Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 3 of 144
Found at i:560471 original size:30 final size:30
Alignment explanation
Indices: 560432--560508 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
560422 CATTTAACAC
*
560432 AACAGTTACTCAACTT-T-GAAAATGTGACAA
1 AACAATTACT-AACTTATCGAAAA-GTGACAA
*
560462 AACAATTACTAATGTTATCGAAAAGTGACAA
1 AACAATTACTAA-CTTATCGAAAAGTGACAA
*
560493 AACAATCACTAACTTA
1 AACAATTACTAACTTA
560509 ACACTCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 14 0.35
31 19 0.47
32 5 0.12
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (30 bp):
AACAATTACTAACTTATCGAAAAGTGACAA
Found at i:561948 original size:15 final size:15
Alignment explanation
Indices: 561928--561957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
561918 AACTCTTTTC
561928 TTTAAAATTATAAAT
1 TTTAAAATTATAAAT
*
561943 TTTAAAATTCTAAAT
1 TTTAAAATTATAAAT
561958 CCTAATCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAATTATAAAT
Found at i:563609 original size:23 final size:23
Alignment explanation
Indices: 563591--563749 Score: 135
Period size: 24 Copynumber: 6.8 Consensus size: 23
563581 GTTTTTTTTA
563591 CTGTTTTTATTGTTATTTTTGGTG
1 CTGTTTTTATTGTTATTTTT-GTG
* ** *
563615 CTATTTTT-TTACTATTTTGGTG
1 CTGTTTTTATTGTTATTTTTGTG
563637 CTGTTTTTATTGTTATTTTTGTTG
1 CTGTTTTTATTGTTATTTTTG-TG
* ** *
563661 CTATTTTT-TTACTATTTTGGTG
1 CTGTTTTTATTGTTATTTTTGTG
563683 CTGTTTTTATTGTTATTTTTGTTG
1 CTGTTTTTATTGTTATTTTTG-TG
* * *
563707 CTATTTTT-TCTATTATTTTTGCTT
1 CTGTTTTTAT-TGTTATTTTTG-TG
**
563731 CTGTTTTGGTTGTTATTTT
1 CTGTTTTTATTGTTATTTT
563750 GATTGTTTGG
Statistics
Matches: 106, Mismatches: 23, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
22 19 0.18
23 36 0.34
24 50 0.47
25 1 0.01
ACGTcount: A:0.10, C:0.07, G:0.15, T:0.68
Consensus pattern (23 bp):
CTGTTTTTATTGTTATTTTTGTG
Found at i:563619 original size:12 final size:12
Alignment explanation
Indices: 563594--563714 Score: 97
Period size: 12 Copynumber: 10.4 Consensus size: 12
563584 TTTTTTACTG
* *
563594 TTTTTATTGTTA
1 TTTTTGTTGCTA
*
563606 TTTTTGGTGCTA
1 TTTTTGTTGCTA
*
563618 TTTTT-TTACTA
1 TTTTTGTTGCTA
* *
563629 -TTTTGGTGCTG
1 TTTTTGTTGCTA
* *
563640 TTTTTATTGTTA
1 TTTTTGTTGCTA
563652 TTTTTGTTGCTA
1 TTTTTGTTGCTA
*
563664 TTTTT-TTACTA
1 TTTTTGTTGCTA
* *
563675 -TTTTGGTGCTG
1 TTTTTGTTGCTA
* *
563686 TTTTTATTGTTA
1 TTTTTGTTGCTA
563698 TTTTTGTTGCTA
1 TTTTTGTTGCTA
563710 TTTTT
1 TTTTT
563715 TCTATTATTT
Statistics
Matches: 81, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
10 8 0.10
11 15 0.19
12 58 0.72
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.69
Consensus pattern (12 bp):
TTTTTGTTGCTA
Found at i:563621 original size:11 final size:11
Alignment explanation
Indices: 563607--563713 Score: 61
Period size: 11 Copynumber: 9.4 Consensus size: 11
563597 TTATTGTTAT
*
563607 TTTTGGTGCTA
1 TTTTGTTGCTA
* *
563618 TTTTTTTACTA
1 TTTTGTTGCTA
* *
563629 TTTTGGTGCTGT
1 TTTTGTTGCT-A
* *
563641 TTTTATTGTTA
1 TTTTGTTGCTA
563652 TTTTTGTTGCTA
1 -TTTTGTTGCTA
* *
563664 TTTTTTTACTA
1 TTTTGTTGCTA
* *
563675 TTTTGGTGCTGT
1 TTTTGTTGCT-A
* *
563687 TTTTATTGTTA
1 TTTTGTTGCTA
563698 TTTTTGTTGCTA
1 -TTTTGTTGCTA
563710 TTTT
1 TTTT
563714 TTCTATTATT
Statistics
Matches: 67, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
11 35 0.52
12 32 0.48
ACGTcount: A:0.10, C:0.07, G:0.16, T:0.67
Consensus pattern (11 bp):
TTTTGTTGCTA
Found at i:563641 original size:46 final size:46
Alignment explanation
Indices: 563591--563749 Score: 246
Period size: 46 Copynumber: 3.4 Consensus size: 46
563581 GTTTTTTTTA
*
563591 CTGTTTTTATTGTTATTTTTGGTGCTATTTTTTTACTATTTTGGTG
1 CTGTTTTTATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGGTG
563637 CTGTTTTTATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGGTG
1 CTGTTTTTATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGGTG
* * *
563683 CTGTTTTTATTGTTATTTTTGTTGCTATTTTTTCTATTATTTTTGCTT
1 CTGTTTTTATTGTTATTTTTGTTGCTATTTTTT-TACTA-TTTTGGTG
**
563731 CTGTTTTGGTTGTTATTTT
1 CTGTTTTTATTGTTATTTT
563750 GATTGTTTGG
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 78 0.74
47 4 0.04
48 23 0.22
ACGTcount: A:0.10, C:0.07, G:0.15, T:0.68
Consensus pattern (46 bp):
CTGTTTTTATTGTTATTTTTGTTGCTATTTTTTTACTATTTTGGTG
Found at i:566683 original size:2 final size:2
Alignment explanation
Indices: 566678--566722 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
566668 AATTTATATA
566678 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
566720 TG T
1 TG T
566723 ATGATCAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:572752 original size:2 final size:2
Alignment explanation
Indices: 572745--572770 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
572735 CCTTCTCACA
572745 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
572771 CAAGTCCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:580288 original size:44 final size:44
Alignment explanation
Indices: 580231--580317 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
580221 AAAAAACCAT
*
580231 AATAAGTCAGCAACGTATTAAAAAAAGAGATATCGTGTAAAAAA
1 AATAAGTCAGCAACATATTAAAAAAAGAGATATCGTGTAAAAAA
580275 AATAAGTCAGCAACATATTAAAAAAAGAGATATCGTGTAAAAA
1 AATAAGTCAGCAACATATTAAAAAAAGAGATATCGTGTAAAAA
580318 GTCAATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (44 bp):
AATAAGTCAGCAACATATTAAAAAAAGAGATATCGTGTAAAAAA
Found at i:582333 original size:188 final size:189
Alignment explanation
Indices: 582008--582368 Score: 598
Period size: 188 Copynumber: 1.9 Consensus size: 189
581998 AAAAACTGAG
* * * ** *
582008 CAACAAAACTTATTCACACATGCAGAGGTAGCAAGTGTACACCCCAACCATTTGCATGCTCATAC
1 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACACCCCAACCACATGCACGCTCATAC
*
582073 GAAAATAAACCCAAAAATACATAGGAAGAAATTTGCTGCAATAATGTGAGATAACTCTGATTAAA
66 AAAAATAAACCCAAAAATACATAGGAAGAAATTTGCTGCAATAATGTGAGATAACTCTGATTAAA
*
582138 ACTCATTTAAAAATCATAGAAAGCTTGATAAATAAGAACCACTAGGACAACCACAAAGC
131 ACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACTAGGACAACCACAAAGC
*
582197 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACA-CCCAACCACATGCCCGCTCATAC
1 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACACCCCAACCACATGCACGCTCATAC
* * *
582261 AAAAATAAACCCAAAAATATATAGGAAGAAATTTGCTGCAGTAATGTGAGATAACTCTGGTTAAA
66 AAAAATAAACCCAAAAATACATAGGAAGAAATTTGCTGCAATAATGTGAGATAACTCTGATTAAA
*
582326 TCTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACT
131 ACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACT
582369 GGGAAAACAG
Statistics
Matches: 159, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
188 121 0.76
189 38 0.24
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (189 bp):
CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACACCCCAACCACATGCACGCTCATAC
AAAAATAAACCCAAAAATACATAGGAAGAAATTTGCTGCAATAATGTGAGATAACTCTGATTAAA
ACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACTAGGACAACCACAAAGC
Found at i:598001 original size:63 final size:63
Alignment explanation
Indices: 597901--598023 Score: 210
Period size: 63 Copynumber: 2.0 Consensus size: 63
597891 ACCTTTTAGG
* *
597901 TTATTTGAGATATATTGATGGAAGGAAATAATGACATATAAGTATCAAACACTAAAAGACAAC
1 TTATTTGAGATATATTGATGGAAGGAAAGAATAACATATAAGTATCAAACACTAAAAGACAAC
* *
597964 TTATTTGAGATATCTTGATGGAAGGAAAGAATAACATATAAGTATCAAACATTAAAAGAC
1 TTATTTGAGATATATTGATGGAAGGAAAGAATAACATATAAGTATCAAACACTAAAAGAC
598024 TACATCGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (63 bp):
TTATTTGAGATATATTGATGGAAGGAAAGAATAACATATAAGTATCAAACACTAAAAGACAAC
Found at i:599251 original size:3 final size:3
Alignment explanation
Indices: 599243--599283 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
599233 AACCTTCCAG
*
599243 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
599284 AATCTCCCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:622899 original size:16 final size:16
Alignment explanation
Indices: 622877--622915 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
622867 GTTTGATTCG
622877 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
*
622893 TTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
622909 CTGTAAT
1 CTGTAAT
622916 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:623148 original size:57 final size:58
Alignment explanation
Indices: 623085--623211 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 58
623075 AATTTTAATG
* * *
623085 ATTATTATTAAATATAATTTAATAAAAATATTAT-TAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAATAATATGTAATTTAATAATATTTTTAACATA
* *
623142 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTACTAATATTTTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAACATA
623200 ATTATTATTAAA
1 ATTATTATTAAA
623212 ACATGAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 9 0.14
57 33 0.52
58 21 0.33
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAACATA
Found at i:628115 original size:7 final size:7
Alignment explanation
Indices: 628103--628136 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
628093 CAGGGACACT
628103 CAAGATG
1 CAAGATG
628110 CAAGATG
1 CAAGATG
628117 CAAGATG
1 CAAGATG
628124 CAAGATG
1 CAAGATG
628131 CAAGAT
1 CAAGAT
628137 CTAAACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (7 bp):
CAAGATG
Found at i:629859 original size:642 final size:642
Alignment explanation
Indices: 628636--630562 Score: 3845
Period size: 642 Copynumber: 3.0 Consensus size: 642
628626 TTTAATTGTA
628636 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
1 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
628701 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
66 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
628766 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
131 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
*
628831 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAAAGAGTAATCGGTGCTATGAC
196 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
628896 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
261 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
628961 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
326 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
629026 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
391 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
629091 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
456 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
629156 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
521 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
629221 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
586 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
629278 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
1 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
629343 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
66 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
629408 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
131 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
629473 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
196 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
629538 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
261 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
629603 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
326 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
629668 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
391 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
629733 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
456 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
629798 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
521 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
629863 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
586 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
629920 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
1 TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
629985 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
66 TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
630050 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
131 TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
630115 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
196 TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
