Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 35 of 230
Found at i:9494232 original size:115 final size:115
Alignment explanation
Indices: 9494025--9494234 Score: 350
Period size: 115 Copynumber: 1.8 Consensus size: 115
9494015 ATGCATGGTT
* *
9494025 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTAATTC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
* *
9494090 TATGCTTTAGCGGCGTTTTCTAGTAAGCGCCACTAATTCTAGTATACATC
66 TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
**
9494140 AAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
9494205 TATGCATTAGCGGCGTTTTCCCA-TAAGCGC
66 TATGCATTAGCGGCGTTTT-CCAGTAAGCGC
9494235 TGTTGACACC
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 86 0.98
116 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (115 bp):
AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
Found at i:9494757 original size:106 final size:107
Alignment explanation
Indices: 9494573--9494887 Score: 442
Period size: 107 Copynumber: 3.0 Consensus size: 107
9494563 ATTAAGATTC
* *
9494573 AAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAGCACATTAGGGCACG-TTT
1 AAAAGGATATTTGGCTATTT-GATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
* *
9494635 CTTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATTTTT
65 C-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * * *
9494678 AAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
*
9494743 TCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAATTTT
66 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
*
9494785 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCATATTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
* * * *
9494850 TC-AAGTTTCCCAACGCTAAATATTGCCTTATTTAGAAA
66 TCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAA
9494888 AATTCTTTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
104 3 0.02
105 24 0.13
106 43 0.23
107 117 0.63
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:9495083 original size:24 final size:24
Alignment explanation
Indices: 9495037--9495085 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9495027 CATTTTAAAG
*
9495037 AATGAACATATAAATAAATAAATA
1 AATGAACATATAAATAAACAAATA
*
9495061 AATGAACAT-TAAGTAAAACAAATA
1 AATGAACATATAAAT-AAACAAATA
9495085 A
1 A
9495086 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (24 bp):
AATGAACATATAAATAAACAAATA
Found at i:9497595 original size:44 final size:45
Alignment explanation
Indices: 9497543--9497655 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 45
9497533 ATCTACTCTG
* *
9497543 CTGCAACTTCAGAGAGATAAGATATATT-ATTTCAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
* * * *
9497587 CTGCAACTTTAGGGAGATAGGAT-TATTGGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
*
9497631 CTGCAACCTCAGGGAGATAAGATAT
1 CTGCAACTTCAGGGAGATAAGATAT
9497656 GAGATTCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 4 0.07
44 53 0.91
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATATATTGACTTCAATCCGCTCCA
Found at i:9498135 original size:14 final size:15
Alignment explanation
Indices: 9498116--9498145 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9498106 TATTTACGCA
9498116 TAAAGAAA-TTCCTC
1 TAAAGAAATTTCCTC
9498130 TAAAGAAATTTCCTC
1 TAAAGAAATTTCCTC
9498145 T
1 T
9498146 TATTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TAAAGAAATTTCCTC
Found at i:9518517 original size:16 final size:16
Alignment explanation
Indices: 9518496--9518527 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9518486 GGTTGGGACG
*
9518496 TTAGTTCCGTGTTTAC
1 TTAGTTCCATGTTTAC
9518512 TTAGTTCCATGTTTAC
1 TTAGTTCCATGTTTAC
9518528 ATTCTAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (16 bp):
TTAGTTCCATGTTTAC
Found at i:9519372 original size:9 final size:9
Alignment explanation
Indices: 9519358--9519406 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
9519348 TTTAGTTAAA
9519358 AATTAACCG
1 AATTAACCG
9519367 AATTAACCG
1 AATTAACCG
*
9519376 AATTACCCG
1 AATTAACCG
*
9519385 AATTACCCG
1 AATTAACCG
*
9519394 GATTAACCG
1 AATTAACCG
9519403 AATT
1 AATT
9519407 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:9519550 original size:18 final size:18
Alignment explanation
Indices: 9519527--9519570 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9519517 TAATTTTATG
*
9519527 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
9519545 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
9519563 CTTGGGTT
1 ATTGGGTT
9519571 TGGATTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:9519944 original size:15 final size:15
Alignment explanation
Indices: 9519924--9519955 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9519914 CATTTCACTA
*
9519924 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
9519939 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
9519954 TT
1 TT
9519956 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:9521637 original size:36 final size:33
Alignment explanation
Indices: 9521559--9521668 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
9521549 ATTCCAAAAA
*
9521559 TAAT-ATTATTTTAATAGTTTAATATTAAATAT
1 TAATAATTATCTTAATAGTTTAATATTAAATAT
* * *
9521591 TAATACTTATCTTAATAGTTTATTAATTTAATAT
1 TAATAATTATCTTAATAGTTTAAT-ATTAAATAT
9521625 TAAAATAATTATCTTAATA--TTAA-ATTAAAT-T
1 T--AATAATTATCTTAATAGTTTAATATTAAATAT
**
9521656 TAATGTTTATCTT
1 TAATAATTATCTT
9521669 GTAGATAAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
29 10 0.15
31 2 0.03
32 10 0.15
33 16 0.25
34 12 0.18
36 15 0.23
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (33 bp):
TAATAATTATCTTAATAGTTTAATATTAAATAT
Found at i:9529057 original size:44 final size:44
Alignment explanation
Indices: 9528989--9529178 Score: 189
Period size: 44 Copynumber: 4.4 Consensus size: 44
9528979 CAGCGTTTAC
*
9528989 GAAAATAAACGCC-CTAAAGGTCATG-TTCTTTAGCCGGGCACTTA
1 GAAAA-AAACGCCGCTAAAGATCATGTTTCTTTAG-CGGGCACTTA
* *
9529033 GAAAAAAATGCCGCTAAAGATCATG-TTCTTTAGCGGCGC-TTTA
1 GAAAAAAACGCCGCTAAAGATCATGTTTCTTTAGCGG-GCACTTA
* * * *
9529076 -AAAAAAGACGTCGCTAAAGATCATGTTTCTTTAGCGGCCGCTTC
1 GAAAAAA-ACGCCGCTAAAGATCATGTTTCTTTAGCGGGCACTTA
9529120 GAAGAAAAACGCCGC-AAAGATCATGTTTCCTTTAGC-GGCACTT-
1 GAA-AAAAACGCCGCTAAAGATCATGTTT-CTTTAGCGGGCACTTA
* *
9529163 GATAAAAACTCCGCTA
1 GAAAAAAACGCCGCTA
9529179 TAGAAATGAC
Statistics
Matches: 124, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
42 16 0.13
43 32 0.26
44 57 0.46
45 15 0.12
46 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (44 bp):
GAAAAAAACGCCGCTAAAGATCATGTTTCTTTAGCGGGCACTTA
Found at i:9529178 original size:87 final size:87
Alignment explanation
Indices: 9529002--9529162 Score: 218
Period size: 87 Copynumber: 1.8 Consensus size: 87
9528992 AATAAACGCC
* * *
9529002 CTAAAGGTCATGTTCTTTAGCCGGGCACTTAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGC
1 CTAAAGATCATGTTCTTTAGCCGGCCACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
*
9529067 GGCGCTTTAAAAAAAGACGTCG
66 GGCACTTTAAAAAAAGACGTCG
* *
9529089 CTAAAGATCATGTTTCTTTAG-CGGCCGCTTCGAAGAAAAACGCCGC-AAAGATCATGTTTCCTT
1 CTAAAGATCATG-TTCTTTAGCCGGCCACTTAGAA-AAAAACGCCGCTAAAGATCATG-TT-CTT
9529152 TAGCGGCACTT
62 TAGCGGCACTT
9529163 GATAAAAACT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
87 31 0.48
88 20 0.31
89 13 0.20
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (87 bp):
CTAAAGATCATGTTCTTTAGCCGGCCACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
GGCACTTTAAAAAAAGACGTCG
Found at i:9532386 original size:25 final size:25
Alignment explanation
Indices: 9532352--9532443 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 25
9532342 TGGAACAACT
9532352 TGTAAGTTATGTATTAAGTAAATTA
1 TGTAAGTTATGTATTAAGTAAATTA
*
9532377 TGTAAGTTATGTATATATTA-TAAAAGATA
1 TGTAAGTTATGTAT-TA--AGT-AAA-TTA
* *
9532406 TGTAAGTTATGTATTATGTAAGTTA
1 TGTAAGTTATGTATTAAGTAAATTA
* *
9532431 TATAAGCTATGTA
1 TGTAAGTTATGTA
9532444 AGTTATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 27 0.49
26 4 0.07
27 2 0.04
28 6 0.11
29 16 0.29
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (25 bp):
TGTAAGTTATGTATTAAGTAAATTA
Found at i:9532425 original size:16 final size:15
Alignment explanation
Indices: 9532404--9532541 Score: 63
Period size: 16 Copynumber: 8.8 Consensus size: 15
9532394 TTATAAAAGA
9532404 TATGTAAGTTATGTAT
1 TATGTAAGTTAT-TAT
*
9532420 TATGTAAGTTATATAAGC
1 TATGTAAGTTAT-T-A-T
9532438 TATGTAAG---TTAT
1 TATGTAAGTTATTAT
9532450 TATGTAAGTTAATATAT
1 TATGTAAGTT-AT-TAT
* * *
9532467 AATATATGTTGATTAT
1 TATGTAAGTT-ATTAT
*
9532483 GTAT-TAAG-TA-AAT
1 -TATGTAAGTTATTAT
* *
9532496 TAGGTAAGTTATGCAT
1 TATGTAAGTTAT-TAT
9532512 TATGTAAGTTATATAAGT
1 TATGTAAGTTAT-T-A-T
9532530 TATGTAAGTTAT
1 TATGTAAGTTAT
9532542 ATAAGCTACG
Statistics
Matches: 93, Mismatches: 15, Indels: 26
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.11
13 7 0.08
14 4 0.04
15 2 0.02
16 33 0.35
17 16 0.17
18 21 0.23
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (15 bp):
TATGTAAGTTATTAT
Found at i:9532442 original size:34 final size:34
Alignment explanation
Indices: 9532394--9532596 Score: 115
Period size: 34 Copynumber: 6.1 Consensus size: 34
9532384 TATGTATATA
* *
9532394 TTATAAAAGATATGTAAGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
*
9532428 TTATATAAGCTATGTAAG---T-TATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* * *
9532458 TTA-ATATA-TAATATATG-T-TG-ATTATGT-A-
1 TTATATA-AGTTATGTAAGTTATGTATTATGTAAG
* * *
9532486 TTA-AGTAAATTAGGTAAGTTATGCATTATGTAAG
1 TTATA-TAAGTTATGTAAGTTATGTATTATGTAAG
* * *
9532520 TTATATAAGTTATGTAAGTTATATAAGCTACGTAAG
1 TTATATAAGTTATGTAAGTTATGT-A-TTATGTAAG
* * * *
9532556 TTATTATGTAAGTCATGTAGGCTATGTCTTATGTAAG
1 TTA-TA--TAAGTTATGTAAGTTATGTATTATGTAAG
9532593 TTAT
1 TTAT
9532597 TATAGGTAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
28 5 0.04
29 16 0.12
30 24 0.18
31 3 0.02
32 7 0.05
33 1 0.01
34 34 0.26
35 2 0.02
36 11 0.08
37 12 0.09
39 15 0.12
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (34 bp):
TTATATAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:9532507 original size:25 final size:25
