Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 74 of 125
Found at i:23300458 original size:24 final size:24
Alignment explanation
Indices: 23300431--23300477 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23300421 AAACCTAATT
* *
23300431 CTAATCAATACAAAATATATTATG
1 CTAATAAATACAAAATAAATTATG
* *
23300455 CTAATAAATGCTAAATAAATTAT
1 CTAATAAATACAAAATAAATTAT
23300478 ATTACTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (24 bp):
CTAATAAATACAAAATAAATTATG
Found at i:23300555 original size:36 final size:35
Alignment explanation
Indices: 23300508--23300582 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 35
23300498 GATAATATAT
*
23300508 TTTGTTTAACTTGACTTGCAAGCAATTCTCTTAGAC
1 TTTGTTTAACTTGACTTGCAAGCAA-TCTCTTAGAA
*
23300544 TTTGTTTAACTTGACTTGCAAGCCATCTCTTAGAA
1 TTTGTTTAACTTGACTTGCAAGCAATCTCTTAGAA
23300579 TTTG
1 TTTG
23300583 GGTCACACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 13 0.35
36 24 0.65
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (35 bp):
TTTGTTTAACTTGACTTGCAAGCAATCTCTTAGAA
Found at i:23300647 original size:29 final size:29
Alignment explanation
Indices: 23300614--23300672 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
23300604 TCCACCTTGA
* *
23300614 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
23300643 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
23300672 C
1 C
23300673 TCTTCCACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.20
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:23304932 original size:24 final size:24
Alignment explanation
Indices: 23304905--23304961 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
23304895 AAGCCTAATT
*
23304905 CTAATCAATACAAAATATATTATG
1 CTAATAAATACAAAATATATTATG
*** *
23304929 CTAATAAATGTTAAATATATTATA
1 CTAATAAATACAAAATATATTATG
*
23304953 CTACTAAAT
1 CTAATAAAT
23304962 CTTCTAGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (24 bp):
CTAATAAATACAAAATATATTATG
Found at i:23305027 original size:36 final size:35
Alignment explanation
Indices: 23304980--23305056 Score: 118
Period size: 36 Copynumber: 2.2 Consensus size: 35
23304970 GAGATAATAT
*
23304980 ATTTTGTTTAACTTGACTTGCAAGCAATTCCCTTAG
1 ATTTTGTTTAACTTAACTTGCAAGCAA-TCCCTTAG
*
23305016 ATTTTGTTTAACTTAACTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTAACTTGCAAGCAATCCCTTAG
*
23305051 AATTTG
1 ATTTTG
23305057 GCCACTCAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 12 0.32
36 26 0.68
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (35 bp):
ATTTTGTTTAACTTAACTTGCAAGCAATCCCTTAG
Found at i:23306321 original size:14 final size:15
Alignment explanation
Indices: 23306302--23306330 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23306292 AAATTTTATA
23306302 TTATTTTTA-TGATT
1 TTATTTTTATTGATT
23306316 TTATTTTTATTGATT
1 TTATTTTTATTGATT
23306331 AAAGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTGATT
Found at i:23307665 original size:13 final size:13
Alignment explanation
Indices: 23307643--23307691 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
23307633 CTTCAATTAT
*
23307643 TTTATAAAATAAC
1 TTTATTAAATAAC
*
23307656 TTTATTAAAT-AT
1 TTTATTAAATAAC
23307668 TTTA-TAAAGTAAC
1 TTTATTAAA-TAAC
23307681 TTTATTAAATA
1 TTTATTAAATA
23307692 TATATTATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.13
12 6 0.20
13 16 0.53
14 4 0.13
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (13 bp):
TTTATTAAATAAC
Found at i:23307668 original size:25 final size:25
Alignment explanation
Indices: 23307640--23307692 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
23307630 CCACTTCAAT
23307640 TATTTTATAAAATAACTTTATTAAA
1 TATTTTATAAAATAACTTTATTAAA
*
23307665 TATTTTATAAAGTAACTTTATTAAA
1 TATTTTATAAAATAACTTTATTAAA
23307690 TAT
1 TAT
23307693 ATATTATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTTTATAAAATAACTTTATTAAA
Found at i:23310139 original size:101 final size:102
Alignment explanation
Indices: 23309945--23310145 Score: 332
Period size: 101 Copynumber: 2.0 Consensus size: 102
23309935 GAGCAACTTA
*
23309945 TTTGCTTAAAATCTCAAGGGCTCTAACCGAAGGAACCGAATAAGTAAAAACATCAACTCATGGAA
1 TTTGCTTAAAATCTCAAGGGCTCTAACCAAAGGAACCGAATAAGT-AAAACATCAACTCATGGAA
23310010 TAAAAGAATTTGACATTTGAGACACTTGTATGATCTTG
65 TAAAAGAATTTGACATTTGAGACACTTGTATGATCTTG
* * * *
23310048 TTTGCTTAAAATTTTAAGGGCTCTAACCAAAGGAACTGGATAAGT-AAACATCAACTCATGGAAT
1 TTTGCTTAAAATCTCAAGGGCTCTAACCAAAGGAACCGAATAAGTAAAACATCAACTCATGGAAT
*
23310112 AAAGGAATTTGACATTTGAGACACTTGTATGATC
66 AAAAGAATTTGACATTTGAGACACTTGTATGATC
23310146 AACACACATA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 52 0.57
103 40 0.43
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (102 bp):
TTTGCTTAAAATCTCAAGGGCTCTAACCAAAGGAACCGAATAAGTAAAACATCAACTCATGGAAT
AAAAGAATTTGACATTTGAGACACTTGTATGATCTTG
Found at i:23316624 original size:29 final size:29
Alignment explanation
Indices: 23316582--23316649 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
23316572 AATTTGGGCT
* *
23316582 TTTTGGAAAATTTAGGGTTAAAATTAAAC
1 TTTTGGAAAATTTAAGGTCAAAATTAAAC
23316611 TTTTGGAAAATTTAAGGTCAAAATTAAAC
1 TTTTGGAAAATTTAAGGTCAAAATTAAAC
23316640 TTTTGGAAAA
1 TTTTGGAAAA
23316650 GTTTGGGGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (29 bp):
TTTTGGAAAATTTAAGGTCAAAATTAAAC
Found at i:23316751 original size:29 final size:30
Alignment explanation
Indices: 23316684--23316752 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
23316674 AGAAGTTTAT
* * *
23316684 GGGCAAAATTGTAATTGTTGGAAGATTCGA
1 GGGCAAAAATATAATTGTTGGAAGATTCAA
*
23316714 GGGCAAAAATATAATTTTTGGAA-ATTCAA
1 GGGCAAAAATATAATTGTTGGAAGATTCAA
*
23316743 GGGCCAAAAT
1 GGGCAAAAAT
23316753 GTGATTTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGCAAAAATATAATTGTTGGAAGATTCAA
Found at i:23316759 original size:29 final size:29
Alignment explanation
Indices: 23316659--23316759 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
23316649 AGTTTGGGGG
* * * * *
23316659 CAAAATGTGATTTTTAGAAGTTTATGGG-
1 CAAAATGTAATTTTTGGAAATTCAAGGGC
* *
23316687 CAAAATTGTAATTGTTGGAAGATTCGAGGGC
1 CAAAA-TGTAATTTTTGGAA-ATTCAAGGGC
* *
23316718 AAAAATATAATTTTTGGAAATTCAAGGGC
1 CAAAATGTAATTTTTGGAAATTCAAGGGC
*
23316747 CAAAATGTGATTT
1 CAAAATGTAATTT
23316760 CTAGAAAATT
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
28 5 0.09
29 30 0.54
30 17 0.30
31 4 0.07
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.34
Consensus pattern (29 bp):
CAAAATGTAATTTTTGGAAATTCAAGGGC
Found at i:23316805 original size:30 final size:30
Alignment explanation
Indices: 23316748--23316849 Score: 134
Period size: 29 Copynumber: 3.4 Consensus size: 30
23316738 TTCAAGGGCC
*
23316748 AAAATGTGATTTCTAGAAAATTTTAGGGGTT
1 AAAATGTGATTT-TAGAAAAATTTAGGGGTT
* *
23316779 AAAATGTGATTTTAGGAAAGTTTA-GGGTT
1 AAAATGTGATTTTAGAAAAATTTAGGGGTT
* * *
23316808 AAAATGAGAATTTAGAAAAATTTAGAGGTT
1 AAAATGTGATTTTAGAAAAATTTAGGGGTT
23316838 AAAATGTGATTT
1 AAAATGTGATTT
23316850 GCAAAAAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.41
30 24 0.39
31 12 0.20
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAATGTGATTTTAGAAAAATTTAGGGGTT
Found at i:23316855 original size:29 final size:29
Alignment explanation
Indices: 23316748--23316861 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 29
23316738 TTCAAGGGCC
*
23316748 AAAATGTGATTTCTAG-AAAATTTTAGGGGTT
1 AAAATGTGA-TT-TAGAAAAAGTTTA-GGGTT
*
23316779 AAAATGTGATTTTAG-GAAAGTTTAGGGTT
1 AAAATGTGA-TTTAGAAAAAGTTTAGGGTT
*
23316808 AAAATGAGAATTTAGAAAAA-TTTAGAGGTT
1 AAAATGTG-ATTTAGAAAAAGTTTAG-GGTT
23316838 AAAATGTGATTT-GCAAAAAGTTTA
1 AAAATGTGATTTAG-AAAAAGTTTA
23316862 AGGACCTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.01
29 31 0.42
30 29 0.40
31 12 0.16
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (29 bp):
AAAATGTGATTTAGAAAAAGTTTAGGGTT
Found at i:23317465 original size:11 final size:11
Alignment explanation
Indices: 23317451--23317475 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23317441 TTTTTTTTCT
23317451 TTTATTATTTA
1 TTTATTATTTA
23317462 TTTATTATTTA
1 TTTATTATTTA
23317473 TTT
1 TTT
23317476 CTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:23320406 original size:16 final size:16
Alignment explanation
Indices: 23320355--23320410 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
23320345 TGTTTGATTC
23320355 GTTGTAATAGAATAGA
1 GTTGTAATAGAATAGA
*
23320371 GCTGTAAT-GTAATAGA
1 GTTGTAATAG-AATAGA
*
23320387 GTTGTAATAGAATAGG
1 GTTGTAATAGAATAGA
23320403 GTTGTAAT
1 GTTGTAAT
23320411 CAATATTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.03
16 33 0.94
17 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (16 bp):
GTTGTAATAGAATAGA
Found at i:23320596 original size:54 final size:57
Alignment explanation
Indices: 23320538--23320678 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 57
23320528 TTTTAATAAG
* * *
23320538 ATTATTATTAAATATAATTATAAAAAATA-A-ATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTATAAAAAATAGATATAATCTAATAACATTCTTAACATA
* *
23320592 ATTATTATTAAATACAATT-TAATAAAATAGTATATAATCTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTATAA-AAAATAG-ATATAATCTAATAACATTCTTAACATA
23320650 ATTATTATTAAAATATGAATTAATAAAAA
1 ATTATTATT-AAATAT-AATT-ATAAAAA
23320679 TTATACTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
53 3 0.04
54 24 0.33
56 1 0.01
57 13 0.18
58 16 0.22
59 5 0.07
60 4 0.06
61 3 0.04
62 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (57 bp):
ATTATTATTAAATATAATTATAAAAAATAGATATAATCTAATAACATTCTTAACATA
Found at i:23320611 original size:27 final size:26
Alignment explanation
Indices: 23320526--23320619 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 26
23320516 ATTGTTATTA
* *
23320526 AATTTTAATAAGATTATTATTAAATAT
1 AATTTTAA-AAAATTATTATTAAATAC
* * * *
23320553 AATTATAAAAAATAAATAATTTAAT-C
1 AATTTTAAAAAAT-TATTATTAAATAC
*
23320579 ATATTTTAACATAATTATTATTAAATAC
1 A-ATTTTAA-AAAATTATTATTAAATAC
23320607 AA-TTTAATAAAAT
1 AATTTTAA-AAAAT
23320620 AGTATATAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
26 14 0.28
27 30 0.60
28 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATTTTAAAAAATTATTATTAAATAC
Found at i:23321321 original size:13 final size:14
Alignment explanation
Indices: 23321303--23321332 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23321293 GCCAATGCAA
23321303 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
23321316 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
23321330 TCA
1 TCA
23321333 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:23323952 original size:21 final size:21
Alignment explanation
Indices: 23323910--23323958 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
23323900 CTCGATAGGG
23323910 TCCTTCTCTTCATTCTCATCT
1 TCCTTCTCTTCATTCTCATCT
* *
23323931 TTCTTCTCTTC-TTCTTCTTCT
1 TCCTTCTCTTCATTC-TCATCT
23323952 TCCTTCT
1 TCCTTCT
23323959 TCAACTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (21 bp):
TCCTTCTCTTCATTCTCATCT
Found at i:23327445 original size:85 final size:86
Alignment explanation
Indices: 23327289--23327489 Score: 246
Period size: 85 Copynumber: 2.3 Consensus size: 86
23327279 TTATTAGAAA
* * * *
23327289 AAACGCCGCTATAGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGTCACTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCACACAAACGCCACTAAAGAACATAGT
* *
23327354 CTTTAACGGCGCTTTCC-CTAT
66 CATTAACGGCGCTTTCCTC-AC
* * * **
23327375 AAATGCCGCTAAAGAACAT-ATCTTTAGC-AGCGCTTTTCATACAAACGCCGTTAAAGAACATAG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGA-CGCTTTTCACACAAACGCCACTAAAGAACATAG
* *
23327438 TCATTAACGGTGCTTTTCTCAC
65 TCATTAACGGCGCTTTCCTCAC
23327460 AAACGCCGCTAAAGAACATGGTCTTTAGCG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCG
23327490 GTGTTTATGA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
84 1 0.01
85 69 0.72
86 26 0.27
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCACACAAACGCCACTAAAGAACATAGT
CATTAACGGCGCTTTCCTCAC
Found at i:23327492 original size:43 final size:43
Alignment explanation
Indices: 23327289--23327490 Score: 228
Period size: 43 Copynumber: 4.7 Consensus size: 43
23327279 TTATTAGAAA
* *
23327289 AAACGCCGCTATAGAACATGGTCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * *
23327332 AAACGTCACTAAAGAACATGGTCTTTAACGGCGC-TTTCCCTAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCC-AC
* * * **
23327375 AAATGCCGCTAAAGAACAT-ATCTTTAGCAGCGCTTTTCATAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * * * *
23327417 AAACGCCGTTAAAGAACATAGTCATTAACGGTGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
23327460 AAACGCCGCTAAAGAACATGGTCTTTAGCGG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGG
23327491 TGTTTATGAG
Statistics
Matches: 128, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
42 35 0.27
43 93 0.73
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:23332052 original size:22 final size:20
