Alignment last updated: 01/15/2014 17:37:52

Join Legend

Serious alignment problem, requires review. (details...)
- Zero, or more than one, overlaps
- Half dove-tail >50 bp
- Alignment identity <98%
- Alignment length <50 bp
- >2 gaps, each gap >25 bp, not marked as an SSR
- >0 gaps, each gap >50 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, marked as an SSR
Minor alignment problem. (details...)
- Exactly one overlap
- Half dove-tail >0 bp and <=50bp
- Alignment identity <99.6%
- Alignment length <2000 bp
- >0 gaps, each gap >25 bp, not marked as an SSR
- >0 gaps, each gap >50 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, marked as an SSR
Excellent alignment, meets all defined criteria. (details...)
- Exactly one RuleInfo
- Half dove-tail <=0 bp
- Alignment identity >=99.6%
- Alignment length >=2000 bp
- <=0 gaps, each gap >25 bp, not marked as an SSR
- <=0 gaps, each gap >50 bp, not marked as an SSR
- <=0 gaps, each gap >500 bp, not marked as an SSR
- <=0 gaps, each gap >500 bp, marked as an SSR
Certificate submitted, not yet approved.
Certificate submitted and approved.
Valid, contained clone
Join not evaluated due to one accession not being finished.

Alignment for AC198760.4 and AC202428.5

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AC198760.4 Zea mays chromosome 1 clone CH201-524A19, *** SEQUENCING IN PROGRESS ***, 12 unordered pieces [htgs_limited_order]

Length: 176,941 bp

AC202428.5 Zea mays chromosome 1 clone CH201-474D8, *** SEQUENCING IN PROGRESS ***, 10 unordered pieces [htgs_limited_order]

Length: 207,491 bp

Alignment Summary

Join evaluation: red (half-dovetail of >50bp)

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 117433
Total Length: 10196
Aligned Length: 10169
Percent Identity: 99.7345
Number of Gaps: 26
Number of Mismatches: 27
First Tail: 115313bp
Second Tail: 2bp
Source: CtgOverlap Seq-Align

Alignment 1 of 1

 AC198760.4 : - : 125490..115314
 AC202428.5 : - : 207489..197302
 Mismatches = 27, Gaps = 26, Length = 10196
 Percent identity = 99.73%
 Score = 1.85e+04 bits (10020), Expect = 0
  1 BAC and 1 Fosmid bridging clones.
  1 BAC and 0 Fosmid concordant clones.
  0 BAC and 1 Fosmid discordant clones.

AC198760.4 <125490  cagacattacagaacatcggagatatagaaatgcggaagcgattacataa-cttacattt 125432 
AC202428.5 <207489  ...c..-...g..c.........a.a.a...a.g.....-..a.c..a..c......... 207432 

AC198760.4 <125431  atttaaaaagtaagatcaagttacttattacagaccaga-gttat-cctaggagtg-cag 125375 
AC202428.5 <207431  ...a......g...g...........t..c.........at..t.c......-...c... 207373 

AC198760.4 <125374  agtaatattattacaataccaagggaggt-aaaaactcct-ccc-aataagttcttaaac 125318 
AC202428.5 <207372  ..at............ac...........a..........c...a........-...... 207314 

AC198760.4 <125317  -aaaagttctatatggaggaccaagt-cccccccgcgacttcactcttgttttt-c-ttc 125262 
AC202428.5 <207313  a............a....ac......c...........................t.t... 207254 

AC198760.4 <125261  cttgggaaccacc-ttggagcag-aag-caac-aaaaatttgtcgctt-cctcacctaaa 125207 
AC202428.5 <207253  .............c.........a...c....a...............t........... 207194 

AC198760.4 <125206  aacaacggaggg-ataaaccctgagtatggaattactcagcaa-gtcctacccgactaaa 125149 
AC202428.5 <207193  ............g..............................a................ 207134 

AC198760.4 <125148  gaaaagactctcaagggtatgctggttaagggagtcaaggtgaggcttttcaataatcaa 125089 
AC202428.5 <207133  ............................................................ 207074 

AC198760.4 <125088  agactctgctttgcagaaatgcttactaaagtggatccttaaaaatccagttttatttgt 125029 
AC202428.5 <207073  ............................................................ 207014 

AC198760.4 <125028  caagttaagtaaaattacctgcaactagagttctttctaccctagttcaatcacttgtcc 124969 
AC202428.5 <207013  ............................................................ 206954 

AC198760.4 <124968  tgcactagccaatttcttaaacaaaccatcatctttagtggattgctacgtgtaagtcag 124909 
AC202428.5 <206953  ............................................................ 206894 

AC198760.4 <124908  tgaccaagtcttcataaccgcgaaggtacggcgatccgaatcgattatactcagctgagg 124849 
AC202428.5 <206893  ............................................................ 206834 

AC198760.4 <124848  atctccaatcacacgacatatgtagcacttaacccttgcatatgtcaacccgccaccggg 124789 
AC202428.5 <206833  ............................................................ 206774 

AC198760.4 <124788  gttcttaagaccagatcaggtcacgcaaaccgagagcacagatacaccaccgtctagcct 124729 
AC202428.5 <206773  ............................................................ 206714 

AC198760.4 <124728  cttgccacggagggtacacgctactctcgcccccgctccacgcccatttcgtgttatctt 124669 
AC202428.5 <206713  ............................................................ 206654 

AC198760.4 <124668  attctggccttagtctgcccgaggcaaggcttacccatgacgaggcatgtgaccagttaa 124609 
AC202428.5 <206653  ............................................................ 206594 

AC198760.4 <124608  agggtcctcggtcatcaagcctacatcgagacggtccttaatcgaatcagacggggacac 124549 
AC202428.5 <206593  ............................................................ 206534 

