Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 155 of 193
Found at i:48025540 original size:6 final size:6
Alignment explanation
Indices: 48025515--48025553 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
48025505 ACAATTCATA
* * *
48025515 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
48025554 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:48041285 original size:3 final size:3
Alignment explanation
Indices: 48041277--48041308 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48041267 CCATGCCCAT
48041277 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
48041309 CGCCATGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.34, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:48046807 original size:24 final size:26
Alignment explanation
Indices: 48046773--48046837 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 26
48046763 CAACATTATT
48046773 TAGAATATTTTAATCCTTTAAAT-TA
1 TAGAATATTTTAATCCTTTAAATATA
* **
48046798 TAGAA-ATTTTACTTTTTTAAATATA
1 TAGAATATTTTAATCCTTTAAATATA
48046823 TAGAATTATTTTAAT
1 TAGAA-TATTTTAAT
48046838 ATAAAGTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 14 0.42
25 12 0.36
27 7 0.21
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (26 bp):
TAGAATATTTTAATCCTTTAAATATA
Found at i:48054809 original size:52 final size:52
Alignment explanation
Indices: 48054705--48054810 Score: 128
Period size: 52 Copynumber: 2.0 Consensus size: 52
48054695 TGATAGAGAA
* *
48054705 AAAATACTTCACATAGGACGCGTTTTCAGTGATATGTCAGAAAATTTAACTG
1 AAAATACTTCACATAGGACGCGTTTTCAGTGATATGTCAGAAAAATGAACTG
* *
48054757 AAAATACGTTCA-ATTGGACGCGTTTTCAGTGGA-ATGT-ATGAAAAATGCACTG
1 AAAATAC-TTCACATAGGACGCGTTTTCAGT-GATATGTCA-GAAAAATGAACTG
48054809 AA
1 AA
48054811 TGTGCGTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 1 0.02
52 40 0.85
53 6 0.13
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (52 bp):
AAAATACTTCACATAGGACGCGTTTTCAGTGATATGTCAGAAAAATGAACTG
Found at i:48064562 original size:42 final size:42
Alignment explanation
Indices: 48064496--48064575 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
48064486 CAATAAGGGC
*
48064496 ACAAACGAGGCGGATTACTACCATGAATAGTATTTGGCTGAG
1 ACAAACGAGGCGGACTACTACCATGAATAGTATTTGGCTGAG
* *
48064538 ACAAACGAGGCGGGCTACTGCCATGAATAGTATTTGGC
1 ACAAACGAGGCGGACTACTACCATGAATAGTATTTGGC
48064576 AAGTTGGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (42 bp):
ACAAACGAGGCGGACTACTACCATGAATAGTATTTGGCTGAG
Found at i:48065834 original size:6 final size:6
Alignment explanation
Indices: 48065815--48065859 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
48065805 ACAATTCATA
*
48065815 TCACTT TCAATT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
48065860 ATTTTGATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:48070529 original size:2 final size:2
Alignment explanation
Indices: 48070520--48070561 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
48070510 AAAATAAAAA
48070520 AT AT -T 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 AT AT
48070561 A
1 A
48070562 AATTACTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48077598 original size:2 final size:2
Alignment explanation
Indices: 48077586--48077636 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
48077576 TGAGGATTGA
48077586 AT AT GAT 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 AT AT
48077629 AT AT AT AT
1 AT AT AT AT
48077637 TAGATACGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48078601 original size:25 final size:27
Alignment explanation
Indices: 48078573--48078638 Score: 91
Period size: 25 Copynumber: 2.5 Consensus size: 27
48078563 GGGAGGTTTT
48078573 AAGTCTATTTAAAATTAAA-ATA-TTA
1 AAGTCTATTTAAAATTAAATATATTTA
* * *
48078598 AAGTTTATTTAAAATTAAATTTATTTT
1 AAGTCTATTTAAAATTAAATATATTTA
48078625 AAGTCTATTTAAAA
1 AAGTCTATTTAAAA
48078639 AAATTTCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 18 0.51
26 2 0.06
27 15 0.43
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (27 bp):
AAGTCTATTTAAAATTAAATATATTTA
Found at i:48078653 original size:27 final size:26
Alignment explanation
Indices: 48078571--48078653 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 26
48078561 TTGGGAGGTT
48078571 TTAAGTCTATTTAAAATTAAA---ATA
1 TTAAGTCTATTTAAAA-TAAATTTATA
* *
48078595 TTAAAGTTTATTTAAAATTAAATTTATT
1 TT-AAGTCTATTTAAAA-TAAATTTATA
48078623 TTAAGTCTATTTAAAA-AAATTTCATGA
1 TTAAGTCTATTTAAAATAAATTT-AT-A
48078650 TTAA
1 TTAA
48078654 ATCGATTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.04
25 24 0.49
26 2 0.04
27 17 0.35
28 4 0.08
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (26 bp):
TTAAGTCTATTTAAAATAAATTTATA
Found at i:48084727 original size:51 final size:52
Alignment explanation
Indices: 48084661--48084797 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 52
48084651 ACTATAAATG
* **
48084661 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCC-ATGATGGTTT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATGAATTCCTAT-ACGGAAT
* * *
48084713 AAAGGTCCGATGACTCAGTGTTATCGTGAGTATATGAATTCCTATACGGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATTCCTATACGGAAT
*
48084765 AAGAGGTCCGATGATTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
48084798 TTAAATGAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
51 30 0.42
52 14 0.19
53 27 0.38
54 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (52 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATTCCTATACGGAAT
Found at i:48084792 original size:53 final size:50
Alignment explanation
Indices: 48084661--48084798 Score: 134
Period size: 53 Copynumber: 2.6 Consensus size: 50
48084651 ACTATAAATG
* * * **
48084661 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGTTT
1 AAAGG-TCCGATGATTAA-TGTCATCGTGAGTATATGAATCCATGACGGAAT
* * *
48084713 AAAGGTCCGATGACTCAGTGTTATCGTGAGTATATGAATTCCTAT-ACGGAAT
1 AAAGGTCCGATGA-TTAATGTCATCGTGAGTATATGAA-TCC-ATGACGGAAT
48084765 AAGAGGTCCGATGATTATATGTCATCGTGAGTAT
1 AA-AGGTCCGATGATTA-ATGTCATCGTGAGTAT
48084799 TAAATGAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
51 26 0.37
52 17 0.24
53 27 0.39
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (50 bp):
AAAGGTCCGATGATTAATGTCATCGTGAGTATATGAATCCATGACGGAAT
Found at i:48085531 original size:21 final size:21
Alignment explanation
Indices: 48085507--48085559 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
48085497 TAGATGCATG
48085507 ACTTGTATCGGAAGAGATTTC
1 ACTTGTATCGGAAGAGATTTC
48085528 ACTTGTATCGGAAGAGATTTC
1 ACTTGTATCGGAAGAGATTTC
48085549 ACTTGTATCGG
1 ACTTGTATCGG
48085560 TAGAACTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (21 bp):
ACTTGTATCGGAAGAGATTTC
Found at i:48086554 original size:21 final size:21
Alignment explanation
Indices: 48086529--48086569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48086519 AATATTTTAC
*
48086529 ATTTTTACCC-CAAACCTTTTT
1 ATTTTT-CCCTCAAAACTTTTT
48086550 ATTTTTCCCTCAAAACTTTT
1 ATTTTTCCCTCAAAACTTTT
48086570 ACTCCTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTTCCCTCAAAACTTTTT
Found at i:48086748 original size:19 final size:20
Alignment explanation
Indices: 48086704--48086743 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
48086694 TTCCCCAAAA
48086704 CCCTCAAAACTCTTTATTTT
1 CCCTCAAAACTCTTTATTTT
48086724 CCCTCAAAACT-TTTACTTTT
1 CCCTCAAAACTCTTTA-TTTT
48086744 TCTCACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
CCCTCAAAACTCTTTATTTT
Found at i:48088882 original size:13 final size:13
Alignment explanation
Indices: 48088864--48088896 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
48088854 TTTAAGCTAT
*
48088864 ATTTATTCTTTCA
1 ATTTATTCTTCCA
48088877 ATTTATTCTTCCA
1 ATTTATTCTTCCA
48088890 ATTTATT
1 ATTTATT
48088897 AGTGCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTATTCTTCCA
Found at i:48090702 original size:17 final size:18
Alignment explanation
Indices: 48090668--48090703 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48090658 TTTAAAATAT
*
48090668 AAAATTAAAAAATATTTA
1 AAAAATAAAAAATATTTA
48090686 AAAAATAAAAAAT-TTTA
1 AAAAATAAAAAATATTTA
48090703 A
1 A
48090704 TATGAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATAAAAAATATTTA
Found at i:48091515 original size:126 final size:126
Alignment explanation
Indices: 48091290--48091673 Score: 750
Period size: 126 Copynumber: 3.0 Consensus size: 126
48091280 TCTCCTAGAA
* *
48091290 TGAATAACATCATTTTTACCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
1 TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
48091355 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
66 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
48091416 TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
1 TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
48091481 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
66 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
48091542 TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
1 TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
48091607 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
66 GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
48091668 TGAATA
1 TGAATA
48091674 GATCTCAACA
Statistics
Matches: 256, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 256 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (126 bp):
TGAATAACATCCTTTTTATCACTGAAGCCACTCATTGAGTTCGATTTCAATCTTTTTAGTTGTTA
GATTTCATTACATATGTATGAATGATAATGGACGTTAAAGATCATACTCAAACCTATGACT
Found at i:48092623 original size:7 final size:7
Alignment explanation
Indices: 48092606--48092650 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
48092596 GAGGTGGCAA
48092606 GGAAG-G
1 GGAAGAG
48092612 GGAAGAG
1 GGAAGAG
48092619 GGAAGAG
1 GGAAGAG
48092626 GGAAGAG
1 GGAAGAG
48092633 GGAAGAG
1 GGAAGAG
48092640 GGAAG-G
1 GGAAGAG
48092646 GGAAG
1 GGAAG
48092651 TTTGCTGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (7 bp):
GGAAGAG
Found at i:48103379 original size:18 final size:18
Alignment explanation
Indices: 48103356--48103404 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
48103346 TATGATGATA
48103356 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
48103374 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
48103396 TATATGTGA
1 TATATGTGA
48103405 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:48103389 original size:22 final size:22
Alignment explanation
Indices: 48103364--48103409 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
48103354 TATATATGTG
48103364 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
48103386 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
48103408 AT
1 AT
48103410 TATATGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:48105755 original size:31 final size:30
Alignment explanation
Indices: 48105596--48105951 Score: 359
Period size: 30 Copynumber: 11.8 Consensus size: 30