Alignment explanation
Indices: 23332017--23332061 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
23332007 AAAAATAGTA
23332017 TAATATTTTTAAATA-AATAT
1 TAATATTTTTAAATATAA-AT
23332037 TAATATTTATTGAAATATAAAT
1 TAATATTT-TT-AAATATAAAT
23332059 TAA
1 TAA
23332062 ATAATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 10 0.45
23 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATATTTTTAAATATAAAT
Found at i:23332157 original size:41 final size:41
Alignment explanation
Indices: 23332098--23332267 Score: 209
Period size: 41 Copynumber: 4.2 Consensus size: 41
23332088 AAAATCCACT
*
23332098 TTTAGCGGCGCTTCCCCACAAGCGCCACTAATGCTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCACTAATGCTCTGACC
* ** * *
23332139 TTTAGCGGCGCTTTCCCACAAGCGCCGCT-ATTTTTTTACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCACTAATGCTCTGACC
* *
23332179 TTTAGCGGCGCTTTACCACAAGCGCCACTAATACTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCACTAATGCTCTGACC
* * * *
23332220 TTTAGCGGCGCTTTCCCATAAGCACCGCTAATGCT-TTACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCACTAATGCTCTGACC
*
23332260 TTTTGCGG
1 TTTAGCGG
23332268 GGTTTATGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 45 0.41
41 64 0.59
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGCTTTCCCACAAGCGCCACTAATGCTCTGACC
Found at i:23332233 original size:81 final size:81
Alignment explanation
Indices: 23332098--23332267 Score: 259
Period size: 81 Copynumber: 2.1 Consensus size: 81
23332088 AAAATCCACT
* * *
23332098 TTTAGCGGCGCTTCCCCACAAGCGCCACTAATGCTCTGACCTTTAGCGGCGCTTTCCCACAAGCG
1 TTTAGCGGCGCTTCACCACAAGCGCCACTAATACTCTGACCTTTAGCGGCGCTTTCCCACAAGCA
* **
23332163 CCGCTATTTTTTTACC
66 CCGCTAATGCTTTACC
* *
23332179 TTTAGCGGCGCTTTACCACAAGCGCCACTAATACTCTGACCTTTAGCGGCGCTTTCCCATAAGCA
1 TTTAGCGGCGCTTCACCACAAGCGCCACTAATACTCTGACCTTTAGCGGCGCTTTCCCACAAGCA
23332244 CCGCTAATGCTTTACC
66 CCGCTAATGCTTTACC
*
23332260 TTTTGCGG
1 TTTAGCGG
23332268 GGTTTATGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.29
Consensus pattern (81 bp):
TTTAGCGGCGCTTCACCACAAGCGCCACTAATACTCTGACCTTTAGCGGCGCTTTCCCACAAGCA
CCGCTAATGCTTTACC
Found at i:23333125 original size:40 final size:41
Alignment explanation
Indices: 23333081--23333324 Score: 103
Period size: 41 Copynumber: 6.0 Consensus size: 41
23333071 AACATTTTTT
* *
23333081 TCATAAACACCGCAAAAGGTAA-AGCAATTA-CGGTGTTTAC
1 TCATAAACACCGCAAAAGATAAGAGC-ATTAGCGGCGTTTAC
**
23333121 TCATAAATGCCGCAAAAGATAAGAGCATTAGCGGCGTTTA-
1 TCATAAACACCGCAAAAGATAAGAGCATTAGCGGCGTTTAC
* * * * * * *
23333161 TGAGAAA-ACGTCGTAAAAGGTCATAACATTAGCGGCGTTTA-
1 TCATAAACAC--CGCAAAAGATAAGAGCATTAGCGGCGTTTAC
* * * * * * *
23333202 TGAGAAA-ATGCTGCAAAAGGTTAGAGTATTAGCGGCGTTT-G
1 TCATAAACA--CCGCAAAAGATAAGAGCATTAGCGGCGTTTAC
* * * * *
23333243 TGAGAAA-ACGCTGCAAAAGGTAAGAGCATTAGCGACGTTT-G
1 TCATAAACAC-C-GCAAAAGATAAGAGCATTAGCGGCGTTTAC
* * *
23333284 TGAGAAAACGCCGCAAAATG-TAAGAGCATTAGCGGCGTTTA
1 TCA-TAAACACCGCAAAA-GATAAGAGCATTAGCGGCGTTTA
23333325 TGGGAAAAGT
Statistics
Matches: 166, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
39 2 0.01
40 28 0.17
41 129 0.78
42 5 0.03
43 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (41 bp):
TCATAAACACCGCAAAAGATAAGAGCATTAGCGGCGTTTAC
Found at i:23333179 original size:41 final size:41
Alignment explanation
Indices: 23333132--23333332 Score: 260
Period size: 41 Copynumber: 4.9 Consensus size: 41
23333122 CATAAATGCC
*
23333132 GCAAAAGATAAGAGCATTAGCGGCGTTTATGAGAAAACG-T
1 GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAACGCT
* * * * *
23333172 CGTAAAAGGTCATAACATTAGCGGCGTTTATGAGAAAATGCT
1 -GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAACGCT
* * *
23333214 GCAAAAGGTTAGAGTATTAGCGGCGTTTGTGAGAAAACGCT
1 GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAACGCT
* * *
23333255 GCAAAAGGTAAGAGCATTAGCGACGTTTGTGAGAAAACGCC
1 GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAACGCT
* *
23333296 GCAAAATGTAAGAGCATTAGCGGCGTTTATGGGAAAA
1 GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAA
23333333 GTGTCGCTAA
Statistics
Matches: 138, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 137 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (41 bp):
GCAAAAGGTAAGAGCATTAGCGGCGTTTATGAGAAAACGCT
Found at i:23333276 original size:123 final size:123
Alignment explanation
Indices: 23333132--23333364 Score: 317
Period size: 123 Copynumber: 1.9 Consensus size: 123
23333122 CATAAATGCC
* * * * *
23333132 GCAAAAGATAAGAGCATTAGCGGCGTTTATGAGAAAACGTCGTAAAAGGTCATAACATTAGCGGC
1 GCAAAAGATAAGAGCATTAGCGACGTTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGC
* *
23333197 GTTTATGAGAAAA-TG-CTGCAAAAGGTTAGAGTATTAGCGGCGTTTGTGAGAAAACGCT
66 GTTTATGAGAAAAGTGTC-GCAAAAGGTTA-AGCAATAGCGGCGTTTGTGAGAAAACGCT
* * * *
23333255 GCAAAAGGTAAGAGCATTAGCGACGTTTGTGAGAAAACGCCGCAAAATGTAAGAGCATTAGCGGC
1 GCAAAAGATAAGAGCATTAGCGACGTTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGC
* *
23333320 GTTTATGGGAAAAGTGTCGCTAAAGGTTAAGCAATAGCGGCGTTT
66 GTTTATGAGAAAAGTGTCGCAAAAGGTTAAGCAATAGCGGCGTTT
23333365 TCCCATAAAC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
123 82 0.86
124 12 0.13
125 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (123 bp):
GCAAAAGATAAGAGCATTAGCGACGTTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGC
GTTTATGAGAAAAGTGTCGCAAAAGGTTAAGCAATAGCGGCGTTTGTGAGAAAACGCT
Found at i:23333358 original size:41 final size:40
Alignment explanation
Indices: 23333131--23333364 Score: 245
Period size: 41 Copynumber: 5.7 Consensus size: 40
23333121 TCATAAATGC
* *
23333131 CGCAAAAGATAAGAGCATTAGCGGCGTTTATGAGAAAACG
1 CGCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAACG
* * * * *
23333171 TCGTAAAAGGTCATAACATTAGCGGCGTTTATGAGAAAATG
1 -CGCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAACG
* *
23333212 CTGCAAAAGGTTAGAGTATTAGCGGCGTTTGTGAGAAAACG
1 C-GCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAACG
* * *
23333253 CTGCAAAAGGTAAGAGCATTAGCGACGTTTGTGAGAAAACG
1 C-GCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAACG
* * * *
23333294 CCGCAAAATGTAAGAGCATTAGCGGCGTTTATGGGAAAAGTG
1 -CGCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAA-CG
* *
23333336 TCGCTAAAGGTTA-AGCAATAGCGGCGTTT
1 -CGCAAAAGGTTAGAGCATTAGCGGCGTTT
23333365 TCCCATAAAC
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 152 0.93
42 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (40 bp):
CGCAAAAGGTTAGAGCATTAGCGGCGTTTATGAGAAAACG
Found at i:23333375 original size:82 final size:80
Alignment explanation
Indices: 23333095--23333364 Score: 226
Period size: 82 Copynumber: 3.3 Consensus size: 80
23333085 AAACACCGCA
* * *
23333095 AAAGGTAAAGCAATTA-CGGTGTTTACTCA-TAAATGCCGCAAAAGATAAGAGCATTAGCGGCGT
1 AAAGGTAAAGCAA-TAGCGGCGTTTA-TCACAAAACGCCGCAAAAG-TAAGAGCATTAGCGGCGT
23333158 TTATGAGAAAACGTCG-T
63 TTATGAGAAAACGTCGCT
* * * * * * *
23333175 AAAAGGTCATAA-CATTAGCGGCGTTTATGAGAAAATGCTGCAAAAGGTTAGAGTATTAGCGGCG
1 -AAAGGT-A-AAGCAATAGCGGCGTTTATCACAAAACGCCGCAAAA-GTAAGAGCATTAGCGGCG
* *
23333239 TTTGTGAGAAAACG-CTGCA
62 TTTATGAGAAAACGTC-GCT
* * * * *
23333258 AAAGGTAAGAGCATTAGCGACGTTTGTGAGAAAACGCCGCAAAATGTAAGAGCATTAGCGGCGTT
1 AAAGGTAA-AGCAATAGCGGCGTTTATCACAAAACGCCGCAAAA-GTAAGAGCATTAGCGGCGTT
* *
23333323 TATGGGAAAAGTGTCGCT
64 TATGAGAAAA-CGTCGCT
*
23333341 AAAGGTTAAGCAATAGCGGCGTTT
1 AAAGGTAAAGCAATAGCGGCGTTT
23333365 TCCCATAAAC
Statistics
Matches: 155, Mismatches: 23, Indels: 21
0.78 0.12 0.11
Matches are distributed among these distances:
80 1 0.01
81 13 0.08
82 127 0.82
83 13 0.08
84 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (80 bp):
AAAGGTAAAGCAATAGCGGCGTTTATCACAAAACGCCGCAAAAGTAAGAGCATTAGCGGCGTTTA
TGAGAAAACGTCGCT
Found at i:23333375 original size:123 final size:122
Alignment explanation
Indices: 23333092--23333375 Score: 304
Period size: 123 Copynumber: 2.3 Consensus size: 122
23333082 CATAAACACC
* * * * * *
23333092 GCAAAAGGTAAAGCAATTA-CGGTGTTTACTCATAAATGCCGCAAAAGATAAGAGCATTAGCGGC
1 GCAAAAGGTTAAGCAA-TAGCGGCGTTTTCACATAAACGCCGCAAAAGATAAGAGCATTAGCGAC
* * * *
23333156 GTTTATGAGAAAACGTCGTAAAAGGTCATAACATTAGCGGCGTTTATGAGAAAATGCT
65 GTTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGCGTTTATGAGAAAATGCT
* * * * * *
23333214 GCAAAAGGTTAGAGTATTAGCGGCGTTTGTGAGA-AAACGCTGCAAAAGGTAAGAGCATTAGCGA
1 GCAAAAGGTTA-AGCAATAGCGGCGTTT-TCACATAAACGCCGCAAAAGATAAGAGCATTAGCGA
* * * *
23333278 CGTTTGTGAGAAAACGCCGCAAAATGTAAGAGCATTAGCGGCGTTTATGGGAAAAGTG-T
64 CGTTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGCGTTTATGAGAAAA-TGCT
* *
23333337 CGCTAAAGGTTAAGCAATAGCGGCGTTTTCCCATAAACG
1 -GCAAAAGGTTAAGCAATAGCGGCGTTTTCACATAAACG
23333376 TCGCTAATTT
Statistics
Matches: 130, Mismatches: 26, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
122 14 0.11
123 103 0.79
124 13 0.10
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (122 bp):
GCAAAAGGTTAAGCAATAGCGGCGTTTTCACATAAACGCCGCAAAAGATAAGAGCATTAGCGACG
TTTATGAGAAAACGCCGCAAAAGGTAAGAACATTAGCGGCGTTTATGAGAAAATGCT
Found at i:23334792 original size:36 final size:36
Alignment explanation
Indices: 23334734--23334803 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
23334724 GAGGTTAAGC
* *
23334734 AATAGCGGTATTTATGAGAAAAATGCCGCAAAAAAT
1 AATAGCGGCATTTATGAGAAAAACGCCGCAAAAAAT
* *
23334770 AATAGCGGCGTTTATG-GAAAAAACGTCGCAAAAA
1 AATAGCGGCATTTATGAG-AAAAACGCCGCAAAAA
23334804 GTAAGAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.03
36 28 0.97
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (36 bp):
AATAGCGGCATTTATGAGAAAAACGCCGCAAAAAAT
Found at i:23334844 original size:41 final size:41
Alignment explanation
Indices: 23334772--23334904 Score: 155
Period size: 38 Copynumber: 3.3 Consensus size: 41
23334762 CAAAAAATAA
* *
23334772 TAGCGGCGTTTATGGAAAAAACGTCGCAAAAAGTAAGAGCAT
1 TAGCGACGTTTATGG-GAAAACGTCGCAAAAAGTAAGAGCAT
* *
23334814 TAGCGACGTTTATGGGAAAACATCGCAAAAAGTAAAAGCAT
1 TAGCGACGTTTATGGGAAAACGTCGCAAAAAGTAAGAGCAT
* * *
23334855 TA--G-CGTTTATGGGAAAACGCCGTAAAAGGTAAGAGCAT
1 TAGCGACGTTTATGGGAAAACGTCGCAAAAAGTAAGAGCAT
**
23334893 TAATGACGTTTA
1 TAGCGACGTTTA
23334905 AGAAAAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
38 32 0.41
39 1 0.01
40 1 0.01
41 31 0.39
42 14 0.18
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (41 bp):
TAGCGACGTTTATGGGAAAACGTCGCAAAAAGTAAGAGCAT
Found at i:23336345 original size:2 final size:2
Alignment explanation
Indices: 23336338--23336363 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23336328 CAGTGCCATA
23336338 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
23336364 TCTGTAATCT
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:23338084 original size:15 final size:15
Alignment explanation
Indices: 23338064--23338092 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23338054 CATAAACACC
23338064 GTTATCTTTAGCGGT
1 GTTATCTTTAGCGGT
23338079 GTTATCTTTAGCGG
1 GTTATCTTTAGCGG
23338093 CAAGCACCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.45
Consensus pattern (15 bp):
GTTATCTTTAGCGGT
Found at i:23340865 original size:24 final size:22
Alignment explanation
Indices: 23340833--23340884 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
23340823 TTTTTTATTC
*
23340833 TAGTCTTAGGTTACAACTTTCATT
1 TAGTTTTAGGTTACAA-TTTC-TT
* *
23340857 TAGTTTTAGTTTCCAATTTCTT
1 TAGTTTTAGGTTACAATTTCTT
23340879 TAGTTT
1 TAGTTT
23340885 AATTTGTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 4 0.16
24 13 0.52
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (22 bp):
TAGTTTTAGGTTACAATTTCTT
Found at i:23345574 original size:76 final size:77
Alignment explanation
Indices: 23345469--23345616 Score: 235
Period size: 76 Copynumber: 1.9 Consensus size: 77
23345459 GAAAATCGAA
* * *
23345469 ATTATTCTCTTATTATTAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATTATATT-TTTCCAAA
1 ATTATTCACTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATCATATTCTTTCCAAA
*
23345533 AGAATATATATG
66 AAAATATATATG
* *
23345545 ATTATTCACTTATTAATAGAGAAGTCAAATGGAAAGTTAGAAAAATGAATCATGTTCTTTCCAAA
1 ATTATTCACTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATCATATTCTTTCCAAA
23345610 AAAATAT
66 AAAATAT
23345617 TAATTTTCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 51 0.78
77 14 0.22
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (77 bp):
ATTATTCACTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATCATATTCTTTCCAAA
AAAATATATATG
Found at i:23345800 original size:71 final size:70
Alignment explanation
Indices: 23345720--23345938 Score: 152
Period size: 71 Copynumber: 3.1 Consensus size: 70
23345710 GTATGAATCA
*
23345720 AATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATC
1 AATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG-CTTTTATATTTTGATC
23345785 GAAATT
65 GAAATT
** * * * * * *
23345791 AATTAATATAATTGTTTATATTAATAAATTCGATAA-AATA-T-A--TACA---ATTAATATTTT
