Note "vector: end of T15H9 overlap" CHROMOSOME_II assembly_tag annotation 9630009 9630009 . + . Note "this clone has a T rather than a G" CHROMOSOME_II assembly_tag annotation 9630009 9630009 . + . Note "one clone has T at this position rather than G (2 clones)" CHROMOSOME_II assembly_tag annotation 9631623 9631623 . + . Note "one clone (xc35g3) missing a T in this position" CHROMOSOME_II assembly_tag cosmid 9655907 9655911 . + . Note "vector: " CHROMOSOME_II assembly_tag annotation 9655907 9655930 . + . Note "Beginning of ZK1320" CHROMOSOME_II assembly_tag annotation 9655907 9655930 . + . Note "Beginning of ZK1320" CHROMOSOME_II assembly_tag annotation 9658747 9658762 . + . Note "end of ZK1307" CHROMOSOME_II assembly_tag Finished 9691789 9691792 . + . Note "Left: Y53C12A" CHROMOSOME_II assembly_tag Finished 9691789 9691799 . + . Note "Left: Y53C12A" CHROMOSOME_II assembly_tag Clone 9691892 9691895 . - . Note "right end: ZK1320" CHROMOSOME_II assembly_tag annotation 9699548 9699556 . + . Note "[ ] Tandem repeat \n[ ] Single clone region \n[ ] Forced join \n[ ] Other \nComment\n" CHROMOSOME_II assembly_tag Clone 9715352 9715355 . - . Note "right end: H32E01" CHROMOSOME_II assembly_tag Finished 9718501 9718504 . + . Note "Left: Y53C12D" CHROMOSOME_II assembly_tag Finished 9718501 9718504 . + . Note "Left: Y53C12D" CHROMOSOME_II assembly_tag Finished 9718609 9718617 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag Finished 9718614 9718617 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag Finished 9718614 9718617 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag annotation 9718828 9719617 . + . Note "First select a Feature -[ ] Unsure[X] Misc_featureThen select the text for the note(s) -[ ] Tandem repeat[X] Single clone region[ ] Forced join[ ] OtherAdd a comment here -Sequence determind from a sonicated PUCclone.Base accuracy cannot be guaranteed." CHROMOSOME_II assembly_tag Finished 9719890 9719893 . + . Note "Left: Y53C12B" CHROMOSOME_II assembly_tag Finished 9719890 9719893 . + . Note "Left: Y53C12B" CHROMOSOME_II assembly_tag Finished 9719992 9719996 . - . Note "Right: Y53C12D" CHROMOSOME_II assembly_tag Finished 9719992 9719996 . - . Note "Right: Y53C12D" CHROMOSOME_II assembly_tag annotation 9726096 9726108 . + . Note "single clone. base accuracy cannot\nbe guaranteed." CHROMOSOME_II assembly_tag annotation 9736835 9736836 . - . Note "some clones read 1 T here" CHROMOSOME_II assembly_tag annotation 9753181 9753184 . + . Note "Lorist 6 Beginning of ZK1321 " CHROMOSOME_II assembly_tag Clone 9753181 9753184 . + . Note "left end: ZK1321" CHROMOSOME_II assembly_tag Finished 9753292 9753295 . - . Note "Right: Y53C12B" CHROMOSOME_II assembly_tag Clone 9771909 9771912 . + . Note "left end: Beginning of T10B9" CHROMOSOME_II assembly_tag annotation 9771909 9771913 . + . Note "Lorist 2 Beginning of T10B9" CHROMOSOME_II assembly_tag Clone 9795082 9795085 . + . Note "right end: End of ZK1321" CHROMOSOME_II assembly_tag Finished 9806680 9806685 . + . Note "Left: Y53C12C" CHROMOSOME_II assembly_tag Clone 9806786 9806789 . + . Note "right end: End of T10B9" CHROMOSOME_II assembly_tag Clone 9806786 9806789 . - . Note "right end: T10B9" CHROMOSOME_II assembly_tag annotation 9807874 9825278 . + . Note "271 copies of a tandem repeat - \nun-sized at the moment. base accuracy \ncannot be guarenteed within this\nregion." CHROMOSOME_II assembly_tag Clone 9830179 9830182 . + . Note "left end: ZK938" CHROMOSOME_II assembly_tag Clone 9830179 9830182 . + . Note "left end: Beginning of ZK938" CHROMOSOME_II assembly_tag Finished 9830280 9830286 . - . Note "Right: Y53C12C" CHROMOSOME_II assembly_tag Clone 9831625 9831628 . + . Note "right end: End of ZK1325" CHROMOSOME_II assembly_tag annotation 9839660 9839660 . + . Note "Vague possibility there could be more than one C here, but other reads lead us to believe there is only one C." CHROMOSOME_II assembly_tag annotation 9849580 9849580 . + . Note "In a single clone, there was evidence of a C before this base (T). However, the majority of clones (4 positives and 4 negatives did not have this base)" CHROMOSOME_II assembly_tag Clone 9852049 9852052 . + . Note "left end: Beginning of C08H9" CHROMOSOME_II assembly_tag Clone 9852049 9852052 . + . Note "left end: BEGINNING C08H9" CHROMOSOME_II assembly_tag Clone 9869490 9869493 . + . Note "right end: End of ZK938" CHROMOSOME_II assembly_tag annotation 9894227 9894230 . + . Note "Beginning of F26C11 " CHROMOSOME_II assembly_tag Clone 9894227 9894230 . + . Note "left end: Beginning of F26C11" CHROMOSOME_II assembly_tag annotation 9894227 9894230 . + . Note "Overlap with F26C11" CHROMOSOME_II assembly_tag annotation 9894227 9894230 . + . CHROMOSOME_II assembly_tag annotation 9895275 9895278 . + . Note "End of C08H9, begining of F26C11 unique." CHROMOSOME_II assembly_tag annotation 9916297 9916300 . + . Note "Begining of C05C10, end of unique sequence of F26C11 " CHROMOSOME_II assembly_tag annotation 9916297 9916300 . + . Note "Begining of C05C10" CHROMOSOME_II assembly_tag Clone 9916297 9916300 . + . Note "left end: C05C10" CHROMOSOME_II assembly_tag Clone 9929214 9929217 . + . Note "right end: end of F26C11" CHROMOSOME_II assembly_tag annotation 9931498 9931499 . + . Note "unclear 2 or 3 G's terminate +ve" CHROMOSOME_II assembly_tag Clone 9942459 9942464 . + . Note "left end: R53" CHROMOSOME_II assembly_tag Clone 9942459 9942464 . + . Note "left end: Start of R53 reads. pJB8 vector" CHROMOSOME_II assembly_tag annotation 9955417 9955465 . + . Note "poor d.s. but sequence confirmed by terminator read on other strand" CHROMOSOME_II assembly_tag Clooe 9955955 9955958 . + . Note "right end: End of C05C10 reads." CHROMOSOME_II assembly_tag annotation 9966276 9966311 . + . Note "no -ve d.s 23218 to 23255 (37bp) see +ve term to confirm" CHROMOSOME_II assembly_tag annotation 9970719 9970756 . + . Note "poor quality d.s. but confirmed by terminator on other strand (approx 40bp)" CHROMOSOME_II assembly_tag repeat 9975324 9975325 . + . CHROMOSOME_II assembly_tag repeat 9975364 9975365 . + . CHROMOSOME_II assembly_tag Clone 9977598 9977601 . + . Note "left end: Start of ZK892" CHROMOSOME_II assembly_tag Clone 9977598 9977601 . + . Note "left end: Beginning of ZK892" CHROMOSOME_II assembly_tag Clone 9985158 9985163 . + . Note "right end: End of R53" CHROMOSOME_II assembly_tag annotation 9985731 9985742 . + . Note "edited to highest number of T's" CHROMOSOME_II assembly_tag annotation 10004952 10004952 . + . Note "Only 2 clones over this region. xd92f2 says C xd93a11 says T PCR of ZK892 cosmid DNA says T" CHROMOSOME_II assembly_tag Clone 10008684 10008687 . + . Note "left end: Beginning of F52H3" CHROMOSOME_II assembly_tag Clone 10008684 10008687 . + . Note "left end: beginning of F52H3" CHROMOSOME_II assembly_tag Clone 10016082 10016085 . + . Note "right end: end of ZK892" CHROMOSOME_II assembly_tag annotation 10018986 10018997 . + . Note "This region (12bp) not d.s. and covered by only one clone. Available read is terminated. This region was deleted from two other M13 clones. Size confirmed by cosmid and genomic PCRs." CHROMOSOME_II assembly_tag annotation 10019007 10019089 . + . Note "This region (10324bp to 10405bp = approx 75bp) is not double-stranded and is covered by only one clone (which has been terminated). This is in the middle of an inverted repeat region and was found to be deleted in two other M13 clones. The size across the inverted repeat region was confirmed by cosmid and genomic PCRs using oligo pairs from outside the repeat region and inside the unique 'loop' of the repeat." CHROMOSOME_II assembly_tag annotation 10022787 10022989 . + . Note "F52H3 : tandem repeats approx 13 copies of a 95mer Starts at 14104 bp CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGTTTAAAG CTGGCCCACAGTTTCCAAGAGAGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGATTAAAG CTGGCCCACAGTTTCAAAGAGTGTTCGGGCCTGCGgccCTCTAAC CTGGTTGGTAGGCTTGAGTGTACAACAGCATGCTTGAAATAAGATTATAA CCAGCTCACAGTTTCCAAGAGTGTTTGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGgcCcTCAAAC CTGGTTGGTACGCCTGAGCgAATAACAATCTGCTTTGAATTGGTTTAAAG CTGGCCCACAGTTTCCAAGAGTGTTCGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTgGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTgGGCCTGCGgCccTcAAAC CTGGTTGGTAGGCTTgAGCGAATAACAATCTGcTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGTtCGggcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTtgGgcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAaAG CTGGCCCACAGTTTCCAAGAGaGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGAtTAAAg CCAGCCCAGTTTCCAAGAGTAtTTGGGCCTGCGGCCCTCAAAC CTGGTTGgTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGtTcggGcctGCGGCCCTCAAAC CTGGTTGGTAGGcTTGAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGGCCCTCAAAC CTGGTTGGTACGCTTGAGCGAATAACAATCTGCTTTGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATtTGGGCCTGCGGCCCTCAAAC CTGGCTGGTAGGCTTGAGAAAATAACAATCTGCTTTGAATAGGTTTAaAG CTGGcCCACAGtTTCCAAGATTGTTCCCTCAAAC CTGGTTGTTGGCTTAGAAT Finishes at around 15430 bp Size confirmed by cosmid and genomic PCRs." CHROMOSOME_II assembly_tag annotation 10022989 10023298 . + . Note "F52H3 : tandem repeats approx 13 copies of a 95mer Starts at 14104 bp CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGTTTAAAG CTGGCCCACAGTTTCCAAGAGAGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGATTAAAG CTGGCCCACAGTTTCAAAGAGTGTTCGGGCCTGCGgccCTCTAAC CTGGTTGGTAGGCTTGAGTGTACAACAGCATGCTTGAAATAAGATTATAA CCAGCTCACAGTTTCCAAGAGTGTTTGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGgcCcTCAAAC CTGGTTGGTACGCCTGAGCgAATAACAATCTGCTTTGAATTGGTTTAAAG CTGGCCCACAGTTTCCAAGAGTGTTCGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTgGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTgGGCCTGCGgCccTcAAAC CTGGTTGGTAGGCTTgAGCGAATAACAATCTGcTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGTtCGggcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTtgGgcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAaAG CTGGCCCACAGTTTCCAAGAGaGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGAtTAAAg CCAGCCCAGTTTCCAAGAGTAtTTGGGCCTGCGGCCCTCAAAC CTGGTTGgTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGtTcggGcctGCGGCCCTCAAAC CTGGTTGGTAGGcTTGAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGGCCCTCAAAC CTGGTTGGTACGCTTGAGCGAATAACAATCTGCTTTGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATtTGGGCCTGCGGCCCTCAAAC