AC198760.4 <124548  tacaccgagactctcttctcgtgcaagtcacccgcccggtctcagcttaatcatttaaac 124489 
AC202428.5 <206533  ............................................................ 206474 

AC198760.4 <124488  ccaaatcttggtacctggcagaggtacatcttttccgacgttgaacccatcagggccctg 124429 
AC202428.5 <206473  ............................................................ 206414 

AC198760.4 <124428  atggatccaccatcaaattttatttttgaaaacatccctcccactttgccaaacatcttt 124369 
AC202428.5 <206413  ............................................................ 206354 

AC198760.4 <124368  tgtaaaacaaatccttttgtttttctagagcaatactaagcatagaaaaacctttttgta 124309 
AC202428.5 <206353  ............................................................ 206294 

AC198760.4 <124308  aaaacaaggtttcaaggagggtaatcaagttcaaagaaggtaatgcaagaattttttaat 124249 
AC202428.5 <206293  ............................................................ 206234 

AC198760.4 <124248  caatcaactcctatcacctaatgcagcaatcaagtgagaaagattttaaaaacatcaagg 124189 
AC202428.5 <206233  ............................................................ 206174 

AC198760.4 <124188  aaggtggcaaatgcaccggggcttgccttcgttagtaggtgagtcaggctcggtcccgca 124129 
AC202428.5 <206173  ............................................................ 206114 

AC198760.4 <124128  gatatcgaagtagaaacaattcccggcctgagaattcgaaggtggtggtgtcttctcttc 124069 
AC202428.5 <206113  ............................................................ 206054 

AC198760.4 <124068  ggtcacttcaatctcttcttcgttttctaaatataaccatataggtatatatatatataa 124009 
AC202428.5 <206053  ............................................................ 205994 

AC198760.4 <124008  gaatgaatggcatgtaatgctcatgagagtgcgaagataataaagatttattatctaagt 123949 
AC202428.5 <205993  ............................................................ 205934 

AC198760.4 <123948  cttgaatacaactttccttcacggaactccgagaacttagggtttccggagatagtaaag 123889 
AC202428.5 <205933  ............................................................ 205874 

AC198760.4 <123888  gagttcaaagggcaggggggttttaggttctaagtatcaaacaaggtccaaatcaaccca 123829 
AC202428.5 <205873  ............................................................ 205814 

AC198760.4 <123828  aattctacccaaggtctttaaataatgtataggactcatataaaaagtttggacattttt 123769 
AC202428.5 <205813  ............................................................ 205754 

AC198760.4 <123768  ggaaattccatttattttctaaaaatccagaaccactaccttaaactactttatatacct 123709 
AC202428.5 <205753  ............................................................ 205694 

AC198760.4 <123708  taaaattccttagttaacctaaaaatcatggaactatttttattaaatactatagaaaat 123649 
AC202428.5 <205693  ............................................................ 205634 

AC198760.4 <123648  aagaagtctaacaaaattggtttcacaattttaggatttttctgtaatttcttagaaatt 123589 
AC202428.5 <205633  ............................................................ 205574 

AC198760.4 <123588  tctaaagtcccattgaaaaagaaaaagaaaagggttgaacagtgttgggctgattctagc 123529 
AC202428.5 <205573  ............................................................ 205514 

AC198760.4 <123528  ccaaccggccctgtaccaggggaaaacgagcgcgcgcccatgcccgcggggcagatttgc 123469 
AC202428.5 <205513  ............................................................ 205454 

AC198760.4 <123468  gcagaggccctcaatgttttggataacttgaagtgggttctgttactgttttcttaagtc 123409 
AC202428.5 <205453  ............................................................ 205394 

AC198760.4 <123408  gctgacaatttgcagtatggtccctgggtttctatttctttacagggggaagtccacgac 123349 
AC202428.5 <205393  ............................................................ 205334 

AC198760.4 <123348  gacgtggagcacggccgcactccggcgagcacgtagaccggccggaggaggccaagacag 123289 
AC202428.5 <205333  ............................................................ 205274 

AC198760.4 <123288  gtgctcagcttcgacctaaaccaaattcactacctggagaacgtttcccctaacttaatt 123229 
AC202428.5 <205273  ............................................................ 205214 

AC198760.4 <123228  gcacaaatggtgagctatcaagctctgtccgcgtgaaccgaatgggtggcagacagatga 123169 
AC202428.5 <205213  ............................................................ 205154 

AC198760.4 <123168  tcgtgttcccggtgatttgtgagcccgcagtccaaattggtggttcggcaagcatcgtag 123109 
AC202428.5 <205153  ............................................................ 205094 

AC198760.4 <123108  acatgtgagaaagcttaaacgagggagagggagggttggactgagtgggaaggtagctgg 123049 
AC202428.5 <205093  ............................................................ 205034 

AC198760.4 <123048  ccgcgatgaggtcgatttcgggtgacgaaaacctgaattgggggaactccggaattagag 122989 
AC202428.5 <205033  ............................................................ 204974 

AC198760.4 <122988  ctcgctggtgatcggctaggggcaatattaggtggcttggtgcgtgatgatgttgtgaag 122929 
AC202428.5 <204973  ............................................................ 204914 

AC198760.4 <122928  ctagccgcgggctcaatttataggaggagcgagcggtggtgatcaatttggccgagccgt 122869 
AC202428.5 <204913  ............................................................ 204854 

AC198760.4 <122868  gctggcggccggagatgaagaagaacacggcgctgtgaattcgtgtccaccgtcgtggca 122809 
AC202428.5 <204853  ............................................................ 204794 

AC198760.4 <122808  atctccccggcgacgatgggacaacaatagggagtcacggcgacgcggtggaaaggctcg 122749 
AC202428.5 <204793  ............................................................ 204734 