1 AATTAATAT-ATTAATTATATT-CT---TTCCAAAAGAATATTAATTTCCATGCTTTTATATTTT
*
23345848 GTAT-G-AATCA
61 G-ATCGAAAT-T
* * * *
23345858 AATTCATATATTAATTATATTCTTTACAGAAGAATATTAATTTCCATGCCTTTTATATTTTGACC
1 AATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG-CTTTTATATTTTGATC
*
23345923 TAAATT
65 GAAATT
23345929 AATTAATATA
1 AATTAATATA
23345939 ACTATTTCTA
Statistics
Matches: 106, Mismatches: 24, Indels: 36
0.64 0.14 0.22
Matches are distributed among these distances:
62 5 0.05
63 4 0.04
64 1 0.01
65 2 0.02
66 13 0.12
67 22 0.21
68 2 0.02
70 1 0.01
71 30 0.28
72 13 0.12
73 2 0.02
74 1 0.01
75 4 0.04
76 6 0.06
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (70 bp):
AATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGCTTTTATATTTTGATCG
AAATT
Found at i:23345876 original size:138 final size:138
Alignment explanation
Indices: 23345599--23345973 Score: 581
Period size: 138 Copynumber: 2.7 Consensus size: 138
23345589 ATGAATCATG
* * *
23345599 TTCTTTCCAAAAAAATATTAATTTTCATGTCTTTTACATTTTGATCGAAATTAATTAATATAACT
1 TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATATAA-T
* *
23345664 GTTTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATAT
65 -TATTTATATTAATAAATTCGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATAT
23345729 ATTAATTATA
129 ATTAATTATA
23345739 TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATATAATT
1 TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATATAATT
* *
23345804 GTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATAT
66 ATTTATATTAATAAATTCGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATATAT
23345869 TAATTATA
131 TAATTATA
* * * * * *
23345877 TTCTTTACAGAAGAATATTAATTTCCATGCCTTTTATATTTTGACCTAAATTAATTAATATAACT
1 TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATATAATT
* *
23345942 ATTTCTATTAATAAATTC-AGTAATATATATAA
66 ATTTATATTAATAAATTCGA-TAAAATATATAA
23345974 TTATATATAT
Statistics
Matches: 218, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
137 1 0.00
138 156 0.72
139 1 0.00
140 60 0.28
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATATAATT
ATTTATATTAATAAATTCGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATATAT
TAATTATA
Found at i:23347490 original size:13 final size:14
Alignment explanation
Indices: 23347472--23347501 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23347462 ATCAACGCAA
23347472 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
23347485 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
23347499 TCA
1 TCA
23347502 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:23348129 original size:41 final size:40
Alignment explanation
Indices: 23348056--23348373 Score: 286
Period size: 41 Copynumber: 7.8 Consensus size: 40
23348046 AATGGTAAAG
* *
23348056 CATTAGCGGCGCTTAACCCAAGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTATCTCAAGCGCCGCTAAAGGTCGGGT
* * *
23348096 CATTAGTGGCGCTTAATCACAAGCGCCGCTAAAGGTCAGGT
1 CATTAGCGGCGCTT-ATCTCAAGCGCCGCTAAAGGTCGGGT
* * * * **
23348137 CATTAGCGGCACTTGTGGGTGAAGCGCCGCTAAAGGTATGGT
1 CATTAGCGGCGCTTAT--CTCAAGCGCCGCTAAAGGTCGGGT
* ** *
23348179 AATTAGCGGCGCTT-TCCCTCAAGCGCCGCTAAAGGTAAGAT
1 CATTAGCGGCGCTTAT--CTCAAGCGCCGCTAAAGGTCGGGT
*
23348220 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGC-TTATCTCAAGCGCCGCTAAAGGTCGGGT
* *
23348261 CATTAGCGGCGCTT-TCCTTTAAGCGTCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTAT-C-TCAAGCGCCGCTAAAGGTCGGGT
* * * *
23348302 CATTAGCGGCGCTTTTCTAGTAAGCGTCGCTAAAGGT-GTG-
1 CATTAGCGGCGCTTATCT--CAAGCGCCGCTAAAGGTCGGGT
*
23348342 CATTAGCGGCGCTT-TCCCATAAGCGCCGCTAA
1 CATTAGCGGCGCTTATCTC--AAGCGCCGCTAA
23348374 TTTATTTAAA
Statistics
Matches: 234, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
39 13 0.06
40 32 0.14
41 138 0.59
42 51 0.22
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (40 bp):
CATTAGCGGCGCTTATCTCAAGCGCCGCTAAAGGTCGGGT
Found at i:23348210 original size:124 final size:122
Alignment explanation
Indices: 23348057--23348373 Score: 334
Period size: 124 Copynumber: 2.6 Consensus size: 122
23348047 ATGGTAAAGC
* ** * * *
23348057 ATTAGCGGCGCTTAACCCAAGCGCCGCTAAAGGTCGGGTCATTAGTGGCGCTTAATCACAAGCGC
1 ATTAGCGGCGCTTTACCCAAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTAACCACAAGCGC
** *
23348122 CGCTAAAGGTCAGGTCATTAGCGGCACTTGTGGGTGAAGCGCCGCTAAAGGTATGGTA
66 CGCTAAAGGTCAGGTCATTAGCGGCACTT-TCCGTGAAGCGCCGCTAAAGGTAGGGTA
* * *
23348180 ATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTACCTCAAGCG
1 ATTAGCGGCGCTTTACC-CAAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTAACCACAAGCG
* * * * * * *
23348245 CCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCTTTAAGCGTCGCTAAAGGTCGGGTC
65 CCGCTAAAGGTCAGGTCATTAGCGGCACTTTCCGTGAAGCGCCGCTAAAGGTAGGGTA
* ** * ** *
23348303 ATTAGCGGCGCTTTTCTAGTAAGCGTCGCTAAAGGT--G-TGCATTAGCGGCGCTTTCCCATAAG
1 ATTAGCGGCGCTTTAC--CCAAGCGCCGCTAAAGGTAAGAT-CATTAGCGGCGCTTAACCACAAG
23348365 CGCCGCTAA
63 CGCCGCTAA
23348374 TTTATTTAAA
Statistics
Matches: 164, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
121 1 0.01
122 30 0.18
123 50 0.30
124 83 0.51
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (122 bp):
ATTAGCGGCGCTTTACCCAAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTAACCACAAGCGC
CGCTAAAGGTCAGGTCATTAGCGGCACTTTCCGTGAAGCGCCGCTAAAGGTAGGGTA
Found at i:23348293 original size:165 final size:161
Alignment explanation
Indices: 23348056--23348373 Score: 428
Period size: 165 Copynumber: 1.9 Consensus size: 161
23348046 AATGGTAAAG
*
23348056 CATTAGCGGCGCTTAACCCAAGCGCCGCTAAAGGTCGGGTCATTAGTGGCGCTTAATCACAAGCG
1 CATTAGCGGCGCTTAACCCAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-ATCACAAGCG
*
23348121 CCGCTAAAGGTCAGGTCATTAGCGGCACTTGT-GGGTGAAGCGCCGCTAAAGGTATGGTAATTAG
65 CCGCTAAAGGTCAGGTCATTAGCGGCACTTGTCGAGT-AAGCGCCGCTAAAGGTAT-G-AATTAG
23348185 CGGCGCTTTCCC-TCAAGCGCCGCTAAAGGTAAGAT
127 CGGCGCTTTCCCAT-AAGCGCCGCTAAAGGTAAGAT
*
23348220 CATTAGCGGCGCTTTACCTCAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-TC-CTTTAA
1 CATTAGCGGCGCTTAACC-CAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATCAC---AA
* * * * * * * *
23348283 GCGTCGCTAAAGGTCGGGTCATTAGCGGCGCTTTTCTAGTAAGCGTCGCTAAAGGTGTGCATTAG
62 GCGCCGCTAAAGGTCAGGTCATTAGCGGCACTTGTCGAGTAAGCGCCGCTAAAGGTATGAATTAG
23348348 CGGCGCTTTCCCATAAGCGCCGCTAA
127 CGGCGCTTTCCCATAAGCGCCGCTAA
23348374 TTTATTTAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
162 1 0.01
163 31 0.23
164 19 0.14
165 84 0.61
166 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (161 bp):
CATTAGCGGCGCTTAACCCAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATCACAAGCGC
CGCTAAAGGTCAGGTCATTAGCGGCACTTGTCGAGTAAGCGCCGCTAAAGGTATGAATTAGCGGC
GCTTTCCCATAAGCGCCGCTAAAGGTAAGAT
Found at i:23350721 original size:15 final size:15
Alignment explanation
Indices: 23350701--23350731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23350691 CAATACACAT
*
23350701 ACCTAACTAGCCTGA
1 ACCTAACCAGCCTGA
23350716 ACCTAACCAGCCTGA
1 ACCTAACCAGCCTGA
23350731 A
1 A
23350732 AGAAAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.16
Consensus pattern (15 bp):
ACCTAACCAGCCTGA
Found at i:23352309 original size:10 final size:9
Alignment explanation
Indices: 23352266--23352439 Score: 51
Period size: 8 Copynumber: 18.9 Consensus size: 9
23352256 TTTAATAGGT
23352266 TTAATTAT-
1 TTAATTATA
23352274 TTAATTATA
1 TTAATTATA
*
23352283 TTAAACTA-A
1 TT-AATTATA
*
23352292 ATAATTATA
1 TTAATTATA
23352301 TTAAATTAT-
1 TT-AATTATA
*
23352310 TTAATTATGT
1 TTAATTAT-A
23352320 TTAATTATGTA
1 TTAATTA--TA
23352331 TTTAATTATA
1 -TTAATTATA
* * *
23352341 -AACAGTACCAA
1 TTA-ATTA--TA
23352352 TTAATTA-A
1 TTAATTATA
* *
23352360 ATATTTA-A
1 TTAATTATA
* *
23352368 TTAAATAGA
1 TTAATTATA
23352377 TTTAATTAT-
1 -TTAATTATA
23352386 TTAATTATA
1 TTAATTATA
*
23352395 TTAAACTA-A
1 TT-AATTATA
*
23352404 ATAATTATA
1 TTAATTATA
23352413 TTAAATTAT-
1 TT-AATTATA
*
23352422 TTAATTATGT
1 TTAATTAT-A
23352432 TTAATTAT
1 TTAATTAT
23352440 GTATTAAATT
Statistics
Matches: 124, Mismatches: 21, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
8 48 0.39
9 20 0.16
10 43 0.35
11 4 0.03
12 9 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (9 bp):
TTAATTATA
Found at i:23352314 original size:18 final size:18
Alignment explanation
Indices: 23352268--23352775 Score: 141
Period size: 18 Copynumber: 27.3 Consensus size: 18
23352258 TAATAGGTTT
23352268 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
23352286 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
23352304 AATTATTTAATTATGTTTA
1 AATTATTTAATTAT-ATTA
23352323 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
23352342 ACAGTA-CCAATTA-ATTA
1 A-ATTATTTAATTATATTA
*
23352359 AA-TATTTAATTAAATAGATTT
1 AATTATTTAATT--AT--ATTA
23352380 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
23352398 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
23352416 AATTATTTAATTATGTTT
1 AATTATTTAATTATATTA
* *
23352434 AATTATGT-ATTAAATTA
1 AATTATTTAATTATATTA
** *
23352451 TAAACAGTATCAATTA-ATTAAA
1 -AATTA-T-TTAATTATATT--A
* *
23352473 TAATTAATTTAA-AATATTT
1 -AATT-ATTTAATTATATTA
23352492 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
23352510 AAGTAAATGATTATATTA
1 AATTATTTAATTATATTA
* * * *
23352528 AATCAATTAATTATGTTT
1 AATTATTTAATTATATTA
* *
23352546 AATTATGT-ATTAAATTGTA
1 AATTATTTAATTATA-T-TA
* *
23352565 AACCGTA-TCAATTA-ATTA
1 AA--TTATTTAATTATATTA
* *
23352583 AA-TATTTAATTTAAAGATTT
1 AATTATTTAA-TT--ATATTA
23352603 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
23352621 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * * *
23352639 AATCAATTAATTATGTTT
1 AATTATTTAATTATATTA
* *
23352657 AATTATGT-ATTAAATTGTA
1 AATTATTTAATTATA-T-TA
* *
23352676 AA-CAGTATCAATTA-ATTA
1 AATTA-T-TTAATTATATTA
*
23352694 AA-TATTTAATTTAAAAGATTTA
1 AATTATTTAA-TT---ATA-TTA
23352716 AA-TATTTAATTTATATTA
1 AATTATTTAA-TTATATTA
* **
23352734 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
23352752 AATTATTTAATTATGTTT
1 AATTATTTAATTATATTA
23352770 AATTAT
1 AATTAT
23352776 GTATTTAATT
Statistics
Matches: 356, Mismatches: 89, Indels: 90
0.67 0.17 0.17
Matches are distributed among these distances:
15 5 0.01
16 16 0.04
17 29 0.08
18 190 0.53
19 24 0.07
20 16 0.04
21 35 0.10
22 40 0.11
23 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:23352381 original size:14 final size:12
Alignment explanation
Indices: 23352352--23352428 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
23352342 ACAGTACCAA
23352352 TTAATTAAATAT
1 TTAATTAAATAT
23352364 TTAATTAAATA-
1 TTAATTAAATAT
* * *
23352375 -GATTTAATTAT
1 TTAATTAAATAT
23352386 TTAATT--ATAT
1 TTAATTAAATAT
* * *
23352396 TAAACTAAATAA
1 TTAATTAAATAT
23352408 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
23352422 TTAATTA
1 TTAATTA
23352429 TGTTTAATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
10 14 0.30
12 19 0.40
13 9 0.19
14 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:23352394 original size:112 final size:111
Alignment explanation
Indices: 23352210--23352806 Score: 926
Period size: 112 Copynumber: 5.3 Consensus size: 111
23352200 AATAATTAAA
* * * * *
23352210 TAATTATATATTTAATTATAAACAGTACCAATT-ATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
*
23352274 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
23352321 TAATTATGTATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTAAATAGATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAA-AGATTTAATTAT
*
23352386 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
23352433 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
* * *
23352498 TTAATTATATTAAAGTAAATGATTATATTAAATCAATTAATTATGTT
65 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * *
23352545 TAATTATGTATTAAATTGTAAACCGTATCAATTAATTAAATATTTAATTTAAAGATTTAATTATT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAATTATT
* *
23352610 TAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTT
66 TAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
23352656 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAA-TTAAAAGATTTAATTAT
23352721 TTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
65 TTAA-TTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * *
23352769 TAATTATGTATTTAATTGTAAACAATATCAATTAATTA
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTA
23352807 TTTAATTATA
Statistics
Matches: 457, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
111 143 0.31
112 232 0.51
113 82 0.18
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (111 bp):
TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTAAAAGATTTAATTATT
TAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
Found at i:23352841 original size:14 final size:12
Alignment explanation
Indices: 23352687--23352902 Score: 79
Period size: 12 Copynumber: 17.6 Consensus size: 12
23352677 ACAGTATCAA
