Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_050335
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 566695
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:28956 original size:15 final size:15
Alignment explanation
Indices: 28936--28966 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
28926 ATCTCATAGG
28936 AATGTTAAGAATGAA
1 AATGTTAAGAATGAA
28951 AATGTTAAGAATGAA
1 AATGTTAAGAATGAA
28966 A
1 A
28967 TAGATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (15 bp):
AATGTTAAGAATGAA
Left flanking sequence: Indices 28436 -- 28935
GCCTTCAAAGACATCTCTGCAAATAGCGGAAGTAATTTGATGTCTGATCTTTATCTTGCAGACAT
AAGATCGGGTGAAGAAAGTGCTCAATCAGACCTTCTTTTAGGTGTCCTGCTCCCTATAGTTGATA
GTGGGACCTCCTTGCTCTTCTTCTTGACCCTGAAGAAGTTAGCTCTGAAGGCATAACTCTGGGCT
TCTAGTAGCCCTTCCGACAACAGATTCAATTGCAGCAGTTACTCTAACAGCGGCAATCGCCCATG
GTTCTGCTCTACTATATTCACATGTTGGCCCAAGGCTCACTCCCAGCCCTAAGCTAAGCCCTACG
GTTCCTTCGCTTCCCGCCGTTAAGAGTTATGGCTTATAGGATAATAAGAGTTAAGGACAGTAGTT
AGCAATCCCGGTATTCAAGATGAGGAAGTTAGCTGGCTGGCTGGGGTAACTCTCCTTGCCGAGGA
GATAAAGAATGCTTACTCAAGCCCAAGAAGGAGCTATCTCATAGG
Right flanking sequence: Indices 28967 -- 29466
TAGATTCAACTATAGCAAGTCAACTCACCTTTGCTTTTAAGAAAAATTGTTGGCAAGCAAATAAC
TTGTTACTCTTTTTCTTTCTGTAAGTCAAGTCCCCGGTGATCCAAAACCTCAGTCAGGGCGGAGT
TAAAGATAATAGAATAGAATATGAAAGAAATGTTTTTGAATCTTTTTGGGATCGGGCTAAGGATG
TTCAATGTTCAAGCGTAGTCAATCCATTCATCTGAGGAGTTTACCGCTCCGTGGGGGCTGTCATT
TTTCCTCTGCTGCGTCTGACTGTCCTCATTCTAGTTGGTAGGCGTGCGAGTAAGAGAGTAGTAGG
CGAAGTTCTATGAATTGAATGGGACTTCAGCTTCGACAATCGTATCCTCCCTCCAGCAAATAAGG
TGGAGTGGGCAAGGCAGAGAAGACAGGAAAAGACAAGCTCAAACTTCAGCATTTCCATTACCTGC
TCCAGTAAAGGAAGCATTTCCTGTGAATAAGAACTCGAATTGGAA
Found at i:46389 original size:15 final size:16
Alignment explanation
Indices: 46369--46399 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46359 TACGTCGTTT
46369 AGTTTA-GCAACAAAA
1 AGTTTAGGCAACAAAA
46384 AGTTTAGGCAACAAAA
1 AGTTTAGGCAACAAAA
46400 TCCGTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (16 bp):
AGTTTAGGCAACAAAA
Left flanking sequence: Indices 45869 -- 46368
TTTTCTCTTTATCAGGTAGGAGGTAATGGTAGGGGGTTTATACAGCACATCGTGAGAGAGTTCTG
TCCCTCCCATCCATCAGCAGAGATAGGATGGATGTATAGAGGAATCAATGAGGGATAAATCGATG
ATGAATAGTTAAGCTAGGTAGGGCCAAAAGGTGATTTATAGGCATAGAGACTTCAAGACCCCGTT
CCTTTAAGAATCACATAACCTAACTTGCAGTTGCTGCCATGGCTCTATACTCAGCCTCTGTGCTC
GACTTTGACTATTGCAAAGGCTAAGGTGGCTTCCCCAACTTTTTATTATGATGACCACTTTGAAT
ATGTTCTGTGAGGAATCTGGAGAGAAGGTGAGTCTATCCAAATCGAAGATGTTAGTCTCTTCTCT
AAGAACATTGATTCTCATCAAGCTGCAGATCTCAGTAGATACTGTGGAATCCCTTTTAACCGTTA
GAAATGTATGCTTTTATAACTGGCATGCCATATTGTACGTCGTTT
Right flanking sequence: Indices 46400 -- 46899
TCCGTCAAGAAATGCCTTTTATCTTACGAGTGCCTCGCCAGCTACTCCACAAGGGACCAGAAAGA
GAGAATTGATCCACGACTCTTTGACGAGACCTGAGACCGGTAACTCTAACCAAGTTGGTATCCAC
TTCTTTTTTTGGATCTCGTCGAGTTCGACTTTCGAGGTGCTTCGTTCCAGTAAAAAGAGTAATTA
TCTCTTCTGCCACCGTAAGAGGGGCTGATTGGGATTGTTTAAGCAACTCACGTAATCGTTGACCT
TCTTGCCAATCAAATGATTCTGACTAGCTTTCTTTCTCGAGATCAGAAGCAAATTGCGCAAAGGC
TTCTTCTAATTCAGCGAATTGACACCCCTTTAATTTGTCCGAAGAAAGTTTGTGACTTACAGCCA
TAAAGAAGGGGGCCTCGACTTGTACCAGCCACTTCTGCCGATTTGTCTGCCTAACTAAACTAAGG
ATCGGGCTTTGACTTGACCCAGTCGTCATGCCAGCCCTTTTTTAT
Found at i:92593 original size:21 final size:20
Alignment explanation
Indices: 92552--92594 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
92542 GTCGAGAAGA
* * *
92552 TTTTTTCTCTTAGAGAGGCG
1 TTTTTTCGCTTAGAAAAGCG
92572 TTTTCTTCGCTTAGAAAAGCG
1 TTTT-TTCGCTTAGAAAAGCG
92593 TT
1 TT
92595 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (20 bp):
TTTTTTCGCTTAGAAAAGCG
Left flanking sequence: Indices 92052 -- 92551
GAACCACTTAAATGGAGGAATCGATTGTATTTCGTCCTTTGTTCCCCATAGCAACTGGGGATCAA
AAAACACCAAATTTGATGACTTATTAAGGGAAAGACGAAGTAAGAGCATGCTATTGGAGACGTTG
CAACATATGTCGGGAAGGCCTCCGTTGATTGTGTACGAACAAAATACGAATCCAAAGGCAGGGTA
AGAAAGGGTTTAGCTAATGGAGATATTAACTCTTCCGGGAACCAGTAACGCGTAAACCATGTCAA
ACCAAGACCAATCAATATCCGAACGGAACGGATTCGAACTTCTCCTAGAATAGTTTCCGGTGCGA
AATGAAATTCATAGGATATATATGAGTAATTCAAAGGAGAAATAGAAATATTAGATAGGATTCGA
TTCATTTTAGTAATGAACAAAACTAATAGGATTGATTATGTATCAGAACTGAATCACTACACGAA
TCAGAACTTGAAACAATGAAAAAATAATGTTATGGGTCGAGAAGA
Right flanking sequence: Indices 92595 -- 93094
CCTTCTCTCAAGGGATTTCCATAACTCAACTAACTCTCGGCGATGGTGCATTTCCAATTGGGCTT
GGTGCTTTTGTTTTAAAAAGCCCTGGAAATGCTCTGCCTGGGTCCTTTTGACTTCCGCATAGAAT
GGGGATTCTTCTCTGTCCCCACACAGGCTTTCCAAGACCTGGCATAGAGCCGGGTGATTGAATTC
AAAGGGTTCAAGGTGTACCCTCAGTATGGAATCCAGGTCTTGTGGATCAATGAAGAGTTGGGGAT
CCTCCCGACCATAATAAAGTTGTTGACCAACGGAAAGCATGGGAGAAAGATGCACAAACGAAAAA
GGGCTCAAAAAAAAGAAGGAATTTCATATATAAAAAGAGCGGTACACTTCACACCAACCCAATCT
CGAAAAATAAATAGAAGTACAAGCAAGGACATTTTCTCGATCAAGAAGGTATTGAACTTCTCGAC
GCACCTCTATCAATTCCTTCTTTGCCTCATCTTCTTCTCTTATGA
Found at i:101286 original size:24 final size:24
Alignment explanation
Indices: 101254--101300 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
101244 AAGCAGCGCG
* *
101254 TCGTGCTATAATCGGACACTTCCA
1 TCGTGCTATAAGCGGACAATTCCA
*
101278 TCGTGCTATGAGCGGACAATTCC
1 TCGTGCTATAAGCGGACAATTCC
101301 GAAGAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (24 bp):
TCGTGCTATAAGCGGACAATTCCA
Left flanking sequence: Indices 100754 -- 101253
TAATTGAATCGGTCAAGATCAAATCTGTTTATCAAAGTGCTTCTCCGATTGCTCAAGACATCTCT
TTTCAACCGAGGAACAAAACAAGATCATTTCGTTCCATTTTTCGTAAAATAGTGAAGGATATTCC
ATTAGTAATGAAAAAGGGGGTGGAGGGGATCCGTATATGTTGTTCAGGTCGATTAGAAGGTGCAG