CTGGCTGGTAGGCTTGAGAAAATAACAATCTGCTTTGAATAGGTTTAaAG CTGGcCCACAGtTTCCAAGATTGTTCCCTCAAAC CTGGTTGTTGGCTTAGAAT Finishes at around 15430 bp Size confirmed by cosmid and genomic PCRs." CHROMOSOME_II assembly_tag annotation 10023299 10023721 . + . Note "F52H3 : tandem repeats approx 13 copies of a 95mer Starts at 14104bp CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGTTTAAAG CTGGCCCACAGTTTCCAAGAGAGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGATTAAAG CTGGCCCACAGTTTCAAAGAGTGTTCGGGCCTGCGgccCTCTAAC CTGGTTGGTAGGCTTGAGTGTACAACAGCATGCTTGAAATAAGATTATAA CCAGCTCACAGTTTCCAAGAGTGTTTGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGgcCcTCAAAC CTGGTTGGTACGCCTGAGCgAATAACAATCTGCTTTGAATTGGTTTAAAG CTGGCCCACAGTTTCCAAGAGTGTTCGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTgGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTgGGCCTGCGgCccTcAAAC CTGGTTGGTAGGCTTgAGCGAATAACAATCTGcTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGTtCGggcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTtgGgcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAaAG CTGGCCCACAGTTTCCAAGAGaGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGAtTAAAg CCAGCCCAGTTTCCAAGAGTAtTTGGGCCTGCGGCCCTCAAAC CTGGTTGgTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGtTcggGcctGCGGCCCTCAAAC CTGGTTGGTAGGcTTGAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGGCCCTCAAAC CTGGTTGGTACGCTTGAGCGAATAACAATCTGCTTTGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATtTGGGCCTGCGGCCCTCAAAC CTGGCTGGTAGGCTTGAGAAAATAACAATCTGCTTTGAATAGGTTTAaAG CTGGcCCACAGtTTCCAAGATTGTTCCCTCAAAC CTGGTTGTTGGCTTAGAAT Finishes at around 15430bp Size confirmed by cosmid and genomic PCRs" CHROMOSOME_II assembly_tag annotation 10023720 10023776 . + . Note "Region of poor d.s. (+) but sequence confirmed by terminator on opposite strand (14740 to 14790 bp : 50bp). Also : this is in the middle of a set of tandem repeats covering approx 2kb." CHROMOSOME_II assembly_tag annotation 10023721 10024112 . + . Note "F52H3 : tandem repeats approx 13 copies of a 95mer Starts at 14104 bp CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGTTTAAAG CTGGCCCACAGTTTCCAAGAGAGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATATACTTGGAATAGGATTAAAG CTGGCCCACAGTTTCAAAGAGTGTTCGGGCCTGCGgccCTCTAAC CTGGTTGGTAGGCTTGAGTGTACAACAGCATGCTTGAAATAAGATTATAA CCAGCTCACAGTTTCCAAGAGTGTTTGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGgcCcTCAAAC CTGGTTGGTACGCCTGAGCgAATAACAATCTGCTTTGAATTGGTTTAAAG CTGGCCCACAGTTTCCAAGAGTGTTCGGGCCTGCGgccCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTgGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTgGGCCTGCGgCccTcAAAC CTGGTTGGTAGGCTTgAGCGAATAACAATCTGcTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGTtCGggcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTtgGgcctGCGGCCCTCAAAC CTGGTTGGTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAaAG CTGGCCCACAGTTTCCAAGAGaGTTCGGGCCTGCGGCCCTCAAAC CTGGTTGGTAGGCTTAAGCGAATAACAATCTGCTTGGAATAGGAtTAAAg CCAGCCCAGTTTCCAAGAGTAtTTGGGCCTGCGGCCCTCAAAC CTGGTTGgTAGGCTTGAGCGAATAACAATCTGCTTGGAACAGGATTAAAG CTGGCCCACAGTTTCCAAGAGTGtTcggGcctGCGGCCCTCAAAC CTGGTTGGTAGGcTTGAGCGAATAACAATCTGCTTGGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATTTGGGCCTGCGGCCCTCAAAC CTGGTTGGTACGCTTGAGCGAATAACAATCTGCTTTGAATAGGATTAAAG CCAGCCCAGTTTCCAAGAGTATtTGGGCCTGCGGCCCTCAAAC CTGGCTGGTAGGCTTGAGAAAATAACAATCTGCTTTGAATAGGTTTAaAG CTGGcCCACAGtTTCCAAGATTGTTCCCTCAAAC CTGGTTGTTGGCTTAGAAT Finishes at around 15430 bp. Size confirmed by cosmid and genomic PCRs." CHROMOSOME_II assembly_tag annotation 10033289 10033290 . + . Note "A single M13 read was missing 2bp (CA) All other reads (5 +/6-) agree" CHROMOSOME_II assembly_tag annotation 10051216 10051219 . + . Note "beginning of C18D1" CHROMOSOME_II assembly_tag Clone 10051216 10051219 . + . Note "left end: beginning of C18D1" CHROMOSOME_II assembly_tag annotation 10053193 10053196 . + . Note "end of F52H3" CHROMOSOME_II assembly_tag annotation 10056826 10056831 . + . Note "most M13 clones have only 2 copies of the TAC repeat (4 negative and 3 positive clones). A single clone had 3 copies of TAC : possibly an M13 cloning error (terminator reactions confirmed original reads)" CHROMOSOME_II assembly_tag Clone 10093422 10093425 . + . Note "left end: Start of ZK945. " CHROMOSOME_II assembly_tag annotation 10093422 10093425 . + . Note "beginning of ZK945" CHROMOSOME_II assembly_tag annotation 10093517 10093531 . + . Note "?edit to here" CHROMOSOME_II assembly_tag Clone 10095497 10095500 . + . Note "right end: end of C18D1" CHROMOSOME_II assembly_tag annotation 10105260 10105279 . + . Note "no +ve d.s from 11838 to 11859. refer to -ve terms for confirmation." CHROMOSOME_II assembly_tag Clone 10121302 10121305 . + . Note "left end: start of F27E5 " CHROMOSOME_II assembly_tag annotation 10121302 10121306 . + . Note "Lorist 6 LH end of F27E5" CHROMOSOME_II assembly_tag annotation 10130179 10130183 . + . Note "pJB8 RH end ZK945" CHROMOSOME_II assembly_tag Clone 10150957 10150960 . + . Note "left end: beginning of F33H1" CHROMOSOME_II assembly_tag annotation 10150957 10150965 . + . Note "Lorist 6 LH end of F33H1" CHROMOSOME_II assembly_tag Clone 10159157 10159160 . + . Note "right end: end of F27E5" CHROMOSOME_II assembly_tag Clone 10183644 10183649 . + . Note "left end: left hand end of R05H5" CHROMOSOME_II assembly_tag Clone 10183644 10183649 . + . Note "left end: beginning of R05H5" CHROMOSOME_II assembly_tag Clone 10190755 10190758 . + . Note "right end: right hand end of F33H1" CHROMOSOME_II assembly_tag sequencing 10199036 10199037 . - . Note "vector: " CHROMOSOME_II assembly_tag annotation 10205800 10205878 . + . Note "Double stranding in the unique loop of an inverted repeat. The elements are bases 21665 - 22067 and 22272 - 22623. (The first element has a unique part at bases 21728 to 21771)." CHROMOSOME_II assembly_tag ambiguous 10205804 10205811 . + . CHROMOSOME_II assembly_tag annotation 10205879 10205892 . + . CHROMOSOME_II assembly_tag Clone 10207730 10207733 . + . Note "left end: left hand end of T01E8" CHROMOSOME_II assembly_tag Clone 10207730 10207733 . + . Note "left end: left hand end of T01E8" CHROMOSOME_II assembly_tag annotation 10208171 10208179 . + . Note "all T01E8 reads show AAGA but all R05H5 stolen reads show AAA. There is a gene predicted in this region and it is consistent with there being a G present" CHROMOSOME_II assembly_tag Clone 10220375 10220380 . + . Note "right end: right hand end of R05H5" CHROMOSOME_II assembly_tag annotation 10240577 10240623 . + . Note "no +ve strand data for double stranding -ve strand terminated from base 32850 to 32879" CHROMOSOME_II assembly_tag annotation 10245505 10245563 . + . Note "no +ve strand bases 37776 - 37834 terminated on -ve strand" CHROMOSOME_II assembly_tag Clone 10245757 10245760 . + . Note "left end: left hand end of F54B3" CHROMOSOME_II assembly_tag annotation 10245757 10245760 . + . Note "left hand end of F54B3" CHROMOSOME_II assembly_tag annotation 10248401 10248404 . + . Note "?right hand end of T01E8 at 2648" CHROMOSOME_II assembly_tag Clone 10278856 10278859 . + . Note "left end: beginning of ZK971" CHROMOSOME_II assembly_tag annotation 10278856 10278859 . + . Note "left hand end of ZK971 at 33103" CHROMOSOME_II assembly_tag ignore 10278892 10278896 . + . Note "cutoff (cloning vector): Cosmid sequence 299..528" CHROMOSOME_II assembly_tag ignore 10279046 10279050 . + . Note "cutoff (cloning vector): Cosmid sequence 292..556" CHROMOSOME_II assembly_tag ignore 10279104 10279108 . + . Note "cutoff (cloning vector): Cosmid sequence 352..704" CHROMOSOME_II assembly_tag ignore 10282369 10282373 . + . Note "cutoff (sequencing vector): Sequencing vector starts at 249" CHROMOSOME_II assembly_tag annotation 10285223 10285223 . + . Note "Clearly a C in this clone. All Ts in other clones (3 -/3+)" CHROMOSOME_II assembly_tag annotation 10285559 10285562 . + . CHROMOSOME_II assembly_tag Clone 10285559 10285562 . + . Note "right end: End of F54B3" CHROMOSOME_II assembly_tag annotation 10286026 10286029 . + . CHROMOSOME_II assembly_tag annotation 10286026 10286029 . + . CHROMOSOME_II assembly_tag Clone 10286026 10286029 . + . Note "left end: Beginning of ZK970" CHROMOSOME_II assembly_tag Clone 10286026 10286029 . + . Note "left end: Beginning of ZK970" CHROMOSOME_II assembly_tag annotation 10302009 10302028 . + . Note "23154 to 23173 (19 bp) not d.s. (+ clone goes into vector). Sequence confirmed by terminator on - strand." CHROMOSOME_II assembly_tag annotation 10304649 10304793 . + . Note "25793 to 25937 bp poor d.s. (144bp) but sequence confirmed by terminator on opposite strand" CHROMOSOME_II assembly_tag annotation 10304866 10304882 . + . Note "26010 to 26026 bp not d.s. (16bp) Sequence confirmed by terminators on opposite strand" CHROMOSOME_II assembly_tag annotation 10307062 10307193 . + . Note "28206 to 28337 bp poor d.s. (131 bp) but sequence confirmed by terminators on opposite strand" CHROMOSOME_II assembly_tag Clone 10312407 10312410 . + . Note "right end: End of ZK971" CHROMOSOME_II assembly_tag annotation 10312407 10312410 . + . CHROMOSOME_II assembly_tag annotation 10312411 10312458 . + . Note "not double stranded because no template available but sequence checked by terminating other strand 33563 to 33610bp (=47bp)" CHROMOSOME_II assembly_tag Finished 10315001 10315004 . + . Note "Left: M02G9" CHROMOSOME_II assembly_tag Clone 10315001 10315004 . + . Note "left end: M02G9" CHROMOSOME_II assembly_tag Clone 10319292 10319295 . + . Note "right end: ZK970" CHROMOSOME_II assembly_tag Clone 10319292 10319295 . + . Note "right end: End of ZK970" CHROMOSOME_II assembly_tag annotation 10335934 10336335 . + . Note "Tandem repeat 1\n26 bp\n3.9kb is missing from this repeat\n(approx 150 copies)" CHROMOSOME_II assembly_tag annotation 10336337 10339342 . + . Note "Tandem repeat 2\n223bp\n4.3kb is missing from this repeat\n(approx 19 copies)" CHROMOSOME_II assembly_tag Finished 10339987 10339990 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 10340087 10340090 . + . Note "right end: M02G9 clone right end" CHROMOSOME_II assembly_tag Finished 10340087 10340090 . + . Note "Right: M02G9" CHROMOSOME_II assembly_tag Clone 10340087 10340090 . + . Note "right end: M02G9" CHROMOSOME_II assembly_tag annotation 10341097 10341097 . + . Note "This base has been edited to a G as the\nspacing on the two pcr walks suggests\nthat the true alignment at