48105586 GAGGTCCCTG
* * *
48105596 AACTT-TCCAAAAATCATATTTTAACCCTCA
1 AACTTCTCC-AAAATTACATTTTAACCCTTA
* *
48105626 AACTT-TCCAAAAATTACATTTTGACCCCTA
1 AACTTCTCC-AAAATTACATTTTAACCCTTA
* *
48105656 AACTTCTCAAAAAAATTATATTTTAACCCTTA
1 AACTTCTC--CAAAATTACATTTTAACCCTTA
* ** *
48105688 AACTTCTCCGAAATCCCATTTTGACCCTTA
1 AACTTCTCCAAAATTACATTTTAACCCTTA
*
48105718 AACTTCTCCAAAATTACATTTTGACCCTTAA
1 AACTTCTCCAAAATTACATTTTAACCCTT-A
* *
48105749 AACTTCTCTAAAATTACATTTAAACCCTTAA
1 AACTTCTCCAAAATTACATTTTAACCCTT-A
48105780 AACTTCTCCAAAATTACATTTTAACCCTTA
1 AACTTCTCCAAAATTACATTTTAACCCTTA
* *
48105810 AACTT-TCCTAAAATCACATTTTAACCCTAA
1 AACTTCTCC-AAAATTACATTTTAACCCTTA
** * *
48105840 AACTTCTTTAAAATTACACTTTGACCC-TA
1 AACTTCTCCAAAATTACATTTTAACCCTTA
* *
48105869 AACTT-TCCCAAAATCACATTTTAACCC-CA
1 AACTTCT-CCAAAATTACATTTTAACCCTTA
*
48105898 AACTT-TCCCAAAATCACATTTTAACCC-TA
1 AACTTCT-CCAAAATTACATTTTAACCCTTA
*
48105927 AACTTTTCCAAAATTACATTTTAAC
1 AACTTCTCCAAAATTACATTTTAAC
48105952 TTCGAATTCT
Statistics
Matches: 279, Mismatches: 39, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.00
29 75 0.27
30 118 0.42
31 59 0.21
32 26 0.09
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (30 bp):
AACTTCTCCAAAATTACATTTTAACCCTTA
Found at i:48116441 original size:29 final size:28
Alignment explanation
Indices: 48116409--48116477 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
48116399 TTAAAATGAC
48116409 TATAAAAATTTTCAATAAATAAAAAAATA
1 TATAAAAATTTTCAA-AAATAAAAAAATA
* *
48116438 TAT-AAAATTATT-AAATATTAAAAAATA
1 TATAAAAATT-TTCAAAAATAAAAAAATA
*
48116465 TATAAATATTTTC
1 TATAAAAATTTTC
48116478 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 16 0.47
28 13 0.38
29 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
TATAAAAATTTTCAAAAATAAAAAAATA
Found at i:48120567 original size:14 final size:14
Alignment explanation
Indices: 48120526--48120560 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48120516 TGCGAACCTG
*
48120526 TGTGCAAACCCTTT
1 TGTGCAAACCCCTT
48120540 TGTGCAAACCCCTT
1 TGTGCAAACCCCTT
48120554 TGTGCAA
1 TGTGCAA
48120561 GCTCCTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (14 bp):
TGTGCAAACCCCTT
Found at i:48120835 original size:17 final size:17
Alignment explanation
Indices: 48120809--48120859 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
48120799 AGTCTGTATG
*
48120809 TATGTGAACCCTAGGAT
1 TATGCGAACCCTAGGAT
* *
48120826 TATGCTAA-CCTA-TA-
1 TATGCGAACCCTAGGAT
48120840 TATGCGAACCCTAGGAT
1 TATGCGAACCCTAGGAT
48120857 TAT
1 TAT
48120860 ATGAGCCTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 5 0.19
17 9 0.35
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (17 bp):
TATGCGAACCCTAGGAT
Found at i:48120939 original size:33 final size:32
Alignment explanation
Indices: 48120793--48120938 Score: 116
Period size: 33 Copynumber: 4.5 Consensus size: 32
48120783 ATAGTTATAT
* *
48120793 TATGCGAGTCTGTATGTATGTGAACCCTAGGAT
1 TATGCGAGCCTGTATG-ATGTGAACCCTAGGAA
* * * * *
48120826 TATGCTAACCTATAT-ATGCGAACCCTAGGAT
1 TATGCGAGCCTGTATGATGTGAACCCTAGGAA
** *
48120857 TATATGAGCCTGTATG-TGTGCAAACCCTAGTAA
1 TATGCGAGCCTGTATGATGTG--AACCCTAGGAA
* * *
48120890 TACGCTAGCTTGTATGCATGTGAACCCTAGGAA
1 TATGCGAGCCTGTATG-ATGTGAACCCTAGGAA
*
48120923 TATGCGAGCCTATATG
1 TATGCGAGCCTGTATG
48120939 CGAACCTTAG
Statistics
Matches: 85, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
31 28 0.33
33 53 0.62
35 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (32 bp):
TATGCGAGCCTGTATGATGTGAACCCTAGGAA
Found at i:48121213 original size:23 final size:23
Alignment explanation
Indices: 48121186--48121234 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
48121176 ACATGCTTAG
*
48121186 TATATGTGCACATTTACATGAGA
1 TATATGTGCACATTTACATGAAA
*
48121209 TATATGTGCATATTTACATGAAA
1 TATATGTGCACATTTACATGAAA
48121232 TAT
1 TAT
48121235 TGATTGTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (23 bp):
TATATGTGCACATTTACATGAAA
Found at i:48124794 original size:138 final size:138
Alignment explanation
Indices: 48124628--48124908 Score: 544
Period size: 138 Copynumber: 2.0 Consensus size: 138
48124618 TATGGGTAAA
* *
48124628 TTTTTGTTTCGATCATTTAATTAAGAAAAGTTACAATTTGGTCACTGAATTGTTAAAATCGATGT
1 TTTTTGTTTCGATCATTTAATTAAGAAAAATTACAATTTGGACACTGAATTGTTAAAATCGATGT
48124693 TATATGACTTTTATTGTTCGCACCATATATACCAATCAAAAGCTCCCTTTCCTTTTTTCTTCTAT
66 TATATGACTTTTATTGTTCGCACCATATATACCAATCAAAAGCTCCCTTTCCTTTTTTCTTCTAT
48124758 AGTTCATT
131 AGTTCATT
48124766 TTTTTGTTTCGATCATTTAATTAAGAAAAATTACAATTTGGACACTGAATTGTTAAAATCGATGT
1 TTTTTGTTTCGATCATTTAATTAAGAAAAATTACAATTTGGACACTGAATTGTTAAAATCGATGT
48124831 TATATGACTTTTATTGTTCGCACCATATATACCAATCAAAAGCTCCCTTTCCTTTTTTCTTCTAT
66 TATATGACTTTTATTGTTCGCACCATATATACCAATCAAAAGCTCCCTTTCCTTTTTTCTTCTAT
48124896 AGTTCATT
131 AGTTCATT
48124904 TTTTT
1 TTTTT
48124909 TTCCATGAAA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.45
Consensus pattern (138 bp):
TTTTTGTTTCGATCATTTAATTAAGAAAAATTACAATTTGGACACTGAATTGTTAAAATCGATGT
TATATGACTTTTATTGTTCGCACCATATATACCAATCAAAAGCTCCCTTTCCTTTTTTCTTCTAT
AGTTCATT
Found at i:48127623 original size:48 final size:46
Alignment explanation
Indices: 48127560--48127657 Score: 133
Period size: 48 Copynumber: 2.1 Consensus size: 46
48127550 AAAAAAGAGT
* * *
48127560 AAAACTACGTTGTTTTAATAAATGTTTACTTTTTTAAAGTTAAAAAGC
1 AAAACTACGTCGTTTTAATAAATGTTTAC-CTATT-AAGTTAAAAAGC
* *
48127608 AAAACTACGTCGTTTTGATAAATGTTTACCTATTAAGTTAAAAAGT
1 AAAACTACGTCGTTTTAATAAATGTTTACCTATTAAGTTAAAAAGC
48127654 AAAA
1 AAAA
48127658 TCATTATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 15 0.33
47 3 0.07
48 27 0.60
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (46 bp):
AAAACTACGTCGTTTTAATAAATGTTTACCTATTAAGTTAAAAAGC
Found at i:48134908 original size:18 final size:18
Alignment explanation
Indices: 48134885--48134944 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 18
48134875 AGCCATTTTA
48134885 TTATTATTTATTTTTATT
1 TTATTATTTATTTTTATT
48134903 TTATTATTTGCATTTTTTATT
1 TTATTATTT--A-TTTTTATT
* * *
48134924 TAATTTTTCTATTTTAATT
1 TTATTATT-TATTTTTATT
48134943 TT
1 TT
48134945 TTTCCCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 9 0.26
19 8 0.24
20 2 0.06
21 14 0.41
22 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTATTTATTTTTATT
Found at i:48134948 original size:16 final size:17
Alignment explanation
Indices: 48134927--48134964 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
48134917 TTTTATTTAA
*
48134927 TTTTTCTATTTTAATT-
1 TTTTTCCATTTTAATTG
*
48134943 TTTTTCCCTTTTAATTG
1 TTTTTCCATTTTAATTG
48134960 TTTTT
1 TTTTT
48134965 GGCAGGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTCCATTTTAATTG
Found at i:48137745 original size:23 final size:22
Alignment explanation
Indices: 48137713--48137759 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
48137703 GCAACCCGAG
* * *
48137713 TATTTTTTTTATTTTTATTTATT
1 TATTTATTTTACTTTCATTT-TT
48137736 TATTTATTTTACTTTCATTTTT
1 TATTTATTTTACTTTCATTTTT
48137758 TA
1 TA
48137760 AAAAAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (22 bp):
TATTTATTTTACTTTCATTTTT
Found at i:48137759 original size:18 final size:17
Alignment explanation
Indices: 48137717--48137759 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
48137707 CCCGAGTATT
48137717 TTTTTTATTTTTATTTA
1 TTTTTTATTTTTATTTA
48137734 TTTATTTA-TTTTACTTTCA
1 TTT-TTTATTTTTA-TTT-A
48137753 TTTTTTA
1 TTTTTTA
48137760 AAAAAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTTTATTTA
Found at i:48137773 original size:11 final size:11
Alignment explanation
Indices: 48137759--48137807 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
48137749 TTCATTTTTT
48137759 AAAAAAAATTG
1 AAAAAAAATTG
*
48137770 AAAAAAAAAT-
1 AAAAAAAATTG
48137780 AAAAAAAAGTTTG
1 AAAAAAAA--TTG
48137793 AAAAAAAATTG
1 AAAAAAAATTG
48137804 AAAA
1 AAAA
48137808 GTTCAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 8 0.24
11 16 0.48
12 1 0.03
13 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:48137801 original size:22 final size:21
Alignment explanation
Indices: 48137758--48137800 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
48137748 TTTCATTTTT
48137758 TAAAAAAAATTGAAAAAAAAA
1 TAAAAAAAATTGAAAAAAAAA
48137779 TAAAAAAAAGTTTGAAAAAAAA
1 TAAAAAAAA--TTGAAAAAAAA
48137801 TTGAAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (21 bp):
TAAAAAAAATTGAAAAAAAAA
Found at i:48137854 original size:7 final size:6
Alignment explanation
Indices: 48137837--48137882 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
48137827 TATTTATTTC
* *
48137837 ATTTTT ATTTTT AGTTTT A-TTTT A-TTTT ATTTTT AATTTT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
48137882 A
1 A
48137883 ATTATGCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:48137859 original size:17 final size:18
Alignment explanation
Indices: 48137839--48137882 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
48137829 TTTATTTCAT
48137839 TTTTATTTTTAGTTTT-A
1 TTTTATTTTTAGTTTTAA
*
48137856 TTTTA-TTTTATTTTTAA
1 TTTTATTTTTAGTTTTAA
48137873 TTTT-TTTTTA
1 TTTTATTTTTA
48137883 ATTATGCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTAGTTTTAA
Found at i:48137863 original size:28 final size:27
Alignment explanation
Indices: 48137821--48137877 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
48137811 CAAAAAGAAA
48137821 TTAGTTTATTTATTTCATTTTT-ATTT
1 TTAGTTTATTTATTTCATTTTTAATTT
*
48137847 TTAGTTTTATTTTATTTTATTTTTAATTT
1 TTAG-TTTA-TTTATTTCATTTTTAATTT
48137876 TT
1 TT
48137878 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 13 0.48
29 6 0.22
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (27 bp):
TTAGTTTATTTATTTCATTTTTAATTT
Found at i:48137883 original size:11 final size:12
Alignment explanation
Indices: 48137839--48137885 Score: 64
Period size: 11 Copynumber: 4.2 Consensus size: 12
48137829 TTTATTTCAT
*
48137839 TTTTATTTTTAG
1 TTTTATTTTTAA
48137851 TTTTA-TTTT-A
1 TTTTATTTTTAA
48137861 TTTTATTTTTAA
1 TTTTATTTTTAA
48137873 TTTT-TTTTTAA
1 TTTTATTTTTAA
48137884 TT
1 TT
48137886 ATGCACTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 10 0.31
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:48151262 original size:12 final size:13
Alignment explanation
Indices: 48151239--48151274 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
48151229 CGGCCCGTCC
48151239 ATATTAATTTTTT
1 ATATTAATTTTTT
48151252 ATATT-ATTTTTT
1 ATATTAATTTTTT
*
48151264 ATATAAATTTT
1 ATATTAATTTT
48151275 AAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:48151454 original size:30 final size:30
Alignment explanation
Indices: 48151418--48151482 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
48151408 GCAACTTACA
*
48151418 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
48151448 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
48151478 AACAA
1 AACAA