AAATCGCTAGAACTGAATGCGGAAAGTATGGAAAAACATCTCGTAATGTATTTAACCAGAAAATA
GATTATGCTCCTGCGGAAGTATCTACTCGTTACGGAATCTCAGGTGTCAAAGTGTGGATTTCATA
TAGTCAAAAAAAGGGGGGACATGCTATATCCGAAACGTACGAAATTTAGTAAATATCGTAAAGGC
AGATGTAGTAGGGGTTGCAAACCGGACGGTACACAACTTGGTTTTGGAAGATATGGCACTCAAAG
TTGTAGAGCTGGTCGTCTTTCATATCGAGCCATTGAAGCAGCGCG
Right flanking sequence: Indices 101301 -- 101800
GAAGAAATGGTAAGATATGGGTAAGAGTTCTCGCAGATATCCCTATTACCGGGAAACCTACAGAA
GTAAGAATGGGAAGAGGAAAAGGAAATCCTACGGGTTGGATTGCTCGTGTGTCCAGGGGACAAAT
CCTATTTGAAATGGATGGTGTGAGTTTGTCAAATGCTCGTCAAGCCGCTACATTAGCGGCGCATA
AACTATGTTCGTCAACCAAGTTCGTTCGGTGGTCGTACCTAAAGAATGTACAAGACAAACCATGA
CTCTCATTCGTTATTTTTTTACCTTTCTTACTTTCATAGCTGCCAATTCTTTTTTTCATTTTCTA
GGAATAGAAGGAACCGCTATAATGACCACGGGTAGAAATATCCTGCTTTTTGCAATCCTTCTTTT
GAGCCTGACCTTTCTCGTTCGTAGAAATCGTTTTCGTTTGAATCAAAAATTTGGCTTTCGACTTG
TCTTTATCATATATATATTTATTTTTTTTTCCATCTCGTTATTTG
Found at i:104747 original size:7 final size:7
Alignment explanation
Indices: 104735--104762 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
104725 GGTAGGCTCT
104735 TGCTTAA
1 TGCTTAA
104742 TGCTTAA
1 TGCTTAA
104749 TGCTTAA
1 TGCTTAA
104756 TGCTTAA
1 TGCTTAA
104763 AGCGGTTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
TGCTTAA
Left flanking sequence: Indices 104235 -- 104734
TATGGCGGCTTACCTTCGTACATTCAAGAACAGTTGTGACTCCTTGGCATCTATCAATGCACCGG
TGTCCCAATCTGATATGTTTACATTCCTTCTTGCTGGCCTGCCTTCGGAGTATGAAAGCTTTGTC
ACTACGGCGAAGCTTCAACGACCAAAACCAACTATGGCTGAGCTTCGGTCCAGCTTGTTGTTACA
TGAGTCTTGGCTTCAGCAGATGCATCCTATTACTATGTTGATGATCTTGTATACTAACCGAGTCC
GCACTCGCCCGAGAACACGTACGTCCTCCCTGTAATTGTCTTGTCTTTGTTATGGTTTCAGGGCC
TACGTCTACCCGTATGGAGCCACCATCATTCGCAAGGCTTGCTTTACATTGGACCCGATGTTGAG
CCTCTCATAGCCTAGTACCGGTGAACTAGGCAAGCGACCCTGCAAGGCAGCCAGCCTTTCTGCAA
AATCAATGTCCGCCTCGCCGCTGCTTTCGGGTAGAGGTAGGCTCT
Right flanking sequence: Indices 104763 -- 105262
AGCGGTTCGAGCTGCTCTCGCTCATTCTTTCGTTGTTGCTAGCTTGCGGTCACTGCGATGGTCAC
AAGCTCTCACTAGAAGGATCGGAACACACAACAGTAGCCCAGGCTTAGGTTAGGGCGCATGATCT
CATTGCAGGGCTTGACCACTCATGCTCATCTCGATAAGAAGACTAGACTTCGTTCGCTAGGGCAG
CTGATAGCTAGCTTAGGCTTCTCGGCCAGTTTCCCCTGTATTGATCCATTGTGTTAGCCGGCGAA
AGTGGGCATGCTTTCATCGCTTCCGTGCTCCTAGTTTTCCATTGCATTGAGGAAGGTGATGTCCT
ACGGTCAAGTCAAACGGAATCTTTGTTAGGAATATTATCACATAAGTGTTTGTAAATGAAGAAAG
GATTTTTGATTGTTGAAAGAAGAACCCTAAGGCCAGAGTGAGAAGAGTTATGACCCGATAGCTCT
ATGCCTACGGTTCCTTGTTAGGGGTTCATATAACATCTAAAGCTA
Found at i:107504 original size:155 final size:156
Alignment explanation
Indices: 107251--107531 Score: 370
Period size: 155 Copynumber: 1.8 Consensus size: 156
107241 GTACCGGCAG
* * * * * *
107251 AGACGGATTCAGAATTGGAAGTTTGCGGGTTTGAGATTCTCGCTTTTTTTAGTTATTGAGTTTGA
1 AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGC-TTTTTTAGTTATTGAGTTTGA
* * * * * * * *
107316 ATTTAGTAATTTGGACAAAAGTCGTTGGGTTCGGTTGAATCTGTACCTTCTATCGTGCATCCACG
65 ATTTAATAATTTGGACAAAAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATCCACG
107381 CATCCCTGATCAACTATGAAATTCGAA
130 CATCCCTGATCAACTATGAAATTCGAA
*
107408 AGACAGATTCAGAATTGGAAGTCTATGAGTTTGAGAATCTAGC-TTTTTAGTTATTGAGTTTTGA
1 AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGCTTTTTTAGTTATTGAG-TTTGA
*
107472 A-TTAATAATTTGGACAACAA-TTATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATC
65 ATTTAATAATTTGGACAA-AAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATC
107532 AGCACCTGAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
155 62 0.58
156 8 0.08
157 36 0.34
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (156 bp):
AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGCTTTTTTAGTTATTGAGTTTGAA
TTTAATAATTTGGACAAAAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATCCACGC
ATCCCTGATCAACTATGAAATTCGAA
Left flanking sequence: Indices 106751 -- 107250
TTGAGATTTTTTAGCACGGAAAACAATACAAATACCGAACACCAGATAAAAAAAGGGGATTAAAG
AAACAAACCAGCATGCTTAGGAATGAGACGCCAATTACGAGTTCCATGTTGAGCAATGTAAGATG
AAAGCTTATGATCTTCCTCTGGTGTCCATTGTCCCCTCTTGACATTGTCTTTTTCACAACATGGA
ATTCTCCCCATCTCTCCAAAATTTTGTGTTAAAATGGTTAAAGATGAACTTGTTTGTTTTTCACT
TTGTTTAGTGTTTTTCTTTTTCGAAAATCGAAAGAAATGTATATATAGTGTGTTAAATGTTATGT
GAAGGGGGGTGTGTCAATAAGGCATCAAAGGTGCATGACATGATTAAAGAATTCAACGATGTTGA
GCGTGTGAGACATTGGCCGGTAGCTCACCCACAAGACGCCCGGTCAACTCTCTTTCTTACTATGT
GTTAATTGTGTGCACATGCATGGGGTTGACCACTCGTACCGGCAG
Right flanking sequence: Indices 107532 -- 108031
AGCACCTGATCCACGACGAAATAAGAAATTCTAATTAATCAATTTTTTTGAAAAAGAAATTAGAA
CGGTCTATTTCCATAACTTTTCACGATACGATGGCATTATAGTAACGAGAGCTTTTACTTTTTCA
TTATATTATATTAGTAAAGCGTTAGCACCTCCATAGAGTAAGGCTCTCTTCTGGTTCTGGATAGC
TGCAAAGCCTTCTATGTTGGTATGGAGACTGCTTCCCGTTCGCTAAACAACCCCCTATTGCAACA
CTTAACTATCCTTCAAGGGGCGAACTCCACCTATTTTTGAGCGGCGATCCGAAAATGAAAATCAA
TCTCTTCATACAATCCGTCTTGGTGTTATGATGTAGACGTGAGAGTCTTCCCAGATGTGACTAGA
GAATAGCCCAACATAACCCGATTATCACGTTAGCGGGACTAGTGACTCCGCACTTTCTTCGTCCG
AATTCATTTGATTCCAAGTGCTCCCTATTCCGATCGAAGAAGGAT
Found at i:243166 original size:25 final size:24
Alignment explanation
Indices: 243127--243176 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
243117 ATTATAAGAC
* **
243127 ATTATATGAATACTTTCTTTCTTT
1 ATTATAAGAATACTTGATTTCTTT
243151 ATTATAAGATATACTTGATTTCTTT
1 ATTATAAGA-ATACTTGATTTCTTT
243176 A
1 A
243177 ACTAATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTATAAGAATACTTGATTTCTTT
Left flanking sequence: Indices 242627 -- 243126
GAGAGGTGTGCTTCTTAAAGCATTTCAAATTGTATCATACCCTATCTTACTAGGCTTCTTTCTTT