AC198760.4 <122748  gacatgcggcacaaggccggacggcggctatcgccggcgttcctatccaattccgccgcg 122689 
AC202428.5 <204733  ............................................................ 204674 

AC198760.4 <122688  gtgacgcttgtacgatggccggaatattttactggccggagttatccacggcgaggatat 122629 
AC202428.5 <204673  ............................................................ 204614 

AC198760.4 <122628  ttacgcgactccgagtgccatccggttactagtgattgtgaatctcaacagcggcgacga 122569 
AC202428.5 <204613  ............................................................ 204554 

AC198760.4 <122568  tcccaacgcaaagtcatcggcggtgaggggcgcggttgatctgatccatttcaggtcact 122509 
AC202428.5 <204553  ............................................................ 204494 

AC198760.4 <122508  gtaccatggcaactactcattcagtgcacctgacagccaagttctagggcagttttcctc 122449 
AC202428.5 <204493  ............................................................ 204434 

AC198760.4 <122448  ccaaattcctatggcaacatccccgagtatctgcataaaagttgtagtgctacataccag 122389 
AC202428.5 <204433  ............................................................ 204374 

AC198760.4 <122388  ctacaaatcgactatagtgactgagctcatttgataaatagatcatggttgaattcaacc 122329 
AC202428.5 <204373  ............................................................ 204314 

AC198760.4 <122328  ccaaagatggctctgttacactgcaagtctgaatttcagaataaaccagcctgacagcca 122269 
AC202428.5 <204313  ............................................................ 204254 

AC198760.4 <122268  agctttgagcttaattatctctggattgttcttaacaactgagctcacactcttaagcaa 122209 
AC202428.5 <204253  ............................................................ 204194 

AC198760.4 <122208  agttgttcttcttagataggcctacaaatttaatgtggtggcctaggacaaattctcaca 122149 
AC202428.5 <204193  ............................................................ 204134 

AC198760.4 <122148  aatttgaaaactacagagctccaaagttgagccaaaactctaatttcagacttagccaat 122089 
AC202428.5 <204133  ............................................................ 204074 

AC198760.4 <122088  atagagttcacttggtactttttgcaaataaacccaaagcttagggtttagtttaccaat 122029 
AC202428.5 <204073  ............................................................ 204014 

AC198760.4 <122028  ccacatatttgtgaaccaaataacttaggatacttattaacctagtttttgcactttagt 121969 
AC202428.5 <204013  ............................................................ 203954 

AC198760.4 <121968  ccaaaagtggactaattttgcacataggcccctatggtttggatttagggttttctaggg 121909 
AC202428.5 <203953  ............................................................ 203894 

AC198760.4 <121908  ttccaatagggttccaatggactttattcttgggaatatttcatgactattttcctagag 121849 
AC202428.5 <203893  ............................................................ 203834 

AC198760.4 <121848  cttttaggttttatcaatttgggttatgtcttacccctttaatacccatttagggttaag 121789 
AC202428.5 <203833  ............................................................ 203774 

AC198760.4 <121788  ttccctatctagggttctatttgcaaaacactaaaacaatacaacttgtttgaaattttt 121729 
AC202428.5 <203773  ............................................................ 203714 

AC198760.4 <121728  acctagtgaatgcactctaggtgtgtcaaacatatgcaatgccaatgtttatgatgccat 121669 
AC202428.5 <203713  ............................................................ 203654 

AC198760.4 <121668  gctcaagttttagttacagtaacaccaggggtgttacatccttccccccataaaagaatc 121609 
AC202428.5 <203653  ............................................................ 203594 

AC198760.4 <121608  tcgtcccgagattaaaagtcctagggtaagtaatggaaaaggaaacacgacatactttta 121549 
AC202428.5 <203593  ............................................................ 203534 

AC198760.4 <121548  tttccttatttctggtacaaggcagggatggtttgggaatcactcctttattacaacagc 121489 
AC202428.5 <203533  ............................................................ 203474 

AC198760.4 <121488  tatacaggctttacaaattacaagaggctaaaaagcctgggaaattcttatctaaaaagt 121429 
AC202428.5 <203473  ............................................................ 203414 

AC198760.4 <121428  cttgagtttcccatgtagcctcatcttcggaatgctggttccactgtatcttgtagaact 121369 
AC202428.5 <203413  ............................................................ 203354 

AC198760.4 <121368  taagagtttttattcgggtaaccctgtccttttggtccaagactcgaatagggtgctcag 121309 
AC202428.5 <203353  ............................................................ 203294 

AC198760.4 <121308  aatatgtcaagtctggctcaaggacaacatctgtcacttcaacggttcgatcgggaatac 121249 
AC202428.5 <203293  ............................................................ 203234 

AC198760.4 <121248  gaagacacttcttcaattaggacacatggaacacattatgcacagcagacaaggtttcgg 121189 
AC202428.5 <203233  ............................................................ 203174 

AC198760.4 <121188  gtaactgaagtcggtatgccactggcccctatctttccaggataaggaaaggaccaatat 121129 
AC202428.5 <203173  ............................................................ 203114 

AC198760.4 <121128  atcgtggtgcaagttttcctttaaccccgaaacgcgatactcctttcattggtgaaactt 121069 
AC202428.5 <203113  ............................................................ 203054 

AC198760.4 <121068  ttaggtagacatagtctccctcaaggaaatataagggcattcgtcgtttgtctgcataac 121009 
AC202428.5 <203053  ............................................................ 202994 

AC198760.4 <121008  tcttttgacgagcttgggctttcttcatattatgaattattttctgaaccttttcttcag 120949 
AC202428.5 <202993  ............................................................ 202934 