630180 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
261 AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
630245 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
326 CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
630310 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
391 GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
630375 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
456 GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
630440 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
521 ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
630505 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
586 TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
630562 T
1 T
630563 GATAAATTGA
Statistics
Matches: 1284, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
642 1284 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (642 bp):
TCCTAAAAGTATCAAAGTTTTAACAACAGAAATCAAAACCTAAACTATAAACCAAACCTTGAAAT
TACTAAAAAGGAAGAGCCTTCAGACGACATTCCTCCAAGAACAAAGTAAAAAATAAAGGGAAAAA
TGGATCATACTTGTCTCGTTTTCATGAAATCAGCAAAGAATAGTTTACTTGATATGATTTGCAGG
TATTGAAGTTAAGGGCAATTTTGATTCGGAAGAAAGCAAAAAAAGAGAGTAATCGGTGCTATGAC
AGATCGAAGGAAGAAAAAGGGCAGGGAAATTGGGAGAGAGTGAAATGAAAAGAACGAAGGGAGAA
CTGTTTACCTGAAGGACGCTGCGACGACAGTGAAGACTGCTATGGCCGGAGTCGAAGGAAGAAAG
GCTGTAATCGATGCTAGAGGGTAAAGTGGGGAGGTGTTGTATGAGGGCTGTAATCGGTGCTTTCT
GAAGGGAATAGAAATTGGAGGATGTTGCTGAATAGGACGGTAATGGAATAAGCCTGTAATCAGGC
ATTTCACTGAACCAAACACATGCTATGGGTGGGCCTGCTGAATAAGGCTGTAACAGAATGGCTAT
TACAGCCAACCAAACATGCCCTTATATTCATCATTTTCAATTTTACAAAATATTCTG
Found at i:635476 original size:36 final size:38
Alignment explanation
Indices: 635436--635510 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
635426 TTCCACAAGC
635436 AGCTTTAAAAAATTGA-C-CTCTTTTTTTAAAATATCT
1 AGCTTTAAAAAATTGACCTCTCTTTTTTTAAAATATCT
635472 AGCTTTAAAAAATTGACCTCTCTTTTTTTAAAATATCT
1 AGCTTTAAAAAATTGACCTCTCTTTTTTTAAAATATCT
635510 A
1 A
635511 TTTTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 16 0.43
37 1 0.03
38 20 0.54
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (38 bp):
AGCTTTAAAAAATTGACCTCTCTTTTTTTAAAATATCT
Found at i:635496 original size:19 final size:19
Alignment explanation
Indices: 635438--635496 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
635428 CCACAAGCAG
635438 CTTTAAAAAATTGACCTCT
1 CTTTAAAAAATTGACCTCT
* ** * **
635457 TTTTTTAAAA-T-ATCTAG
1 CTTTAAAAAATTGACCTCT
635474 CTTTAAAAAATTGACCTCT
1 CTTTAAAAAATTGACCTCT
635493 CTTT
1 CTTT
635497 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 12, Indels: 4
0.62 0.29 0.10
Matches are distributed among these distances:
17 10 0.38
18 2 0.08
19 14 0.54
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (19 bp):
CTTTAAAAAATTGACCTCT
Found at i:642827 original size:18 final size:20
Alignment explanation
Indices: 642783--642828 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
642773 CTTTTTTTTA
642783 CTAAAA-TAATAAAAATTAC
1 CTAAAATTAATAAAAATTAC
* *
642802 TTATAATTAA-AAAAA-TAC
1 CTAAAATTAATAAAAATTAC
642820 CTAAAATTA
1 CTAAAATTA
642829 CCATTCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
CTAAAATTAATAAAAATTAC
Found at i:644926 original size:30 final size:30
Alignment explanation
Indices: 644892--644952 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
644882 TGCTCCACTC
644892 CATCTTTAGGGAGATAGAATTTGCTAATGA
1 CATCTTTAGGGAGATAGAATTTGCTAATGA
644922 CATCTTTAGGGAGATAGAATTTGCTAATGA
1 CATCTTTAGGGAGATAGAATTTGCTAATGA
644952 C
1 C
644953 TTTAATCCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (30 bp):
CATCTTTAGGGAGATAGAATTTGCTAATGA
Found at i:645470 original size:40 final size:39
Alignment explanation
Indices: 645183--646545 Score: 586
Period size: 40 Copynumber: 34.4 Consensus size: 39
645173 ATAACTTCAG
*
645183 GGGTAAAAGATTGGATTGCTTCAATCTGCCC-C-ATGATT-
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTCTA-G-TTA
*
645221 GGGTAAAAGATCGG-ATAGCCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * **
645261 GGGTAAAAGATTGGATTGCTTCAATTTGCCC-C-ATGTCG
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTCTA-GTTA
* *
645299 GGGTAAGAGATTGG-ATGGTCTTCAATCTGCCCTCTTGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * **
645339 GGAG-AAAAGATTGGATTGCTTCAATCTG-CCTCATGGTCG
1 GG-GTAAAAGATTGGAATGCTTCAATCTGCCCTC-TAGTTA
* *
645378 GGGTAAAAGATCT-G-ATGGCTTCAATGTGCCC-CATAG-TC
1 GGGTAAAAGAT-TGGAAT-GCTTCAATCTGCCCTC-TAGTTA
* * *
645416 GGGATAAGAGATCTGGAATACTTCAATTTGCCCTCTAGTTA
1 GGG-TAAAAGAT-TGGAATGCTTCAATCTGCCCTCTAGTTA
* * * *
645457 GGGTAAAATATCT-GAATTACTTCAATCTGCCC-CATAATTG
1 GGGTAAAAGAT-TGGAA-TGCTTCAATCTGCCCTC-TAGTTA
* ** * * **
645497 GGGTAAGAGACCGG-ATGGTTTTCAATCTGCCCTCTGGTCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * **
645537 GGGTAAAAGA-TCGAATGGTCTTCAATCTGCCCTCTGGTCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * *
645577 GGGTAAGATATCGG-ATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * * * **
645617 AGGTAAAAGATTGGATTGCTTCAATCTACCC-CATGGTCG
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTC-TAGTTA
* * * *
645656 GGGTAAGAGATTTG-ATGGCTTCAATCTGCCTTCTGGTTA
1 GGGTAAAAGATTGGAAT-GCTTCAATCTGCCCTCTAGTTA
** * * * **
645695 GGGTAAAAGATCAG-ATGGTCTTTAATTTGCCC-CATGGTCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTC-TAGTTA
* * * * *
645735 GGGTAAGAGATCGG-ATAGTTTTTAATCTGCCCTCT-GTTCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTT-A
* * * *
645775 GGGTAAGAGATCGG-ATGATCTTTAATTTGCCCTCTAGTTA
1 GGGTAAAAGATTGGAATG--CTTCAATCTGCCCTCTAGTTA
* * * * * **
645815 GGGTAAAAGATTAGATTGCTTCAATTTACCC-CATGGTCG
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTC-TAGTTA
* * * *
645854 GGGTAAGAGATTAG-ATGGCTTCAATTTGCCCTCTGGTTA
1 GGGTAAAAGATTGGAAT-GCTTCAATCTGCCCTCTAGTTA
* *
645893 GGGTAAAAGATT-AAACTGCTTCAATCTGCCCTCATGGTCTA
1 GGGTAAAAGATTGGAA-TGCTTCAATCTGCCCTC-TAGT-TA
* * *
645934 -GGTAAGAGATT-GAATGGTTTTCAATCTGCCTTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* *
645973 GGGTAAAAGATCTGGATTACTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGAT-TGGAATGCTTCAATCTGCCCTCTAGTTA
* * *
646013 GGGTAAAAGATCT-GAATTACTTCAATCTGCCC-CATGGTTG
1 GGGTAAAAGAT-TGGAA-TGCTTCAATCTGCCCTC-TAGTTA
* * * *
646053 GGGTAAGAGATTGG-ATAGTCTTCAATTTGCCCTCTGGTTG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * * * *
646093 GGGTAAAAGGTCGG-GTGGTCTTCAATCTG-CCTCATGGTTG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTC-TAGTTA
* * * **
646133 GGGTAAGAGATT-GAATGTCTTCAATCTACCTTCCGGTTA
1 GGGTAAAAGATTGGAATG-CTTCAATCTGCCCTCTAGTTA
* * ** **
646172 GGGTAAAAGATCGG-ATGGTCTTTAAT-TTACCTC-ATGATCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTA-G-TTA
* ** * * **
646212 GGGTAAGAGATT-GAATGGTCTTCAATCCACCCTTTGGTCG
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * * * *
646252 GGGTAAGAGATCGG-ATGGTCTTCAATCTGCCCTTTGGTCA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * * * *
646292 GGGTAAGAGATCGG-ATAGTTTTCAATTTTCCCTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* * * *
646332 GGGTAAAATATTGGATTGCTTTAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTCTAGTTA
* * * * **
646371 AGGTAAAAGATTGGACTGCTTCAATCTGCCCCCATGGTCG
1 GGGTAAAAGATTGGAATGCTTCAATCTGCCCTC-TAGTTA
*
646411 GGGTAAGAGATTGG-ATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
*
646451 AGGTAAAAGATTGG-ATGGTCTTCAATCTGCCCTCT-GATTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAG-TTA
*
646491 AGGTAAAAGATT-GAATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGAAT-G-CTTCAATCTGCCCTCTAGTTA
* *
646531 TGGTGAAAGATTGGA
1 GGGTAAAAGATTGGA
646546 TGATTGTAAC
Statistics
Matches: 1058, Mismatches: 188, Indels: 155
0.76 0.13 0.11
Matches are distributed among these distances:
37 3 0.00
38 46 0.04
39 316 0.30
40 630 0.60
41 60 0.06
42 3 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (39 bp):
GGGTAAAAGATTGGAATGCTTCAATCTGCCCTCTAGTTA
Found at i:645680 original size:198 final size:198
Alignment explanation
Indices: 645182--646524 Score: 951
Period size: 199 Copynumber: 6.8 Consensus size: 198
645172 AATAACTTCA
* * * *
645182 GGGGTAAAAGATTGGATTG-CTTCAATCTGCCC-C-ATGATT-GGGTAAAAGATCGGATAGCCTT
1 GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTCTA-G-TTAGGGTAAAAGATTGGATTG-CTT
* * ** * * * ** *
645243 CAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATTGCTTCAATTTGCCCCAT-GTCGGGGTAAG
63 CAATCTACCC-CATGGTCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCC-TGGTTAGGGTAAA
* * * * * * *
645306 AGATTGGATGGTCTTCAATCTGCCCTCTTGTTAGGAG-AAAAGATTGGATTG-CTTCAATCTG-C
126 AGATCGGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCC
645368 CTCATGGTC
191 CTC-TGGTC
* * * * * *
645377 GGGGTAAAAGATCTGATGG-CTTCAATGTGCCC-CATAG-TCGGGATAAGAGATCTGGAATACTT
1 GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTC-TAGTTAGGG-TAAAAGAT-TGGATTGCTT
* * * ** * * * ** ** *
645439 CAATTTGCCCTC-TAGTTAGGGTAAAATATCTGAATTACTTCAATCTGCCCCATAATTGGGGTAA
63 CAATCTACCC-CATGGTCGGGGTAAGAGAT-TGGATGGCTTCAATCTGCCCC-TGGTTAGGGTAA
* * * *
645503 GAGACCGGATGGTTTTCAATCTGCCCTC-TGGTCGGGGTAAAAGATCGAATGGTCTTCAATCTGC
125 AAGATCGGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGC
645567 CCTCTGGTC
190 CCTCTGGTC
* * *
645576 GGGGTAAGATATCGGATGGTCTTCAATCTGCCCTCTAGTTAAGGTAAAAGATTGGATTGCTTCAA
1 GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
* *
645641 TCTACCCCATGGTCGGGGTAAGAGATTTGATGGCTTCAATCTGCCTTCTGGTTAGGGTAAAAGAT
66 TCTACCCCATGGTCGGGGTAAGAGATTGGATGGCTTCAATCTGCC-CCTGGTTAGGGTAAAAGAT
* * * * * * * * *
645706 CAGATGGTCTTTAATTTGCCC-CATGGTCGGGGTAAGAGATCGGATAGTTTTTAATCTGCCCTCT
130 CGGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCCCTCT
*
645770 GTTC
195 GGTC
* * * * *
645774 GGGGTAAGAGATCGGATGATCTTTAATTTGCCCTCTAGTTAGGGTAAAAGATTAGATTGCTTCAA
1 GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
* * *
645839 TTTACCCCATGGTCGGGGTAAGAGATTAGATGGCTTCAATTTGCCCTCTGGTTAGGGTAAAAGAT
66 TCTACCCCATGGTCGGGGTAAGAGATTGGATGGCTTCAATCTGCCC-CTGGTTAGGGTAAAAGAT
*** ** * * *
645904 TAAACT-G-CTTCAATCTGCCCTCATGGTCTAGGTAAGAGATTGAATGGTTTTCAATCTGCCTTC
130 CGGA-TGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCCCTC
* *
645967 TAGTT
194 TGGTC
* * *
645972 AGGGTAAAAGATCTGGAT--TACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATCTGAATTACTT
1 GGGGTAAAAGATC-GGATGGT-CTTCAATCTGCCCTCTAGTTAGGGTAAAAGAT-TGGATTGCTT
* * * * *
646035 CAATCTGCCCCATGGTTGGGGTAAGAGATTGGATAGTCTTCAATTTGCCCTCTGGTTGGGGTAAA
63 CAATCTACCCCATGGTCGGGGTAAGAGATTGGAT-GGCTTCAATCTGCCC-CTGGTTAGGGTAAA
* * * * *
646100 AGGTCGGGTGGTCTTCAATCTG-CCTCATGGTTGGGGTAAGAGATTGAAT-GTCTTCAATCTACC
126 AGATCGGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCC
* * *
646163 TTCCGGTT
191 CTCTGGTC
* * ** ** * * *
646171 AGGGTAAAAGATCGGATGGTCTTTAAT-TTACCTC-ATGATCGGGGTAAGAGATTGAATGGTCTT
1 GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTCTA-G-TTAGGGTAAAAGATTGGATTG-CTT
* ** * * * *
646234 CAATCCACCCTTTGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTTTGGTCAGGGTAAG
63 CAATCTACCCCATGGTCGGGGTAAGAGATTGGATGG-CTTCAATCTGCCC-CTGGTTAGGGTAAA
* * * * * ** * * * *
646299 AGATCGGATAGTTTTCAATTTTCCCTC-TAGTTAGGGTAAAATATTGGATTG-CTTTAATCTGCC
126 AGATCGGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCC
*
646362 CTCTGGTT
191 CTCTGGTC
** * * * ** * *
646370 AAGGTAAAAGATTGGACT-G-CTTCAATCTGCCCCCATGGTCGGGGTAAGAGATTGGATGGTCTT
1 GGGGTAAAAGATCGGA-TGGTCTTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGATTG-CTT
* * *** * * *
646433 CAATCTGCCCTC-TAGTTAAGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAAGGTAA
63 CAATCTACCC-CATGGTCGGGGTAAGAGATTGGATGG-CTTCAATCTGCCC-CTGGTTAGGGTAA
* *
646497 AAGATTGAATGGTCTTCAATCTGCCCTC
125 AAGATCGGATGGTCTTCAATCTGCCCTC
646525 TAGTTATGGT
Statistics
Matches: 937, Mismatches: 173, Indels: 72
0.79 0.15 0.06
Matches are distributed among these distances:
194 1 0.00
195 32 0.03
196 38 0.04
197 44 0.05
198 350 0.37
199 368 0.39
200 90 0.10
201 14 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (198 bp):
GGGGTAAAAGATCGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
TCTACCCCATGGTCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCTGGTTAGGGTAAAAGATC
GGATGGTCTTCAATCTGCCCTCATGGTCGGGGTAAAAGATTGAATGGTCTTCAATCTGCCCTCTG
GTC
Found at i:646281 original size:159 final size:156
Alignment explanation
Indices: 645183--646525 Score: 866
Period size: 159 Copynumber: 8.5 Consensus size: 156