48151483 TACAATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:48152987 original size:7 final size:7
Alignment explanation
Indices: 48152975--48153004 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
48152965 TCTTTAAGTC
48152975 TTTTGTT
1 TTTTGTT
48152982 TTTTGTT
1 TTTTGTT
48152989 TTTTGTT
1 TTTTGTT
48152996 TTTTGTT
1 TTTTGTT
48153003 TT
1 TT
48153005 GTCATGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:48159863 original size:28 final size:31
Alignment explanation
Indices: 48159832--48159900 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
48159822 ATTTTTTATG
48159832 TATCATTATAAT-AA-T-TTT-AAAATAAATT
1 TATCATTATAATAAATTATTTAAAAAT-AATT
*
48159860 TATCATTATATTAAATTATTTAAAAATAATT
1 TATCATTATAATAAATTATTTAAAAATAATT
*
48159891 TATTATTATA
1 TATCATTATA
48159901 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 11 0.31
29 2 0.06
30 1 0.03
31 16 0.46
32 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
TATCATTATAATAAATTATTTAAAAATAATT
Found at i:48161009 original size:2 final size:2
Alignment explanation
Indices: 48161002--48161027 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48160992 AACCAAATAC
48161002 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
48161028 TTAATTTCAT
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:48167777 original size:100 final size:100
Alignment explanation
Indices: 48167463--48167946 Score: 647
Period size: 100 Copynumber: 4.9 Consensus size: 100
48167453 GGTTTCAGCA
* ** *
48167463 TCAGAAGCATTGAAGGGAAAGATCTAAGACCGTAATGGCAGATCCAATACCGCCAAAACACAAAA
1 TCAGAAGCA-TGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACAAAA
* * *
48167528 GGGAAAGGTCTAAGTCACAACGGTGGACCGTGTACC
65 GGGAAAGGTCTAAGTCGCAACGGCGGACCATGTACC
* * **
48167564 TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGA-CTCAGTACTG--AAAAAACGCAA
1 TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGATC-CAGTACCGCCAAAACACAAAA
*
48167626 --GAAAGGTCTAAGTCGCAACGACGGACCATGTACC
65 GGGAAAGGTCTAAGTCGCAACGGCGGACCATGTACC
* *
48167660 TCAGAAACATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACGAAAG
1 TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACAAAAG
*
48167725 GGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACC
66 GGAAAGGTCTAAGTCGCAACGGCGGACCATGTACC
* * * * * *
48167760 TCAGAAGCATAAAGGGAAAGATCTAATATCGCAATGGCAGATTCAGTACCGCAAAAACAAAAAAG
1 TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACAAAAG
* *
48167825 GGAAAGGTCTAAGTCGCAATGTCGGACCATGTACC
66 GGAAAGGTCTAAGTCGCAACGGCGGACCATGTACC
* * *
48167860 TCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACC-ACAAAGATACAAAA
1 TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAA-ACAC-AAA
*
48167924 AGGGAAAGGTTTAAGTCGCAACG
64 AGGGAAAGGTCTAAGTCGCAACG
48167947 ACGAACCCGA
Statistics
Matches: 335, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
96 77 0.23
97 1 0.00
98 17 0.05
99 4 0.01
100 203 0.61
101 33 0.10
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (100 bp):
TCAGAAGCATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACAAAAG
GGAAAGGTCTAAGTCGCAACGGCGGACCATGTACC
Found at i:48167792 original size:50 final size:48
Alignment explanation
Indices: 48167525--48167885 Score: 212
Period size: 50 Copynumber: 7.3 Consensus size: 48
48167515 CCAAAACACA
* * * * * *
48167525 AAAGGGAAAGGTCTAAGTCACAACGGTGGACCGTGTACCTCAGAAGCAT
1 AAAGGGAAAGATCTAAATCGCAATGGCGGACC-TGTACCTCAGAAACAT
* * * *
48167574 GAAGGGAAAGATCTAAGATCACAATGGCAGACTCAGTA-CT--GAAA-A-
1 AAAGGGAAAGATCTAA-ATCGCAATGGCGGAC-CTGTACCTCAGAAACAT
* * * * * *
48167619 AACGCAAGAAAGGTCTAAGTCGCAACGACGGACCATGTACCTCAGAAACAT
1 AAAG--GGAAAGATCTAAATCGCAATGGCGGACC-TGTACCTCAGAAACAT
* * * * * *
48167670 GAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCA-AAACACG
1 AAAGGGAAAGATCTAA-ATCGCAATGGCGGA-CCTGTACC-TCAGAAACA-T
* * * *
48167721 AAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCAT
1 AAAGGGAAAGATCTAAATCGCAATGGCGGACC-TGTACCTCAGAAACAT
* * * * * *
48167770 AAAGGGAAAGATCTAATATCGCAATGGCAGATTCAGTACCGCAAAAACAAA
1 AAAGGGAAAGATCTAA-ATCGCAATGGCGGA-CCTGTACCTCAGAAAC-AT
* * * *
48167821 AAAGGGAAAGGTCTAAGTCGCAATGTCGGACCATGTACCTCAGAAGCAT
1 AAAGGGAAAGATCTAAATCGCAATGGCGGACC-TGTACCTCAGAAACAT
*
48167870 GAAGGGAAAGATCTAA
1 AAAGGGAAAGATCTAA
48167886 GACCACAATG
Statistics
Matches: 230, Mismatches: 62, Indels: 40
0.69 0.19 0.12
Matches are distributed among these distances:
45 3 0.01
46 14 0.06
47 15 0.07
49 65 0.28
50 95 0.41
51 38 0.17
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (48 bp):
AAAGGGAAAGATCTAAATCGCAATGGCGGACCTGTACCTCAGAAACAT
Found at i:48167808 original size:196 final size:199
Alignment explanation
Indices: 48167463--48167946 Score: 715
Period size: 196 Copynumber: 2.4 Consensus size: 199
48167453 GGTTTCAGCA
** *
48167463 TCAGAAGCATTGAAGGGAAAGATCTAAGACCGTAATGGCAGATCCAATACCGCCAAAACACAAAA
1 TCAGAAGCA-TGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCGCCAAAACACAAAA
* * *
48167528 GGGAAAGGTCTAAGTCACAACGGTGGACCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAAGAT
65 GGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATAAAGGGAAAGATCTAAGAT
* ***
48167593 CACAATGGCAGACTCAGTACTG-AAAAA-ACGCAA-GAAAGGTCTAAGTCGCAACGACGGACCAT
130 CACAATGGCAGACTCAGTACCGCAAAAACAAAAAAGGAAAGGTCTAAGTCGCAACGACGGACCAT
48167655 GTACC
195 GTACC
* * *
48167660 TCAGAAACATGAAGGGAAAGATCTAAGATCACAATGGCAGATCCAGTACCGCCAAAACACGAAAG
1 TCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCGCCAAAACACAAAAG
*
48167725 GGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATAAAGGGAAAGATCTAATATC
66 GGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATAAAGGGAAAGATCTAAGATC
* * * *
48167790 GCAATGGCAGATTCAGTACCGCAAAAACAAAAAAGGGAAAGGTCTAAGTCGCAATGTCGGACCAT
131 ACAATGGCAGACTCAGTACCGCAAAAACAAAAAA-GGAAAGGTCTAAGTCGCAACGACGGACCAT
48167855 GTACC
195 GTACC
* *
48167860 TCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACC-ACAAAGATACAAAA
1 TCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCGCCAAA-ACAC-AAA
*
48167924 AGGGAAAGGTTTAAGTCGCAACG
64 AGGGAAAGGTCTAAGTCGCAACG
48167947 ACGAACCCGA
Statistics
Matches: 257, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
196 130 0.51
197 13 0.05
198 3 0.01
199 4 0.02
200 83 0.32
201 24 0.09
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (199 bp):
TCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCGCCAAAACACAAAAG
GGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATAAAGGGAAAGATCTAAGATC
ACAATGGCAGACTCAGTACCGCAAAAACAAAAAAGGAAAGGTCTAAGTCGCAACGACGGACCATG
TACC
Found at i:48168383 original size:15 final size:15
Alignment explanation
Indices: 48168363--48168394 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48168353 ATTAAATTTA
48168363 TATTAAATCTAAATT
1 TATTAAATCTAAATT
*
48168378 TATTAAATTTAAATT
1 TATTAAATCTAAATT
48168393 TA
1 TA
48168395 ATTTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAAATCTAAATT
Found at i:48168389 original size:6 final size:6
Alignment explanation
Indices: 48168336--48168445 Score: 62
Period size: 6 Copynumber: 19.8 Consensus size: 6
48168326 ACCAAACCAT
* * *
48168336 TTTAAA TTT--A TTTCAAA ATTAAA TTTATA -TTAAA TCTAAA TTT--A
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
48168380 -TTAAA TTTAAA TTT-AA TTTAAT TTTAGA TTT-AA TATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
48168425 GTT--A TTATAAA TTT-AA TTTAA
1 TTTAAA TT-TAAA TTTAAA TTTAA
48168446 TAAGTGTCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
3 2 0.03
4 7 0.09
5 19 0.25
6 43 0.56
7 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:48168399 original size:11 final size:11
Alignment explanation
Indices: 48168354--48168445 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 11
48168344 TATTTCAAAA
48168354 TTAAATTT-AT
1 TTAAATTTAAT
*
48168364 ATTAAATCTAAAT
1 -TTAAAT-TTAAT
*
48168377 TT--ATTAAAT
1 TTAAATTTAAT
48168386 TTAAATTTAAT
1 TTAAATTTAAT
*
48168397 TTAATTTTAGAT
1 TTAAATTTA-AT
*
48168409 TT-AATATAAAT
1 TTAAAT-TTAAT
*
48168420 TTAAAGTT-AT
1 TTAAATTTAAT
48168430 TATAAATTTAAT
1 T-TAAATTTAAT
48168442 TTAA
1 TTAA
48168446 TAAGTGTCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
9 7 0.11
10 5 0.08
11 36 0.56
12 14 0.22
13 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:48168405 original size:17 final size:16
Alignment explanation
Indices: 48168336--48168444 Score: 105
Period size: 17 Copynumber: 6.6 Consensus size: 16
48168326 ACCAAACCAT
48168336 TTTAAATTTATTTCAAA
1 TTTAAATTTATTT-AAA
*
48168353 ATTAAATTTATATTAAA
1 TTTAAATTTAT-TTAAA
*
48168370 TCTAAATTTA-TTAAA
1 TTTAAATTTATTTAAA
*
48168385 TTTAAATTTAATTTAAT
1 TTTAAATTT-ATTTAAA
* *
48168402 TTTAGATTTAATATAAA
1 TTTAAATTT-ATTTAAA
*
48168419 TTTAAAGTTATTATAAA
1 TTTAAATTTATT-TAAA
48168436 TTT-AATTTA
1 TTTAAATTTA
48168445 ATAAGTGTCC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
15 13 0.17
16 8 0.11
17 53 0.70
18 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:48168878 original size:30 final size:31
Alignment explanation
Indices: 48168835--48168894 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
48168825 TTGAAAAGAT
*
48168835 CAATACAAACTCTTTT-TGA-AATCAATACC
1 CAATACAAACTCTTTTCTAAGAATCAATACC
*
48168864 CAATCACAACCTCTTTTCTAAGAATCAATAC
1 CAAT-ACAAACTCTTTTCTAAGAATCAATAC
48168895 AAAAGCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 11 0.42
31 2 0.08
32 9 0.35
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (31 bp):
CAATACAAACTCTTTTCTAAGAATCAATACC
Found at i:48169250 original size:13 final size:13
Alignment explanation
Indices: 48169232--48169267 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
48169222 AATAAGAGGC
48169232 AATAAATAATTTT
1 AATAAATAATTTT
48169245 AATAAATAA--TT
1 AATAAATAATTTT
48169256 AATAAAT-ATTTT
1 AATAAATAATTTT
48169268 TTTAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.43
12 2 0.10
13 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAAATAATTTT
Found at i:48170402 original size:29 final size:30
Alignment explanation
Indices: 48170371--48170564 Score: 195
Period size: 30 Copynumber: 6.6 Consensus size: 30
48170361 GGACTGTCCT
48170371 AAAATTATATTTTAACCCTAAAACTTTCTA
1 AAAATTATATTTTAACCCTAAAACTTTCTA
* * *
48170401 AAAATTACATTTTAACTCCT-AAACTTTTTG
1 AAAATTATATTTTAAC-CCTAAAACTTTCTA
* *
48170431 AAAATTACATTTTAAGCCT-AAACTTTTCT-
1 AAAATTATATTTTAACCCTAAAAC-TTTCTA
* * *
48170460 GAAATTGTATTTTAACCCCAAAACTTTCTA
1 AAAATTATATTTTAACCCTAAAACTTTCTA
*
48170490 AAAATTATATTTTAACCCTAAAACTTT-TT
1 AAAATTATATTTTAACCCTAAAACTTTCTA
* *
48170519 AAAATTATATTTTGACTCC--AAATTTTC-A
1 AAAATTATATTTTAAC-CCTAAAACTTTCTA
**
48170547 AAAATTCCATTTTAACCC
1 AAAATTATATTTTAACCC
48170565 CGATTTCACC
Statistics
Matches: 138, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
27 2 0.01
28 19 0.14
29 42 0.30
30 72 0.52
31 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTATATTTTAACCCTAAAACTTTCTA
Found at i:48170484 original size:59 final size:59
Alignment explanation