AC198760.4 <120948  tctctttcaccatatcaggcctgaagaagtacctttcaccaggttcagaccaatttagtg 120889 
AC202428.5 <202933  ............................................................ 202874 

AC198760.4 <120888  gaatacgacatcgtcgtccatataaagcttcaaagggtgccatcttaatgctttcttgat 120829 
AC202428.5 <202873  ............................................................ 202814 

AC198760.4 <120828  agctattattatatgaaaattccgctaacggcaaacattcatcccatttttgtggaaatt 120769 
AC202428.5 <202813  ............................................................ 202754 

AC198760.4 <120768  ccagaacacacgcccgtagcatatcttcaagtatctggttcactctctcagtctgtccac 120709 
AC202428.5 <202753  ............................................................ 202694 

AC198760.4 <120708  tggtttgaggatgataggccgaactgtggagtaatttagtacccagggatttatgaagtt 120649 
AC202428.5 <202693  ............................................................ 202634 

AC198760.4 <120648  cttcccaaaatttggatacgaattgaggtccacgatccgacactatagtcttcggaacac 120589 
AC202428.5 <202633  ............................................................ 202574 

AC198760.4 <120588  catgcaaactgagaatacgggcaatgtataactccgcataggtaagtaccgggtaatatt 120529 
AC202428.5 <202573  ............................................................ 202514 

AC198760.4 <120528  tcttgaccagcagaaagtgagcaattttcgtgagccgatcaacaataacccacatagagt 120469 
AC202428.5 <202513  ............................................................ 202454 

AC198760.4 <120468  catacccctttgcggttctgggcaatcccacaatgaagtccatactaatgtcttcccatt 120409 
AC202428.5 <202453  ............................................................ 202394 

AC198760.4 <120408  tccatgttgggattggcaaagattgtaatggaccagcaatcttcatgtgtatggccttga 120349 
AC202428.5 <202393  ............................................................ 202334 

AC198760.4 <120348  catgtctgcaaatgtcacacttagccacatagcgtgcaatctcaatcttcatcttcgtcc 120289 
AC202428.5 <202333  ............................................................ 202274 

AC198760.4 <120288  accagtagtgttgctttagatcatgatacatcttagtgcttcccggatgaatagaatagt 120229 
AC202428.5 <202273  ............................................................ 202214 

AC198760.4 <120228  gactaagatgcgcttcatctaagatttgctggcggagctcttcattcttcggcaccacta 120169 
AC202428.5 <202213  ............................................................ 202154 

AC198760.4 <120168  tgcggttattgaaccatatcacaccttgattgtcttctttgaaacatttggttgttccag 120109 
AC202428.5 <202153  ............................................................ 202094 

AC198760.4 <120108  ccattatcttctcacgtatgtgcttcataccctcatcatctttttgtgcatcaattattc 120049 
AC202428.5 <202093  ............................................................ 202034 

AC198760.4 <120048  tttgtaagatgattgactccagcttcaaatgatttgaagtcccatgctgaatcattccca 119989 
AC202428.5 <202033  ............................................................ 201974 

AC198760.4 <119988  ggttcaatttctccatctcctggcataatgtaatgtcagaagtcctcactgttaaacagt 119929 
AC202428.5 <201973  ............................................................ 201914 

AC198760.4 <119928  ggcaggaagccttgcgactgagcgcatctgccactacatttgcttttcctgggtgataat 119869 
AC202428.5 <201913  ............................................................ 201854 

AC198760.4 <119868  ggatttctaattcataatccttgattagctcgagccatcgtctctgtctcatattcaatt 119809 
AC202428.5 <201853  ............................................................ 201794 

AC198760.4 <119808  ctgactgggtgaagatatatttcaagcttttatggtctgtataaatatgacagacattac 119749 
AC202428.5 <201793  ............................................................ 201734 

AC198760.4 <119748  ccaacaaataatgacgctacatctttagggcacgaaccaccgcagctaactccagatcat 119689 
AC202428.5 <201733  ............................................................ 201674 

AC198760.4 <119688  gagtaggatagtgttcctcatgtcggcgtaactgcctggaagcatatgcaattactcggc 119629 
AC202428.5 <201673  ............................................................ 201614 

AC198760.4 <119628  cttcttgcattagcacgcagccgagtccactgcctgatgcatcacaatatacatcaaagg 119569 
AC202428.5 <201613  ............................................................ 201554 

AC198760.4 <119568  gtttggtgatgtccggttgagccaataccggagcagtggttaacaatgtcttcaattgtt 119509 
AC202428.5 <201553  ............................................................ 201494 

AC198760.4 <119508  caaaagcttcatcacactttgaagaccaattgaatttaacatcgttcttcaataaacttg 119449 
AC202428.5 <201493  ............................................................ 201434 

AC198760.4 <119448  tgattggcttcacaagcttagaaaaatctggtatgaatcggcggtaatatccagccagtc 119389 
AC202428.5 <201433  ............................................................ 201374 

AC198760.4 <119388  caaggaaactttggacctaatgaacagtggtcgggggtttccactccaaaatgaccttga 119329 
AC202428.5 <201373  ............................................................ 201314 

AC198760.4 <119328  ctttgctgggatctaccgcaatccccttggcagatagtacatgtcccaaaaactgaattt 119269 
AC202428.5 <201313  ............................................................ 201254 

AC198760.4 <119268  cctccagctaaaacgcgcatttgctgaacttggcatataactgatgttctctcaagcgcg 119209 
AC202428.5 <201253  ............................................................ 201194 

AC198760.4 <119208  ttaaaacgatccgtaaatgttgcgtgctcctcttcattcttggaatatatcaaaatatcg 119149 
AC202428.5 <201193  ............................................................ 201134 