this position is a G and not the A. This reading also agrees with the subclone." CHROMOSOME_II assembly_tag annotation 10341109 10341109 . + . Note "True alignments of the reads at this position suggests that this is TA which agrees with the sequnce of the subclone" CHROMOSOME_II assembly_tag Clone 10342811 10342814 . + . Note "left end: C07E3 clone left end" CHROMOSOME_II assembly_tag Clone 10342811 10342814 . + . Note "left end: Start of C07E3" CHROMOSOME_II assembly_tag Finished 10342911 10342914 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 10354623 10354667 . + . Note "45 bases not double stranded with +ve read. Negative strand terminated to confirm sequence." CHROMOSOME_II assembly_tag annotation 10374893 10374959 . + . Note "This region not completely d.s. because of run of Gs (probably 22bp) preventing - d.s. from 32083 to 32133 (50bp) and + d.s. from 32153 to 32233 (80bp) In both cases, sequence confirmed by terminators on opposite strand" CHROMOSOME_II assembly_tag annotation 10374960 10375042 . + . Note "This region not completely d.s. because of run of Gs (probably 22bp) preventing - d.s. from 32083 to 32133 (50 bp) and + d.s. from 32153 to 32233 (80 bp). In both cases, sequence confirmed by terminators on opposite strand." CHROMOSOME_II assembly_tag Clone 10386523 10386526 . + . Note "left end: Begining of T09F3" CHROMOSOME_II assembly_tag Clone 10386523 10386526 . + . Note "left end: Beginning of T09F3" CHROMOSOME_II assembly_tag annotation 10386623 10386626 . + . Note "End of edit?!?!!!" CHROMOSOME_II assembly_tag Clone 10386870 10386873 . + . Note "right end: End of C07E3" CHROMOSOME_II assembly_tag annotation 10399316 10399316 . + . Note "No C on one clone, but present on 14 other clones" CHROMOSOME_II assembly_tag Clone 10410513 10410516 . + . Note "left end: left hand end of E04D5" CHROMOSOME_II assembly_tag Clone 10410513 10410516 . + . Note "left end: Beginning of E04D5" CHROMOSOME_II assembly_tag Finished 10410513 10410516 . + . Note "Left: E04D5" CHROMOSOME_II assembly_tag Clone 10421921 10421924 . + . Note "right end: right hand end of T09F3" CHROMOSOME_II assembly_tag Clone 10441949 10441952 . + . Note "left end: left hand end of ZK673" CHROMOSOME_II assembly_tag annotation 10441949 10441952 . + . Note "left hand end of ZK673" CHROMOSOME_II assembly_tag Finished 10442045 10442048 . + . Note "Right: E04D5" CHROMOSOME_II assembly_tag annotation 10444055 10444058 . + . Note "right hand end of E04D5" CHROMOSOME_II assembly_tag annotation 10469388 10469391 . + . Note "beginning of left hand end of ZK666" CHROMOSOME_II assembly_tag Clone 10469388 10469391 . + . Note "left end: start of ZK666 " CHROMOSOME_II assembly_tag Clone 10478577 10478580 . + . Note "right end: end of ZK673 " CHROMOSOME_II assembly_tag annotation 10487389 10487400 . + . Note "no +ve d.s from 18008 to 18021 refer to -ve terms to confirm d.s" CHROMOSOME_II assembly_tag Clone 10499876 10499879 . + . Note "left end: start of F59B10" CHROMOSOME_II assembly_tag annotation 10499876 10499879 . + . Note "End of F59B10?" CHROMOSOME_II assembly_tag Clone 10499876 10499880 . + . Note "left end: Beginning of F59B10" CHROMOSOME_II assembly_tag annotation 10500802 10500805 . + . Note "Edited using positive terminator" CHROMOSOME_II assembly_tag annotation 10501017 10501017 . + . Note "T missing on one clone, but present in ten other clones" CHROMOSOME_II assembly_tag annotation 10506212 10506212 . + . Note "T missing in one clone, but present in nine other clones" CHROMOSOME_II assembly_tag annotation 10506484 10506493 . + . Note "Majority of reads (10 reads) say 10 T's but one read (xg30a4) says 11 T's" CHROMOSOME_II assembly_tag Clone 10507444 10507447 . + . Note "right end: End of ZK666" CHROMOSOME_II assembly_tag Clone 10527198 10527203 . + . Note "left end: Start of R166" CHROMOSOME_II assembly_tag Clone 10527198 10527204 . + . Note "left end: Left end of R166." CHROMOSOME_II assembly_tag Clone 10527198 10527204 . + . Note "left end: Beginning of R166" CHROMOSOME_II assembly_tag annotation 10532044 10532080 . + . Note "Terminator read to cover 39 bases of double-stranding???" CHROMOSOME_II assembly_tag annotation 10537849 10537899 . + . Note "Terminator to confirm double stranding for 39 base pairs!!!" CHROMOSOME_II assembly_tag Clone 10539387 10539390 . + . Note "right end: F59B10" CHROMOSOME_II assembly_tag Clone 10539387 10539390 . + . Note "right end: End of F59B10" CHROMOSOME_II assembly_tag annotation 10554666 10554741 . + . Note "Region of about 90bp covered by data from only one clone (F + R, both terminator reactions) but sequence confirmed from cut-off data of reads xg44f8.r1L and xg45a8.s1t." CHROMOSOME_II assembly_tag Clone 10559108 10559111 . + . Note "left end: left hand end of C06A1" CHROMOSOME_II assembly_tag Clone 10559108 10559111 . + . Note "left end: Start of C06A1" CHROMOSOME_II assembly_tag Clone 10562272 10562277 . + . Note "right end: right hand end of R166" CHROMOSOME_II assembly_tag annotation 10564788 10564846 . + . Note "bases 5681 to 5739 are single stranded but terminated on +ve strand" CHROMOSOME_II assembly_tag Clone 10579759 10579762 . + . Note "left end: left hand end of C14A4" CHROMOSOME_II assembly_tag Clone 10579759 10579762 . + . Note "left end: left hand end of C14A4" CHROMOSOME_II assembly_tag annotation 10594728 10594777 . + . Note "-ve strand has poor quality data so +ve strand has been terminated bases 14970 - 15019" CHROMOSOME_II assembly_tag Clone 10599032 10599035 . + . Note "right end: right hand end of C06A1" CHROMOSOME_II assembly_tag annotation 10618611 10618650 . + . Note "-ve strand missing - replaced by terminator on +ve strand covering bases 38853 - 38892" CHROMOSOME_II assembly_tag Clone 10619442 10619445 . + . Note "left end: left hand end of M28" CHROMOSOME_II assembly_tag Clone 10619442 10619445 . + . Note "left end: Start of M28" CHROMOSOME_II assembly_tag comment 10622998 10623005 . + . Note "?" CHROMOSOME_II assembly_tag annotation 10624820 10624823 . + . CHROMOSOME_II assembly_tag Clone 10624820 10624823 . + . Note "right end: End of C14A4" CHROMOSOME_II assembly_tag comment 10625893 10625898 . + . Note "?" CHROMOSOME_II assembly_tag comment 10635969 10635974 . + . Note "?" CHROMOSOME_II assembly_tag comment 10637114 10637120 . + . Note "?" CHROMOSOME_II assembly_tag comment 10648064 10648067 . + . Note "?" CHROMOSOME_II assembly_tag Clone 10659607 10659610 . + . Note "left end: Start of D2089" CHROMOSOME_II assembly_tag annotation 10659607 10659622 . + . CHROMOSOME_II assembly_tag cosmid 10659607 10659622 . + . Note "vector: Beginning of D2089" CHROMOSOME_II assembly_tag annotation 10678803 10678814 . + . Note "This clone is missing TG with respect to the others in this well covered region. I couldn't do a terminator reaction on the clone as the second prep wasn't the same (!)" CHROMOSOME_II assembly_tag annotation 10694238 10694253 . + . Note "beginning of C09G5" CHROMOSOME_II assembly_tag annotation 10694239 10694255 . + . CHROMOSOME_II assembly_tag cosmid 10694239 10694255 . + . Note "vector: Beginning of C09G5" CHROMOSOME_II assembly_tag annotation 10698806 10698820 . + . Note "D2089" CHROMOSOME_II assembly_tag annotation 10698806 10698820 . + . Note "D2089 end" CHROMOSOME_II assembly_tag annotation 10723819 10723822 . + . Note "left C52A11" CHROMOSOME_II assembly_tag annotation 10723823 10723832 . + . Note "start of overlap with C52A11" CHROMOSOME_II assembly_tag annotation 10739668 10739671 . + . Note "right C09G5" CHROMOSOME_II assembly_tag annotation 10765776 10765779 . + . Note "left T19E10" CHROMOSOME_II assembly_tag annotation 10765776 10765783 . + . Note "Left end of T19E10" CHROMOSOME_II assembly_tag annotation 10767263 10767273 . + . Note "R end of John's C52A11" CHROMOSOME_II assembly_tag annotation 10779201 10779269 . + . Note "Gap in M13 clones. Attempted 3 times. Checked with John Sulston, if a gene is found, more work will be done." CHROMOSOME_II assembly_tag annotation 10785141 10785144 . + . CHROMOSOME_II assembly_tag annotation 10785141 10785145 . + . Note "Start of R06F6" CHROMOSOME_II assembly_tag annotation 10785141 10785151 . + . Note "Left end of R06F6" CHROMOSOME_II assembly_tag annotation 10785144 10785145 . - . CHROMOSOME_II assembly_tag annotation 10803644 10803649 . + . Note "?end of T19E10" CHROMOSOME_II assembly_tag Finished 10826487 10826492 . + . Note "Left: VM106R" CHROMOSOME_II assembly_tag annotation 10826587 10826592 . + . Note "?end of R06F6 PJB8" CHROMOSOME_II assembly_tag Clone 10826587 10826592 . + . Note "right end: R06F6" CHROMOSOME_II assembly_tag annotation 10831034 10831077 . + . Note "[ ] Tandem repeat \n[X] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nThis region contains only reads fom a sonicated library of puc clone sx96f3." CHROMOSOME_II assembly_tag Clone 10831347 10831350 . + . Note "left end: M106" CHROMOSOME_II assembly_tag annotation 10831347 10831360 . + . Note "start of M106 - left hand end, no overlap with R06F6" CHROMOSOME_II assembly_tag Finished 10831448 10831451 . + . Note "Right: VM106R" CHROMOSOME_II assembly_tag annotation 10832450 10832466 . + . Note "unable to -ve double strand. From 1104 - 1120" CHROMOSOME_II assembly_tag annotation 10832586 10832607 . + . Note "unable to -ve double strand. From:- 1240 - 1261" CHROMOSOME_II assembly_tag annotation 10832748 10832825 . + . Note "unable to -ve double strand. From 1402 to 1483" CHROMOSOME_II assembly_tag annotation 10832825 10832829 . + . CHROMOSOME_II assembly_tag annotation 10844208 10844224 . + . Note "17 g's" CHROMOSOME_II assembly_tag annotation 10844220 10844220 . + . CHROMOSOME_II assembly_tag annotation 10844221 10844253 . + . Note "unable to get through the g's, I have determined 17 g's. also unable to +ve double strand." CHROMOSOME_II assembly_tag annotation 10844253 10844256 . + . CHROMOSOME_II assembly_tag annotation 10871219 10871228 . + . CHROMOSOME_II assembly_tag annotation 10871219 10871232 . + . Note "Start of F59E10" CHROMOSOME_II assembly_tag annotation 10873226 10873238 . + . Note "rgt end of M106" CHROMOSOME_II assembly_tag annotation 10879143 10879154 . + . Note "left end of F44F4" CHROMOSOME_II assembly_tag ignore 10879147 10879151 . + . Note "cutoff (cloning vector): Lorist6 " CHROMOSOME_II assembly_tag annotation 10879147 10879156 . + . Note "Left end of F44F4" CHROMOSOME_II assembly_tag annotation 