645173 ATAACTTCAG
* * * *
645183 GGGTAAAAGATTGGAT-TGCTTCAATCTGCCC-CATGATT-GGGTAAAAGATCGGATAGCCTTCA
1 GGGTAAGAGATTGGATGT-CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATCGGATGGTCTTCA
* * ** * * *
645245 ATCTGCCCTCTAGTTAGGGTAAAAGATTGGAT-TGCTTCAATTTGCCC-CAT-GTCGGGGTAAGA
64 AT-TTCCCTCTGGTCGGGGTAAGAGATTGAATGT-CTTCAATCTGCCCTC-TGGTCGGGGTAAGA
* *
645307 GATTGGATGGTCTTCAATCTGCCCTCTTGTTA
126 GATCGGATGGTCTTCAATCTG-CCTCTAGTTA
* ** *
645339 GGAG-AAAAGATTGGAT-TGCTTCAATCTG-CCTCATGGTCGGGGTAAAAGATCTGATGG-CTTC
1 GG-GTAAGAGATTGGATGT-CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATCGGATGGTCTTC
* * * * * * **
645400 AATGTGCCC-CATAGTCGGGATAAGAGATCTGGAAT-ACTTCAATTTGCCCTCTAGTTAGGGTAA
63 AAT-TTCCCTC-TGGTCGGGGTAAGAGAT-T-GAATGTCTTCAATCTGCCCTCTGGTCGGGGTAA
* * * * * *
645463 AATATCTGAAT--TACTTCAATCTGCCCCATAATTG
124 GAGATC-GGATGGT-CTTCAATCTGCCTC-TAGTTA
** * ** *
645497 GGGTAAGAGACCGGATGGTTTTCAATCTGCCCTCTGGTCGGGGTAAAAGATCGAATGGTCTTCAA
1 GGGTAAGAGATTGGAT-GTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAA
* * * * * *** *
645562 TCTGCCCTCTGGTCGGGGTAAGATATCGGATGGTCTTCAATCTGCCCTCTAGTTAAGGTAAAAGA
65 T-TTCCCTCTGGTCGGGGTAAGAGATTGAAT-GTCTTCAATCTGCCCTCTGGTCGGGGTAAGAGA
* * * * * **
645627 TTGGATTG-CTTCAATCTACCCCATGGTCG
128 TCGGATGGTCTTCAATCTGCCTC-TAGTTA
* * * * *
645656 GGGTAAGAGATTTGATGGCTTCAATCTGCCTTCTGGTTAGGGTAAAAGATCAGATGGTCTTTAAT
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAAT
* * * * *
645721 TTGCCC-CATGGTCGGGGTAAGAGATCGGATAGTTTTTAATCTGCCCTCTGTTCGGGGTAAGAGA
66 TT-CCCTC-TGGTCGGGGTAAGAGATTGAAT-GTCTTCAATCTGCCCTCTGGTCGGGGTAAGAGA
* * *
645785 TCGGATGATCTTTAATTTGCCCTCTAGTTA
128 TCGGATGGTCTTCAATCTG-CCTCTAGTTA
* * * * ** * **
645815 GGGTAAAAGATTAGAT-TGCTTCAATTTACCC-CATGGTCGGGGTAAGAGATTAGATGG-CTTCA
1 GGGTAAGAGATTGGATGT-CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATCGGATGGTCTTCA
** * * **
645877 ATTTGCCCTCTGGTTAGGGTAAAAGATTAAACTG-CTTCAATCTGCCCTCATGGTCTAGGTAAGA
64 ATTT-CCCTCTGGTCGGGGTAAGAGATTGAA-TGTCTTCAATCTGCCCTC-TGGTCGGGGTAAGA
* * *
645941 GATTGAATGGTTTTCAATCTGCCTTCTAGTTA
126 GATCGGATGGTCTTCAATCTGCC-TCTAGTTA
* * *
645973 GGGTAAAAGATCTGGAT-TACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATCTGAAT--TACTT
1 GGGTAAGAGAT-TGGATGT-CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATC-GGATGGT-CTT
* * * * *
646035 CAATCTGCCC-CATGGTTGGGGTAAGAGATTGGATAGTCTTCAATTTGCCCTCTGGTTGGGGTAA
62 CAAT-TTCCCTC-TGGTCGGGGTAAGAGATTGAAT-GTCTTCAATCTGCCCTCTGGTCGGGGTAA
* * * * *
646099 AAGGTCGGGTGGTCTTCAATCTGCCTCATGGTTG
124 GAGATCGGATGGTCTTCAATCTGCCTC-TAGTTA
* * * * *
646133 GGGTAAGAGATTGAATGTCTTCAATCTACCTTCCGGTTAGGGTAAAAGATCGGATGGTCTTTAAT
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAAT
* * ** *
646198 TTACCTCATGATCGGGGTAAGAGATTGAATGGTCTTCAATCCACCCTTTGGTCGGGGTAAGAGAT
66 TTCCCTC-TGGTCGGGGTAAGAGATTGAAT-GTCTTCAATCTGCCCTCTGGTCGGGGTAAGAGAT
* * *
646263 CGGATGGTCTTCAATCTGCCCTTTGGTCA
129 CGGATGGTCTTCAATCTG-CCTCTAGTTA
* * * * * * * * *
646292 GGGTAAGAGATCGGATAGTTTTCAATTTTCCCTCTAGTTAGGGTAAAATATTGGATTG-CTTTAA
1 GGGTAAGAGATTGGAT-GTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAA
* *** * * *
646356 TCTGCCCTCTGGTTAAGGTAAAAGATTGGACTG-CTTCAATCTGCCCCCATGGTCGGGGTAAGAG
65 T-TTCCCTCTGGTCGGGGTAAGAGATT-GAATGTCTTCAATCTGCCCTC-TGGTCGGGGTAAGAG
*
646420 ATTGGATGGTCTTCAATCTGCCCTCTAGTTA
127 ATCGGATGGTCTTCAATCTG-CCTCTAGTTA
* * * * * *
646451 AGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAATGGTCTTCAA
1 GGGTAAGAGATTGGAT-GTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAA
*
646516 TCTGCCCTCT
65 T-TTCCCTCT
646526 AGTTATGGTG
Statistics
Matches: 939, Mismatches: 197, Indels: 98
0.76 0.16 0.08
Matches are distributed among these distances:
155 3 0.00
156 56 0.06
157 54 0.06
158 228 0.24
159 386 0.41
160 196 0.21
161 16 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (156 bp):
GGGTAAGAGATTGGATGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGGATGGTCTTCAAT
TTCCCTCTGGTCGGGGTAAGAGATTGAATGTCTTCAATCTGCCCTCTGGTCGGGGTAAGAGATCG
GATGGTCTTCAATCTGCCTCTAGTTA
Found at i:646523 original size:80 final size:80
Alignment explanation
Indices: 645183--646547 Score: 922
Period size: 80 Copynumber: 17.2 Consensus size: 80
645173 ATAACTTCAG
* * * * *
645183 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGATT-GGGTAAAAGATCGGATAGCCTTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTGGGGTAAAAGATTGGATGGTCTTCA
645245 ATCTGCCCTCTAGTTA
65 ATCTGCCCTCTAGTTA
* * * *
645261 GGGTAAAAGATTGGATTG-CTTCAATTTGCCC-CAT-GTCGGGGTAAGAGATTGGATGGTCTTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTGGGGTAAAAGATTGGATGGTCTTCA
*
645323 ATCTGCCCTCTTGTTA
65 ATCTGCCCTCTAGTTA
* *
645339 GGAG-AAAAGATTGGATTG-CTTCAATCTG-CCTCATGGTCGGGGTAAAAGATCT-GATGG-CTT
1 GG-GTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTGGGGTAAAAGAT-TGGATGGTCTT
* *
645399 CAATGTGCCC-CATAG-TC
63 CAATCTGCCCTC-TAGTTA
* * * * * * *
645416 GGGATAAGAGATCTGGAAT--ACTTCAATTTGCCCTCTAGTTAGGGTAAAATATCTGAAT--TAC
1 GGG-TAAAAGAT-TGG-ATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGAT-TGGATGGT-C
* *
645477 TTCAATCTGCCC-CATAATTG
61 TTCAATCTGCCCTC-TAGTTA
* ** * * * *
645497 GGGTAAGAGACCGGATGGTTTTCAATCTGCCCTCTGGTCGGGGTAAAAGATCGAATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
* **
645562 TCTGCCCTCTGGTCG
66 TCTGCCCTCTAGTTA
* * * * ** *
645577 GGGTAAGATATCGGATGGTCTTCAATCTGCCCTCTAGTTAAGGTAAAAGATTGGATTG-CTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
* * **
645641 TCTACCC-CATGGTCG
66 TCTGCCCTC-TAGTTA
* * * * ** *
645656 GGGTAAGAGATTTGATGG-CTTCAATCTGCCTTCTGGTTAGGGTAAAAGATCAGATGGTCTTTAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
* * **
645720 TTTGCCC-CATGGTCG
66 TCTGCCCTC-TAGTTA
* * * * * * * * *
645735 GGGTAAGAGATCGGATAGTTTTTAATCTGCCCTCT-GTTCGGGGTAAGAGATCGGATGATCTTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTT-GGGGTAAAAGATTGGATGGTCTTCA
*
645799 ATTTGCCCTCTAGTTA
65 ATCTGCCCTCTAGTTA
* * * * * * *
645815 GGGTAAAAGATTAGATTG-CTTCAATTTACCC-CATGGTCGGGGTAAGAGATTAGATGG-CTTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGGTTGGGGTAAAAGATTGGATGGTCTTCA
* *
645877 ATTTGCCCTCTGGTTA
65 ATCTGCCCTCTAGTTA
** * * * *
645893 GGGTAAAAGATTAAACT-G-CTTCAATCTGCCCTCATGGTCT-AGGTAAGAGATTGAATGGTTTT
1 GGGTAAAAGATTGGA-TGGTCTTCAATCTGCCCTC-TGGT-TGGGGTAAAAGATTGGATGGTCTT
*
645955 CAATCTGCCTTCTAGTTA
63 CAATCTGCCCTCTAGTTA
* * *
645973 GGGTAAAAGATCTGGAT--TACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATCTGAAT--TACT
1 GGGTAAAAGAT-TGGATGGT-CTTCAATCTGCCCTCTGGTTGGGGTAAAAGAT-TGGATGGT-CT
* *
646034 TCAATCTGCCC-CATGGTTG
62 TCAATCTGCCCTC-TAGTTA
* * * * * *
646053 GGGTAAGAGATTGGATAGTCTTCAATTTGCCCTCTGGTTGGGGTAAAAGGTCGGGTGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
* *
646118 TCTG-CCTCATGGTTG
66 TCTGCCCTC-TAGTTA
* * * * * * * *
646133 GGGTAAGAGATTGAAT-GTCTTCAATCTACCTTCCGGTTAGGGTAAAAGATCGGATGGTCTTTAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
** **
646197 T-TTACCTC-ATGATCG
66 TCTGCCCTCTA-G-TTA
* * ** * * * *
646212 GGGTAAGAGATTGAATGGTCTTCAATCCACCCTTTGGTCGGGGTAAGAGATCGGATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
* * *
646277 TCTGCCCTTTGGTCA
66 TCTGCCCTCTAGTTA
* * * * * * * * * * *
646292 GGGTAAGAGATCGGATAGTTTTCAATTTTCCCTCTAGTTAGGGTAAAATATTGGATTG-CTTTAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
*
646356 TCTGCCCTCTGGTTA
66 TCTGCCCTCTAGTTA
* * * *
646371 AGGTAAAAGATTGGACT-G-CTTCAATCTGCCCCCATGGTCGGGGTAAGAGATTGGATGGTCTTC
1 GGGTAAAAGATTGGA-TGGTCTTCAATCTGCCCTC-TGGTTGGGGTAAAAGATTGGATGGTCTTC
646434 AATCTGCCCTCTAGTTA
64 AATCTGCCCTCTAGTTA
* * ** *
646451 AGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
646516 TCTGCCCTCTAGTTA
66 TCTGCCCTCTAGTTA
* *
646531 TGGTGAAAGATTGGATG
1 GGGTAAAAGATTGGATG
646548 ATTGTAACTT
Statistics
Matches: 1051, Mismatches: 181, Indels: 108
0.78 0.14 0.08
Matches are distributed among these distances:
76 1 0.00
77 7 0.01
78 211 0.20
79 295 0.28
80 487 0.46
81 50 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (80 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTCTTCAA
TCTGCCCTCTAGTTA
Found at i:646891 original size:49 final size:49
Alignment explanation
Indices: 646838--646960 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 49
646828 AAAATTCGTC
** * *
646838 GTTGCGACCCCAATCTTTTCCTTCACATCTCTAGGGTA-CAAGGTTCGCT
1 GTTGCGACTTCAATCTTTTCCTTCACATCTCTAGGGTATC-AGATTCACT
* * *
646887 GTTGC-AGCTTCAA-CCTTTCTCTTCATATCTCTAGGGTATCAGATTTACT
1 GTTGCGA-CTTCAATCTTTTC-CTTCACATCTCTAGGGTATCAGATTCACT
*
646936 GTTGCGGCTTCAATCTTTTCCTTCA
1 GTTGCGACTTCAATCTTTTCCTTCA
646961 AACATGTAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
48 6 0.10
49 48 0.80
50 6 0.10
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (49 bp):
GTTGCGACTTCAATCTTTTCCTTCACATCTCTAGGGTATCAGATTCACT
Found at i:647853 original size:10 final size:9
Alignment explanation
Indices: 647837--647891 Score: 58
Period size: 10 Copynumber: 6.0 Consensus size: 9
647827 CTCGACCTCC
647837 TCTTTTTTT
1 TCTTTTTTT
647846 TCCTTTTTTT
1 T-CTTTTTTT
* *
647856 T-ATCTTTT
1 TCTTTTTTT
*
647864 TCTCTTTTT
1 TCTTTTTTT
647873 TCTTTTTTTT
1 TC-TTTTTTT
647883 TCTTTTTTT
1 TCTTTTTTT
647892 GGTGAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.16
9 14 0.38
10 17 0.46
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:647871 original size:17 final size:17
Alignment explanation
Indices: 647851--647890 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
647841 TTTTTTCCTT
647851 TTTTTTATCTTTTTCTC
1 TTTTTTATCTTTTTCTC
* * *
647868 TTTTTTCTTTTTTTTTC
1 TTTTTTATCTTTTTCTC
647885 TTTTTT
1 TTTTTT
647891 TGGTGAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTATCTTTTTCTC
Found at i:654173 original size:19 final size:20
Alignment explanation
Indices: 654128--654173 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
654118 TCTTTTTTTA
*
654128 CTAAAA-TAATAAAAATTAC
1 CTAAAATTAATAAAAAATAC
* *
654147 TTATAATTAA-AAAAAATAC
1 CTAAAATTAATAAAAAATAC
654166 CTAAAATT
1 CTAAAATT
654174 TTCCATTCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
CTAAAATTAATAAAAAATAC
Found at i:659703 original size:42 final size:41
Alignment explanation
Indices: 659651--659734 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 41
659641 TTACCTAAAA
659651 TAAATAAATTTAGTCAAAATAAAATTAAA-AAAATAACAACT
1 TAAATAAATTTAGTCAAAATAAAA-TAAATAAAATAACAACT
659692 TAAATATAATTTAGTCAAAATAAAATAAATAAAATAACAACT
1 TAAATA-AATTTAGTCAAAATAAAATAAATAAAATAACAACT
659734 T
1 T
659735 TGAATAAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 10 0.24
42 31 0.76
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (41 bp):
TAAATAAATTTAGTCAAAATAAAATAAATAAAATAACAACT
Found at i:661961 original size:439 final size:440
Alignment explanation
Indices: 661125--662004 Score: 1429
Period size: 439 Copynumber: 2.0 Consensus size: 440
661115 TATGGTTTCA
* *** * * *
661125 TAGACAGCTGCACCTCCAGGTCAGATTCAGGTTGATAATTCAGAGACTCAAACATTTAGGATTGG
1 TAGACAACTGCACCTCCAGGTCAGATTCAAACTGATAATTCAGAGACTCAAACATTTAAGACTAG
*
661190 ACGAGCTGGTGGTTTTAGTAGGGGTCGTGCTCGTGGTCATTTTGTTCGTGGTTCGCGTCCACAAT
66 ACGAGCTGGTGGTTTCAGTAGGGGTCGTGCTCGTGGTCATTTTGTTCGTGGTTCGCGTCCACAAT
* * *
661255 GTCAAATTTGTGATCGCGTGGGACATGTGGCTCGATGATGCTTTTATAGTTATGAGGATGGCACT
131 GTCAAATTTGTGATCGCATGGGACATGTGGCTCGACGATGCTTTTATAGTTATGAGGATGACACT
*
661320 GAGTTTGAGTCTCCTTCATCCTCACACGGGTTTCAAGCTCTTGCGAGACATATGGCTCAATATTG
196 GAGTTTGAGTCTCCTTCATCCTCACACGGGTTTCAAGCTCATGCGAGACATATGGCTCAATATTG
*
661385 CTGTGTTGAACCTGCAGCTCCGGTTATGCAGTCTCTCTATGTAGGTTCAGTTGTGCAGTCTTCTC
261 CTGTGTTGAACCTGCAGCTCCGGTTATGCAGTCTCTCTATGTAGGTTCAGTTGTGCAGTATTCTC
* * * * * *
661450 AGGCTTCGTGAATAGTTGTCAATTCTAGAGTCACACCTGTATCATGCAATGGTCCTATTGCCATG
326 AGGCTTAGCGAATAGTTATCAATTCTAGAGTCACACCTGTATCATACAATGGTCCTACTACCATG
* * * *
661515 CTTGCTACCCCAAGAATAGTGATGGATCAAGCATGGTACTCTGACAATGG
391 CTTGCTACCCCAAGAACAGTAATGAATCAAGCATGGTACCCTGACAATGG
*
661565 TAGACAACTGCACCTCTAGGTCAGATTCAAACTGATAATTCAGAGACTCAAACATTTAAGACTAG
1 TAGACAACTGCACCTCCAGGTCAGATTCAAACTGATAATTCAGAGACTCAAACATTTAAGACTAG
661630 ACGAGCTGGTGGTTTCAGTAGGGGTCGTGCTCGTGGTCA-TTTGTTCGTGGTTCGCGTCCACAAT
66 ACGAGCTGGTGGTTTCAGTAGGGGTCGTGCTCGTGGTCATTTTGTTCGTGGTTCGCGTCCACAAT
* *
661694 GTCAAATTTGTGATCGTATGGGACATGTGGCTCGACGATGCTTTTATAGTTATGAGGATGATACT
131 GTCAAATTTGTGATCGCATGGGACATGTGGCTCGACGATGCTTTTATAGTTATGAGGATGACACT
** * *
661759 GAGTTTGAGTCTCCTTCATCCTCATGCGGGTTTCAAGCTCATGTGAGATATATGGCTCAATATTG
