##gff-version 2 ##date 2003-02-20 ##sequence-region CHROMOSOME_II 1 15279300 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 7801526 7801529 . - . Note "Left: T05A6" CHROMOSOME_II assembly_tag Clone 7801622 7801625 . - . Note "right end: C06A8" CHROMOSOME_II assembly_tag annotation 7823225 7823238 . + . Note "variable number of Ts\n11 or 12 (majority)" CHROMOSOME_II assembly_tag Clone 7831813 7831816 . + . Note "left end: T09A5" CHROMOSOME_II assembly_tag annotation 7831818 7831822 . + . Note "Start of T09A5" CHROMOSOME_II assembly_tag Finished 7831913 7831916 . - . Note "Right: T05A6" CHROMOSOME_II assembly_tag annotation 7870415 7870418 . + . Note "left end of T01H3" CHROMOSOME_II assembly_tag annotation 7870416 7870420 . + . Note "Beginnig of T01H3" CHROMOSOME_II assembly_tag annotation 7878734 7878736 . + . Note "mis-ligation" CHROMOSOME_II assembly_tag annotation 7883274 7883274 . + . Note "mutation on term" CHROMOSOME_II assembly_tag annotation 7883647 7883647 . + . 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 7885654 7885654 . + . Note "Missing base" CHROMOSOME_II assembly_tag annotation 7892184 7892187 . + . Note "left end of ZK675" CHROMOSOME_II assembly_tag ignore 7892184 7892187 . + . Note "cutoff (cloning vector): " CHROMOSOME_II assembly_tag annotation 7892184 7892187 . + . Note "Beginning of ZK675 @ position 1 Overlapping with T01H3" CHROMOSOME_II assembly_tag comment 7892188 7892193 . + . Note "start of left with T01H3" CHROMOSOME_II assembly_tag annotation 7892281 7892284 . + . Note "end of t01h3 finishing bit" CHROMOSOME_II assembly_tag annotation 7914787 7914790 . + . Note "beginning of ZK669" CHROMOSOME_II assembly_tag annotation 7916663 7916672 . + . Note "single read has deletion of 11bp at this point" CHROMOSOME_II assembly_tag annotation 7917523 7917523 . + . Note "single read has a point mutation T > C" CHROMOSOME_II assembly_tag annotation 7919310 7919356 . + . 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 7924140 7924146 . + . CHROMOSOME_II assembly_tag annotation 7926287 7926296 . + . Note "deletion in single clone" CHROMOSOME_II assembly_tag annotation 7931937 7931941 . + . Note "end of ZK675" CHROMOSOME_II assembly_tag annotation 7942690 7942690 . + . Note "point mutation C > A on single read" CHROMOSOME_II assembly_tag annotation 7947055 7947058 . + . Note "beginning of overlap with C04H4" CHROMOSOME_II assembly_tag Clone 7947055 7947058 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 7950323 7950324 . + . Note "single strand with term for 2 bases" CHROMOSOME_II assembly_tag Clone 7951891 7951893 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 7951891 7951894 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 7968571 7968623 . + . Note "Single stranded with terminator across region" CHROMOSOME_II assembly_tag annotation 7971287 7971314 . + . Note "difficult region to resolce sequence many terminators across region. Slight chance of error" CHROMOSOME_II assembly_tag annotation 7978822 7978883 . + . Note "Single stranded with terminator across" CHROMOSOME_II assembly_tag annotation 7980375 7980378 . + . Note "putative lh end of DH11" CHROMOSOME_II assembly_tag Clone 7980375 7980379 . + . Note "right end: putative Right hand clone for DH11" CHROMOSOME_II assembly_tag annotation 7983950 7983952 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 7984103 7984104 . + . 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 7984882 7984886 . + . Note "Possible point mutation" CHROMOSOME_II assembly_tag annotation 7986761 7986766 . + . Note "RH end of C04H4" CHROMOSOME_II assembly_tag annotation 7995577 7995585 . + . Note "This single read gives a different sequence, possiblly mutation" CHROMOSOME_II assembly_tag annotation 7996354 7996356 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8000325 8000334 . + . CHROMOSOME_II assembly_tag annotation 8002595 8002599 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8003302 8003307 . + . Note "Single read disagreement/mutation " CHROMOSOME_II assembly_tag annotation 8005114 8005123 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8006466 8006490 . + . Note "Deleted clone" CHROMOSOME_II assembly_tag annotation 8006523 8006529 . + . Note "Deleting clone" CHROMOSOME_II assembly_tag annotation 8006936 8006943 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8006951 8006956 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8016041 8016044 . + . Note "left end of C08B11" CHROMOSOME_II assembly_tag annotation 8042262 8042265 . + . Note "beginning of T05H10" CHROMOSOME_II assembly_tag annotation 8044371 8044658 . + . Note "single-stranded with terminators" CHROMOSOME_II assembly_tag annotation 8045482 8045482 . + . Note "point mutation C > A on single read" CHROMOSOME_II assembly_tag annotation 8049747 8049753 . + . Note "2 pcr reads diverge here, but a restriction digest of the cosmid suggests assembly is correct" CHROMOSOME_II assembly_tag annotation 8049845 8049845 . + . CHROMOSOME_II assembly_tag annotation 8056618 8056621 . + . Note "end of C08B11" CHROMOSOME_II assembly_tag annotation 8057063 8057063 . + . Note "point mutation C > G on single read" CHROMOSOME_II assembly_tag annotation 8065050 8065050 . + . Note "point mutation A > G" CHROMOSOME_II assembly_tag annotation 8068844 8068847 . + . Note "beginning of K02C4" CHROMOSOME_II assembly_tag annotation 8068849 8068853 . + . Note "Start of K02C4" CHROMOSOME_II assembly_tag annotation 8069555 8069557 . + . Note "Single read with a point mutation." CHROMOSOME_II assembly_tag annotation 8071990 8071990 . + . Note "Point mutation. " CHROMOSOME_II assembly_tag annotation 8080259 8080261 . + . Note "Point mutatation on read yb53d6 " CHROMOSOME_II assembly_tag annotation 8080578 8080581 . + . Note "Possible point mutation" CHROMOSOME_II assembly_tag annotation 8081161 8081165 . + . Note "End of T05H10" CHROMOSOME_II assembly_tag annotation 8099388 8099392 . + . Note "Start of C41C4" CHROMOSOME_II assembly_tag Clone 8099389 8099392 . + . Note "left end: Start of C41C4" CHROMOSOME_II assembly_tag annotation 8105419 8105424 . + . Note "668 only has 3 A's otherwise fine" CHROMOSOME_II assembly_tag Clone 8105582 8105585 . + . Note "right end: End of K02C4" CHROMOSOME_II assembly_tag annotation 8111829 8111840 . + . Note "This read diverges, but I think it is a mis-ligation as anoSingle read diverges" CHROMOSOME_II assembly_tag annotation 8118022 8118022 . + . Note "Point mutation " CHROMOSOME_II assembly_tag annotation 8121885 8121885 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8122794 8122794 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8124496 8124496 . + . Note "Point Mutation" CHROMOSOME_II assembly_tag annotation 8128537 8128537 . + . Note "missing base" CHROMOSOME_II assembly_tag Clone 8139040 8139043 . + . Note "left end: Start of F10B5" CHROMOSOME_II assembly_tag annotation 8139040 8139043 . + . Note "Left hand end of F10B5." CHROMOSOME_II assembly_tag annotation 8141255 8141258 . + . Note "End of C41C4 @ position 2219" CHROMOSOME_II assembly_tag annotation 8149923 8149923 . + . Note "Point mutation on a single m13 clone. T changed to an A" CHROMOSOME_II assembly_tag annotation 8157492 8157492 . + . Note "Ponit mutation on 2 terminator clones. T changed to a C" CHROMOSOME_II assembly_tag annotation 8164447 8164447 . + . Note "Point mutation on a single m13 clone. T changed to an A." CHROMOSOME_II assembly_tag annotation 8165692 8165692 . + . Note "One clone has a missing C." CHROMOSOME_II assembly_tag annotation 8166042 8166042 . + . Note "Two clones have a point mutation. A changed to a G." CHROMOSOME_II assembly_tag annotation 8168071 8168074 . + . Note "End of F10B5. (T05C12??? - SJJ)" CHROMOSOME_II assembly_tag Clone 8168071 8168074 . + . Note "left end: left end T05C12" CHROMOSOME_II assembly_tag annotation 8182473 8182473 . + . Note "Point Mutation on 188 A changed for C" CHROMOSOME_II assembly_tag Clone 8183249 8183252 . + . Note "right end: right hand end of F10B5" CHROMOSOME_II assembly_tag Clone 8201751 8201754 . + . Note "left end: left hand end of M110" CHROMOSOME_II assembly_tag Clone 8201751 8201754 . + . Note "left end: beginning of M110" CHROMOSOME_II assembly_tag Clone 8206630 8206633 . + . Note "right end: end of T05C12" CHROMOSOME_II assembly_tag annotation 8229597 8229856 . + . Note "single-stranded with terms" CHROMOSOME_II assembly_tag annotation 8230035 8230138 . + . Note "ss with terms" CHROMOSOME_II assembly_tag Clone 8235730 8235733 . + . Note "left end: beginning of F35C11" CHROMOSOME_II assembly_tag Clone 8235730 8235733 . + . Note "left end: LH of f35c11" CHROMOSOME_II assembly_tag Clone 8242955 8242958 . + . Note "right end: right hand end of M110" CHROMOSOME_II assembly_tag annotation 8242955 8242958 . + . Note "end of m110" CHROMOSOME_II assembly_tag annotation 8244707 8244710 . + . Note "4 bases single stranded with -ve termimator across " CHROMOSOME_II assembly_tag Clone 8250867 8250870 . + . Note "left end: Left hand end of K01C8." CHROMOSOME_II assembly_tag annotation 8261077 8261081 . + . 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 8261078 8261081 . + . Note "Editing for K01C8 starts here @ position 15674" CHROMOSOME_II assembly_tag annotation 8262576 8262576 . + . Note "point mutation, 2 reads have C at this position." CHROMOSOME_II assembly_tag annotation 8262621 8262621 . + . Note "point mutation 3 reads have G at this point." CHROMOSOME_II assembly_tag annotation 8262637 8262637 . + . Note "point mutation 3 reads have T at tthis point." CHROMOSOME_II assembly_tag annotation 8262651 8262651 . + . Note "point mutation three reads have T at this point." CHROMOSOME_II assembly_tag annotation 8262693 8262700 . + . Note "These 8 bases are not double stranded but there is a terminator there to check for compressions." CHROMOSOME_II assembly_tag annotation 8262724 8262724 . + . Note "point mutation 1 read has a T here" CHROMOSOME_II assembly_tag annotation 8262955 8262955 . + . Note "point mutation 2 reads have an A at this point." CHROMOSOME_II assembly_tag annotation 8262971 8262971 . + . Note "point mutation 1 read has a C here" CHROMOSOME_II assembly_tag annotation 8263016 8263016 . + . Note "point mutation 3 reads have an A here" CHROMOSOME_II assembly_tag annotation 8268053 8268053 . + . Note "point mutation 1 read has a G" CHROMOSOME_II assembly_tag Clone 8271599 8271602 . + . Note "right end: Right hand end of F35C11 @ position 26198 " CHROMOSOME_II assembly_tag annotation 8277221 8277267 . + . Note "These 48 bases are not double stranded but threre is terminator there to check for compressions." CHROMOSOME_II assembly_tag Finished 8285703 8285706 . + . Note "Left: Y1E3A" CHROMOSOME_II assembly_tag Clone 8285799 8285802 . + . Note "right end: K01C8" CHROMOSOME_II assembly_tag Clone 8285799 8285802 . + . Note "right end: Right hand end of K01C8 @ position 40398 " CHROMOSOME_II assembly_tag annotation 8288333 8292880 . + . 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 8293835 8293835 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8293835 8293838 . + . Note "left end: beginning of F14F11" CHROMOSOME_II assembly_tag Clone 8293835 8293838 . + . Note "left end: F14F11" CHROMOSOME_II assembly_tag annotation 8293835 8293875 . + . Note "awaiting pcr from YAC to bridge gap between 2 cosmids and double-strand this region" CHROMOSOME_II assembly_tag Finished 8293931 8293934 . + . Note "Right: Y1E3A" CHROMOSOME_II assembly_tag annotation 8295776 8295776 . + . Note "point mutation T > G on single read" CHROMOSOME_II assembly_tag annotation 8295978 8295978 . + . Note "pt mutation A > T on a single read" CHROMOSOME_II assembly_tag Clone 8300326 8300326 . + . Note "right end: O.K.?" CHROMOSOME_II assembly_tag Finished 8319077 8319077 . + . Note "Left: Finish starts here." CHROMOSOME_II assembly_tag Clone 8319077 8319080 . + . Note "left end: beginning of C26D10" CHROMOSOME_II assembly_tag Clone 8319077 8319080 . + . Note "left end: Left hand end of C26D10." CHROMOSOME_II assembly_tag Finished 8319184 8319184 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8331144 8331147 . + . Note "right end: Possibly the Right hand end of F14F11." CHROMOSOME_II assembly_tag Finished 8351528 8351528 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8351528 8351531 . + . Note "left end: Left hand end of M195." CHROMOSOME_II assembly_tag Clone 8351528 8351531 . + . Note "left end: left end of M195" CHROMOSOME_II assembly_tag Finished 8351627 8351627 . + . Note "Right: Finished up to here." CHROMOSOME_II assembly_tag Clone 8362679 8362682 . + . Note "right end: rh end of C26D10" CHROMOSOME_II assembly_tag Clone 8377394 8377397 . + . Note "left end: F49E12" CHROMOSOME_II assembly_tag Clone 8377394 8377397 . + . Note "left end: left end of F49E12" CHROMOSOME_II assembly_tag Finished 8377497 8377497 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8392648 8392651 . + . Note "right end: right end of M191" CHROMOSOME_II assembly_tag Clone 8401913 8401916 . + . Note "left end: lh end of F14F11" CHROMOSOME_II assembly_tag Clone 8417840 8417843 . + . Note "right end: right end of F49E12" CHROMOSOME_II assembly_tag Clone 8417840 8417843 . + . Note "right end: right end of F49E12" CHROMOSOME_II assembly_tag Clone 8442354 8442357 . + . Note "left end: Beginning of F22B5 Edit starts here." CHROMOSOME_II assembly_tag Clone 8442354 8442357 . + . Note "left end: ?left hand end F22B5" CHROMOSOME_II assembly_tag annotation 8442354 8442364 . + . Note "These 11 bases are not double stranded, but they have a terminator to check for compressions." CHROMOSOME_II assembly_tag Clone 8446960 8446963 . + . Note "right end: Right hand end of F14E5." CHROMOSOME_II assembly_tag annotation 8448108 8448112 . + . Note "Two positve walks showed TGGG-G here. The negative clones all read TTTTT. Edited to TTTTT" CHROMOSOME_II assembly_tag annotation 8449246 8449246 . + . Note "One terminator reads a G here. All other reads including a terminator walk show a C here. " CHROMOSOME_II assembly_tag annotation 8455347 8455363 . + . Note "These 17 bases are not double stranded but they have terminators across them to check for compressions." CHROMOSOME_II assembly_tag Finished 8468076 8468079 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8468076 8468079 . + . Note "left end: Left hand end of M05D6." CHROMOSOME_II assembly_tag Clone 8468076 8468079 . + . Note "left end: Start of M05D6 (lh)" CHROMOSOME_II assembly_tag annotation 8470373 8470373 . + . Note "missing base" CHROMOSOME_II assembly_tag annotation 8481316 8481316 . + . Note "missing base" CHROMOSOME_II assembly_tag annotation 8483982 8483982 . + . Note "point mutation" CHROMOSOME_II assembly_tag Clone 8484074 8484077 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 8488616 8488616 . + . Note "edited to A on basis of forward read and additional long gel not entered into database" CHROMOSOME_II assembly_tag annotation 8492405 8492448 . + . Note "single stranded with terms" CHROMOSOME_II assembly_tag annotation 8492517 8492642 . + . Note "single-stranded with term across" CHROMOSOME_II assembly_tag Finished 8496540 8496540 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8496540 8496543 . + . Note "left end: T13H5" CHROMOSOME_II assembly_tag Clone 8496540 8496543 . + . Note "left end: left end of T13H5" CHROMOSOME_II assembly_tag Finished 8496637 8496642 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 8496758 8496758 . + . Note "Point mutation " CHROMOSOME_II assembly_tag Clone 8509341 8509344 . + . Note "right end: M05D6 right end" CHROMOSOME_II assembly_tag annotation 8510130 8510130 . + . Note "Point mutation? yes" CHROMOSOME_II assembly_tag annotation 8512610 8512610 . + . Note "point mutation T > A on single read" CHROMOSOME_II assembly_tag annotation 8522499 8522499 . + . 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 8522605 8522605 . + . 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 8522639 8522639 . + . 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 8523758 8523759 . + . Note "Point mutation" CHROMOSOME_II assembly_tag annotation 8530869 8530869 . + . Note "Point mutation" CHROMOSOME_II assembly_tag Finished 8532276 8532276 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8532343 8532346 . + . Note "right end: T13H5" CHROMOSOME_II assembly_tag Clone 8532343 8532346 . + . Note "right end: T13H5" CHROMOSOME_II assembly_tag Finished 8532346 8532346 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8532650 8532653 . + . Note "left end: W01C9 left hand end." CHROMOSOME_II assembly_tag Clone 8532650 8532653 . + . Note "left end: W01C9" CHROMOSOME_II assembly_tag annotation 8532650 8532662 . + . Note "These 13 bases are not double stranded but they have a terminator across them to check for compressions." CHROMOSOME_II assembly_tag Finished 8532750 8532750 . + . Note "Right: " CHROMOSOME_II assembly_tag repeat 8533193 8533256 . + . CHROMOSOME_II assembly_tag repeat 8533193 8533257 . + . CHROMOSOME_II assembly_tag annotation 8534682 8534702 . + . Note "These 21 bases are not double standed. They have a terminator to check the sequenece for any compressions." CHROMOSOME_II assembly_tag repeat 8534764 8534794 . + . CHROMOSOME_II assembly_tag repeat 8534764 8534807 . + . CHROMOSOME_II assembly_tag repeat 8534777 8534820 . + . CHROMOSOME_II assembly_tag repeat 8534790 8534820 . + . CHROMOSOME_II assembly_tag annotation 8535535 8535590 . + . Note "Position 2890 - 2945 is not double stranded. This area has a terminator to check for compressions. " CHROMOSOME_II assembly_tag Clone 8554042 8554045 . + . Note "left end: Left hand end of F54C9" CHROMOSOME_II assembly_tag Clone 8554042 8554045 . + . Note "left end: Left hand end of F54C9." CHROMOSOME_II assembly_tag Clone 8565168 8565175 . + . Note "right end: Right hand end of W01C9." CHROMOSOME_II assembly_tag annotation 8570875 8570885 . + . Note "These 11 bases are not double stranded but they ahve a terminator across them to check for compressions." CHROMOSOME_II assembly_tag annotation 8570952 8570964 . + . Note "These 13 bases are not double stranded but have a terminator to check for compressions." CHROMOSOME_II assembly_tag annotation 8582094 8582094 . + . Note "One clone when terminated shows a clear C here, all other clones show an A." CHROMOSOME_II assembly_tag Finished 8588774 8588774 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8588880 8588883 . + . Note "right end: F54C9 " CHROMOSOME_II assembly_tag Clone 8588880 8588883 . + . Note "right end: Right hand end of F54C9" CHROMOSOME_II assembly_tag annotation 8594539 8594539 . + . Note "point mutation on yo16h12" CHROMOSOME_II assembly_tag Clone 8612709 8612712 . + . Note "left end: left end of T22C8" CHROMOSOME_II assembly_tag Clone 8612709 8612712 . + . Note "left end: T22C8" CHROMOSOME_II assembly_tag Finished 8612805 8612805 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 8615313 8615313 . + . Note "point mutation T > C" CHROMOSOME_II assembly_tag Clone 8617994 8617997 . + . Note "right end: right end of T18F6" CHROMOSOME_II assembly_tag Finished 8640363 8640363 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8640363 8640366 . + . Note "left end: left end of D2085" CHROMOSOME_II assembly_tag Clone 8640363 8640366 . + . Note "left end: left end of D2085" CHROMOSOME_II assembly_tag Clone 8648936 8648939 . + . Note "right end: end of T22C8" CHROMOSOME_II assembly_tag Clone 8672180 8672183 . + . Note "left end: Left end of C34C6" CHROMOSOME_II assembly_tag Clone 8672180 8672183 . + . Note "left end: left end of C34C6" CHROMOSOME_II assembly_tag Finished 8672286 8672286 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8680822 8680825 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 8680823 8680826 . + . Note "right end: D2085" CHROMOSOME_II assembly_tag annotation 8708082 8708135 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 8711318 8711321 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 8711322 8711491 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag Clone 8711560 8711563 . + . Note "left end: beginning of T01B7 " CHROMOSOME_II assembly_tag Clone 8711560 8711563 . + . Note "left end: T01B7" CHROMOSOME_II assembly_tag Clone 8711560 8711563 . + . Note "left end: Left hand end of T01B7. " CHROMOSOME_II assembly_tag Clone 8715231 8715234 . + . 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 8716025 8716041 . + . Note "These 17 bases are not double stranded but they have a terminator to check for compressions." CHROMOSOME_II assembly_tag Finished 8737640 8737640 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8737640 8737643 . + . Note "left end: left end of K08F8" CHROMOSOME_II assembly_tag Clone 8737640 8737643 . + . Note "left end: Left hand end of K08F8." CHROMOSOME_II assembly_tag Clone 8750154 8750157 . + . Note "right end: right hand end of T01B7" CHROMOSOME_II assembly_tag Finished 8778785 8778785 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8778882 8778885 . + . Note "right end: probable right end of K08F8" CHROMOSOME_II assembly_tag Clone 8778882 8778885 . + . Note "right end: right end of K08F8" CHROMOSOME_II assembly_tag Finished 8778885 8778885 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8809914 8809914 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8810011 8810014 . + . Note "right end: F07H5" CHROMOSOME_II assembly_tag Clone 8810011 8810014 . + . Note "right end: F07H5" CHROMOSOME_II assembly_tag Finished 8810014 8810014 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8810076 8810079 . + . Note "left end: F46C5" CHROMOSOME_II assembly_tag Finished 8810176 8810176 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8842069 8842069 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8842069 8842072 . + . Note "left end: T14D7" CHROMOSOME_II assembly_tag Clone 8842069 8842072 . + . Note "left end: left end of T14D7" CHROMOSOME_II assembly_tag Clone 8850975 8850978 . + . Note "right end: F46C5" CHROMOSOME_II assembly_tag Clone 8862761 8862764 . + . Note "left end: T07D4" CHROMOSOME_II assembly_tag Clone 8862761 8862766 . + . Note "left end: Left hand end of T07D4" CHROMOSOME_II assembly_tag repeat 8862761 8862909 . + . CHROMOSOME_II assembly_tag repeat 8862761 8863108 . + . CHROMOSOME_II assembly_tag cosmid 8862761 8862764 . - . Note "vector: " CHROMOSOME_II assembly_tag Finished 8862861 8862861 . + . Note "Right: " CHROMOSOME_II assembly_tag repeat 8862910 8863106 . + . CHROMOSOME_II assembly_tag repeat 8863199 8863455 . + . CHROMOSOME_II assembly_tag Comment 8869487 8869496 . + . 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 8871360 8871373 . - . Note "vector: " CHROMOSOME_II assembly_tag cosmid 8878273 8878273 . + . Note "vector: " CHROMOSOME_II assembly_tag Comment 8878677 8878685 . + . Note "do + term" CHROMOSOME_II assembly_tag Clone 8880351 8880354 . + . Note "right end: right end of T14D7" CHROMOSOME_II assembly_tag Comment 8881612 8881643 . + . Note "ds" CHROMOSOME_II assembly_tag Finished 8885184 8885184 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8885184 8885187 . + . Note "left end: left end of B0457" CHROMOSOME_II assembly_tag Clone 8885184 8885187 . + . Note "left end: left end of B0457" CHROMOSOME_II assembly_tag Comment 8885459 8885462 . + . Note "edit to TTTC on strength of 169" CHROMOSOME_II assembly_tag comment 8885865 8885866 . - . Note "?" CHROMOSOME_II assembly_tag Comment 8886285 8886291 . + . Note "do yf62a6 as a term to sort out compression and hopefully ds" CHROMOSOME_II assembly_tag comment 8889168 8889171 . + . Note "end of Becky's bit" CHROMOSOME_II assembly_tag Clone 8897135 8897138 . + . Note "right end: right hand end of T07D4" CHROMOSOME_II assembly_tag Finished 8925714 8925717 . + . Note "Left: VT21B10L" CHROMOSOME_II assembly_tag Clone 8925814 8925817 . + . Note "right end: right hand end of B0457" CHROMOSOME_II assembly_tag Clone 8925814 8925817 . + . Note "right end: B0457" CHROMOSOME_II assembly_tag Finished 8925817 8925817 . + . Note "Right: " CHROMOSOME_II assembly_tag Finished 8928491 8928491 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8928491 8928494 . + . Note "left end: left end of T21B10" CHROMOSOME_II assembly_tag Clone 8928491 8928494 . + . Note "left end: T21B10" CHROMOSOME_II assembly_tag Finished 8928591 8928594 . + . Note "Right: VT21B10L" CHROMOSOME_II assembly_tag annotation 8948498 8948504 . + . Note "?misligation??" CHROMOSOME_II assembly_tag Finished 8960188 8960188 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 8960188 8960191 . + . Note "left end: left end of C18E9?" CHROMOSOME_II assembly_tag Clone 8960188 8960191 . + . Note "left end: Left hand end of C18E9." CHROMOSOME_II assembly_tag Finished 8960290 8960290 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 8964672 8964675 . + . Note "right end: Right hand end of T21B10." CHROMOSOME_II assembly_tag annotation 8966703 8966703 . + . Note "Point mutation, a single clone has swapped from an A to a G." CHROMOSOME_II assembly_tag annotation 8974718 8974723 . + . 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 8975892 8976229 . + . 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 8976004 8976004 . + . Note "position 15816 either C or A" CHROMOSOME_II assembly_tag annotation 8976718 8976987 . + . Note "This area in the tandem repeat region is not double stranded or terminated." CHROMOSOME_II assembly_tag annotation 8977703 8977986 . + . 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 8980262 8980267 . + . 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 8994111 8994114 . + . Note "left end: Left hand end of F44G4." CHROMOSOME_II assembly_tag Clone 8994111 8994114 . + . Note "left end: Left hand end of F44G4." CHROMOSOME_II assembly_tag Finished 8994211 8994211 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9005440 9005443 . + . Note "right end: Right hand end of C18E9." CHROMOSOME_II assembly_tag Clone 9016552 9016555 . + . Note "left end: Left hand end of F37B12." CHROMOSOME_II assembly_tag Clone 9033526 9033529 . + . Note "right end: right end of F44G4" CHROMOSOME_II assembly_tag Finished 9050313 9050313 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9050313 9050316 . + . Note "left end: T24B8" CHROMOSOME_II assembly_tag annotation 9052741 9052809 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 9052809 9052896 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9052896 9052897 . + . CHROMOSOME_II assembly_tag Clone 9056426 9056429 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 9058697 9058817 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9058818 9058887 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9060666 9060906 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag Clone 9061454 9061457 . + . Note "left end: left end of C07H4" CHROMOSOME_II assembly_tag annotation 9063963 9063970 . + . 