AC198760.4 <119148  tctatgaagaccaccacaaacttgtccaactcgggcatgaataccgagttcatcaaatac 119089 
AC202428.5 <201133  ............................................................ 201074 

AC198760.4 <119088  gtgaagtgggcaggagcatttgtcaatccgaaagacattaccaggtattcaaataatcca 119029 
AC202428.5 <201073  ............................................................ 201014 

AC198760.4 <119028  taccgcgtagtgaaggcggtctttggtatatcttcgggccaaatacggatctggtgatag 118969 
AC202428.5 <201013  ............................................................ 200954 

AC198760.4 <118968  cccgatctgagatcaatcttggaaaagaccctcgctccagtcagttgatcaaatagaatg 118909 
AC202428.5 <200953  ............................................................ 200894 

AC198760.4 <118908  tcaatccttggaagagggtacttgtttttgatggtgacctcattcaagggtcgataatcc 118849 
AC202428.5 <200893  ............................................................ 200834 

AC198760.4 <118848  acacacattcgtaaagtttgatccttctttttgacgaatatggctggacaaccccatggc 118789 
AC202428.5 <200833  ............................................................ 200774 

AC198760.4 <118788  gatgagcttggccggataaatcctttctcaagtagatcttgtaattgaatcttcagttct 118729 
AC202428.5 <200773  ............................................................ 200714 

AC198760.4 <118728  gccaactcattaggaggcattcggtacgatcttctagatactggagtcgtaccgggcttc 118669 
AC202428.5 <200713  ............................................................ 200654 

AC198760.4 <118668  aactcaattacaaaatctacctcccgttcaggtggcagtccgggcaaatcctcgggaaag 118609 
AC202428.5 <200653  ............................................................ 200594 

AC198760.4 <118608  acatcgggaaactcgcatactaccggaatatccttgatttccggtataatggcttcataa 118549 
AC202428.5 <200593  ............................................................ 200534 

AC198760.4 <118548  gctctgccagtagctttggttggaatggtgatagacaaaagaatttcttcctggttatga 118489 
AC202428.5 <200533  ............................................................ 200474 

AC198760.4 <118488  ctcaacctgataattctctgatcagtgttgagagttgctttgtgtctggctaaccaattc 118429 
AC202428.5 <200473  ............................................................ 200414 

AC198760.4 <118428  atgcccaaaatgacatctatatcttggcctttcagaacgatcatattagtaggaaagtcc 118369 
AC202428.5 <200413  ............................................................ 200354 

AC198760.4 <118368  cgtccggccaaggttacgggcacttgataggccacttctctagtaaatacttgtccccct 118309 
AC202428.5 <200353  ............................................................ 200294 

AC198760.4 <118308  ggtgagtgaattttaaacccctctttcaattcatggcatgagatgcaatgttgctccaca 118249 
AC202428.5 <200293  ............................................................ 200234 

AC198760.4 <118248  aatttcttgctgatgaatgtatgcgaagcaccagaatcaaagagaataactacgggatga 118189 
AC202428.5 <200233  ............................................................ 200174 

AC198760.4 <118188  ttggccacaagaaacgtacccatcattaccggctcaccgtccggtgtagtggccacttgt 118129 
AC202428.5 <200173  ............................................................ 200114 

AC198760.4 <118128  gtataatatatgtgtcccgtcttctttgtatttttgcccatattatttcccttggcttga 118069 
AC202428.5 <200113  ............................................................ 200054 

AC198760.4 <118068  gatgaattcctagatccttgctgagtatttgactagttctgctttggataagggcaatcc 118009 
AC202428.5 <200053  ............................................................ 199994 

AC198760.4 <118008  ttgataaaatgcccagacttcccacaattgaaacatcaagttgatgagttgggaagggca 117949 
AC202428.5 <199993  ............................................................ 199934 

AC198760.4 <117948  gggaatcgagtgcctggggcacccggctgacttgatgcagtaggggcattgttgggacga 117889 
AC202428.5 <199933  ............................................................ 199874 

AC198760.4 <117888  ataaagactggctgcttaaaagggaaggagggtggacaagagaaagaacgattctggttg 117829 
AC202428.5 <199873  ............................................................ 199814 

AC198760.4 <117828  gaaggccggatgacgaaccgttgccttttcaccgggccctgactaggcctgtcacctcca 117769 
AC202428.5 <199813  ............................................................ 199754 

AC198760.4 <117768  gaacccttggattttctagcgcctgcatactttgcttctactgccagtgttgtactgaca 117709 
AC202428.5 <199753  ............................................................ 199694 

AC198760.4 <117708  gctcttccataagtaagatctatgcaggttgccatctttctttgcagtcgatcatttaac 117649 
AC202428.5 <199693  ............................................................ 199634 

AC198760.4 <117648  cctctcataaagcaattcttcttcttcaaattagtgttcacctgatcgattgcatattgt 117589 
AC202428.5 <199633  ............................................................ 199574 

AC198760.4 <117588  gaaaaatgattaaacttattgagatactgattaacagtatcccctccttgtttcagcttc 117529 
AC202428.5 <199573  ............................................................ 199514 

AC198760.4 <117528  ataaattcttcttgcttcatgtgaagaacaccttctggtatatagtgcttgcggaaggcc 117469 
AC202428.5 <199513  ............................................................ 199454 

AC198760.4 <117468  accttgaattcttcccaagttatctgatgattggccggttgaacggccacaaaattaccc 117409 
AC202428.5 <199453  ............................................................ 199394 

AC198760.4 <117408  caccaagtgctggcagggccgcgcagttgctgggttgcgaataaaggcttctgggtttct 117349 
AC202428.5 <199393  ............................................................ 199334 