23352687 TTAATTAAATAT
1 TTAATTAAATAT
23352699 TTAATTTAAA-A-
1 TTAA-TTAAATAT
* *
23352710 -GATTTAAATAT
1 TTAATTAAATAT
*
23352721 TTAATT-TATAT
1 TTAATTAAATAT
* * *
23352732 TAAAGTAAATAA
1 TTAATTAAATAT
23352744 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
*
23352758 TTAATT--ATGT
1 TTAATTAAATAT
**
23352768 TTAATTATGTAT
1 TTAATTAAATAT
*
23352780 TTAATTGTAAACAAT
1 TTAA-T-TAAA-TAT
* *
23352795 ATCAATTAATTAT
1 -TTAATTAAATAT
23352808 TTAATT--ATAT
1 TTAATTAAATAT
23352818 TTAATTAAATAT
1 TTAATTAAATAT
23352830 TTAATTTAAAATAT
1 TTAA-TT-AAATAT
***
23352844 TTTCCTAAATAAAT
1 TTAATTAAAT--AT
* * *
23352858 ATAATTAATTAA
1 TTAATTAAATAT
*
23352870 TTAATTAATTATAC
1 TTAATTAA--ATAT
*
23352884 TAAATTAAATAT
1 TTAATTAAATAT
23352896 TTAATTA
1 TTAATTA
23352903 TTTAATTAAT
Statistics
Matches: 145, Mismatches: 38, Indels: 42
0.64 0.17 0.19
Matches are distributed among these distances:
9 5 0.03
10 19 0.13
11 9 0.06
12 53 0.37
13 19 0.13
14 34 0.23
15 3 0.02
16 3 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:23352866 original size:4 final size:4
Alignment explanation
Indices: 23352859--23352912 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
23352849 TAAATAAATA
* * * *
23352859 TAAT TAAT TAAT TAAT TAAT TATACT AAAT TAAA TATT TAAT TATT TAAT
1 TAAT TAAT TAAT TAAT TAAT TA-A-T TAAT TAAT TAAT TAAT TAAT TAAT
23352909 TAAT
1 TAAT
23352913 AAAAACAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 36 0.90
5 2 0.05
6 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:23352988 original size:31 final size:33
Alignment explanation
Indices: 23352932--23352998 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
23352922 CAAAATATTT
23352932 AAGTAAAATGTTGTCACTAATATATATATTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
23352965 AAGTAAAATGTTGTCACTAATATATAT-TTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
23352997 AA
1 AA
23352999 TTTAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
AAGTAAAATGTTGTCACTAATATATATATTTTA
Found at i:23357366 original size:66 final size:67
Alignment explanation
Indices: 23357218--23357376 Score: 223
Period size: 66 Copynumber: 2.4 Consensus size: 67
23357208 GCAAATTGCT
* * *
23357218 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTAAAAAAAAAATATGATGAACTCCATC
1 CAACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTAAAAAAAAAATATGAAGAACTCCACC
23357283 TA
66 TA
* * * *
23357285 AAACTTAAAGAGGAGGCTACAGTGAGAGAAGCAGAGTCT-CAAAAAAAATATGAAGAACTCCACC
1 CAACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTAAAAAAAAAATATGAAGAACTCCACC
23357349 TA
66 TA
*
23357351 CAACTTAAAGTGGAGGC-AGCAGCGAG
1 CAACTTAAAGAGGAGGCTA-CAGCGAG
23357377 GCAAGCGAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.01
66 45 0.56
67 35 0.43
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (67 bp):
CAACTTAAAGAGGAGGCTACAGCGAGAGAAGCAGAGGCTAAAAAAAAAATATGAAGAACTCCACC
TA
Found at i:23357614 original size:15 final size:15
Alignment explanation
Indices: 23357594--23357622 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23357584 ATTTGAAGTT
23357594 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
23357609 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
23357623 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:23358935 original size:16 final size:17
Alignment explanation
Indices: 23358906--23358942 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
23358896 TATCATAATT
*
23358906 TTTTTCTTCTTTTTTCC
1 TTTTTCTTCATTTTTCC
23358923 TTTTTCTT-ATTTTTCC
1 TTTTTCTTCATTTTTCC
23358939 TTTT
1 TTTT
23358943 CAAGTGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTCATTTTTCC
Found at i:23361896 original size:21 final size:21
Alignment explanation
Indices: 23361872--23361911 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23361862 GCAAGGAATT
*
23361872 TGAAACAAACACAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
23361893 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
23361912 TAGAATAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.10, G:0.12, T:0.12
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:23368233 original size:16 final size:18
Alignment explanation
Indices: 23368199--23368240 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
23368189 GGGGTAAAAA
*
23368199 TCATATTTCACTTCAATTC
1 TCAT-TTTCACATCAATTC
23368218 T-ATTTTCACATC-ATTC
1 TCATTTTCACATCAATTC
23368234 TCATTTT
1 TCATTTT
23368241 TGTCCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 2 0.10
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (18 bp):
TCATTTTCACATCAATTC
Found at i:23369279 original size:18 final size:18
Alignment explanation
Indices: 23369256--23369296 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23369246 TTTTATTTTA
23369256 TATTATATAATAAAATAT
1 TATTATATAATAAAATAT
* * *
23369274 TATTATTTATTATAATAT
1 TATTATATAATAAAATAT
23369292 TATTA
1 TATTA
23369297 ATTAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATAATAAAATAT
Found at i:23369305 original size:18 final size:18
Alignment explanation
Indices: 23369263--23369305 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23369253 TTATATTATA
* *
23369263 TAATAAAATATTATTATT
1 TAATATAATATTATTAAT
*
23369281 TATTATAATATTATTAAT
1 TAATATAATATTATTAAT
23369299 TAATATA
1 TAATATA
23369306 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATAATATTATTAAT
Found at i:23375137 original size:137 final size:138
Alignment explanation
Indices: 23374793--23375214 Score: 647
Period size: 137 Copynumber: 3.1 Consensus size: 138
23374783 GAGAACATAG
*
23374793 ATAAAATTAATATATAAATTT-ATTTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
1 ATAAAATTAATATATAAATTTGA-TTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
*
23374857 TAACATAAACAATTATATTAATTAATTTC-AGTCAAAATATAAAA-AAATATGGAAATTAATATT
65 TAATATAAACAATTATATTAATTAATTTCGA-TCAAAATATAAAAGAAA-A-GGAAATTAATATT
23374920 CTTTTGGAAAGA
127 CTTTTGGAAAGA
* *
23374932 ATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTTCCGAATTTATT
1 ATAAAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
23374997 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGAAAAGGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGAAAAGGAAATTAATATTCTTT
23375062 TGGAAAGA
131 TGGAAAGA
*
23375070 ATAAAATTAA-ATATAAATTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATT
1 ATAAAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * *
23375134 AATATAAACAGTTATATTAATTAATTTTGGTCAAATTATAAAAGACATA-GAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGA-AAAGGAAATTAATATTCTT
* *
23375198 TTAGAAAAA
130 TTGGAAAGA
*
23375207 ATATAATT
1 ATAAAATT
23375215 CCTTTTTCTA
Statistics
Matches: 264, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
137 122 0.46
138 36 0.14
139 101 0.38
140 5 0.02
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (138 bp):
ATAAAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTCGATCAAAATATAAAAGAAAAGGAAATTAATATTCTTT
TGGAAAGA
Found at i:23375622 original size:11 final size:11
Alignment explanation
Indices: 23375608--23375663 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
23375598 ACTAAACCTT
23375608 TTTTAAATTTA
1 TTTTAAATTTA
*
23375619 TTTTAAGATTAA
1 TTTTAA-ATTTA
* *
23375631 ATTT-ATTTTAA
1 TTTTAAATTT-A
*
23375642 ATTTAAATTTA
1 TTTTAAATTTA
23375653 TTTTAAATTTA
1 TTTTAAATTTA
23375664 AAATGAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 2 0.06
11 23 0.64
12 11 0.31
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:23375632 original size:17 final size:17
Alignment explanation
Indices: 23375609--23375711 Score: 121
Period size: 17 Copynumber: 6.4 Consensus size: 17
23375599 CTAAACCTTT
23375609 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
23375627 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
23375643 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
23375660 TTTAAA---A---TGAA
1 TTTAAATTTATTTTAAA
23375671 TTTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
23375689 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
23375706 TTTAAA
1 TTTAAA
23375712 ATTAATAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
11 9 0.12
14 2 0.03
16 1 0.01
17 50 0.68
18 12 0.16
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23375646 original size:6 final size:6
Alignment explanation
Indices: 23375609--23375716 Score: 75
Period size: 6 Copynumber: 18.8 Consensus size: 6
23375599 CTAAACCTTT
* * *
23375609 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** * *
23375654 TTTAAA TTTAAA -ATGAA TTTAAA TTTACT TTTAAA TTTAAA ATT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
23375700 TTTAAA TTTAAA ATTAA
1 TTTAAA TTTAAA TTTAA
23375717 TAAAATCCCA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
5 19 0.25
6 57 0.75
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:23375693 original size:29 final size:28
Alignment explanation
Indices: 23375641--23375709 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 28
23375631 ATTTATTTTA
23375641 AATTTAAATTTATTTTAAATTTAAAATG
1 AATTTAAATTTATTTTAAATTTAAAATG
*
23375669 AATTTAAATTTACTTTTAAATTTAAAATT
1 AATTTAAATTTA-TTTTAAATTTAAAATG
*
23375698 ATTTTAAATTTA
1 AATTTAAATTTA
23375710 AAATTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 12 0.32
29 26 0.68
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
AATTTAAATTTATTTTAAATTTAAAATG
Found at i:23375702 original size:46 final size:45
Alignment explanation
Indices: 23375627--23375713 Score: 156
Period size: 46 Copynumber: 1.9 Consensus size: 45
23375617 TATTTTAAGA
*
23375627 TTAAATTTATTTTAAATTTAAATTTATTTTAAATTTAAAATGAAT
1 TTAAATTTATTTTAAATTTAAAATTATTTTAAATTTAAAATGAAT
23375672 TTAAATTTACTTTTAAATTTAAAATTATTTTAAATTTAAAAT
1 TTAAATTTA-TTTTAAATTTAAAATTATTTTAAATTTAAAAT
23375714 TAATAAAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 9 0.22
46 31 0.77
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (45 bp):
TTAAATTTATTTTAAATTTAAAATTATTTTAAATTTAAAATGAAT
Found at i:23377510 original size:60 final size:58
Alignment explanation
Indices: 23377446--23377818 Score: 237
Period size: 60 Copynumber: 6.4 Consensus size: 58
23377436 TTTGACCTTA
* *
23377446 AAACTTTCCAAAAATTACATTTTGATCCTCAAACTTTTCAAAAATTGTATTTTAACCCCT
1 AAACTTTCCAAAAATTACATTTT-ACCCTCAAAC-TTCCAAAAATTGTATTTTAACCCCT
** ** *
23377506 AAAC-TTCTTGAAAATTACATTTTAACCC-CTAAACTTTCCAAAAATTACATTTTAACCTCT
1 AAACTTTC-CAAAAATTACATTTT-ACCCTC-AAAC-TTCCAAAAATTGTATTTTAACCCCT
* * * *
23377566 AAA-TTTCTCAAAAATTACATTCTAACCCTCAAACTTCTCAAAAATTCTATTTTTACCGCT
1 AAACTTTC-CAAAAATTACATT-TTACCCTCAAACTTC-CAAAAATTGTATTTTAACCCCT
* * * * * * *** * *
23377626 AAGC-TTCCAAAAATTCCATTTTTGCCCTCGAACGTCCAAAAGTCACATTTT-TCCCCC
1 AAACTTTCCAAAAATTACA-TTTTACCCTCAAACTTCCAAAAATTGTATTTTAACCCCT
* * * * * *
23377683 GAAC-TTCCAAAAATCACATTTTTCCTTCAAACTTCCAAAAATCGTATTTTTACCCC-
1 AAACTTTCCAAAAATTACATTTTACCCTCAAACTTCCAAAAATTGTATTTTAACCCCT
* * * * *
23377739 GAA-TTTCCCAAAATGACATTTTTACCCCTAAAACTTTCC-AAAATTGAATTTTAACCCC-
1 AAACTTTCCAAAAATTACA-TTTTA-CCCTCAAAC-TTCCAAAAATTGTATTTTAACCCCT
* *
23377797 AAACTCTCCAAAACTT-CATTTT
1 AAACTTTCCAAAAATTACATTTT
23377819 CGACCCCGAT
Statistics
Matches: 246, Mismatches: 53, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
56 40 0.16
57 29 0.12
58 38 0.15
59 40 0.16
60 97 0.39
61 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (58 bp):
AAACTTTCCAAAAATTACATTTTACCCTCAAACTTCCAAAAATTGTATTTTAACCCCT
Found at i:23377577 original size:90 final size:90
Alignment explanation
Indices: 23377446--23377647 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 90
23377436 TTTGACCTTA
* ** *
23377446 AAACTTTCCAAAAATTACATTTTGATCCTCAAACTTTTCAAAAATTGTATTTTAACCC-CTAAAC
1 AAACTTTCCAAAAATTACATTTTGAACCTCAAACTTTTCAAAAATTACATTCTAACCCTC-AAAC
**
23377510 TTCTTGAAAATTAC-ATTTTAACCCCT
65 TTCTCAAAAATT-CTATTTTAACCCCT
23377536 AAACTTTCCAAAAATTACATTTT-AACCTCTAAA-TTTCTCAAAAATTACATTCTAACCCTCAAA
1 AAACTTTCCAAAAATTACATTTTGAACCTC-AAACTTT-TCAAAAATTACATTCTAACCCTCAAA
* *
23377599 CTTCTCAAAAATTCTATTTTTACCGCT
64 CTTCTCAAAAATTCTATTTTAACCCCT
* *
23377626 AAGC-TTCCAAAAATTCCATTTT
1 AAACTTTCCAAAAATTACATTTT
23377648 TGCCCTCGAA
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
89 26 0.27
90 71 0.72
91 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (90 bp):
AAACTTTCCAAAAATTACATTTTGAACCTCAAACTTTTCAAAAATTACATTCTAACCCTCAAACT
TCTCAAAAATTCTATTTTAACCCCT
Found at i:23377648 original size:29 final size:29
Alignment explanation
Indices: 23377415--23377647 Score: 188
Period size: 30 Copynumber: 7.8 Consensus size: 29
23377405 AAAAGGTCCT
* * * *
23377415 TAAAC-TCTCCAAAAATCATATTTTGACCT
1 TAAACTTCT-CAAAAATTACATTTTAACCC
* *
23377444 TAAAACTT-TCCAAAAATTACATTTTGATCC
1 T-AAACTTCT-CAAAAATTACATTTTAACCC
* **
23377474 TCAAACTTTTCAAAAATTGTATTTTAACCCC
1 T-AAACTTCTCAAAAATTACATTTTAA-CCC
**
23377505 TAAACTTCTTGAAAATTACATTTTAACCCC
1 TAAACTTCTCAAAAATTACATTTTAA-CCC