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 9066512 9066583 . + . Note "single stranded with term" CHROMOSOME_II assembly_tag annotation 9066583 9066655 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9066656 9066939 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9066939 9067173 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9067353 9067671 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9067672 9067952 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9068046 9068302 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9068302 9068607 . + . CHROMOSOME_II assembly_tag annotation 9068608 9068702 . + . CHROMOSOME_II assembly_tag Finished 9088991 9088991 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9089088 9089091 . + . Note "right end: T24B8" CHROMOSOME_II assembly_tag Clone 9089088 9089091 . + . Note "right end: T24B8" CHROMOSOME_II assembly_tag Finished 9089091 9089091 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 9090382 9090411 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag annotation 9091340 9091359 . + . Note "single stranded with terminators" CHROMOSOME_II assembly_tag annotation 9091364 9091372 . + . 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 9091372 9091488 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9091489 9091723 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9091724 9091750 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9092346 9092550 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9092551 9092618 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9093656 9093719 . + . Note "singles stranded" CHROMOSOME_II assembly_tag annotation 9094907 9095025 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9096743 9096811 . + . Note "single stranded with terminator" CHROMOSOME_II assembly_tag annotation 9096944 9096964 . + . CHROMOSOME_II assembly_tag annotation 9096958 9096959 . + . Note "two g's but yg45g6 shows a point mutation " CHROMOSOME_II assembly_tag annotation 9096964 9097114 . + . Note "single stranded" CHROMOSOME_II assembly_tag annotation 9097115 9097202 . + . Note "single stranded" CHROMOSOME_II assembly_tag Finished 9097203 9097203 . + . Note "Left: T24H10" CHROMOSOME_II assembly_tag Clone 9097203 9097206 . + . Note "left end: T24H10" CHROMOSOME_II assembly_tag Clone 9097203 9097206 . + . Note "left end: T24H10" CHROMOSOME_II assembly_tag Finished 9097303 9097303 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9097942 9097945 . + . Note "left end: C16D2" CHROMOSOME_II assembly_tag annotation 9112284 9112284 . + . Note "Point mutation" CHROMOSOME_II assembly_tag Finished 9131771 9131774 . + . Note "Left: C16D2" CHROMOSOME_II assembly_tag Clone 9131867 9131870 . + . Note "right end: T24H10" CHROMOSOME_II assembly_tag Clone 9131867 9131870 . + . Note "right end: T24H10" CHROMOSOME_II assembly_tag Finished 9131870 9131870 . + . Note "Right: T24H10" CHROMOSOME_II assembly_tag Finished 9142658 9142661 . + . Note "Left: Y9C2UA" CHROMOSOME_II assembly_tag Finished 9142754 9142757 . + . Note "Right: C16D2" CHROMOSOME_II assembly_tag Clone 9142754 9142757 . + . Note "right end: C16D2" CHROMOSOME_II assembly_tag Clone 9142754 9142757 . - . Note "right end: C16D2" CHROMOSOME_II assembly_tag Clone 9148593 9148596 . + . Note "left end: W07A12" CHROMOSOME_II assembly_tag Finished 9148689 9148692 . + . Note "Right: Y9C2UA" CHROMOSOME_II assembly_tag Finished 9164716 9164716 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9164716 9164719 . + . Note "left end: left end of T23G7" CHROMOSOME_II assembly_tag Clone 9171321 9171324 . + . Note "right end: rh end of W07A12" CHROMOSOME_II assembly_tag Finished 9184548 9184548 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9184548 9184551 . + . Note "left end: ZK1067" CHROMOSOME_II assembly_tag Clone 9184548 9184551 . + . Note "left end: left end of ZK1067" CHROMOSOME_II assembly_tag Finished 9184649 9184649 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9200577 9200580 . + . Note "right end: right end of T23G7" CHROMOSOME_II assembly_tag Clone 9216159 9216162 . + . Note "left end: left end ofT26C5" CHROMOSOME_II assembly_tag Finished 9227223 9227223 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 9227322 9227325 . + . Note "right end: Right hand end of ZK1067." CHROMOSOME_II assembly_tag Clone 9227322 9227325 . + . Note "right end: right end of ZK1067" CHROMOSOME_II assembly_tag Finished 9227325 9227325 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 9248489 9248491 . + . Note "One clone has these 3 bases missing (gtg)." CHROMOSOME_II assembly_tag Finished 9252619 9252622 . + . Note "Left: H32K21" CHROMOSOME_II assembly_tag Clone 9252770 9252773 . + . Note "right end: T26C5" CHROMOSOME_II assembly_tag Clone 9252770 9252773 . + . Note "right end: Right hand end of T26C5." CHROMOSOME_II assembly_tag Finished 9252773 9252773 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 9256258 9256261 . + . Note "left end: C01G6" CHROMOSOME_II assembly_tag Clone 9256258 9256261 . + . Note "left end: C01G6" CHROMOSOME_II assembly_tag annotation 9256258 9256266 . + . Note "start of C01G6" CHROMOSOME_II assembly_tag Finished 9256358 9256361 . + . Note "Right: H32K21" CHROMOSOME_II assembly_tag annotation 9275539 9275556 . + . Note "start of C14B2" CHROMOSOME_II assembly_tag annotation 9298450 9298469 . + . Note "end of C01G6" CHROMOSOME_II assembly_tag annotation 9299514 9299531 . + . Note "beginning of D2013" CHROMOSOME_II assembly_tag annotation 9321136 9321165 . + . Note "end of C14B2" CHROMOSOME_II assembly_tag annotation 9340354 9340380 . + . Note "F42A8 starts here" CHROMOSOME_II assembly_tag annotation 9343518 9343539 . + . Note "Overlap with D2013 ends here, and F42A8 unique sequence begins." CHROMOSOME_II assembly_tag annotation 9345387 9345387 . + . Note "Point mutation G on the trace should be an A." CHROMOSOME_II assembly_tag annotation 9347715 9347718 . + . CHROMOSOME_II assembly_tag annotation 9347719 9347736 . + . Note "Base calling not clear, PCR product used to double strand." CHROMOSOME_II assembly_tag annotation 9348131 9348208 . + . Note "Base calling not too clear on +ve PCR product." CHROMOSOME_II assembly_tag annotation 9348364 9348364 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348581 9348581 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348588 9348588 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348618 9348618 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348733 9348745 . + . 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 9348789 9348789 . + . Note "Point mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9348876 9348876 . + . Note "Point mutation on trace due to PCR subclone." CHROMOSOME_II assembly_tag annotation 9348878 9348878 . + . Note "Trace differs due to point mutation of PCR subclone." CHROMOSOME_II assembly_tag annotation 9348911 9348911 . + . Note "Base insertion due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9349136 9349137 . + . Note "Ponit mutation on trace due to PCR subclone" CHROMOSOME_II assembly_tag annotation 9351806 9351814 . + . Note "F42A8 unique sequence ends, and overlap with C06C3 begins." CHROMOSOME_II assembly_tag annotation 9361533 9361537 . + . 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 9378490 9378509 . + . Note "end of F42A8/start of unique C06C3" CHROMOSOME_II assembly_tag annotation 9391444 9391446 . + . Note "3 bases lacking + strand TA repeat region Opposite strand (-) has been terminated" CHROMOSOME_II assembly_tag Finished 9393689 9393692 . + . Note "Left: Y51B9A" CHROMOSOME_II assembly_tag annotation 9393776 9393792 . + . Note "next to YAC bridge, no cosmid overlap" CHROMOSOME_II assembly_tag Clone 9393789 9393792 . + . Note "right end: C06C3" CHROMOSOME_II assembly_tag annotation 9403818 9403872 . + . 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 9404986 9404988 . + . 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 annotation 9409991 9409994 . + . Note "START OF M176" CHROMOSOME_II assembly_tag Clone 9409991 9409994 . + . Note "left end: M176" CHROMOSOME_II assembly_tag Clone 9409991 9409994 . + . Note "left end: M176" CHROMOSOME_II assembly_tag Finished 9410092 9410095 . + . Note "Right: Y51B9A" CHROMOSOME_II assembly_tag Clone 9438107 9438112 . + . Note "left end: R09D1" CHROMOSOME_II assembly_tag Clone 9438107 9438112 . + . Note "left end: Left end of R09D1 " CHROMOSOME_II assembly_tag Finished 9438207 9438210 . + . Note "Right: M176" CHROMOSOME_II assembly_tag Clone 9453304 9453307 . + . Note "right end: Right end of M176 " CHROMOSOME_II assembly_tag annotation 9455635 9455677 . + . 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 9457842 9457992 . + . 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 9467632 9467635 . + . Note "beginning of T19H5" CHROMOSOME_II assembly_tag Clone 9467632 9467635 . + . Note "left end: Left end of T19H5. " CHROMOSOME_II assembly_tag annotation 9470495 9470500 . + . Note "pJB8 RH end of R09D1" CHROMOSOME_II assembly_tag annotation 9498344 9498349 . + . Note "LH end of R134 pJB8 vector" CHROMOSOME_II assembly_tag annotation 9498344 9498349 . + . Note "beginning of R134" CHROMOSOME_II assembly_tag annotation 9502851 9502854 . + . Note "end of T19H5" CHROMOSOME_II assembly_tag annotation 9512470 9512473 . + . Note "beginning AH6" CHROMOSOME_II assembly_tag annotation 9512473 9512473 . + . Note "beginning AH6" CHROMOSOME_II assembly_tag annotation 9542492 9542497 . + . Note "end of R134" CHROMOSOME_II assembly_tag annotation 9550158 9550161 . + . Note "beginning of F35H8" CHROMOSOME_II assembly_tag annotation 9550158 9550173 . + . Note "beginning of F35H8" CHROMOSOME_II assembly_tag annotation 9553379 9553403 . + . Note "end of AH6" CHROMOSOME_II assembly_tag annotation 9563106 9563176 . + . Note "poor coverage over this region : unique sequence between 2 elements of a large inverted repeat" CHROMOSOME_II assembly_tag annotation 9563477 9563477 . + . Note "in a single read from a PCR product of an M13 clone, this C is replaced by T" CHROMOSOME_II assembly_tag annotation 9565115 9565128 . + . Note "beginning of E02H1" CHROMOSOME_II assembly_tag annotation 9567560 9567762 . + . 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 9568188 9568245 . + . 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 9588537 9588540 . + . Note "end of F35H8 start of unique E02H1" CHROMOSOME_II assembly_tag annotation 9595291 9595294 . + . Note "beginning of T15H9 end of unique E02H1" CHROMOSOME_II assembly_tag annotation 9603015 9603036 . + . Note "end of E02H1" CHROMOSOME_II assembly_tag annotation 9603029 9603032 . + . Note "end of E02H1" CHROMOSOME_II assembly_tag annotation 9622916 9622926 . + . Note "beginning of ZK1307" CHROMOSOME_II assembly_tag cosmid 9629623 9629645 . + . Note "vector: end of T15H9 overlap" CHROMOSOME_II assembly_tag annotation 9630010 9630010 . + . Note "one clone has T at this position rather than G (2 clones)" CHROMOSOME_II assembly_tag annotation 9630010 9630010 . + . Note "this clone has a T rather than a G" CHROMOSOME_II assembly_tag annotation 9631624 9631624 . + . Note "one clone (xc35g3) missing a T in this position" CHROMOSOME_II assembly_tag cosmid 9655908 9655912 . + . Note "vector: " CHROMOSOME_II assembly_tag annotation 9655908 9655931 . + . Note "Beginning of ZK1320" CHROMOSOME_II assembly_tag annotation 9655908 9655931 . + . Note "Beginning of ZK1320" CHROMOSOME_II assembly_tag annotation 9658748 9658763 . + . Note "end of ZK1307" CHROMOSOME_II assembly_tag Finished 9691790 9691793 . + . Note "Left: Y53C12A" CHROMOSOME_II assembly_tag Finished 9691790 9691800 . + . Note "Left: Y53C12A" CHROMOSOME_II assembly_tag Clone 9691893 9691896 . - . Note "right end: ZK1320" CHROMOSOME_II assembly_tag annotation 9699549 9699557 . + . Note "[ ] Tandem repeat \n[ ] Single clone region \n[ ] Forced join \n[ ] Other \nComment\n" CHROMOSOME_II assembly_tag Clone 9715353 9715356 . - . Note "right end: H32E01" CHROMOSOME_II assembly_tag Finished 9718502 9718505 . + . Note "Left: Y53C12D" CHROMOSOME_II assembly_tag Finished 9718502 9718505 . + . Note "Left: Y53C12D" CHROMOSOME_II assembly_tag Finished 9718610 9718618 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag Finished 9718615 9718618 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag Finished 9718615 9718618 . - . Note "Right: Y53C12A" CHROMOSOME_II assembly_tag annotation 9718829 9719618 . + . 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 9719891 9719894 . + . Note "Left: Y53C12B" CHROMOSOME_II assembly_tag Finished 9719891 9719894 . + . Note "Left: Y53C12B" CHROMOSOME_II assembly_tag Finished 9719993 9719997 . - . Note "Right: Y53C12D" CHROMOSOME_II assembly_tag Finished 9719993 9719997 . - . Note "Right: Y53C12D" CHROMOSOME_II assembly_tag annotation 9726097 9726109 . + . Note "single clone. base accuracy cannot\nbe guaranteed." CHROMOSOME_II assembly_tag annotation 9736836 9736837 . - . Note "some clones read 1 T here" CHROMOSOME_II assembly_tag Clone 9753182 9753185 . + . Note "left end: ZK1321" CHROMOSOME_II assembly_tag annotation 9753182 9753185 . + . Note "Lorist 6 Beginning of ZK1321 " CHROMOSOME_II assembly_tag Finished 9753293 9753296 . - . Note "Right: Y53C12B" CHROMOSOME_II assembly_tag Clone 9771910 9771913 . + . Note "left end: Beginning of T10B9" CHROMOSOME_II assembly_tag annotation 9771910 9771914 . + . Note "Lorist 2 Beginning of T10B9" CHROMOSOME_II assembly_tag Clone 9795083 9795086 . + . Note "right end: End of ZK1321" CHROMOSOME_II assembly_tag Finished 9806681 9806686 . + . Note "Left: Y53C12C" CHROMOSOME_II assembly_tag Clone 9806787 9806790 . + . Note "right end: End of T10B9" CHROMOSOME_II assembly_tag Clone 9806787 9806790 . - . Note "right end: T10B9" CHROMOSOME_II assembly_tag annotation 9807875 9825279 . + . 