Indices: 48170371--48170564 Score: 225
Period size: 59 Copynumber: 3.3 Consensus size: 59
48170361 GGACTGTCCT
* * *
48170371 AAAATTATATTTTAACCCTAAAAC-TTTCTAAAAATTACATTTTAACTCCTAAACTTTTTG
1 AAAATTACATTTTAACCCTAAAACTTTTCT-AAAATTATATTTTAACTCC-AAACTTTTTA
* * * * *
48170431 AAAATTACATTTTAAGCCT-AAACTTTTCTGAAATTGTATTTTAACCCCAAAACTTTCTA
1 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTATATTTTAACTCC-AAACTTTTTA
* * *
48170490 AAAATTATATTTTAACCCTAAAACTTTT-TAAAATTATATTTTGACTCCAAA-TTTTCA
1 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTATATTTTAACTCCAAACTTTTTA
*
48170547 AAAATTCCATTTTAACCC
1 AAAATTACATTTTAACCC
48170565 CGATTTCACC
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
57 20 0.18
58 3 0.03
59 60 0.53
60 30 0.27
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.41
Consensus pattern (59 bp):
AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTATATTTTAACTCCAAACTTTTTA
Found at i:48170587 original size:29 final size:28
Alignment explanation
Indices: 48170547--48170934 Score: 153
Period size: 29 Copynumber: 13.5 Consensus size: 28
48170537 CAAATTTTCA
48170547 AAAATTCCATTTTAACCCCGATTTCACC
1 AAAATTCCATTTTAACCCCGATTTCACC
* ** * *
48170575 AAAATTAGCATTTT-ACCATTGAATTT-TCT
1 AAAATT-CCATTTTAACC-CCG-ATTTCACC
* * *
48170604 AAAATTCCGTTTTTAATCTCGATTTCACC
1 AAAATTCC-ATTTTAACCCCGATTTCACC
* *
48170633 AAAATTACCATTTTACCCCCAAACTTTCA--
1 AAAATT-CCATTTTAACCCC-GA-TTTCACC
* *
48170662 AAAATTTCATTTTTAACCCCAATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
*
48170691 AAAATTACCATTTT--CCCTCGAACTTT--CT
1 AAAATT-CCATTTTAACCC-CG-A-TTTCACC
*
48170719 AAAATTCCATTTTTAA-CCCGATTTTACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
* * **
48170747 AAAATTGTCATTTTACCCCCGAACTTT--TT
1 AAAATT-CCATTTTAACCCCG-A-TTTCACC
**
48170776 AAAATTCCATTTTTAACTTCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
*
48170805 AAAATTACCATTTT-ACCCCTGAAGTTT--CT
1 AAAATT-CCATTTTAACCCC-G-A-TTTCACC
* *
48170834 AAAATTCCATTTTTACCCCCAATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
* * *
48170863 AAAATTACCATTTTACCCCCAAACTTT--TC
1 AAAATT-CCATTTTAACCCC-GA-TTTCACC
* * *
48170892 AAAATCCCATTTTGA-CCCAATTTCGACC
1 AAAATTCCATTTTAACCCCGATTTC-ACC
48170920 AAAATTACCATTTTA
1 AAAATT-CCATTTTA
48170935 CCCTCGAGTA
Statistics
Matches: 272, Mismatches: 45, Indels: 85
0.68 0.11 0.21
Matches are distributed among these distances:
25 3 0.01
26 5 0.02
27 21 0.08
28 67 0.25
29 134 0.49
30 28 0.10
31 14 0.05
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCCGATTTCACC
Found at i:48170636 original size:58 final size:58
Alignment explanation
Indices: 48170539--48170937 Score: 470
Period size: 58 Copynumber: 6.9 Consensus size: 58
48170529 TTTGACTCCA
* * ***
48170539 AATTTTCAAAAATTCCA-TTTTAACCCCGATTTCACCAAAATTAGCATTTTACCATTG
1 AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * * *
48170596 AATTTTCTAAAATTCCGTTTTTAATCTCGATTTCACCAAAATTACCATTTTACCCCCA
1 AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * * * *
48170654 AACTTTCAAAAATTTCATTTTTAACCCCAATTTCACCAAAATTACCATTTT-CCCTCG
1 AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * **
48170711 AACTTTCTAAAATTCCATTTTTAA-CCCGATTTTACCAAAATTGTCATTTTACCCCCG
1 AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
** *
48170768 AACTTTT-TAAAATTCCATTTTTAACTTCGATTTCACCAAAATTACCATTTTACCCCTG
1 AA-TTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * * *
48170826 AAGTTTCTAAAATTCCATTTTTACCCCCAATTTCACCAAAATTACCATTTTACCCCCA
1 AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * *
48170884 AACTTTTC-AAAATCCCA-TTTTGA-CCCAATTTCGACCAAAATTACCATTTTACCC
1 AA-TTTTCTAAAATTCCATTTTTAACCCCGATTTC-ACCAAAATTACCATTTTACCC
48170938 TCGAGTATCC
Statistics
Matches: 292, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
56 31 0.11
57 93 0.32
58 164 0.56
59 4 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (58 bp):
AATTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
Found at i:48170725 original size:172 final size:172
Alignment explanation
Indices: 48170536--48170936 Score: 533
Period size: 172 Copynumber: 2.3 Consensus size: 172
48170526 TATTTTGACT
* * **
48170536 CCAAATTTTCAAAAATTCCATTTTAACCCCGATTTCACCAAAATTAGCATTTTACCATTGAA-TT
1 CCAAACTTTCTAAAATTCCATTTTAA-CCCGATTTCACCAAAATTAGCATTTTACCACCGAACTT
*
48170600 TTCTAAAATTCCGTTTTTAA-TCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCAAA
65 TT-TAAAATTCCATTTTTAACT-TCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCAAA
*
48170664 AATTTCATTTTTAACCCCAATTTCACCAAAATTACCATTTT-CCC
128 AATTCCATTTTTAACCCCAATTTCACCAAAATTACCATTTTACCC
* * * *
48170708 TCGAACTTTCTAAAATTCCATTTTTAACCCGATTTTACCAAAATT-GTCATTTTACCCCCGAACT
1 CCAAACTTTCTAAAATTCCA-TTTTAACCCGATTTCACCAAAATTAG-CATTTTACCACCGAACT
** * *
48170772 TTTTAAAATTCCATTTTTAACTTCGATTTCACCAAAATTACCATTTTACCCCTGAAGTTTCTAAA
64 TTTTAAAATTCCATTTTTAACTTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCAAAA
*
48170837 ATTCCATTTTTACCCCCAATTTCACCAAAATTACCATTTTACCC
129 ATTCCATTTTTAACCCCAATTTCACCAAAATTACCATTTTACCC
* * * *
48170881 CCAAACTTT-TCAAAATCCCATTTTGACCCAATTTCGACCAAAATTACCATTTTACC
1 CCAAACTTTCT-AAAATTCCATTTTAACCCGATTTC-ACCAAAATTAGCATTTTACC
48170937 CTCGAGTATC
Statistics
Matches: 199, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
171 1 0.01
172 151 0.76
173 47 0.24
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.37
Consensus pattern (172 bp):
CCAAACTTTCTAAAATTCCATTTTAACCCGATTTCACCAAAATTAGCATTTTACCACCGAACTTT
TTAAAATTCCATTTTTAACTTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTCAAAAAT
TCCATTTTTAACCCCAATTTCACCAAAATTACCATTTTACCC
Found at i:48175951 original size:21 final size:21
Alignment explanation
Indices: 48175912--48175951 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48175902 AATTATTTGT
*
48175912 TATTTTATTAATTTTTTTAAA
1 TATTTTATAAATTTTTTTAAA
48175933 TATTTTA-AAATTTTATTTA
1 TATTTTATAAATTTT-TTTA
48175952 TGAGAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTATAAATTTTTTTAAA
Found at i:48176742 original size:21 final size:20
Alignment explanation
Indices: 48176711--48176752 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
48176701 CTAAACCTAA
48176711 TTAATTAACTA-ATTATAAAC
1 TTAATTAACTATA-TATAAAC
48176731 TTAATCTAACTATATATAAAC
1 TTAAT-TAACTATATATAAAC
48176752 T
1 T
48176753 AGTGGATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 14 0.70
22 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATTAACTATATATAAAC
Found at i:48177702 original size:42 final size:42
Alignment explanation
Indices: 48177632--48177823 Score: 204
Period size: 42 Copynumber: 4.6 Consensus size: 42
48177622 GCACTTACGT
* * * * * * *
48177632 ATGATGCACTTACATTCTAATATTTTTACTTCGGTATATCCG
1 ATGATGCACTTACGTGCCAGTATATTTACTTCGATATATCCA
* *
48177674 ATGATGCACTTACGTGCTAGTATATTTACTTCGATATGTCCA
1 ATGATGCACTTACGTGCCAGTATATTTACTTCGATATATCCA
* *
48177716 ATGATGCACTTATGTGCCAGTATATTTACTTCGATATATCTA
1 ATGATGCACTTACGTGCCAGTATATTTACTTCGATATATCCA
* * * ** * *
48177758 ATGATGCACTTATGTGCCGGTATATTTACTTTGGCATATTCG
1 ATGATGCACTTACGTGCCAGTATATTTACTTCGATATATCCA
* *
48177800 ATGATACACTTACGTGGCAGTATA
1 ATGATGCACTTACGTGCCAGTATA
48177824 ATTGCTGTGG
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 128 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (42 bp):
ATGATGCACTTACGTGCCAGTATATTTACTTCGATATATCCA
Found at i:48180431 original size:3 final size:3
Alignment explanation
Indices: 48180423--48180454 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
48180413 AAATTAAGCA
*
48180423 AAT AAT AAT AAT AAT AAT AAT AAT AAG AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48180455 GGTTTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:48183668 original size:18 final size:19
Alignment explanation
Indices: 48183645--48183686 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
48183635 TTGATTTTTT
48183645 ATATTTT-TAATTTTTAAA
1 ATATTTTATAATTTTTAAA
48183663 ATATTTTATAATTTTTAAA
1 ATATTTTATAATTTTTAAA
*
48183682 TTATT
1 ATATT
48183687 CGTTGATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTTTATAATTTTTAAA
Found at i:48183876 original size:16 final size:17
Alignment explanation
Indices: 48183850--48183883 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48183840 TAATAACAAA
48183850 AAAATACTAAAAATATT
1 AAAATACTAAAAATATT
*
48183867 AAAA-ACTAAAATTATT
1 AAAATACTAAAAATATT
48183883 A
1 A
48183884 TTATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATACTAAAAATATT
Found at i:48184811 original size:10 final size:11
Alignment explanation
Indices: 48184794--48184827 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48184784 CACTGATAAT
48184794 CAAAATATATC
1 CAAAATATATC
48184805 CAAATATATAT-
1 CAAA-ATATATC
48184816 CAAAATATATC
1 CAAAATATATC
48184827 C
1 C
48184828 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.29
11 9 0.43
12 6 0.29
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (11 bp):
CAAAATATATC
Found at i:48186672 original size:3 final size:3
Alignment explanation
Indices: 48186664--48186692 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48186654 TCACAAGCCT
48186664 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
48186693 AGCGCCACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:48187354 original size:6 final size:6
Alignment explanation
Indices: 48187343--48187372 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
48187333 TCGACTAGAG
48187343 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA
1 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA
48187373 GTGTTCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGGAA
Found at i:48187408 original size:3 final size:3
Alignment explanation
Indices: 48187402--48187443 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
48187392 AGAACATAAT
48187402 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
48187444 GGTCAGAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:48193856 original size:30 final size:30
Alignment explanation
Indices: 48193812--48193876 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
48193802 ATTGAATGAT
*
48193812 TTTTTAATCTATTTGATAAATTA-TTTAATA
1 TTTTAAATCTATTTGAT-AATTATTTTAATA
* *
48193842 TTTTAAATGTATTTGATAATTATTTTAATT
1 TTTTAAATCTATTTGATAATTATTTTAATA
48193872 TTTTA
1 TTTTA
48193877 TATAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTTAAATCTATTTGATAATTATTTTAATA
Found at i:48194196 original size:19 final size:19
Alignment explanation
Indices: 48194174--48194217 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
48194164 AGGAAAAAGA
**
48194174 TTATAAAAATTGTAAAATT
1 TTATAAAAATCATAAAATT
*
48194193 TTATAATAATCATAAAATT
1 TTATAAAAATCATAAAATT
48194212 TTATAA
1 TTATAA
48194218 TATCAGGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTATAAAAATCATAAAATT
Found at i:48207332 original size:2 final size:2
Alignment explanation
Indices: 48207325--48207355 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48207315 GATAATAATC