Alignment explanation
Indices: 9532479--9532535 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
9532469 TATATGTTGA
*
9532479 TTATGTATTAAGTAAATTAGGTAAG
1 TTATGTATTAAGTAAATTAGATAAG
* * * *
9532504 TTATGCATTATGTAAGTTATATAAG
1 TTATGTATTAAGTAAATTAGATAAG
9532529 TTATGTA
1 TTATGTA
9532536 AGTTATATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTAGATAAG
Found at i:9532596 original size:9 final size:9
Alignment explanation
Indices: 9532352--9532559 Score: 101
Period size: 9 Copynumber: 23.1 Consensus size: 9
9532342 TGGAACAACT
9532352 TGTAAGTTA
1 TGTAAGTTA
9532361 TGT-A-TTA
1 TGTAAGTTA
* *
9532368 AGTAAATTA
1 TGTAAGTTA
9532377 TGTAAGTTA
1 TGTAAGTTA
*
9532386 TGTATATATTA
1 TGTA-A-GTTA
** *
9532397 TAAAAGATA
1 TGTAAGTTA
9532406 TGTAAGTTA
1 TGTAAGTTA
9532415 TGT-A-TTA
1 TGTAAGTTA
9532422 TGTAAGTTA
1 TGTAAGTTA
* *
9532431 TATAAGCTA
1 TGTAAGTTA
9532440 TGTAAGTTATTA
1 TGTAAG---TTA
9532452 TGTAAGTTAA
1 TGTAAGTT-A
* *
9532462 TATATAATATA
1 TGTA-AGT-TA
*
9532473 TGT-TGATTA
1 TGTAAG-TTA
9532482 TGT-A-TTA
1 TGTAAGTTA
* *
9532489 AGTAAATTA
1 TGTAAGTTA
*
9532498 GGTAAGTTA
1 TGTAAGTTA
*
9532507 TG-CA-TTA
1 TGTAAGTTA
9532514 TGTAAGTTA
1 TGTAAGTTA
*
9532523 TATAAGTTA
1 TGTAAGTTA
9532532 TGTAAGTTA
1 TGTAAGTTA
* *
9532541 TATAAGCTA
1 TGTAAGTTA
*
9532550 CGTAAGTTA
1 TGTAAGTTA
9532559 T
1 T
9532560 TATGTAAGTC
Statistics
Matches: 147, Mismatches: 35, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
7 21 0.14
8 7 0.05
9 93 0.63
10 7 0.05
11 10 0.07
12 9 0.06
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:9532598 original size:110 final size:109
Alignment explanation
Indices: 9532403--9532650 Score: 258
Period size: 110 Copynumber: 2.3 Consensus size: 109
9532393 ATTATAAAAG
* *
9532403 ATATGTAAGTTATGT-A-TTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTTAATATA
1 ATATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAATATA
* * * *
9532466 TAATATATGTTGATTATGTATTA-A-GTAAATTAGGTAAGTTAT
66 GAATATATCTTGATTAAGTATTATAGGTAAATTAGGAAAGTTAT
*
9532508 GCATTATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAG-TCAT
1 --A-TATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAAT
* ** * * *
9532572 GTAGGCTATGTCTT-ATGTAAGTTATTATAGGTAAGTTATGAAAGTTAT
63 ATAGAATATATCTTGAT-TAAG-TATTATAGGTAAATTAGGAAAGTTAT
* *
9532620 ATAT-AAATTTATATATAGTTATGTAAGTTAT
1 ATATGTAAGTTATATA-AGTTATGTAAGTTAT
9532651 TATGTAAGTT
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
107 1 0.01
108 24 0.20
109 33 0.28
110 44 0.37
111 1 0.01
112 15 0.13
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (109 bp):
ATATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTACGTAAGTTATTATGTAAGTTAATATA
GAATATATCTTGATTAAGTATTATAGGTAAATTAGGAAAGTTAT
Found at i:9532675 original size:28 final size:29
Alignment explanation
Indices: 9532641--9532728 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 29
9532631 TATATAGTTA
9532641 TGTAAGTTAT-TATGTAAGTTAACTGTTG
1 TGTAAGTTATGTATGTAAGTTAACTGTTG
* *
9532669 TGTAAGTT-TGTATATAAATTTAA----T-
1 TGTAAGTTATGTATGT-AAGTTAACTGTTG
*
9532693 T-TAAGTTATGTATGTAAGTTATCTGTTG
1 TGTAAGTTATGTATGTAAGTTAACTGTTG
9532721 TGTAAGTT
1 TGTAAGTT
9532729 GTATATAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
23 11 0.24
24 7 0.15
25 1 0.02
27 2 0.04
28 13 0.28
29 12 0.26
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (29 bp):
TGTAAGTTATGTATGTAAGTTAACTGTTG
Found at i:9532733 original size:51 final size:52
Alignment explanation
Indices: 9532643--9532765 Score: 223
Period size: 51 Copynumber: 2.4 Consensus size: 52
9532633 TATAGTTATG
*
9532643 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
9532694 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAG-TTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
9532745 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
9532766 GTCAGTTGTG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
51 47 0.67
52 23 0.33
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:9532772 original size:9 final size:9
Alignment explanation
Indices: 9532754--9532834 Score: 71
Period size: 9 Copynumber: 9.4 Consensus size: 9
9532744 TTAAGTTATG
9532754 TATGTAAGT
1 TATGTAAGT
*
9532763 TATGTCAGT
1 TATGTAAGT
*
9532772 TGTGT-A-T
1 TATGTAAGT
*
9532779 AATGTAAGT
1 TATGTAAGT
* *
9532788 TATGAAATT
1 TATGTAAGT
9532797 TATGT-A-T
1 TATGTAAGT
9532804 TATGTAAGT
1 TATGTAAGT
*
9532813 TATTTAAGT
1 TATGTAAGT
*
9532822 TATTTAAGT
1 TATGTAAGT
9532831 TATG
1 TATG
9532835 AAATATAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 10 0.17
8 4 0.07
9 44 0.76
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TATGTAAGT
Found at i:9532788 original size:25 final size:25
Alignment explanation
Indices: 9532755--9532824 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
9532745 TAAGTTATGT
** *
9532755 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
9532780 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
9532805 ATGTAAGTTATTTAAGTTAT
1 ATGTAAGTTATGAAAGTTAT
9532825 TTAAGTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:9533005 original size:28 final size:29
Alignment explanation
Indices: 9532974--9533050 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
9532964 AAATTATATG
*
9532974 TTAAAAATAT-ATATATTAATATGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* *
9533002 TT-AAATTTTAATATATTAATACGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* * *
9533030 TTATATATATTAATACATTAA
1 TTAAAAATA-TAATATATTAA
9533051 GTAACTACCG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 5 0.13
28 21 0.55
29 2 0.05
30 10 0.26
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAAAAATATAATATATTAATACGTTAAA
Found at i:9533037 original size:22 final size:23
Alignment explanation
Indices: 9533001--9533050 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9532991 AATATGTTAA
*
9533001 ATTAAATTTTAATATATTAATAC
1 ATTAAATTATAATATATTAATAC
*
9533024 GTTAAATTAT-ATATATTAATAC
1 ATTAAATTATAATATATTAATAC
9533046 ATTAA
1 ATTAA
9533051 GTAACTACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAATTATAATATATTAATAC
Found at i:9533105 original size:120 final size:120
Alignment explanation
Indices: 9532967--9533440 Score: 715
Period size: 120 Copynumber: 3.9 Consensus size: 120
9532957 TACATTAAAA
* *
9532967 TTATATGTTAAAAATATATATATTAATATGTTAAATTAAATTTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
9533032 ATATATATTAATACATTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
9533087 TTATATATTAAAATTATATGTTATAAATATATATTGATACGTTAAATTAAATTTTAATATATTAA
1 TTATATATTAAAA--ATA---TAT--ATAT-TA---ATACGTTAAATTAAATTTTAATATATTAA
9533152 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
55 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
9533217 C
120 C
* *
9533218 TTATATATTAAAAATATATATACTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAGTT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
9533283 ATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
* *
9533338 TTATATATTAAAAATATATCTA-TACTACGTTAAATTAAA-TTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
* * *
9533401 ATAGATATCAATACGTTAAGT---TACCCAAATTAAGACTAAT
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAAT
9533441 TCGAACATTT
Statistics
Matches: 330, Mismatches: 13, Indels: 27
0.89 0.04 0.07
Matches are distributed among these distances:
115 18 0.05
118 41 0.12
119 16 0.05
120 126 0.38
122 3 0.01
123 2 0.01
124 3 0.01
125 3 0.01
126 3 0.01
127 4 0.01
128 2 0.01
129 3 0.01
131 106 0.32
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (120 bp):
TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
Found at i:9533135 original size:33 final size:28
Alignment explanation
Indices: 9533115--9533175 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
9533105 TGTTATAAAT
* *
9533115 ATATATTGATACGTTAAATTAAATTTTA
1 ATATATTAATACGTTAAATTATATTTTA
9533143 ATATATTAATACGTTAAATTATATATATTA
1 ATATATTAATACGTTAAATTATAT-T-TTA
9533173 ATA
1 ATA
9533176 CGTTAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.76
29 1 0.03
30 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATATTAATACGTTAAATTATATTTTA
Found at i:9533171 original size:22 final size:23
Alignment explanation
Indices: 9533133--9533181 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
9533123 ATACGTTAAA
*
9533133 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
9533156 TTAAATTAT-ATATATTAATACG
1 TTAAATTATAATATATTAATACG
9533178 TTAA
1 TTAA
9533182 GTAACTACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:9533374 original size:27 final size:25
Alignment explanation
Indices: 9533312--9533401 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 25
9533302 GTAACTACCG
9533312 AAATTAAGACTAATATATTAAATA-GCTT
1 AAATTAA-A-TAATATATT-AATACG-TT
9533340 ATATATTAAA-AATATATCTATACTACGTT
1 A-A-ATTAAATAATATAT-TA-A-TACGTT
9533369 AAATTAAATTTAATATATTAATACGTT
1 AAATTAAA--TAATATATTAATACGTT
9533396 AAATTA
1 AAATTA
9533402 TAGATATCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
27 26 0.49
28 5 0.09
29 9 0.17
30 13 0.25
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATTAAATAATATATTAATACGTT
Found at i:9534993 original size:83 final size:83
Alignment explanation
Indices: 9534899--9535086 Score: 218
Period size: 82 Copynumber: 2.3 Consensus size: 83
9534889 AGTTTTCTCA
* ** * *
9534899 AAAAACACCACTATTAAATTATTTTCCAGTACAGAAACAGCGCCGCATAAGG-AAATTTAATTAA
1 AAAAACGCCACTATTAAATT-TTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAA
* * *
9534963 TCATTGTGGCGTTTTCCTT
65 TCATTGCGGCGTTTCCCCT
* * * * **
9534982 AAAAATGCCACTA-TAAAATTTTTCCAACACTGAAACGGCGCCGCATTCGGAAAAGTTAATCAAT
1 AAAAACGCCACTATTAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
9535046 CATTGCGGCGTTTCCCCT
66 CATTGCGGCGTTTCCCCT
*
9535064 AAAAACGCCACTATCAAATTTTT
1 AAAAACGCCACTATTAAATTTTT
9535087 ATTACTATTA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 25 0.29
82 43 0.50
83 18 0.21
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (83 bp):
AAAAACGCCACTATTAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
CATTGCGGCGTTTCCCCT