10881907 10881960 . + . Note "Poor quality negative read, backed up by 5 positive terminators. (Neg attempted >5 times)." CHROMOSOME_II assembly_tag annotation 10909331 10909339 . + . Note "Right end of F59E10" CHROMOSOME_II assembly_tag ignore 10909335 10909339 . + . Note "cutoff (cloning vector): Lorist6 " CHROMOSOME_II assembly_tag Finished 10919140 10919143 . + . Note "Left: Y19D2B" CHROMOSOME_II assembly_tag annotation 10919236 10919240 . + . Note "Right end of F44F4" CHROMOSOME_II assembly_tag annotation 10919237 10919240 . + . Note "Right end of F44F4" CHROMOSOME_II assembly_tag Clone 10919237 10919239 . - . Note "right end: F44F4" CHROMOSOME_II assembly_tag Clone 10924316 10924321 . + . Note "left end: R03D7" CHROMOSOME_II assembly_tag annotation 10924316 10924342 . + . CHROMOSOME_II assembly_tag Finished 10924412 10924415 . - . Note "Right: Y19D2B" CHROMOSOME_II assembly_tag annotation 10946716 10946730 . + . Note "This clone reads 14 T's whereas the other three read 15. The consensus reads 15." CHROMOSOME_II assembly_tag annotation 10955231 10955249 . + . Note "Start of C09D8" CHROMOSOME_II assembly_tag annotation 10967662 10967681 . + . Note "?End of R03D7" CHROMOSOME_II assembly_tag annotation 10967677 10967682 . + . Note "Right end of R03D7. " CHROMOSOME_II assembly_tag Clone 10967677 10967682 . + . Note "right end: Right end of R03D7. Start of C09D8 edit." CHROMOSOME_II assembly_tag Clone 10980093 10980096 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 10980093 10980096 . + . Note "left end: Point where F38A3 begins." CHROMOSOME_II assembly_tag annotation 11000651 11000654 . + . Note "Right end of C09D8. No overlap" CHROMOSOME_II assembly_tag Clone 11000651 11000654 . + . Note "right end: Right end of C09D8" CHROMOSOME_II assembly_tag Clone 11000651 11000654 . + . Note "right end: Right end of C09D8. Overlap with F38A3. " CHROMOSOME_II assembly_tag annotation 11001789 11001795 . + . Note "Not entered into read even though called" CHROMOSOME_II assembly_tag annotation 11005568 11005585 . + . Note "I think that there are 18 Gs here, but there may be 17 Gs followed by a C" CHROMOSOME_II assembly_tag annotation 11005592 11005621 . + . CHROMOSOME_II assembly_tag annotation 11006269 11006273 . + . Note "This clone has a C missing wrt the others" CHROMOSOME_II assembly_tag annotation 11006608 11006610 . + . CHROMOSOME_II assembly_tag Clone 11013524 11013527 . + . Note "left end: Start of F33A8" CHROMOSOME_II assembly_tag Finished 11021005 11021008 . + . Note "Left: F33A8" CHROMOSOME_II assembly_tag Clone 11021105 11021108 . + . Note "right end: End of F38A3" CHROMOSOME_II assembly_tag Clone 11021105 11021108 . + . Note "right end: F38A3" CHROMOSOME_II assembly_tag Finished 11051683 11051686 . + . Note "Left: VF45E10L\n" CHROMOSOME_II assembly_tag Clone 11051783 11051786 . + . Note "right end: F33A8" CHROMOSOME_II assembly_tag Finished 11051783 11051786 . + . Note "Right: F33A8" CHROMOSOME_II assembly_tag Clone 11051783 11051786 . + . Note "right end: F33A8" CHROMOSOME_II assembly_tag annotation 11053616 11053616 . + . Note "start of F45E10" CHROMOSOME_II assembly_tag Clone 11053616 11053619 . + . Note "left end: F45E10\n" CHROMOSOME_II assembly_tag Finished 11053616 11053619 . + . Note "Left: F45E10" CHROMOSOME_II assembly_tag Clone 11053616 11053619 . + . Note "left end: F45E10" CHROMOSOME_II assembly_tag Finished 11053716 11053719 . + . Note "Right: VF45E10L" CHROMOSOME_II assembly_tag Clone 11071440 11071443 . + . Note "left end: left end CO9H10" CHROMOSOME_II assembly_tag Clone 11071440 11071443 . + . Note "left end: C09H10" CHROMOSOME_II assembly_tag annotation 11071440 11071463 . - . Note "start of C09H10" CHROMOSOME_II assembly_tag Finished 11071540 11071543 . + . Note "Right: F45E10" CHROMOSOME_II assembly_tag Clone 11091068 11091071 . + . Note "right end: right end of F45E10" CHROMOSOME_II assembly_tag annotation 11092577 11092644 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11092645 11092720 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11093915 11093916 . + . Note "this reading calls 2 T's" CHROMOSOME_II assembly_tag annotation 11094614 11094621 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11094622 11094694 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096642 11096681 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096682 11096759 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096760 11096814 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11097590 11097607 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11098604 11098612 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11098613 11098689 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099335 11099362 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099363 11099406 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099407 11099436 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099437 11099515 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099583 11099637 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099638 11099673 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099674 11099751 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099752 11099769 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099903 11099942 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099943 11099990 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099991 11100029 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11104002 11104009 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11104009 11104047 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105752 11105770 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105771 11105848 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105849 11105926 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105927 11105965 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11110766 11110822 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11110823 11110861 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11111358 11111411 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag Clone 11111540 11111547 . + . Note "left end: apparently the end of an overlap with W01C6" CHROMOSOME_II assembly_tag Clone 11111542 11111547 . + . Note "left end: left end of W10C6\nThis is a NOT1 site in Lorist 4" CHROMOSOME_II assembly_tag Finished 11111542 11111547 . + . Note "Left: " CHROMOSOME_II assembly_tag annotation 11111828 11111892 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag Clone 11111889 11111892 . + . Note "right end: right end of\nC09H10" CHROMOSOME_II assembly_tag Clone 11111889 11111892 . + . Note "right end: Right end C09H10" CHROMOSOME_II assembly_tag annotation 11121492 11121492 . + . CHROMOSOME_II assembly_tag annotation 11122467 11122726 . + . Note "runs of Ts and As deleted in some\nclones. This version is the longest\nassembly, and agrees with the\nrestriction digest fragment in length." CHROMOSOME_II assembly_tag Clone 11125179 11125182 . + . Note "left end: left end F40F8" CHROMOSOME_II assembly_tag Finished 11125179 11125182 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11125179 11125182 . - . Note "left end: end of overlap with F40F8" CHROMOSOME_II assembly_tag Clone 11125179 11125182 . - . Note "left end: F40F8 left end" CHROMOSOME_II assembly_tag Clone 11125179 11125182 . - . Note "left end: left end F40F8" CHROMOSOME_II assembly_tag Finished 11125279 11125282 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11137542 11137620 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11137621 11137698 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11137699 11137776 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11137777 11137854 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11137855 11137932 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11137933 11138010 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11138011 11138088 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11138089 11138166 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11138167 11138244 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag annotation 11138245 11138316 . + . Note "variations of a 40+ base pair repeat. 19 copies are given in this database, but restriction analysis indicates that there may be as many as 32 copies in the cosmid. No further work has been done to identify other copies in the genome. The most representative example of a repeat unit is:- gtcatgacctactttttttagtaggtcacgttaaaaagtag" CHROMOSOME_II assembly_tag Clone 11140994 11140997 . + . Note "right end: W01C6 right end" CHROMOSOME_II assembly_tag annotation 11143516 11143517 . + . CHROMOSOME_II assembly_tag Clone 11151575 11151578 . + . Note "left end: left end K07C10" CHROMOSOME_II assembly_tag annotation 11151575 11151583 . + . Note "Left end of K07C10" CHROMOSOME_II assembly_tag Finished 11151672 11151675 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11156858 11156866 . + . Note "Right end of W01C6/F40F8." CHROMOSOME_II assembly_tag Clone 11173117 11173120 . + . Note "left end: Left end of F37H8" CHROMOSOME_II assembly_tag Finished 11173117 11173120 . + . Note "Left: " CHROMOSOME_II assembly_tag annotation 11173117 11173124 . + . Note "Left end of F37H8" CHROMOSOME_II assembly_tag Clone 11189143 11189146 . + . Note "right end: Right end of K07C10" CHROMOSOME_II assembly_tag annotation 11189907 11190104 . + . Note "First of 12 copies of a 200bp tandem repeat. Restriction digest suggests 500bp (2.5 copies) is missing. Repeat has this sequence: GTCATATATATGTCTAATATTCAGTTTTTCTGATTAAACTGGAAGCtTCTGGCACCTAGAAAAATTTTGTAATTAAATTCTGAAAGCGTTTAAAATTTGAAACAAGTCCCCGAAGaAAAATTTTTAAAAAAGTTAATTTCAAGTCAGATATTAATTTTTAAAGTTATGAAACCTAATTAAATCTCCCAATAAAAAATGC" CHROMOSOME_II assembly_tag annotation 11197706 11197787 . + . Note "Covered by cosmid PCR only. May contain base inacuracies. Assembly confirmed by restriction digest." CHROMOSOME_II assembly_tag annotation 11197846 11197861 . + . Note "Single clone region. Assembly confirmed by restriction digest." CHROMOSOME_II assembly_tag Finished 11211922 11211925 . + . Note "Left: VF37H8L" CHROMOSOME_II assembly_tag annotation 11211922 11212125 . + . Note "First select a Feature -[ ] Unsure[x] Misc_featureThen select the text for the note(s) -[x] Tandem repeat[ ] Single clone region[x] Forced join[ ] OtherAdd a comment here -tandem repeat with typical repeat element GAGACCACCACCGCAGCTGCCACCGAAGCCTCGTCGGAA (39-mer) extends from the rightend of F37H8 into T06D8. Lenght of the repeat region between the two cosmids hasnot been determined" CHROMOSOME_II assembly_tag Clone 11212020 11212023 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11212020 11212024 . + . Note "left end: Start of T06D8. No L/H overlap with F37H8." CHROMOSOME_II assembly_tag Finished 11212021 11212024 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11212021 11212024 . + . Note "right end: F37H8" CHROMOSOME_II assembly_tag Clone 11212021 11212024 . + . Note "right end: right end F37H8" CHROMOSOME_II assembly_tag Clone 11212021 11212024 . + . Note "left end: T06D8" CHROMOSOME_II assembly_tag annotation 11212028 11212063 . + . Note "The repeat starts from here for approx. 