196 GAGTTTGAGTCTCCTTCATCCTCACACGGGTTTCAAGCTCATGCGAGACATATGGCTCAATATTG
*
661824 CTGTGTTGAACCTGCAGCTCCGGTTATGTAGTCTCTCTATGTAGGTTCAGTTGTGCAGTATTCTC
261 CTGTGTTGAACCTGCAGCTCCGGTTATGCAGTCTCTCTATGTAGGTTCAGTTGTGCAGTATTCTC
* *
661889 AGGCTTAGCGAATAGTTATCAATTCTGGAGTCACACCTGTATCATATAATGGTCCTACTACCATG
326 AGGCTTAGCGAATAGTTATCAATTCTAGAGTCACACCTGTATCATACAATGGTCCTACTACCATG
* * *
661954 TTTGCTACCCCAAGAACAGTAATGAATCAGGCATGGTACCCTGACAGTGG
391 CTTGCTACCCCAAGAACAGTAATGAATCAAGCATGGTACCCTGACAATGG
662004 T
1 T
662005 CCTACAGTGC
Statistics
Matches: 404, Mismatches: 36, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
439 309 0.76
440 95 0.24
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (440 bp):
TAGACAACTGCACCTCCAGGTCAGATTCAAACTGATAATTCAGAGACTCAAACATTTAAGACTAG
ACGAGCTGGTGGTTTCAGTAGGGGTCGTGCTCGTGGTCATTTTGTTCGTGGTTCGCGTCCACAAT
GTCAAATTTGTGATCGCATGGGACATGTGGCTCGACGATGCTTTTATAGTTATGAGGATGACACT
GAGTTTGAGTCTCCTTCATCCTCACACGGGTTTCAAGCTCATGCGAGACATATGGCTCAATATTG
CTGTGTTGAACCTGCAGCTCCGGTTATGCAGTCTCTCTATGTAGGTTCAGTTGTGCAGTATTCTC
AGGCTTAGCGAATAGTTATCAATTCTAGAGTCACACCTGTATCATACAATGGTCCTACTACCATG
CTTGCTACCCCAAGAACAGTAATGAATCAAGCATGGTACCCTGACAATGG
Found at i:667471 original size:19 final size:19
Alignment explanation
Indices: 667434--667486 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
667424 CAAATAATTT
*
667434 TAAAAATAATTAAAA-TTCA
1 TAAAAAT-ATAAAAAGTTCA
667453 -AAACAATATAAAAAGTTCA
1 TAAA-AATATAAAAAGTTCA
*
667472 TAAAAATTTAAAAAG
1 TAAAAATATAAAAAG
667487 ATTAGCATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 9 0.31
19 17 0.59
20 3 0.10
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAAAATATAAAAAGTTCA
Found at i:671743 original size:25 final size:25
Alignment explanation
Indices: 671684--671743 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
671674 ATTTTAACAT
*
671684 TATAATTTTTCATTTCAAATAAAAT
1 TATAATTTTTCATTTCAAATAAAAA
671709 TATAATTTTTCATTTCAAATAAAAA
1 TATAATTTTTCATTTCAAATAAAAA
671734 T-TAATCTTTT
1 TATAAT-TTTT
671744 TATACAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (25 bp):
TATAATTTTTCATTTCAAATAAAAA
Found at i:671744 original size:26 final size:25
Alignment explanation
Indices: 671682--671732 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
671672 ATATTTTAAC
671682 ATTATAATTTTTCATTTCAAATAAA
1 ATTATAATTTTTCATTTCAAATAAA
671707 ATTATAATTTTTCATTTCAAATAAA
1 ATTATAATTTTTCATTTCAAATAAA
671732 A
1 A
671733 ATTAATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAATTTTTCATTTCAAATAAA
Found at i:672496 original size:139 final size:134
Alignment explanation
Indices: 672245--672500 Score: 334
Period size: 137 Copynumber: 1.9 Consensus size: 134
672235 CTGTGGCAAA
672245 GTTACTAACTGAAGTGATATTCATTAAGACAGCCATTTTCCAATACCCCTCCATCTCAAAATAAA
1 GTTACTAACTGAAGTGATATTCATTAAGACAGCCATTTTCCAATACCCCTCCATCTCAAAATAAA
* ** * * *
672310 TTTCGATAGTTTTGATCAACCTCCACTAATTGCTTATTTAATTGGTAATCAACAAATGGTGAATT
66 GTTAAATAATGTTGATAAACCTCCACTAATTGCTTATTTAATTGGTAATCAACAAATGGTGAATT
672375 ATAG
131 ATAG
* * * *
672379 GTTACTAACTGATGTGATATTCCATTAAGACATAGGCCATTTT-CAATGCCCCTGCATCTCAATA
1 GTTACTAACTGAAGTGATATT-CATTAAGAC--A-GCCATTTTCCAATACCCCTCCATCTCAAAA
* * *
672443 TAAAGTTAAATAATGTTGATGAAAACTTCTACTAATTGCTTATTTGATTGGTAATCAA
62 TAAAGTTAAATAATGTTGAT--AAACCTCCACTAATTGCTTATTTAATTGGTAATCAA
672501 TAAAGGGGCA
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
134 20 0.19
135 9 0.09
137 34 0.33
138 8 0.08
139 32 0.31
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (134 bp):
GTTACTAACTGAAGTGATATTCATTAAGACAGCCATTTTCCAATACCCCTCCATCTCAAAATAAA
GTTAAATAATGTTGATAAACCTCCACTAATTGCTTATTTAATTGGTAATCAACAAATGGTGAATT
ATAG
Found at i:684116 original size:22 final size:22
Alignment explanation
Indices: 684091--684136 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
684081 ACATTACAGT
* *
684091 ATTCATCTCTAATTTTATCATG
1 ATTCATCTCTAATTTCAACATG
684113 ATTCATCTCTAATTTCAACATG
1 ATTCATCTCTAATTTCAACATG
684135 AT
1 AT
684137 ATCAAAGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTCATCTCTAATTTCAACATG
Found at i:685079 original size:57 final size:57
Alignment explanation
Indices: 685012--685126 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
685002 AAGTGTGTTG
685012 TGGCTCAATTAAGTGCAGAGGTTGAATATAAGACCATTGCTTAAGGTGTTTGTGAGT
1 TGGCTCAATTAAGTGCAGAGGTTGAATATAAGACCATTGCTTAAGGTGTTTGTGAGT
685069 TGGCTCAATTAAGTGCAGAGGTTGAATATAAGACCATTGCTTAAGGTGTTTGTGAGT
1 TGGCTCAATTAAGTGCAGAGGTTGAATATAAGACCATTGCTTAAGGTGTTTGTGAGT
685126 T
1 T
685127 TTTATGACTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (57 bp):
TGGCTCAATTAAGTGCAGAGGTTGAATATAAGACCATTGCTTAAGGTGTTTGTGAGT
Found at i:685636 original size:18 final size:18
Alignment explanation
Indices: 685610--685667 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 18
685600 TACATTAGAG
685610 TATTCATCTCTAATTTCA
1 TATTCATCTCTAATTTCA
*
685628 TATTTATCTCTAATTTTATCA
1 TATTCATCTCTAA--TT-TCA
685649 TGATTCATCTCTAATTTCA
1 T-ATTCATCTCTAATTTCA
685668 ACAAGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.35
19 3 0.09
20 4 0.12
21 4 0.12
22 11 0.32
ACGTcount: A:0.28, C:0.19, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTCATCTCTAATTTCA
Found at i:685658 original size:22 final size:20
Alignment explanation
Indices: 685610--685665 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
685600 TACATTAGAG
685610 TATTCATCTCTAA--TTTCA
1 TATTCATCTCTAATTTTTCA
*
685628 TATTTATCTCTAATTTTATCA
1 TATTCATCTCTAATTTT-TCA
685649 TGATTCATCTCTAATTT
1 T-ATTCATCTCTAATTT
685666 CAACAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 12 0.38
20 2 0.06
21 4 0.12
22 14 0.44
ACGTcount: A:0.27, C:0.18, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTCATCTCTAATTTTTCA
Found at i:704716 original size:23 final size:23
Alignment explanation
Indices: 704690--704787 Score: 58
Period size: 23 Copynumber: 4.2 Consensus size: 23
704680 AAACATTTGT
704690 AAATTATAATATATTTATTATTA
1 AAATTATAATATATTTATTATTA
** *
704713 AAA-TATTAATATAAATATTCTTA
1 AAATTA-TAATATATTTATTATTA
* * *
704736 AATAATATATTA-ATATTATTATTT
1 AA-ATTATAATATAT-TTATTATTA
* * *
704760 AAATTTTAAAATGA-TTATTGTTA
1 AAATTATAATAT-ATTTATTATTA
704783 AAATT
1 AAATT
704788 TATTATTAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
22 2 0.04
23 37 0.67
24 13 0.24
25 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATTATAATATATTTATTATTA
Found at i:707556 original size:23 final size:22
Alignment explanation
Indices: 707514--707560 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
707504 ATATTAAATT
**
707514 AAAATAATAGAAATCTTTTTTAA
1 AAAATAATAGAAAT-AGTTTTAA
*
707537 AAAATAATATAAATAGTTTTAA
1 AAAATAATAGAAATAGTTTTAA
707559 AA
1 AA
707561 TGAATTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAATAATAGAAATAGTTTTAA
Found at i:708016 original size:9 final size:9
Alignment explanation
Indices: 708002--708035 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
707992 AACTAATTTG
708002 ATTAAAAAT
1 ATTAAAAAT
708011 ATTAAAAAT
1 ATTAAAAAT
*
708020 TTTAAAAA-
1 ATTAAAAAT
708028 ATTAAAAA
1 ATTAAAAA
708036 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:710204 original size:59 final size:59
Alignment explanation
Indices: 710092--710223 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
710082 ATAAATTATA
* * * * * *
710092 TTTTGACCCCCAAACTTTCCAAAACCTCATTTTTAACCTCAATTTTATTAAAAATTACCG
1 TTTT-ACCCCCAAACTCTCCAAAACCTCATTTTTAACCCCAATTTCATCAAAAATGACAG
* * * *
710152 TTTTACCCCTAAACTCTCCAAAA-TTCCATTTTTAACCCCGATTTCATCAAAAATGACAT
1 TTTTACCCCCAAACTCTCCAAAACCT-CATTTTTAACCCCAATTTCATCAAAAATGACAG
710211 TTTTACCCCCAAA
1 TTTTACCCCCAAA
710224 AATTAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 1 0.02
59 55 0.92
60 4 0.07
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
TTTTACCCCCAAACTCTCCAAAACCTCATTTTTAACCCCAATTTCATCAAAAATGACAG
Found at i:719849 original size:55 final size:55
Alignment explanation
Indices: 719783--719889 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
719773 CCATAGAACA
*
719783 GGGAATTAAAACTCTAGAGGTTTATGGAGACTCCACATTGGTAATCTGCCAAACG
1 GGGAATTAAAACTCTAGAGGTTTATGGAGACTCCACATTGGTAATCTACCAAACG
*
719838 GGGAATTAAAACTCTAGAGGTTTATGGAGACTCCGCATTGGTAATCTACCAA
1 GGGAATTAAAACTCTAGAGGTTTATGGAGACTCCACATTGGTAATCTACCAA
719890 CTTAAAAGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (55 bp):
GGGAATTAAAACTCTAGAGGTTTATGGAGACTCCACATTGGTAATCTACCAAACG
Found at i:722590 original size:147 final size:147
Alignment explanation
Indices: 722318--722640 Score: 504
Period size: 147 Copynumber: 2.2 Consensus size: 147
722308 GAGGCTATCA
*
722318 TCTTCCTGAT-ATGATACAGAGAAGAATACCAATTCAACGCTCAACACGAGCCAATCTTCGAACC
1 TCTTCCTGATGA-GATACAGAGAAG----CCAATTCAACGCTCAACACGAGCCAATCTTAGAACC
*
722382 CAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTTAGCTTCCGGATGAAAT
61 CAGCTTCCTGATGAGACACTGAGAAGCAAGTAGAAGCAATAAAATGGTTAGCTTCCGGATGAAAT
722447 ACAGAGAAGTGGACCAGATTCG
126 ACAGAGAAGTGGACCAGATTCG
*
722469 TCTTCCTGATGAGATACAGAGAAGCCAATTCAACGCTCAACACGAGCTAATCTTAGAACCCAGCT
1 TCTTCCTGATGAGATACAGAGAAGCCAATTCAACGCTCAACACGAGCCAATCTTAGAACCCAGCT
* * * *
722534 TCCTGATGAGACATTGAGAAGCAGGTAGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGA
66 TCCTGATGAGACACTGAGAAGCAAGTAGAAGCAATAAAATGGTTAGCTTCCGGATGAAATACAGA
722599 GAAGTGGACCAGATTCG
131 GAAGTGGACCAGATTCG
* * *
722616 TCTTCCTGAGGAGATCCAAAGAAGC
1 TCTTCCTGATGAGATACAGAGAAGC
722641 GAATCGAAAC
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
147 138 0.86
151 22 0.14
152 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (147 bp):
TCTTCCTGATGAGATACAGAGAAGCCAATTCAACGCTCAACACGAGCCAATCTTAGAACCCAGCT
TCCTGATGAGACACTGAGAAGCAAGTAGAAGCAATAAAATGGTTAGCTTCCGGATGAAATACAGA
GAAGTGGACCAGATTCG
Found at i:723014 original size:17 final size:17
Alignment explanation
Indices: 722976--723038 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
722966 TTTAGTTTTA
* *
722976 AAATTTAGATTTATTTT
1 AAATTTAAATTTATTAT
* *
722993 GAATTTAAATTT-GTAT
1 AAATTTAAATTTATTAT
723009 AAAATTTAAATTTATTAT
1 -AAATTTAAATTTATTAT
723027 AAATTTAAATTT
1 AAATTTAAATTT
723039 TAAATTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
16 2 0.05
17 33 0.87
18 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:723015 original size:34 final size:34
Alignment explanation
Indices: 722974--723038 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
722964 AATTTAGTTT
* * *
722974 TAAAATTTAGATTTATTTTGAATTTAAATTTGTA
1 TAAAATTTAAATTTATTATAAATTTAAATTTGTA
723008 TAAAATTTAAATTTATTATAAATTTAAATTT
1 TAAAATTTAAATTTATTATAAATTTAAATTT
723039 TAAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (34 bp):
TAAAATTTAAATTTATTATAAATTTAAATTTGTA
Found at i:723069 original size:14 final size:16
Alignment explanation
Indices: 723050--723082 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
723040 AAATTAAATA
723050 AAATGT-CC-AATTAC
1 AAATGTCCCAAATTAC
723064 AAATGTCCCAAATTAC
1 AAATGTCCCAAATTAC
723080 AAA
1 AAA
723083 GGCCCAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATGTCCCAAATTAC
Found at i:723740 original size:18 final size:17
Alignment explanation
Indices: 723700--723768 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
723690 TGAGTTCCTT
723700 TAATATTATTATTAATTAA
1 TAATATTATTA-TAA-TAA
723719 -AATATTATTTATAATAA
1 TAATATTA-TTATAATAA
* * *
723736 TAATAATATAATAATGA
1 TAATATTATTATAATAA
*
723753 TATTATTATTA-AATAA
1 TAATATTATTATAATAA
723769 GGGTATTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
16 4 0.10
17 18 0.44
18 16 0.39
19 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (17 bp):
TAATATTATTATAATAA
Found at i:724812 original size:30 final size:29
Alignment explanation
Indices: 724778--724875 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
724768 ATAAATTATA
724778 TTTTGACCCCCAAACTTTCTAAAATTCCAT
1 TTTTGACCCCCAAA-TTTCTAAAATTCCAT
*
724808 TTTTGA-CTCC-AATTTCATGAAAATTACCA-
1 TTTTGACCCCCAAATTTC-T-AAAATT-CCAT
*** *
724837 TTTT-ACCAATAAATTTTCCAAAATTCCAT
1 TTTTGACCCCCAAA-TTTCTAAAATTCCAT
724866 TTTTGACCCC
1 TTTTGACCCC
724876 AATTTCACCA
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
27 4 0.08
28 7 0.13
29 24 0.45
30 14 0.26
31 4 0.08
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTTGACCCCCAAATTTCTAAAATTCCAT
Found at i:724886 original size:29 final size:30
Alignment explanation
Indices: 724798--724899 Score: 88
Period size: 29 Copynumber: 3.5 Consensus size: 30