Found at i:9535905 original size:8 final size:7
Alignment explanation
Indices: 9535865--9535920 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
9535855 ACTAAAGCGG
9535865 CCTAAAC
1 CCTAAAC
*
9535872 CCCAAAC
1 CCTAAAC
9535879 CC-AAAC
1 CCTAAAC
*
9535885 CTTAAAC
1 CCTAAAC
9535892 CCTAAAC
1 CCTAAAC
9535899 TCCTAAAC
1 -CCTAAAC
*
9535907 CATAAAC
1 CCTAAAC
*
9535914 CCAAAAC
1 CCTAAAC
9535921 ACCAAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 5 0.12
7 29 0.71
8 7 0.17
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Found at i:9536435 original size:115 final size:115
Alignment explanation
Indices: 9536228--9536437 Score: 350
Period size: 115 Copynumber: 1.8 Consensus size: 115
9536218 ATGCATGGTT
* *
9536228 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGTGCCGCTAATTC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
* *
9536293 TATGCTTTAGCGGCGTTTTCTAGTAAGCGCCACTAATTCTAGTATACATC
66 TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
**
9536343 AAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
1 AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
9536408 TATGCATTAGCGGCGTTTTCCCA-TAAGCGC
66 TATGCATTAGCGGCGTTTT-CCAGTAAGCGC
9536438 TGTTGACACC
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 86 0.98
116 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (115 bp):
AAGACCAAAACAATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTAATAC
TATGCATTAGCGGCGTTTTCCAGTAAGCGCCACTAATTCTAGTATACATC
Found at i:9536961 original size:106 final size:107
Alignment explanation
Indices: 9536777--9537091 Score: 442
Period size: 107 Copynumber: 3.0 Consensus size: 107
9536767 ATTAAGATTC
* *
9536777 AAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAGCACATTAGGGCACG-TTT
1 AAAAGGATATTTGGCTATTT-GATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
* *
9536839 CTTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATTTTT
65 C-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * * *
9536882 AAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
*
9536947 TCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAATTTT
66 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
*
9536989 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCATATTAGGGCACGTTTTC
1 AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
* * * *
9537054 TC-AAGTTTCCCAACGCTAAATATTGCCTTATTTAGAAA
66 TCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAA
9537092 AAATTCTTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
104 3 0.02
105 24 0.13
106 43 0.23
107 117 0.63
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
AAAAGGATATTTGGCTATTTGATCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:9537289 original size:24 final size:24
Alignment explanation
Indices: 9537243--9537291 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9537233 CATTTTAAAG
*
9537243 AATGAACATATAAATAAATAAATA
1 AATGAACATATAAATAAACAAATA
*
9537267 AATGAACAT-TAAGTAAAACAAATA
1 AATGAACATATAAAT-AAACAAATA
9537291 A
1 A
9537292 TAACAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (24 bp):
AATGAACATATAAATAAACAAATA
Found at i:9539797 original size:44 final size:42
Alignment explanation
Indices: 9539745--9539852 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 42
9539735 ATCTACTCTG
**
9539745 CTGCAACTTCAGAGAGATAAGATATATTATTTCAATCCGCTCCA
1 CTGCAACTTCAG-GAGATAAGATATATT-GCTCAATCCGCTCCA
* * *
9539789 CTGCAACTTTAGGAGATAGGAT-TATTGCTCAATCTGCTCCA
1 CTGCAACTTCAGGAGATAAGATATATTGCTCAATCCGCTCCA
9539830 CTGCAAC-TCAGGGAGAT-AGATAT
1 CTGCAACTTCA-GGAGATAAGATAT
9539853 GAGATTCTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
40 5 0.09
41 26 0.47
42 4 0.07
43 9 0.16
44 11 0.20
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
CTGCAACTTCAGGAGATAAGATATATTGCTCAATCCGCTCCA
Found at i:9540323 original size:14 final size:15
Alignment explanation
Indices: 9540304--9540333 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9540294 TATTTACGCA
9540304 TAAAGAAA-TTCCTC
1 TAAAGAAATTTCCTC
9540318 TAAAGAAATTTCCTC
1 TAAAGAAATTTCCTC
9540333 T
1 T
9540334 TATTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TAAAGAAATTTCCTC
Found at i:9551546 original size:106 final size:107
Alignment explanation
Indices: 9551361--9551678 Score: 446
Period size: 107 Copynumber: 3.0 Consensus size: 107
9551351 TGGATTAAGA
* * *
9551361 TTTAAAAGGATATTTGGCTATTTAGTTC-AACGAG-AAATTGAAACCCAACACATTAGGGCACG-
1 TTTAAAAGGATATTTGGCTATTT-GGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGT
* *
9551423 TTTCTTCGAATTCCCAAACGC-AAACATTGCCTTATTTTGAATT
65 TTTC-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
* * *
9551466 TTTAAAAGGTTATTTGGCTATTTGGTCGAGCGAGAAAATCGAAACCCAGCACCTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
*
9551531 TTCTCGAATTTCCAAACGCAAAACATTGCCTTGTTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
*
9551573 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTATGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
* * * * * *
9551638 TTCTCGAGTTTCCCAATGCTAAATATTGCCTTATTTAGAAA
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
9551679 AAATTCTTTT
Statistics
Matches: 189, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
104 3 0.02
105 27 0.14
106 40 0.21
107 119 0.63
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
Found at i:9553912 original size:98 final size:99
Alignment explanation
Indices: 9553732--9553925 Score: 295
Period size: 98 Copynumber: 2.0 Consensus size: 99
9553722 CTCACAAAGC
*
9553732 GCCGCTAATACTATGCGTTAGCGGTGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
*
9553797 CCAAACTCTGCGTTTT-GGTTAAGATATTTTGCG
66 CCAAACGCTGCGTTTTGGGTTAAGATATTTTGCG
* * * *
9553830 GCCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATA-CATCAAG
1 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGC-TCAAG
9553894 ACCAAAACGCTGCG-TTTGGGTTAAGATATTTT
65 ACC-AAACGCTGCGTTTTGGGTTAAGATATTTT
9553926 TTGGCACTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
97 1 0.01
98 63 0.72
99 23 0.26
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (99 bp):
GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATAGCTCAAGA
CCAAACGCTGCGTTTTGGGTTAAGATATTTTGCG
Found at i:9554240 original size:228 final size:228
Alignment explanation
Indices: 9553831--9554309 Score: 760
Period size: 228 Copynumber: 2.1 Consensus size: 228
9553821 TATTTTGCGG
*
9553831 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACT-TGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
* ** * *
9553896 CAAAACGCTGCGTTTGGGTTAAGATATTTTTTGGCACTTTTCACAAAGCGCCGTTAATACTATGC
65 CAAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGC
*
9553961 GTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTT
130 GTTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTT
9554026 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
195 GGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* **
9554060 CCGCTAATAGTTGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
1 CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * ** *
9554125 AAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCACCGCTAATACTATGCG
66 AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCG
*
9554190 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
131 TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTTG
* * *
9554255 GTTAATATATTTTGTGGCGCTTTTCACAAAGCG
196 GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
*
9554288 CCGCTAATACTTGTTTTAGCGG
1 CCGCTAATACTTGCTTTAGCGG
9554310 ACGATGTGTT
Statistics
Matches: 228, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
228 218 0.96
229 10 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (228 bp):
CCGCTAATACTTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
AAAACGCTGCGTTTGGGTTAAAATATTTTGCGGCACTTTTCACAAAGCACCGCTAATACTATGCG
TTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCATTTTG
GTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:9554253 original size:114 final size:115
Alignment explanation
Indices: 9553831--9554298 Score: 645
Period size: 114 Copynumber: 4.1 Consensus size: 115
9553821 TATTTTGCGG
* * * *
9553831 CCGCTAATACTATGCTTTAGCTGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* ** * *
9553896 CAAAACGCTGCGTTTGGGTTAAGATATTTTTTGGCACTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* *
9553946 CCGTTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* *
9554011 C-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* * ** * *
9554060 CCGCTAATAGT-TGCTTTAGCGGCGTTTTTTCGTAAGCGCCACTAATTCTAGTATACATCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * * *
9554124 CAAAACGCTGTGTTTTGTTTAAAATATTTTGCGGTGCTTTTCACGAAGCA
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
* *
9554174 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAACGCCACTAATTCTAATATACCTCAAGAC
1 CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * *
9554239 C-AAACTCTGCGTTTTGGTTAATATATTTTGTGGCGCTTTTCACAAAGCG
66 CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
9554288 CCGCTAATACT
1 CCGCTAATACT
9554299 TGTTTTAGCG
Statistics
Matches: 307, Mismatches: 44, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
113 48 0.16
114 152 0.50
115 107 0.35
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (115 bp):
CCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGAC
CAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACAAAGCA
Found at i:9557705 original size:96 final size:96
Alignment explanation
Indices: 9557557--9557743 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 96
9557547 ACTACCGACG
* * * * * *
9557557 ATAAAAATATTGGTTGATAAACCATCTATCGGTGTAGATAAAAGTTGTTAGTACATTGTGGATGA
1 ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
** *
9557622 ATTACTAATTGTTGTAGATGAATTGCTAACA
66 ACCACTAATTGTTGTAGATAAATTGCTAACA
* * * *
9557653 ATAAAAATACTGGTGGATGAACCATCCATTGGTGAAGATAAAAGCTGCTAGTACGTTTTGGATGA
1 ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
**
9557718 ACCACTGGTTGTTGTAGATAAATTGC
66 ACCACTAATTGTTGTAGATAAATTGC
9557744 CAACTGAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (96 bp):