23377535 TAAACTT-TCCAAAAATTACATTTTAACCTC
1 TAAACTTCT-CAAAAATTACATTTTAACC-C
* *
23377565 TAAATTTCTCAAAAATTACATTCTAACCC
1 TAAACTTCTCAAAAATTACATTTTAACCC
*
23377594 TCAAACTTCTCAAAAATT-CTATTTTTACCGC
1 T-AAACTTCTCAAAAATTAC-ATTTTAACC-C
* *
23377625 TAAGCTTC-CAAAAATTCCATTTT
1 TAAACTTCTCAAAAATTACATTTT
23377648 TGCCCTCGAA
Statistics
Matches: 171, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
29 20 0.12
30 143 0.84
31 8 0.05
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAACTTCTCAAAAATTACATTTTAACCC
Found at i:23377663 original size:29 final size:29
Alignment explanation
Indices: 23377541--23377724 Score: 128
Period size: 28 Copynumber: 6.3 Consensus size: 29
23377531 CCCCTAAACT
** * *
23377541 TTCCAAAAATT-ACATTTTAACCTCTAAAT
1 TTCCAAAAATTCACATTTTTCCCTC-GAAC
** *
23377570 TTCTCAAAAATT-ACATTCTAACCCTCAAAC
1 TTC-CAAAAATTCACATT-TTTCCCTCGAAC
* * * *
23377600 TTCTCAAAAATTC-TATTTTTACCGCTAAGC
1 TTC-CAAAAATTCACATTTTTCCCTCGAA-C
23377630 TTCCAAAAATTC-CATTTTTGCCCTCGAAC
1 TTCCAAAAATTCACATTTTT-CCCTCGAAC
* * *
23377659 GTCC-AAAAGTCACATTTTTCCCCCGAAC
1 TTCCAAAAATTCACATTTTTCCCTCGAAC
* *
23377687 TTCCAAAAA-TCACATTTTTCCTTCAAAC
1 TTCCAAAAATTCACATTTTTCCCTCGAAC
23377715 TTCCAAAAAT
1 TTCCAAAAAT
23377725 CGTATTTTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
28 42 0.33
29 39 0.31
30 40 0.31
31 6 0.05
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
TTCCAAAAATTCACATTTTTCCCTCGAAC
Found at i:23377685 original size:28 final size:28
Alignment explanation
Indices: 23377631--23377766 Score: 112
Period size: 28 Copynumber: 4.8 Consensus size: 28
23377621 CCGCTAAGCT
*
23377631 TCCAAAAATTC-CATTTTTGCCCTCGAACG
1 TCCAAAAA-TCACATTTTT-CCCCCGAACG
* *
23377660 TCCAAAAGTCACATTTTTCCCCCGAACT
1 TCCAAAAATCACATTTTTCCCCCGAACG
** * *
23377688 TCCAAAAATCACATTTTTCCTTCAAACT
1 TCCAAAAATCACATTTTTCCCCCGAACG
** * **
23377716 TCCAAAAATCGTATTTTTACCCCGAATT
1 TCCAAAAATCACATTTTTCCCCCGAACG
* * *
23377744 TCCCAAAATGACATTTTTACCCC
1 TCCAAAAATCACATTTTTCCCCC
23377767 TAAAACTTTC
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
28 74 0.84
29 14 0.16
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.32
Consensus pattern (28 bp):
TCCAAAAATCACATTTTTCCCCCGAACG
Found at i:23377739 original size:56 final size:56
Alignment explanation
Indices: 23377591--23377809 Score: 181
Period size: 56 Copynumber: 3.8 Consensus size: 56
23377581 TACATTCTAA
* *
23377591 CCCTCAAACTTCTCAAAAATTCTATTTTTACCGCTAAGCTTCCAAAAATTC-CATTTTTG
1 CCCTCAAACTTC-CAAAAA-TCTATTTTTACCCCGAA-CTTCCAAAAA-TCACATTTTTG
* * * * *
23377650 CCCTCGAACGTCCAAAAGTCACATTTTTCCCCCGAACTTCCAAAAATCACATTTTT-
1 CCCTCAAACTTCCAAAAATC-TATTTTTACCCCGAACTTCCAAAAATCACATTTTTG
* * * * *
23377706 CCTTCAAACTTCCAAAAATCGTATTTTTACCCCGAATTTCCCAAAATGACATTTTTAC
1 CCCTCAAACTTCCAAAAATC-TATTTTTACCCCGAACTTCCAAAAATCACATTTTT-G
* * ** * *
23377764 CCCTAAAACTTTCCAAAATTGAATTTTAACCCCAAACTCTCCAAAA
1 CCCTCAAAC-TTCCAAAAATCTATTTTTACCCCGAACT-TCCAAAA
23377810 CTTCATTTTC
Statistics
Matches: 128, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
56 48 0.38
57 19 0.15
58 36 0.28
59 25 0.20
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (56 bp):
CCCTCAAACTTCCAAAAATCTATTTTTACCCCGAACTTCCAAAAATCACATTTTTG
Found at i:23377809 original size:28 final size:29
Alignment explanation
Indices: 23377746--23377809 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
23377736 CCCGAATTTC
* *
23377746 CCAAAATGACATTTTTACCCCTAAAACTTT
1 CCAAAATGACATTTTAACCCC-AAAACTCT
23377776 CCAAAATTGA-ATTTTAACCCC-AAACTCT
1 CCAAAA-TGACATTTTAACCCCAAAACTCT
23377804 CCAAAA
1 CCAAAA
23377810 CTTCATTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 12 0.39
30 16 0.52
31 3 0.10
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (29 bp):
CCAAAATGACATTTTAACCCCAAAACTCT
Found at i:23390108 original size:209 final size:209
Alignment explanation
Indices: 23389748--23390416 Score: 1076
Period size: 209 Copynumber: 3.2 Consensus size: 209
23389738 ACAATGAGGC
* * * * *
23389748 GGTCATCTTCCTGATGAGATACTGAGAAGTGGACCAAATCAATGAAACAAAGATCAATGTGAGCG
1 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGTGAGCA
* *
23389813 AAACTTCAAACCCCAGCTTCCTAATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
66 AAACTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
*
23389878 TTCTTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTGGATC
131 TTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTGGATC
23389943 AAAATAAGTGATGG
196 AAAATAAGTGATGG
*
23389957 GGTCATCTTCCTGATGAGATATTGAGAAGTAGACCAAATCAATGAAATC-AGGCTCAAAGTGAGC
1 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-CAAGGCTCAAAGTGAGC
* * * *
23390021 AAAACTTCGAACCTCAGCTTCTTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTAC
65 AAAACTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTAC
* *
23390086 CTTCCTGATAAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTAGAT
130 CTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTGGAT
* *
23390151 CAAAACAAGTGATGC
195 CAAAATAAGTGATGG
* *
23390166 GGTCATC-T--TGATGAGATACTGAGAAGTAGACCAAATCAATGAAACGAGGCTTAAAGTGAGCA
1 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGTGAGCA
* * * *
23390228 AATCTTCGAACCCCAACTTCCTAATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGCAGTTACC
66 AAACTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
*
23390293 TTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGATACAGAGAAGTGGATC
131 TTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTGGATC
23390358 AAAATAAGTGATGG
196 AAAATAAGTGATGG
*
23390372 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGA
1 GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
23390417 CACCAAATCA
Statistics
Matches: 422, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
205 1 0.00
206 188 0.45
207 1 0.00
208 1 0.00
209 230 0.55
210 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (209 bp):
GGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGTGAGCA
AAACTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
TTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAGAGAAGTGGATC
AAAATAAGTGATGG
Found at i:23390735 original size:12 final size:11
Alignment explanation
Indices: 23390714--23390802 Score: 61
Period size: 11 Copynumber: 7.8 Consensus size: 11
23390704 ACTAAACCTT
23390714 TTTTAAATTAA
1 TTTTAAATTAA
23390725 TTTTAAGATTAA
1 TTTTAA-ATTAA
* **
23390737 ATTTATTTTAA
1 TTTTAAATTAA
* **
23390748 ATTTAAATTTG
1 TTTTAAATTAA
23390759 TTTTAAATTTAA
1 TTTTAAA-TTAA
* *
23390771 ATTTAAATTGA
1 TTTTAAATTAA
* *
23390782 GTTTAAATTTAC
1 TTTTAAA-TTAA
23390794 TTTTAAATT
1 TTTTAAATT
23390803 TAAAATTAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
11 34 0.58
12 25 0.42
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (11 bp):
TTTTAAATTAA
Found at i:23390738 original size:17 final size:17
Alignment explanation
Indices: 23390715--23390812 Score: 83
Period size: 17 Copynumber: 5.6 Consensus size: 17
23390705 CTAAACCTTT
23390715 TTTAAATTAATTTTAAGA
1 TTTAAATTAATTTTAA-A
*
23390733 -TTAAATTTATTTTAAA
1 TTTAAATTAATTTTAAA
**
23390749 TTTAAATTTGTTTTAAA
1 TTTAAATTAATTTTAAA
* * *
23390766 TTTAAATTTAA-ATTGAG
1 TTTAAA-TTAATTTTAAA
*
23390783 TTTAAATTTACTTTTAAA
1 TTTAAA-TTAATTTTAAA
23390801 TTTAAAATTAAT
1 TTT-AAATTAAT
23390813 AAAGTACCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
16 1 0.02
17 48 0.75
18 12 0.19
19 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTAATTTTAAA
Found at i:23390752 original size:6 final size:6
Alignment explanation
Indices: 23390715--23390811 Score: 69
Period size: 6 Copynumber: 16.8 Consensus size: 6
23390705 CTAAACCTTT
* * **
23390715 TTTAAA -TTAAT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTT-GT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * **
23390760 TTTAAA TTTAAA TTTAAA -TTGAG TTTAAA TTTACT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
23390807 ATTAA
1 TTTAA
23390812 TAAAGTACCA
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
5 15 0.22
6 53 0.78
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:23390769 original size:23 final size:24
Alignment explanation
Indices: 23390743--23390803 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
23390733 TTAAATTTAT
*
23390743 TTTAAATTTAAATTTG-TTTTAAA
1 TTTAAATTTAAATTTGAGTTTAAA
23390766 TTTAAATTTAAA-TTGAGTTTAAA
1 TTTAAATTTAAATTTGAGTTTAAA
**
23390789 TTTACTTTTAAATTT
1 TTTAAATTTAAATTT
23390804 AAAATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.09
23 28 0.85
24 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (24 bp):
TTTAAATTTAAATTTGAGTTTAAA
Found at i:23392574 original size:30 final size:29
Alignment explanation
Indices: 23392540--23392873 Score: 220
Period size: 30 Copynumber: 11.3 Consensus size: 29
23392530 CAGAAATCAT
23392540 ATTTTGACCCTAAAACTTTCTAAAAATTAC
1 ATTTTGACCCT-AAACTTTCTAAAAATTAC
* * *
23392570 ATTTTGATCCCCAAACTTTCAAAAAATTAT
1 ATTTTGA-CCCTAAACTTTCTAAAAATTAC
* * **
23392600 ATATTAACCCCTAAAC-TTCTCAAAAATTGT
1 ATTTTGA-CCCTAAACTTTCT-AAAAATTAC
* *
23392630 ATTTTAACCCTCAAACTTTCCAAAAATTAC
1 ATTTTGACCCT-AAACTTTCTAAAAATTAC
*
23392660 ATTTTAACCTCTAAA-TTTCTCAAAAATTAC
1 ATTTTGACC-CTAAACTTTCT-AAAAATTAC
*
23392690 ATTTTGACCCTAAAC-TTCTTAAAAATTCC
1 ATTTTGACCCTAAACTTTC-TAAAAATTAC
* *
23392719 ATTTTTGCCCCTAAACTTTC-AAAAATTCC
1 A-TTTTGACCCTAAACTTTCTAAAAATTAC
* * *
23392748 ATTTTTG-CCCTTAAAC-TTCCAAAAGTCAC
1 A-TTTTGACCC-TAAACTTTCTAAAAATTAC
* ** * *
23392777 ATTTTTGCCCCCGAA-TTTCCAAAAATCAC
1 A-TTTTGACCCTAAACTTTCTAAAAATTAC
* *
23392806 ATTTTTACCCTTAAAACTTTCT-AAAATTGC
1 ATTTTGACCC-T-AAACTTTCTAAAAATTAC
* * * *
23392836 ATTTTAACCC-AAACTCTCTGAAACTT-C
1 ATTTTGACCCTAAACTTTCTAAAAATTAC
23392863 ATTTTTGACCC
1 A-TTTTGACCC
23392874 CAGTTTTTTT
Statistics
Matches: 251, Mismatches: 34, Indels: 40
0.77 0.10 0.12
Matches are distributed among these distances:
27 10 0.04
28 26 0.10
29 77 0.31
30 123 0.49
31 15 0.06
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTTGACCCTAAACTTTCTAAAAATTAC
Found at i:23393297 original size:97 final size:96
Alignment explanation
Indices: 23393114--23393306 Score: 287
Period size: 97 Copynumber: 2.0 Consensus size: 96
23393104 AAAATATTTA
* * * *
23393114 AAATCGAGGCAATATTTCTTTATTTCGGGTTTTGAAAATTTGTCCTTAACTTAATAGGCGCGATT
1 AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTGTCCTTAACTTAATAGGCACGACT
*
23393179 TTTTTTCAAATCGGCATAATCGAATACCCTT
66 TTTCTTCAAATCGGCATAATCGAATACCCTT
* * * *
23393210 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCATGAC
1 AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTGT-CCTTAACTTAATAGGCACGAC
*
23393275 TTTTCTTCAAATCGGGATAATCGAATACCCTT
65 TTTTCTTCAAATCGGCATAATCGAATACCCTT
23393307 TTCCAAGGTT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 39 0.45
97 47 0.55
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (96 bp):
AAATCGAGGCAATATTTCTTTATCTCGGGTTTTAAAAATTTGTCCTTAACTTAATAGGCACGACT
TTTCTTCAAATCGGCATAATCGAATACCCTT
Found at i:23394734 original size:12 final size:12
Alignment explanation
Indices: 23394717--23394746 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
23394707 GTGGTGGAGG
23394717 GAACTCTTGTGA
1 GAACTCTTGTGA
23394729 GAACTCTTGTGA
1 GAACTCTTGTGA
23394741 GAACTC
1 GAACTC
23394747 ACGTTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (12 bp):
GAACTCTTGTGA
Found at i:23399548 original size:138 final size:138
Alignment explanation
Indices: 23399367--23399922 Score: 843
Period size: 138 Copynumber: 4.0 Consensus size: 138
23399357 ACATAGATAA
* * *
23399367 AATTAATATATGAATTTTATCCATACAAAATATTAATTTTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
*
23399432 TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGAAAT-AGAAATTAATATTCTTTTGA
66 TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGA-AAATTAATATTCTTTTGA
23399496 AAAGAATAT
130 AAAGAATAT
* * *
23399505 AATTAATATATGAATTTGATTCTTATAAAATATTAATTGTATATATTTTACTGAATTTATTACTA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
* *
23399570 TAAA-AAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
66 TAAACAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGA
*
23399634 AATGAATAT
130 AAAGAATAT
* * * *
23399643 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATACATTTTACCGGATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
* * * *
23399708 TAAACAATTTTTTTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGTA
66 TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGAA
23399773 AAGAATAT
131 AAGAATAT
*
23399781 AATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATATTTTACTGAA-TTATTAA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTG--TATATATTTTACTGAATTTATTAA
* *
23399845 TATAAATAGTTATATGT--TTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTT
64 TATAAACAATTATAT-TAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTT
23399908 GAAAAGAATAT
128 GAAAAGAATAT
23399919 AATT