5 kb. So reads from this point, may belong in any position." CHROMOSOME_II assembly_tag Finished 11212122 11212125 . + . Note "Right: VF37H8L" CHROMOSOME_II assembly_tag comment 11217586 11217608 . + . Note "?do a long read" CHROMOSOME_II assembly_tag comment 11235027 11235041 . + . Note "?this read, reads different than its .s1 and terminator read..... from a pcr." CHROMOSOME_II assembly_tag Clone 11243933 11243936 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11243933 11243937 . + . Note "left end: Start of T05B9" CHROMOSOME_II assembly_tag Clone 11243933 11243937 . + . Note "left end: start of T05B9" CHROMOSOME_II assembly_tag Clone 11243934 11243937 . + . Note "left end: Start of T05B9" CHROMOSOME_II assembly_tag Clone 11246908 11246911 . + . Note "right end: End of T06D8" CHROMOSOME_II assembly_tag annotation 11249311 11249359 . + . Note "Terminators over this region" CHROMOSOME_II assembly_tag annotation 11249360 11249367 . + . CHROMOSOME_II assembly_tag Clone 11266460 11266463 . + . Note "left end: Start of C47G2" CHROMOSOME_II assembly_tag Clone 11266460 11266464 . + . Note "left end: Start of C47G2" CHROMOSOME_II assembly_tag Clone 11266460 11266464 . + . Note "left end: ?Start of C47G2" CHROMOSOME_II assembly_tag cosmid 11266464 11266468 . + . Note "vector: " CHROMOSOME_II assembly_tag ambiguous 11275018 11275026 . + . Note "this read has 4 g's but the terminators and other .s1's have 3." CHROMOSOME_II assembly_tag cosmid 11279198 11279205 . + . Note "vector: end of T05B9" CHROMOSOME_II assembly_tag cosmid 11279204 11279208 . + . Note "vector: r/h end of june's T05B9" CHROMOSOME_II assembly_tag Clone 11279206 11279209 . + . Note "right end: r/h end of T05B9." CHROMOSOME_II assembly_tag annotation 11286650 11286719 . + . Note "no -ve double stranding. terminators on +ve strand." CHROMOSOME_II assembly_tag annotation 11286720 11286797 . + . Note "see following annotation tag." CHROMOSOME_II assembly_tag annotation 11286799 11286877 . + . Note "no -ve double stranding, terminators on +ve strand." CHROMOSOME_II assembly_tag annotation 11286924 11286970 . + . Note "see following annotation tag." CHROMOSOME_II assembly_tag annotation 11286971 11287048 . + . Note "no -ve strand but terminators through +ve strand." CHROMOSOME_II assembly_tag Clone 11301190 11301193 . + . Note "left end: ?" CHROMOSOME_II assembly_tag Clone 11301190 11301193 . + . Note "left end: ?start of T24F1" CHROMOSOME_II assembly_tag annotation 11301190 11301193 . + . Note "Beginning of T24F1" CHROMOSOME_II assembly_tag cosmid 11301191 11301195 . + . Note "vector: start of (L/H end)of T24F1 - connie's." CHROMOSOME_II assembly_tag Clone 11301192 11301193 . - . Note "left end: " CHROMOSOME_II assembly_tag annotation 11307574 11307577 . + . Note "pJB8 End of C47G2" CHROMOSOME_II assembly_tag annotation 11307574 11307577 . + . Note "?" CHROMOSOME_II assembly_tag annotation 11327228 11327228 . + . CHROMOSOME_II assembly_tag annotation 11327228 11327229 . + . CHROMOSOME_II assembly_tag annotation 11327228 11327231 . + . Note "pJB8 beginning of BO491" CHROMOSOME_II assembly_tag Clone 11327228 11327231 . + . Note "left end: left B0491 pJB8 fwd" CHROMOSOME_II assembly_tag annotation 11327229 11327232 . + . CHROMOSOME_II assembly_tag annotation 11327232 11327232 . + . CHROMOSOME_II assembly_tag annotation 11334020 11334020 . + . Note "G missing" CHROMOSOME_II assembly_tag Clone 11336965 11336968 . + . Note "right end: right T24F1 lorist6 rev" CHROMOSOME_II assembly_tag annotation 11342584 11342813 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11344016 11344039 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11346543 11346695 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11349774 11349895 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11350008 11350369 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11350693 11350924 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11351224 11351236 . + . Note "13 T's read on zg03c5" CHROMOSOME_II assembly_tag annotation 11365368 11365371 . + . Note "Left end of C33B4" CHROMOSOME_II assembly_tag Clone 11365368 11365371 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11365368 11365371 . + . Note "left end: left C33B4 pjb8.rev" CHROMOSOME_II assembly_tag Clone 11369962 11369969 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11369966 11369969 . + . Note "Right end of B0491" CHROMOSOME_II assembly_tag Clone 11395379 11395381 . + . Note "left end: pJB8 " CHROMOSOME_II assembly_tag Clone 11395379 11395382 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 11395379 11395382 . + . Note "Left end of C05D12" CHROMOSOME_II assembly_tag Clone 11395379 11395382 . + . Note "left end: pJB8 " CHROMOSOME_II assembly_tag annotation 11395379 11395382 . + . Note "Left end of C05D12" CHROMOSOME_II assembly_tag Clone 11405233 11405236 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11405233 11405236 . + . Note "Right end of C33B4." CHROMOSOME_II assembly_tag annotation 11416020 11416062 . + . Note "Negative strand only. 3 different clones, 2 good terminators." CHROMOSOME_II assembly_tag annotation 11425712 11425715 . + . Note "2 bases missing from this clone" CHROMOSOME_II assembly_tag annotation 11433293 11433354 . + . Note "Negative strand only. 2 different clones with oligo-terminators." CHROMOSOME_II assembly_tag annotation 11435100 11435102 . + . Note "This clone has a T substituted." CHROMOSOME_II assembly_tag Finished 11437296 11437299 . + . Note "Left: VW02B12L" CHROMOSOME_II assembly_tag annotation 11437396 11437399 . + . Note "Right end of C05D12, no overlap to right." CHROMOSOME_II assembly_tag Clone 11437396 11437399 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11437396 11437399 . - . Note "right end: C05D12\n" CHROMOSOME_II assembly_tag Clone 11444808 11444811 . + . Note "left end: W02B12" CHROMOSOME_II assembly_tag Finished 11444808 11444813 . + . Note "Left: " CHROMOSOME_II assembly_tag annotation 11444808 11444880 . + . CHROMOSOME_II assembly_tag annotation 11444881 11444958 . + . CHROMOSOME_II assembly_tag Finished 11444908 11444911 . + . Note "Right: VW02B12L" CHROMOSOME_II assembly_tag annotation 11444959 11444998 . + . CHROMOSOME_II assembly_tag annotation 11453409 11453416 . - . Note "Bad tracking at the end of this clone ?" CHROMOSOME_II assembly_tag annotation 11455479 11455482 . - . CHROMOSOME_II assembly_tag annotation 11455483 11455560 . - . Note "Not double-stranded.\nTerminator through region." CHROMOSOME_II assembly_tag annotation 11456025 11456053 . - . Note ".s1 read deviates from terminator read\non the same clone. The terminator read agrees with the 7 other reads over thisregion, giving the consensus." CHROMOSOME_II assembly_tag annotation 11456033 11456053 . - . Note ".s1 read deviates from terminator read\non same clone. Terminator agrees with the 7 other clones over this region, \ngiving the consensus\n\nBad tracking ?" CHROMOSOME_II assembly_tag annotation 11458296 11458306 . + . CHROMOSOME_II assembly_tag annotation 11458307 11458384 . + . CHROMOSOME_II assembly_tag annotation 11458384 11458429 . + . CHROMOSOME_II assembly_tag annotation 11461023 11461037 . - . Note "Two clones say 14 As & four clones say 15 As\n- consensus given 15" CHROMOSOME_II assembly_tag annotation 11467569 11467578 . + . Note "One clone here has 9 T's, the other \nfour have 10: the consensus has 10." CHROMOSOME_II assembly_tag annotation 11472369 11472446 . + . Note "No +ve strand over this region - \nonly -ve strand terminators" CHROMOSOME_II assembly_tag annotation 11472369 11472370 . - . Note "?Terminators across this region" CHROMOSOME_II assembly_tag annotation 11472447 11472524 . + . CHROMOSOME_II assembly_tag annotation 11472525 11472537 . + . CHROMOSOME_II assembly_tag annotation 11474463 11474512 . + . Note "No -ve strand, only +ve strand \nterminators over this region" CHROMOSOME_II assembly_tag Clone 11479009 11479012 . + . Note "left end: Start of B0334" CHROMOSOME_II assembly_tag Clone 11479009 11479012 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11479009 11479012 . - . Note "left end: Start of B0334" CHROMOSOME_II assembly_tag Finished 11479109 11479112 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11483189 11483192 . + . Note "right end: End of W02B12" CHROMOSOME_II assembly_tag annotation 11483851 11483885 . + . CHROMOSOME_II assembly_tag annotation 11483886 11483963 . + . CHROMOSOME_II assembly_tag annotation 11483964 11484041 . + . CHROMOSOME_II assembly_tag annotation 11484042 11484119 . + . CHROMOSOME_II assembly_tag annotation 11484120 11484178 . + . CHROMOSOME_II assembly_tag annotation 11484179 11484256 . + . CHROMOSOME_II assembly_tag annotation 11484257 11484313 . + . CHROMOSOME_II assembly_tag annotation 11484314 11484390 . + . CHROMOSOME_II assembly_tag annotation 11484391 11484391 . + . CHROMOSOME_II assembly_tag annotation 11484392 11484467 . + . CHROMOSOME_II assembly_tag annotation 11484468 11484543 . + . CHROMOSOME_II assembly_tag annotation 11484544 11484590 . + . CHROMOSOME_II assembly_tag annotation 11484591 11484666 . + . CHROMOSOME_II assembly_tag annotation 11484667 11484743 . + . CHROMOSOME_II assembly_tag annotation 11484743 11484819 . + . CHROMOSOME_II assembly_tag annotation 11484820 11484822 . + . CHROMOSOME_II assembly_tag annotation 11487164 11487166 . + . Note "This clone has 2 As here whereas the other 7 clones over this region have only one " CHROMOSOME_II assembly_tag annotation 11488937 11488975 . + . Note "No +ve strand, only -ve strand terminators over this region" CHROMOSOME_II assembly_tag annotation 