ATAAAAATACTGGTGGATAAACCATCCATCGGTGAAGATAAAAGCTGCTAGTACATTGTGGATGA
ACCACTAATTGTTGTAGATAAATTGCTAACA
Found at i:9557766 original size:49 final size:49
Alignment explanation
Indices: 9557704--9557870 Score: 235
Period size: 49 Copynumber: 3.4 Consensus size: 49
9557694 AAGCTGCTAG
* * *
9557704 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * *
9557753 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
* * * * *
9557802 TACATTATGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
9557851 TACGTTGTGGATGAACCACT
1 TACGTTGTGGATGAACCACT
9557871 AGTCATTCCA
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 102 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTGGTCGTTGTAGATAAATTGCCGACTGAAA
Found at i:9557871 original size:49 final size:49
Alignment explanation
Indices: 9557704--9557895 Score: 231
Period size: 49 Copynumber: 3.9 Consensus size: 49
9557694 AAGCTGCTAG
* * * * *
9557704 TACGTTTTGGATGAACCACTGGTTGTTGTAGATAAATTGCCAACTGAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* * * * *
9557753 TATGTTGTGGATGAAACACTGGTCGTTGTAGGTAAATTGCCGACTGAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* * *
9557802 TACATTATGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTAAAA
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
* ** *
9557851 TACGTTGTGGATGAACCACTAGTCATTCCAGATAAACTGCTGACT
1 TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACT
9557896 CTTCCTCCGT
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 123 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (49 bp):
TACGTTGTGGATGAACCACTAGTCGTTGTAGATAAACTGCCGACTGAAA
Found at i:9561145 original size:16 final size:16
Alignment explanation
Indices: 9561126--9561162 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
9561116 AAAAAATCAA
*
9561126 TTTAGGAAACTGTTAT
1 TTTAGGAAACTGTTAG
9561142 TTTAGGAAACTGTTAG
1 TTTAGGAAACTGTTAG
9561158 TTTAG
1 TTTAG
9561163 TAAATTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (16 bp):
TTTAGGAAACTGTTAG
Found at i:9562354 original size:28 final size:28
Alignment explanation
Indices: 9562322--9562379 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9562312 TTTGGTAAGT
9562322 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
9562350 ATAATTATTATGAGAATTAGAAGATGGA
1 ATAATTATTATGAGAATTAGAAGATGGA
9562378 AT
1 AT
9562380 TTTGGATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.33
Consensus pattern (28 bp):
ATAATTATTATGAGAATTAGAAGATGGA
Found at i:9562903 original size:114 final size:113
Alignment explanation
Indices: 9562625--9563297 Score: 843
Period size: 114 Copynumber: 5.9 Consensus size: 113
9562615 ATAAGCATTG
* *
9562625 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGAGAA
1 GCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAA
* *
9562690 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTC-AGTCTTTA
66 GGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* ** * * * **
9562737 GCGGCATTTTTCAGAAAGCGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCG-CAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* *
9562802 -GGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCCTTA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* **
9562851 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGTGCTTCAGCCCAACGACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCGCAAAA-TACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* * * * * *
9562916 -GGGATTTAGTGGTGTTTTTATTAAAGCGCCGCTAATACTCAGGGCTTTA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* * * *
9562965 GCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGATGCCATTTTCTGAGCTGAGA
1 GCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGA
* * * *
9563030 AGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCTTTA
65 AGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
* * *
9563079 GCGGCGTTTTTGGGAAAGCGCTGCAAGAATACTTCAGCCCAACGACGCAGTTTTTTGAGCTGAGA
1 GCGGCGTTTTTGGGAAAGCGCCGCAA-AATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGA
* *
9563144 AGGATTTAGTGGCGTTTTTATGTAAGCGCTGCTAATGCTCAAGTCTTTA
65 AGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
** * **
9563193 GCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTTCAACCCAACGACGCCGTTTTCTGAGCTTTCG
1 GCGGCGTTTTTGGGAAAGCGCCGC-AAAATACTTCAGCCCAACGACGCCGTTTTCTGAGC-TGAG
* * *
9563258 -GGGATTTAGTGGCGTTTTTATG-AAGCGCCACTAATACTCA
64 AAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCA
9563298 GGGATATAAA
Statistics
Matches: 488, Mismatches: 65, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
112 20 0.04
113 90 0.18
114 372 0.76
115 6 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (113 bp):
GCGGCGTTTTTGGGAAAGCGCCGCAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAA
GGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGTCTTTA
Found at i:9563278 original size:342 final size:339
Alignment explanation
Indices: 9562625--9563300 Score: 994
Period size: 342 Copynumber: 2.0 Consensus size: 339
9562615 ATAAGCATTG
* * * *
9562625 GCGGCGTTTTTGGGAAAGCGCCGCAAAAGACTTCAGCCCAACGACGCCGTTTTTTGAGCTGAGAA
1 GCGGCGTTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGAA
*
9562690 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAATGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
66 GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
* * ** *
9562755 CGCCGTAAAAACACTTCAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTT
131 CGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGTTTT
** * *
9562820 TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAGTGCTT
196 TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTT
* * *
9562885 CAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGTGTTTTTATTAAAGCGCCGCTA
261 CAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTA-TAAAGCGCCACTA
9562950 ATACTCAGGGCTTTA
325 ATACTCAGGGCTTTA
* *
9562965 GCGGCGTTTGTGGGAAAGCGCCACAACAATACTTCAGCCCAACGATGCCATTTTCTGAGCTGAGA
1 GCGGCGTTTGTGGGAAAGCGCCACAA-AAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGA
* * * * * **
9563030 AGGATTTAGTGGCGTTTTTATGTAGGCGCCGCTAAAGCTCAGGTCTTTAGCGGCGTTTTTGGGAA
65 AGGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCA-GTCTTTAGCGGCATTTTTCAGAA
* * * * *
9563095 AGCGCTGCAAGAATACTTCAGCCCAACGACGCAGTTTTTTGAGC-TGAGAAGGATTTAGTGGCGT
129 AGCGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAG-AGGATTTAGTGGCGT
* * *
9563159 TTTTATGTAAGCGCTGCTAATGCTCAAGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
193 TTTTATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATA
*
9563224 CTTCAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATGAAGCGCCAC
258 CTTCAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCGCCAC
9563289 TAATACTCAGGG
323 TAATACTCAGGG
9563301 ATATAAAATA
Statistics
Matches: 298, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
340 24 0.08
341 93 0.31
342 181 0.61
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (339 bp):
GCGGCGTTTGTGGGAAAGCGCCACAAAAGACTTCAGCCCAACGACGCCATTTTCTGAGCTGAGAA
GGATTTAGTGGCGATTTTACGAAAGCGCCGCTAAAGCTCAGTCTTTAGCGGCATTTTTCAGAAAG
CGCCGCAAAAACACTTCAGCCCAACAACGCAGTTTTCTGAGCTTGAGAGGATTTAGTGGCGTTTT
TATGAAAGCGCCGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAATACTT
CAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTATAAAGCGCCACTAA
TACTCAGGGCTTTA
Found at i:9563562 original size:14 final size:15
Alignment explanation
Indices: 9563533--9563566 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
9563523 TAAGTTTTAT
9563533 AGATTATGGAATTAG
1 AGATTATGGAATTAG
9563548 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
9563562 AGATT
1 AGATT
9563567 CTGGTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:9563608 original size:14 final size:14
Alignment explanation
Indices: 9563589--9563659 Score: 74
Period size: 14 Copynumber: 5.2 Consensus size: 14
9563579 TTAATGTGAT
* *
9563589 TTAAGGTTTATAGG
1 TTAAGGGTTAGAGG
9563603 TTAAGGGTTAGAGG
1 TTAAGGGTTAGAGG
* *
9563617 TTAGGGGTTAGGGG
1 TTAAGGGTTAGAGG
*
9563631 TTAAGGGTTAGGGG
1 TTAAGGGTTAGAGG
*
9563645 TT-A-GGTTAGGGG
1 TTAAGGGTTAGAGG
9563657 TTA
1 TTA
9563660 GATGTTAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.22
13 1 0.02
14 39 0.76
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Found at i:9563656 original size:33 final size:33
Alignment explanation
Indices: 9563614--9563676 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
9563604 TAAGGGTTAG
* *
9563614 AGGTTAGGGGTTAGGGGTTAAGGGTTAGGGGTT
1 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGGTT
*
9563647 AGGTTAGGGGTTAGATGTTAAGAGTTAGGG
1 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGG
9563677 ATTTAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (33 bp):
AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGGTT
Found at i:9563660 original size:7 final size:7
Alignment explanation
Indices: 9563601--9563660 Score: 79
Period size: 7 Copynumber: 8.9 Consensus size: 7
9563591 AAGGTTTATA
*
9563601 GGTTAAG
1 GGTTAGG
*
9563608 GGTTAGA
1 GGTTAGG
9563615 GGTTAGG
1 GGTTAGG
9563622 GGTTAGG
1 GGTTAGG
*
9563629 GGTTAAG
1 GGTTAGG
9563636 GGTTAGG
1 GGTTAGG
9563643 GGTTA--
1 GGTTAGG
9563648 GGTTAGG
1 GGTTAGG
9563655 GGTTAG
1 GGTTAG
9563661 ATGTTAAGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 5 0.11
7 41 0.89
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (7 bp):
GGTTAGG
Found at i:9563666 original size:19 final size:20
Alignment explanation
Indices: 9563600--9563676 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
9563590 TAAGGTTTAT
*
9563600 AGGTTAAGGGTTAGAGGTTAG
1 AGGTTAA-GGTTAGGGGTTAG
* * *
9563621 GGGTTAGGGGTTAAGGGTTAG
1 AGGTTA-AGGTTAGGGGTTAG
*
9563642 GGGTT-AGGTTAGGGGTTAG
1 AGGTTAAGGTTAGGGGTTAG
*
9563661 ATGTTAAGAGTTAGGG
1 AGGTTAAG-GTTAGGG
9563677 ATTTAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
21 28 0.62
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (20 bp):
AGGTTAAGGTTAGGGGTTAG
Found at i:9563666 original size:26 final size:26
Alignment explanation
Indices: 9563601--9563675 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