1 AATT
23399923 CCTTTTTCTA
Statistics
Matches: 378, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
137 2 0.01
138 341 0.90
139 21 0.06
140 14 0.04
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
TAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGAA
AAGAATAT
Found at i:23400037 original size:74 final size:75
Alignment explanation
Indices: 23399898--23400044 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 75
23399888 ATGAAAATTA
* * *
23399898 ATATTCTTTTGAAAAGAATATAATTCCTTTTTCTAACTTTTCATTTGTCTTCTATATTAATAAGG
1 ATATTCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTATATTAATAAGG
23399963 GAATAATCTT
66 GAATAATCTT
* *
23399973 ATATTCTTTTGGAAAGAATATAATTCATTTTT-TAACTTTCCATTTGCCTTCTCTATTAATAAGG
1 ATATTCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTATATTAATAAGG
23400037 GAATAATC
66 GAATAATC
23400045 ATGGTTTCCC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 37 0.55
75 30 0.45
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTATATTAATAAGG
GAATAATCTT
Found at i:23402778 original size:57 final size:57
Alignment explanation
Indices: 23402627--23402783 Score: 226
Period size: 57 Copynumber: 2.8 Consensus size: 57
23402617 AACACGGGGT
* * ** *
23402627 TAAAATGAGTAAGACCATAGA-TGAAAGACGCTATGGAATTAAAAGATGAATTGACAA
1 TAAAATGAGTAAGACCATA-ACTAAAAGATGCTATGGCGTCAAAAGATGAATTGACAA
* *
23402684 TAAAAAGAGTAAGACCATAACTAAAAGATGCTGTGGCGTCAAAAGATGAATTGACAA
1 TAAAATGAGTAAGACCATAACTAAAAGATGCTATGGCGTCAAAAGATGAATTGACAA
*
23402741 TAAAATGAGTAAGACCATATCTAAAAGATGCTATGGCGTCAAA
1 TAAAATGAGTAAGACCATAACTAAAAGATGCTATGGCGTCAAA
23402784 GATAGTCTGA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 1 0.01
57 88 0.99
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (57 bp):
TAAAATGAGTAAGACCATAACTAAAAGATGCTATGGCGTCAAAAGATGAATTGACAA
Found at i:23402880 original size:26 final size:27
Alignment explanation
Indices: 23402828--23402887 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
23402818 TGACAGAATG
23402828 TTAAACACGAGATAATCTAACGAGACA
1 TTAAACACGAGATAATCTAACGAGACA
**
23402855 TTAAACACGA-ATCGTCTAAC-ATGACA
1 TTAAACACGAGATAATCTAACGA-GACA
23402881 TTAAACA
1 TTAAACA
23402888 TGGGGTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 19 0.63
27 10 0.33
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.22
Consensus pattern (27 bp):
TTAAACACGAGATAATCTAACGAGACA
Found at i:23408780 original size:24 final size:24
Alignment explanation
Indices: 23408719--23408782 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
23408709 AATCTAAGCT
* * *
23408719 AATAAGAGTTTGACTGAAATAAATA
1 AATAA-AGTTTAATTGAAACAAATA
*
23408744 AATAGAGTTTAATTGAAACAAATA
1 AATAAAGTTTAATTGAAACAAATA
23408768 AATAAAGTTTAATTG
1 AATAAAGTTTAATTG
23408783 GAAGATAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (24 bp):
AATAAAGTTTAATTGAAACAAATA
Found at i:23410425 original size:36 final size:36
Alignment explanation
Indices: 23410378--23410461 Score: 168
Period size: 36 Copynumber: 2.3 Consensus size: 36
23410368 AATTTTGATC
23410378 AAATTAAATCACAATTCCACTTATTTGAGTCAGACA
1 AAATTAAATCACAATTCCACTTATTTGAGTCAGACA
23410414 AAATTAAATCACAATTCCACTTATTTGAGTCAGACA
1 AAATTAAATCACAATTCCACTTATTTGAGTCAGACA
23410450 AAATTAAATCAC
1 AAATTAAATCAC
23410462 TCACCCTATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (36 bp):
AAATTAAATCACAATTCCACTTATTTGAGTCAGACA
Found at i:23416693 original size:12 final size:12
Alignment explanation
Indices: 23416666--23416745 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 12
23416656 TTTTTTACTG
23416666 TTTTGGTTGCTA-
1 TTTTGG-TGCTAT
23416678 TTTTGGTGCTATT
1 TTTTGGTGCTA-T
** *
23416691 TTTTTTTACTAT
1 TTTTGGTGCTAT
*
23416703 TTTT-GAGCTAT
1 TTTTGGTGCTAT
* *
23416714 TTTTGCTGTTAT
1 TTTTGGTGCTAT
23416726 TTTT--TGCTAT
1 TTTTGGTGCTAT
*
23416736 TTTTGTTGCT
1 TTTTGGTGCT
23416746 GTTATTTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
10 9 0.17
11 13 0.25
12 23 0.43
13 8 0.15
ACGTcount: A:0.10, C:0.09, G:0.16, T:0.65
Consensus pattern (12 bp):
TTTTGGTGCTAT
Found at i:23416693 original size:24 final size:22
Alignment explanation
Indices: 23416666--23416798 Score: 70
Period size: 23 Copynumber: 5.8 Consensus size: 22
23416656 TTTTTTACTG
*
23416666 TTTTGGTTGCTATTTTGGTGCTA
1 TTTTTGTTGCTATTTT-GTGCTA
* * *
23416689 TTTTTTTTTACTATTTTTGAGCTA
1 -TTTTTGTTGCTA-TTTTGTGCTA
* * *
23416713 TTTTTGCTGTTATTTTTTGCTA
1 TTTTTGTTGCTATTTTGTGCTA
* *
23416735 TTTTTGTTGCTGTTATTTT-TGTTG
1 TTTTTGTTGC---TATTTTGTGCTA
* * *
23416759 TTTTTGTTGTTGTTTTGTTGTTA
1 TTTTTGTTGCTATTTTG-TGCTA
* *
23416782 TTTTTGCTGCTGTTTTG
1 TTTTTGTTGCTATTTTG
23416799 GTTATTATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
21 5 0.06
22 16 0.19
23 27 0.32
24 26 0.31
25 10 0.12
ACGTcount: A:0.08, C:0.07, G:0.19, T:0.67
Consensus pattern (22 bp):
TTTTTGTTGCTATTTTGTGCTA
Found at i:23416707 original size:37 final size:36
Alignment explanation
Indices: 23416641--23416745 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 36
23416631 TATATTGTTG
* *
23416641 TTTTGGTGCTATTTTTTTTTTACTGTTTTGGTTGCTA
1 TTTTGGTGCTA-TTTTTTTTTACTATTTTTGTTGCTA
*
23416678 TTTTGGTGCTATTTTTTTTTACTATTTTTG-AGCTA
1 TTTTGGTGCTATTTTTTTTTACTATTTTTGTTGCTA
* * *
23416713 TTTT--TGCTGTTATTTTTTGCTATTTTTGTTGCT
1 TTTTGGTGCTATTTTTTTTTACTATTTTTGTTGCT
23416746 GTTATTTTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
33 21 0.35
34 3 0.05
35 8 0.13
36 17 0.28
37 11 0.18
ACGTcount: A:0.10, C:0.09, G:0.16, T:0.66
Consensus pattern (36 bp):
TTTTGGTGCTATTTTTTTTTACTATTTTTGTTGCTA
Found at i:23416713 original size:11 final size:11
Alignment explanation
Indices: 23416673--23416741 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
23416663 CTGTTTTGGT
*
23416673 TGCTATTTTGG
1 TGCTATTTTTG
*
23416684 TGCTATTTTTTTT
1 TGCTA--TTTTTG
*
23416697 TACTATTTTTG
1 TGCTATTTTTG
*
23416708 AGCTATTTTTG
1 TGCTATTTTTG
*
23416719 CTGTTATTTTT-
1 -TGCTATTTTTG
23416730 TGCTATTTTTG
1 TGCTATTTTTG
23416741 T
1 T
23416742 TGCTGTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 9 0.20
11 20 0.44
12 8 0.18
13 8 0.18
ACGTcount: A:0.12, C:0.09, G:0.14, T:0.65
Consensus pattern (11 bp):
TGCTATTTTTG
Found at i:23416730 original size:25 final size:24
Alignment explanation
Indices: 23416700--23416754 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
23416690 TTTTTTTTAC
*
23416700 TATTTTTGAGCTA-TTT-TTGCTGT
1 TATTTTT-TGCTATTTTGTTGCTGT
23416723 TATTTTTTGCTATTTTTGTTGCTGT
1 TATTTTTTGCTA-TTTTGTTGCTGT
23416748 TATTTTT
1 TATTTTT
23416755 GTTGTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 3 0.11
25 14 0.50
ACGTcount: A:0.11, C:0.07, G:0.15, T:0.67
Consensus pattern (24 bp):
TATTTTTTGCTATTTTGTTGCTGT
Found at i:23416731 original size:13 final size:13
Alignment explanation
Indices: 23416713--23416754 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
23416703 TTTTGAGCTA
23416713 TTTTTGCTGTTAT
1 TTTTTGCTGTTAT
*
23416726 TTTTTGCTATT-T
1 TTTTTGCTGTTAT
*
23416738 TTGTTGCTGTTAT
1 TTTTTGCTGTTAT
23416751 TTTT
1 TTTT
23416755 GTTGTTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.71
Consensus pattern (13 bp):
TTTTTGCTGTTAT
Found at i:23416753 original size:15 final size:15
Alignment explanation
Indices: 23416733--23416795 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
23416723 TATTTTTTGC
23416733 TATTTTTGTTGCTGT
1 TATTTTTGTTGCTGT
* *
23416748 TATTTTTGTTGTTTT
1 TATTTTTGTTGCTGT
* * *
23416763 TGTTGTTGTTTTGTTGT
1 TATT-TT-TGTTGCTGT
*
23416780 TATTTTTGCTGCTGT
1 TATTTTTGTTGCTGT
23416795 T
1 T
23416796 TTGGTTATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
15 23 0.62
16 4 0.11
17 10 0.27
ACGTcount: A:0.05, C:0.05, G:0.21, T:0.70
Consensus pattern (15 bp):
TATTTTTGTTGCTGT
Found at i:23416760 original size:12 final size:12
Alignment explanation
Indices: 23416711--23416816 Score: 67
Period size: 12 Copynumber: 9.1 Consensus size: 12
23416701 ATTTTTGAGC
*
23416711 TATTTTTGCTGT
1 TATTTTTGTTGT
*
23416723 TA-TTTT-TTGC
1 TATTTTTGTTGT
*
23416733 TATTTTTGTTGC
1 TATTTTTGTTGT
*
23416745 TGTTATTT-TTGT
1 TATT-TTTGTTGT
*
23416757 TGTTTTTGTTGT
1 TATTTTTGTTGT
*
23416769 T-GTTTTGTTGT
1 TATTTTTGTTGT
* *
23416780 TATTTTTGCTGC
1 TATTTTTGTTGT
* * *
23416792 TGTTTTGGTTAT
1 TATTTTTGTTGT
*
23416804 TATTTTGGTTGT
1 TATTTTTGTTGT
23416816 T
1 T
23416817 TGGATGTTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
10 4 0.05
11 21 0.28
12 46 0.62
13 3 0.04
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.69
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:23416789 original size:44 final size:44
Alignment explanation
Indices: 23416741--23416830 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
23416731 GCTATTTTTG
* * * * * *
23416741 TTGCTGTTATTTTTGTTGTTTTTGTT-GTTGTTTTGTTGTTATTT
1 TTGCTGCTATTTTGGTTATTATT-TTGGTTGTTTGGATGTTATTT
*
23416785 TTGCTGCTGTTTTGGTTATTATTTTGGTTGTTTGGATGTTATTT
1 TTGCTGCTATTTTGGTTATTATTTTGGTTGTTTGGATGTTATTT
23416829 TT
1 TT
23416831 ATGCGTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.07, C:0.03, G:0.22, T:0.68
Consensus pattern (44 bp):
TTGCTGCTATTTTGGTTATTATTTTGGTTGTTTGGATGTTATTT
Found at i:23416806 original size:24 final size:23
Alignment explanation
Indices: 23416711--23416814 Score: 93
Period size: 24 Copynumber: 4.5 Consensus size: 23
23416701 ATTTTTGAGC
* * * *
23416711 TATTTTTGCTGTTATTTT-TTGC
1 TATTTTTGTTGCTGTTTTGTTGT
*
23416733 TATTTTTGTTGCTGTTATTTTTGT
1 TATTTTTGTTGCTGTT-TTGTTGT
* *
23416757 TGTTTTTGTTGTTGTTTTGTTGT
1 TATTTTTGTTGCTGTTTTGTTGT
* *
23416780 TATTTTTGCTGCTGTTTTGGTTAT
1 TATTTTTGTTGCTGTTTT-GTTGT
*
23416804 TATTTTGGTTG
1 TATTTTTGTTG
23416815 TTTGGATGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
22 13 0.20
23 23 0.35
24 30 0.45
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (23 bp):
TATTTTTGTTGCTGTTTTGTTGT
Found at i:23416815 original size:47 final size:46
Alignment explanation
Indices: 23416711--23416816 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 46
23416701 ATTTTTGAGC
* * * *
23416711 TATTTTTGCTGTTATTTTTTGCTATTTTTGTTGCTGTTATTTTTGT
1 TATTTTTGTTGTTATTTTTTGCTATTTTTGCTGCTGTTATTGTTAT
* * *
23416757 TGTTTTTGTTGTTGTTTTGTTGTTATTTTTGCTGCTGTT-TTGGTTAT
1 TATTTTTGTTGTTATTTT-TTGCTATTTTTGCTGCTGTTATT-GTTAT
*
23416804 TATTTTGGTTGTT
1 TATTTTTGTTGTT
23416817 TGGATGTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
46 17 0.35
47 32 0.65
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.69
Consensus pattern (46 bp):
TATTTTTGTTGTTATTTTTTGCTATTTTTGCTGCTGTTATTGTTAT
Found at i:23419167 original size:29 final size:30
Alignment explanation
Indices: 23419122--23419639 Score: 307
Period size: 29 Copynumber: 17.7 Consensus size: 30
23419112 TTGGCTACCT
* * *
23419122 GGGGGTAAAACGATAA-TTTTGGACATTTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
* * * *
23419151 GGGGGTAAAATAGTAA-TTCTCGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
** *
23419180 -ACGGTCAAAAATGGT-ATTTTTGGACA-TTC
1 GGGGGT--AAAATGGTAATTTTTGGAAATTTC
* *
23419209 GAGGGTAAAATGGTAATTTTTGGAAAATTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
* * *
23419239 AGGGTTAAAAATGG-ATTTTTTGGAAATTT-
1 GGGGGT-AAAATGGTAATTTTTGGAAATTTC
** * **
23419268 AAGGGTAAAATGGTAATTTTTGGACA-GCC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
** *
23419297 AAGGGTAAAATGGAAATTTTTGGAAAGTTT-
1 GGGGGTAAAATGGTAATTTTTGGAAA-TTTC
*
23419327 -GGGGTCAAAAATGG-AATTTTTGGAAA-TTA
1 GGGGGT--AAAATGGTAATTTTTGGAAATTTC
* * *
23419356 AGGGGTAAAATGGTAA-TTTTGTACA-TTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
* * *
23419384 GAGGGTAAAATGATAATTTTTGAAAAGTTT-
1 GGGGGTAAAATGGTAATTTTTGGAAA-TTTC
* * * *
23419414 AGGGTTAAAAATGAT-ACTTTTGGAAATTT-
1 GGGGGT-AAAATGGTAATTTTTGGAAATTTC
* *
23419443 GAGGGTAAAATGGTAATTTTTGGATA-TTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
*
23419472 GGGGGTAAAATGGTAATTTTTGGACATTT-
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
*
23419501 GGGGGTAAAATGGTAATTTTTGTAAAGTTT-
1 GGGGGTAAAATGGTAATTTTTGGAAA-TTTC
* *
23419531 -GGGGTCAAAAATGAT-ATTTTTGGAAATCT-
1 GGGGGT--AAAATGGTAATTTTTGGAAATTTC
* *
23419560 AGGGGTAAAATGGTAATTTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGAAATTTC
* * *
23419590 -GAGGTCAAAAATGAT-ATTTTTGG-AAGTTC
1 GGGGGT--AAAATGGTAATTTTTGGAAATTTC
*
23419619 GGAGGTAAAAAT-GTAATTTTT
1 GGGGGT-AAAATGGTAATTTTT
23419640 ATAAAGTTCA
Statistics
Matches: 393, Mismatches: 63, Indels: 66
0.75 0.12 0.13
Matches are distributed among these distances:
28 66 0.17
29 191 0.49
30 98 0.25
31 38 0.10
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (30 bp):
GGGGGTAAAATGGTAATTTTTGGAAATTTC
Found at i:23419252 original size:59 final size:59
Alignment explanation
Indices: 23419138--23419639 Score: 381
Period size: 59 Copynumber: 8.6 Consensus size: 59
23419128 AAAACGATAA
* * * * * * *
23419138 TTTTGGACATTTCGGGGGTAAAATAGTAA-TTCTCGAAAGTTCACGGTCAAAAATGGTAT