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 9830180 9830183 . + . Note "left end: Beginning of ZK938" CHROMOSOME_II assembly_tag Clone 9830180 9830183 . + . Note "left end: ZK938" CHROMOSOME_II assembly_tag Finished 9830281 9830287 . - . Note "Right: Y53C12C" CHROMOSOME_II assembly_tag Clone 9831626 9831629 . + . Note "right end: End of ZK1325" CHROMOSOME_II assembly_tag annotation 9839661 9839661 . + . 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 9849581 9849581 . + . 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 9852050 9852053 . + . Note "left end: BEGINNING C08H9" CHROMOSOME_II assembly_tag Clone 9852050 9852053 . + . Note "left end: Beginning of C08H9" CHROMOSOME_II assembly_tag Clone 9869491 9869494 . + . Note "right end: End of ZK938" CHROMOSOME_II assembly_tag Clone 9894228 9894231 . + . Note "left end: Beginning of F26C11" CHROMOSOME_II assembly_tag annotation 9894228 9894231 . + . CHROMOSOME_II assembly_tag annotation 9894228 9894231 . + . Note "Overlap with F26C11" CHROMOSOME_II assembly_tag annotation 9894228 9894231 . + . Note "Beginning of F26C11 " CHROMOSOME_II assembly_tag annotation 9895276 9895279 . + . Note "End of C08H9, begining of F26C11 unique." CHROMOSOME_II assembly_tag Clone 9916298 9916301 . + . Note "left end: C05C10" CHROMOSOME_II assembly_tag annotation 9916298 9916301 . + . Note "Begining of C05C10" CHROMOSOME_II assembly_tag annotation 9916298 9916301 . + . Note "Begining of C05C10, end of unique sequence of F26C11 " CHROMOSOME_II assembly_tag Clone 9929215 9929218 . + . Note "right end: end of F26C11" CHROMOSOME_II assembly_tag annotation 9931499 9931500 . + . Note "unclear 2 or 3 G's terminate +ve" CHROMOSOME_II assembly_tag Clone 9942460 9942465 . + . Note "left end: R53" CHROMOSOME_II assembly_tag Clone 9942460 9942465 . + . Note "left end: Start of R53 reads. pJB8 vector" CHROMOSOME_II assembly_tag annotation 9955418 9955466 . + . Note "poor d.s. but sequence confirmed by terminator read on other strand" CHROMOSOME_II assembly_tag Clooe 9955956 9955959 . + . Note "right end: End of C05C10 reads." CHROMOSOME_II assembly_tag annotation 9966277 9966312 . + . Note "no -ve d.s 23218 to 23255 (37bp) see +ve term to confirm" CHROMOSOME_II assembly_tag annotation 9970720 9970757 . + . Note "poor quality d.s. but confirmed by terminator on other strand (approx 40bp)" CHROMOSOME_II assembly_tag repeat 9975325 9975326 . + . CHROMOSOME_II assembly_tag repeat 9975365 9975366 . + . CHROMOSOME_II assembly_tag Clone 9977599 9977602 . + . Note "left end: Beginning of ZK892" CHROMOSOME_II assembly_tag Clone 9977599 9977602 . + . Note "left end: Start of ZK892" CHROMOSOME_II assembly_tag Clone 9985159 9985164 . + . Note "right end: End of R53" CHROMOSOME_II assembly_tag annotation 9985732 9985743 . + . Note "edited to highest number of T's" CHROMOSOME_II assembly_tag annotation 10004953 10004953 . + . 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 10008685 10008688 . + . Note "left end: Beginning of F52H3" CHROMOSOME_II assembly_tag Clone 10008685 10008688 . + . Note "left end: beginning of F52H3" CHROMOSOME_II assembly_tag Clone 10016083 10016086 . + . Note "right end: end of ZK892" CHROMOSOME_II assembly_tag annotation 10018987 10018998 . + . 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 10019008 10019090 . + . 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 10022788 10022990 . + . 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 10022990 10023299 . + . 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 10023300 10023722 . + . 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 10023721 10023777 . + . 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 10023722 10024113 . + . 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 10033290 10033291 . + . Note "A single M13 read was missing 2bp (CA) All other reads (5 +/6-) agree" CHROMOSOME_II assembly_tag Clone 10051217 10051220 . + . Note "left end: beginning of C18D1" CHROMOSOME_II assembly_tag annotation 10051217 10051220 . + . Note "beginning of C18D1" CHROMOSOME_II assembly_tag annotation 10053194 10053197 . + . Note "end of F52H3" CHROMOSOME_II assembly_tag annotation 10056827 10056832 . + . 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 annotation 10093423 10093426 . + . Note "beginning of ZK945" CHROMOSOME_II assembly_tag Clone 10093423 10093426 . + . Note "left end: Start of ZK945. " CHROMOSOME_II assembly_tag annotation 10093518 10093526 . + . Note "?edit to here" CHROMOSOME_II assembly_tag Clone 10095498 10095501 . + . Note "right end: end of C18D1" CHROMOSOME_II assembly_tag annotation 10105261 10105280 . + . Note "no +ve d.s from 11838 to 11859. refer to -ve terms for confirmation." CHROMOSOME_II assembly_tag Clone 10121303 10121306 . + . Note "left end: start of F27E5 " CHROMOSOME_II assembly_tag annotation 10121303 10121307 . + . Note "Lorist 6 LH end of F27E5" CHROMOSOME_II assembly_tag annotation 10130180 10130184 . + . Note "pJB8 RH end ZK945" CHROMOSOME_II assembly_tag Clone 10150958 10150961 . + . Note "left end: beginning of F33H1" CHROMOSOME_II assembly_tag annotation 10150958 10150966 . + . Note "Lorist 6 LH end of F33H1" CHROMOSOME_II assembly_tag Clone 10159158 10159161 . + . Note "right end: end of F27E5" CHROMOSOME_II assembly_tag Clone 10183645 10183650 . + . Note "left end: left hand end of R05H5" CHROMOSOME_II assembly_tag Clone 10183645 10183650 . + . Note "left end: beginning of R05H5" CHROMOSOME_II assembly_tag Clone 10190756 10190759 . + . Note "right end: right hand end of F33H1" CHROMOSOME_II assembly_tag sequencing 10199037 10199038 . - . Note "vector: " CHROMOSOME_II assembly_tag annotation 10205801 10205879 . + . 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 10205805 10205812 . + . CHROMOSOME_II assembly_tag annotation 10205880 10205893 . + . CHROMOSOME_II assembly_tag Clone 10207731 10207734 . + . Note "left end: left hand end of T01E8" CHROMOSOME_II assembly_tag Clone 10207731 10207734 . + . Note "left end: left hand end of T01E8" CHROMOSOME_II assembly_tag annotation 10208172 10208180 . + . 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 10220376 10220381 . + . Note "right end: right hand end of R05H5" CHROMOSOME_II assembly_tag annotation 10240578 10240624 . + . Note "no +ve strand data for double stranding -ve strand terminated from base 32850 to 32879" CHROMOSOME_II assembly_tag annotation 10245506 10245564 . + . Note "no +ve strand bases 37776 - 37834 terminated on -ve strand" CHROMOSOME_II assembly_tag annotation 10245758 10245761 . + . Note "left hand end of F54B3" CHROMOSOME_II assembly_tag Clone 10245758 10245761 . + . Note "left end: left hand end of F54B3" CHROMOSOME_II assembly_tag annotation 10248402 10248405 . + . Note "?right hand end of T01E8 at 2648" CHROMOSOME_II assembly_tag annotation 10278857 10278860 . + . Note "left hand end of ZK971 at 33103" CHROMOSOME_II assembly_tag Clone 10278857 10278860 . + . Note "left end: beginning of ZK971" CHROMOSOME_II assembly_tag ignore 10278893 10278897 . + . Note "cutoff (cloning vector): Cosmid sequence 299..528" CHROMOSOME_II assembly_tag ignore 10279047 10279051 . + . Note "cutoff (cloning vector): Cosmid sequence 292..556" CHROMOSOME_II assembly_tag ignore 10279105 10279109 . + . Note "cutoff (cloning vector): Cosmid sequence 352..704" CHROMOSOME_II assembly_tag ignore 10282370 10282374 . + . Note "cutoff (sequencing vector): Sequencing vector starts at 249" CHROMOSOME_II assembly_tag annotation 10285224 10285224 . + . Note "Clearly a C in this clone. All Ts in other clones (3 -/3+)" CHROMOSOME_II assembly_tag Clone 10285560 10285563 . + . Note "right end: End of F54B3" CHROMOSOME_II assembly_tag annotation 10285560 10285563 . + . CHROMOSOME_II assembly_tag annotation 10286027 10286030 . + . CHROMOSOME_II assembly_tag Clone 10286027 10286030 . + . Note "left end: Beginning of ZK970" CHROMOSOME_II assembly_tag annotation 10286027 10286030 . + . CHROMOSOME_II assembly_tag Clone 10286027 10286030 . + . Note "left end: Beginning of ZK970" CHROMOSOME_II assembly_tag annotation 10302010 10302029 . + . Note "23154 to 23173 (19 bp) not d.s. (+ clone goes into vector). Sequence confirmed by terminator on - strand." CHROMOSOME_II assembly_tag annotation 10304650 10304794 . + . Note "25793 to 25937 bp poor d.s. (144bp) but sequence confirmed by terminator on opposite strand" CHROMOSOME_II assembly_tag annotation 10304867 10304883 . + . Note "26010 to 26026 bp not d.s. (16bp) Sequence confirmed by terminators on opposite strand" CHROMOSOME_II assembly_tag annotation 10307063 10307194 . + . Note "28206 to 28337 bp poor d.s. (131 bp) but sequence confirmed by terminators on opposite strand" CHROMOSOME_II assembly_tag annotation 10312408 10312411 . + . CHROMOSOME_II assembly_tag Clone 10312408 10312411 . + . Note "right end: End of ZK971" CHROMOSOME_II assembly_tag annotation 10312412 10312459 . + . Note "not double stranded because no template available but sequence checked by terminating other strand 33563 to 33610bp (=47bp)" CHROMOSOME_II assembly_tag Finished 10315002 10315005 . + . Note "Left: M02G9" CHROMOSOME_II assembly_tag Clone 10315002 10315005 . + . Note "left end: M02G9" CHROMOSOME_II assembly_tag Clone 10319293 10319296 . + . Note "right end: ZK970" CHROMOSOME_II assembly_tag Clone 10319293 10319296 . + . Note "right end: End of ZK970" CHROMOSOME_II assembly_tag annotation 10335935 10336336 . + . Note "Tandem repeat 1\n26 bp\n3.9kb is missing from this repeat\n(approx 150 copies)" CHROMOSOME_II assembly_tag annotation 10336338 10339343 . + . Note "Tandem repeat 2\n223bp\n4.3kb is missing from this repeat\n(approx 19 copies)" CHROMOSOME_II assembly_tag Finished 10339988 10339991 . + . Note "Left: " CHROMOSOME_II assembly_tag Finished 10340088 10340091 . + . Note "Right: M02G9" CHROMOSOME_II assembly_tag Clone 10340088 10340091 . + . Note "right end: M02G9" CHROMOSOME_II assembly_tag Clone 10340088 10340091 . + . Note "right end: M02G9 clone right end" CHROMOSOME_II assembly_tag annotation 10341098 10341098 . + . 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 10341110 10341110 . + . 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 10342812 10342815 . + . Note "left end: Start of C07E3" CHROMOSOME_II assembly_tag Clone 10342812 10342815 . + . Note "left end: C07E3 clone left end" CHROMOSOME_II assembly_tag Finished 10342912 10342915 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 10354624 10354668 . + . Note "45 bases not double stranded with +ve read. Negative strand terminated to confirm sequence." CHROMOSOME_II assembly_tag annotation 10374894 10374960 . + . 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 10374961 10375043 . + . 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 10386524 10386527 . + . Note "left end: Begining of T09F3" CHROMOSOME_II assembly_tag Clone 10386524 10386527 . + . Note "left end: Beginning of T09F3" CHROMOSOME_II assembly_tag annotation 10386624 10386626 . + . Note "End of edit?!?!!!" CHROMOSOME_II assembly_tag Clone 10386871 10386874 . + . Note "right end: End of C07E3" CHROMOSOME_II assembly_tag annotation 10399317 10399317 . + . Note "No C on one clone, but present on 14 other clones" CHROMOSOME_II assembly_tag Clone 10410514 10410517 . + . Note "left end: Beginning of E04D5" CHROMOSOME_II assembly_tag Clone 10410514 10410517 . + . Note "left end: left hand end of E04D5" CHROMOSOME_II assembly_tag Finished 10410514 10410517 . + . Note "Left: E04D5" CHROMOSOME_II assembly_tag Clone 10421922 10421925 . + . Note "right end: right hand end of T09F3" CHROMOSOME_II assembly_tag annotation 10441950 10441953 . + . Note "left hand end of ZK673" CHROMOSOME_II assembly_tag Clone 10441950 10441953 . + . Note "left end: left hand end of ZK673" CHROMOSOME_II assembly_tag Finished 10442046 10442049 . + . Note "Right: E04D5" CHROMOSOME_II assembly_tag annotation 10444056 10444059 . + . Note "right hand end of E04D5" CHROMOSOME_II assembly_tag annotation 10469389 10469392 . + . Note "beginning of left hand end of ZK666" CHROMOSOME_II assembly_tag Clone 10469389 10469392 . + . Note "left end: start of ZK666 " CHROMOSOME_II assembly_tag Clone 10478578 10478581 . + . Note "right end: end of ZK673 " CHROMOSOME_II assembly_tag annotation 10487390 10487401 . + . Note "no +ve d.s from 18008 to 18021 refer to -ve terms to confirm d.s" CHROMOSOME_II assembly_tag Clone 10499877 10499880 . + . Note "left end: start of F59B10" CHROMOSOME_II assembly_tag annotation 10499877 10499880 . + . Note "End of F59B10?" CHROMOSOME_II assembly_tag Clone 10499877 10499881 . + . Note "left end: Beginning of F59B10" CHROMOSOME_II assembly_tag annotation 10500803 10500806 . + . Note "Edited using positive terminator" CHROMOSOME_II assembly_tag annotation 10501018 10501018 . + . Note "T missing on one clone, but present in ten other clones" CHROMOSOME_II assembly_tag annotation 10506213 10506213 . + . Note "T missing in one clone, but present in nine other clones" CHROMOSOME_II assembly_tag annotation 10506485 10506494 . + . Note "Majority of reads (10 reads) say 10 T's but one read (xg30a4) says 11 T's" CHROMOSOME_II assembly_tag Clone 10507445 10507448 . + . Note "right end: End of ZK666" CHROMOSOME_II assembly_tag Clone 10527199 10527204 . + . Note "left end: Start of R166" CHROMOSOME_II assembly_tag Clone 10527199 10527205 . + . Note "left end: Beginning of R166" CHROMOSOME_II assembly_tag Clone 10527199 10527205 . + . Note "left end: Left end of R166." CHROMOSOME_II assembly_tag annotation 10532045 10532081 . + . Note "Terminator read to cover 39 bases of double-stranding???" CHROMOSOME_II assembly_tag annotation 10537850 10537900 . + . Note "Terminator to confirm double stranding for 39 base pairs!!!" CHROMOSOME_II assembly_tag Clone 10539388 10539391 . + . Note "right end: End of F59B10" CHROMOSOME_II assembly_tag Clone 10539388 10539391 . + . Note "right end: F59B10" CHROMOSOME_II assembly_tag annotation 10554667 10554742 . + . 