9563591 AAGGTTTATA
9563601 GGTTAAGGGTT-AGAGGTTAGGGGTTAGG
1 GGTTAAGGGTTAAGA-GTTA--GGTTAGG
* *
9563629 GGTTAAGGGTTAGGGGTTAGGTTAGG
1 GGTTAAGGGTTAAGAGTTAGGTTAGG
*
9563655 GGTT-AGATGTTAAGAGTTAGG
1 GGTTAAG-GGTTAAGAGTTAGG
9563676 GATTTAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 22 0.55
28 15 0.38
29 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAAGAGTTAGGTTAGG
Found at i:9563766 original size:110 final size:109
Alignment explanation
Indices: 9563650--9563882 Score: 258
Period size: 110 Copynumber: 2.1 Consensus size: 109
9563640 AGGGGTTAGG
* * * * *
9563650 TTAGGGGTTAGATGTTAAGAGTT-AGGGATTTAGGGTTTATAAATTTAGTG-TTAGGTTA-GAGT
1 TTAGGGGTTAG-GGTCAAGAGTTAAGGG-TTAAGGG-TTA-AAAGTTAGGGATTAGGTTATG-GT
*
9563712 TTAGGGTTTAGATTAATTAGTGTGTTTTAA-GTATATATTAAATAAGGT
61 TTAGGGTTTAGATTAATTAGTGTGTTTTAATGTATATATTAAATAAAGT
* * *** *
9563760 TTAGGGGTTATGGGTCAGGGGTTAAGGGTTAAGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAG
1 TTAGGGGTTA-GGGTCAAGAGTTAAGGGTTAAGGGTTAAAAGTTAGGGATTAGGTTATGGTTTAG
* *
9563825 GGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGT
65 GGTTTAGATTAATTAGTGTGTTTTAATGTATATATTAAATAAAGT
9563870 TTAGGGGTTAGGG
1 TTAGGGGTTAGGG
9563883 CTTAGGGCTT
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
108 5 0.05
109 44 0.42
110 50 0.48
111 5 0.05
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.41
Consensus pattern (109 bp):
TTAGGGGTTAGGGTCAAGAGTTAAGGGTTAAGGGTTAAAAGTTAGGGATTAGGTTATGGTTTAGG
GTTTAGATTAATTAGTGTGTTTTAATGTATATATTAAATAAAGT
Found at i:9563781 original size:14 final size:14
Alignment explanation
Indices: 9563754--9563807 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
9563744 ATATATTAAA
*
9563754 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
* *
9563768 TATGGGTCAGGGGT
1 TAAGGGTTAGGGGT
*
9563782 TAAGGGTTAAGGGT
1 TAAGGGTTAGGGGT
*
9563796 TAGGGGTTAGGG
1 TAAGGGTTAGGG
9563808 ATTGGGTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:9563805 original size:7 final size:7
Alignment explanation
Indices: 9563760--9563807 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
9563750 TAAATAAGGT
9563760 TTAGGGG
1 TTAGGGG
*
9563767 TTATGGG
1 TTAGGGG
*
9563774 TCAGGGG
1 TTAGGGG
*
9563781 TTAAGGG
1 TTAGGGG
*
9563788 TTAAGGG
1 TTAGGGG
9563795 TTAGGGG
1 TTAGGGG
9563802 TTAGGG
1 TTAGGG
9563808 ATTGGGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.19, C:0.02, G:0.50, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:9563876 original size:96 final size:99
Alignment explanation
Indices: 9563776--9563969 Score: 227
Period size: 103 Copynumber: 1.9 Consensus size: 99
9563766 GTTATGGGTC
* * * *
9563776 AGGGGTTAAGGG-TTAAGGG-TTAGGGGTTAG--GGA-TTGGGTTATGGTTTAGGGTTTAGATTA
1 AGGGGTT-AGGGCTT-AGGGCTTAGGGGTTAGGTGGAGTCGGGTTAGGGTTTAAGATTTAGATTA
** *
9563836 ATTAGTGTTTTTTAATTTATATATTAAATAAAGTTT
64 ATTAGTACTTTTTAATTTACATATTAAATAAAGTTT
*
9563872 AGGGGTTAGGGCTTAGGGCTTAGGGGTTATGGATTTGGAGTCGGGTTAGGGTTTAAGATTTGGAT
1 AGGGGTTAGGGCTTAGGGCTTAGGGGTTA-GG---TGGAGTCGGGTTAGGGTTTAAGATTTAGAT
9563937 TAATTAGTACTTTTTAATTTACATATTAAATAA
62 TAATTAGTACTTTTTAATTTACATATTAAATAA
9563970 GTTCTTTATA
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
95 8 0.10
96 19 0.23
97 1 0.01
102 3 0.04
103 50 0.62
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.41
Consensus pattern (99 bp):
AGGGGTTAGGGCTTAGGGCTTAGGGGTTAGGTGGAGTCGGGTTAGGGTTTAAGATTTAGATTAAT
TAGTACTTTTTAATTTACATATTAAATAAAGTTT
Found at i:9563924 original size:109 final size:109
Alignment explanation
Indices: 9563710--9563912 Score: 291
Period size: 110 Copynumber: 1.9 Consensus size: 109
9563700 TTAGGTTAGA
*
9563710 GTTTAGGGTTTAGATTAATTAGTGTGTTTTAAGTATATATTAAATAAGGTTTAGGGGTTATGGGT
1 GTTTAGGGTTTAGATTAATTAGTGTGTTTTAAGTATATATTAAATAAAGTTTAGGGGTTATGGGT
* * *
9563775 CAGGGGTTAAGGGTTAAGGGTTAGGGGTTAGGGATTGGGTTATG
66 CAGGGCTTAAGGGTTAAGGATTAGGAGTTAGGGATTGGGTTATG
* *
9563819 GTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTA-GGG
1 GTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-GTATATATTAAATAAAGTTTAGGGGTTATGGG
* * * *
9563883 CTTAGGGCTTAGGGGTTATGGATTTGGAGT
65 -TCAGGGCTTAAGGGTTAAGGATTAGGAGT
9563913 CGGGTTAGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
109 34 0.41
110 48 0.59
ACGTcount: A:0.25, C:0.01, G:0.33, T:0.41
Consensus pattern (109 bp):
GTTTAGGGTTTAGATTAATTAGTGTGTTTTAAGTATATATTAAATAAAGTTTAGGGGTTATGGGT
CAGGGCTTAAGGGTTAAGGATTAGGAGTTAGGGATTGGGTTATG
Found at i:9564071 original size:21 final size:21
Alignment explanation
Indices: 9564018--9564071 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
9564008 TAAAGCTTAT
9564018 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
9564039 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
9564060 TAATTTAAAATT
1 TAATTTAAAATT
9564072 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:9564087 original size:17 final size:16
Alignment explanation
Indices: 9564055--9564095 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9564045 ATAATTTGAA
*
9564055 TATAATAATTTAAAAT
1 TATAAAAATTTAAAAT
*
9564071 TGTAAAAATTGTAAAAT
1 TATAAAAATT-TAAAAT
9564088 TATAAAAA
1 TATAAAAA
9564096 AATTGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
TATAAAAATTTAAAAT
Found at i:9564098 original size:19 final size:20
Alignment explanation
Indices: 9564074--9564114 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9564064 TTAAAATTGT
*
9564074 AAAAATTGT-AAAATTATAA
1 AAAAATTGTCAAAATTACAA
9564093 AAAAATTGTCAAAATTACAA
1 AAAAATTGTCAAAATTACAA
9564113 AA
1 AA
9564115 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATTGTCAAAATTACAA
Found at i:9564124 original size:28 final size:28
Alignment explanation
Indices: 9564066--9564126 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
9564056 ATAATAATTT
** *
9564066 AAAATTGTAAAAATTGTAAAATTATAAA
1 AAAATTGTAAAAATTACAAAATTAAAAA
* *
9564094 AAAATTGTCAAAATTACAAAA-TAAAAT
1 AAAATTGTAAAAATTACAAAATTAAAAA
9564121 AAAATT
1 AAAATT
9564127 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATTGTAAAAATTACAAAATTAAAAA
Found at i:9564196 original size:47 final size:47
Alignment explanation
Indices: 9564144--9564240 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
9564134 AAAAGAAATA
** * *
9564144 AAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACTT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
* * *
9564191 AAAAAACTGAAATTGATAATTTTATCTAATTTTTTTAAATATTACCT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
9564238 AAA
1 AAA
9564241 TTAATAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (47 bp):
AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACCT
Found at i:9565928 original size:7 final size:7
Alignment explanation
Indices: 9565916--9565967 Score: 77
Period size: 7 Copynumber: 7.3 Consensus size: 7
9565906 TGTTCCTTTA
9565916 TTTTCTG
1 TTTTCTG
9565923 TTTTCTG
1 TTTTCTG
9565930 TTTTCTG
1 TTTTCTG
9565937 TTTTCTG
1 TTTTCTG
*
9565944 TTTTTTG
1 TTTTCTG
*
9565951 TTTTGCTA
1 TTTT-CTG
9565959 TTTTCTG
1 TTTTCTG
9565966 TT
1 TT
9565968 GAATGAAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 35 0.88
8 5 0.12
ACGTcount: A:0.02, C:0.12, G:0.13, T:0.73
Consensus pattern (7 bp):
TTTTCTG
Found at i:9566359 original size:44 final size:44
Alignment explanation
Indices: 9566304--9566387 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
9566294 AGTTTTTATT
*
9566304 TAACTTATTAATATTAAAAAAGTATATATTGATATATTTTATCA
1 TAACTTATTAATATTAAAAAAATATATATTGATATATTTTATCA
**
9566348 TAACTTATTAATATTAAAAAAATATATATTTTTATATTTT
1 TAACTTATTAATATTAAAAAAATATATATTGATATATTTT
9566388 TACAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (44 bp):
TAACTTATTAATATTAAAAAAATATATATTGATATATTTTATCA
Found at i:9566562 original size:13 final size:13
Alignment explanation
Indices: 9566540--9566697 Score: 88
Period size: 13 Copynumber: 12.0 Consensus size: 13
9566530 ATTTACTCTT
* *
9566540 AATATGTTACTTG
1 AATATATTACTTA
9566553 AATATATTACTTA
1 AATATATTACTTA
*
9566566 AATAAATTACTTA
1 AATATATTACTTA
* *
9566579 AATACAATACTTA
1 AATATATTACTTA
*
9566592 CTAA-A-ATTTCGTTA
1 --AATATATTAC-TTA
*
9566606 AATTTATTACTTA
1 AATATATTACTTA
* *
9566619 AATATGTTACTCA
1 AATATATTACTTA
* *
9566632 GATACATTACTTA
1 AATATATTACTTA
* **
9566645 CTAAAAT-TTGGTTA
1 --AATATATTACTTA
* *
9566659 AATTTTTTACTTA
1 AATATATTACTTA
*
9566672 AATATGTTACTTA
1 AATATATTACTTA
*
9566685 AATACATTACTTA
1 AATATATTACTTA
9566698 CTAAAATTGA
Statistics
Matches: 108, Mismatches: 29, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
12 5 0.05
13 86 0.80
14 13 0.12
15 4 0.04
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:9566617 original size:53 final size:53
Alignment explanation
Indices: 9566557--9566705 Score: 235
Period size: 53 Copynumber: 2.8 Consensus size: 53
9566547 TACTTGAATA
** *
9566557 TATTACTTAAATAAATTACTTAAATACAATACTTACTAAAATTTCGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
* * *
9566610 TATTACTTAAATATGTTACTCAGATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
*
9566663 TTTTACTTAAATATGTTACTTAAATACATTACTTACTAAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATT
9566706 GAAGTATATA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATT
Found at i:9566862 original size:9 final size:9
Alignment explanation
Indices: 9566838--9566994 Score: 141
Period size: 9 Copynumber: 18.1 Consensus size: 9
9566828 TATGTACAAG
9566838 AACTTACAT
1 AACTTACAT
* *
9566847 AATTTACAC
1 AACTTACAT
9566856 AACTTACAT
1 AACTTACAT
*
9566865 AACCTACAT
1 AACTTACAT
9566874 AACTTACAT
1 AACTTACAT
9566883 AA--TACA-
1 AACTTACAT
*
9566889 AAGCTTACAC
1 AA-CTTACAT
9566899 AACTTACAT
1 AACTTACAT
9566908 AACTTACAT
1 AACTTACAT
9566917 AACTTACAT
1 AACTTACAT
*
9566926 AAC-TA-AC
1 AACTTACAT
9566933 AACTTA-AGT
1 AACTTACA-T
*
9566942 AACATACAT
1 AACTTACAT
* **
9566951 TACTTTGAT
1 AACTTACAT
9566960 AACTTACAT
1 AACTTACAT
*
9566969 AAGTTACAT
1 AACTTACAT
*
9566978 AA--TACAC
1 AACTTACAT
9566985 AACTTACAT
1 AACTTACAT
9566994 A
1 A
9566995 GTTTACTTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
6 2 0.02
7 14 0.12
8 5 0.04
9 95 0.80
10 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:9566992 original size:25 final size:25