48207325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48207356 CACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48207686 original size:26 final size:26
Alignment explanation
Indices: 48207636--48207686 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
48207626 TTTCTGATTT
* *
48207636 TTTTTGCTGTTTTGGTGGTTGTTTTC
1 TTTTTGCTATTTTGGTGGCTGTTTTC
48207662 TTTTTGCTATTTTGGT-GCTGCTTTT
1 TTTTTGCTATTTTGGTGGCTG-TTTT
48207687 GTTGTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.02, C:0.10, G:0.24, T:0.65
Consensus pattern (26 bp):
TTTTTGCTATTTTGGTGGCTGTTTTC
Found at i:48207707 original size:21 final size:21
Alignment explanation
Indices: 48207683--48207739 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
48207673 TTGGTGCTGC
*
48207683 TTTTGTTGTTGTTTTTATTGT
1 TTTTGTTGTTATTTTTATTGT
48207704 TTTTGTTGTTATTTTTATTG-
1 TTTTGTTGTTATTTTTATTGT
* *
48207724 TTTGGATGTTATTTTT
1 TTTTGTTGTTATTTTT
48207740 TTATTCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (21 bp):
TTTTGTTGTTATTTTTATTGT
Found at i:48207709 original size:15 final size:15
Alignment explanation
Indices: 48207685--48207726 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48207675 GGTGCTGCTT
*
48207685 TTGTTGTTGTTTTTA
1 TTGTTTTTGTTTTTA
*
48207700 TTGTTTTTGTTGTTA
1 TTGTTTTTGTTTTTA
48207715 TT-TTTATTGTTT
1 TTGTTT-TTGTTT
48207727 GGATGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (15 bp):
TTGTTTTTGTTTTTA
Found at i:48207740 original size:21 final size:21
Alignment explanation
Indices: 48207689--48207739 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
48207679 CTGCTTTTGT
* * *
48207689 TGTTGTTTTTATTGTTTTTGT
1 TGTTATTTTTATTGTTTTGGA
48207710 TGTTATTTTTATTG-TTTGGA
1 TGTTATTTTTATTGTTTTGGA
48207730 TGTTATTTTT
1 TGTTATTTTT
48207740 TTATTCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.10, C:0.00, G:0.18, T:0.73
Consensus pattern (21 bp):
TGTTATTTTTATTGTTTTGGA
Found at i:48211690 original size:30 final size:29
Alignment explanation
Indices: 48211579--48211978 Score: 114
Period size: 29 Copynumber: 13.8 Consensus size: 29
48211569 TTGGATACCC
* * *
48211579 GGGGGTAAAATGGTAA-TTTTG-GACTCTC
1 GGGGGTAAAATGGTAATTTTTGAAAAT-TT
* *
48211607 GTGGGGTAAAATGATAATTTTGGGAAAATTT
1 G-GGGGTAAAATGGTAATTTT-TGAAAATTT
* * * **
48211638 GGAGTTAAAA--ATAAAATTTGAAACATTT
1 GGGGGTAAAATGGTAATTTTTGAAA-ATTT
*
48211666 GGGGGTAAAATGGTAATTTTTGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGAAAATTT
* * *
48211695 TGGGGTCAAAATGG-AATTTTTGGAAGTTT
1 GGGGGT-AAAATGGTAATTTTTGAAAATTT
* **
48211724 GAGGGTAAAAAT-GTAATTTTTAGAAGTTTT
1 GGGGGT-AAAATGGTAATTTTT-GAAAATTT
* ** *
48211754 GGGGTTAAAAATGG-AATTTTT-AGAAGCTC
1 GGGGGT-AAAATGGTAATTTTTGA-AAATTT
* * **
48211783 GGAGGTAAAAAT-GTAATTTTGGAAGTTTT
1 GGGGGT-AAAATGGTAATTTTTGAAAATTT
* * * *
48211812 AGGGTTAAAATGG-AATTTTTTGGAAGTTT
1 GGGGGTAAAATGGTAA-TTTTTGAAAATTT
* **
48211841 GGGGGTAAAAAT-ATAATTTTAT-AAGTTTT
1 GGGGGT-AAAATGGTAATTTT-TGAAAATTT
* * * *
48211870 AGGGTTAAGAATGG-AATTTTTGGATAA-TC
1 GGGGGTAA-AATGGTAATTTTT-GAAAATTT
* * **
48211899 GAGGGTAAAAAT-ATAATTTTTAGAAGTTTT
1 GGGGGT-AAAATGGTAATTTTT-GAAAATTT
* * * *
48211929 GCGGTTAAAATGG-AATTTTTGAAAGTCT
1 GGGGGTAAAATGGTAATTTTTGAAAATTT
*
48211957 GAGGGTAAAA-GTGTAATTTTTG
1 GGGGGTAAAATG-GTAATTTTTG
48211979 GACAGTTTAG
Statistics
Matches: 269, Mismatches: 74, Indels: 57
0.67 0.19 0.14
Matches are distributed among these distances:
27 5 0.02
28 46 0.17
29 146 0.54
30 66 0.25
31 4 0.01
32 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGGGTAAAATGGTAATTTTTGAAAATTT
Found at i:48211697 original size:58 final size:57
Alignment explanation
Indices: 48211609--48211766 Score: 135
Period size: 58 Copynumber: 2.7 Consensus size: 57
48211599 GGACTCTCGT
* * *
48211609 GGGGTAAAATGATAATTTTGGGAAA-ATTTGGAGTTAAAAAT-AAAATTTGAAACATTTG
1 GGGGTAAAATGGTAATTTT-TGAAAGTTTTGG-GTTAAAAATGAAAATTTGAAA-ATTTG
* * ** * *
48211667 GGGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAATGGAATTTTTGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTTAAAAAT-GAAAATTTGAAAATTTG
*
48211725 AGGGTAAAAAT-GTAATTTTT-AGAAGTTTTGGGGTTAAAAATG
1 GGGGT-AAAATGGTAATTTTTGA-AAGTTTT-GGGTTAAAAATG
48211767 GAATTTTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
57 12 0.15
58 48 0.59
59 22 0.27
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.35
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTTAAAAATGAAAATTTGAAAATTTG
Found at i:48211712 original size:29 final size:30
Alignment explanation
Indices: 48211667--48211986 Score: 219
Period size: 29 Copynumber: 11.0 Consensus size: 30
48211657 GAAACATTTG
48211667 GGGGT-AAAATGGTAATTTTTGA-AAGTTTT
1 GGGGTAAAAATGG-AATTTTTGAGAAGTTTT
*
48211696 GGGGTCAAAATGGAATTTTTG-GAAG-TTT
1 GGGGTAAAAATGGAATTTTTGAGAAGTTTT
*
48211724 GAGGGTAAAAATGTAATTTTT-AGAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGAGAAGTTTT
* *
48211754 GGGGTTAAAAATGGAATTTTT-AGAAG-CTC
1 GGGG-TAAAAATGGAATTTTTGAGAAGTTTT
*
48211783 GGAGGTAAAAATGTAA-TTTTG-GAAGTTTT
1 GG-GGTAAAAATGGAATTTTTGAGAAGTTTT
* * *
48211812 AGGGTTAAAATGGAATTTTTTG-GAAGTTTG
1 GGGGTAAAAATGGAA-TTTTTGAGAAGTTTT
** *
48211842 GGGGTAAAAATATAA-TTTT-ATAAGTTTT
1 GGGGTAAAAATGGAATTTTTGAGAAGTTTT
* * * *
48211870 AGGGTTAAGAATGGAATTTTTG-G-A-TAATC
1 -GGGGTAAAAATGGAATTTTTGAGAAGT-TTT
**
48211899 GAGGGTAAAAATATAATTTTT-AGAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGAGAAGTTTT
* * *
48211929 GCGGTTAAAATGGAATTTTTGA-AAG-TCT
1 GGGGTAAAAATGGAATTTTTGAGAAGTTTT
* *
48211957 GAGGGTAAAAGTGTAATTTTTG-GACAGTTT
1 G-GGGTAAAAATGGAATTTTTGAGA-AGTTT
48211987 AGGGACCTCC
Statistics
Matches: 225, Mismatches: 41, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
28 38 0.17
29 119 0.53
30 66 0.29
31 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (30 bp):
GGGGTAAAAATGGAATTTTTGAGAAGTTTT
Found at i:48211809 original size:58 final size:58
Alignment explanation
Indices: 48211668--48211986 Score: 355
Period size: 58 Copynumber: 5.5 Consensus size: 58
48211658 AAACATTTGG
* **
48211668 GGGT-AAAATGGTAATTTTT-GAAAGTTTTGGGGTCAAAATGGAATTTTTGGAAGTTTGA
1 GGGTAAAAAT-GTAATTTTTAG-AAGTTTTGGGGTTAAAATGGAATTTTTGGAAGTCGGA
*
48211726 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTTAGAAGCTCGGA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTT-AAAATGGAATTTTTGGAAG-TCGGA
* * *
48211786 -GGTAAAAATGTAA-TTTTGGAAGTTTTAGGGTTAAAATGGAATTTTTTGGAAGTTTGG-
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTAAAATGGAA-TTTTTGGAAG-TCGGA
* * * *
48211843 GGGTAAAAATATAA-TTTTATAAGTTTTAGGGTTAAGAATGGAATTTTTGGATAATC-GA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTAA-AATGGAATTTTTGGA-AGTCGGA
* * * *
48211901 GGGTAAAAATATAATTTTTAGAAGTTTTGCGGTTAAAATGGAATTTTTGAAAGTCTGA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTAAAATGGAATTTTTGGAAGTCGGA
* *
48211959 GGGTAAAAGTGTAATTTTTGGACAGTTT
1 GGGTAAAAATGTAATTTTTAGA-AGTTT
48211987 AGGGACCTCC
Statistics
Matches: 227, Mismatches: 22, Indels: 23
0.83 0.08 0.08
Matches are distributed among these distances:
57 13 0.06
58 143 0.63
59 68 0.30
60 3 0.01
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (58 bp):
GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTTAAAATGGAATTTTTGGAAGTCGGA
Found at i:48211861 original size:116 final size:115
Alignment explanation
Indices: 48211668--48211976 Score: 392
Period size: 116 Copynumber: 2.7 Consensus size: 115
48211658 AAACATTTGG
* *
48211668 GGGT-AAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAATGGAATTTTTGGAAGTTTGAGGGTAA
1 GGGTAAAAAT-GTAATTTTTGGAAGTTTT-GGGTTAAAATGGAATTTTTGGAAGTTTGAGGGTAA
* *
48211732 AAATGTAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTTAGA-AGCTCG-
64 AAATGTAA-TTTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTAGATA-ATCGA
*
48211784 GAGGTAAAAATGTAA-TTTTGGAAGTTTTAGGGTTAAAATGGAATTTTTTGGAAGTTTGGGGGTA
1 G-GGTAAAAATGTAATTTTTGGAAGTTTT-GGGTTAAAATGGAA-TTTTTGGAAGTTTGAGGGTA
* * * *
48211848 AAAATATAATTTTATAAGTTTTAGGGTTAAGAATGGAATTTTTGGATAATCGA
63 AAAATGTAATTTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTAGATAATCGA
* * * *
48211901 GGGTAAAAATATAATTTTTAGAAGTTTTGCGGTTAAAATGGAATTTTTGAAAGTCTGAGGGTAAA
1 GGGTAAAAATGTAATTTTTGGAAGTTTTG-GGTTAAAATGGAATTTTTGGAAGTTTGAGGGTAAA
*
48211966 AGTGTAATTTT
65 AATGTAATTTT
48211977 TGGACAGTTT
Statistics
Matches: 169, Mismatches: 17, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
116 103 0.61
117 61 0.36
118 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (115 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTTGGGTTAAAATGGAATTTTTGGAAGTTTGAGGGTAAAA
ATGTAATTTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTAGATAATCGA
Found at i:48213843 original size:23 final size:23
Alignment explanation
Indices: 48213808--48213859 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
48213798 GTTTAAAATT
* *
48213808 ATTTCAAATTTAAACTGAATTTAA
1 ATTT-AAAGTTAAACTAAATTTAA
*
48213832 ATTTAAAGTTAAAGTAAATTTAA
1 ATTTAAAGTTAAACTAAATTTAA
*
48213855 TTTTA
1 ATTTA
48213860 GAAATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (23 bp):
ATTTAAAGTTAAACTAAATTTAA
Found at i:48213849 original size:17 final size:18
Alignment explanation
Indices: 48213829--48213873 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
48213819 AAACTGAATT
*
48213829 TAAATTTAAAGTTA-AAG
1 TAAATTTAAAGTTAGAAA
**
48213846 TAAATTTAATTTTAGAAA
1 TAAATTTAAAGTTAGAAA
48213864 TAAATTTAAA
1 TAAATTTAAA
48213874 ACCAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
TAAATTTAAAGTTAGAAA
Found at i:48214037 original size:54 final size:56
Alignment explanation
Indices: 48213956--48214061 Score: 139
Period size: 54 Copynumber: 1.9 Consensus size: 56
48213946 AAGACGTGTG
* *
48213956 TATATAAATAAAAATAAAAAATGAAATCA-AGATGTTTG-C-ATATATATATGTATA
1 TATATAAATAAAAATAAAAAATAAAATCAGA-ATGTATGTCTATATATATATGTATA
*
48214010 TATATAAA-AATAAATAAATAATAAAATCAGAATGTATGTCTATATATATATG
1 TATATAAATAA-AAATAAAAAATAAAATCAGAATGTATGTCTATATATATATG
48214062 CTTGCGTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 2 0.04
54 30 0.67
55 2 0.04
56 11 0.24
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (56 bp):
TATATAAATAAAAATAAAAAATAAAATCAGAATGTATGTCTATATATATATGTATA
Found at i:48217912 original size:12 final size:13
Alignment explanation
Indices: 48217879--48217904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48217869 AAAACAAAAA
48217879 TAAATTAAATTTT
1 TAAATTAAATTTT
48217892 TAAATTAAATTTT
1 TAAATTAAATTTT
48217905 AATTTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATTAAATTTT
Found at i:48218119 original size:18 final size:18
Alignment explanation
Indices: 48218096--48218138 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48218086 CCACTCGACT
* * *
48218096 CCCGAGGCTTCTCCTCTG
1 CCCGAGACTACTCCTCTC
48218114 CCCGAGACTACTCCTCTC
1 CCCGAGACTACTCCTCTC
48218132 CCCGAGA
1 CCCGAGA
48218139 TCGCTCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.47, G:0.19, T:0.21