AC198760.4 <117348  gaacatcgcagcagtccaaacttttgctcgatcacacgaagccattcatctgcttctaac 117289 
AC202428.5 <199333  ............................................................ 199274 

AC198760.4 <117288  gggtcttcggctttgacaaacagcggtggtcgcgtctctaagaagtccatgtaagaggtt 117229 
AC202428.5 <199273  ............................................................ 199214 

AC198760.4 <117228  tcactggggccctgttgataaccccgcccgccttgttgtggaaactgttgacccgccatt 117169 
AC202428.5 <199213  ............................................................ 199154 

AC198760.4 <117168  tctctgagaaaacgagtattatccgcggttgcatttaccaaggcggcattcgcctcagcc 117109 
AC202428.5 <199153  ............................................................ 199094 

AC198760.4 <117108  agtgtgggaggaacaggaggtggatttggggtagtctccctcccactggaagttccaggt 117049 
AC202428.5 <199093  ............................................................ 199034 

AC198760.4 <117048  gcatcctgtggtcgggtcttggacggcatctgtggcaacaacatttggaaacaatatgat 116989 
AC202428.5 <199033  ............................................................ 198974 

AC198760.4 <116988  atgccaaagaaaaacccatccattttacattaccaaaaagagtaatgtacagactcgaac 116929 
AC202428.5 <198973  ............................................................ 198914 

AC198760.4 <116928  ttttacaataggatacattacctattatacaaatacactacctattatacaatagtacaa 116869 
AC202428.5 <198913  ............................................................ 198854 

AC198760.4 <116868  cctattatacaatacactacttctacttctactacaccattattcctgcttcccattgct 116809 
AC202428.5 <198853  ............................................................ 198794 

AC198760.4 <116808  tttggcggcctcgtcgtcgggtgtgggagaccattcgtcgaccagcctcatagaaggagg 116749 
AC202428.5 <198793  ............................................................ 198734 

AC198760.4 <116748  gggctgaaaaaaggtctaactcaccaccaagcgcgtgtcccgcaacatgcaagggtccgg 116689 
AC202428.5 <198733  ...........-................................................ 198675 

AC198760.4 <116688  cttccgactcatcaggattcgtaggctcactgggatgcagttgcgaatataatacatgaa 116629 
AC202428.5 <198674  ............................................................ 198615 

AC198760.4 <116628  cctcttcatgtaaggtattgcaatatgtctgcagttcttcaacggtcaagttgagctcgg 116569 
AC202428.5 <198614  ............................................................ 198555 

AC198760.4 <116568  ctactcgagcttgagctttttgctccttgtcccatgcaagcgaatgggattgaacaaccc 116509 
AC202428.5 <198554  ............................................................ 198495 

AC198760.4 <116508  agtcaagtgccaaatcccggtccacgagctgatctcgcagatggcggacatctcttctca 116449 
AC202428.5 <198494  ............................................................ 198435 

AC198760.4 <116448  actcatttatgcggtcgccatctacgacccagatagtcgtcctgcggcggagttccgctt 116389 
AC202428.5 <198434  ............................................................ 198375 

AC198760.4 <116388  ggagccgacttacttcagcttcaagatcccctataggatcattgcttccgctactgctat 116329 
AC202428.5 <198374  ............................................................ 198315 

AC198760.4 <116328  tatcctgccttggggccagctggtgactcggcacaccaatcggtcaagtatgtttgcgcg 116269 
AC202428.5 <198314  ............................................................ 198255 

AC198760.4 <116268  ctgttctccttgtgcgcggcgacattttctaagggggaaactttaattactatggttctt 116209 
AC202428.5 <198254  ............................................................ 198195 

AC198760.4 <116208  agcatgatgcatgtataattacataatcaaccttagttgattcacaccttctatatgttg 116149 
AC202428.5 <198194  ............................................................ 198135 

AC198760.4 <116148  cactcttactacctggtctttaagatagactc-ttcagaatacttaggtaagaaaggaag 116090 
AC202428.5 <198134  ................................c........................... 198075 

AC198760.4 <116089  agagtttctaggtaagactttttagaaattccttttgaagatgcctcataatatctgcaa 116030 
AC202428.5 <198074  ............................................................ 198015 

AC198760.4 <116029  agaagggctacgctccgataccagctatgacggaacctcccaagtaattaggcccaccta 115970 
AC202428.5 <198014  .........................................................g.. 197955 

AC198760.4 <115969  cagttgtccttgtccaacgaacctcagacaaccctgtaggtgcccctgaaccacttgaca 115910 
AC202428.5 <197954  ............................................................ 197895 

AC198760.4 <115909  agttcggtatcttctttcttacctttccaggaacgtttcacctgtcttgcagacattaca 115850 
AC202428.5 <197894  ................-........................................... 197836 

AC198760.4 <115849  gaacatcagagatatagaaatgcggaagcgattacataacttacatttatttaaaaagta 115790 
AC202428.5 <197835  ............................................................ 197776 

AC198760.4 <115789  agatcaagttacttattacagaccagagttatcctaggagtgcagagtaatattattaca 115730 
AC202428.5 <197775  ............................................................ 197716 

AC198760.4 <115729  ataccaagggaggtaaaaactcctcccaataagttcttaaacaaaagttctatatggagg 115670 
AC202428.5 <197715  ............................................................ 197656 

AC198760.4 <115669  accaagtcccccccgcgacttcactcttgtttttcttccttgggaaccaccttggagcag 115610 
AC202428.5 <197655  ............................................................ 197596 

AC198760.4 <115609  aagcaacaaaaatttgtcgcttcctcacctaaaaacaacggagggataaaccctgagtat 115550 
AC202428.5 <197595  ..........................--................................ 197538 