1 TTTTGGACA-TTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGTAT
23419197 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGG-ATT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGTA-T
* ** * ** *
23419256 TTTTGGAAATTTAAGGGTAAAATGGTAATTTTTGG-ACAGCCAAGGG-T-AAAATGGAAAT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTC-AGGGTTAAAAATGG-TAT
* * * * *
23419314 TTTTGGAAAGTTTG-GGGTCAAAAATGG-AATTTTTGG-AAATTAAGGGGT-AAAATGGTAA
1 TTTTGGACA-TTCGAGGGT--AAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGTAT
* * * * *
23419372 TTTTGTACATTCGAGGGTAAAATGATAATTTTT-GAAAAGTTTAGGGTTAAAAATGATAC
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAA-TTCAGGGTTAAAAATGGTAT
* * * * *
23419431 TTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGG-ATATTCGGGGGT-AAAATGGTAAT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGT-AT
* * * * ** * *
23419489 TTTTGGACATTTGGGGGTAAAATGGTAATTTTTGTAAAGTTTGGGGTCAAAAATGATAT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGTAT
* * * * *
23419548 TTTTGGA-AATCTAGGGGTAAAATGGTAATTTTTGGAAAGTTC-GAGGTCAAAAATGATAT
1 TTTTGGACATTCGA-GGGTAAAATGGTAATTTTTGGAAAATTCAG-GGTTAAAAATGGTAT
23419607 TTTTGGA-AGTTCG-GAGGTAAAAAT-GTAATTTTT
1 TTTTGGACA-TTCGAG-GGT-AAAATGGTAATTTTT
23419640 ATAAAGTTCA
Statistics
Matches: 365, Mismatches: 55, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
56 7 0.02
57 27 0.07
58 102 0.28
59 207 0.57
60 22 0.06
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (59 bp):
TTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAATGGTAT
Found at i:23419302 original size:88 final size:88
Alignment explanation
Indices: 23419187--23419585 Score: 440
Period size: 88 Copynumber: 4.6 Consensus size: 88
23419177 TTCACGGTCA
*
23419187 AAAATGGT-ATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTTAAAAAT
1 AAAATGGTAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTTAGGGTTAAAAAT
23419251 GGATTTTTTGGAAATTTAAGGGT
66 GGATTTTTTGGAAATTTAAGGGT
** * * * * *
23419274 AAAATGGTAATTTTTGGACAGCCAAGGGTAAAATGGAAATTTTTGGAAAGTTTGGGGTCAAAAAT
1 AAAATGGTAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTTAGGGTTAAAAAT
*
23419339 GGAATTTTTGGAAA-TTAAGGGGT
66 GGATTTTTTGGAAATTTAA-GGGT
* *
23419362 AAAATGGTAA-TTTTGTACATTCGAGGGTAAAATGATAATTTTT-GAAAAGTTTAGGGTTAAAAA
1 AAAATGGTAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAA-TTTAGGGTTAAAAA
* *
23419425 T-GATACTTTTGGAAATTTGAGGGT
65 TGGAT-TTTTTGGAAATTTAAGGGT
* * * * *
23419449 AAAATGGTAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGG-ACATTTGGGGGT-AAAAT
1 AAAATGGTAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTTAGGGTTAAAAAT
* * *
23419512 GGTAATTTTTGTAAAGTTT-GGGGT
66 GG-ATTTTTTGGAAA-TTTAAGGGT
* * *
23419536 CAAAAATGAT-ATTTTTGGA-AATCTAGGGGTAAAATGGTAATTTTTGGAAA
1 --AAAATGGTAATTTTTGGACATTCGA-GGGTAAAATGGTAATTTTTGGAAA
23419586 GTTCGAGGTC
Statistics
Matches: 261, Mismatches: 37, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
86 11 0.04
87 98 0.38
88 143 0.55
89 9 0.03
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (88 bp):
AAAATGGTAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTTAGGGTTAAAAAT
GGATTTTTTGGAAATTTAAGGGT
Found at i:23419617 original size:88 final size:86
Alignment explanation
Indices: 23419187--23419639 Score: 404
Period size: 88 Copynumber: 5.2 Consensus size: 86
23419177 TTCACGGTCA
* * *
23419187 AAAATGGT-ATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAATTC-AGGGTTAAAAA
1 AAAATGGTAATTTTTGGACATTAG-GGGTAAAATGGTAATTTTTGGAAAGTTCGA-GGTCAAAAA
*
23419250 TGGAT-TTTTTGGAAATTTAAGGGT
64 T-GATATTTTTGGAAATTT-GGGGT
** * * * *
23419274 AAAATGGTAATTTTTGGACAGCCAAGGGTAAAATGGAAATTTTTGGAAAGTTTGGGGTCAAAAAT
1 AAAATGGTAATTTTTGGACA-TTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAAT
*
23419339 GGA-ATTTTTGGAAATTAAGGGGT
65 -GATATTTTTGGAAATT-TGGGGT
* * * * * *
23419362 AAAATGGTAA-TTTTGTACATTCGAGGGTAAAATGATAATTTTTGAAAAGTT-TAGGGTTAAAAA
1 AAAATGGTAATTTTTGGACATTAG-GGGTAAAATGGTAATTTTTGGAAAGTTCGA-GGTCAAAAA
*
23419425 TGATACTTTTGGAAATTTGAGGGT
64 TGATATTTTTGGAAATTTG-GGGT
* * * * * *
23419449 AAAATGGTAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGGACATTTGGGGGT--AAAAT
1 AAAATGGTAATTTTTGGACATT-AGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAAT
* *
23419512 GGTAATTTTTGTAAAGTTTGGGGT
65 GAT-ATTTTTGGAAA-TTTGGGGT
* *
23419536 CAAAAATGAT-ATTTTTGGAAATCTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAA
1 --AAAATGGTAATTTTTGGACAT-TAGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAA
* *
23419600 ATGATATTTTTGGAAGTTCGGAGGT
63 ATGATATTTTTGGAAATTTGG-GGT
23419625 AAAAAT-GTAATTTTT
1 -AAAATGGTAATTTTT
23419640 ATAAAGTTCA
Statistics
Matches: 297, Mismatches: 48, Indels: 41
0.77 0.12 0.11
Matches are distributed among these distances:
86 10 0.03
87 89 0.30
88 170 0.57
89 21 0.07
90 7 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (86 bp):
AAAATGGTAATTTTTGGACATTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATG
ATATTTTTGGAAATTTGGGGT
Found at i:23419683 original size:29 final size:30
Alignment explanation
Indices: 23419211--23419687 Score: 232
Period size: 29 Copynumber: 16.3 Consensus size: 30
23419201 GGACATTCGA
* **
23419211 GGGT-AAAATGGTAATTTTTGGAAAATTCAG
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
* * * * **
23419241 GGTTAAAAATGGATTTTTTGGAAA-TTTAA
1 GGGTCAAAATGTAATTTTTGGAAAGTTTGG
* ****
23419270 GGGT-AAAATGGTAATTTTTGGACAG-CCAA
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
*
23419299 GGGT-AAAATGGAAATTTTTGGAAAGTTT-G
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
* **
23419328 GGGTCAAAAATGGAATTTTTGGAAA-TTAAG
1 GGGTC-AAAATGTAATTTTTGGAAAGTTTGG
* * * *
23419358 GGGT-AAAATGGTAA-TTTTGTACA-TTCGA
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
* *
23419386 GGGT-AAAATGATAATTTTTGAAAAGTTTAG
1 GGGTCAAAATG-TAATTTTTGGAAAGTTTGG
* * * *
23419416 GGTTAAAAATG-ATACTTTTGGAAA-TTTGA
1 GGGTCAAAATGTA-ATTTTTGGAAAGTTTGG
* *
23419445 GGGT-AAAATGGTAATTTTTGGATA-TTCGG
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
*
23419474 GGGT-AAAATGGTAATTTTTGGACA-TTTGG
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
*
23419503 GGGT-AAAATGGTAATTTTTGTAAAGTTT-G
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
* *
23419532 GGGTCAAAAATG-ATATTTTTGGAAA-TCTAG
1 GGGTC-AAAATGTA-ATTTTTGGAAAGTTTGG
*
23419562 GGGT-AAAATGGTAATTTTTGGAAAG-TTCG
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTGG
* *
23419591 AGGTCAAAAATG-ATATTTTTGG-AAGTTCGG
1 GGGTC-AAAATGTA-ATTTTTGGAAAGTTTGG
* * ** ***
23419621 AGGTAAAAATGTAATTTTTATAAAGTTCAA
1 GGGTCAAAATGTAATTTTTGGAAAGTTTGG
*
23419651 GGGTCAAAAT-TAATTTTTAGAAAGTTTGG
1 GGGTCAAAATGTAATTTTTGGAAAGTTTGG
23419680 GGGTCAAA
1 GGGTCAAA
23419688 TAATGATTTT
Statistics
Matches: 357, Mismatches: 61, Indels: 59
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.00
28 41 0.11
29 191 0.54
30 98 0.27
31 26 0.07
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTTGGAAAGTTTGG
Found at i:23421571 original size:6 final size:6
Alignment explanation
Indices: 23421532--23421645 Score: 63
Period size: 6 Copynumber: 19.3 Consensus size: 6
23421522 TTGTATTTGG
* * * * *
23421532 AATTTT AATATTA ATTTTT AATTTA AA-ATA AATTTA AATTTA AA-GTA
1 AATTTA AAT-TTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * ** * ** *
23421579 AATTTA AACTCA AAAATG AATTTA AATTTA AAAATA AATTCA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
23421627 AA-ATA AATTAA AATTTA AA
1 AATTTA AATTTA AATTTA AA
23421646 AATAAAAAGT
Statistics
Matches: 76, Mismatches: 28, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
5 12 0.16
6 60 0.79
7 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:23421573 original size:17 final size:17
Alignment explanation
Indices: 23421551--23421651 Score: 121
Period size: 18 Copynumber: 5.8 Consensus size: 17
23421541 ATTAATTTTT
23421551 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
*
23421568 AATTTAAAGTAAATTTA
1 AATTTAAAATAAATTTA
** *
23421585 AACTCAAAAATGAATTTA
1 AA-TTTAAAATAAATTTA
*
23421603 AATTTAAAAATAAATTCA
1 AATTT-AAAATAAATTTA
*
23421621 AATTTAAAATAAATTAA
1 AATTTAAAATAAATTTA
23421638 AATTTAAAAATAAA
1 AATTT-AAAATAAA
23421652 AAGTTGGACT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
17 35 0.49
18 36 0.51
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:23421583 original size:35 final size:34
Alignment explanation
Indices: 23421551--23421651 Score: 121
Period size: 35 Copynumber: 2.9 Consensus size: 34
23421541 ATTAATTTTT
*
23421551 AATTTAAAATAAATTTAAATTTAAAGTAAATTTA
1 AATTTAAAATAAATTTAAATTTAAAATAAATTTA
** * *
23421585 AACTCAAAAATGAATTTAAATTTAAAAATAAATTCA
1 AA-TTTAAAATAAATTTAAATTT-AAAATAAATTTA
*
23421621 AATTTAAAATAAATTAAAATTTAAAAATAAA
1 AATTTAAAATAAATTTAAATTT-AAAATAAA
23421652 AAGTTGGACT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
34 2 0.04
35 42 0.75
36 12 0.21
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (34 bp):
AATTTAAAATAAATTTAAATTTAAAATAAATTTA
Found at i:23422272 original size:124 final size:124
Alignment explanation
Indices: 23422101--23422497 Score: 695
Period size: 124 Copynumber: 3.2 Consensus size: 124
23422091 CTTCGACCTA
*
23422101 CTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
1 CTTCTCTGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
* *
23422166 ATTTGGTCTTCTTCTCAATACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
66 ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
* * * *
23422225 CTTCTCTGTATCTCATCAGGAAGCTGGAGTTCGAAGATTTACTCACTTTGAGTCTGGCCTCATTG
1 CTTCTCTGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
* *
23422290 ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACTGCATTACTTGTTTCAATCCG
66 ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
* *
23422349 CTTCTCTGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
1 CTTCTCTGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
23422414 ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
66 ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
23422473 CTTCTCTGTATCTCATCAAGAAGCT
1 CTTCTCTGTATCTCATCAAGAAGCT
23422498 AACCATTTTA
Statistics
Matches: 257, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 257 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (124 bp):
CTTCTCTGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGTCTGGCTTCATTG
ATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
Found at i:23422634 original size:172 final size:172
Alignment explanation
Indices: 23422348--23422667 Score: 525
Period size: 172 Copynumber: 1.9 Consensus size: 172
23422338 GTTTCAATCC
* * * *
23422348 GCTTCTCTGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCACTCACTTTGAGTCTGGCTTCATT
1 GCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTGGAGTCTGGCTTCATT
*
23422413 GATTTGGTCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCT
66 GATTTGGGCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCT
*
23422478 CTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCT
131 CTATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCT
**
23422520 GCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAG-CTTGGCTTCAT
1 GCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTGGAGTC-TGGCTTCAT
* *
23422584 TGATTTGGGCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTC
65 TGATTTGGGCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTC
*
23422649 TCTATATCTCATCAGGAAG
130 TCTATATCTCATCAAGAAG
23422668 ACGAATTTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
171 1 0.01
172 135 0.99
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (172 bp):
GCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTGGAGTCTGGCTTCATT
GATTTGGGCTTCTTCTCAGTACCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCT
CTATATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCT
Found at i:23422840 original size:209 final size:209
Alignment explanation
Indices: 23422473--23423124 Score: 1097
Period size: 209 Copynumber: 3.1 Consensus size: 209
23422463 TTTCAATCCG
*
23422473 CTTCTCTGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
23422538 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGGCTTCTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
23422603 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
131 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
23422668 ACGAATTTGGTCCA
196 ACGAATTTGGTCCA
*
23422682 CTTCTCAGTATCTCATCATGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
23422747 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
23422812 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
131 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
23422877 ACGAATTTGGTCCA
196 ACGAATTTGGTCCA
* *
23422891 CTTCTCAGTATCTCATCACGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATT
1 CTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * ** * * *