GGCTTTCTTCTCTTTATGAACCTTCAAGCATAATGAATAACCCCTTTTTCTCTCAGTCGGATATT
GAGAGCCTCAGGCAGTTTCTCAATGGAACTGGAGATCTGACTAACACTATTCTAGAAAGGGCAGA
GATAAGGACGAGAGAGTTAGCTGCACCAAGCGAGGATGGAGAGGAGGACCTATCTACTCTAAGTA
TAAGTAGAAGAAGAGAAGTTCTCATATTACTTACTGGAGGATTCGCACAGTGCCTGGTTTTGACT
CTATATGCTCTCGCTCTTAAAGAAGGATTCTAAAAGCTAAAGCTAAAGCAAGGGAAAGGGAATAG
CAATCGTCTGCGGGTTGTTCTTCCTTTTCTCTAGGCCAATTAGACTGAAGGGGTCATTAGACTAT
TCCGATTATTCAACCATTGATTTCTTTAATGAATTATTATAAGAC
Right flanking sequence: Indices 243177 -- 243676
ACTAATACTTAGAATTGAACTCAGAACTCGTTTCCCGTATAGAGAGACGTTTCATTCGGGCTAAC
CTCCCTTTTTTTGTATTAGTTCATTTTCCGTGTTTCCATCAAGTTATTGAAGAAGTTACTCCTTT
CCAGCGTCCCTAGACTATATGGATGTCGTACTTGTTCCGACTCCTAGTTCTACTTATGTAATTTC
CCAGCCAGTAAGTAAGTCAACAGTAGCTCTTCCATAAGTCCCTCAAGTTGCACGGATGAGCACTA
AGAACCCTTGGTATCGCAGGAAGTGTCCCCGACTCATTATCAGAAAGAGTAAGCATTCCATCTCC
ATCCTTTCCCGTACCCCTTTTCCTGATCTTCTTTCCGGATCCAATATTGCTTTTGAACGTAAGAC
TTGTAAGCGTTAGCACCTGGTTCAGACAGAGCATAAGTAGGCGAGCTAGATGAGAACCGGCCGGT
AATGAATCTTTCTATTAATTGTCTTCGGCTCTTCAAGCTGTCCTA
Found at i:257201 original size:20 final size:21
Alignment explanation
Indices: 257155--257202 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
257145 CTCTCGAAAA
*
257155 CATTCCAAGTTATCCGGAGTC
1 CATTCCAAGTTAGCCGGAGTC
*
257176 CATTCCAAGTTCGCCGGAGT-
1 CATTCCAAGTTAGCCGGAGTC
257196 CATTCCA
1 CATTCCA
257203 TAGCGCTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (21 bp):
CATTCCAAGTTAGCCGGAGTC
Left flanking sequence: Indices 256655 -- 257154
TTGCCAATTGGCATGTGAAACCGAAGCTTGAACGCTTTGAAGCTCCCTTTTAGCCCTTCCTTCTC
TTTCGAATGACAAACAAGAAATATCATAAGAGAAGAAAGAGAGCTTTAGAAGCAGCCAATCTTTT
CTTTATGCCCAAACCAAAAGTCCCATGCTTTCCGTTGGTCAACAACCAACGAAATCTAGATCATA
CGGGGAAATTGAGTCTCTCTTTTTTTTTTGGGGGAGCGGAACTACATTCAGAAAGACTCTCAATT
TATCATGGTAGTTCCAGGAGGTGATGCCACTCCAGTGGTTAAATGCATTTATAAGTATGTAAAAA
AAGTTTTGAAGAGCTGCTGTAGTAGTGGTAGTGCGCAGGATAGTATTGGTGCAGATCATTTTACA
ACCCATAATATTTTAATGAACTGTTGCAATTGCAATAACAATTGTGCTCTTTCCTTTCGGGATAC
GACGCACCAGGTCAAAAACTCGACGGAAGCTGAAACTCTCGAAAA
Right flanking sequence: Indices 257203 -- 257702
TAGCGCTGTAGAGTACCTAAATGTTGTTCAAGCTGAAAGCCCCCTTGAACAATTTGAAATAATCC
CATTGATTCCTATGCAAATAGGAAACTTCTATTTCTCATTCACAAATCCATCTTTGTTTATGCTA
CTAACTCTCAGTTTGGTCCTACTTTTGGTTTATTTTGTTACTAAAAAGGGAGGAGGAAACTCAGT
ACCAAATGCTTGGCAATCCTTGGTAGAGCTTATTTATGATTTCGTGCTGAACCCGGTAAACGAAC
AAATAGGTGGTCTTTCCGGAAATGTTAAACAAAAGTTTTCCCCTCGCATCTCGGTCACTTTTACT
TTTTCGTTATTTTGTAATCCCCAGGGTATGATACCTTATAGCTTCACAGTTACAAGTCATTTTCT
CATTACTTTGGCTCTCTCATTTTCGATTTTTATTGGCATTACTATAGTGGGATTTCAAAAAAATG
GGCTTCATTTTTTAAGCTTCTTATTACCAGCAGGAGTCCCACTGC
Found at i:276352 original size:27 final size:27
Alignment explanation
Indices: 276314--276370 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
276304 TTCGACCTAC
276314 AGGTACGAAGTCTCTGCGCTTGCGCAG
1 AGGTACGAAGTCTCTGCGCTTGCGCAG
276341 AGGTACGAAGTCTCTGCGCTTGCGCAG
1 AGGTACGAAGTCTCTGCGCTTGCGCAG
276368 AGG
1 AGG
276371 GAGAGTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (27 bp):
AGGTACGAAGTCTCTGCGCTTGCGCAG
Left flanking sequence: Indices 275814 -- 276313
CATAGGACCACTCCATGTGGTTACCCTACAAGGAGGTACGTAGGGGAGAAGGGTAGACCCCAGTT
TTTCAATCCTTTACTAGATACAGATGATGTAGACAGAATACGAAGATTCTCCAGGGTCCGCGATA
AGTAAATTGGAAAATTCCCATCATCTTCAACTTAGCCGGTTCTCGCTCTTTATAGCAGCTTAGCC
CGCTTCGACCAGGAATCTGTCAAGTTAGTAGCTAATAGTAGCTAATAAGAGAGTCTCACCCTCCC
GCGTGATCCCGCAGCGCAAGCATCTCCATAAGGAAGTCATCACCTTCTAACAGAAAAGTAACCCA
CAAGGTAAGGAAAGAAAGCAGAAATAAAAGGCGAGAGCATAGTGATCACCGGCGCTTTTCGTGGG
GGAAGCAGAGGTACGAAGTCGTTTGTTCGTTTTTACCTATGTGAAGTTGAACATAGTACAGAGAT
TCGTTTCAAACGTTTACAACGAATAGTTCAACTCATTCGACCTAC
Right flanking sequence: Indices 276371 -- 276870
GAGAGTGGATGTTATCGGTTACTAGATTTGGGCCAAGTAAATAATTTTTGGTAAATATAAGAGAA
TTTTATTATGATTTTGACAAAGTTATTTTCAAATGCAGAGAAGGTCACCCTAATATCTTGGCGTG
GTATCTTTGAAGGTACCAGACGGCTAAAGGGATTACTCTTGCGAGTCCCTTTAGTCGTTCTATCA
GTTTAAGTTGGACTTCATTTTCGCGAACTGTTGTTAGAATGGGACGAAAGTCTGGTTTCATTATA
TTGAAAGCAGTGTGGCGTAAGTCTTCAGCGATACTATGCTTCCAAACATGATCAGCTTTCTAGGG
CTACCTGTGGTCATTCCTTCTTATGTCCGAAAGGTTATTAGAAGGCATGACTCCAGGTCTGATCA
GTGGGTCATAATTGGTTTGGTATTTGTAGAATCATACCTTTGGCGAAGAAAGTTTCTTCGTCACT
GTTTGAATCTATAACTACTCCATCAAGTGATATTGATTCTGTAAA
Found at i:278474 original size:9 final size:9
Alignment explanation
Indices: 278460--278493 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
278450 CCGGATCTAC
278460 TACTAGATA
1 TACTAGATA
278469 TACTAGATA
1 TACTAGATA
278478 TACTAGATA
1 TACTAGATA
278487 TACTAGA
1 TACTAGA
278494 GGTCAAGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (9 bp):
TACTAGATA
Left flanking sequence: Indices 277960 -- 278459
AGGACTGTGCTCCGTAATTGGATGTCACAGTGGCTTGATTGGGTCTATTGGTACTATTCGACTGA
GACAGTGTCCATTGAGGTACGAAGTCACTCGACCGTAAGGTCGAGGGGCTACCGCCAACTCATTC
TGTTCAACGAATCTTTCAATTGCAGTCGACCAAACCGATTGAAGCAAGCATGAGTAGTATCCCTT
CCTTCGTTGTCCCTTTCTTATTTAGAATATCTCTTTGGCTACCAACTCAAAGGCGGTAAGATTTG
GAACCCAGAGAAAAATCCGAAATAACATCTGAATCGGATATTCAGTTGTTCAATCTGCGGGTGCT
TTGAAAAGCTTTATTCCCGTGTAGACATTATTTGACGAATTCGGAAGAAAGGGAATAAAAATAAT
CCACAGAGTCGACTGATGCATCTATACTATTGAGTTGAGAGAAAGAAAAGATGGGACTAGTTTGC
TACTCCTACTAATAAGAACCTAACAGAAGATCCATCCGGATCTAC
Right flanking sequence: Indices 278494 -- 278993
GGTCAAGCGGCTCCCCTTACGTAGATAGATGGTCCCTGCTTGTCTGGCGAACTAGGCAATTTCCT
TGGGTACGGTTCATTCTAAACGATTTTGCACCCTCTGGTCAATGATAGTCTATATGGCAAAACGC
TATAGGAGACACGTGTACACCGACGGAATACCTTCTGCGACTATCATGGCTAGGGTAATAATTCG