AC198760.4 <115549  ggaattactcaacaagtcttacccgactaaagaaaagactctcaagggtatgctggttaa 115490 
AC202428.5 <197537  ............................................................ 197478 

AC198760.4 <115489  gggagtcaaggtgaggcttttcaataatcaaagactctgttttgcagaaatgcttactaa 115430 
AC202428.5 <197477  ............................................................ 197418 

AC198760.4 <115429  agtggatccttaaaaatccagttttatttgtcaagttaagtaaaattacctgcaactaga 115370 
AC202428.5 <197417  ............................................................ 197358 

AC198760.4 <115369  gttctttctaccctagttcaatcacttgtcctgcactagccaatttcttaaacaaa 115314 
AC202428.5 <197357  ..............t......................................... 197302

Events

Type

Date

Whodid

Comment

296174

InitHasAlign

01/15/2014 17:37:52

cgi_chen

find_overlapId: find_overlap_app.cpp 404199 2013-06-20 22:08:27Z rafanovi $ built Aug  1 2013. Toolkit wrapper  using /home/boukn/code/toolkit/c++/GCC442-ReleaseMT64/lib
Info: Blast Including ID: 545258162
Info: Running Blast Filter: 0
Info: Determined ID: gi|545258162 needs Merging.
Info: Blast Including ID: 545258162
Info: Running Blast Filter: 0
Info: Determined ID: gi|545258162 needs Merging.
Info: Blast Including ID: 545258162
Info: Running Blast Filter: 0
Info: Determined ID: gi|545258162 needs Merging.
Info: Best Rank: 14 in  for 545258162 of 1
Info:  NG returned 1 alignments