Alignment explanation
Indices: 9566960--9567013 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
9566950 TTACTTTGAT
9566960 AACTTACATAAG-TTACATAATACAC
1 AACTTACAT-AGTTTACATAATACAC
* *
9566985 AACTTACATAGTTTACTTAATACAT
1 AACTTACATAGTTTACATAATACAC
9567010 AACT
1 AACT
9567014 CATTTATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (25 bp):
AACTTACATAGTTTACATAATACAC
Found at i:9566993 original size:43 final size:42
Alignment explanation
Indices: 9566841--9566994 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 42
9566831 GTACAAGAAC
*
9566841 TTACATAATTTACACAACTTACATAACCTACATAACTTACATAA
1 TTACA-AA-TTACACAACTTACATAACTTACATAACTTACATAA
9566885 -TACAAAGCTTACACAACTTACATAACTTACATAACTTACATAA
1 TTACAAA--TTACACAACTTACATAACTTACATAACTTACATAA
* * * * * **
9566928 CTAACAACTTA-AGTAACATACATTACTTTGATAACTTACATAA
1 -TTACAAATTACA-CAACTTACATAACTTACATAACTTACATAA
9566971 GTTACATAA-TACACAACTTACATA
1 -TTACA-AATTACACAACTTACATA
9566995 GTTTACTTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.03
43 80 0.90
44 2 0.02
45 4 0.04
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (42 bp):
TTACAAATTACACAACTTACATAACTTACATAACTTACATAA
Found at i:9568004 original size:15 final size:15
Alignment explanation
Indices: 9567984--9568014 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9567974 CATGTCGTCG
9567984 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
9567999 AAGACAGCGGAGTCT
1 AAGACAGCGGAGTCT
9568014 A
1 A
9568015 TTCAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (15 bp):
AAGACAGCGGAGTCT
Found at i:9570259 original size:21 final size:21
Alignment explanation
Indices: 9570233--9570303 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
9570223 CTACAACTTA
*
9570233 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCTGCAGCAAGGG
* *
9570254 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGGG
** *
9570275 AAGCAGAGGCTGCAATAAGAG
1 AAGCAGAGGCTGCAGCAAGGG
9570296 AAGCAGAG
1 AAGCAGAG
9570304 TAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGGG
Found at i:9570730 original size:42 final size:42
Alignment explanation
Indices: 9570640--9570832 Score: 253
Period size: 42 Copynumber: 4.6 Consensus size: 42
9570630 AGAACATGCA
* * * *
9570640 GCTAAAAAACATGTTCTTTAGCTGCGTTTAG-AAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* *
9570681 GTTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * * *
9570723 TCTAAAGAACATGGTCTTTAGCGGCGCTAAGAAAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
* * *
9570765 GCTAAAGACCATGTTCTTTAGAGGCGCTTACAGAAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
*
9570807 GCTAAAGATCATGTTCTTTAGCGGCG
1 GCTAAAGACCATGTTCTTTAGCGGCG
9570833 TTTTTGTTTG
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 25 0.19
42 105 0.81
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
GCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
Found at i:9577176 original size:35 final size:35
Alignment explanation
Indices: 9577137--9577207 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 35
9577127 GGATTCCTTG
9577137 TTTTT-CTATCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACT-TCTTAATTATTTGTTTTATTTGATAAA
9577172 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
1 TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
9577207 T
1 T
9577208 CTCACTTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (35 bp):
TTTTTACTTCTTAATTATTTGTTTTATTTGATAAA
Found at i:9582387 original size:16 final size:16
Alignment explanation
Indices: 9582366--9582397 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9582356 AGTATGTTTT
9582366 AAATGAAAATTTTGAA
1 AAATGAAAATTTTGAA
*
9582382 AAATGAATATTTTGAA
1 AAATGAAAATTTTGAA
9582398 CTAGCATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATGAAAATTTTGAA
Found at i:9586495 original size:62 final size:62
Alignment explanation
Indices: 9586346--9586568 Score: 212
Period size: 62 Copynumber: 3.6 Consensus size: 62
9586336 GTGTGGCTCC
* * * * ** *
9586346 ACACGGCCTGGACACACACCCATGTGTTAGCCCGTGTGTCTCAGATCCGTAGTCAGTAAGTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* * * * * ** * *
9586408 ACAAGGCTTGGACATACGCTTGTGTGTTAGCCCGTGTGTTTCATATCCAAAGTCAGTGATTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* ** * *
9586470 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGGGTAATACAAATCCAAATTCAGTGAGTT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
* ** * *
9586532 ACATGGCCTAGATGCACGCCCGTGTGTCAGCCCGTGT
1 ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGT
9586569 AACATCTATA
Statistics
Matches: 128, Mismatches: 33, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
62 128 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (62 bp):
ACACGGCCTAGACACACACCCGTGTGTTAGCCCGTGTGTTTCAAATCCAAAGTCAGTGAGTT
Found at i:9601917 original size:11 final size:11
Alignment explanation
Indices: 9601888--9601936 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
9601878 TCGGTCACTC
*
9601888 TCAACAAAAAT
1 TCAAAAAAAAT
9601899 TACAAAAAAAAAT
1 T-C-AAAAAAAAT
9601912 TC---AAAAAT
1 TCAAAAAAAAT
9601920 TCAAAAAAAAT
1 TCAAAAAAAAT
9601931 TCAAAA
1 TCAAAA
9601937 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
8 8 0.25
11 13 0.41
12 2 0.06
13 9 0.28
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.18
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:9601927 original size:19 final size:21
Alignment explanation
Indices: 9601892--9601936 Score: 76
Period size: 19 Copynumber: 2.2 Consensus size: 21
9601882 TCACTCTCAA
9601892 CAAAAATTACAAAAAAAAATT
1 CAAAAATTACAAAAAAAAATT
9601913 CAAAAATT-C-AAAAAAAATT
1 CAAAAATTACAAAAAAAAATT
9601932 CAAAA
1 CAAAA
9601937 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.62
20 1 0.04
21 8 0.33
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (21 bp):
CAAAAATTACAAAAAAAAATT
Found at i:9601967 original size:19 final size:19
Alignment explanation
Indices: 9601904--9601976 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
9601894 AAAATTACAA
*
9601904 AAAAAAATTCAAAA-ATTCA
1 AAAAAAATTCAAAATATT-T
9601923 AAAAAAATTCAAAATAATTT
1 AAAAAAATTCAAAAT-ATTT
**
9601943 -TTAAAATTCAAAATATTT
1 AAAAAAATTCAAAATATTT
9601961 AAAAAAATTCCAAAAT
1 AAAAAAATT-CAAAAT
9601977 TTATATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.09
19 32 0.71
20 6 0.13
21 3 0.07
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAAATTCAAAATATTT
Found at i:9606352 original size:30 final size:31
Alignment explanation
Indices: 9606283--9606354 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
9606273 AAAATGTTAA
* * *
9606283 TGAGTGACCGATTTGTCATTTTTCGATAATG
1 TGAGTGACTGATTTATCATTTTTCGATAAGG
* *
9606314 TTAGTGACTGATTTATTATTTTTCGA-AAGG
1 TGAGTGACTGATTTATCATTTTTCGATAAGG
9606344 TGAGTGACTGA
1 TGAGTGACTGA
9606355 ATTGAAATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
TGAGTGACTGATTTATCATTTTTCGATAAGG
Found at i:9611770 original size:16 final size:17
Alignment explanation
Indices: 9611745--9611778 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9611735 ATATATTTTC
9611745 ATATAATTTATA-AAAA
1 ATATAATTTATATAAAA
*
9611761 ATATATTTTATATAAAA
1 ATATAATTTATATAAAA
9611778 A
1 A
9611779 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTATATAAAA
Found at i:9611797 original size:19 final size:19
Alignment explanation
Indices: 9611775--9611812 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9611765 ATTTTATATA
9611775 AAAAATTATAAA-AAAAAAT
1 AAAAATT-TAAATAAAAAAT
*
9611794 AAAACTTTAAATAAAAAAT
1 AAAAATTTAAATAAAAAAT
9611813 CAAATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTTAAATAAAAAAT
Found at i:9611922 original size:16 final size:15
Alignment explanation
Indices: 9611901--9611932 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9611891 TTTTTTTAGA
9611901 ATATTTTATATTTTTT
1 ATATTTT-TATTTTTT
9611917 ATATTTTTATTTTTT
1 ATATTTTTATTTTTT
9611932 A
1 A
9611933 GATAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATATTTTTATTTTTT
Found at i:9617060 original size:16 final size:16
Alignment explanation
Indices: 9617024--9617089 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 16
9617014 TCCTTTCGCT
9617024 TTTTTGCTCCTTTTTA
1 TTTTTGCTCCTTTTTA
*
9617040 GTTTTG-TCCTATTTTA
1 TTTTTGCTCCT-TTTTA
* *
9617056 TTTTT-AT-TTTCTTTA
1 TTTTTGCTCCTT-TTTA
*
9617071 TTTTTAC-CCTTTTTA
1 TTTTTGCTCCTTTTTA
9617086 TTTT
1 TTTT
9617090 ATTCTTGTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 1 0.03
15 22 0.55
16 17 0.43
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTGCTCCTTTTTA
Found at i:9617256 original size:43 final size:43
Alignment explanation
Indices: 9617171--9617257 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
9617161 GATAATGGTG
* * *
9617171 AATCTTATCTCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACA
1 AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
*
9617214 AATCTTATACCCCTAAAGTTGCAGTGG-GTCAGAAT-AAACTACA
1 AATCTTAT-CCCCTAAAGTTGCAGTGGAGTAAG-ATGAAACTACA
9617257 A
1 A
9617258 CAATAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 20 0.53
44 18 0.47
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (43 bp):
AATCTTATCCCCTAAAGTTGCAGTGGAGTAAGATGAAACTACA
Found at i:9617640 original size:15 final size:15
Alignment explanation
Indices: 9617620--9617652 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9617610 CCTAACCCTA
9617620 AAAGCCCAAACA-CCC
1 AAAGCCC-AACAGCCC
9617635 AAAGCCCAACAGCCC
1 AAAGCCCAACAGCCC
9617650 AAA
1 AAA
9617653 ACCTAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.48, C:0.42, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAGCCCAACAGCCC
Found at i:9619380 original size:17 final size:17
Alignment explanation
Indices: 9619351--9619392 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
9619341 ATAAATAAAT
*
9619351 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGAA
9619367 AATTAAATTAAATTGAA
1 AATTAAATTAAATTGAA
9619384 AATTAAATT
1 AATTAAATT
9619393 CAGATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGAA
Found at i:9624165 original size:17 final size:16
Alignment explanation