TATATAACAACATCTAATTGCGTATATCCTAAGTCCAATGTGAATGAGAATGGATAAGAGGCTCG
TGGGATTGACGTGAGGGGGCAGGGATGGCTATATTTATGAACTCCGGGCGAATATGAAGCGCATG
GGTAGAAATTCCGAATTCGCTTTGTCTACGAACAACTCATTTTCAACTATGTTACAGAAATGAGT
ATCAAAACGAACAACGAATAGTTCAACTCATTTCGTGTAACTATGTTACACTCATTTCGTACCTT
AGTTGCCACTGATCGATTCATCTATAGCCTAGGCTTCATCCATGC
Found at i:313452 original size:20 final size:20
Alignment explanation
Indices: 313427--313464 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
313417 CCGCGGAAGC
*
313427 CGGTGTGAACAAGCACCGAA
1 CGGTGTGAACAAACACCGAA
313447 CGGTGTGAACAAACACCG
1 CGGTGTGAACAAACACCG
313465 GCTTCTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.29, T:0.11
Consensus pattern (20 bp):
CGGTGTGAACAAACACCGAA
Left flanking sequence: Indices 312927 -- 313426
TTGAAGTGAGTCTAACTAGTATAACGAGTAAGACAACGAGTACTAGAGCTCCCTACTCTCAGTGG
ACTACTTATAGGAGGATAGGGAAAAGCTGCGTGCAGTTCAAGAGAGATCGACCAAAATCAAAGGG
GGGATAGAGCAAGGGCTCCACGCTCAAGGGACGGGCTATTTTACATAATACGGATCGGCGTATAG
CCTTTTTCTTCTTACGATCCTCTCCTTTCTGCTTCAGCGGAATATTCTGATTCGGCTTTAGCTGC
TTCGTCTGTATCTTCACATTATTCAAATGATCCTGAAGCGGACCTTTCCTTTGTGTTTGTTGTAG
CTCGCCCTTACTTAGCTTCCTTCCCTGAGCTAACCTCCTCTACCACGTTTCTATATGCCATTAGG
AGAAGTCAGTCTGCGCAATCCGCAATCATGAACCCGGCTCTGCACTAAAGAAAGGTGCGTCTGTA
TTCACTTTCATTCAGAACAAGCAACGGCTGAGCTACCGCGGAAGC
Right flanking sequence: Indices 313465 -- 313964
GCTTCTTGCCGGTGTGCGTTAGTGAAGCTAATAGTTCGGATGCGCATACCTTTTCTTGCTCCGTT
TCCTTGGTACCCGAACCGGAGAACTATCCACAAGACCGCTTCATGCTCCAAACTCGAGAAGAAGC
TTTCGAAGGCGCGTGTACCATTACTTGTACTTGTTATTCCACTAGTTATTTTTGGCAAGATCAAT
ATATAGTGATCAGTTATGATTGCTCAAACTACGGTACATAGTTTCAAGTTAGGCCTTACTTCAGT
CTGGTCTCCTCTCCCAGGTCTCAGCTTCAGGCTCCCACTGAAAAACGTATGAAAACGGCAAGGCA
AGCAAATGCACGAACGTATTGGAGGCTTTCTCTCATAAGAATCTTCTTTTCATCAGTATACGCCT
GATCGGCGAGTTCAGTCACACCTATAGGTCCGCTACTTCAAAGGCATCGCCTCACTTAGATCGCC
GGGGTTGGAGCTTCTTCGACCTCTAGCCATGACACTCCTCCCTTA
Found at i:318772 original size:19 final size:19
Alignment explanation
Indices: 318748--318785 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
318738 TCGGTGCGAC
*
318748 CACTAAAGAATTGCTTATA
1 CACTAAAGAACTGCTTATA
*
318767 CACTAAAGAGCTGCTTATA
1 CACTAAAGAACTGCTTATA
318786 TACGTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (19 bp):
CACTAAAGAACTGCTTATA
Left flanking sequence: Indices 318248 -- 318747
AAGAGTCAAGACCAGGCTACCTAATGGAATGTTTAACCGATCCATTCCGGATCGACCGAATTGGT
ACGGAAGTTGTAACATGGGAAAACCACGGAAAACACGACTTATTTGAATAACCCGGTGACCTACC
AATTGTAGAAGTAGGATTTTTGGCAAGCAATAAGCACTTAAATAATACAATTCAAGTGTACCATC
TTCTTTCTCATTTCGAGGAAAAGGTGCGGAAGGAAAAGGAAACAACGGAGGGATCCGAATCGGAC
CTAAATGGGAATGACATGAAAAGTCTTTTTCAAAACCTAGCATTAAGGGCGTTACGACGATATAC
GAGAGGAATAGAGAAAAACTCGTGATTGGTGTGGAGGGGAAGATCTGTTTATGATATAGTTCAAG
AAAGAGTCGTCTCATTTCCTTACTTCTTTATAATTCATTCACTTCAAGACTGGTTCTGAACGCCG
CGTAACATCATCTTCAACCAACCTCCACCGTACTTTCGGTGCGAC
Right flanking sequence: Indices 318786 -- 319285
TACGTTTACTAAAAGACTGACTTTCATTCATTATCATTAGTCCAGCGTGAAACTAAGAAAGAGAG
ATGTGCCTAAGGCGGCATGTAAGCAAACTGTGCACGCTAAGAGAAGAGGAGAGATGTTCGCAATT
ACTACCACAAGAAAGCCGCCCCCTATCTTCTAAAGGGGCCCGTCACTTCGTTCGTACCTTCTTGG
CTTAGGCTTCCAACTGAACAACATGGCCTTGCCGCCCCGCCACTAGCAGAAGCTAAGCGCTTGAA
AAGCGCGCTAAGAAAGGTTGCTTCTGTCGCCCTTTCTGTGCAACAGTCCACCAGTAGCGGAAGAG
AGGGTTACCGTACATACAAGAGTCTTCCAGTTCTTACGGAAGCTCTTTCTTACCAGTCAATCAAG
TAGTACAAGAACTCTATCTTATCTTATAGCCCGGCGCGGCGGGTCGCCTTTTAAATTAATGTTGT
AGATAGAAGAAAGTATTAAATAGATAAGGAGTAGATGAGTGAGTG
Found at i:327701 original size:15 final size:15
Alignment explanation
Indices: 327681--327710 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
327671 CTTATATATA
327681 TATTCATTAATAATC
1 TATTCATTAATAATC
327696 TATTCATTAATAATC
1 TATTCATTAATAATC
327711 ATATATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTCATTAATAATC
Left flanking sequence: Indices 327181 -- 327680
CGAATGACTTTGTTTACGGCTCTAAGATGCCATGCTTTAACTATTTCCCGTGTAAATATCATGAG
TTCTTGCTTGATTCTCAGGACGTAATGCTACTGCTTTCTCAGACTTTGCAGAGAATAAAGAGACT
CGCAAGGATAGATTCCCCTACTTCAGATACTTCTTAGGGCTTTCAATACTGACTACAAGGAAGTC
TGGGAACACAGTCGAAATCTATTCCCCTATCAAGAAAAGAAAGAGTCGAAAGCTAGAGCTGACAG
AGGAAAGAAAGCCTCTAACTTCTAAGTGAACTTCCTCCGAGAGGGCAGCGTAAGCCTTTAAAGTA
GCTTTCGTAGTTGCTACCTTCTGCCTTTCATTCCTTAGGCCTAAAAGGCAGTTCAGGTAGAAAAA
CCAAGTAACTAAGGAATCAATCAAGTCCTGCAGCAGAGATATTTCTCTTTTGGTACCAAACCAAC
CTAACTCTACCTTCTAGCCAACTTTCGAACGAACTCTTATATATA
Right flanking sequence: Indices 327711 -- 328210
ATATATGAATGAATTTCTTATATAAGACATTAAAGAAAGGAAAAATAAAAACGAATTAGAAAGAA
AGAAGACAATGCGCCGAAAACCCCTACTACTAAGTCAAGCTTGGGTCGAGTGTTGTAAAGACTGG
GCTTCTCGGCTGGATCGAATGAAAGTGGAAATGAAGGCGGGGAAACAAGTCTTCCGGCTTTGGAG
TCTTCCTCAAGCAGTGAATCACTGGCTACGTTTAGAGCTGTAATAGCAGCCGAAAACGAAGCTGA
GATATATGCTCGGATCAGAAATCTCGGTTCTATAGAGGTGCGTGCCTTGGAAGTTTTAATGCCCA
AAGATGGTCCTTCGACAAGCCCTTTGCTAAAGCTTCTATGGATTGCACCTTTAGAAAGGAAATCA
GCATTTAGGACTATTTTCCCAAGGAATGCACGTCTGGTCCTATCGTATAGTTGATGGAGGTTGCT
TTAGTTTAGGAGTGATTTTTCCCTCTAACTGGAAATCTCATAAGA
Found at i:424902 original size:22 final size:22
Alignment explanation
Indices: 424864--424905 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
424854 AGCCCGATGC
424864 AAGATGCGAACGAAGCGAAGGT
1 AAGATGCGAACGAAGCGAAGGT
*
424886 AAGA-GCGAAGCGTAGCGAAG
1 AAGATGCGAA-CGAAGCGAAG
424906 CGAATAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.14, G:0.38, T:0.07
Consensus pattern (22 bp):
AAGATGCGAACGAAGCGAAGGT
Left flanking sequence: Indices 424364 -- 424863