11488976 11488979 . + . CHROMOSOME_II assembly_tag annotation 11489284 11489360 . + . CHROMOSOME_II assembly_tag annotation 11489361 11489371 . + . CHROMOSOME_II assembly_tag annotation 11491139 11491216 . + . CHROMOSOME_II assembly_tag annotation 11491217 11491293 . + . CHROMOSOME_II assembly_tag annotation 11491294 11491323 . + . CHROMOSOME_II assembly_tag annotation 11493706 11493753 . + . Note "No -ve strand, only +ve strand terminators over this region" CHROMOSOME_II assembly_tag annotation 11494928 11494994 . + . Note "No -ve strand, only +ve strand terms over this region" CHROMOSOME_II assembly_tag annotation 11494995 11495018 . + . CHROMOSOME_II assembly_tag annotation 11501057 11501109 . + . CHROMOSOME_II assembly_tag annotation 11502768 11502772 . + . Note "This clone has 4 additional bases at this point. These are GTAG" CHROMOSOME_II assembly_tag annotation 11504549 11504618 . + . Note "-ve strand terminators only across this region" CHROMOSOME_II assembly_tag annotation 11505666 11505727 . + . Note "Terminators only across this region" CHROMOSOME_II assembly_tag annotation 11511041 11511117 . + . CHROMOSOME_II assembly_tag annotation 11511117 11511137 . + . CHROMOSOME_II assembly_tag Finished 11520665 11520668 . + . Note "Left: Y62F5A" CHROMOSOME_II assembly_tag Clone 11520765 11520768 . + . Note "right end: B0334" CHROMOSOME_II assembly_tag Clone 11520817 11520820 . + . Note "right end: End of B0334" CHROMOSOME_II assembly_tag Clone 11520817 11520820 . + . Note "right end: " CHROMOSOME_II assembly_tag oligo 11520974 11520991 . + . Note "serial#=Y62F5.2\ntemplate=vz79g7\nsequence=CGTGGCATATCAATTAAG\nflags=\n" CHROMOSOME_II assembly_tag comment 11521981 11521981 . + . Note "?" CHROMOSOME_II assembly_tag Finisher 11522070 11522098 . + . Note "comment: reactions on\npa09f11.p1c\nY62F5_2d12.p1c\npa10d3.q1c" CHROMOSOME_II assembly_tag Finisher 11522693 11522828 . + . Note "comment: dstm" CHROMOSOME_II assembly_tag Finisher 11522829 11522904 . + . Note "comment: Single direction old fashioned terms checked by eye" CHROMOSOME_II assembly_tag comment 11522831 11522831 . + . Note "?" CHROMOSOME_II assembly_tag comment 11522848 11522848 . + . Note "?" CHROMOSOME_II assembly_tag comment 11522866 11522866 . + . Note "?" CHROMOSOME_II assembly_tag oligo 11523002 11523019 . + . Note "serial#=Y62F5.11\ntemplate=pa10g8\nsequence=ATTTGAAGAGAGGATTGG\nflags=\n" CHROMOSOME_II assembly_tag Finisher 11523002 11523026 . + . Note "comment: oligo around here" CHROMOSOME_II assembly_tag Finisher 11523328 11523365 . + . Note "comment: join may not be real - check with\nreactions " CHROMOSOME_II assembly_tag Finisher 11523523 11523565 . + . Note "comment: oligo here" CHROMOSOME_II assembly_tag oligo 11523529 11523546 . + . Note "serial#=Y62F5.12\ntemplate=\nsequence=AACCTACATCATTTCACC\nflags=\n" CHROMOSOME_II assembly_tag comment 11523603 11523603 . + . Note "?" CHROMOSOME_II assembly_tag comment 11523673 11523673 . + . Note "?" CHROMOSOME_II assembly_tag comment 11523812 11523812 . + . Note "?" CHROMOSOME_II assembly_tag comment 11524023 11524023 . + . Note "?" CHROMOSOME_II assembly_tag comment 11524037 11524037 . + . Note "?" CHROMOSOME_II assembly_tag comment 11524141 11524143 . + . Note "?" CHROMOSOME_II assembly_tag Finisher 11524379 11525117 . + . Note "comment: dstm" CHROMOSOME_II assembly_tag comment 11524417 11524421 . + . Note "?" CHROMOSOME_II assembly_tag comment 11524502 11524503 . + . Note "?" CHROMOSOME_II assembly_tag comment 11524582 11524582 . + . Note "?" CHROMOSOME_II assembly_tag oligo 11525584 11525600 . + . Note "serial#=Y62F5.3\ntemplate=\nsequence=ATAGACACGCTGAGCAC\nflags=\n" CHROMOSOME_II assembly_tag comment 11526101 11526104 . + . Note "missing C and T here !" CHROMOSOME_II assembly_tag Polymorphism 11527440 11527444 . + . CHROMOSOME_II assembly_tag Inverted 11527443 11528734 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11527443 11529073 . + . Note "Repeat: " CHROMOSOME_II assembly_tag compression 11527444 11527444 . + . CHROMOSOME_II assembly_tag compression 11527476 11527476 . + . CHROMOSOME_II assembly_tag compression 11527581 11527581 . + . CHROMOSOME_II assembly_tag Alu 11527657 11527709 . + . Note "segment: " CHROMOSOME_II assembly_tag CpG 11527737 11527749 . + . Note "Island: Start of tandem repeat." CHROMOSOME_II assembly_tag Polymorphism 11527737 11527749 . + . CHROMOSOME_II assembly_tag comment 11527746 11527749 . + . Note "Start of direct rpt" CHROMOSOME_II assembly_tag repeat 11527750 11527771 . + . CHROMOSOME_II assembly_tag annotation 11527750 11528387 . + . Note "First select a Feature -\n[ ] Unsure\n[X] Misc_feature\nThen select the text for the note(s) -\n[X] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[ ] Other\nAdd a comment here -\nExact number of copies of tandem repeat\nnot known." CHROMOSOME_II assembly_tag repeat 11527772 11527816 . + . CHROMOSOME_II assembly_tag repeat 11527817 11527861 . + . CHROMOSOME_II assembly_tag comment 11527794 11527902 . - . Note "?" CHROMOSOME_II assembly_tag repeat 11527951 11527995 . + . CHROMOSOME_II assembly_tag repeat 11528040 11528084 . + . CHROMOSOME_II assembly_tag repeat 11528130 11528173 . + . CHROMOSOME_II assembly_tag repeat 11528174 11528218 . + . CHROMOSOME_II assembly_tag repeat 11528219 11528263 . + . CHROMOSOME_II assembly_tag oligo 11528231 11528247 . + . Note "serial#=Y62F5.9\ntemplate=\nsequence=AAGAAGGATCGTAAGGG\nflags=\n" CHROMOSOME_II assembly_tag comment 11528233 11528251 . + . Note "?" CHROMOSOME_II assembly_tag repeat 11528264 11528306 . + . CHROMOSOME_II assembly_tag repeat 11528308 11528352 . + . CHROMOSOME_II assembly_tag repeat 11528353 11528387 . + . CHROMOSOME_II assembly_tag CpG 11528388 11528404 . + . Note "Island: End of tandem repeat" CHROMOSOME_II assembly_tag Polymorphism 11528388 11528404 . + . CHROMOSOME_II assembly_tag comment 11528501 11528529 . + . Note "?reverse of f2 and f3 starts here the match looks to be perfect" CHROMOSOME_II assembly_tag Inverted 11528733 11528733 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11528735 11528885 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 11528947 11528947 . + . Note "?" CHROMOSOME_II assembly_tag Inverted 11529056 11529074 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11529256 11529590 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11529591 11529824 . - . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11529825 11530289 . + . Note "Repeat: " CHROMOSOME_II assembly_tag CpG 11529937 11529958 . + . Note "Island: Start of tandem repeat" CHROMOSOME_II assembly_tag Polymorphism 11529937 11529959 . - . Note "break point for the tandem repeat" CHROMOSOME_II assembly_tag annotation 11529960 11530351 . + . Note "First select a Feature -[ ] Unsure[X] Misc_featureThen select the text for the note(s) -[X] Tandem repeat[ ] Single clone region[ ] Forced join[ ] OtherAdd a comment here -Exact number of copies of tandem repeatnot known. Region contains a forced join." CHROMOSOME_II assembly_tag repeat 11529960 11529972 . - . CHROMOSOME_II assembly_tag repeat 11529973 11530017 . - . CHROMOSOME_II assembly_tag Alu 11530094 11530105 . + . Note "segment: Forced join in repeat" CHROMOSOME_II assembly_tag repeat 11530094 11530351 . + . CHROMOSOME_II assembly_tag comment 11530099 11530105 . + . Note "?" CHROMOSOME_II assembly_tag comment 11530192 11530192 . + . Note "?" CHROMOSOME_II assembly_tag comment 11530199 11530199 . + . Note "?" CHROMOSOME_II assembly_tag comment 11530266 11530266 . + . Note "?" CHROMOSOME_II assembly_tag Inverted 11530290 11530657 . + . Note "Repeat: " CHROMOSOME_II assembly_tag repeat 11530290 11530329 . - . CHROMOSOME_II assembly_tag CpG 11530352 11530365 . + . Note "Island: End of tandem repeat" CHROMOSOME_II assembly_tag Polymorphism 11530352 11530364 . - . CHROMOSOME_II assembly_tag comment 11530519 11530520 . - . Note "?" CHROMOSOME_II assembly_tag Polymorphism 11530656 11530660 . - . CHROMOSOME_II assembly_tag comment 11530657 11530676 . - . Note "?" CHROMOSOME_II assembly_tag comment 11530698 11530698 . + . Note "?" CHROMOSOME_II assembly_tag comment 11530739 11530739 . + . Note "?" CHROMOSOME_II assembly_tag oligo 11531161 11531181 . + . Note "serial#=Y62F5.5\ntemplate=pa11e5\nsequence=CGGGATTATTATTCGTTTTTC\nflags=\n" CHROMOSOME_II assembly_tag comment 11531204 11531204 . + . Note "?" CHROMOSOME_II assembly_tag oligo 11531651 11531668 . + . Note "serial#=Y62F5.13\ntemplate=pa08e10\nsequence=GTTGGCTGAAATAATTGG\nflags=\n" CHROMOSOME_II assembly_tag Finisher 11531654 11531680 . + . Note "comment: make oligo here\nuse same reads as with oligo 5" CHROMOSOME_II assembly_tag oligo 11531658 11531679 . - . Note "serial#=Y62F5.6\ntemplate=pa10g4\nsequence=CACCACATAATCCAATTATTTC\nflags=\n" CHROMOSOME_II assembly_tag Polymorphism 11532263 11532267 . + . CHROMOSOME_II assembly_tag Inverted 11532268 11532334 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532353 11532419 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Polymorphism 11532420 11532424 . + . CHROMOSOME_II assembly_tag oligo 11532544 11532561 . + . Note "serial#=Y62F5.7\ntemplate=pa09f4\nsequence=TTAAATTCTGCTCGGTTG\nflags=\n" CHROMOSOME_II assembly_tag Inverted 11532587 11532613 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532600 11532613 . + . Note "Repeat: " CHROMOSOME_II assembly_tag annotation 11532605 11532888 . + . Note "First select a Feature -\n[ ] Unsure\n[X] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[X] Single clone region\n[ ] Forced join\n[ ] Other\nAdd a comment here -\nRegion only contains reads from a SIL\nof subclone pa09f4." CHROMOSOME_II assembly_tag comment 11532610 11532639 . + . Note "Cut off for now !" CHROMOSOME_II assembly_tag comment 11532889 11532896 . + . Note "Oligos diverge" CHROMOSOME_II assembly_tag compression 11532897 11532906 . + . Note "poss false join\npa09f4.p1ca confirms this join\nbut the +ve reads differenet to the -ve some bases missing ???????" CHROMOSOME_II assembly_tag Inverted 11532897 11532910 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532897 11532930 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 11532919 11532920 . + . Note "?" CHROMOSOME_II assembly_tag Inverted 11532930 11532935 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532937 11532940 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532940 11532944 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 