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 10559109 10559112 . + . Note "left end: Start of C06A1" CHROMOSOME_II assembly_tag Clone 10559109 10559112 . + . Note "left end: left hand end of C06A1" CHROMOSOME_II assembly_tag Clone 10562273 10562278 . + . Note "right end: right hand end of R166" CHROMOSOME_II assembly_tag annotation 10564789 10564847 . + . Note "bases 5681 to 5739 are single stranded but terminated on +ve strand" CHROMOSOME_II assembly_tag Clone 10579760 10579763 . + . Note "left end: left hand end of C14A4" CHROMOSOME_II assembly_tag Clone 10579760 10579763 . + . Note "left end: left hand end of C14A4" CHROMOSOME_II assembly_tag annotation 10594729 10594778 . + . Note "-ve strand has poor quality data so +ve strand has been terminated bases 14970 - 15019" CHROMOSOME_II assembly_tag Clone 10599033 10599036 . + . Note "right end: right hand end of C06A1" CHROMOSOME_II assembly_tag annotation 10618612 10618651 . + . Note "-ve strand missing - replaced by terminator on +ve strand covering bases 38853 - 38892" CHROMOSOME_II assembly_tag Clone 10619443 10619446 . + . Note "left end: Start of M28" CHROMOSOME_II assembly_tag Clone 10619443 10619446 . + . Note "left end: left hand end of M28" CHROMOSOME_II assembly_tag comment 10622999 10623006 . + . Note "?" CHROMOSOME_II assembly_tag annotation 10624821 10624824 . + . CHROMOSOME_II assembly_tag Clone 10624821 10624824 . + . Note "right end: End of C14A4" CHROMOSOME_II assembly_tag comment 10625894 10625899 . + . Note "?" CHROMOSOME_II assembly_tag comment 10635970 10635975 . + . Note "?" CHROMOSOME_II assembly_tag comment 10637115 10637121 . + . Note "?" CHROMOSOME_II assembly_tag comment 10648065 10648068 . + . Note "?" CHROMOSOME_II assembly_tag Clone 10659608 10659611 . + . Note "left end: Start of D2089" CHROMOSOME_II assembly_tag cosmid 10659608 10659623 . + . Note "vector: Beginning of D2089" CHROMOSOME_II assembly_tag annotation 10659608 10659623 . + . CHROMOSOME_II assembly_tag annotation 10678804 10678815 . + . 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 cosmid 10694240 10694256 . + . Note "vector: Beginning of C09G5" CHROMOSOME_II assembly_tag annotation 10694240 10694256 . + . CHROMOSOME_II assembly_tag annotation 10698807 10698821 . + . Note "D2089 end" CHROMOSOME_II assembly_tag annotation 10698807 10698821 . + . Note "D2089" CHROMOSOME_II assembly_tag annotation 10723820 10723823 . + . Note "left C52A11" CHROMOSOME_II assembly_tag annotation 10723824 10723833 . + . Note "start of overlap with C52A11" CHROMOSOME_II assembly_tag annotation 10739669 10739672 . + . Note "right C09G5" CHROMOSOME_II assembly_tag annotation 10765777 10765780 . + . Note "left T19E10" CHROMOSOME_II assembly_tag annotation 10765777 10765784 . + . Note "Left end of T19E10" CHROMOSOME_II assembly_tag annotation 10767264 10767274 . + . Note "R end of John's C52A11" CHROMOSOME_II assembly_tag annotation 10779202 10779270 . + . 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 10785142 10785145 . + . CHROMOSOME_II assembly_tag annotation 10785142 10785146 . + . Note "Start of R06F6" CHROMOSOME_II assembly_tag annotation 10785142 10785152 . + . Note "Left end of R06F6" CHROMOSOME_II assembly_tag annotation 10785145 10785146 . - . CHROMOSOME_II assembly_tag annotation 10803645 10803650 . + . Note "?end of T19E10" CHROMOSOME_II assembly_tag Finished 10826488 10826493 . + . Note "Left: VM106R" CHROMOSOME_II assembly_tag annotation 10826588 10826593 . + . Note "?end of R06F6 PJB8" CHROMOSOME_II assembly_tag Clone 10826588 10826593 . + . Note "right end: R06F6" CHROMOSOME_II assembly_tag annotation 10831035 10831078 . + . 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 10831348 10831351 . + . Note "left end: M106" CHROMOSOME_II assembly_tag annotation 10831348 10831361 . + . Note "start of M106 - left hand end, no overlap with R06F6" CHROMOSOME_II assembly_tag Finished 10831449 10831452 . + . Note "Right: VM106R" CHROMOSOME_II assembly_tag annotation 10832451 10832467 . + . Note "unable to -ve double strand. From 1104 - 1120" CHROMOSOME_II assembly_tag annotation 10832587 10832608 . + . Note "unable to -ve double strand. From:- 1240 - 1261" CHROMOSOME_II assembly_tag annotation 10832749 10832826 . + . Note "unable to -ve double strand. From 1402 to 1483" CHROMOSOME_II assembly_tag annotation 10832826 10832830 . + . CHROMOSOME_II assembly_tag annotation 10844209 10844225 . + . Note "17 g's" CHROMOSOME_II assembly_tag annotation 10844221 10844221 . + . CHROMOSOME_II assembly_tag annotation 10844222 10844254 . + . 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 10844254 10844257 . + . CHROMOSOME_II assembly_tag annotation 10871220 10871229 . + . CHROMOSOME_II assembly_tag annotation 10871220 10871233 . + . Note "Start of F59E10" CHROMOSOME_II assembly_tag annotation 10873227 10873239 . + . Note "rgt end of M106" CHROMOSOME_II assembly_tag annotation 10879144 10879155 . + . Note "left end of F44F4" CHROMOSOME_II assembly_tag ignore 10879148 10879152 . + . Note "cutoff (cloning vector): Lorist6 " CHROMOSOME_II assembly_tag annotation 10879148 10879157 . + . Note "Left end of F44F4" CHROMOSOME_II assembly_tag annotation 10881908 10881961 . + . Note "Poor quality negative read, backed up by 5 positive terminators. (Neg attempted >5 times)." CHROMOSOME_II assembly_tag annotation 10909332 10909340 . + . Note "Right end of F59E10" CHROMOSOME_II assembly_tag ignore 10909336 10909340 . + . Note "cutoff (cloning vector): Lorist6 " CHROMOSOME_II assembly_tag Finished 10919141 10919144 . + . Note "Left: Y19D2B" CHROMOSOME_II assembly_tag annotation 10919237 10919241 . + . Note "Right end of F44F4" CHROMOSOME_II assembly_tag annotation 10919238 10919241 . + . Note "Right end of F44F4" CHROMOSOME_II assembly_tag Clone 10919238 10919240 . - . Note "right end: F44F4" CHROMOSOME_II assembly_tag Clone 10924317 10924322 . + . Note "left end: R03D7" CHROMOSOME_II assembly_tag annotation 10924317 10924343 . + . CHROMOSOME_II assembly_tag Finished 10924413 10924416 . - . Note "Right: Y19D2B" CHROMOSOME_II assembly_tag annotation 10946717 10946731 . + . Note "This clone reads 14 T's whereas the other three read 15. The consensus reads 15." CHROMOSOME_II assembly_tag annotation 10955232 10955250 . + . Note "Start of C09D8" CHROMOSOME_II assembly_tag annotation 10967663 10967682 . + . Note "?End of R03D7" CHROMOSOME_II assembly_tag annotation 10967678 10967683 . + . Note "Right end of R03D7. " CHROMOSOME_II assembly_tag Clone 10967678 10967683 . + . Note "right end: Right end of R03D7. Start of C09D8 edit." CHROMOSOME_II assembly_tag Clone 10980094 10980097 . + . Note "left end: Point where F38A3 begins." CHROMOSOME_II assembly_tag Clone 10980094 10980097 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 11000652 11000655 . + . Note "Right end of C09D8. No overlap" CHROMOSOME_II assembly_tag Clone 11000652 11000655 . + . Note "right end: Right end of C09D8" CHROMOSOME_II assembly_tag Clone 11000652 11000655 . + . Note "right end: Right end of C09D8. Overlap with F38A3. " CHROMOSOME_II assembly_tag annotation 11001790 11001796 . + . Note "Not entered into read even though called" CHROMOSOME_II assembly_tag annotation 11005569 11005586 . + . Note "I think that there are 18 Gs here, but there may be 17 Gs followed by a C" CHROMOSOME_II assembly_tag annotation 11005593 11005622 . + . CHROMOSOME_II assembly_tag annotation 11006270 11006274 . + . Note "This clone has a C missing wrt the others" CHROMOSOME_II assembly_tag annotation 11006609 11006611 . + . CHROMOSOME_II assembly_tag Clone 11013525 11013528 . + . Note "left end: Start of F33A8" CHROMOSOME_II assembly_tag Finished 11021006 11021009 . + . Note "Left: F33A8" CHROMOSOME_II assembly_tag Clone 11021106 11021109 . + . Note "right end: End of F38A3" CHROMOSOME_II assembly_tag Clone 11021106 11021109 . + . Note "right end: F38A3" CHROMOSOME_II assembly_tag Finished 11051684 11051687 . + . Note "Left: VF45E10L\n" CHROMOSOME_II assembly_tag Clone 11051784 11051787 . + . Note "right end: F33A8" CHROMOSOME_II assembly_tag Finished 11051784 11051787 . + . Note "Right: F33A8" CHROMOSOME_II assembly_tag Clone 11051784 11051787 . + . Note "right end: F33A8" CHROMOSOME_II assembly_tag annotation 11053617 11053617 . + . Note "start of F45E10" CHROMOSOME_II assembly_tag Finished 11053617 11053620 . + . Note "Left: F45E10" CHROMOSOME_II assembly_tag Clone 11053617 11053620 . + . Note "left end: F45E10\n" CHROMOSOME_II assembly_tag Clone 11053617 11053620 . + . Note "left end: F45E10" CHROMOSOME_II assembly_tag Finished 11053717 11053720 . + . Note "Right: VF45E10L" CHROMOSOME_II assembly_tag Clone 11071441 11071444 . + . Note "left end: C09H10" CHROMOSOME_II assembly_tag Clone 11071441 11071444 . + . Note "left end: left end CO9H10" CHROMOSOME_II assembly_tag annotation 11071441 11071464 . - . Note "start of C09H10" CHROMOSOME_II assembly_tag Finished 11071541 11071544 . + . Note "Right: F45E10" CHROMOSOME_II assembly_tag Clone 11091069 11091072 . + . Note "right end: right end of F45E10" CHROMOSOME_II assembly_tag annotation 11092578 11092645 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11092646 11092721 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11093916 11093917 . + . Note "this reading calls 2 T's" CHROMOSOME_II assembly_tag annotation 11094615 11094622 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11094623 11094695 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096643 11096682 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096683 11096760 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11096761 11096815 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11097591 11097608 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11098605 11098613 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11098614 11098690 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099336 11099363 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099364 11099407 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099408 11099437 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099438 11099516 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099584 11099638 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099639 11099674 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099675 11099752 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099753 11099770 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099904 11099943 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099944 11099991 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11099992 11100030 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11104003 11104010 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11104010 11104048 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105753 11105771 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105772 11105849 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105850 11105927 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11105928 11105966 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11110767 11110823 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11110824 11110862 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag annotation 11111359 11111412 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag Clone 11111541 11111548 . + . Note "left end: apparently the end of an overlap with W01C6" CHROMOSOME_II assembly_tag Finished 11111543 11111548 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11111543 11111548 . + . Note "left end: left end of W10C6\nThis is a NOT1 site in Lorist 4" CHROMOSOME_II assembly_tag annotation 11111829 11111893 . + . Note "terminated, not ds-ed" CHROMOSOME_II assembly_tag Clone 11111890 11111893 . + . Note "right end: right end of\nC09H10" CHROMOSOME_II assembly_tag Clone 11111890 11111893 . + . Note "right end: Right end C09H10" CHROMOSOME_II assembly_tag annotation 11121493 11121493 . + . CHROMOSOME_II assembly_tag annotation 11122468 11122727 . + . 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 Finished 11125180 11125183 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11125180 11125183 . + . Note "left end: left end F40F8" CHROMOSOME_II assembly_tag Clone 11125180 11125183 . - . Note "left end: F40F8 left end" CHROMOSOME_II assembly_tag Clone 11125180 11125183 . - . Note "left end: left end F40F8" CHROMOSOME_II assembly_tag Clone 11125180 11125183 . - . Note "left end: end of overlap with F40F8" CHROMOSOME_II assembly_tag Finished 11125280 11125283 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11137543 11137621 . + . 