tpf_solo for TPF_updated_1_v2

BAC Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
CH201-126F23	AC202428.5	100%	pos 40051 (R+)
CH201-126F23	AC198760.4	100%	pos 104522 (R+)
CH201-127P9				AC198760.4	100%	pos 171434 (F+)
				AC202428.5	100%	pos 92516 (F+)
				AC198760.4	100%	pos 171510 (F+)
				AC202428.5	100%	pos 92440 (F+)
CH201-145N21	AC202428.5	99.84%	pos 158504 (R-)
CH201-186A20				AC202428.5	98.67%	pos 113039 (F+)
CH201-191L6				AC202428.5	100%	pos 172996 (F+)
CH201-212J8	AC198760.4	100%	pos 51883 (R+)
CH201-212J8	AC198760.4	100%	pos 43824 (R+)
CH201-256G16	AC202428.5	100%	pos 38848 (R+)
CH201-256G16	AC198760.4	100%	pos 103319 (R+)
CH201-256P21	AC202428.5	100%	pos 91560 (R-)
CH201-256P21	AC198760.4	100%	pos 170554 (R-)
CH201-30C15				AC202428.5	100%	pos 116999 (F+)
CH201-391P20	AC198760.4	100%	pos 92963 (R+)
CH201-391P20	AC202428.5	100%	pos 28077 (R+)
CH201-43D7				AC202428.5	100%	pos 172996 (F+)
CH201-43D8				AC202428.5	99.49%	pos 173204 (F+)
CH201-481N7	AC202428.5	100%	pos 170539 (R+)
CH201-502P3	AC202428.5	100%	pos 128701 (R-)
CH201-502P3	AC202428.5	100%	pos 128758 (R-)
CH201-511J18				AC202428.5	100%	pos 175518 (F+)
CH201-524A19	AC198760.4	100%	pos 3 (R+)
CH201-524A19	AC198760.4	100%	pos 36 (R+)
CH201-534F3				AC202428.5	100%	pos 179221 (F-)
CH201-544P1				AC198760.4	99.6%	pos 22006 (F-)
CH201-548C21	AC198760.4	98.62%	pos 46873 (R+)	AC202428.5	100%	pos 113147 (F-)
CH201-570C9				AC198760.4	100%	pos 34149 (F-)
CH201-5H1	AC202428.5	100%	pos 200177 (R+)	AC198760.4	100%	pos 170547 (F-)
	AC198760.4	100%	pos 118192 (R+)	AC202428.5	99.85%	pos 91544 (F-)
				AC202428.5	100%	pos 91553 (F-)
				AC198760.4	99.85%	pos 170538 (F-)
CH201-83D5	AC202428.5	100%	pos 69979 (R-)
CH201-84I22	AC202428.5	100%	pos 69977 (R-)
ZMMBBb-121O21				AC202428.5	99.5%	pos 32706 (F-)
ZMMBBb-121O21				AC198760.4	99.5%	pos 97176 (F-)
ZMMBBb-135P6	AC198760.4	98.65%	pos 93634 (R+)
ZMMBBb-135P6	AC202428.5	98.65%	pos 28748 (R+)
ZMMBBb-150F8				AC198760.4	98.46%	pos 135523 (F+)
ZMMBBb-242A16	AC202428.5	99.31%	pos 187749 (R+)
ZMMBBb-28I9	AC198760.4	97.48%	pos 2749 (R-)
ZMMBBb-300E7	AC202428.5	99.23%	pos 40972 (R-)
ZMMBBb-300E7	AC198760.4	99.23%	pos 105443 (R-)
ZMMBBb-317P24				AC198760.4	99.36%	pos 67072 (F-)
ZMMBBb-317P24				AC202428.5	99.36%	pos 3149 (F-)
ZMMBBb-347M17	AC198760.4	98.72%	pos 39041 (R+)	AC198760.4	98.8%	pos 156727 (F-)
ZMMBBb-347M17				AC202428.5	98.8%	pos 77727 (F-)
ZMMBBb-349G21	AC198760.4	97.9%	pos 41224 (R-)
ZMMBBb-451J22	AC202428.5	97.3%	pos 142466 (R+)
ZMMBBb-467I10				AC198760.4	97.3%	pos 95988 (F+)
ZMMBBb-468H5	AC202428.5	97.81%	pos 36456 (R-)
ZMMBBb-468H5	AC198760.4	97.81%	pos 100927 (R-)
ZMMBBb-496I16				AC198760.4	98.34%	pos 156296 (F+)
ZMMBBb-496I16				AC202428.5	98.34%	pos 77295 (F+)
ZMMBBb-548K9	AC202428.5	97.76%	pos 173139 (R-)
ZMMBBb-558B5				AC202428.5	97.46%	pos 54060 (F-)
ZMMBBb-558B5				AC198760.4	97.46%	pos 128418 (F-)
ZMMBBb-572L19				AC202428.5	98.72%	pos 179135 (F-)
ZMMBBb-581I15	AC198760.4	97.92%	pos 128397 (R-)
ZMMBBb-581I15	AC202428.5	97.92%	pos 54039 (R-)
ZMMBBb-599L11				AC198760.4	98.28%	pos 101794 (F+)
ZMMBBb-599L11				AC202428.5	98.28%	pos 37323 (F+)
ZMMBBb-600H8				AC198760.4	98.47%	pos 13353 (F-)
ZMMBBb-635B14				AC202428.5	98.24%	pos 103551 (F+)
ZMMBBb-645A5	AC202428.5	97.86%	pos 37350 (R+)
ZMMBBb-645A5	AC198760.4	97.86%	pos 101821 (R+)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
Z_AI-1015A1	AC198760.4	99.86%	pos 165424 (R+)
Z_AI-1015A1	AC202428.5	99.86%	pos 86426 (R+)
Z_AI-1021E21	AC202428.5	100%	pos 41318 (R+)
Z_AI-1021E21	AC198760.4	100%	pos 105789 (R+)
Z_AI-1063F10	AC202428.5	99.87%	pos 2072 (R+)	AC198760.4	99.42%	pos 97910 (F-)
Z_AI-1063F10	AC198760.4	99.87%	pos 65996 (R+)	AC202428.5	99.42%	pos 33440 (F-)
Z_AI-1064B1				AC202428.5	99.84%	pos 31081 (F+)
Z_AI-1079M17	AC198760.4	100%	pos 25738 (R+)
Z_AI-1103C17	AC198760.4	100%	pos 26037 (R+)
Z_AI-1146H23	AC202428.5	100%	pos 96888 (R-)
Z_AI-1149N24				AC198760.4	100%	pos 21712 (F-)
Z_AI-1219I6				AC198760.4	100%	pos 26543 (F-)
Z_AI-1237I12	AC198760.4	100%	pos 134681 (R-)
Z_AI-1291A12				AC198760.4	100%	pos 154732 (F-)
Z_AI-1291A12				AC202428.5	100%	pos 75731 (F-)
Z_AI-1323A16	AC198760.4	100%	pos 57824 (R-)
Z_AI-1352F1	AC202428.5	99.86%	pos 37100 (R-)
Z_AI-1352F1	AC198760.4	99.86%	pos 101571 (R-)
Z_AI-277A17	AC202428.5	100%	pos 91306 (R+)
Z_AI-277A17	AC198760.4	100%	pos 170300 (R+)
Z_AI-281B16				AC202428.5	99.61%	pos 169861 (F-)
Z_AI-318E4	AC198760.4	100%	pos 20378 (R+)	AC198760.4	100%	pos 41484 (F-)
Z_AI-419C2				AC198760.4	99.55%	pos 122312 (F+)
Z_AI-419C2				AC202428.5	99.55%	pos 204297 (F+)
Z_AI-447A6				AC202428.5	100%	pos 192607 (F+)
Z_AI-479F21				AC202428.5	100%	pos 140949 (F-)
Z_AI-560I10	AC198760.4	97.47%	pos 26530 (R-)
Z_AI-563E21	AC202428.5	99.69%	pos 29104 (R+)
Z_AI-563E21	AC198760.4	99.69%	pos 93990 (R+)
Z_AI-589J18	AC198760.4	99.84%	pos 135496 (R-)	AC198760.4	100%	pos 50489 (F-)
Z_AI-623F13				AC198760.4	98.48%	pos 33573 (F+)
Z_AI-650D11	AC202428.5	100%	pos 100376 (R-)	AC198760.4	100%	pos 150272 (F+)
Z_AI-650D11				AC202428.5	100%	pos 71271 (F+)
Z_AI-686F21				AC202428.5	100%	pos 136969 (F-)
Z_AI-820L12				AC198760.4	100%	pos 164288 (F-)
Z_AI-820L12				AC202428.5	100%	pos 85290 (F-)
Z_AI-860E18	AC202428.5	99.72%	pos 100431 (R-)	AC202428.5	100%	pos 69717 (F+)
Z_AI-875C13	AC198760.4	99.82%	pos 113150 (R-)
Z_AI-875C13	AC202428.5	99.82%	pos 48423 (R-)
Z_AI-888H12	AC202428.5	99.86%	pos 74827 (R-)	AC202428.5	99.86%	pos 44963 (F+)
Z_AI-888H12				AC198760.4	99.86%	pos 109433 (F+)
Z_AI-925P23	AC202428.5	100%	pos 176257 (R-)	AC202428.5	100%	pos 137876 (F+)
Z_AI-950N19	AC198760.4	99.18%	pos 26109 (R+)
Z_AI-959D5	AC202428.5	100%	pos 137963 (R+)

Repeats

acc	start	stop	repeat id	strand	name	family	class

Join Legend

Curator Links

Alignment for AC198760.4 and AC202428.5

Alignment Summary

Alignment 1 of 1