23422956 AGGAAGTTGGGGTTCAAAGATTCACTCACTTTGAGCCTAGCTTCATTGATTTGGTCTTCTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
* * * * * *
23423021 GTACCTCATCAGGAAGTTGACCGCATCACTTGTTTCAATCTGCTTTTTTGTATCTCATCAGGAAG
131 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
* *
23423086 ACAAATTTGGTCCG
196 ACGAATTTGGTCCA
* *
23423100 CTTCTCAGTGTCTCATCAGGAAGCT
1 CTTCTCAGTATCTCATCAAGAAGCT
23423125 GGGGTTCGAA
Statistics
Matches: 420, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
209 420 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AAGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAGGAAG
ACGAATTTGGTCCA
Found at i:23423130 original size:161 final size:161
Alignment explanation
Indices: 23422938--23423285 Score: 509
Period size: 161 Copynumber: 2.2 Consensus size: 161
23422928 GCTTCGACCT
* * *
23422938 GCTTCTCAGTATCTCATTAGGAAGTTGGGGTTCAAAGATTCACTCACTTTGAGCCTAGCTTCATT
1 GCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCACTCACTTGGAGCCTAGCTTCATT
* * *
23423003 GATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGTTGACCGCATCACTTGTTTCAAT-CTGCTTT
66 GATTTAGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCT-CTTC
* *
23423067 TTTGTATCTCATCAGGAAGACAAATTTGGTCC
130 TCTGTATCTCATCAAGAAGACAAATTTGGTCC
* * ** * *
23423099 GCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTGGAGCTTCGCTTCATT
1 GCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCACTCACTTGGAGCCTAGCTTCATT
* * *
23423164 GATTTAGTCTTCTTCTGAGTACCTTATTAGGAAGATGACCGCATCACTTGTTTCAATCCTCTTCT
66 GATTTAGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCTCTTCT
*
23423229 CTGTATCTCATCAAGAAGACGAATTTGGTCC
131 CTGTATCTCATCAAGAAGACAAATTTGGTCC
*
23423260 GCTTCTCAGTATCTCATCAAGAAGCT
1 GCTTCTCAGTATCTCATCAGGAAGCT
23423286 AACCATTTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
161 164 0.99
162 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (161 bp):
GCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCACTCACTTGGAGCCTAGCTTCATT
GATTTAGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCTCTTCT
CTGTATCTCATCAAGAAGACAAATTTGGTCC
Found at i:23424285 original size:41 final size:40
Alignment explanation
Indices: 23424220--23424297 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
23424210 TTTGGTTTCA
**
23424220 AGACGCCCTTTGCAGGTTTTCATCTTGATTTTTTTTATCG
1 AGACGCCCTTTGCAGGTTTTCATCTCAATTTTTTTTATCG
**
23424260 AGACGCCCTTTTGTGGGTTTTCATCTCAATTTTTTTTA
1 AGACGCCC-TTTGCAGGTTTTCATCTCAATTTTTTTTA
23424298 GGCGAAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 8 0.24
41 25 0.76
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (40 bp):
AGACGCCCTTTGCAGGTTTTCATCTCAATTTTTTTTATCG
Found at i:23424293 original size:40 final size:40
Alignment explanation
Indices: 23424220--23424295 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
23424210 TTTGGTTTCA
* *
23424220 AGACGCCCTTTGCAGGTTTTCATCTTGATTTTTTTTATCG
1 AGACGCCCTTTGCAGGTTTTCATCTTCAATTTTTTTATCG
**
23424260 AGACGCCCTTTTGTGGGTTTTCATC-TCAATTTTTTT
1 AGACGCCC-TTTGCAGGTTTTCATCTTCAATTTTTTT
23424296 TAGGCGAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 17 0.55
41 14 0.45
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (40 bp):
AGACGCCCTTTGCAGGTTTTCATCTTCAATTTTTTTATCG
Found at i:23435535 original size:29 final size:28
Alignment explanation
Indices: 23435491--23436009 Score: 444
Period size: 29 Copynumber: 17.9 Consensus size: 28
23435481 TGGACATCCG
23435491 GGGTAAAATGGTAATTTTTGGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
23435520 GGGTTAAAATGG-AATTTTTGGAAATTTAA
1 GGG-TAAAATGGTAATTTTTGGAAATTT-A
* * *
23435549 GGGTAAAATAGTAATTTTTGGACATTCAA
1 GGGTAAAATGGTAATTTTTGGAAATT-TA
*
23435578 GGGTAAAATGGTATTTTTTGGAAAGTTTA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
23435607 GGGTCAAAAATGG-AATTTTTGGAAATTTA
1 GGGT--AAAATGGTAATTTTTGGAAATTTA
* *
23435636 GGGCTAAAATGGTAATTTTTGGACATTCAA
1 GGG-TAAAATGGTAATTTTTGGAAATT-TA
*
23435666 GGGTAAAATGGTAAGTTTTGGAAATTTA
1 GGGTAAAATGGTAATTTTTGGAAATTTA
* **
23435694 GGGGTAAAATGGTAATTTTTGGACATCCAA
1 -GGGTAAAATGGTAATTTTTGGAAAT-TTA
* *
23435724 AGGTAAAATGGTAATTTTTGGAAAGTTTG
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
* *
23435753 GGGTCAAAAATGAT-ATTTTTGGAAATTCGA
1 GGGT--AAAATGGTAATTTTTGGAAATT-TA
* **
23435783 GGGTAAAATGGTAATTTTTGGATATTCG
1 GGGTAAAATGGTAATTTTTGGAAATTTA
*
23435811 GGGTAAAATGGTAATTTTTGGAAAGTTCA
1 GGGTAAAATGGTAATTTTTGGAAA-TTTA
* * *
23435840 TGGTAAAAAATGAT-ATTTTTGGAAATTCGA
1 GGGT--AAAATGGTAATTTTTGGAAATT-TA
* * *
23435870 GAGTAAAATGGTAATTTTTGGACATTCA
1 GGGTAAAATGGTAATTTTTGGAAATTTA
**
23435898 GGGGTAAAATGGTAATTTTTGGAAAGTTCG
1 -GGGTAAAATGGTAATTTTTGGAAA-TTTA
* *
23435928 GGGTCAAAAATGAT-A-TTTTGG-AAGTTA
1 GGGT--AAAATGGTAATTTTTGGAAATTTA
*
23435955 GAGGGAAAA-GTGTAATTTTTGGAAAGTTTA
1 G-GGTAAAATG-GTAATTTTTGGAAA-TTTA
* *
23435985 GGGGTTAAAAT-TTAATTTTTAGAAA
1 -GGG-TAAAATGGTAATTTTTGGAAA
23436010 GTTCGAGGGT
Statistics
Matches: 402, Mismatches: 53, Indels: 69
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.00
26 5 0.01
27 3 0.01
28 66 0.16
29 216 0.54
30 78 0.19
31 33 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGAAATTTA
Found at i:23435685 original size:146 final size:145
Alignment explanation
Indices: 23435478--23436047 Score: 565
Period size: 146 Copynumber: 3.9 Consensus size: 145
23435468 AAAATTTGTA
* * *
23435478 TTTTGGACATCCG-GGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAATGG-AATTTTTGG
1 TTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAA-TTCAGGG-TAAAATGGTAATTTTTGG
*
23435541 AAATTTAAGGGTAAAATAGTAATTTTTGGACATTCAAGGGTAAAATGGTATTTTTTGGAAAGTTT
64 AAATTTAAGGGTAAAATAGTAATTTTTGGACATTCAAGGGTAAAATGGTAATTTTTGGAAAGTTT
23435606 AGGGTCAAAAATGGAAT
129 AGGGTCAAAAATGGAAT
* * *
23435623 TTTTGGAAATT-TAGGGCTAAAATGGTAATTTTTGGACATTCAAGGGTAAAATGGTAAGTTTTGG
1 TTTTGGAAATTCGAGGG-TAAAATGGTAATTTTTGGAAATTC-AGGGTAAAATGGTAATTTTTGG
* * * *
23435687 AAATTTAGGGGTAAAATGGTAATTTTTGGACATCCAAAGGTAAAATGGTAATTTTTGGAAAGTTT
64 AAATTTAAGGGTAAAATAGTAATTTTTGGACATTCAAGGGTAAAATGGTAATTTTTGGAAAGTTT
*
23435752 GGGGTCAAAAAT-GATAT
129 AGGGTCAAAAATGGA-AT
* *
23435769 TTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGATATTCGGGGTAAAATGGTAATTTTTGGAA
1 TTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAATTCAGGGTAAAATGGTAATTTTTGGAA
* * * * * * * * *
23435834 AGTTCATGGTAAAA-AATGATATTTTTGGAAATTCGAGAGTAAAATGGTAATTTTTGGACA-TTC
66 ATTTAAGGGTAAAATAGT-A-ATTTTTGGACATTCAAGGGTAAAATGGTAATTTTTGGAAAGTTT
23435897 AGGGGT--AAAATGGTAAT
129 A-GGGTCAAAAATGG-AAT
* * *
23435914 TTTTGGAAAGTTCG-GGGTCAAAAATGAT-A-TTTTGGAAGTT-AGAGGGAAAA-GTGTAATTTT
1 TTTTGGAAA-TTCGAGGGT--AAAATGGTAATTTTTGGAAATTCAG-GGTAAAATG-GTAATTTT
* * * * * * ** *
23435974 TGGAAAGTTTAGGGGTTAAAAT-TTAATTTTTAGAAAGTTCGAGGGTCAAATAATGATTTTTGGA
61 TGGAAA-TTTAAGGG-TAAAATAGTAATTTTTGGACA-TTCAAGGGTAAAATGGTAATTTTTGGA
*
23436038 TAGTTTAGGG
123 AAGTTTAGGG
23436048 ACCTATTAGG
Statistics
Matches: 356, Mismatches: 48, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
144 8 0.02
145 114 0.32
146 214 0.60
147 20 0.06
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (145 bp):
TTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAATTCAGGGTAAAATGGTAATTTTTGGAA
ATTTAAGGGTAAAATAGTAATTTTTGGACATTCAAGGGTAAAATGGTAATTTTTGGAAAGTTTAG
GGTCAAAAATGGAAT
Found at i:23436014 original size:87 final size:87
Alignment explanation
Indices: 23435525--23436034 Score: 492
Period size: 88 Copynumber: 5.8 Consensus size: 87
23435515 GTTTAGGGTT
* * * *
23435525 AAAATGG-AATTTTTGGAAATTTAAGGGTAAAATAGTAATTTTTGGACA-TTCAAGGGT--AAAA
1 AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTC-GGGGTCAAAAA
* *
23435586 TGGTATTTTTTGGAAAGTT-TAGGG
65 TGATA-TTTTTGGAAA-TTCGAGGG
* * *
23435610 TCAAAAATGG-AATTTTTGGAAATTTAGGGCTAAAATGGTAATTTTTGGACA-TTCAAGGGT--A
1 ---AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTC-GGGGTCAA
* * *
23435671 AAATGGTAAGTTTTGGAAATT-TAGGGG
62 AAATGAT-ATTTTTGGAAATTCGA-GGG
* ** ** *
23435698 TAAAATGGTAATTTTTGGACATCCAAAGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAA
1 -AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAA
23435763 TGATATTTTTGGAAATTCGAGGG
65 TGATATTTTTGGAAATTCGAGGG
* * ** *
23435786 TAAAATGGTAATTTTTGGATA-TTCGGGGTAAAATGGTAATTTTTGGAAAGTTCATGGTAAAAAA
1 -AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAA
*
23435850 TGATATTTTTGGAAATTCGAGAGT
65 TGATATTTTTGGAAATTCGAG-GG
* *
23435874 AAAATGGTAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAAT
1 AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAAT
* *
23435939 GATA-TTTTGGAAGTTAGAGGG
66 GATATTTTTGGAAATTCGAGGG
* *
23435960 AAAA-GTGTAATTTTTGGAAAGTTTAGGGGTTAAAAT-TTAATTTTTAGAAAGTTCGAGGGTCAA
1 AAAATG-GTAATTTTTGGAAA-TTTAGGGG-TAAAATGGTAATTTTTGGAAAGTTCG-GGGTCAA
23436023 ATAATGAT-TTTT
62 A-AATGATATTTT
23436035 GGATAGTTTA
Statistics
Matches: 366, Mismatches: 41, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
85 1 0.00
86 25 0.07
87 153 0.42
88 169 0.46
89 18 0.05
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (87 bp):
AAAATGGTAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAAT
GATATTTTTGGAAATTCGAGGG
Found at i:23437180 original size:21 final size:21
Alignment explanation
Indices: 23437150--23437190 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23437140 GAAGATATTA
*
23437150 AATAATTATAAATAATAATAT
1 AATAAATATAAATAATAATAT
* *
23437171 AATAAATATATATATTAATA
1 AATAAATATAAATAATAATA
23437191 CATATATACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAAATATAAATAATAATAT
Found at i:23437934 original size:18 final size:18
Alignment explanation
Indices: 23437879--23437942 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
23437869 ATTAATTTTT
*
23437879 AATTT-AAAGTAAATTTA
1 AATTTAAAAATAAATTTA
* * *
23437896 AACTCAAAAATGAATTTA
1 AATTTAAAAATAAATTTA
*
23437914 AATTTAAAAATAAATTCA
1 AATTTAAAAATAAATTTA
23437932 AATTTAAAAAT
1 AATTTAAAAAT
23437943 TAAAAGTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
17 3 0.08
18 35 0.92
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTTAAAAATAAATTTA
Found at i:23443334 original size:13 final size:13
Alignment explanation
Indices: 23443316--23443342 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23443306 TGTTAGGTCG
23443316 TAAATATTAATTA
1 TAAATATTAATTA
23443329 TAAATATTAATTA
1 TAAATATTAATTA
23443342 T
1 T
23443343 TTAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATATTAATTA
Found at i:23444612 original size:109 final size:109
Alignment explanation
Indices: 23444416--23444737 Score: 383
Period size: 109 Copynumber: 3.0 Consensus size: 109
23444406 CGTAAGTTGG
* * * * *
23444416 TGAATACTAAATGGATATTATGTTCTAATGATACACATTGTTACGATGGCTAAGATCCTGCATAT
1 TGAATACTAAATGGATACTATGTTCTGATGATACACACTGTCACGATGGCTGAGATCCTGCATAT
* ** * * * *
23444481 GTTGCGGATTCTCGACAACTTGTTTAAGTAGCATCATGAGCCGA
66 GTTGTGGATTCTTAACAGCTTGTGTGAGCAGCATCATGAGCCGA
* * * * * *
23444525 TGAATACTGAATGGATACAATGTTCTGATGATACACACCGTCGCGATGACTGAGGTCCTGCATAT
1 TGAATACTAAATGGATACTATGTTCTGATGATACACACTGTCACGATGGCTGAGATCCTGCATAT
* * * ** *
23444590 GTTATGGATTCTTAACAGCTTGTGTGAGCAGTATCGTGAGGTGG
66 GTTGTGGATTCTTAACAGCTTGTGTGAGCAGCATCATGAGCCGA
** * *
23444634 TGAATACTAAATGGATACTATGTTCTGATGATACACACTGTCAAAATGGTTGAGATCCTACATAT
1 TGAATACTAAATGGATACTATGTTCTGATGATACACACTGTCACGATGGCTGAGATCCTGCATAT
*
23444699 GTTGTGGATTCTTAATAGCTTGTGTGAGCAGCATCATGA
66 GTTGTGGATTCTTAACAGCTTGTGTGAGCAGCATCATGA
23444738 ATGGGTGATA
Statistics
Matches: 175, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
109 175 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (109 bp):
TGAATACTAAATGGATACTATGTTCTGATGATACACACTGTCACGATGGCTGAGATCCTGCATAT
GTTGTGGATTCTTAACAGCTTGTGTGAGCAGCATCATGAGCCGA
Found at i:23445790 original size:20 final size:21
Alignment explanation
Indices: 23445762--23445816 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
23445752 CACAAGTGGA
23445762 CACAAGGGCGTGTGGGAG-GC
1 CACAAGGGCGTGTGGGAGAGC
*
23445782 CACATGGGCGTGTGGGAGAGC
1 CACAAGGGCGTGTGGGAGAGC
* *
23445803 CACACGGCCGTGTG
1 CACAAGGGCGTGTG
23445817 AACCCTGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.18, C:0.24, G:0.45, T:0.13
Consensus pattern (21 bp):
CACAAGGGCGTGTGGGAGAGC
Found at i:23446763 original size:2 final size:2
Alignment explanation
Indices: 23446756--23446786 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23446746 ACTAAATAAT
*
23446756 TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23446787 GAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23447580 original size:14 final size:14
Alignment explanation
Indices: 23447552--23447584 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
23447542 ATAGAAATAT
23447552 AATAATATATTAAA
1 AATAATATATTAAA
23447566 AATAA-ATATTAAA
1 AATAATATATTAAA
23447579 AA-AATA
1 AATAATA
23447585 CATATCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 11 0.61
14 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATATATTAAA
Done.