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 11137622 11137699 . + . 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 11137700 11137777 . + . 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 11137778 11137855 . + . 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 11137856 11137933 . + . 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 11137934 11138011 . + . 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 11138012 11138089 . + . 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 11138090 11138167 . + . 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 11138168 11138245 . + . 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 11138246 11138317 . + . 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 11140995 11140998 . + . Note "right end: W01C6 right end" CHROMOSOME_II assembly_tag annotation 11143517 11143518 . + . CHROMOSOME_II assembly_tag Clone 11151576 11151579 . + . Note "left end: left end K07C10" CHROMOSOME_II assembly_tag annotation 11151576 11151584 . + . Note "Left end of K07C10" CHROMOSOME_II assembly_tag Finished 11151673 11151676 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11156859 11156867 . + . Note "Right end of W01C6/F40F8." CHROMOSOME_II assembly_tag Clone 11173118 11173121 . + . Note "left end: Left end of F37H8" CHROMOSOME_II assembly_tag Finished 11173118 11173121 . + . Note "Left: " CHROMOSOME_II assembly_tag annotation 11173118 11173125 . + . Note "Left end of F37H8" CHROMOSOME_II assembly_tag Clone 11189144 11189147 . + . Note "right end: Right end of K07C10" CHROMOSOME_II assembly_tag annotation 11189908 11190105 . + . 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 11197707 11197788 . + . Note "Covered by cosmid PCR only. May contain base inacuracies. Assembly confirmed by restriction digest." CHROMOSOME_II assembly_tag annotation 11197847 11197862 . + . Note "Single clone region. Assembly confirmed by restriction digest." CHROMOSOME_II assembly_tag Finished 11211923 11211926 . + . Note "Left: VF37H8L" CHROMOSOME_II assembly_tag annotation 11211923 11212126 . + . 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 11212022 11212025 . + . Note "right end: right end F37H8" CHROMOSOME_II assembly_tag Finished 11212022 11212025 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11212022 11212025 . + . Note "right end: F37H8" CHROMOSOME_II assembly_tag Clone 11212022 11212025 . + . Note "left end: T06D8" CHROMOSOME_II assembly_tag annotation 11212029 11212064 . + . 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 11212123 11212126 . + . Note "Right: VF37H8L" CHROMOSOME_II assembly_tag comment 11217587 11217609 . + . Note "?do a long read" CHROMOSOME_II assembly_tag comment 11235028 11235042 . + . Note "?this read, reads different than its .s1 and terminator read..... from a pcr." CHROMOSOME_II assembly_tag Clone 11243934 11243937 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11243934 11243938 . + . Note "left end: start of T05B9" CHROMOSOME_II assembly_tag Clone 11243934 11243938 . + . Note "left end: Start of T05B9" CHROMOSOME_II assembly_tag Clone 11243935 11243938 . + . Note "left end: Start of T05B9" CHROMOSOME_II assembly_tag Clone 11246909 11246912 . + . Note "right end: End of T06D8" CHROMOSOME_II assembly_tag annotation 11249312 11249360 . + . Note "Terminators over this region" CHROMOSOME_II assembly_tag annotation 11249361 11249368 . + . CHROMOSOME_II assembly_tag Clone 11266461 11266464 . + . Note "left end: Start of C47G2" CHROMOSOME_II assembly_tag Clone 11266461 11266465 . + . Note "left end: ?Start of C47G2" CHROMOSOME_II assembly_tag Clone 11266461 11266465 . + . Note "left end: Start of C47G2" CHROMOSOME_II assembly_tag cosmid 11266465 11266469 . + . Note "vector: " CHROMOSOME_II assembly_tag ambiguous 11275019 11275027 . + . Note "this read has 4 g's but the terminators and other .s1's have 3." CHROMOSOME_II assembly_tag cosmid 11279199 11279206 . + . Note "vector: end of T05B9" CHROMOSOME_II assembly_tag cosmid 11279205 11279209 . + . Note "vector: r/h end of june's T05B9" CHROMOSOME_II assembly_tag Clone 11279207 11279210 . + . Note "right end: r/h end of T05B9." CHROMOSOME_II assembly_tag annotation 11286651 11286720 . + . Note "no -ve double stranding. terminators on +ve strand." CHROMOSOME_II assembly_tag annotation 11286721 11286798 . + . Note "see following annotation tag." CHROMOSOME_II assembly_tag annotation 11286800 11286878 . + . Note "no -ve double stranding, terminators on +ve strand." CHROMOSOME_II assembly_tag annotation 11286925 11286971 . + . Note "see following annotation tag." CHROMOSOME_II assembly_tag annotation 11286972 11287049 . + . Note "no -ve strand but terminators through +ve strand." CHROMOSOME_II assembly_tag Clone 11301191 11301194 . + . Note "left end: ?start of T24F1" CHROMOSOME_II assembly_tag annotation 11301191 11301194 . + . Note "Beginning of T24F1" CHROMOSOME_II assembly_tag Clone 11301191 11301194 . + . Note "left end: ?" CHROMOSOME_II assembly_tag cosmid 11301192 11301196 . + . Note "vector: start of (L/H end)of T24F1 - connie's." CHROMOSOME_II assembly_tag Clone 11301193 11301194 . - . Note "left end: " CHROMOSOME_II assembly_tag annotation 11307575 11307578 . + . Note "?" CHROMOSOME_II assembly_tag annotation 11307575 11307578 . + . Note "pJB8 End of C47G2" CHROMOSOME_II assembly_tag annotation 11327229 11327229 . + . CHROMOSOME_II assembly_tag annotation 11327229 11327230 . + . CHROMOSOME_II assembly_tag annotation 11327229 11327232 . + . Note "pJB8 beginning of BO491" CHROMOSOME_II assembly_tag Clone 11327229 11327232 . + . Note "left end: left B0491 pJB8 fwd" CHROMOSOME_II assembly_tag annotation 11327230 11327233 . + . CHROMOSOME_II assembly_tag annotation 11327233 11327233 . + . CHROMOSOME_II assembly_tag annotation 11334021 11334021 . + . Note "G missing" CHROMOSOME_II assembly_tag Clone 11336966 11336969 . + . Note "right end: right T24F1 lorist6 rev" CHROMOSOME_II assembly_tag annotation 11342585 11342814 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11344017 11344040 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11346544 11346696 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11349775 11349896 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11350009 11350370 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11350694 11350925 . + . Note "single strand, terminator" CHROMOSOME_II assembly_tag annotation 11351225 11351237 . + . Note "13 T's read on zg03c5" CHROMOSOME_II assembly_tag Clone 11365369 11365372 . + . Note "left end: left C33B4 pjb8.rev" CHROMOSOME_II assembly_tag Clone 11365369 11365372 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 11365369 11365372 . + . Note "Left end of C33B4" CHROMOSOME_II assembly_tag Clone 11369963 11369970 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11369967 11369970 . + . Note "Right end of B0491" CHROMOSOME_II assembly_tag Clone 11395380 11395382 . + . Note "left end: pJB8 " CHROMOSOME_II assembly_tag Clone 11395380 11395383 . + . Note "left end: pJB8 " CHROMOSOME_II assembly_tag Clone 11395380 11395383 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 11395380 11395383 . + . Note "Left end of C05D12" CHROMOSOME_II assembly_tag annotation 11395380 11395383 . + . Note "Left end of C05D12" CHROMOSOME_II assembly_tag annotation 11405234 11405237 . + . Note "Right end of C33B4." CHROMOSOME_II assembly_tag Clone 11405234 11405237 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11416021 11416063 . + . Note "Negative strand only. 3 different clones, 2 good terminators." CHROMOSOME_II assembly_tag annotation 11425713 11425716 . + . Note "2 bases missing from this clone" CHROMOSOME_II assembly_tag annotation 11433294 11433355 . + . Note "Negative strand only. 2 different clones with oligo-terminators." CHROMOSOME_II assembly_tag annotation 11435101 11435103 . + . Note "This clone has a T substituted." CHROMOSOME_II assembly_tag Finished 11437297 11437300 . + . Note "Left: VW02B12L" CHROMOSOME_II assembly_tag annotation 11437397 11437400 . + . Note "Right end of C05D12, no overlap to right." CHROMOSOME_II assembly_tag Clone 11437397 11437400 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11437397 11437400 . - . Note "right end: C05D12\n" CHROMOSOME_II assembly_tag Clone 11444809 11444812 . + . Note "left end: W02B12" CHROMOSOME_II assembly_tag Finished 11444809 11444814 . + . Note "Left: " CHROMOSOME_II assembly_tag annotation 11444809 11444881 . + . CHROMOSOME_II assembly_tag annotation 11444882 11444959 . + . CHROMOSOME_II assembly_tag Finished 11444909 11444912 . + . Note "Right: VW02B12L" CHROMOSOME_II assembly_tag annotation 11444960 11444999 . + . CHROMOSOME_II assembly_tag annotation 11453410 11453417 . - . Note "Bad tracking at the end of this clone ?" CHROMOSOME_II assembly_tag annotation 11455480 11455483 . - . CHROMOSOME_II assembly_tag annotation 11455484 11455561 . - . Note "Not double-stranded. Terminator through region." CHROMOSOME_II assembly_tag annotation 11456026 11456054 . - . Note ".s1 read deviates from terminator read on the same clone. The terminator read agrees with the 7 other reads over thisregion, giving the consensus." CHROMOSOME_II assembly_tag annotation 11456034 11456054 . - . Note ".s1 read deviates from terminator read on same clone. Terminator agrees with the 7 other clones over this region, giving the consensus. Bad tracking ?" CHROMOSOME_II assembly_tag annotation 11458297 11458307 . + . CHROMOSOME_II assembly_tag annotation 11458308 11458385 . + . CHROMOSOME_II assembly_tag annotation 11458385 11458430 . + . CHROMOSOME_II assembly_tag annotation 11461024 11461038 . - . Note "Two clones say 14 As & four clones say 15 As - consensus given 15" CHROMOSOME_II assembly_tag annotation 11467570 11467579 . + . Note "One clone here has 9 T's, the other four have 10: the consensus has 10." CHROMOSOME_II assembly_tag annotation 11472370 11472447 . + . Note "No +ve strand over this region - only -ve strand terminators" CHROMOSOME_II assembly_tag annotation 11472370 11472371 . - . Note "?Terminators across this region" CHROMOSOME_II assembly_tag annotation 11472448 11472525 . + . CHROMOSOME_II assembly_tag annotation 11472526 11472538 . + . CHROMOSOME_II assembly_tag annotation 11474464 11474513 . + . Note "No -ve strand, only +ve strand terminators over this region" CHROMOSOME_II assembly_tag Clone 11479010 11479013 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11479010 11479013 . + . Note "left end: Start of B0334" CHROMOSOME_II assembly_tag Clone 11479010 11479013 . - . Note "left end: Start of B0334" CHROMOSOME_II assembly_tag Finished 11479110 11479113 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11483190 11483193 . + . Note "right end: End of W02B12" CHROMOSOME_II assembly_tag annotation 11483887 11483964 . + . CHROMOSOME_II assembly_tag annotation 11483965 11484042 . + . CHROMOSOME_II assembly_tag annotation 11484043 11484120 . + . CHROMOSOME_II assembly_tag annotation 11484121 11484179 . + . CHROMOSOME_II assembly_tag annotation 11484180 11484257 . + . CHROMOSOME_II assembly_tag annotation 11484258 11484314 . + . CHROMOSOME_II assembly_tag annotation 11484315 11484391 . + . CHROMOSOME_II assembly_tag annotation 11484392 11484392 . + . CHROMOSOME_II assembly_tag annotation 11484393 11484468 . + . CHROMOSOME_II assembly_tag annotation 11484469 11484544 . + . CHROMOSOME_II assembly_tag annotation 11484545 11484591 . + . CHROMOSOME_II assembly_tag annotation 11484592 11484667 . + . CHROMOSOME_II assembly_tag annotation 11484668 11484744 . + . CHROMOSOME_II assembly_tag annotation 11484744 11484820 . + . CHROMOSOME_II assembly_tag annotation 11484821 11484823 . + . CHROMOSOME_II assembly_tag annotation 11487165 11487167 . + . Note "This clone has 2 As here whereas the other 7 clones over this region have only one " CHROMOSOME_II assembly_tag annotation 11488938 11488976 . + . Note "No +ve strand, only -ve strand terminators over this region" CHROMOSOME_II assembly_tag annotation 11488977 11488980 . + . CHROMOSOME_II assembly_tag annotation 11489285 11489361 . + . CHROMOSOME_II assembly_tag annotation 11489362 11489372 . + . CHROMOSOME_II assembly_tag annotation 11491140 11491217 . + . CHROMOSOME_II assembly_tag annotation 11491218 11491294 . + . CHROMOSOME_II assembly_tag annotation 11491295 11491324 . + . CHROMOSOME_II assembly_tag annotation 11493707 11493754 . + . Note "No -ve strand, only +ve strand terminators over this region" CHROMOSOME_II assembly_tag annotation 11494929 11494995 . + . Note "No -ve strand, only +ve strand terms over this region" CHROMOSOME_II assembly_tag annotation 11494996 11495019 . + . CHROMOSOME_II assembly_tag annotation 11501058 11501110 . + . CHROMOSOME_II assembly_tag annotation 11502769 11502773 . + . Note "This clone has 4 additional bases at this point. These are GTAG" CHROMOSOME_II assembly_tag annotation 11504550 11504619 . + . Note "-ve strand terminators only across this region" CHROMOSOME_II assembly_tag annotation 11505667 11505728 . + . Note "Terminators only across this region" CHROMOSOME_II assembly_tag annotation 11511042 11511118 . + . CHROMOSOME_II assembly_tag annotation 11511118 11511138 . + . CHROMOSOME_II assembly_tag Finished 11520666 11520669 . + . Note "Left: Y62F5A" CHROMOSOME_II assembly_tag Clone 11520766 11520769 . + . Note "right end: B0334" CHROMOSOME_II assembly_tag Clone 11520818 11520821 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11520818 11520821 . + . Note "right end: End of B0334" CHROMOSOME_II assembly_tag annotation 11527751 11528388 . + . 