Consensus pattern (18 bp):
CCCGAGACTACTCCTCTC
Found at i:48218145 original size:18 final size:18
Alignment explanation
Indices: 48218106--48218164 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
48218096 CCCGAGGCTT
48218106 CTCCTCTGCCCGAGA-CTA
1 CTCCTCTGCCCGAGATC-A
* *
48218124 CTCCTCTCCCCGAGATCG
1 CTCCTCTGCCCGAGATCA
* *
48218142 CTCCTCTGCCCAAGATCC
1 CTCCTCTGCCCGAGATCA
48218160 CTCCT
1 CTCCT
48218165 TTTCTCGGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 34 0.97
19 1 0.03
ACGTcount: A:0.14, C:0.49, G:0.14, T:0.24
Consensus pattern (18 bp):
CTCCTCTGCCCGAGATCA
Found at i:48225840 original size:31 final size:31
Alignment explanation
Indices: 48225805--48225863 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
48225795 TATACATATA
*
48225805 AAATTTAT-ATTGTGGTTCAAATGTATACCTG
1 AAATTT-TGATTGTGATTCAAATGTATACCTG
* *
48225836 AAATTTTGATTTTGATTCAATTGTATAC
1 AAATTTTGATTGTGATTCAAATGTATAC
48225864 ATTTAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (31 bp):
AAATTTTGATTGTGATTCAAATGTATACCTG
Found at i:48226541 original size:31 final size:32
Alignment explanation
Indices: 48226496--48226572 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 32
48226486 ATCTTTCCCT
* * * *
48226496 AAAAATTCTAAAGTTTAAGTCTC-AATGTGAG
1 AAAAATTATCAAGTTTAAGACTCTAATATGAG
*
48226527 AAAAATTATCAAG-TTCAGACTCTAATATGAG
1 AAAAATTATCAAGTTTAAGACTCTAATATGAG
* *
48226558 AACAATTGTCAAGTT
1 AAAAATTATCAAGTT
48226573 CAAAACTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 7 0.19
31 29 0.78
32 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (32 bp):
AAAAATTATCAAGTTTAAGACTCTAATATGAG
Found at i:48227731 original size:20 final size:20
Alignment explanation
Indices: 48227706--48227745 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48227696 TATCAGTGTC
*
48227706 CATGACATGATCTCACTGTT
1 CATGACATGATCCCACTGTT
*
48227726 CATGACTTGATCCCACTGTT
1 CATGACATGATCCCACTGTT
48227746 TCTAGGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (20 bp):
CATGACATGATCCCACTGTT
Found at i:48231440 original size:23 final size:23
Alignment explanation
Indices: 48231392--48231440 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
48231382 TGATCTAAGG
* *
48231392 AAAAATAAAAGAAACTGAATTAA
1 AAAAATAAAAGAAAATGAACTAA
48231415 AAAAATAAAAGAAAATAGAACTAA
1 AAAAATAAAAGAAAAT-GAACTAA
48231439 AA
1 AA
48231441 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAGAAAATGAACTAA
Found at i:48232279 original size:19 final size:19
Alignment explanation
Indices: 48232255--48232297 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48232245 AAATATAAAT
48232255 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48232274 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48232293 TAAAT
1 TAAAT
48232298 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48233052 original size:102 final size:103
Alignment explanation
Indices: 48232865--48233055 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 103
48232855 TTATTTTGTG
* * *
48232865 AATTTTTTCCTTTTTTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAATGAAATGACACCC
1 AATTTTTTCCTTTCTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAACC
* *
48232930 AAGCACTCCATCCCGGTTACTCAGCCCAACATGCTCTC
66 AAGCACTCCACCCCGATTACTCAGCCCAACATGCTCTC
* * * *
48232968 AATTTTTTTCTTCTCTTTTT-TTT-AGAATGCATTAGCCCTTTTGACGCGAAGTGAAATGACAAC
1 AATTTTTTCCTT-TCTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAAC
48233031 CAAGCACTCCACCCCGATTACTCAG
65 CAAGCACTCCACCCCGATTACTCAG
48233056 TCTAACACAT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 58 0.74
103 14 0.18
104 6 0.08
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (103 bp):
AATTTTTTCCTTTCTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATGAAATGACAACC
AAGCACTCCACCCCGATTACTCAGCCCAACATGCTCTC
Found at i:48233090 original size:102 final size:102
Alignment explanation
Indices: 48232879--48233083 Score: 241
Period size: 102 Copynumber: 2.0 Consensus size: 102
48232869 TTTTCCTTTT
* * * * *
48232879 TTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAATGAAATGACACCCAAGCACTCCATCCC
1 TTTTT-TTT-AGAATGCATTAGCCCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCC
* ** * * *
48232944 GGTTACTCAGCCCAACATGCTCTCAATTTTTTTCTTCTC
64 GATTACTCAGCCCAACACACTCTCAATTTATTTATTATC
*
48232983 TTTTTTTTAGAATGCATTAGCCCTTTTGACGCGAAGTGAAATGACAACCAAGCACTCCACCCCGA
1 TTTTTTTTAGAATGCATTAGCCCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGA
* * *
48233048 TTACTCAGTCTAACACATTC-CGAATTTATTTATTAT
66 TTACTCAGCCCAACACACTCTC-AATTTATTTATTAT
48233084 TATTTTTATT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
101 1 0.01
102 76 0.89
103 3 0.04
104 5 0.06
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (102 bp):
TTTTTTTTAGAATGCATTAGCCCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGA
TTACTCAGCCCAACACACTCTCAATTTATTTATTATC
Found at i:48233747 original size:4 final size:4
Alignment explanation
Indices: 48233738--48233790 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
48233728 TCCTGGACAA
*
48233738 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAAA AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT
48233788 AAA
1 AAA
48233791 AATAATTGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 32 0.74
5 8 0.19
6 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:48233779 original size:26 final size:25
Alignment explanation
Indices: 48233737--48233791 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
48233727 TTCCTGGACA
*
48233737 AAAATAAATAAATAAATAAATAAAT
1 AAAATAAATAAATAAATAAAAAAAT
48233762 AAAATAAGATAGAA-AAATAAAAAAAT
1 AAAATAA-ATA-AATAAATAAAAAAAT
48233788 AAAA
1 AAAA
48233792 ATAATTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.26
26 18 0.67
27 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAATAAATAAATAAATAAAAAAAT
Found at i:48239444 original size:23 final size:23
Alignment explanation
Indices: 48239396--48239444 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
48239386 TGATCTAAGG
* *
48239396 AAAAATAAAAGAAACTGAATTAA
1 AAAAATAAAAGAAAATGAACTAA
48239419 AAAAATAAAAGAAAATAGAACTAA
1 AAAAATAAAAGAAAAT-GAACTAA
48239443 AA
1 AA
48239445 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAGAAAATGAACTAA
Found at i:48240283 original size:19 final size:19
Alignment explanation
Indices: 48240259--48240301 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48240249 AAATATAAAT
48240259 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48240278 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48240297 TAAAT
1 TAAAT
48240302 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48240671 original size:11 final size:11
Alignment explanation
Indices: 48240648--48240710 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
48240638 TCAAATTTAT
48240648 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
48240660 TTTATTTTAAA
1 TTTAATTTAAA
*
48240671 TTCAATTTAAA
1 TTTAATTTAAA
*
48240682 TTTAAATTTGAA
1 TTT-AATTTAAA
48240694 TTTAATTTAAA
1 TTTAATTTAAA
48240705 TTTAAT
1 TTTAAT
48240711 GTTATTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:48240707 original size:17 final size:16
Alignment explanation
Indices: 48240658--48240726 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
48240648 TTTAATCTTA
* *
48240658 AATTTATTTTAAATTC
1 AATTTAATTTAAATTT
48240674 AATTTAAATTTAAATTT
1 AATTT-AATTTAAATTT
48240691 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
48240708 AATGTT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
48240725 AA
1 AA
48240727 AAAGAAAGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 31 0.66
18 5 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:48240727 original size:6 final size:6
Alignment explanation
Indices: 48240655--48240709 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
48240645 TATTTTAATC
* * *
48240655 TTAAAT TT-ATT TTAAA- TTCAAT TTAAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
48240700 TTAAAT TTAA
1 TTAAAT TTAA
48240710 TGTTATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 13 0.32
6 28 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:48241761 original size:25 final size:23
Alignment explanation
Indices: 48241733--48241789 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
48241723 AGCAAAAAGG
48241733 AAAACAAAAGG-TTTGAAAATCAAT
1 AAAACAAAAGGTTTTGAAAAT--AT
48241757 AAAA-AGGAAAGGTTTTGAAAATAT
1 AAAACA--AAAGGTTTTGAAAATAT
48241781 AAAACAAAA
1 AAAACAAAA
48241790 ATGAAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 6 0.21
26 9 0.31
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.19
Consensus pattern (23 bp):
AAAACAAAAGGTTTTGAAAATAT
Found at i:48242535 original size:30 final size:30
Alignment explanation
Indices: 48242499--48243054 Score: 711
Period size: 30 Copynumber: 18.6 Consensus size: 30
48242489 AACAATTCAG
*
48242499 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
48242529 AAATTATATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48242559 AAATTATATTTTGACCCCAAGAC-TTTCCAA
1 AAATTACATTTTGACCCCAAAACTTTTCC-A
*
48242589 AAATTACATTTTGACCCCAAGAC-TTTCCAA
1 AAATTACATTTTGACCCCAAAACTTTTCC-A
*
48242619 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48242649 AAATTACATTTTGATCCCAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
48242679 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48242709 AAATTACATTTTGACCCCAAGAC-TTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTC-CA
*
48242739 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48242769 AAATTACATTTTGACCTCAAGAC-TTTCCAA
1 AAATTACATTTTGACCCCAAAACTTTTCC-A
*
48242799 AAATTACATTTTGACCCCAAGACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
48242829 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
48242859 AAATTACATTTTGACCCAAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
48242889 AAATTATATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48242919 AAATTACATTTTGACCCCAAGAC-TTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTC-CA
*
48242949 AAATTACATTTTGACCCTAAAAC-TTTCCAA
1 AAATTACATTTTGACCCCAAAACTTTTCC-A
48242979 AAATTACATTTTGACCCCAAAAC-TTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
48243008 CAATTACATTTT-AGCCCTAAAAC--TTCCAA
1 AAATTACATTTTGA-CCCCAAAACTTTTCC-A
48243037 AAATTACCATTTT-ACCCC
1 AAATTA-CATTTTGACCCC
48243055 CGAAACCTTT
Statistics
Matches: 472, Mismatches: 43, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
28 5 0.01
29 47 0.10
30 406 0.86
31 14 0.03
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:48243079 original size:59 final size:58
Alignment explanation
Indices: 48242793--48243137 Score: 171
Period size: 60 Copynumber: 5.8 Consensus size: 58
48242783 CCTCAAGACT
* * *
48242793 TTCCAAAAATTA-CATTTTGA-CCCC-AAGACTTTTCCAAAATTACATTTTGACCCTAAAAC
1 TTCCAAAAATTACCATTTT-ACCCCCGAA-ACCTTT--AAAATTCCATTTTTACCCTAAAAC