724788 CAAACTTTCT
* **
724798 AAAATT-CCATTTTTGACTCCAATTTCATG
1 AAAATTACCATTTTTGACCCCAATTTCACC
** *
724827 AAAATTACCA-TTTT-ACCAATAAATTT-TCC
1 AAAATTACCATTTTTGACC--CCAATTTCACC
724856 AAAATT-CCATTTTTGACCCCAATTTCACC
1 AAAATTACCATTTTTGACCCCAATTTCACC
724885 AAAAATTACCATTTT
1 -AAAATTACCATTTT
724900 ACCCTCAAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
28 10 0.18
29 22 0.39
30 17 0.30
31 7 0.12
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTACCATTTTTGACCCCAATTTCACC
Found at i:724917 original size:30 final size:29
Alignment explanation
Indices: 724827--724918 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 29
724817 CAATTTCATG
*
724827 AAAATTACCATTTTACCAAT-AAATTTTCC-
1 AAAATTACCATTTTACC-CTCAAA-TTTCCA
724856 AAAATT-CCATTTTTGACCC-C-AATTTCACCA
1 AAAATTACCA-TTTT-ACCCTCAAATTT--CCA
724886 AAAATTACCATTTTACCCTCAAACTTTCCA
1 AAAATTACCATTTTACCCTCAAA-TTTCCA
724916 AAA
1 AAA
724919 CCCCATTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 19
0.72 0.01 0.26
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 16 0.31
30 20 0.38
31 5 0.10
32 3 0.06
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAAATTTCCA
Found at i:724918 original size:59 final size:59
Alignment explanation
Indices: 724777--725021 Score: 235
Period size: 59 Copynumber: 4.2 Consensus size: 59
724767 CATAAATTAT
* * * * **
724777 ATTTTGACCCCCAAACTTTCTAAAATTCCATTTTTGACTCCAATTTCA-TGAAAATTACC
1 ATTTT-ACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACC
* * *
724836 ATTTTACCAAT-AAATTTTCCAAAATTCCATTTTTGACCCCAATTTCACCAAAAATTACC
1 ATTTTACC-CTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACC
** *** * **
724895 ATTTTACCCTCAAACTTTCCAAAACCCCATTTTTAACCTTGATTTTACCAAAAATTATT
1 ATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACC
* * * * * *
724954 GTTTTACCCTTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAACTA-C
1 ATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACC
725012 ATTTTTACCC
1 A-TTTTACCC
725022 CCGAAAGTCA
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
58 37 0.24
59 115 0.76
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
ATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACC
Found at i:728730 original size:51 final size:51
Alignment explanation
Indices: 728653--728937 Score: 335
Period size: 51 Copynumber: 5.5 Consensus size: 51
728643 AAACAAAAAA
*
728653 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCCTTACGGATTAAAG
* *
728704 GTCCGATGACTAAGTGTCATTATGAGTAAATGAATCCTTTACGGATTAAAG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCCTTACGGATTAAAG
**
728755 GTCCGATGACTAAGTGTCAT-AGTGAGTAAATGAATCTTTTA-GGATTAAAG
1 GTCCGATGACTAAGTGTCATCA-TGAGTAAATGAATCCCTTACGGATTAAAG
* * * *
728805 G-CCTGATGACGAAGTGTCATCATGAGTAAATGAATCCATGACGAATTAAAG
1 GTCC-GATGACTAAGTGTCATCATGAGTAAATGAATCCCTTACGGATTAAAG
* * * * **
728856 GTCCGATGACTCAGTGTTATCGTGAGTAAATGAATTCCTATACGGAACAAAGGG
1 GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCCT-TACGGATTAAA--G
* *
728910 GTCCGATAACTATA-TGTCATCGTGAGTA
1 GTCCGATGACTA-AGTGTCATCATGAGTA
728938 TTAAATGAAA
Statistics
Matches: 203, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 42 0.21
51 125 0.62
52 9 0.04
54 24 0.12
55 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
GTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCCTTACGGATTAAAG
Found at i:728835 original size:101 final size:102
Alignment explanation
Indices: 728653--728901 Score: 367
Period size: 101 Copynumber: 2.4 Consensus size: 102
728643 AAACAAAAAA
*
728653 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGACTAAG
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGACGAAG
* * * *
728718 TGTCATTATGAGTAAATGAATCCTTTACGGATTAAAG
66 TGTCATCATGAGTAAATGAATCCATGACGAATTAAAG
* **
728755 GTCCGATGACTAAGTGTCATAGTGAGTAAATGAATCTTTTA-GGATTAAAGG-CCTGATGACGAA
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCC-GATGACGAA
728818 GTGTCATCATGAGTAAATGAATCCATGACGAATTAAAG
65 GTGTCATCATGAGTAAATGAATCCATGACGAATTAAAG
* * *
728856 GTCCGATGACTCAGTGTTATCGTGAGTAAATGAATTCCTATACGGA
1 GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCT-TACGGA
728902 ACAAAGGGGT
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
100 2 0.02
101 85 0.65
102 40 0.31
103 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (102 bp):
GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGACGAAG
TGTCATCATGAGTAAATGAATCCATGACGAATTAAAG
Found at i:732410 original size:21 final size:21
Alignment explanation
Indices: 732386--732427 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
732376 GTGTATTTCC
732386 TGGGGAGCACCGGTTTGGTTT
1 TGGGGAGCACCGGTTTGGTTT
732407 TGGGGAGCACCGGTTTGGTTT
1 TGGGGAGCACCGGTTTGGTTT
732428 GTCAAGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.14, G:0.43, T:0.33
Consensus pattern (21 bp):
TGGGGAGCACCGGTTTGGTTT
Found at i:736127 original size:36 final size:36
Alignment explanation
Indices: 736080--736215 Score: 236
Period size: 36 Copynumber: 3.8 Consensus size: 36
736070 TGGTAACAGG
736080 CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
736116 CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
** * *
736152 CATGGGCTTTGGGTCAACAGGGAGTTAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
736188 CATGACCTTTGGGTCAACAGGGAGTAAA
1 CATGACCTTTGGGTCAACAGGGAGTAAA
736216 TCGGATATCA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATTAGCAT
Found at i:738434 original size:3 final size:3
Alignment explanation
Indices: 738426--738493 Score: 118
Period size: 3 Copynumber: 22.0 Consensus size: 3
738416 AATTTGGTCA
738426 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
738474 TTC TTC TTC TCTC TTTC TTC
1 TTC TTC TTC T-TC -TTC TTC
738494 AATTTCATAC
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 58 0.92
4 4 0.06
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:744013 original size:16 final size:15
Alignment explanation
Indices: 743994--744034 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
743984 AACCCTTTTT
743994 CATTACAGCTATATTA
1 CATTACAGC-ATATTA
*
744010 CATTACAGACATATTC
1 CATTACAG-CATATTA
744026 CATTACAGC
1 CATTACAGC
744035 GAACCAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (15 bp):
CATTACAGCATATTA
Found at i:764139 original size:17 final size:17
Alignment explanation
Indices: 764115--764151 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
764105 TGAGTGCTCC
764115 TCTTTTTTTTTT-T-TT
1 TCTTTTTTTTTTCTCTT
764130 TCTTTTTTTTTTCTCTT
1 TCTTTTTTTTTTCTCTT
764147 TCTTT
1 TCTTT
764152 GAAACTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.60
16 1 0.05
17 7 0.35
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TCTTTTTTTTTTCTCTT
Found at i:771326 original size:22 final size:20
Alignment explanation
Indices: 771282--771328 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
771272 TTTTGAACAA
*
771282 TTTAATTTTTTTTTTATATT
1 TTTAATTTTTTATTTATATT
*
771302 TTTAATTTATTTAATTTCTATT
1 TTTAATTT-TTT-ATTTATATT
771324 TTTAA
1 TTTAA
771329 CCTTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTAATTTTTTATTTATATT
Found at i:775985 original size:30 final size:30
Alignment explanation
Indices: 775932--775991 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
775922 TTTGGAAGCC
* * *
775932 ACTTTTGTTTTAGCAATTGCTGATATAATG
1 ACTTCTGTTTTAGCAATTCCTGATAAAATG
**
775962 ACTTCTGTTTTAGCTGTTCCTGATAAAATG
1 ACTTCTGTTTTAGCAATTCCTGATAAAATG
775992 CTTTTGGGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (30 bp):
ACTTCTGTTTTAGCAATTCCTGATAAAATG
Found at i:785007 original size:29 final size:30
Alignment explanation
Indices: 784940--785007 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
784930 TTTTAATTTA
* *
784940 TAATTTTATTATTTTTGAAGGGATTAAAGAG
1 TAATTTTTTTATTTTT-AAGGGACTAAAGAG
* * *
784971 AAAATTTTTTATTTTT-AGGGACTAAAGTG
1 TAATTTTTTTATTTTTAAGGGACTAAAGAG
785000 TAATTTTT
1 TAATTTTT
785008 CTATATATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 17 0.57
31 13 0.43
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (30 bp):
TAATTTTTTTATTTTTAAGGGACTAAAGAG
Found at i:791328 original size:22 final size:22
Alignment explanation
Indices: 791303--791344 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
791293 TAACAAAAAT
791303 ATTGT-TGAAGAAAAGAAAAACA
1 ATTGTCTGAA-AAAAGAAAAACA
*
791325 ATTGTCTTAAAAAAGAAAAA
1 ATTGTCTGAAAAAAGAAAAA
791345 GAAAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (22 bp):
ATTGTCTGAAAAAAGAAAAACA
Found at i:791349 original size:5 final size:6
Alignment explanation
Indices: 791334--791377 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
791324 AATTGTCTTA
791334 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
791378 TTGTTTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:791573 original size:4 final size:4
Alignment explanation
Indices: 791564--791600 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
791554 CCTCTCTTTC
791564 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
791601 TCATCTTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TCTA
Found at i:795270 original size:29 final size:30
Alignment explanation
Indices: 795232--795293 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
795222 ATTTTTTATG
**
795232 CTTTCCTTTTTGATTAA-AAACTTTTGATA
1 CTTTCCTTTTTGAGGAATAAACTTTTGATA
*
795261 CTTTCGTTTTTGAGGAATAAACTTTTGATA
1 CTTTCCTTTTTGAGGAATAAACTTTTGATA
795291 CTT
1 CTT
795294 GTTATAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (30 bp):
CTTTCCTTTTTGAGGAATAAACTTTTGATA
Found at i:802314 original size:51 final size:51
Alignment explanation
Indices: 802233--802476 Score: 389
Period size: 51 Copynumber: 4.8 Consensus size: 51
802223 GCTATAAACG
* *
802233 AAAGAGTCCGATGACTAAGTGTCATCATGAGTAAGTGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
802285 AAAGGTCCGGTGACTAAGTGTCATCATGAGTAAATGAATTCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
802336 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* **
802387 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATTACCAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
802438 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
802477 TTCTATATGG
Statistics
Matches: 181, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
51 177 0.98
52 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:803159 original size:24 final size:21
Alignment explanation
Indices: 803103--803159 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
803093 TGACTTGGAT
*
803103 TGTATCGGTAGTTGAATTACA
1 TGTATCGGTAGTTCAATTACA
** *
803124 TGTATCAATAGTTCATGTTACTGA
1 TGTATCGGTAGTTCA-ATTAC--A
803148 TGTATCGGTAGT
1 TGTATCGGTAGT
803160 ATGTAAGCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 12 0.44
22 4 0.15
24 11 0.41
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (21 bp):
TGTATCGGTAGTTCAATTACA
Found at i:805362 original size:25 final size:23
Alignment explanation
Indices: 805321--805366 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
805311 CCAATTAGAG
805321 AATTATTCTTTAGATTTAATTCT
1 AATTATTCTTTAGATTTAATTCT
*
805344 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TCTTTAG-ATTTAATT
805367 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTCTTTAGATTTAATTCT
Found at i:809389 original size:5 final size:5
Alignment explanation
Indices: 809362--809403 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
809352 ATTTAGTATA
809362 TTTAT TTTCATT TTTAGT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTT-A-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTA
809404 ATTATGCACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 23 0.68
6 7 0.21
7 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:810356 original size:10 final size:10
Alignment explanation
Indices: 810342--810378 Score: 58
Period size: 9 Copynumber: 3.7 Consensus size: 10
810332 TAGAAAAAGA
810342 AAAAAAAGTCG
1 AAAAAAA-TCG
810353 AAAAAAAT-G
1 AAAAAAATCG
810362 AAAAAAATCG
1 AAAAAAATCG
810372 AAAAAAA
1 AAAAAAA
810379 GAAAATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 9 0.36
11 7 0.28
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.08
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:810365 original size:19 final size:18
Alignment explanation
Indices: 810335--810383 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
810325 TATTATTTAG
810335 AAAAAGAAAAAAAAGTCGAA
1 AAAAAG-AAAAAAA-TCGAA