11532942 11532986 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 11533023 11533030 . + . Note "?" CHROMOSOME_II assembly_tag comment 11533070 11533073 . + . Note "?" CHROMOSOME_II assembly_tag cosmid 11533079 11533093 . - . Note "vector: " CHROMOSOME_II assembly_tag oligo 11533124 11533143 . - . Note "serial#=Y62F5.8\ntemplate=pa08e2\nsequence=CATTTGAACAGTGTTGATAG\nflags=\n" CHROMOSOME_II assembly_tag oligo 11533300 11533316 . - . Note "serial#=Y62F5.14\ntemplate=vz78g11\nsequence=GACGTGTGATGTCATGG\nflags=\n" CHROMOSOME_II assembly_tag Finisher 11533291 11533327 . - . Note "comment: make -ve oligo here\nuse same templates as oligo 8" CHROMOSOME_II assembly_tag comment 11533576 11533580 . + . Note "?" CHROMOSOME_II assembly_tag Direct 11533861 11534432 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Direct 11533941 11534432 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 11533990 11533990 . + . Note "?" CHROMOSOME_II assembly_tag comment 11533998 11533998 . + . Note "?" CHROMOSOME_II assembly_tag comment 11534013 11534013 . + . Note "?" CHROMOSOME_II assembly_tag comment 11534015 11534015 . + . Note "?" CHROMOSOME_II assembly_tag comment 11534428 11534428 . + . Note "?" CHROMOSOME_II assembly_tag comment 11534431 11534431 . + . Note "?" CHROMOSOME_II assembly_tag Inverted 11534516 11534528 . - . Note "Repeat: " CHROMOSOME_II assembly_tag comment 11534536 11534536 . + . Note "?" CHROMOSOME_II assembly_tag annotation 11534536 11534662 . + . Note "First select a Feature -\n[ ] Unsure\n[x] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[x] Single clone region\n[ ] Forced join\n[ ] Other\nAdd a comment here -\nRegion only contains sonicated reads\nfrom subclone Y62F5_4g5" CHROMOSOME_II assembly_tag oligo 11534667 11534683 . + . Note "serial#=Y62F5.10\ntemplate=\nsequence=CAATACAACGATGCTCC\nflags=\n" CHROMOSOME_II assembly_tag oligo 11534750 11534766 . - . Note "serial#=Y62F5.4\ntemplate=vz79b10b6\nsequence=CGCAATTTTTCTCACGC\nflags=\n" CHROMOSOME_II assembly_tag comment 11534886 11534889 . + . Note "cut off diverges" CHROMOSOME_II assembly_tag Inverted 11534889 11534900 . + . Note "Repeat: " CHROMOSOME_II assembly_tag cosmid 11535104 11535163 . + . Note "vector: " CHROMOSOME_II assembly_tag comment 11535980 11535983 . + . Note "missing ta" CHROMOSOME_II assembly_tag Finisher 11536151 11536176 . + . Note "comment: rip out and fij if it goes nowhere then leave floating or replace and edit" CHROMOSOME_II assembly_tag comment 11536158 11536198 . + . Note "?" CHROMOSOME_II assembly_tag comment 11536182 11536182 . + . CHROMOSOME_II assembly_tag comment 11536484 11536484 . + . Note "?" CHROMOSOME_II assembly_tag Finisher 11536695 11536902 . + . Note "comment: DSTM" CHROMOSOME_II assembly_tag comment 11536802 11536802 . + . Note "?" CHROMOSOME_II assembly_tag Finisher 11536902 11536969 . + . Note "comment: " CHROMOSOME_II assembly_tag Finisher 11536969 11537073 . + . Note "comment: " CHROMOSOME_II assembly_tag comment 11537058 11537058 . + . Note "?" CHROMOSOME_II assembly_tag Finisher 11537073 11537233 . + . Note "comment: " CHROMOSOME_II assembly_tag comment 11537215 11537215 . + . Note "?" CHROMOSOME_II assembly_tag comment 11538212 11538214 . + . Note "?" CHROMOSOME_II assembly_tag oligo 11538358 11538379 . - . Note "serial#=Y62F5.1\ntemplate=pa04f3\nsequence=CAGAAAAAAGATTTTGGAAGAC\nflags=\n" CHROMOSOME_II assembly_tag comment 11539209 11539212 . + . Note "?" CHROMOSOME_II assembly_tag comment 11539216 11539216 . + . Note "?" CHROMOSOME_II assembly_tag comment 11539707 11539707 . + . Note "?" CHROMOSOME_II assembly_tag Clone 11539963 11539966 . + . Note "left end: F54D5" CHROMOSOME_II assembly_tag Finished 11539963 11539966 . - . Note "Left: F54D5" CHROMOSOME_II assembly_tag Clone 11539963 11539966 . - . Note "left end: F54D5" CHROMOSOME_II assembly_tag Finished 11540063 11540066 . + . Note "Right: Y62F5A" CHROMOSOME_II assembly_tag annotation 11569491 11569493 . - . Note "Base substitution" CHROMOSOME_II assembly_tag annotation 11574047 11574054 . - . Note "8 bp Pos only. Confirmed in cutoff\ndata plus term." CHROMOSOME_II assembly_tag Finished 11578970 11578973 . + . Note "Left: D1043" CHROMOSOME_II assembly_tag Clone 11579070 11579073 . - . Note "right end: F54D5" CHROMOSOME_II assembly_tag Finished 11579070 11579073 . - . Note "Right: F54D5" CHROMOSOME_II assembly_tag Clone 11579070 11579073 . - . Note "right end: F54D5" CHROMOSOME_II assembly_tag Clone 11585834 11585839 . + . Note "left end: start of F07A11" CHROMOSOME_II assembly_tag Clone 11585836 11585839 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11585836 11585839 . + . Note "left end: F07A11" CHROMOSOME_II assembly_tag Finished 11585936 11585939 . + . Note "Right: D1043" CHROMOSOME_II assembly_tag annotation 11593982 11593998 . + . Note "no -ve double stranding but terminator on other strand." CHROMOSOME_II assembly_tag Clone 11621427 11621430 . + . Note "left end: left end ZK20" CHROMOSOME_II assembly_tag Finished 11621427 11621430 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11621427 11621431 . + . Note "left end: start of ZK20" CHROMOSOME_II assembly_tag annotation 11621753 11621762 . + . Note "Here the positive and negative reads, read different numbers. Have edited to agree with the most number of T's. +ve read 10T's, -ve's read 9T's." CHROMOSOME_II assembly_tag Clone 11623468 11623471 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11623468 11623471 . + . Note "right end: F07A11" CHROMOSOME_II assembly_tag annotation 11642456 11642533 . + . Note "no +ve so terminated -ve." CHROMOSOME_II assembly_tag annotation 11642534 11642543 . + . CHROMOSOME_II assembly_tag annotation 11643303 11643305 . + . Note "terminator across as no +ve." CHROMOSOME_II assembly_tag annotation 11643430 11643507 . + . Note "NO +ve strand terminated -ve." CHROMOSOME_II assembly_tag annotation 11643508 11643563 . + . CHROMOSOME_II assembly_tag annotation 11645238 11645315 . + . Note "No -ve strand so terminated +ve." CHROMOSOME_II assembly_tag annotation 11645315 11645316 . + . CHROMOSOME_II assembly_tag Clone 11654813 11654816 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11654813 11654816 . + . Note "left end: pjB8 C47D12 left end." CHROMOSOME_II assembly_tag Finished 11654813 11654816 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11654813 11654816 . + . Note "left end: C47D12" CHROMOSOME_II assembly_tag Finished 11654913 11654916 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11661096 11661118 . + . Note "Number of Gs may not be accurate." CHROMOSOME_II assembly_tag Finished 11698973 11698976 . + . Note "Left: VF13D12L" CHROMOSOME_II assembly_tag Clone 11699073 11699076 . + . Note "right end: end of C47D12." CHROMOSOME_II assembly_tag Finished 11699073 11699076 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11699073 11699076 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11699073 11699076 . + . Note "right end: C47D12" CHROMOSOME_II assembly_tag annotation 11704528 11704551 . + . Note "single stranded" CHROMOSOME_II assembly_tag Clone 11708921 11708924 . + . Note "left end: F13D12" CHROMOSOME_II assembly_tag annotation 11708921 11708924 . + . Note "Left end of F13D12" CHROMOSOME_II assembly_tag Finished 11709021 11709024 . + . Note "Right: VF13D12L" CHROMOSOME_II assembly_tag annotation 11710842 11710919 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11710920 11710997 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11710998 11711075 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11711076 11711133 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11714232 11714308 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11714309 11714361 . + . Note "Negative only. Terminators." CHROMOSOME_II assembly_tag annotation 11718089 11718096 . + . Note "Positive only. Good teminators." CHROMOSOME_II assembly_tag annotation 11719928 11720005 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11720006 11720019 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11722327 11722385 . + . Note "Positive only. Good terminator." CHROMOSOME_II assembly_tag annotation 11741860 11741934 . + . Note "Positive only. Good terminator." CHROMOSOME_II assembly_tag annotation 11746669 11746746 . + . Note "Positive only. Good terminators." CHROMOSOME_II assembly_tag annotation 11746747 11746824 . + . Note "Positive only. Good terminators." CHROMOSOME_II assembly_tag annotation 11746825 11746839 . + . Note "Positive only. Good terminators" CHROMOSOME_II assembly_tag annotation 11748317 11748320 . + . Note "Left end of F44E5" CHROMOSOME_II assembly_tag Clone 11748317 11748320 . + . Note "left end: F44E5" CHROMOSOME_II assembly_tag Finished 11748317 11748320 . + . Note "Left: F44E5" CHROMOSOME_II assembly_tag Clone 11750723 11750726 . + . Note "right end: F13D12" CHROMOSOME_II assembly_tag annotation 11772732 11772801 . + . Note "A/T repeat.