** * ** *
48242852 TTTTCC-AAAATTA-CATTTTGA-CCCAAAAACTTTTCCAAAATTATATTTTAACCCTAAAAC
1 --TTCCAAAAATTACCATTTT-ACCCCCGAAACCTTT--AAAATTCCATTTTTACCCTAAAAC
* * *
48242912 TTTTCC-AAAATTA-CATTTTGA-CCCC-AAGACTTTCTAAAAATTACATTTTGACCCTAAAAC
1 --TTCCAAAAATTACCATTTT-ACCCCCGAA-ACCTT-T-AAAATTCCATTTTTACCCTAAAAC
* * *
48242972 TTTCCAAAAATTA-CATTTTGA-CCCC-AAAACTTTCCACAATTACA-TTTTAGCCCTAAAAC
1 -TTCCAAAAATTACCATTTT-ACCCCCGAAACCTTT--AAAATTCCATTTTTA-CCCTAAAAC
* * ** *
48243031 TTCCAAAAATTACCATTTTACCCCCGAAACCTTTAAAATCCCATTTTTAACCT-CGAT
1 TTCCAAAAATTACCATTTTACCCCCGAAACCTTTAAAATTCCATTTTTACCCTAAAAC
* * *
48243088 TTCACTGGAAATTTACCATTTTACCCCTGAAACCTTTAAAATTCCATTTT
1 TTC-C--AAAAATTACCATTTTACCCCCGAAACCTTTAAAATTCCATTTT
48243138 AATCCCGATC
Statistics
Matches: 247, Mismatches: 24, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
57 4 0.02
58 28 0.11
59 42 0.17
60 166 0.67
61 7 0.03
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (58 bp):
TTCCAAAAATTACCATTTTACCCCCGAAACCTTTAAAATTCCATTTTTACCCTAAAAC
Found at i:48266678 original size:68 final size:68
Alignment explanation
Indices: 48266484--48267376 Score: 934
Period size: 68 Copynumber: 12.9 Consensus size: 68
48266474 TGCAGGTCAC
* *
48266484 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAGCACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
48266549 GAG
66 GAG
* * *
48266552 CAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACGCAT-TTTCATCTCTGAAATTGAAGT
1 CAACGTCATCCCCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGT
48266616 AAGAG
64 AAGAG
* * * *
48266621 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
48266686 GAG
66 GAG
* * * *
48266689 CAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTTTGAAATTGAAGTA
1 CAACGTCATCCCCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTA
48266754 AGAG
65 AGAG
48266758 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
48266823 GAG
66 GAG
* * *
48266826 CAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTA
48266891 AGAG
65 AGAG
* *
48266895 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGT-TTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGTA
48266959 AGAG
65 AGAG
* * *
48266963 CAATGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGT-TTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGTA
48267027 AGAG
65 AGAG
* * * *
48267031 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC-TGAAATTGAAGTA
*
48267096 GAGTGGAT
65 -A---GAG
* * ** ** * * ***
48267104 AACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA-ATGTCATCCCCT-TGAAATTGAAGT
1 CA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGT
*
48267163 AGAGTGGAT
64 A-A---GAG
* * ** ** * ***
48267172 AACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-TGAAATTGAAGT
1 CA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGT
*
48267231 AGAGTGGAT
64 A-A---GAG
* * * *
48267240 AACACGTCTTCATCCCCTTGAAATTGGAGTAGAGTGGATAACACGTCTTCATATCTGAAATTGAA
1 CA-ACG---TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAA
48267305 GTAAGAG
62 GTAAGAG
* *
48267312 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCACTTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC-TGAAATTGAAGTA
48267377 GAGTGGATAA
Statistics
Matches: 737, Mismatches: 64, Indels: 47
0.87 0.08 0.06
Matches are distributed among these distances:
67 2 0.00
68 434 0.59
69 214 0.29
70 20 0.03
71 13 0.02
72 3 0.00
73 3 0.00
74 13 0.02
75 22 0.03
76 13 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:48266737 original size:137 final size:137
Alignment explanation
Indices: 48266484--48267095 Score: 1039
Period size: 137 Copynumber: 4.5 Consensus size: 137
48266474 TGCAGGTCAC
* * * *
48266484 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAGCACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
* *
48266549 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACGCATTTTCATCTCTGAAATTGAA
66 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAA
48266614 GTAAGAG
131 GTAAGAG
* *
48266621 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
*
48266686 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTTTGAAATTGAA
66 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAA
48266751 GTAAGAG
131 GTAAGAG
* *
48266758 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
48266823 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAA
66 GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAA
48266888 GTAAGAG
131 GTAAGAG
48266895 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGT-TTTCATCTCTGAAATTGAAGTA
1 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGTA
* * * *
48266959 AGAGCAATGTCAGCCTCTTG-AAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGA
65 AGAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGA
48267023 AGTAAGAG
130 AGTAAGAG
* *
48267031 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTA
1 CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC-TGAAATTGAAGTA
48267096 GAGTGGATAA
Statistics
Matches: 451, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
136 99 0.22
137 352 0.78
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (137 bp):
CAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAA
GTAAGAG
Found at i:48267021 original size:242 final size:243
Alignment explanation
Indices: 48266763--48267376 Score: 884
Period size: 242 Copynumber: 2.5 Consensus size: 243
48266753 AAGAGCAACG
*
48266763 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
* *
48266828 ATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAAGTAAG
66 ACGTCATCCCCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
* *
48266893 AGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGT
130 AGCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGT
* * *
48266958 AAGAGCAATGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTT
195 AAGAGCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** ** *
48267007 TCAT-CTC-TGAAATTGAAGTA-A---GAGCA-ACGTCAGCCTCT-TGAAATTGAAGTAGAGTGG
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---G
** *
48267064 ATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGA
62 AGCA-ACGTCATC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGA
* *
48267129 AGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAAT
124 AGTAAGAGCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAAT
*
48267194 TGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
189 TGAAGTAAGAGCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* *
48267249 TCATCCCCTTGAAATTGGAGTAGAGTGGATAACACGTCTTCATATCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
48267314 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCACTTGAAATTGAAGTA
66 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTC-TGAAATTGAAGTA
48267377 GAGTGGATAA
Statistics
Matches: 322, Mismatches: 32, Indels: 32
0.83 0.08 0.08
Matches are distributed among these distances:
236 13 0.04
237 9 0.03
238 3 0.01
240 3 0.01
241 7 0.02
242 172 0.53
243 50 0.16
244 29 0.09
245 8 0.02
246 3 0.01
248 3 0.01
249 9 0.03
250 13 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (243 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
GCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
AGAGCAACGTCAGCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
Found at i:48267155 original size:31 final size:31
Alignment explanation
Indices: 48267120--48267500 Score: 141
Period size: 37 Copynumber: 11.0 Consensus size: 31
48267110 TCTTCATCTC
*
48267120 TGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * **
48267151 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
48267187 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
**
48267219 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCT
1 TGAAATTGAAGTA-A---GAGCA-ACG---TCATCCCCT
* ** * ***
48267258 TGAAATTGGAGTAGAGTGGATAACACGTCTTCATAT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
48267294 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** * *
48267326 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCACT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATC--CCCT
** * **
48267364 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
48267400 CTGAAATTGAAGTAAGAGCAACGTCATCCCCTT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCC-T
* * * **
48267433 TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCT
1 TGAAATTGAAGTA-AG-AG-CAAC--GTCATCCCCT
48267469 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
48267501 CGGGATTGAA
Statistics
Matches: 274, Mismatches: 46, Indels: 59
0.72 0.12 0.16
Matches are distributed among these distances:
31 39 0.14
32 48 0.18
33 12 0.04
34 4 0.01
35 13 0.05
36 31 0.11
37 57 0.21
38 35 0.13
39 35 0.13
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:48267157 original size:205 final size:200
Alignment explanation
Indices: 48266535--48267341 Score: 781
Period size: 205 Copynumber: 3.9 Consensus size: 200
48266525 TCTTTATCTC
* *
48266535 TGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACGCATTTTCA
1 TGAAATTGAAGTAAGAGCAATGTCATCCCCTTG-AAATTGAAGTAGAGTGGATAACACGTTTTCA
* *
48266600 TCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAGTCT
65 TCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
48266665 TTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACAC
130 TCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTG-AAATTGAAGTAGA---GAGAACA-
* * *
48266730 A-TCTTCATCTT
190 AGTCATC-CCCT
*
48266741 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTT-A
1 TGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT-TTTCA
* * * *
48266805 TCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAAATTGAAGTAGAGTGGATAACACATC
65 TCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTG-AAATTGAAGTAGAGTGGATAACACGTC
* * *
48266870 TTCATCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACAC
129 TTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGA---GAGAACAA
** **
48266935 GTTTTCATCT
191 GTCATCCCCT
* *
48266945 CTGAAATTGAAGTAAGAGCAATGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCA
1 -TGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCA
48267010 TCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCT
65 TCTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** * *
48267075 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-AGAG--
130 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT-TGAAATTGAAGTAGAGAGAA
48267137 CAATGTCATCCCCT
188 CAA-GTCATCCCCT
** * * ** **
48267151 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA-ACGT
1 TGAAATTGAAGTA-A---GAGCA-ATGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGT
** ** ** * * *
48267211 CATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCTTGAAATTGGAGTAGAGT
60 TTTCATCTCTGAAATTGAAGTA-A---GAGCA-ACG---TCAGCCTCTTGAAATTGAAGTAGAGT
* *
48267275 GGATAACACGTCTTCATATCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAG
117 GGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAG
48267340 AG
182 AG
48267342 TGGATAACAC
Statistics
Matches: 512, Mismatches: 61, Indels: 55
0.82 0.10 0.09
Matches are distributed among these distances:
204 37 0.07
205 218 0.43
206 126 0.25
207 16 0.03
208 3 0.01
209 9 0.02
210 22 0.04
211 27 0.05
212 13 0.03
213 41 0.08
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (200 bp):
TGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCAT
CTCTGAAATTGAAGTAAGAGCAACGTCAGCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
CATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGAGAACAAGTCAT
CCCCT
Found at i:48267286 original size:107 final size:107
Alignment explanation
Indices: 48266633--48267482 Score: 708
Period size: 106 Copynumber: 8.1 Consensus size: 107
48266623 ACGTCAGCCT
* * * *
48266633 CTTGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
48266698 CCCCTTGAAAATTGAAGTAGAGTGGATAACACATCTTCAT--C
66 CCCCTTG-AAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
* ** * ** **
48266739 TTTGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACAC
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA-AC
* *** * * *
48266798 GTCTTTATCTCTGAAATTGAAGTA-A---G--AGCA-AT-GTCATCCC
61 GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
*
48266838 CTTGAAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 CTTG-AAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
* * * *
48266903 GCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCAT-CT
65 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
** ** **
48266945 C-TGAAATTGAAGTAAGAG-CAATGTCA-G-C--C-TCT-TGAAATTGAAGTAGAGTGGATAACA
1 CTTGAAATTGAAGT-AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA-A
** ** ** * *
48267002 CGTTTTCATCTCTGAAATTGAAGTA-A---GAGCA-ACG---TCAGCCT
60 CGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
* **
48267043 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTC-TGAAATTGAAGTA-A---GAGCA-A
* ** * * *
48267108 CGTCTTCATCTCTGAAATTGAAGTA-A---G--AGCA-AT-GTCATCCC
60 CGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
48267149 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
48267214 CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
66 CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
* *
48267256 CTTGAAATTGGAGTAGAGTGGATAACACGTCTTCATATCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
48267321 CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCAT-CA
66 CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
48267362 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
* *
48267427 CCCCTTTGAAATTGAAGTAGAGTGGATAACATGTCTTCAT-CT
66 CCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
48267469 C-TGAAATTGAAGTA
1 CTTGAAATTGAAGTA
48267483 AGAGCAACGT
Statistics
Matches: 616, Mismatches: 76, Indels: 104
0.77 0.10 0.13
Matches are distributed among these distances:
97 7 0.01
98 9 0.01
99 49 0.08
100 55 0.09
101 27 0.04
102 5 0.01
103 6 0.01
104 20 0.03
105 72 0.12
106 214 0.35
107 148 0.24
108 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (107 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCC
Found at i:48267367 original size:32 final size:33
Alignment explanation
Indices: 48267330--48267398 Score: 93
Period size: 38 Copynumber: 1.9 Consensus size: 33
48267320 TCCCCTTGAA
48267330 ATTGAAGTAGAGTGGATAACACGTCTTCATCAC
1 ATTGAAGTAGAGTGGATAACACGTCTTCATCAC
48267363 TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATC
1 -----ATTGAAGTAGAGTGGATAACACGTCTTCATC
48267399 TCTGAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (33 bp):
ATTGAAGTAGAGTGGATAACACGTCTTCATCAC
Found at i:48267436 original size:69 final size:68
Alignment explanation
Indices: 48267362--48267545 Score: 314
Period size: 69 Copynumber: 2.7 Consensus size: 68
48267352 GTCTTCATCA
48267362 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
48267427 CCC
66 CCC
*
48267430 CTTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 C-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
48267495 TCCC
65 TCCC
* ** *
48267499 CTCGGGATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTG
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
48267546 TTGAAATAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 42 0.39
69 67 0.61
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCC
Found at i:48267437 original size:32 final size:32
Alignment explanation
Indices: 48267398--48267501 Score: 109
Period size: 32 Copynumber: 3.1 Consensus size: 32
48267388 ACGTCTTCAT
48267398 CTCTGAAATTGAAGTAAGAGCAACGTCATCCC
1 CTCTGAAATTGAAGTAAGAGCAACGTCATCCC
* * * * **
48267430 CTTTGAAATTGAAGTAGAGTGGATAACATGTCTTCAT
1 CTCTGAAATTGAAGTA-AG-AG-CAAC--GTCATCCC
48267467 CTCTGAAATTGAAGTAAGAGCAACGTCATCCC
1 CTCTGAAATTGAAGTAAGAGCAACGTCATCCC
48267499 CTC
1 CTC
48267502 GGGATTGAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
32 23 0.42
33 2 0.04
34 4 0.07
35 4 0.07
36 2 0.04
37 20 0.36
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (32 bp):
CTCTGAAATTGAAGTAAGAGCAACGTCATCCC
Found at i:48267991 original size:11 final size:11
Alignment explanation
Indices: 48267968--48268030 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
48267958 TCAAATTTAT
48267968 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
48267980 TTTATTTTAAA
1 TTTAATTTAAA
*
48267991 TTCAATTTAAA
1 TTTAATTTAAA
*
48268002 TTTAAATTTGAA
1 TTT-AATTTAAA
48268014 TTTAATTTAAA
1 TTTAATTTAAA
48268025 TTTAAT
1 TTTAAT
48268031 GTTATTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:48268027 original size:17 final size:16
Alignment explanation
Indices: 48267978--48268046 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
48267968 TTTAATCTTA
* *
48267978 AATTTATTTTAAATTC
1 AATTTAATTTAAATTT
48267994 AATTTAAATTTAAATTT
1 AATTT-AATTTAAATTT
48268011 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
48268028 AATGTT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
48268045 AA
1 AA
48268047 AAAGAAAGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 31 0.66
18 5 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:48268047 original size:6 final size:6
Alignment explanation
Indices: 48267975--48268029 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
48267965 TATTTTAATC
* * *
48267975 TTAAAT TT-ATT TTAAA- TTCAAT TTAAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
48268020 TTAAAT TTAA
1 TTAAAT TTAA
48268030 TGTTATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 13 0.32
6 28 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:48269078 original size:25 final size:23
Alignment explanation
Indices: 48269050--48269106 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
48269040 AGCAAAAAGG
48269050 AAAACAAAAGG-TTTGAAAATCAAT
1 AAAACAAAAGGTTTTGAAAAT--AT
48269074 AAAA-AGGAAAGGTTTTGAAAATAT
1 AAAACA--AAAGGTTTTGAAAATAT
48269098 AAAACAAAA
1 AAAACAAAA
48269107 ATGAAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 6 0.21
26 9 0.31
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.19
Consensus pattern (23 bp):
AAAACAAAAGGTTTTGAAAATAT
Found at i:48269840 original size:30 final size:29
Alignment explanation
Indices: 48269806--48270271 Score: 574
Period size: 30 Copynumber: 15.6 Consensus size: 29
48269796 AAACAATTCA
* **
48269806 AAAATTATATTTTGACCTTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * *
48269836 AAAATTATATTTTAACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* *
48269866 AAAATTAAATTTTGACCCCAAGACTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTCC
* *
48269895 AAAAATTAAATTTTGACCCCAAGACTTTCC
1 -AAAATTACATTTTGACCCCAAAACTTTCC
*
48269925 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
48269955 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
*
48269985 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * *
48270015 AAAATTACATTTTAACCCCAAGACTTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTC-C
*
48270045 AAAATTACATTTTGACCTCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
48270075 AAAATTACATTTTGACCCCAAAACTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTCC
*
48270104 AAAAATTACATTTTGACCCCAAGACTTTCC
1 -AAAATTACATTTTGACCCCAAAACTTTCC
* * *
48270134 AAAAATTACATTTTGACCCTAACACTTTCTA
1 -AAAATTACATTTTGACCCCAAAACTTTC-C
48270165 AAAATTACATTTTGACCCCAAAACTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTCC
*
48270194 AAAAATTACATTTTGACCCTAAAACTTTTCC
1 -AAAATTACATTTTGACCCCAAAAC-TTTCC
* * * *
48270225 ACAATTACATTTTGGCCCTAAAACTTTCA
1 AAAATTACATTTTGACCCCAAAACTTTCC
48270254 AAAATTACCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
48270272 TCGAAACCTT
Statistics
Matches: 392, Mismatches: 35, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
29 47 0.12
30 336 0.86
31 9 0.02
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAAACTTTCC
Found at i:48270322 original size:60 final size:60
Alignment explanation
Indices: 48270258--48270392 Score: 202
Period size: 60 Copynumber: 2.3 Consensus size: 60
48270248 CTTTCAAAAA
* *
48270258 TTACCATTTTACCCTCGAAACCTTTAAAATCCCATTTTTAACCCCGATTTCACTGGAAAT
1 TTACCATTTTACCCCCGAAACCTTTAAAATCCCATTTTTAACCCCGATCTCACTGGAAAT
* * *
48270318 TTACCATTTTACCCCCGAAACCTTTAAAATTCCATTTTTAACCCCGATCTCAC--CAAAA
1 TTACCATTTTACCCCCGAAACCTTTAAAATCCCATTTTTAACCCCGATCTCACTGGAAAT
*
48270376 TTACCATTTTGCCCCCG
1 TTACCATTTTACCCCCG
48270393 GGTATATCCA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
58 19 0.28
60 50 0.72
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (60 bp):
TTACCATTTTACCCCCGAAACCTTTAAAATCCCATTTTTAACCCCGATCTCACTGGAAAT
Found at i:48270348 original size:30 final size:30
Alignment explanation
Indices: 48270254--48270364 Score: 97
Period size: 29 Copynumber: 3.8 Consensus size: 30
48270244 AAAACTTTCA
48270254 AAAATTACCA-TTTT-ACCCTCGAAACCTTT
1 AAAATTACCATTTTTAACCC-CGAAACCTTT
* ** **
48270283 AAAA-TCCCATTTTTAACCCCGATTTCACTGG
1 AAAATTACCATTTTTAACCCCGA-AAC-CTTT
* *
48270314 AAATTTACCA-TTTTACCCCCGAAACCTTT
1 AAAATTACCATTTTTAACCCCGAAACCTTT
48270343 AAAATT-CCATTTTTAACCCCGA
1 AAAATTACCATTTTTAACCCCGA
48270365 TCTCACCAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
28 7 0.11
29 29 0.47
30 6 0.10
31 16 0.26
32 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCCGAAACCTTT
Found at i:48274779 original size:3 final size:3
Alignment explanation
Indices: 48274767--48274881 Score: 122
Period size: 3 Copynumber: 37.0 Consensus size: 3
48274757 TTTCTTTTTT
* ** * *
48274767 TTA TTAA TTA TTA TTAA TTA TTAA TTA TTA TTA ATA AAA TCA TTA TCA
1 TTA TT-A TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
48274815 CTG TTA TTA ATA CTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48274861 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
48274882 CGTTTTAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
3 84 0.88
4 11 0.12
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Done.