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 annotation 11529961 11530352 . + . 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 annotation 11532606 11532889 . + . 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 cosmid 11533080 11533094 . - . Note "vector: " CHROMOSOME_II assembly_tag annotation 11534537 11534663 . + . 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 cosmid 11535105 11535164 . + . Note "vector: " CHROMOSOME_II assembly_tag Clone 11539964 11539967 . + . Note "left end: F54D5" CHROMOSOME_II assembly_tag Finished 11539964 11539967 . - . Note "Left: F54D5" CHROMOSOME_II assembly_tag Clone 11539964 11539967 . - . Note "left end: F54D5" CHROMOSOME_II assembly_tag Finished 11540064 11540067 . + . Note "Right: Y62F5A" CHROMOSOME_II assembly_tag annotation 11569492 11569494 . - . Note "Base substitution" CHROMOSOME_II assembly_tag annotation 11574048 11574055 . - . Note "8 bp Pos only. Confirmed in cutoff\ndata plus term." CHROMOSOME_II assembly_tag Finished 11578971 11578974 . + . Note "Left: D1043" CHROMOSOME_II assembly_tag Finished 11579071 11579074 . - . Note "Right: F54D5" CHROMOSOME_II assembly_tag Clone 11579071 11579074 . - . Note "right end: F54D5" CHROMOSOME_II assembly_tag Clone 11579071 11579074 . - . Note "right end: F54D5" CHROMOSOME_II assembly_tag Clone 11585837 11585840 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11585837 11585840 . + . Note "left end: start of F07A11" CHROMOSOME_II assembly_tag Clone 11585837 11585840 . + . Note "left end: F07A11" CHROMOSOME_II assembly_tag Finished 11585937 11585940 . + . Note "Right: D1043" CHROMOSOME_II assembly_tag annotation 11593983 11593999 . + . Note "no -ve double stranding but terminator on other strand." CHROMOSOME_II assembly_tag Finished 11621428 11621431 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11621428 11621431 . + . Note "left end: left end ZK20" CHROMOSOME_II assembly_tag Clone 11621428 11621432 . + . Note "left end: start of ZK20" CHROMOSOME_II assembly_tag annotation 11621754 11621763 . + . 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 11623469 11623472 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11623469 11623472 . + . Note "right end: F07A11" CHROMOSOME_II assembly_tag annotation 11642457 11642534 . + . Note "no +ve so terminated -ve." CHROMOSOME_II assembly_tag annotation 11642535 11642544 . + . CHROMOSOME_II assembly_tag annotation 11643304 11643306 . + . Note "terminator across as no +ve." CHROMOSOME_II assembly_tag annotation 11643431 11643508 . + . Note "NO +ve strand terminated -ve." CHROMOSOME_II assembly_tag annotation 11643509 11643564 . + . CHROMOSOME_II assembly_tag annotation 11645239 11645316 . + . Note "No -ve strand so terminated +ve." CHROMOSOME_II assembly_tag annotation 11645316 11645317 . + . CHROMOSOME_II assembly_tag Clone 11654814 11654817 . + . Note "left end: C47D12" CHROMOSOME_II assembly_tag Clone 11654814 11654817 . + . Note "left end: pjB8 C47D12 left end." CHROMOSOME_II assembly_tag Clone 11654814 11654817 . + . Note "left end: " CHROMOSOME_II assembly_tag Finished 11654814 11654817 . + . Note "Left: " CHROMOSOME_II assembly_tag Finished 11654914 11654917 . + . Note "Right: " CHROMOSOME_II assembly_tag annotation 11661097 11661119 . + . Note "Number of Gs may not be accurate." CHROMOSOME_II assembly_tag comment 11698775 11698775 . + . Note "A->G substitution jes" CHROMOSOME_II assembly_tag Finished 11698974 11698977 . + . Note "Left: VF13D12L" CHROMOSOME_II assembly_tag Clone 11699074 11699077 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11699074 11699077 . + . Note "right end: C47D12" CHROMOSOME_II assembly_tag Finished 11699074 11699077 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11699074 11699077 . + . Note "right end: end of C47D12." CHROMOSOME_II assembly_tag annotation 11704529 11704552 . + . Note "single stranded" CHROMOSOME_II assembly_tag Clone 11708922 11708925 . + . Note "left end: F13D12" CHROMOSOME_II assembly_tag annotation 11708922 11708925 . + . Note "Left end of F13D12" CHROMOSOME_II assembly_tag Finished 11709022 11709025 . + . Note "Right: VF13D12L" CHROMOSOME_II assembly_tag annotation 11710843 11710920 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11710921 11710998 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11710999 11711076 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11711077 11711134 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11714233 11714309 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11714310 11714362 . + . Note "Negative only. Terminators." CHROMOSOME_II assembly_tag annotation 11718090 11718097 . + . Note "Positive only. Good teminators." CHROMOSOME_II assembly_tag annotation 11719929 11720006 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11720007 11720020 . + . Note "Negative only. Good terminators." CHROMOSOME_II assembly_tag annotation 11722328 11722386 . + . Note "Positive only. Good terminator." CHROMOSOME_II assembly_tag annotation 11741861 11741935 . + . Note "Positive only. Good terminator." CHROMOSOME_II assembly_tag annotation 11746670 11746747 . + . Note "Positive only. Good terminators." CHROMOSOME_II assembly_tag annotation 11746748 11746825 . + . Note "Positive only. Good terminators." CHROMOSOME_II assembly_tag annotation 11746826 11746840 . + . Note "Positive only. Good terminators" CHROMOSOME_II assembly_tag annotation 11748318 11748321 . + . Note "Left end of F44E5" CHROMOSOME_II assembly_tag Finished 11748318 11748321 . + . Note "Left: F44E5" CHROMOSOME_II assembly_tag Clone 11748318 11748321 . + . Note "left end: F44E5" CHROMOSOME_II assembly_tag Clone 11750724 11750727 . + . Note "right end: F13D12" CHROMOSOME_II assembly_tag annotation 11772733 11772802 . + . Note "A/T repeat.\nM13 clones have varying numbers, max\nnumber taken as correct. " CHROMOSOME_II assembly_tag Clone 11777213 11777216 . + . Note "left end: F43G6" CHROMOSOME_II assembly_tag Clone 11777213 11777216 . + . Note "left end: Start of F43G6" CHROMOSOME_II assembly_tag Finished 11777313 11777316 . + . Note "Right: F44E5" CHROMOSOME_II assembly_tag Clone 11781476 11781479 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11782739 11782742 . + . Note "right end: Right end of F44E5" CHROMOSOME_II assembly_tag annotation 11788438 11788451 . + . CHROMOSOME_II assembly_tag annotation 11788908 11788934 . + . CHROMOSOME_II assembly_tag annotation 11790602 11790643 . + . Note "Terminators on + only" CHROMOSOME_II assembly_tag annotation 11796655 11796685 . + . CHROMOSOME_II assembly_tag annotation 11798993 11799019 . + . CHROMOSOME_II assembly_tag annotation 11799767 11799768 . + . Note "Two A's are missing from this clone" CHROMOSOME_II assembly_tag annotation 11801308 11801310 . + . Note "This clone reads T here rather than G" CHROMOSOME_II assembly_tag annotation 11804264 11804268 . + . Note "Only one A in this clone here" CHROMOSOME_II assembly_tag annotation 11806013 11806088 . + . CHROMOSOME_II assembly_tag annotation 11806088 11806095 . + . CHROMOSOME_II assembly_tag Finished 11815795 11815798 . + . Note "Left: Y6D1A" CHROMOSOME_II assembly_tag Clone 11815895 11815898 . + . Note "right end: F43G6" CHROMOSOME_II assembly_tag Clone 11815895 11815898 . + . Note "right end: End of C54H10" CHROMOSOME_II assembly_tag annotation 11825956 11827384 . + . 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 11829019 11829022 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11829019 11829022 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11829019 11829022 . + . Note "left end: Left end of T27D12" CHROMOSOME_II assembly_tag Clone 11829019 11829022 . + . Note "left end: T27D12" CHROMOSOME_II assembly_tag Finished 11829119 11829122 . + . Note "Right: Y6D1A" CHROMOSOME_II assembly_tag annotation 11832063 11832131 . + . CHROMOSOME_II assembly_tag annotation 11832132 11832208 . + . CHROMOSOME_II assembly_tag annotation 11832208 11832241 . + . CHROMOSOME_II assembly_tag annotation 11840247 11840248 . + . CHROMOSOME_II assembly_tag annotation 11840661 11840719 . + . CHROMOSOME_II assembly_tag annotation 11841939 11842000 . + . CHROMOSOME_II assembly_tag annotation 11842869 11842944 . + . CHROMOSOME_II assembly_tag annotation 11842945 11842964 . + . CHROMOSOME_II assembly_tag annotation 11846497 11846561 . + . CHROMOSOME_II assembly_tag annotation 11847268 11847340 . + . CHROMOSOME_II assembly_tag annotation 11848524 11848535 . + . CHROMOSOME_II assembly_tag annotation 11849465 11849472 . + . CHROMOSOME_II assembly_tag annotation 11850679 11850683 . + . Note "3 bases missing from this clone. (Clone only 46 bases long)" CHROMOSOME_II assembly_tag annotation 11851683 11851698 . + . CHROMOSOME_II assembly_tag annotation 11853131 11853143 . + . CHROMOSOME_II assembly_tag annotation 11855660 11855735 . + . CHROMOSOME_II assembly_tag annotation 11855736 11855741 . + . CHROMOSOME_II assembly_tag annotation 11856766 11856769 . + . Note "This clone is missing a G here" CHROMOSOME_II assembly_tag annotation 11858965 11858973 . + . CHROMOSOME_II assembly_tag annotation 11859104 11859115 . + . CHROMOSOME_II assembly_tag annotation 11861970 11862035 . + . CHROMOSOME_II assembly_tag Clone 11862620 11862623 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11862620 11862623 . + . Note "left end: " CHROMOSOME_II assembly_tag Clone 11862620 11862623 . + . Note "left end: Left end of K12D12" CHROMOSOME_II assembly_tag annotation 11862620 11862623 . + . Note "Left end of K12D12" CHROMOSOME_II assembly_tag Finished 11862716 11862720 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11866494 11866498 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11866495 11866498 . + . Note "Right end of T27D12" CHROMOSOME_II assembly_tag annotation 11867699 11867776 . + . Note "Single stranded, pos only. Good terminators. Oligos attempted, no template reaches." CHROMOSOME_II assembly_tag annotation 11867777 11867854 . + . CHROMOSOME_II assembly_tag annotation 11867855 11867932 . + . CHROMOSOME_II assembly_tag annotation 11867933 11868010 . + . CHROMOSOME_II assembly_tag annotation 11868011 11868088 . + . CHROMOSOME_II assembly_tag annotation 11868089 11868166 . + . CHROMOSOME_II assembly_tag annotation 11868167 11868244 . + . CHROMOSOME_II assembly_tag annotation 11868245 11868322 . + . CHROMOSOME_II assembly_tag annotation 11868323 11868400 . + . CHROMOSOME_II assembly_tag annotation 11868401 11868478 . + . CHROMOSOME_II assembly_tag annotation 11868479 11868548 . + . CHROMOSOME_II assembly_tag annotation 11868567 11868614 . + . Note "Single strand only. Terminators. Oligo 12 attempted several times." CHROMOSOME_II assembly_tag annotation 11872344 11872421 . + . CHROMOSOME_II assembly_tag annotation 11872422 11872439 . + . CHROMOSOME_II assembly_tag Clone 11877278 11877281 . + . Note "left end: Start of ZK930" CHROMOSOME_II assembly_tag annotation 11877278 11877281 . + . Note "Left end of ZK930." CHROMOSOME_II assembly_tag Finished 11877278 11877281 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11877278 11877281 . + . Note "left end: " CHROMOSOME_II assembly_tag annotation 11879331 11879337 . + . Note "This clone is missing a G here compared to the consensus" CHROMOSOME_II assembly_tag annotation 11885852 11885886 . + . CHROMOSOME_II assembly_tag annotation 11886307 11886330 . + . CHROMOSOME_II assembly_tag annotation 11888330 11888407 . + . CHROMOSOME_II assembly_tag annotation 11888408 11888411 . + . CHROMOSOME_II assembly_tag annotation 11898710 11898716 . + . 