\nM13 clones have varying numbers, max\nnumber taken as correct. " CHROMOSOME_II assembly_tag Clone 11777212 11777215 . + . Note "left end: Start of F43G6" CHROMOSOME_II assembly_tag Clone 11777212 11777215 . + . Note "left end: F43G6" CHROMOSOME_II assembly_tag Finished 11777312 11777315 . + . Note "Right: F44E5" CHROMOSOME_II assembly_tag Clone 11781475 11781478 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11782738 11782741 . + . Note "right end: Right end of F44E5" CHROMOSOME_II assembly_tag annotation 11788437 11788450 . + . CHROMOSOME_II assembly_tag annotation 11788907 11788933 . + . CHROMOSOME_II assembly_tag annotation 11790601 11790642 . + . Note "Terminators on + only" CHROMOSOME_II assembly_tag annotation 11796654 11796684 . + . CHROMOSOME_II assembly_tag annotation 11798992 11799018 . + . CHROMOSOME_II assembly_tag annotation 11799766 11799767 . + . Note "Two A's are missing from this clone" CHROMOSOME_II assembly_tag annotation 11801307 11801309 . + . Note "This clone reads T here rather than G" CHROMOSOME_II assembly_tag annotation 11804263 11804267 . + . Note "Only one A in this clone here" CHROMOSOME_II assembly_tag annotation 11806012 11806087 . + . CHROMOSOME_II assembly_tag annotation 11806087 11806094 . + . CHROMOSOME_II assembly_tag Finished 11815794 11815797 . + . Note "Left: Y6D1A" CHROMOSOME_II assembly_tag Clone 11815894 11815897 . + . Note "right end: F43G6" CHROMOSOME_II assembly_tag Clone 11815894 11815897 . + . Note "right end: End of C54H10" CHROMOSOME_II assembly_tag Clone 11815913 11815916 . + . Note "right end: End of F43G6" CHROMOSOME_II assembly_tag annotation 11825955 11827383 . + . Note "First select a Feature -[ ] Unsure[x] Misc_featureThen select the text for the note(s) -[x] Tandem repeat[ ] Single clone region[ ] Forced join[ ] OtherAdd a comment here -tandem repeat withtypical repeat element GGTAGTCAATGAGCAAA(17-mer). Length of repeat is notdetermined." CHROMOSOME_II assembly_tag Finished 11829018 11829021 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11829018 11829021 . + . Note "left end: T27D12" CHROMOSOME_II assembly_tag Clone 11829018 11829021 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11829018 11829021 . + . Note "left end: Left end of T27D12" CHROMOSOME_II assembly_tag Finished 11829118 11829121 . + . Note "Right: Y6D1A" CHROMOSOME_II assembly_tag annotation 11832062 11832130 . + . CHROMOSOME_II assembly_tag annotation 11832131 11832207 . + . CHROMOSOME_II assembly_tag annotation 11832207 11832240 . + . CHROMOSOME_II assembly_tag annotation 11840246 11840247 . + . CHROMOSOME_II assembly_tag annotation 11840660 11840718 . + . CHROMOSOME_II assembly_tag annotation 11841938 11841999 . + . CHROMOSOME_II assembly_tag annotation 11842868 11842943 . + . CHROMOSOME_II assembly_tag annotation 11842944 11842963 . + . CHROMOSOME_II assembly_tag annotation 11846496 11846560 . + . CHROMOSOME_II assembly_tag annotation 11847267 11847339 . + . CHROMOSOME_II assembly_tag annotation 11848523 11848534 . + . CHROMOSOME_II assembly_tag annotation 11849464 11849471 . + . CHROMOSOME_II assembly_tag annotation 11850678 11850682 . + . Note "3 bases missing from this clone. (Clone only 46 bases long)" CHROMOSOME_II assembly_tag annotation 11851682 11851697 . + . CHROMOSOME_II assembly_tag annotation 11853130 11853142 . + . CHROMOSOME_II assembly_tag annotation 11855659 11855734 . + . CHROMOSOME_II assembly_tag annotation 11855735 11855740 . + . CHROMOSOME_II assembly_tag annotation 11856765 11856768 . + . Note "This clone is missing a G here" CHROMOSOME_II assembly_tag annotation 11858964 11858972 . + . CHROMOSOME_II assembly_tag annotation 11859103 11859114 . + . CHROMOSOME_II assembly_tag annotation 11861969 11862034 . + . CHROMOSOME_II assembly_tag Clone 11862619 11862622 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11862619 11862622 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11862619 11862622 . + . Note "left end: Left end of K12D12" CHROMOSOME_II assembly_tag annotation 11862619 11862622 . + . Note "Left end of K12D12" CHROMOSOME_II assembly_tag Finished 11862715 11862719 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11866493 11866497 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11866494 11866497 . + . Note "Right end of T27D12" CHROMOSOME_II assembly_tag annotation 11867698 11867775 . + . Note "Single stranded, pos only. Good terminators. Oligos attempted, no template reaches." CHROMOSOME_II assembly_tag annotation 11867776 11867853 . + . CHROMOSOME_II assembly_tag annotation 11867854 11867931 . + . CHROMOSOME_II assembly_tag annotation 11867932 11868009 . + . CHROMOSOME_II assembly_tag annotation 11868010 11868087 . + . CHROMOSOME_II assembly_tag annotation 11868088 11868165 . + . CHROMOSOME_II assembly_tag annotation 11868166 11868243 . + . CHROMOSOME_II assembly_tag annotation 11868244 11868321 . + . CHROMOSOME_II assembly_tag annotation 11868322 11868399 . + . CHROMOSOME_II assembly_tag annotation 11868400 11868477 . + . CHROMOSOME_II assembly_tag annotation 11868478 11868547 . + . CHROMOSOME_II assembly_tag annotation 11868566 11868613 . + . Note "Single strand only. Terminators. Oligo 12 attempted several times." CHROMOSOME_II assembly_tag annotation 11872343 11872420 . + . CHROMOSOME_II assembly_tag annotation 11872421 11872438 . + . CHROMOSOME_II assembly_tag annotation 11877277 11877280 . + . Note "Left end of ZK930." CHROMOSOME_II assembly_tag Clone 11877277 11877280 . + . Note "left end: " CHROMOSOME_II assembly_tag Finished 11877277 11877280 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11877277 11877280 . + . Note "left end: Start of ZK930" CHROMOSOME_II assembly_tag annotation 11879330 11879336 . + . Note "This clone is missing a G here compared to the consensus" CHROMOSOME_II assembly_tag annotation 11885851 11885885 . + . CHROMOSOME_II assembly_tag annotation 11886306 11886329 . + . CHROMOSOME_II assembly_tag annotation 11888329 11888406 . + . CHROMOSOME_II assembly_tag annotation 11888407 11888410 . + . CHROMOSOME_II assembly_tag annotation 11898709 11898715 . + . Note "At this point 4 clones have only 6 As whereas 8 clones have 7 As : the consensus has 7" CHROMOSOME_II assembly_tag annotation 11901402 11901439 . + . CHROMOSOME_II assembly_tag Clone 11902576 11902579 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11902576 11902579 . + . Note "right end: End of K12D12" CHROMOSOME_II assembly_tag annotation 11903872 11903949 . + . CHROMOSOME_II assembly_tag annotation 11903950 11904026 . + . CHROMOSOME_II assembly_tag annotation 11904027 11904063 . + . CHROMOSOME_II assembly_tag annotation 11907059 11907116 . + . CHROMOSOME_II assembly_tag annotation 11909290 11909291 . + . Note "ABI base called 3 Cs, in fact only 2 edited accordingly" CHROMOSOME_II assembly_tag annotation 11909322 11909323 . + . Note "ABI base called 3 Cs, in fact only 2 edited accordingly" CHROMOSOME_II assembly_tag annotation 11909546 11909548 . + . Note "Unclear here. It may read either: ---GCC--- ---GGCC--- ---GGC---" CHROMOSOME_II assembly_tag annotation 11910306 11910383 . + . CHROMOSOME_II assembly_tag annotation 11910384 11910458 . + . CHROMOSOME_II assembly_tag annotation 11910459 11910491 . + . CHROMOSOME_II assembly_tag annotation 11910487 11910538 . + . CHROMOSOME_II assembly_tag annotation 11910539 11910614 . + . CHROMOSOME_II assembly_tag annotation 11910615 11910664 . + . CHROMOSOME_II assembly_tag annotation 11912676 11912716 . + . CHROMOSOME_II assembly_tag annotation 11913129 11913205 . + . CHROMOSOME_II assembly_tag annotation 11913206 11913272 . + . CHROMOSOME_II assembly_tag Finished 11915678 11915681 . + . Note "Left: Y38G4A" CHROMOSOME_II assembly_tag annotation 11915763 11915776 . + . CHROMOSOME_II assembly_tag annotation 11915773 11915781 . + . CHROMOSOME_II assembly_tag Finished 11915778 11915781 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11915778 11915781 . + . Note "right end: End of ZK930" CHROMOSOME_II assembly_tag Clone 11915778 11915781 . + . Note "right end: ZK930" CHROMOSOME_II assembly_tag Finished 11915902 11915907 . + . Note "Left: Y17G7A" CHROMOSOME_II assembly_tag Clone 11915902 11915907 . + . Note "left end: Y17G7A" CHROMOSOME_II assembly_tag Clone 11915902 11915907 . + . Note "left end: Y17G7" CHROMOSOME_II assembly_tag Finished 11916004 11916007 . + . Note "Right: Y38G4A" CHROMOSOME_II assembly_tag annotation 11918624 11918624 . + . Note "1 clone says G, 2 clones say T" CHROMOSOME_II assembly_tag Clone 11929307 11929310 . + . Note "left end: T15G9" CHROMOSOME_II assembly_tag Clone 11929307 11929310 . + . Note "left end: Start of T15G9" CHROMOSOME_II assembly_tag Finished 11929407 11929410 . + . Note "Right: Y17G7A" CHROMOSOME_II assembly_tag Clone 11932683 11932686 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11932683 11932686 . + . Note "left end: Start of W03C9" CHROMOSOME_II assembly_tag Finished 11932683 11932686 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11966757 11966760 . + . Note "right end: " CHROMOSOME_II assembly_tag Finished 11968686 11968689 . + . Note "Left: Y17G7B" CHROMOSOME_II assembly_tag Clone 11968780 11968785 . + . Note "right end: " CHROMOSOME_II assembly_tag Finished 11968780 11968785 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11968782 11968785 . + . Note "right end: W03C9" CHROMOSOME_II assembly_tag annotation 11983970 11983994 . + . Note "[ ] Tandem repeat \n[x] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nRegion consisting of short insert clones \nderived from a pUC clone." CHROMOSOME_II assembly_tag TeamLeader 12077593 12077597 . + . Note "comment: read found by squawk - diverges here-checksequence after this point matches posn93090 <-=chimaeric clone?ts45c6.p1U -> @ 163510ts45c6.q1tU -> @ 185180ts45c6.s5t -> @ 165110 then <- @ 93106distance from .p1U to pt where diverges= 1738 - within ins size of lib, so chimaera?" CHROMOSOME_II assembly_tag annotation 12077599 12077660 . + . Note "[ ] Tandem repeat \n[x] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nRegion consisting of short insert clones \nderived from a pUC clone." CHROMOSOME_II assembly_tag annotation 12077719 12077800 . + . Note "[ ] Tandem repeat \n[x] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nArm of inverted repeat." CHROMOSOME_II assembly_tag annotation 12095998 12096040 . + . Note "[ ] Tandem repeat \n[ ] Single clone region \n[ ] Forced join \n[X] Other \nComment\nThis run of AT's is 12bp longer on one \nread so have edited to the longer read." CHROMOSOME_II assembly_tag Finished 12111678 12111681 . + . Note "Left: Y43F11A" CHROMOSOME_II assembly_tag comment 12111727 12111741 . + . Note "pull some over from Y17G7" CHROMOSOME_II assembly_tag Clone 12111772 12111777 . + . Note "right end: Y17G7" CHROMOSOME_II assembly_tag Finished 12111772 12111777 . + . Note "Right: Y17G7B" CHROMOSOME_II assembly_tag Clone 12111772 12111777 . + . Note "right end: Y17G7" CHROMOSOME_II assembly_tag oligo 12112058 12112074 . - . Note "serial#=Y43F11.15\ntemplate=ra84c5\nsequence=TTGCGATTGGCGATAAG\nflags=\n" CHROMOSOME_II assembly_tag Inverted 12112700 12113981 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 12112882 12113526 . + . Note "Repeat: 2" CHROMOSOME_II assembly_tag oligo 12117418 12117438 . + . Note "serial#=Y43F11.16\ntemplate=ra73d9\nsequence=CATAGGATGCGTTTAATTTTG\nflags=\n" CHROMOSOME_II assembly_tag comment 12118019 12118021 . + . Note "Is this 5 a's" CHROMOSOME_II assembly_tag oligo 12118361 12118378 . - . Note "serial#=Y43F11.2\ntemplate=ra71b4\nsequence=ACGGAATCTGGAAATTTG\nflags=" CHROMOSOME_II assembly_tag comment 12118740 12118751 . - . Note "?diverges" CHROMOSOME_II assembly_tag oligo 12118758 12118775 . - . Note "serial#=Y43F11.8\ntemplate=ra68f12\nsequence=CGGAACTTATTTGGAGAC\nflags=" CHROMOSOME_II assembly_tag cosmid 12118878 12118938 . + . Note "vector: " CHROMOSOME_II assembly_