TGATTGGTATCTAGCATGACCTGGTACAGAACCAACTCGGGGGTTTTCTGCCAGTTGTTCGTGTC
TGCCTGATTCAAGGAGGAGGTAGGAATGGAGTCTGGAATGCAACTAGGAATCATTGGATCCACCC
CTAAGTTCTAAAATGCAATTGATATCTTTTTCCAATACGCGATGAAGCTACTTTGAAAACCGATC
AACTAACAACTCAAAAAGACAGATGAACTTGCTCGTCAAAGGTAATCTTTGTTTTGTCTTTGTGT
GTGTCTGAATGTCTGAGTGGGACCTTTAGATAGAATAGGAGAGTGTTCTAGACTCTAGTATAGCT
GCTCCCTCCGGGCGCTTCGATGCCTCGTCCGAAAAGGTATTGGAATTCTTTATTTTTCCGAAAGT
GACGAATCTTCAATGAGTGAAGCAAATCATGAAGTTGAGTAAGGGTTTTTCCAGATCATGATGGG
GAACTAAAAGACTGGACCGTTAGGCGAAGATGCCAAGCCCGATGC
Right flanking sequence: Indices 424906 -- 425405
CGAATAAGTCGGCGGGGGCTGTAAGCGAAGAAATCCGAGCGGAGAAGTGATTAGGTCCCACCAAA
GACGAAGTGATTACGTAGCAGAGGACGTTCACGGTGAGACGATAGGCGAACAGGAGCTTGTTGCA
GTAAGGCTGGTAAGCCGTAAGGGTACACGAAGGAGGTGAGCCTACAGGCGAACGGGTATGACGAG
GTGAGCAAAGTAGCTACGCGGCGAAACATTCTATATGACATTTCGCAACGAGCACTAAAAGAGCT
AAGCGAGGAATATTATATATGTGATTTCACAACAAACCAAAGAAGAGGACGAAGGAGGTGAGCCT
ACAGGCGAATAAGATGAGCTGCTACGCAGCGAAGTATTGACGCTGAGCTGTTAAATATTCTTCTT
TTTTGTTTTGCTATAGAAGGAGTTCCCTTCTTCGTTCCGTCGTTCCCTTTCGTTTCTTCGCTAAG
TGCTCTCTTATCTTTTCTTTCAATATCTTCTTTTCTTGTCATGTC
Found at i:433789 original size:18 final size:18
Alignment explanation
Indices: 433721--433780 Score: 93
Period size: 18 Copynumber: 3.3 Consensus size: 18
433711 GTCACGATCG
*
433721 ATATCGTCACTAGCATCA
1 ATATCGTCACTATCATCA
* *
433739 AGATTGTCACTATCATCA
1 ATATCGTCACTATCATCA
433757 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
433775 ATATCG
1 ATATCG
433781 ATCTCATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 433221 -- 433720
TACTAATCGATAGGACCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCCATGGTTATG
GACCCGAATCCGTTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCTACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTAGAACATCTTTCACAATCCCTGGAGAGATGGTTCACTAATAGACCGAGGGATAAGTCATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCACAGTTAGCCCA
TTCATCCTAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 433781 -- 434280
ATCTCATCAAGAAGAAAACCTTTAGACTTGTTATCCAGGAACTTGTTCAGAAATACCGTAATGAA
AGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTA
TCACTAAAATACCCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGG
AAATGAAAACTATTTTCCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAA
TATCCGTCTTTCTGCTAAACAGGATGGATTGAACTCATAATTCATTAGATGCTTTTTATGAATGT
CAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTT
GATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTATTTTCTGTCGTTAAGGT
GGAGAAATGAACCAAGAATTCTTTTTCTTCATCATCAATCGAATC
Found at i:436175 original size:21 final size:21
Alignment explanation
Indices: 436151--436224 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
436141 AAGTGAGTTA
436151 GACAAAAATAA-AAGCAACTTG
1 GACAAAAA-AAGAAGCAACTTG
**
436172 GACAAAAAAAGAAGTGACTTG
1 GACAAAAAAAGAAGCAACTTG
**
436193 GACAAAAAGAAACGAAGTGACTTG
1 GAC-AAAA-AAA-GAAGCAACTTG
436217 GACAAAAA
1 GACAAAAA
436225 GAAACGAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 5 0.11
23 7 0.15
24 14 0.30
ACGTcount: A:0.55, C:0.12, G:0.20, T:0.12
Consensus pattern (21 bp):
GACAAAAAAAGAAGCAACTTG
Left flanking sequence: Indices 435651 -- 436150
AATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAATAGAAGCAGAAGTGA
TGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATG
AAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCG
GGCTATCAAAGGATTTCCTGCGATTATTTCGAGTATGGAATGAGTCAATCATCCACTTTGGTATC
TTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTCGATTTTTGGGAAGTATC
ATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACAATTTGAAGACCTATTGATTCTA
ACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATGTAGATCTCGGACCTATGA
ATGGGGATATTTCCGAAACTCACACAGAAAAAAGGAAGTGAGTTA
Right flanking sequence: Indices 436225 -- 436724
GAAACGAAGTGACTTAGACAAATCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGAT
TAATACGTAATCGATCGAACACTACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAA
TGTTCCTGGAAATTCTTGCTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCAT
GGATCTCTCGGTTCGAGAAATCAAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAAT
TCGATAAATATTGGTTGATCGTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATT
TGATCCCTTTGAATTCCATATTCGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAA
TACATTTCTTATGTACCCATAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATT
GAGTGACTGCCTCCATTATGTTGTTGCTAGCAAATAGTGCCTCTG
Found at i:436197 original size:42 final size:45
Alignment explanation
Indices: 436133--436246 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 45
436123 ACTCACACAG
* * *
436133 AAAAAAGGAAGTGAGTTAGACAAAAA-TAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACAAAAAGAAACAAGCAACTTGGACA
* **
436175 AAAAAAAGAAGTGACTTGGACAAAAAGAAACGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACAAAAAGAAAC-AAGCAACTTGGACA
436221 AAAAGAAACGAAGTGACTTAGACAAA
1 AAAA-AAA-GAAGTGACTTAGACAAA
436247 TCTTTTTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 23 0.39
43 2 0.03
45 11 0.19
46 4 0.07
47 3 0.05
48 16 0.27
ACGTcount: A:0.54, C:0.11, G:0.22, T:0.13
Consensus pattern (45 bp):
AAAAAAAGAAGTGACTTAGACAAAAAGAAACAAGCAACTTGGACA
Left flanking sequence: Indices 435633 -- 436132
GTCCATACGTAAAATCCGAATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTC
CAATAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCA
TTGAGAAATAGGAATCCGGGCTATCAAAGGATTTCCTGCGATTATTTCGAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTT
CGATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACAATTT
GAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATG
TAGATCTCGGACCTATGAATGGGGATATTTCCGAAACTCACACAG
Right flanking sequence: Indices 436247 -- 436746
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATC
AAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAG
GTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTT
GTTGCTAGCAAATAGTGCCTCTGGAATTATGAAATCCTCTTCTAG
Found at i:436214 original size:24 final size:24
Alignment explanation
Indices: 436167--436246 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
436157 AATAAAAGCA
436167 ACTTGGAC-AAAA-AAA-GAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
436188 ACTTGGACAAAAAGAAACGAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
436212 ACTTGGACAAAAAGAAACGAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
*
436236 ACTTAGACAAA
1 ACTTGGACAAA
436247 TCTTTTTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
21 8 0.15
22 4 0.07
23 3 0.05
24 40 0.73
ACGTcount: A:0.51, C:0.12, G:0.23, T:0.14
Consensus pattern (24 bp):
ACTTGGACAAAAAGAAACGAAGTG
Left flanking sequence: Indices 435667 -- 436166
CTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAATAGAAGCAGAAGTGATGTGGATTATTCAAGA
ATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATGAAATGGTTTCACGGGA
TTCAGCCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCGGGCTATCAAAGGATTT
CCTGCGATTATTTCGAGTATGGAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAATG
GTGATATTGTTCCTCCATTGATCAAGAATTTCGATTTTTGGGAAGTATCATGATCGTCCAATAAG
AAGGGTTTCAATTTTTTCAAATGAACAATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAG
TTGATCATTCGGACCTTTCAATTCATAGATGTAGATCTCGGACCTATGAATGGGGATATTTCCGA
AACTCACACAGAAAAAAGGAAGTGAGTTAGACAAAAATAAAAGCA
Right flanking sequence: Indices 436247 -- 436746
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATC
AAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAG
GTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTT
GTTGCTAGCAAATAGTGCCTCTGGAATTATGAAATCCTCTTCTAG
Found at i:438582 original size:17 final size:17
Alignment explanation
Indices: 438549--438582 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
438539 CGCTCCTGAC
* *
438549 TATTCATATTCACGGCT
1 TATTCATAATCAAGGCT
438566 TATTCATAATCAAGGCT
1 TATTCATAATCAAGGCT
438583 CTAACCTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (17 bp):
TATTCATAATCAAGGCT
Left flanking sequence: Indices 438049 -- 438548
GGCCTTGAGGGTAATGTCGGAGCCTCTGCCTAGCCCACACCAAGGCGAGGCACGTCTTTTCCAAG
GTCGAATATGACGACTCGTAGTCCGTCAGCTTATTTCTCAGGTAGTAATCTTTCCTTTCTTCCCC
TTTCATCATGCTGGCCTAAGACGCATCTCATGGAGTTTTCCGTGACCGAGAGGTATAGCAAGAGG
GTTCTTCCCTTAATAAAAAAAGTACCAAGACCGGAGAATCAAAAAGATAGGTCTTAATCTTCTCG
AAAGCACTCTGCATAGTCAGTCTAGGGCATCGTTCTACTCCTTTTCTTCTTCCTCAAGAGCTTGA
AAATGGGCTCGCAAAAGGGAGTGAGCTGTGCGATGAACCTGCTGATATACTACCCAAGAATCCTC
TTCTTTCTTTCCTTTCTATCCCTTTCCTTTCTCGGGGAATGAGCACACCTTCAACTAGTCACCAG
TGCCCAGATTTTCTGTCTCTGCCAGCTCGTAACCTCGCTCCTGAC
Right flanking sequence: Indices 438583 -- 439082
CTAACCTCCTAATCAAGGAGTGGAATTCTCTGCTCCCCTCGGAAAACTCCATTGCTTTGACCATC
CTCAATGACCTGAGGATGCTTCTAGCCTTCAAAGAAGACCAATTGACCACTACTACTATAATGGA
GAAAGGACAATCTGCCTTCTAACCCGAGGTCCAGGTATTCCGGCCCCAGAGAGAGAGCGTGCCAA
AGCCCGATGAATAGACAGGGGATGGACAGTCCTTGGAGCCGTACCACCAAGAAGAAGATCAAGGG
AATCTCTACCATCAGGCTTCGAATCTGAGGTTGAGGTCTAGCCTCTCTTTTCAGTGGAAGTTGAG
CTCGTCGGATCTGCTGCCCGTGACGTGAGTGATCCTTAACCCTGCCCCTTCTTATTGCTATTTGT
GACATCGAGTGCTTAAGTGAGATCAGCGGTCTGGCAGGTCCTTGGACGCTGGCCCTTATAGTCTA
GTCTATTCGGACCTCTACTAGGGCTAGAGCTAGCCGGAAAAAGAA
Found at i:461102 original size:15 final size:15
Alignment explanation
Indices: 461082--461118 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
461072 AGAAAAAAAA
461082 ATCATATTATATATT
1 ATCATATTATATATT
461097 ATCATATTATATATT
1 ATCATATTATATATT
461112 ATCATAT
1 ATCATAT
461119 ATAGCAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (15 bp):
ATCATATTATATATT
Left flanking sequence: Indices 460582 -- 461081
TCCAGATATGCGGATTAAGCGAGAGCTAGTTTGTTTGAGTCTTTCTTGGTTCTTGAAGCGTGAAA
TGCGTGTGTGAGCATTGTTTTGCCGTCTTTCTCTTATAACGTTCTCAGAGGATAGGGCGAAACCA
CTTTGTGTTTAGTGGTTTTTAGGGAAGGATCAGGTCTTTTCGAGAGCTTATTGACCCGCAAAAAT
AAGCTTTGTGACCGATTTCTTTGAGTCAGCTTCTTTTCCGTGCGTGATAGAGCGTGAGGTTCGAG
AGCTGTACGAAGAAATGCTTTATTCGATCACTTTTCGCTAGCCTTAGTGAGTGATGAGATAGCGT
ATGATCCGTGCGCTAAGCGAGCAGCAAGCATTTTCTACTTCAACAACTTCTACTTATAGCTTAGC
AGTTTTGTCTTTCAAAATGACTTTCGTTTTCTCTTTTCTTTTAGATGATGACAAACGAACTGAAA
ACTGCGAATGCTTCTAATTAATTGAATCTTTTTTGAGAAAAAAAA
Right flanking sequence: Indices 461119 -- 461618
ATAGCAGAGTGATGTCTTTATGACAATTCGTCAAGTCCGATCGAGAAACCTGCGCCCAAAGTGCT
TACGTAGCCGGTCACCGTTTGGCTAAGATCCTTGATGACTGATTCATAAACCACTAACGCTTTCA
GTCTTGTGTTAAGTGTTCGCATAGCGACTAAGGTCCTAACAACTTGATGTCAGACTGTTCAACAT
GAGGGACATCTAACTCCTCTAACACAGATAACATAAAGACTAGGATTAGATGCTTAACATAACGA
CTCGTATGCTTTCACGAAAGATAGAGGAGCGACTCCGGAGAGAGACATCTAACAACTCGACTAGA
GCGGATCCCGAGACTTCACCCCTTCCTTTAAACTGTTGAGCACTACATTCTATAATTCTATAACG
AGAATCACAAGGCCGGTCAACAAGGAACAACCTGGCAGAGTGTCCTGAGATAACAAGACATCAGT
GACAAGGCCCAGTGACGAGAGTGGCGACATACGAGGATCTAACCT
Found at i:464570 original size:18 final size:18
Alignment explanation
Indices: 464528--464574 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
464518 AGATGGTAAC
*
464528 GCTGATGATTCAGGGGGT
1 GCTGATGATTCAGGGGAT
* * *
464546 GCCGATGTTTCAGGTGAT