Indices: 9624111--9624173 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
9624101 TATTATTTTG
9624111 AAAAATATATATAA-TA
1 AAAAATATATA-AATTA
*
9624127 TAAAAT-TATAAATTTA
1 AAAAATATATAAA-TTA
*
9624143 TGAAAATATATACAATTA
1 -AAAAATATATA-AATTA
9624161 AAAAATATATAAA
1 AAAAATATATAAA
9624174 AAAACCTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 9 0.23
17 15 0.38
18 7 0.18
19 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAAATATATAAATTA
Found at i:9628681 original size:13 final size:14
Alignment explanation
Indices: 9628648--9628682 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9628638 AATTTATTTT
*
9628648 TTAAAAATTTAAAA
1 TTAATAATTTAAAA
9628662 TTAATAATTTAAAA
1 TTAATAATTTAAAA
9628676 -TAATAAT
1 TTAATAAT
9628683 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAATAATTTAAAA
Found at i:9628709 original size:22 final size:22
Alignment explanation
Indices: 9628684--9628739 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9628674 AATAATAATA
*
9628684 TTTTTTTAA-AAAAATTCCAAG
1 TTTTTATAATAAAAATTCCAAG
* *
9628705 TTTTTATAATATAAATTCCATG
1 TTTTTATAATAAAAATTCCAAG
9628727 TTTTT-TAAATAAA
1 TTTTTAT-AATAAA
9628740 TTCGAGTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTTTATAATAAAAATTCCAAG
Found at i:9630242 original size:11 final size:10
Alignment explanation
Indices: 9630228--9630325 Score: 76
Period size: 11 Copynumber: 9.5 Consensus size: 10
9630218 AAAAATTAAA
9630228 AAAAGTATTTT
1 AAAA-TATTTT
9630239 AAAATTATTTT
1 AAAA-TATTTT
***
9630250 AAAAT-TAAA
1 AAAATATTTT
9630259 AAAAGTATTTT
1 AAAA-TATTTT
9630270 AAAATATTTT
1 AAAATATTTT
9630280 AAAAATATTTT
1 -AAAATATTTT
**
9630291 -AAAT-TTAA
1 AAAATATTTT
9630299 AAAAGTATTTT
1 AAAA-TATTTT
9630310 AAAAATATTTT
1 -AAAATATTTT
9630321 AAAAT
1 AAAAT
9630326 TAAAAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
8 2 0.03
9 12 0.17
10 14 0.20
11 37 0.54
12 4 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (10 bp):
AAAATATTTT
Found at i:9630248 original size:41 final size:39
Alignment explanation
Indices: 9630197--9630345 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 39
9630187 TAAAATACCA
**
9630197 AAAATTTATTTTAAAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAA-TTATTTT-AAAATTAAAAAAATTTTAAAAA-TATTTT
*
9630239 AAAATTATTTTAAAATTAAAAAAAGTATTTTAAAATATTTT
1 AAAATTATTTTAAAATTAAAAAAA-T-TTTAAAAATATTTT
* *
9630280 AAAAATATTTTAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTATTTTAAAATTAAAAAA--ATTTTAAAAATATTTT
****
9630321 AAAATTAAAAAAAAATTAAAAAAAT
1 AAAATTATTTTAAAATTAAAAAAAT
9630346 AAATATATTT
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
39 2 0.02
40 13 0.14
41 65 0.71
42 10 0.11
43 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (39 bp):
AAAATTATTTTAAAATTAAAAAAATTTTAAAAATATTTT
Found at i:9630285 original size:31 final size:31
Alignment explanation
Indices: 9630203--9630285 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
9630193 ACCAAAAATT
**
9630203 TATTTTAAAA-ATTAAAAAAATTAAAAAAAG
1 TATTTTAAAATATTTTAAAAATTAAAAAAAG
9630233 TATTTTAAAATTATTTT-AAAATTAAAAAAAG
1 TATTTTAAAA-TATTTTAAAAATTAAAAAAAG
9630264 TATTTTAAAATATTTTAAAAAT
1 TATTTTAAAATATTTTAAAAAT
9630286 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
30 16 0.33
31 29 0.60
32 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (31 bp):
TATTTTAAAATATTTTAAAAATTAAAAAAAG
Found at i:9630308 original size:30 final size:29
Alignment explanation
Indices: 9630270--9630332 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
9630260 AAAGTATTTT
*
9630270 AAAATATTTTAAAAATATTTTAAATTTAA
1 AAAATATTTTAAAAATATTTTAAAATTAA
9630299 AAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTAA
9630329 AAAA
1 AAAA
9630333 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATATTTTAAAAATATTTTAAAATTAA
Found at i:9630344 original size:30 final size:30
Alignment explanation
Indices: 9630280--9630346 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
9630270 AAAATATTTT
* ** **
9630280 AAAAATATTTTAAATTTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAAATTAA
9630310 AAAAATATTTTAAAATTAAAAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAAATTAA
9630340 AAAAATA
1 AAAAATA
9630347 AATATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAAAATTAA
Found at i:9633578 original size:17 final size:17
Alignment explanation
Indices: 9633556--9633589 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9633546 ATGTCATATA
*
9633556 CTTAAAATAAAATAGTG
1 CTTAAAACAAAATAGTG
9633573 CTTAAAACAAAATAGTG
1 CTTAAAACAAAATAGTG
9633590 GAGATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (17 bp):
CTTAAAACAAAATAGTG
Found at i:9634038 original size:29 final size:29
Alignment explanation
Indices: 9633961--9634039 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
9633951 CGTAGGATAT
* *
9633961 ACAGAAATAGTACCGAAGTGCTATAACAGA
1 ACAG-AATAGCACCGAAGTGCCATAACAGA
* * **
9633991 ACAGAATAGCACTGGAGTGCCATGTCAGA
1 ACAGAATAGCACCGAAGTGCCATAACAGA
* *
9634020 ATAGAATATCACCGAAGTGC
1 ACAGAATAGCACCGAAGTGC
9634040 TTAATCAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 35 0.90
30 4 0.10
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (29 bp):
ACAGAATAGCACCGAAGTGCCATAACAGA
Found at i:9636634 original size:177 final size:176
Alignment explanation
Indices: 9636194--9636715 Score: 721
Period size: 176 Copynumber: 3.0 Consensus size: 176
9636184 TTGAGGCATC
* * *
9636194 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGTGCGAAATATGGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* *
9636259 CTAAAATTTAGCTATTCTTATATACTCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATATA-TCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
* * *
9636324 AATTTTCTATGACAATAGAAAA-GAAAAAAAGAATGGATATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* *
9636370 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTAAGCTAAATATAGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * *
9636435 ATGAAATTTAGCCATTCTTATATCATCTTTAAAAATTTGATGGATTAGAATTGAAATTTAGCCAT
66 ATAAAATTTAGCCATTCTTATAT-ATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCAT
*
9636500 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGCCATGTGTCT
130 AATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
* * * *
9636547 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGCAAAATACAGAGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
* * * * *
9636612 TTAAAATTT-GACCATACTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCC
66 ATAAAATTTAG-CCATTCTTATAT-ATCTTTAAAAA-GTTGATGGATTAGAACTGAAATTTAGCC
* * *
9636675 ACTATTTTTTTATGTCAAAAAAAAAGG--AAAAAGAATGGACA
128 A-TAATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACA
9636716 AGTATAGAAA
Statistics
Matches: 309, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
176 160 0.52
177 127 0.41
178 22 0.07
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTCAAATTTGAGCAAAATATAGGGAGCAAAA
ATAAAATTTAGCCATTCTTATATATCTTTAAAAAGTTGATGGATTAGAACTGAAATTTAGCCATA
ATTTTCTATGTCAAAAGAAAAGGAAAAAAAGAATGGACATGTGTCT
Found at i:9636846 original size:151 final size:150
Alignment explanation
Indices: 9636564--9636846 Score: 360
Period size: 151 Copynumber: 1.9 Consensus size: 150
9636554 GTCAAAATTA
* * * *
9636564 AAGTATAGAGATTAAATCTTAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTGACCATAC
1 AAGTATAGAAATTAAATATCAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTAACCATAC
* * *** *
9636629 TTATATAATCTTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCCACTATTTTTTTATGTCAAA
66 TTATATAATCTTAAAAA-GTAGAGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTAAAA
9636694 AAAAAAGGAAAAAGAATGGAC
130 AAAAAAGGAAAAAGAATGGAC
* *
9636715 AAGTATAGAAATTAAATATCAAATTTGAGTGAAATATA-AGA-ATTAAAATTAAAATTTAACCAT
1 AAGTATAGAAATTAAATATCAAATTTGAG-CAAA-ATACAGAGATCAAAATTAAAATTTAACCAT
* *
9636778 TCTTATATAAT-TCTAAAAA-TAGAAGGG-TTAAAACTAAAATTTAACCATTATTTTAACATGTA
64 ACTTATATAATCT-TAAAAAGTAG-AGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTA
9636840 AAAAAAA
127 AAAAAAA
9636847 GGAATCGACA
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
149 38 0.33
150 5 0.04
151 62 0.54
152 6 0.05
153 3 0.03
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (150 bp):
AAGTATAGAAATTAAATATCAAATTTGAGCAAAATACAGAGATCAAAATTAAAATTTAACCATAC
TTATATAATCTTAAAAAGTAGAGGGATTAAAACTAAAATTTAACCACTATTTTAACATGTAAAAA
AAAAAGGAAAAAGAATGGAC
Found at i:9639238 original size:30 final size:30
Alignment explanation
Indices: 9639203--9639272 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
9639193 ACCAAAAAAA
*
9639203 GCCGATTTTTTTCAAAATTTATCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
* ** *
9639233 GCCGATTTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
9639263 GCC-ATTTTTT
1 GCCGATTTTTT
9639273 GGGAAATCGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:9639357 original size:13 final size:13
Alignment explanation
Indices: 9639339--9639365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9639329 ACGTCAGCGC
9639339 GACCTGCTGACGT
1 GACCTGCTGACGT
9639352 GACCTGCTGACGT
1 GACCTGCTGACGT
9639365 G
1 G
9639366 GATGCGATGT
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:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACCTGCTGACGT
Found at i:9639539 original size:22 final size:22
Alignment explanation
Indices: 9639512--9639562 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
9639502 CTCTCTAATC
9639512 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9639534 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9639556 CTCTCAA
1 CTCTCAA
9639563 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9639595 original size:51 final size:51
Alignment explanation
Indices: 9639534--9639646 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
9639524 TTCCAAAATT
9639534 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* *
9639585 CTCTTAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
9639636 CCCTCAATTTC
1 CTCTCAATTTC
9639647 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:9639681 original size:30 final size:30
Alignment explanation