810355 AAAAATGAAAAAAATCGAA
1 AAAAA-GAAAAAAATCGAA
810374 AAAAAGAAAA
1 AAAAAGAAAA
810384 TTCAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.18
19 10 0.36
20 12 0.43
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAAAAATCGAA
Found at i:811471 original size:23 final size:25
Alignment explanation
Indices: 811445--811490 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
811435 CCAATTAACG
811445 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
811468 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
811491 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:813510 original size:20 final size:21
Alignment explanation
Indices: 813490--813533 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
813480 TTGATAAAAA
813490 TTTATTACTATAAATATAAATTTT
1 TTTATTACTATAAATATAAA---T
813514 TTTATTACTATAAATATAAA
1 TTTATTACTATAAATATAAA
813534 AAATTGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATTACTATAAATATAAAT
Found at i:813886 original size:6 final size:6
Alignment explanation
Indices: 813876--813914 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
813866 GCTTATCTAG
* *
813876 GTCTCG GTCTCC GTCTCC GTCTCG GTCTCC GTCTCC GTC
1 GTCTCC GTCTCC GTCTCC GTCTCC GTCTCC GTCTCC GTC
813915 ATACCGGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.44, G:0.23, T:0.33
Consensus pattern (6 bp):
GTCTCC
Found at i:813897 original size:18 final size:18
Alignment explanation
Indices: 813876--813914 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
813866 GCTTATCTAG
813876 GTCTCGGTCTCCGTCTCC
1 GTCTCGGTCTCCGTCTCC
813894 GTCTCGGTCTCCGTCTCC
1 GTCTCGGTCTCCGTCTCC
813912 GTC
1 GTC
813915 ATACCGGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.44, G:0.23, T:0.33
Consensus pattern (18 bp):
GTCTCGGTCTCCGTCTCC
Found at i:833670 original size:17 final size:18
Alignment explanation
Indices: 833648--833690 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 18
833638 CATTTTAACT
833648 TTTTAAAATTTAA-AAAA
1 TTTTAAAATTTAATAAAA
833665 TTTT-AAA-TTAATAAAA
1 TTTTAAAATTTAATAAAA
833681 TTTTAAAATT
1 TTTTAAAATT
833691 ACCCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 7 0.30
18 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAATTTAATAAAA
Found at i:834510 original size:5 final size:5
Alignment explanation
Indices: 834505--834540 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
834495 AATTCACACT
834505 ATACTA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATAC-A ATACA ATACA ATACA ATACA ATACA ATACA
834541 TTATTTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (5 bp):
ATACA
Found at i:843111 original size:6 final size:6
Alignment explanation
Indices: 843100--843162 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
843090 TGGGTTAAAA
* * * *
843100 TAAATT TAAATT T-ATTT TAAATT TAAATT T-ACTC TAAATT TAAGTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
843146 T-AATT AAAATT TAAATT
1 TAAATT TAAATT TAAATT
843163 GATATTAACC
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
5 10 0.23
6 34 0.77
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (6 bp):
TAAATT
Found at i:843122 original size:17 final size:17
Alignment explanation
Indices: 843100--843162 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
843090 TGGGTTAAAA
*
843100 TAAATTTAAATTTATTT
1 TAAATTTAAATTTAATT
* *
843117 TAAATTTAAATTTACTC
1 TAAATTTAAATTTAATT
*
843134 TAAATTTAAGTTTAATT
1 TAAATTTAAATTTAATT
*
843151 AAAATTTAAATT
1 TAAATTTAAATT
843163 GATATTAACC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATTTAAATTTAATT
Found at i:844010 original size:15 final size:15
Alignment explanation
Indices: 843986--844028 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
843976 TTATAAGTTT
*
843986 TAATAGTAATAAATA
1 TAATAATAATAAATA
* * *
844001 TAATATTAATAATTT
1 TAATAATAATAAATA
844016 TAATAATAATAAA
1 TAATAATAATAAA
844029 AAAGAGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:845137 original size:29 final size:30
Alignment explanation
Indices: 845065--845127 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
845055 TAAAACTTTT
*
845065 AAAAACTA-TATTTTGACCCCAAAACTACC
1 AAAAATTACTATTTTGACCCCAAAACTACC
* *
845094 AAAAATTACTATTTTGACCCCAAACCTTCC
1 AAAAATTACTATTTTGACCCCAAAACTACC
845124 AAAA
1 AAAA
845128 TTCCATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAAATTACTATTTTGACCCCAAAACTACC
Found at i:845143 original size:59 final size:58
Alignment explanation
Indices: 845090--845407 Score: 406
Period size: 59 Copynumber: 5.4 Consensus size: 58
845080 ACCCCAAAAC
* *
845090 TACCAAAAATTACTATTTTGACCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTT
1 TACCAAAAATTACCATTTT-ACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTT
* * * ** *
845149 CACCAAAAATCACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTTGGTTT
1 TACCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTT
* **
845208 TACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TCCTATTTTTGACCCTAATTT
1 TACCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCC-ATTTTTAACCCCGATTT
*
845267 TACCAAAAATTACCATTTTACCCCAAACTTTCCAAAA-TCTCATTTTTAACCCTGATTT
1 TACCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTC-CATTTTTAACCCCGATTT
* * ** *
845325 TACCAAAATTTACCATTTTACCCTTAAACTTTCCAAAATTTAATTTTTAACCTCGATTT
1 TACCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTT
*
845384 TACCAAAAATTACCATTTTGCCCC
1 TACCAAAAATTACCATTTTACCCC
845408 CGAGCGTCCA
Statistics
Matches: 227, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
58 63 0.28
59 160 0.70
60 4 0.02
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (58 bp):
TACCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTT
Found at i:845154 original size:29 final size:30
Alignment explanation
Indices: 845120--845402 Score: 115
Period size: 29 Copynumber: 9.6 Consensus size: 30
845110 ACCCCAAACC
845120 TTCCAAAATTCCATTTTTAACCC-CG-A-T
1 TTCCAAAATTCCATTTTTAACCCTCGAACT
*
845147 TTCACCAAAAATCACCA-TTTT-ACCCTCGAACT
1 TT--CC-AAAAT-TCCATTTTTAACCCTCGAACT
* **
845179 TTCCAAAATTCCATTTTTAA-CCTTG-GTT
1 TTCCAAAATTCCATTTTTAACCCTCGAACT
* *
845207 TTACCAAAAATTACCA-TTTT-ACCCCCAAACT
1 TT-CC-AAAATT-CCATTTTTAACCCTCGAACT
* *
845238 TTCCAAAA-TCCTATTTTTGACCCT--AATT
1 TTCCAAAATTCC-ATTTTTAACCCTCGAACT
*
845266 TTACCAAAAATTACCA-TTTT-ACCC-CAAACT
1 TT-CC-AAAATT-CCATTTTTAACCCTCGAACT
*
845296 TTCCAAAA-TCTCATTTTTAACCCT-G-ATT
1 TTCCAAAATTC-CATTTTTAACCCTCGAACT
**
845324 TTACCAAAATTTACCA-TTTT-ACCCTTAAACT
1 TT-CCAAAA-TT-CCATTTTTAACCCTCGAACT
** *
845355 TTCCAAAATTTAATTTTTAA-CCTCG-ATT
1 TTCCAAAATTCCATTTTTAACCCTCGAACT
845383 TTACCAAAAATTACCATTTT
1 TT-CC-AAAATT-CCATTTT
845403 GCCCCCGAGC
Statistics
Matches: 194, Mismatches: 24, Indels: 72
0.67 0.08 0.25
Matches are distributed among these distances:
26 1 0.01
27 7 0.04
28 30 0.15
29 64 0.33
30 62 0.32
31 24 0.12
32 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (30 bp):
TTCCAAAATTCCATTTTTAACCCTCGAACT
Found at i:845332 original size:176 final size:177
Alignment explanation
Indices: 845090--845408 Score: 498
Period size: 176 Copynumber: 1.8 Consensus size: 177
845080 ACCCCAAAAC
*
845090 TACCAAAAATTACTATTTTGACCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
1 TACCAAAAATTACCATTTTGACCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
* * * *
845155 AAATCACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTTGGTTTTACCAAAAATTA
66 AAATCACCATTTTACCCTCAAACTTTCCAAAATTCAATTTTTAACCTCGATTTTACCAAAAATTA
845220 CCATTTTACCCCCAAACTTTCCAAAATCCTATTTTTGACCCTAATTT
131 CCATTTTACCCCCAAACTTTCCAAAATCCTATTTTTGACCCTAATTT
* * *
845267 TACCAAAAATTACCATTTT-ACCCCAAACTTTCCAAAA-TCTCATTTTTAACCCTGATTTTACCA
1 TACCAAAAATTACCATTTTGACCCCAAACCTTCCAAAATTC-CATTTTTAACCCCGATTTCACCA
* * * *
845330 AAATTTACCATTTTACCCTTAAACTTTCCAAAATTTAATTTTTAACCTCGATTTTACCAAAAATT
65 AAAATCACCATTTTACCCTCAAACTTTCCAAAATTCAATTTTTAACCTCGATTTTACCAAAAATT
*
845395 ACCATTTTGCCCCC
130 ACCATTTTACCCCC
845409 GAGCGTCCAA
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
175 2 0.02
176 108 0.84
177 18 0.14
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (177 bp):
TACCAAAAATTACCATTTTGACCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
AAATCACCATTTTACCCTCAAACTTTCCAAAATTCAATTTTTAACCTCGATTTTACCAAAAATTA
CCATTTTACCCCCAAACTTTCCAAAATCCTATTTTTGACCCTAATTT
Found at i:845340 original size:117 final size:116
Alignment explanation
Indices: 845090--845407 Score: 401
Period size: 117 Copynumber: 2.7 Consensus size: 116
845080 ACCCCAAAAC
* * * *
845090 TACCAAAAATTACTATTTTGA-CCCCAAACCTTCCAAAATTCC-ATTTTTAACCCCGATTTCACC
1 TACCAAAAATTACCATTTT-ACCCCCAAACTTTCCAAAA-TCCTATTTTT-ACCCTGATTTTACC
* * * *
845153 AAAAATCACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTTGGTTT
63 AAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTT
*
845208 TACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCTATTTTTGACCCTAATTTTACCAA
1 TACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCTATTTTT-ACCCTGATTTTACCAA
845273 AAATTACCATTTTACCCCAAACTTTCCAAAA-TCTCATTTTTAACCCTGATTT
65 AAATTACCATTTTACCCCAAACTTTCCAAAATTC-CATTTTTAACCCTGATTT
* ** * *
845325 TACCAAAATTTACCATTTTACCCTTAAACTTTCCAAAAT-TTAATTTTTAACCTCGATTTTACCA
1 TACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCT-ATTTTTACCCT-GATTTTACCA
*
845389 AAAATTACCATTTTGCCCC
64 AAAATTACCATTTTACCCC
845408 CGAGCGTCCA
Statistics
Matches: 178, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
116 7 0.04
117 102 0.57
118 69 0.39
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (116 bp):
TACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCTATTTTTACCCTGATTTTACCAAA
AATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTT
Found at i:849814 original size:200 final size:199
Alignment explanation
Indices: 849471--850305 Score: 1185
Period size: 200 Copynumber: 4.2 Consensus size: 199
849461 AACAAACAGT
* * * *
849471 GAGGCGGTAATCTTCCTGATGAGATACAAAGAAGAATACCAACTCAAAGCTCATAGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCA-AACGAGCAAAT
*
849536 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAA-ACAATAAAATGGTTAGCTTC
65 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGA-AATAAAATAGTTAGCTTC
*
849600 CTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAA
129 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAA
849665 ACAACA
194 ACAACA
* *
849671 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACACGAGCCAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-ACGAGCAAAT
*
849736 CTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGAAATAAAATAGTTAGCTTCC
65 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGAAATAAAATAGTTAGCTTCC
* * *
849801 TGATGAGATACAGAGAAGTGGACCAAATTTC-TCTTCCTGAGGAGATCTAAAGAAGTAAATTAAA
130 TGATGAGATACAGAGAAGTGGACCAAA-TTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAA
849865 ACAACA
194 ACAACA
*
849871 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCCAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-ACGAGCAAAT
* *
849936 CTTC-ATACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
65 CTTCGA-ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGAAATAAAATAGTTAGCTTC
*
850000 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCAAATTAAA
129 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAA
850065 ACAAGC-
194 ACAA-CA
* ** * * *
850071 GAGGTGACCATCTTCCTGATGAGACAAAGAGAAGAATACTAACTCAACG------CGAGCAAATC
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAACGAGCAAATC
* *
850130 TTCGAACCCAGCTTCCTGATGAGAC-CTTGAGAAGCAGGTCGAAGCAATAAAA-AGGCTAGCTTC
66 TTCGAACCCAGCTTCCTGATGAGACAC-TGAGAAGCAGGTCGAAGAAATAAAATA-GTTAGCTTC
*
850193 CTGATGAGATACAGAGAAGTGGA-CAGAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAA
129 CTGATGAGATACAGAGAAGTGGACCA-AATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAA
* *
850257 AATAGATA
193 AACA-ACA
* * * *
850265 -ATTGCGGTCATCTTCCTGATAAGACACAGAGAAGAAGACCA
1 GA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
850306 GGTCAATGAA
Statistics
Matches: 581, Mismatches: 41, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
192 3 0.01
193 128 0.22
194 33 0.06
199 4 0.01
200 409 0.70
201 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (199 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAACGAGCAAATC
TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGAAATAAAATAGTTAGCTTCCT
GATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAAC
AACA
Found at i:850693 original size:17 final size:17
Alignment explanation
Indices: 850671--850730 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
850661 GTTAAAATGG
*
850671 ATTTAAATTTATTTTAA
1 ATTTAAATTTAATTTAA
** *
850688 ATTTAAATTTGCTCTAA
1 ATTTAAATTTAATTTAA
* *
850705 ATTTAAGTTTAATTAAA
1 ATTTAAATTTAATTTAA
850722 ATTTAAATT
1 ATTTAAATT
850731 GATATTAACC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
ATTTAAATTTAATTTAA
Found at i:851577 original size:15 final size:15
Alignment explanation
Indices: 851553--851595 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
851543 TTATAAGTTT
*
851553 TAATAGTAATAAATA
1 TAATAATAATAAATA
* * *
851568 TAATATTAATAATTT
1 TAATAATAATAAATA
851583 TAATAATAATAAA
1 TAATAATAATAAA
851596 AAAGAGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:852638 original size:60 final size:59
Alignment explanation
Indices: 852546--852713 Score: 177
Period size: 60 Copynumber: 2.8 Consensus size: 59
852536 AAACTATTCA
852546 AAAATTATATTTTGACACCAAAACTTTCTAAAAATTACATTTTAACCCTCAAACTCCTTT
1 AAAATTATATTTTGACACCAAAACTTTCTAAAAATTACATTTTAACCC-CAAACTCCTTT
* * *
852606 AAAATTATATTTTTTAC-CCTAAAACTTT-TAAAAATTATATTTTAACCCCAAAACTACC--A
1 AAAATTATA-TTTTGACACC-AAAACTTTCTAAAAATTACATTTTAACCCC-AAACT-CCTTT
* * *
852665 AAAATTACTATTTTGACCCCAAAAC-TTC-CAAAATTCCATTTTTAACCCC
1 AAAATTA-TATTTTGACACCAAAACTTTCTAAAAATTACA-TTTTAACCCC
852714 GATTTCACCA
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
58 9 0.10
59 29 0.31
60 39 0.42
61 16 0.17
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (59 bp):
AAAATTATATTTTGACACCAAAACTTTCTAAAAATTACATTTTAACCCCAAACTCCTTT
Found at i:852696 original size:30 final size:29
Alignment explanation
Indices: 852544--852713 Score: 141
Period size: 30 Copynumber: 5.7 Consensus size: 29
852534 CTAAACTATT
* *
852544 CAAAAATTATATTTTGACACCAAAACTTTC
1 CAAAAATTATATTTTAACCCCAAAAC-TTC
* *
852574 TAAAAATTACATTTTAACCCTC-AAAC-TC
1 CAAAAATTATATTTTAACCC-CAAAACTTC
* * * *
852602 CTTTAAAATTATATTTTTTACCCTAAAACTTT
1 C--AAAAATTATA-TTTTAACCCCAAAACTTC
* *
852634 TAAAAATTATATTTTAACCCCAAAACTAC
1 CAAAAATTATATTTTAACCCCAAAACTTC
*
852663 CAAAAATTACTATTTTGACCCCAAAACTTC
1 CAAAAATTA-TATTTTAACCCCAAAACTTC
852693 C-AAAATTCCAT-TTTTAACCCC
1 CAAAAATT--ATATTTTAACCCC
852714 GATTTCACCA
Statistics
Matches: 111, Mismatches: 20, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
28 2 0.02
29 37 0.33
30 57 0.51
31 14 0.13
32 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (29 bp):
CAAAAATTATATTTTAACCCCAAAACTTC
Found at i:852708 original size:59 final size:57
Alignment explanation
Indices: 852544--852934 Score: 233
Period size: 59 Copynumber: 6.6 Consensus size: 57
852534 CTAAACTATT
* * *
852544 CAAAAATTA-TATTTTGACACCAAAACTTTCTAAAAATTACA-TTTTAACCCTCAAACT-C
1 CAAAAATTACTATTTT-AC-CCCAAACTTTC-CAAAATTCCATTTTTAACCC-CAAACTAC
* * **
852602 CTTTAAAATTA-TATTTTTTACCCTAAAACTTTTAAAAATT--ATATTTTAACCCCAAAACTAC
1 C--AAAAATTACTA--TTTTACCC-CAAACTTTCCAAAATTCCAT-TTTTAACCCC-AAACTAC
* **
852663 CAAAAATTACTATTTTGACCCCAAAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACTATTTT-ACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCAAACT-AC
* * * ** ***
852722 CAAAAATCACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTTGATTTTAC
1 CAAAAATTACTATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACC-CCAAACTAC
* * * * *
852781 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAAAACCAC
1 CAAAAATTACTATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCC-CAAACTAC
* ** * * **
852840 TAAAAATTAC-CGTTTACCCCAATCTTTCCAAAA-TCCTATTTTTAACCCTAATTTCAC
1 CAAAAATTACTATTTTACCCCAAACTTTCCAAAATTCC-ATTTTTAACCCCAAACT-AC
* * *
852897 CAAAATTTACCATTTTACCCTCAGACTTTCCAAAATTC
1 CAAAAATTACTATTTTACCC-CAAACTTTCCAAAATTC
852935 AAATTTTGAC
Statistics
Matches: 269, Mismatches: 40, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
56 4 0.01
57 33 0.12
58 37 0.14
59 138 0.51
60 41 0.15
61 12 0.04
62 4 0.01
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (57 bp):
CAAAAATTACTATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAACTAC
Found at i:852724 original size:29 final size:30
Alignment explanation
Indices: 852690--852831 Score: 122
Period size: 30 Copynumber: 4.8 Consensus size: 30
852680 ACCCCAAAAC
852690 TTCCAAAATTCCATTTTTAACCC-CG-A-T
1 TTCCAAAATTCCATTTTTAACCCTCGAACT
*
852717 TTCACCAAAAATCACCA-TTTT-ACCCTCGAACT
1 TT--CC-AAAAT-TCCATTTTTAACCCTCGAACT
* *
852749 TTCCAAAATTCCATTTTTAA-CCTTG-ATT
1 TTCCAAAATTCCATTTTTAACCCTCGAACT
852777 TTACCAAAAATTACCA-TTTT-ACCCTCGAACT
1 TT-CC-AAAATT-CCATTTTTAACCCTCGAACT
*
852808 TTCCAAAATCCCATTTTTAACCCT
1 TTCCAAAATTCCATTTTTAACCCT
852832 AAAACCACTA
Statistics
Matches: 92, Mismatches: 7, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
27 2 0.02
28 10 0.11
29 31 0.34
30 35 0.38
31 11 0.12
32 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.36
Consensus pattern (30 bp):
TTCCAAAATTCCATTTTTAACCCTCGAACT
Found at i:852885 original size:175 final size:176
Alignment explanation
Indices: 852645--852988 Score: 473
Period size: 175 Copynumber: 2.0 Consensus size: 176
852635 AAAAATTATA
* *
852645 TTTTAACCCCAAAACTACCAAAAATTACTATTTTGACCCCAAAACTTCCAAAATTCCATTTTTAA
1 TTTTAACCCCAAAACCACCAAAAATTACTAGTTTGACCCCAAAACTTCCAAAATTCCATTTTTAA
* * * *
852710 CCCCGATTTCACCAAAAATCACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCTTG
66 CCCCAATTTCACCAAAAATCACCATTTTACCCTCAG-ACTTTCCAAAATTCAAATTTTAACCTCG
852774 ATTTTACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCAT
130 ATTTTACCAAAAATTACCATTTTACCCTCGAAC-TTCCAAAATCCCAT
* * * *
852822 TTTTAACCCTAAAACCACTAAAAATTAC-CGTTT-ACCCC-AATCTTTCCAAAA-TCCTATTTTT
1 TTTTAACCCCAAAACCACCAAAAATTACTAGTTTGACCCCAAAAC-TTCCAAAATTCC-ATTTTT
* * * *
852883 AACCCTAATTTCACCAAAATTTACCATTTTACCCTCAGACTTTCCAAAATTCAAATTTTGACCTC
64 AACCCCAATTTCACCAAAAATCACCATTTTACCCTCAGACTTTCCAAAATTCAAATTTTAACCTC
* *
852948 GATTTTACCAAAAATTACCATTTTTCCCTCGAGCTTCCAAA
129 GATTTTACCAAAAATTACCATTTTACCCTCGAACTTCCAAA
852989 GGTCCCGTTT
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
174 13 0.09
175 106 0.72
176 4 0.03
177 25 0.17
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (176 bp):
TTTTAACCCCAAAACCACCAAAAATTACTAGTTTGACCCCAAAACTTCCAAAATTCCATTTTTAA
CCCCAATTTCACCAAAAATCACCATTTTACCCTCAGACTTTCCAAAATTCAAATTTTAACCTCGA
TTTTACCAAAAATTACCATTTTACCCTCGAACTTCCAAAATCCCAT
Found at i:852930 original size:30 final size:30
Alignment explanation
Indices: 852895--852979 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
852885 CCCTAATTTC
852895 ACCAAAATTTACCATTTTACCCTCAGACTTT
1 ACCAAAATTTACCATTTTACCCTC-GACTTT
* * *
852926 -CCAAAATTCA-AATTTTGA-CCTCGATTTT
1 ACCAAAATTTACCATTTT-ACCCTCGACTTT
* *
852954 ACCAAAAATTACCATTTTTCCCTCGA
1 ACCAAAATTTACCATTTTACCCTCGA
852980 GCTTCCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 5 0.12
29 17 0.40
30 21 0.49
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (30 bp):
ACCAAAATTTACCATTTTACCCTCGACTTT
Found at i:852958 original size:59 final size:58
Alignment explanation
Indices: 852661--852977 Score: 308
Period size: 59 Copynumber: 5.4 Consensus size: 58
852651 CCCCAAAACT
* *
852661 ACCAAAAATTACTATTTTGACCC-CAAAAC-TTCCAAAATTCCATTTTTAACCCCGATTTC
1 ACCAAAAATTACCATTTT-ACCCTC-AGACTTTCCAAAATTCCATTTTTAA-CCCGATTTC
* * *
852720 ACCAAAAATCACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCTTGATTTT
1 ACCAAAAATTACCATTTTACCCTCAG-ACTTTCCAAAATTCCATTTTTAACC-CGATTTC
* * ***
852779 ACCAAAAATTACCATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTAACCCTAAAACC
1 ACCAAAAATTACCATTTTACCCTCAG-ACTTTCCAAAATTCCATTTTTAACCC-GATTTC
* * *
852838 ACTAAAAATTACC-GTTTACCC-CA-ATCTTTCCAAAA-TCCTATTTTTAACCCTAATTTC
1 ACCAAAAATTACCATTTTACCCTCAGA-CTTTCCAAAATTCC-ATTTTTAACCC-GATTTC
* * * * *
852895 ACCAAAATTTACCATTTTACCCTCAGACTTTCCAAAATTCAAATTTTGACCTCGATTTT
1 ACCAAAAATTACCATTTTACCCTCAGACTTTCCAAAATTCCATTTTTAACC-CGATTTC
*
852954 ACCAAAAATTACCATTTTTCCCTC
1 ACCAAAAATTACCATTTTACCCTC
852978 GAGCTTCCAA
Statistics
Matches: 216, Mismatches: 29, Indels: 26
0.80 0.11 0.10
Matches are distributed among these distances:
56 3 0.01
57 37 0.17
58 22 0.10
59 150 0.69
60 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
ACCAAAAATTACCATTTTACCCTCAGACTTTCCAAAATTCCATTTTTAACCCGATTTC
Found at i:852961 original size:116 final size:117
Alignment explanation
Indices: 852661--852988 Score: 339
Period size: 116 Copynumber: 2.8 Consensus size: 117
852651 CCCCAAAACT
* *
852661 ACCAAAAATTACTATTTTGACCC-CAAAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 ACCAAAAATTACCATTTT-ACCCTC-GAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCACCA
* * * * *
852724 AAAATCACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTTGATTTT
63 AAAATTACCAGTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTC
* * *** *
852779 ACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAAAACCACTAAA
1 ACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCC-GATTTCACCAAA
852844 AATTACC-GTTTACCC-C-AATCTTTCCAAAA-TCCTATTTTTAACCCTAATTTC
65 AATTACCAGTTTACCCTCGAA-CTTTCCAAAATTCC-ATTTTTAACCCTAATTTC
* * * * *
852895 ACCAAAATTTACCATTTTACCCTC-AGACTTTCCAAAATTCAAATTTTGACCTCGATTTTACCAA
1 ACCAAAAATTACCATTTTACCCTCGA-ACTTTCCAAAATTCCATTTTTAACC-CGATTTCACCAA
* * *
852959 AAATTACCATTTTTCCCTCGAGC-TTCCAAA
64 AAATTACCAGTTTACCCTCGAACTTTCCAAA
852989 GGTCCCGTTT
Statistics
Matches: 173, Mismatches: 27, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
115 6 0.03
116 83 0.48
117 31 0.18
118 52 0.30
119 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (117 bp):
ACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCGATTTCACCAAAA
ATTACCAGTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTC
Found at i:862303 original size:2 final size:2
Alignment explanation
Indices: 862296--862333 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
862286 TGAAAACAGA
862296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
862334 TGTTAATCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:866175 original size:18 final size:18
Alignment explanation
Indices: 866144--866178 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
866134 AATTAAGTTC
**
866144 AAAAATTATTATTTTAAA
1 AAAAATTAAAATTTTAAA
866162 AAAAATTAAAATTTTAA
1 AAAAATTAAAATTTTAA
866179 TTTTTTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTAAAATTTTAAA
Found at i:869650 original size:3 final size:3
Alignment explanation
Indices: 869644--869670 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
869634 TTCTTCTTCA
869644 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
869671 AATGGTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:870166 original size:12 final size:11
Alignment explanation
Indices: 870151--870200 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
870141 TGAGAAGCCA
870151 AAGAAGAAAATG
1 AAGAAGAAAA-G
870163 AAGAA-AAAA-
1 AAGAAGAAAAG
870172 AAGAAGAAGAAG
1 AAGAAGAA-AAG
870184 AAGAAGAAAACG
1 AAGAAGAAAA-G
870196 AAGAA
1 AAGAA
870201 AGTGGAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.15
10 2 0.06
11 8 0.24
12 19 0.56
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (11 bp):
AAGAAGAAAAG
Found at i:870178 original size:3 final size:3
Alignment explanation
Indices: 870151--870200 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
870141 TGAGAAGCCA
* *
870151 AAG AAG AA- AATG AAG AAA AAA AAG AAG AAG AAG AAG AAG AA- AACG
1 AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G
870196 AAG AA
1 AAG AA
870201 AGTGGAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 33 0.80
4 4 0.10
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:893912 original size:25 final size:25
Alignment explanation
Indices: 893884--893932 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
893874 TTTCGAAGAA
893884 AGCTCGTTATTTCGAATTAATTGAT
1 AGCTCGTTATTTCGAATTAATTGAT
893909 AGCTCGTTATTTCGAATTAATTGA
1 AGCTCGTTATTTCGAATTAATTGA
893933 GAAAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (25 bp):
AGCTCGTTATTTCGAATTAATTGAT
Found at i:894259 original size:31 final size:30
Alignment explanation
Indices: 894201--894264 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
894191 TACATAATAA
* *
894201 AAAATAATATATACATAAAATACAATAAAAT
1 AAAATAATATACACATAAAATAAAAT-AAAT
* **
894232 AAAATAATATACATATACGATAAAATAAAT
1 AAAATAATATACACATAAAATAAAATAAAT
894262 AAA
1 AAA