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 11901403 11901440 . + . CHROMOSOME_II assembly_tag Clone 11902577 11902580 . + . Note "right end: End of K12D12" CHROMOSOME_II assembly_tag Clone 11902577 11902580 . + . Note "right end: " CHROMOSOME_II assembly_tag annotation 11903873 11903950 . + . CHROMOSOME_II assembly_tag annotation 11903951 11904027 . + . CHROMOSOME_II assembly_tag annotation 11904028 11904064 . + . CHROMOSOME_II assembly_tag annotation 11907060 11907117 . + . CHROMOSOME_II assembly_tag annotation 11909291 11909292 . + . Note "ABI base called 3 Cs, in fact only 2 edited accordingly" CHROMOSOME_II assembly_tag annotation 11909323 11909324 . + . Note "ABI base called 3 Cs, in fact only 2 edited accordingly" CHROMOSOME_II assembly_tag annotation 11909547 11909549 . + . Note "Unclear here. It may read either: ---GCC--- ---GGCC--- ---GGC---" CHROMOSOME_II assembly_tag annotation 11910307 11910384 . + . CHROMOSOME_II assembly_tag annotation 11910385 11910459 . + . CHROMOSOME_II assembly_tag annotation 11910460 11910492 . + . CHROMOSOME_II assembly_tag annotation 11910488 11910539 . + . CHROMOSOME_II assembly_tag annotation 11910540 11910615 . + . CHROMOSOME_II assembly_tag annotation 11910616 11910665 . + . CHROMOSOME_II assembly_tag annotation 11912677 11912717 . + . CHROMOSOME_II assembly_tag annotation 11913130 11913206 . + . CHROMOSOME_II assembly_tag annotation 11913207 11913273 . + . CHROMOSOME_II assembly_tag Finished 11915679 11915682 . + . Note "Left: Y38G4A" CHROMOSOME_II assembly_tag annotation 11915764 11915777 . + . CHROMOSOME_II assembly_tag annotation 11915774 11915782 . + . CHROMOSOME_II assembly_tag Clone 11915779 11915782 . + . Note "right end: ZK930" CHROMOSOME_II assembly_tag Clone 11915779 11915782 . + . Note "right end: End of ZK930" CHROMOSOME_II assembly_tag Finished 11915779 11915782 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11915903 11915908 . + . Note "left end: Y17G7A" CHROMOSOME_II assembly_tag Clone 11915903 11915908 . + . Note "left end: Y17G7" CHROMOSOME_II assembly_tag Finished 11915903 11915908 . + . Note "Left: Y17G7A" CHROMOSOME_II assembly_tag Finished 11916005 11916008 . + . Note "Right: Y38G4A" CHROMOSOME_II assembly_tag annotation 11918625 11918625 . + . Note "1 clone says G, 2 clones say T" CHROMOSOME_II assembly_tag Clone 11929308 11929311 . + . Note "left end: Start of T15G9" CHROMOSOME_II assembly_tag Clone 11929308 11929311 . + . Note "left end: T15G9" CHROMOSOME_II assembly_tag Finished 11929408 11929411 . + . Note "Right: Y17G7A" CHROMOSOME_II assembly_tag Clone 11932684 11932687 . + . Note "left end: Start of W03C9" CHROMOSOME_II assembly_tag Clone 11932684 11932687 . + . Note "left end: " CHROMOSOME_II assembly_tag Finished 11932684 11932687 . + . Note "Left: " CHROMOSOME_II assembly_tag Clone 11966758 11966761 . + . Note "right end: " CHROMOSOME_II assembly_tag Finished 11968687 11968690 . + . Note "Left: Y17G7B" CHROMOSOME_II assembly_tag Finished 11968781 11968786 . + . Note "Right: " CHROMOSOME_II assembly_tag Clone 11968781 11968786 . + . Note "right end: " CHROMOSOME_II assembly_tag Clone 11968783 11968786 . + . Note "right end: W03C9" CHROMOSOME_II assembly_tag annotation 11983971 11983995 . + . 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 12077594 12077598 . + . 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 12077600 12077661 . + . 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 12077720 12077801 . + . Note "[ ] Tandem repeat \n[x] Single clone region \n[ ] Forced join \n[ ] Other \nComment\nArm of inverted repeat." CHROMOSOME_II assembly_tag annotation 12095999 12096041 . + . 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 12111679 12111682 . + . Note "Left: Y43F11A" CHROMOSOME_II assembly_tag comment 12111728 12111742 . + . Note "pull some over from Y17G7" CHROMOSOME_II assembly_tag Finished 12111773 12111778 . + . Note "Right: Y17G7B" CHROMOSOME_II assembly_tag Clone 12111773 12111778 . + . Note "right end: Y17G7" CHROMOSOME_II assembly_tag Clone 12111773 12111778 . + . Note "right end: Y17G7" CHROMOSOME_II assembly_tag oligo 12112059 12112075 . - . Note "serial#=Y43F11.15\ntemplate=ra84c5\nsequence=TTGCGATTGGCGATAAG\nflags=\n" CHROMOSOME_II assembly_tag Inverted 12112701 12113982 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Inverted 12112883 12113527 . + . Note "Repeat: 2" CHROMOSOME_II assembly_tag oligo 12117419 12117439 . + . Note "serial#=Y43F11.16\ntemplate=ra73d9\nsequence=CATAGGATGCGTTTAATTTTG\nflags=\n" CHROMOSOME_II assembly_tag comment 12118020 12118022 . + . Note "Is this 5 a's" CHROMOSOME_II assembly_tag oligo 12118362 12118379 . - . Note "serial#=Y43F11.2\ntemplate=ra71b4\nsequence=ACGGAATCTGGAAATTTG\nflags=" CHROMOSOME_II assembly_tag comment 12118741 12118752 . - . Note "?diverges" CHROMOSOME_II assembly_tag oligo 12118759 12118776 . - . Note "serial#=Y43F11.8\ntemplate=ra68f12\nsequence=CGGAACTTATTTGGAGAC\nflags=" CHROMOSOME_II assembly_tag cosmid 12118879 12118939 . + . Note "vector: " CHROMOSOME_II assembly_tag comment 12119375 12119375 . + . Note "?" CHROMOSOME_II assembly_tag repeat 12118750 12119382 . - . CHROMOSOME_II assembly_tag oligo 12119386 12119407 . + . Note "serial#=Y43F11.11\ntemplate=ra71b4\nsequence=GAAGCCAAGATTTATTTTGAAC\nflags=" CHROMOSOME_II assembly_tag Inverted 12120043 12120809 . + . Note "Repeat: 1" CHROMOSOME_II assembly_tag oligo 12120083 12120099 . - . Note "serial#=Y43F11.12\ntemplate=ra79a7\nsequence=GCCTGAATAGTTTTCCC\nflags=" CHROMOSOME_II assembly_tag Inverted 12120517 12121158 . + . Note "Repeat: 2" CHROMOSOME_II assembly_tag comment 12120522 12120533 . + . Note "?diverges" CHROMOSOME_II assembly_tag cosmid 12120560 12120578 . - . Note "vector: " CHROMOSOME_II assembly_tag oligo 12121032 12121051 . - . Note "serial#=Y43F11.7\ntemplate=ra79b5\nsequence=CAAAGGAATTATTGGAACAG\nflags=" CHROMOSOME_II assembly_tag Inverted 12121159 12121377 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12122538 12122554 . + . Note "serial#=Y43F11.6\ntemplate=ra74d10\nsequence=TCTGAACTCCACGAAAC\nflags=" CHROMOSOME_II assembly_tag oligo 12122915 12122934 . - . Note "serial#=Y43F11.4\ntemplate=ra81g6\nsequence=CGTAAGGAGACTAAAAATTG\nflags=" CHROMOSOME_II assembly_tag oligo 12123679 12123695 . + . Note "serial#=Y43F11.17\ntemplate=ra73a4\nsequence=TTCTGCGAATAGTCTCC\nflags=\n" CHROMOSOME_II assembly_tag cosmid 12127083 12127102 . - . Note "vector: " CHROMOSOME_II assembly_tag cosmid 12127084 12127102 . - . Note "vector: " CHROMOSOME_II assembly_tag cosmid 12127096 12127102 . - . Note "vector: " CHROMOSOME_II assembly_tag cosmid 12127177 12127196 . - . Note "vector: " CHROMOSOME_II assembly_tag comment 12127406 12127419 . + . Note "?" CHROMOSOME_II assembly_tag oligo 12127533 12127552 . - . Note "serial#=Y43F11.5\ntemplate=ra74b10\nsequence=GAGAAACTGGATTTTTTTGC\nflags=" CHROMOSOME_II assembly_tag oligo 12127655 12127672 . + . Note "serial#=Y43F11.10\ntemplate=ra75e1\nsequence=AACGCTATTTTCTAGCTG\nflags=" CHROMOSOME_II assembly_tag oligo 12127846 12127863 . + . Note "serial#=Y43F11.15\ntemplate=ra74a10\nsequence=AATTCGCATTGCCAAAAC\nflags=\n" CHROMOSOME_II assembly_tag oligo 12128124 12128143 . + . Note "serial#=Y43F11.23\ntemplate=ra74a10\nsequence=CAATGTAATTATCTTGCGTG\nflags=\n" CHROMOSOME_II assembly_tag oligo 12128166 12128182 . + . Note "serial#=Y43F11.26\ntemplate=rb91a5\nsequence=AAAGTCGATTGACGGCG\nflags=\n" CHROMOSOME_II assembly_tag TeamLeader 12128184 12128211 . + . Note "comment: rb91, rc32 = screening\nrb74a10 = SIL" CHROMOSOME_II assembly_tag annotation 12128184 12128211 . + . 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 from reads from short insertclones derived from a single pUC clone." CHROMOSOME_II assembly_tag oligo 12128234 12128252 . - . Note "serial#=Y43F11.24\ntemplate=rc32e6\nsequence=GTTTTCAACTCGTTTTAGG\nflags=\n" CHROMOSOME_II assembly_tag cosmid 12128517 12128588 . - . Note "vector: " CHROMOSOME_II assembly_tag TeamLeader 12128823 12128839 . + . Note "comment: this is really rb74a10" CHROMOSOME_II assembly_tag cosmid 12128826 12128826 . + . Note "vector: " CHROMOSOME_II assembly_tag Inverted 12128884 12129244 . + . Note "Repeat: " CHROMOSOME_II assembly_tag cosmid 12128871 12128888 . - . Note "vector: " CHROMOSOME_II assembly_tag Direct 12128892 12129062 . + . Note "Repeat: " CHROMOSOME_II assembly_tag cosmid 12128998 12129058 . - . Note "vector: " CHROMOSOME_II assembly_tag Direct 12129063 12129184 . + . Note "Repeat: " CHROMOSOME_II assembly_tag annotation 12129065 12129142 . + . 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 from a terminator read formingpart of one arm of an inverted repeat." CHROMOSOME_II assembly_tag comment 12129083 12129083 . + . Note "?" CHROMOSOME_II assembly_tag comment 12129095 12129095 . + . Note "?" CHROMOSOME_II assembly_tag comment 12129112 12129113 . + . Note "?" CHROMOSOME_II assembly_tag comment 12129130 12129130 . + . Note "?" CHROMOSOME_II assembly_tag TeamLeader 12129143 12129146 . + . Note "comment: rb91 = screening" CHROMOSOME_II assembly_tag Inverted 12129173 12129458 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Direct 12129185 12129204 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12129198 12129216 . + . Note "serial#=Y43F11.25\ntemplate=rb91b7\nsequence=CTATCGGCTTTAAATGTTC\nflags=\n" CHROMOSOME_II assembly_tag Direct 12129205 12129528 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12129203 12129224 . - . Note "serial#=Y43F11.20\ntemplate=\nsequence=CGATTAAAGAACATTTAAAGCC\nflags=\n" CHROMOSOME_II assembly_tag oligo 12129248 12129269 . - . Note "serial#=Y43F11.14\ntemplate=\nsequence=CGTCCTTTATTACATATTTTGG\nflags=" CHROMOSOME_II assembly_tag Inverted 12129459 12129484 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 12129512 12129515 . + . Note "?diverges" CHROMOSOME_II assembly_tag oligo 12131451 12131467 . + . Note "serial#=Y43F11.3\ntemplate=ra72g6\nsequence=ATTTGCTGGATCGCTTC\nflags=" CHROMOSOME_II assembly_tag Direct 12133663 12134255 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 12133666 12133675 . + . Note "?rept??" CHROMOSOME_II assembly_tag Direct 12133676 12134950 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Direct 12134256 12134948 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12134281 12134298 . - . Note "serial#=Y43F11.22\ntemplate=rc05a12\nsequence=ATATTCCTCCTTGAACAC\nflags=\n" CHROMOSOME_II assembly_tag Inverted 12134881 12135356 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12134894 12134913 . - . Note "serial#=Y43F11.21\ntemplate=rb91c1\nsequence=GCCAAAAAAAATCGCTTTAC\nflags=\n" CHROMOSOME_II assembly_tag Inverted 12135016 12135707 . + . Note "Repeat: " CHROMOSOME_II assembly_tag oligo 12135037 12135053 . + . Note "serial#=Y43F11.18\ntemplate=ra74f3\nsequence=TAAAGGAGGACTAACGG\nflags=\n" CHROMOSOME_II assembly_tag Direct 12135054 12135159 . + . Note "Repeat: " CHROMOSOME_II assembly_tag Direct 12135160 12135356 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 12135249 12135249 . + . Note "?" CHROMOSOME_II assembly_tag comment 12135282 12135282 . + . Note "?" CHROMOSOME_II assembly_tag Direct 12135353 12135647 . + . Note "Repeat: " CHROMOSOME_II assembly_tag comment 12135356 12135356 . + . Note "?" CHROMOSOME_II assembly_tag oligo 12135451 12135468 . + . Note "serial#=Y43F11.1\ntemplate=ra71a10\nsequence=ATTTTTCCGTGTCACATC\nflags=" CHROMOSOME_II assembly_tag cosmid 12136265 12136265 . + . Note "vector: CAF:End=Left::pYAC4" CHROMOSOME_II assembly_tag Clone 12136265 12136270 . + . Note "left end: Y57A10" CHROMOSOME_II assembly_tag Finished 12136265 12136270 . + . Note "Left: Y57A10A" CHROMOSOME_II assembly_tag Clone 12136265 12136270 . - . Note "left end: Y57A10" CHROMOSOME_II assembly_tag comment 12136266 12136270 . - . Note "one end Y57A10" CHROMOSOME_II assembly_tag Finished 12136361 12136364 . + . Note "Right: Y43F11A" CHROMOSOME_II assembly_tag Clone 12152218 12152223 . + . Note "right end: Y43F11" CHROMOSOME_II assembly_tag annotation 12157153 12157328 . + . 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 from reads from a short insertlibrary derived from a single pUC clone." CHROMOSOME_II assembly_tag annotation 12171201 12172173 . + . 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 of unknown size. Each element 30 bases long, typical sequence:TACCATAACCAAACTACAGTAGTACTGTAG" CHROMOSOME_II assembly_tag annotation 12203462 12203530 . + . 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 - \npUC clone bridges, so confirms assembly.\n" CHROMOSOME_II assembly_tag annotation 12206184 12206290 . + . 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 from reads from a short insertlibrary derived from a single pUC clone." CHROMOSOME_II assembly_tag annotation 12215306 12215330 . + . 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 from reads from a short insertlibrary derived from a single pUC clone." CHROMOSOME_II assembly_tag annotation 12218125 12218131 . + . 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 from single terminator read forming part of loop of an inverted repeat. Assembly is confirmed by PCR ofYAC DNA." CHROMOSOME_II assembly_tag annotation 12225013 12225096 . + . 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 from a single terminator read.Region is not bridged by other pUC clones." CHROMOSOME_II assembly_tag annotation 12266606 12266633 . + . Note "First select a Feature -\n[ ] Unsure\n[x] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[x] Other\nAdd a comment here -\nUnidirectional primer reads only." CHROMOSOME_II assembly_tag annotation 12268937 12268944 . + . 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 - One clone has 33 GA's and two have 37 GA's\n" CHROMOSOME_II assembly_tag annotation 12281962 12281970 . + . 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 - Arm of inverted repeat. Bridge confirms assembly.\n" CHROMOSOME_II assembly_tag annotation 12281992 12281992 . + . Note "First select a Feature -\n[x] Unsure\n[ ] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[x] Other\nAdd a comment here -\nIn inverted repeat region." CHROMOSOME_II assembly_tag annotation 12281994 12281998 . + . Note "First select a Feature -\n[x] Unsure\n[ ] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[x] Other\nAdd a comment here -\nIn inverted repeat region." CHROMOSOME_II assembly_tag annotation 12282016 12282016 . + . Note "First select a Feature -\n[x] Unsure\n[ ] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[x] Other\nAdd a comment here -\nIn inverted repeat region." CHROMOSOME_II assembly_tag annotation 12294572 12294656 . + . Note "First select a Feature -\n[ ] Unsure\n[x] Misc_feature\nThen select the text for the note(s) -\n[ ] Tandem repeat\n[ ] Single clone region\n[ ] Forced join\n[x] Other\nAdd a comment here -\nUni-directional primer reads only." CHROMOSOME_II assembly_tag Clone 12301480 12301483 . - . Note "left end: C50E10" CHROMOSOME_II assembly_ta