1 GCTGATGATTCAGGGGAT
464564 GCTGATGATTC
1 GCTGATGATTC
464575 TGACAAGAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.36, T:0.32
Consensus pattern (18 bp):
GCTGATGATTCAGGGGAT
Left flanking sequence: Indices 464028 -- 464527
GGTGAGGGAAAGAACACACTGTTTCTATTTCCAATTACGCTATACTCGACGTATATGCTGCAATG
ATAACTCTGCTAACTGTATTATTTAAGAAAGTTTATTTATGGACTCTACCGGGGGTTAATTATAT
CTTTATGATTTGGCTTTTCGGTTTCTACAATATTTTGGAAATCATCTATTTCTATTTCATTATTA
TAAACCACTATACTGGTATATTTACCTATCTTTATCTTTTCTATTTATCCATCCGTAGATATATT
AACTTATCCGTCTTAAAAACCTTTATAATAGAATTTCTTAAGTTATGTTTTTTTATGCCCTTTAT
ACTATATATTCTCAAGAATGGTAATATATATAACTTAGATACTCTATACATAGAACTAACTAACC
GCGTTGATCTTCTAGATTTTCTTAGAAACCCTGAGGTTATAGAAGTGAAAAATCAATCCGATTTG
ATCGAAGATGTTAAAGATATCAGGGGTCTAGTTATAGATGGTAAC
Right flanking sequence: Indices 464575 -- 465074
TGACAAGAAGGGGTGGAGACCCGAACTGGCGGACTGTTTGATCCTCATTACTTGTGGGTTTATCT
TAATAGGATATTTTTCTACTGACTAATGATTATTCATCATTTACTTAAACAACGTTTTTTCTTCG
CTAAATGTCGTATAATAGAATAGAAAATCCCCGCTTGCCTTGAATTGTCCCTCCGCCATTAGCTC
TACTAGTACTAGCTACCGGGGTTGGCGCGGGTGAGCGTTGGTAAAACACTGTTTTCTGGGGGTCC
TGTATCCTACGCGCGATTTTTGAGAAAATCGCTGCTATGATTCCGAAGAGTATAGACTGGTATCG
CCTATTCCTTGTATTAAAAGATATCGAGGAGTTGGATGGCGACGCCCTTTGTAAGCGGTTCGATA
AACTGAGTCTTGAAGATAGTGAAAATGCTGGTAGTGGGGGCTCTCAGGCCAGCAGTCCGCCTTCT
CTGTCTCGTGCTTTGCAAATATTTCATCCGTGGTGGGAAGAGATA
Found at i:540853 original size:22 final size:22
Alignment explanation
Indices: 540815--540856 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
540805 AGCCCGATGC
540815 AAGATGCGAACGAAGCGAAGGT
1 AAGATGCGAACGAAGCGAAGGT
*
540837 AAGA-GCGAAGCGTAGCGAAG
1 AAGATGCGAA-CGAAGCGAAG
540857 CGAATAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.14, G:0.38, T:0.07
Consensus pattern (22 bp):
AAGATGCGAACGAAGCGAAGGT
Left flanking sequence: Indices 540315 -- 540814
TGATTGGTATCTAGCATGACCTGGTACAGAACCAACTCGGGGGTTTTCTGCCAGTTGTTCGTGTC
TGCCTGATTCAAGGAGGAGGTAGGAATGGAGTCTGGAATGCAACTAGGAATCATTGGATCCACCC
CTAAGTTCTAAAATGCAATTGATATCTTTTTCCAATACGCGATGAAGCTACTTTGAAAACCGATC
AACTAACAACTCAAAAAGACAGATGAACTTGCTCGTCAAAGGTAATCTTTGTTTTGTCTTTGTGT
GTGTCTGAATGTCTGAGTGGGACCTTTAGATAGAATAGGAGAGTGTTCTAGACTCTAGTATAGCT
GCTCCCTCCGGGCGCTTCGATGCCTCGTCCGAAAAGGTATTGGAATTCTTTATTTTTCCGAAAGT
GACGAATCTTCAATGAGTGAAGCAAATCATGAAGTTGAGTAAGGGTTTTTCCAGATCATGATGGG
GAACTAAAAGACTGGACCGTTAGGCGAAGATGCCAAGCCCGATGC
Right flanking sequence: Indices 540857 -- 541356
CGAATAAGTCGGCGGGGGCTGTAAGCGAAGAAATCCGAGCGGAGAAGTGATTAGGTCCCACCAAA
GACGAAGTGATTACGTAGCAGAGGACGTTCACGGTGAGACGATAGGCGAACAGGAGCTTGTTGCA
GTAAGGCTGGTAAGCCGTAAGGGTACACGAAGGAGGTGAGCCTACAGGCGAACGGGTATGACGAG
GTGAGCAAAGTAGCTACGCGGCGAAACATTCTATATGACATTTCGCAACGAGCACTAAAAGAGCT
AAGCGAGGAATATTATATATGTGATTTCACAACAAACCAAAGAAGAGGACGAAGGAGGTGAGCCT
ACAGGCGAATAAGATGAGCTGCTACGCAGCGAAGTATTGACGCTGAGCTGTTAAATATTCTTCTT
TTTTGTTTTGCTATAGAAGGAGTTCCCTTCTTCGTTCCGTCGTTCCCTTTCGTTTCTTCGCTAAG
TGCTCTCTTATCTTTTCTTTCAATATCTTCTTTTCTTGTCATGTC
Found at i:549740 original size:18 final size:18
Alignment explanation
Indices: 549672--549731 Score: 93
Period size: 18 Copynumber: 3.3 Consensus size: 18
549662 GTCACGATCG
*
549672 ATATCGTCACTAGCATCA
1 ATATCGTCACTATCATCA
* *
549690 AGATTGTCACTATCATCA
1 ATATCGTCACTATCATCA
549708 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
549726 ATATCG
1 ATATCG
549732 ATCTCATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 549172 -- 549671
TACTAATCGATAGGACCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCCATGGTTATG
GACCCGAATCCGTTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCTACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTAGAACATCTTTCACAATCCCTGGAGAGATGGTTCACTAATAGACCGAGGGATAAGTCATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCACAGTTAGCCCA
TTCATCCTAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 549732 -- 550231
ATCTCATCAAGAAGAAAACCTTTAGACTTGTTATCCAGGAACTTGTTCAGAAATACCGTAATGAA
AGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTA
TCACTAAAATACCCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGG
AAATGAAAACTATTTTCCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAA
TATCCGTCTTTCTGCTAAACAGGATGGATTGAACTCATAATTCATTAGATGCTTTTTATGAATGT
CAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTT
GATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTATTTTCTGTCGTTAAGGT
GGAGAAATGAACCAAGAATTCTTTTTCTTCATCATCAATCGAATC
Found at i:552126 original size:21 final size:21
Alignment explanation
Indices: 552102--552175 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
552092 AAGTGAGTTA
552102 GACAAAAATAA-AAGCAACTTG
1 GACAAAAA-AAGAAGCAACTTG
**
552123 GACAAAAAAAGAAGTGACTTG
1 GACAAAAAAAGAAGCAACTTG
**
552144 GACAAAAAGAAACGAAGTGACTTG
1 GAC-AAAA-AAA-GAAGCAACTTG
552168 GACAAAAA
1 GACAAAAA
552176 GAAACGAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 5 0.11
23 7 0.15
24 14 0.30
ACGTcount: A:0.55, C:0.12, G:0.20, T:0.12
Consensus pattern (21 bp):
GACAAAAAAAGAAGCAACTTG
Left flanking sequence: Indices 551602 -- 552101
AATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAATAGAAGCAGAAGTGA
TGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATG
AAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCG
GGCTATCAAAGGATTTCCTGCGATTATTTCGAGTATGGAATGAGTCAATCATCCACTTTGGTATC
TTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTCGATTTTTGGGAAGTATC
ATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACAATTTGAAGACCTATTGATTCTA
ACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATGTAGATCTCGGACCTATGA
ATGGGGATATTTCCGAAACTCACACAGAAAAAAGGAAGTGAGTTA
Right flanking sequence: Indices 552176 -- 552675
GAAACGAAGTGACTTAGACAAATCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGAT
TAATACGTAATCGATCGAACACTACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAA
TGTTCCTGGAAATTCTTGCTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCAT
GGATCTCTCGGTTCGAGAAATCAAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAAT
TCGATAAATATTGGTTGATCGTATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATT
TGATCCCTTTGAATTCCATATTCGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAA
TACATTTCTTATGTACCCATAGGTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATT
GAGTGACTGCCTCCATTATGTTGTTGCTAGCAAATAGTGCCTCTG
Found at i:552148 original size:42 final size:45
Alignment explanation
Indices: 552084--552197 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 45
552074 ACTCACACAG
* * *
552084 AAAAAAGGAAGTGAGTTAGACAAAAA-TAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACAAAAAGAAACAAGCAACTTGGACA
* **
552126 AAAAAAAGAAGTGACTTGGACAAAAAGAAACGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACAAAAAGAAAC-AAGCAACTTGGACA
552172 AAAAGAAACGAAGTGACTTAGACAAA
1 AAAA-AAA-GAAGTGACTTAGACAAA
552198 TCTTTTTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 23 0.39
43 2 0.03
45 11 0.19
46 4 0.07
47 3 0.05
48 16 0.27
ACGTcount: A:0.54, C:0.11, G:0.22, T:0.13
Consensus pattern (45 bp):
AAAAAAAGAAGTGACTTAGACAAAAAGAAACAAGCAACTTGGACA
Left flanking sequence: Indices 551584 -- 552083
GTCCATACGTAAAATCCGAATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTC
CAATAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCA
TTGAGAAATAGGAATCCGGGCTATCAAAGGATTTCCTGCGATTATTTCGAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTT
CGATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACAATTT
GAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATG
TAGATCTCGGACCTATGAATGGGGATATTTCCGAAACTCACACAG
Right flanking sequence: Indices 552198 -- 552697
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATC
AAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAG
GTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTT
GTTGCTAGCAAATAGTGCCTCTGGAATTATGAAATCCTCTTCTAG
Found at i:552165 original size:24 final size:24
Alignment explanation
Indices: 552118--552197 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
552108 AATAAAAGCA
552118 ACTTGGAC-AAAA-AAA-GAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
552139 ACTTGGACAAAAAGAAACGAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
552163 ACTTGGACAAAAAGAAACGAAGTG
1 ACTTGGACAAAAAGAAACGAAGTG
*
552187 ACTTAGACAAA
1 ACTTGGACAAA
552198 TCTTTTTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
21 8 0.15
22 4 0.07
23 3 0.05
24 40 0.73
ACGTcount: A:0.51, C:0.12, G:0.23, T:0.14
Consensus pattern (24 bp):
ACTTGGACAAAAAGAAACGAAGTG
Left flanking sequence: Indices 551618 -- 552117
CTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAATAGAAGCAGAAGTGATGTGGATTATTCAAGA
ATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATGAAATGGTTTCACGGGA
TTCAGCCAATTGTCTTGATCGTGGAATATCATTGAGAAATAGGAATCCGGGCTATCAAAGGATTT
CCTGCGATTATTTCGAGTATGGAATGAGTCAATCATCCACTTTGGTATCTTATTGAACAAAAATG
GTGATATTGTTCCTCCATTGATCAAGAATTTCGATTTTTGGGAAGTATCATGATCGTCCAATAAG
AAGGGTTTCAATTTTTTCAAATGAACAATTTGAAGACCTATTGATTCTAACAACTGATTGCAGAG
TTGATCATTCGGACCTTTCAATTCATAGATGTAGATCTCGGACCTATGAATGGGGATATTTCCGA
AACTCACACAGAAAAAAGGAAGTGAGTTAGACAAAAATAAAAGCA
Right flanking sequence: Indices 552198 -- 552697
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATC
AAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAG
GTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTT
GTTGCTAGCAAATAGTGCCTCTGGAATTATGAAATCCTCTTCTAG
Found at i:554533 original size:17 final size:17
Alignment explanation
Indices: 554500--554533 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
554490 CGCTCCTGAC
* *
554500 TATTCATATTCACGGCT
1 TATTCATAATCAAGGCT
554517 TATTCATAATCAAGGCT
1 TATTCATAATCAAGGCT
554534 CTAACCTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (17 bp):
TATTCATAATCAAGGCT
Left flanking sequence: Indices 554000 -- 554499
GGCCTTGAGGGTAATGTCGGAGCCTCTGCCTAGCCCACACCAAGGCGAGGCACGTCTTTTCCAAG
GTCGAATATGACGACTCGTAGTCCGTCAGCTTATTTCTCAGGTAGTAATCTTTCCTTTCTTCCCC
TTTCATCATGCTGGCCTAAGACGCATCTCATGGAGTTTTCCGTGACCGAGAGGTATAGCAAGAGG
GTTCTTCCCTTAATAAAAAAAGTACCAAGACCGGAGAATCAAAAAGATAGGTCTTAATCTTCTCG
AAAGCACTCTGCATAGTCAGTCTAGGGCATCGTTCTACTCCTTTTCTTCTTCCTCAAGAGCTTGA
AAATGGGCTCGCAAAAGGGAGTGAGCTGTGCGATGAACCTGCTGATATACTACCCAAGAATCCTC
TTCTTTCTTTCCTTTCTATCCCTTTCCTTTCTCGGGGAATGAGCACACCTTCAACTAGTCACCAG
TGCCCAGATTTTCTGTCTCTGCCAGCTCGTAACCTCGCTCCTGAC
Right flanking sequence: Indices 554534 -- 555033
CTAACCTCCTAATCAAGGAGTGGAATTCTCTGCTCCCCTCGGAAAACTCCATTGCTTTGACCATC
CTCAATGACCTGAGGATGCTTCTAGCCTTCAAAGAAGACCAATTGACCACTACTACTATAATGGA
GAAAGGACAATCTGCCTTCTAACCCGAGGTCCAGGTATTCCGGCCCCAGAGAGAGAGCGTGCCAA
AGCCCGATGAATAGACAGGGGATGGACAGTCCTTGGAGCCGTACCACCAAGAAGAAGATCAAGGG
AATCTCTACCATCAGGCTTCGAATCTGAGGTTGAGGTCTAGCCTCTCTTTTCAGTGGAAGTTGAG
CTCGTCGGATCTGCTGCCCGTGACGTGAGTGATCCTTAACCCTGCCCCTTCTTATTGCTATTTGT
GACATCGAGTGCTTAAGTGAGATCAGCGGTCTGGCAGGTCCTTGGACGCTGGCCCTTATAGTCTA
GTCTATTCGGACCTCTACTAGGGCTAGAGCTAGCCGGAAAAAGAA
Done.