894265 GAAAAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (30 bp):
AAAATAATATACACATAAAATAAAATAAAT
Found at i:894325 original size:30 final size:30
Alignment explanation
Indices: 894291--894443 Score: 155
Period size: 30 Copynumber: 5.1 Consensus size: 30
894281 AAACCAGGTT
* * *
894291 AAATTTGAATTTTTGGAAACTTCAAGCGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
* * * *
894321 AAATTAGATTTTTTGAAAAGTTTAGGGGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
* *
894351 AAATTTAAATTTTTGGAAAGTTTAGGGGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
** *
894381 AAATTCAAATTTTTGGAAAGTTTGAGGGAT-
1 AAATTTGAATTTTTGGAAAGTTTAAGGG-TC
* * *
894411 AAATTTGAATTTTTGGAAAATTTGAGAGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
894441 AAA
1 AAA
894444 AAATAATTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
29 1 0.01
30 101 0.98
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
AAATTTGAATTTTTGGAAAGTTTAAGGGTC
Found at i:894384 original size:60 final size:60
Alignment explanation
Indices: 894290--894429 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 60
894280 AAAACCAGGT
* *
894290 TAAATTTGAATTTTTGGAAACTTCAAGCGTCAAATT-AGATTTTTTGAAAAGTTT-AGGGG
1 TAAATTTGAATTTTTGGAAACTTCAAGCGTCAAATTCA-AATTTTTGAAAAGTTTGAGGGA
* * * * * *
894349 TCAAATTTAAATTTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTGGAAAGTTTGAGGGA
1 T-AAATTTGAATTTTTGGAAACTTCAAGCGTCAAATTCAAATTTTTGAAAAGTTTGAGGGA
894410 TAAATTTGAATTTTTGGAAA
1 TAAATTTGAATTTTTGGAAA
894430 ATTTGAGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 62 0.90
61 6 0.09
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (60 bp):
TAAATTTGAATTTTTGGAAACTTCAAGCGTCAAATTCAAATTTTTGAAAAGTTTGAGGGA
Found at i:896146 original size:40 final size:40
Alignment explanation
Indices: 896102--896241 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
896092 ATGGTCTTCA
* *
896102 AAAAGATTTGATGGTCTTCAATATGCCCTCCGATTAGGGT
1 AAAAGATTAGATGGTCTTCAATCTGCCCTCCGATTAGGGT
* *
896142 AAAAGATTAGAT--TACTTTAATCTG-CCT-C-ATGGTCGGGTT
1 AAAAGATTAGATGGT-CTTCAATCTGCCCTCCGAT--TAGGG-T
* * * * *
896181 AAGAGATTGGATGGTCTTTAATCTGCCCTCTGGTTAGGGT
1 AAAAGATTAGATGGTCTTCAATCTGCCCTCCGATTAGGGT
896221 AAAAGATTAGATGGTCTTCAA
1 AAAAGATTAGATGGTCTTCAA
896242 AAAGATCTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
36 2 0.03
37 1 0.01
38 8 0.10
39 19 0.24
40 40 0.51
41 8 0.10
43 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (40 bp):
AAAAGATTAGATGGTCTTCAATCTGCCCTCCGATTAGGGT
Found at i:896246 original size:20 final size:20
Alignment explanation
Indices: 896221--896261 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
896211 TGGTTAGGGT
896221 AAAAGAT-TAGATGGTCTTCA
1 AAAAGATCT-GATGGTCTTCA
896241 AAAAGATCTGATGGTCTTCA
1 AAAAGATCTGATGGTCTTCA
896261 A
1 A
896262 TCTGCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
AAAAGATCTGATGGTCTTCA
Found at i:896253 original size:139 final size:139
Alignment explanation
Indices: 896032--896288 Score: 419
Period size: 139 Copynumber: 1.8 Consensus size: 139
896022 ATTTGCTCCG
*
896032 TGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCCATGGTTAGGGTAAAATATTGTATGGT
1 TGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCCATGGTTAGGGTAAAAGATTGTATGGT
*
896097 CTTCAAAAAGATTTGATGGTCTTCAATATGCCCTCCGATTAGGGTAAAAGATTAGATTACTTTAA
66 CTTCAAAAAGATCTGATGGTCTTCAATATGCCCTCCGATTAGGGTAAAAGATTAGATTACTTTAA
896162 TCTGCCTCA
131 TCTGCCTCA
* * *
896171 TGGTCGGGTTAAGAGATTGGATGGTCTTTAATCTGCCCTC-TGGTTAGGGTAAAAGATTAG-ATG
1 TGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCC-CATGGTTAGGGTAAAAGATT-GTATG
* *
896234 GTCTTCAAAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATT
64 GTCTTCAAAAAGATCTGATGGTCTTCAATATGCCCTCCGATTAGGGTAAAAGATT
896289 GGATGATTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
139 107 0.98
140 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (139 bp):
TGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCCATGGTTAGGGTAAAAGATTGTATGGT
CTTCAAAAAGATCTGATGGTCTTCAATATGCCCTCCGATTAGGGTAAAAGATTAGATTACTTTAA
TCTGCCTCA
Found at i:896456 original size:50 final size:50
Alignment explanation
Indices: 896402--896629 Score: 298
Period size: 50 Copynumber: 4.6 Consensus size: 50
896392 GTTTTTGTGA
* * *
896402 CTTCAATCTTCCCCTCTACAGCTTTAGGTGAATGAGATTCGCCATTGTGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTCGCCATTGCGG
* * *
896452 CTTCATTCTACCCCTCTACAGCTTTAGGTGTATGAGATTTGCCATTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTCGCCATTGCGG
* *
896502 CTTCAATCTGCACCT-TCACAGCTTTAGGGGTATGAGATTCGCCATTGCGG
1 CTTCAATCTGCCCCTCT-ACAGCTTTAGGTGTATGAGATTCGCCATTGCGG
* * * * *
896552 CTTCATTTTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGCCACTACGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTCGCCATTGCGG
*
896602 CTTCAATCTGCACCT-TCACAGCTTTAGG
1 CTTCAATCTGCCCCTCT-ACAGCTTTAGG
896630 GGTAAAATAT
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 2 0.01
50 152 0.98
51 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (50 bp):
CTTCAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTCGCCATTGCGG
Found at i:896544 original size:100 final size:100
Alignment explanation
Indices: 896402--896633 Score: 367
Period size: 100 Copynumber: 2.3 Consensus size: 100
896392 GTTTTTGTGA
* * * * *
896402 CTTCAATCTTC-CCCTCTACAGCTTTAGGTGAATGAGATTCGCCATTGTGGCTTCATTCTACCCC
1 CTTCAATCTGCACCTTC-ACAGCTTTAGGGGTATGAGATTCGCCATTGCGGCTTCATTCTACCCC
* *
896466 TCTACAGCTTTAGGTGTATGAGATTTGCCATTGCGG
65 TCTACAGCTTTAGGTGTATGAGATTTGCCACTACGG
* *
896502 CTTCAATCTGCACCTTCACAGCTTTAGGGGTATGAGATTCGCCATTGCGGCTTCATTTTGCCCCT
1 CTTCAATCTGCACCTTCACAGCTTTAGGGGTATGAGATTCGCCATTGCGGCTTCATTCTACCCCT
896567 CTACAGCTTTAGGTGTATGAGATTTGCCACTACGG
66 CTACAGCTTTAGGTGTATGAGATTTGCCACTACGG
896602 CTTCAATCTGCACCTTCACAGCTTTAGGGGTA
1 CTTCAATCTGCACCTTCACAGCTTTAGGGGTA
896634 AAATATTTGT
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
100 118 0.97
101 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (100 bp):
CTTCAATCTGCACCTTCACAGCTTTAGGGGTATGAGATTCGCCATTGCGGCTTCATTCTACCCCT
CTACAGCTTTAGGTGTATGAGATTTGCCACTACGG
Found at i:907657 original size:152 final size:152
Alignment explanation
Indices: 907487--907770 Score: 460
Period size: 152 Copynumber: 1.9 Consensus size: 152
907477 AGTATTTTGA
* * *
907487 AAACTTTTGAAAAGGATATCCGATTTGCATGAATTACGAAAATTACACTTAACACGTTAAAGCGC
1 AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACAAGTTAAAGCGC
* * * *
907552 GATTCCTCGAAGTTTTCACATGAAAGGATATTGCCTCGTTTTAAAATTATTTGTGATATAGATAT
66 GATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATAT
907617 ATAAAATTGAAGGATGTTTCGG
131 ATAAAATTGAAGGATGTTTCGG
* *
907639 AAACTTTTGAAGAGGATATTCGATTCGCATGAATTACGAAAATCACACTTAACAAGTTAAAGCGC
1 AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACAAGTTAAAGCGC
** *
907704 GATTTTTCGAAGTTTTCACACGACAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATAT
66 GATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATAT
907769 AT
131 AT
907771 GTTTTGAGAA
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 120 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (152 bp):
AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACAAGTTAAAGCGC
GATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATAT
ATAAAATTGAAGGATGTTTCGG
Found at i:908347 original size:59 final size:60
Alignment explanation
Indices: 908284--908411 Score: 181
Period size: 59 Copynumber: 2.2 Consensus size: 60
908274 TTTGACTTTC
* * *
908284 GGGGGTAAAAAT-GTAATTTTTGGTGAAAT-TGAGGTCAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAAATGGTAACTTTGGGTGAAATCAG-GGTCAAAAATGGAATTTTGGAAAGTTT
*
908343 GGGGGT-AAAATGGTAACTTTGGGTGAAATCAGGGTCAAAATTGGAATTTTGGAAAGTTT
1 GGGGGTAAAAATGGTAACTTTGGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTT
*
908402 AGGGGTAAAA
1 GGGGGTAAAA
908412 CGATAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
58 5 0.08
59 52 0.85
60 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.30
Consensus pattern (60 bp):
GGGGGTAAAAATGGTAACTTTGGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTT
Found at i:908352 original size:29 final size:30
Alignment explanation
Indices: 908316--908464 Score: 84
Period size: 30 Copynumber: 5.0 Consensus size: 30
908306 GTGAAATTGA
908316 GGTCAAAAATGGAATTTTGGAAAGTTTGGG
1 GGTCAAAAATGGAATTTTGGAAAGTTTGGG
* **
908346 GGT--AAAATGGTAACTTTGGGTGAAA---TCAG
1 GGTCAAAAATGG-AA-TTT-TG-GAAAGTTTGGG
* *
908375 GGTCAAAATTGGAATTTTGGAAAGTTTAGG
1 GGTCAAAAATGGAATTTTGGAAAGTTTGGG
* *
908405 GGT-AAAACGAT--AATTTT-AAGAAGTTTTGG
1 GGTCAAAA--ATGGAATTTTGGA-AAGTTTGGG
*
908434 GGTCAAAAATGGAATTTT-AAGAAGTTTGGG
1 GGTCAAAAATGGAATTTTGGA-AAGTTTGGG
908464 G
1 G
908465 ACTAGAGAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
27 4 0.04
28 11 0.12
29 31 0.33
30 35 0.38
31 8 0.09
32 4 0.04
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (30 bp):
GGTCAAAAATGGAATTTTGGAAAGTTTGGG
Found at i:908452 original size:30 final size:30
Alignment explanation
Indices: 908374--908464 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 30
908364 GGTGAAATCA
* * *
908374 GGGTCAAAATTGGAATTTT-GGAAAGTTTAG
1 GGGTCAAAAATGGAATTTTAAG-AAGTTTTG
908404 GGGT-AAAACGAT--AATTTTAAGAAGTTTTG
1 GGGTCAAAA--ATGGAATTTTAAGAAGTTTTG
908433 GGGTCAAAAATGGAATTTTAAGAAG-TTTG
1 GGGTCAAAAATGGAATTTTAAGAAGTTTTG
908462 GGG
1 GGG
908465 ACTAGAGAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
28 2 0.04
29 28 0.54
30 21 0.40
31 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (30 bp):
GGGTCAAAAATGGAATTTTAAGAAGTTTTG
Found at i:909500 original size:3 final size:3
Alignment explanation
Indices: 909478--909518 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
909468 GTATTTCTTT
*
909478 TTA TTA ATA TTA GCTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA
909519 AAATATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 31 0.91
5 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:910294 original size:6 final size:6
Alignment explanation
Indices: 910283--910398 Score: 84
Period size: 6 Copynumber: 20.0 Consensus size: 6
910273 TATAATAATT
* * * *
910283 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
910329 GTTTAAT TTTAAA TTTAAA TTTGAAA --TAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
910376 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
910399 AGGGCCCGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
4 3 0.03
5 21 0.24
6 52 0.60
7 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:910327 original size:12 final size:12
Alignment explanation
Indices: 910286--910380 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 12
910276 AATAATTTTT
*
910286 AAATTTAAAAT-
1 AAATTTAAATTC
*
910297 AAATTTAGACTT-
1 AAATTTA-AATTC
910309 AAA-TTAAATTC
1 AAATTTAAATTC
*
910320 AAATTTAAAGTTT
1 AAATTTAAA-TTC
* *
910333 AATTTTAAATTT
1 AAATTTAAATTC
910345 AAATTTGAAATAAATC
1 AAATTT-AAAT---TC
910361 TAAATTTAAA-TC
1 -AAATTTAAATTC
910373 AAATTTAA
1 AAATTTAA
910381 TCTTAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
10 3 0.04
11 21 0.31
12 20 0.29
13 14 0.21
16 4 0.06
17 6 0.09
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (12 bp):
AAATTTAAATTC
Found at i:910327 original size:17 final size:17
Alignment explanation
Indices: 910284--910398 Score: 85
Period size: 17 Copynumber: 6.6 Consensus size: 17
910274 ATAATAATTT
*
910284 TTAAATTTAAA-ATAAA
1 TTAAATTTAAATTTAAA
* *
910300 TTTAGACTTAAA-TTAAA
1 -TTAAATTTAAATTTAAA
*
910317 TTCAAATTTAAAGTTTAATT
1 TT-AAATTTAAA-TTTAA-A
910337 TTAAATTTAAATTTGAAA
1 TTAAATTTAAATTT-AAA
*
910355 -TAAATCTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
910371 TCAAATTT-AATCTTAAA
1 TTAAATTTAAAT-TTAAA
*
910388 ATAAATTTAAA
1 TTAAATTTAAA
910399 AGGGCCCGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 15
0.74 0.11 0.14
Matches are distributed among these distances:
16 8 0.10
17 48 0.62
18 5 0.06
19 15 0.19
20 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:911064 original size:31 final size:30
Alignment explanation
Indices: 911006--911069 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
910996 TACATAATAA
* *
911006 AAAATAATATATACATAAAATACAATAAAAT
1 AAAATAATATACACATAAAATAAAAT-AAAT
* **
911037 AAAATAATATACATATAGGATAAAATAAAT
1 AAAATAATATACACATAAAATAAAATAAAT
911067 AAA
1 AAA
911070 GAAAAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAATAATATACACATAAAATAAAATAAAT
Done.