Indices: 9639647--9639711 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
9639637 CCTCAATTTC
9639647 ATTTTTT-AAAATAATTTTAATTTTTTTTAT
1 ATTTTTTAAAAATAATTTTAA-TTTTTTTAT
9639677 ATTTTTTAAAAATAATTTTAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAATTTTTTTAT
9639707 ATTTT
1 ATTTT
9639712 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTTTTAAAAATAATTTTAATTTTTTTAT
Found at i:9641522 original size:18 final size:18
Alignment explanation
Indices: 9641499--9642052 Score: 205
Period size: 18 Copynumber: 34.3 Consensus size: 18
9641489 TTAACCCTAA
9641499 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ****
9641517 CCTAACCCTAA-CCCTAAC
1 CCTAA-CTTAATTAAAAAC
* *
9641535 CCTAATTTAATTAAAACC
1 CCTAACTTAATTAAAAAC
9641553 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* **
9641571 TCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9641582 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9641600 TCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9641618 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
9641629 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9641647 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* **
9641665 TCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9641676 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ****
9641694 CCTAACCCTAA-CCCTAA-
1 CCTAA-CTTAATTAAAAAC
*
9641711 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9641729 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9641747 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* **
9641765 ACTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
9641776 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9641794 CCCAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9641812 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
* *
9641823 CCTAATTTAATTAAAGAC
1 CCTAACTTAATTAAAAAC
**
9641841 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9641852 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9641870 CCTAACTAAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9641888 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9641899 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9641917 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9641935 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
9641946 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
9641964 TCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9641982 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9642000 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
* *
9642011 CCTAATTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
9642029 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9642047 CCTAAC
1 CCTAAC
9642053 CCTAACATAA
Statistics
Matches: 376, Mismatches: 92, Indels: 136
0.62 0.15 0.23
Matches are distributed among these distances:
11 44 0.12
12 17 0.05
14 9 0.02
15 9 0.02
16 3 0.01
17 27 0.07
18 260 0.69
19 7 0.02
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.27
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9641525 original size:6 final size:6
Alignment explanation
Indices: 9641514--9641539 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9641504 CTTAATTAAA
9641514 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
9641540 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:9641529 original size:35 final size:35
Alignment explanation
Indices: 9641456--9641558 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 35
9641446 CTTAATTAAA
*
9641456 AACCCTAACTCTAACCTAATTTAATTAAAAA-CCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
9641490 -----TAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
9641520 AACCCTAACCCTAACCCTAATTTAATTAAAACCCCT
1 AACCCTAACCCTAA-CCTAATTTAATTAAAAACCCT
9641556 AAC
1 AAC
9641559 TTAATTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
29 24 0.41
30 3 0.05
35 9 0.16
36 22 0.38
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (35 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:9641605 original size:29 final size:29
Alignment explanation
Indices: 9641441--9641534 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
9641431 CCACGCAAAC
*
9641441 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9641470 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9641499 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9641528 CCCTAAC
1 -CCTAAC
9641535 CCTAATTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 53 0.90
30 6 0.10
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9641633 original size:29 final size:29
Alignment explanation
Indices: 9641601--9641795 Score: 120
Period size: 29 Copynumber: 6.7 Consensus size: 29
9641591 ATTAAAAACT
9641601 CTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAACTTAATTAAAAACCCTAACCCTAAC
*
9641630 CTAACTTAATTAAAAACCCTAA-CTTAA-
1 CTAACTTAATTAAAAACCCTAACCCTAAC
* * * ** *
9641657 TTAA--AAACT-CTAACCCTAA-CCTAAT
1 CTAACTTAATTAAAAACCCTAACCCTAAC
*
9641682 TTAA-TTAA--AAACCCTAACCCTAACCCTAAC
1 CTAACTTAATTAAA----AACCCTAACCCTAAC
* **
9641712 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACC
1 CTAACTTAATTAAAAACCCTAAC---CCT---AA-C
*
9641748 CTAACTTAATTAAAAACACTAACCCTAAC
1 CTAACTTAATTAAAAACCCTAACCCTAAC
9641777 CTAACTTAATTAAAAACCC
1 CTAACTTAATTAAAAACCC
9641796 CAACTTAATT
Statistics
Matches: 129, Mismatches: 19, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
24 12 0.09
25 7 0.05
26 2 0.02
27 3 0.02
28 4 0.03
29 58 0.45
30 10 0.08
31 4 0.03
32 1 0.01
33 4 0.03
35 2 0.02
36 22 0.17
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
CTAACTTAATTAAAAACCCTAACCCTAAC
Found at i:9641705 original size:35 final size:35
Alignment explanation
Indices: 9641666--9641787 Score: 140
Period size: 35 Copynumber: 3.5 Consensus size: 35
9641656 ATTAAAAACT
9641666 CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
9641701 CTAACCCTAACCTAATTTAATTAAAAACCCTAA-C
1 CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
* **** * *
9641735 TTAATTAAAAACCCTAACTTAATTAAAAACACTAACC
1 CTAA-CCCTAA-CCTAATTTAATTAAAAACCCTAACC
*
9641772 CTAA-CCTAACTTAATT
1 CTAACCCTAACCTAATT
9641788 AAAAACCCCA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
34 9 0.13
35 37 0.52
36 21 0.30
37 4 0.06
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (35 bp):
CTAACCCTAACCTAATTTAATTAAAAACCCTAACC
Found at i:9641758 original size:147 final size:141
Alignment explanation
Indices: 9641582--9641893 Score: 507
Period size: 147 Copynumber: 2.2 Consensus size: 141
9641572 CTAACCCTAA
* * *
9641582 CCTAATTTAATTAAAAACTCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACACTAACCCTAACCTAACTTAATTAAAAAC
* *
9641647 CCTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAAC
66 CCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCCTAAC
9641712 CTAATTTAATTAAAAAC
125 CTAATTTAATTAAAAAC
9641729 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACACTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACACTAACCCTAACCTAACTTAATTAAAAAC
*
9641794 CCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAGACCCTAACCCTAACCTAATT
66 CCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
9641859 TAATTAAAAAC
131 TAATTAAAAAC
*
9641870 CCTAACTAAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
9641894 CCTAACCTAA
Statistics
Matches: 158, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
141 54 0.34
145 3 0.02
147 101 0.64
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (141 bp):
CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACACTAACCCTAACCTAACTTAATTAAAAAC
CCCAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAAC
Found at i:9641842 original size:29 final size:29
Alignment explanation
Indices: 9641800--9641875 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
9641790 AAACCCCAAC
9641800 TTAATTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
*
9641829 TTAATTAAAGACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAAT
9641858 TTAATTAAAAACCCTAAC
1 TTAATTAAAAACCCTAAC
9641876 TAAATTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (29 bp):
TTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:9641974 original size:65 final size:65
Alignment explanation
Indices: 9641899--9642052 Score: 283
Period size: 65 Copynumber: 2.4 Consensus size: 65
9641889 CTAACCCTAA
*
9641899 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA-
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAT
9641963 CTCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 C-CTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
9642028 T
65 T
9642029 CCTAACTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
9642053 CCTAACATAA
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
64 1 0.01
65 85 0.98
66 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (65 bp):
CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAT
Found at i:9642015 original size:94 final size:95
Alignment explanation
Indices: 9641776--9642034 Score: 293
Period size: 94 Copynumber: 2.8 Consensus size: 95
9641766 CTAACCCTAA
* *
9641776 CCTAACTTAATTAAAAACCCCAA-CTTAA-TTAAAAACCCTAACCCTAA-CCTAATTTAATTAAA
1 CCTAACTTAATTAAAAACCCTAACCTTAACTTAAAAACCCTAA--CTAACCCTAACTTAATTAAA
*
9641838 GACCCTAACCCTAACCTAATTTAATTAAAAAC
64 AACCCTAACCCTAACCTAATTTAATTAAAAAC
* * * * * *
9641870 CCTAACTAAATTAAAAACCCTAACCCTAACCTAATTTAA--TTAA-AAACCCTAACTTAATTAAA
1 CCTAACTTAATTAAAAACCCTAACCTTAACTTAA--AAACCCTAACTAACCCTAACTTAATTAAA
9641932 AACCCTAACCCTAACCTAATTTAATTAAAAAC
64 AACCCTAACCCTAACCTAATTTAATTAAAAAC
* *
9641964 TCTAACTTAATTAAAAACCCTAA-CTTAA-TTAAAAACCCTAACCCTAA-CCTAATTTAATTAAA
1 CCTAACTTAATTAAAAACCCTAACCTTAACTTAAAAACCCTAA--CTAACCCTAACTTAATTAAA
*
9642026 AATCCTAAC
64 AACCCTAAC
9642035 TTAATTAAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
90 2 0.01
92 6 0.04
93 6 0.04
94 109 0.80
95 6 0.04
96 6 0.04
98 2 0.01
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (95 bp):
CCTAACTTAATTAAAAACCCTAACCTTAACTTAAAAACCCTAACTAACCCTAACTTAATTAAAAA
CCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:9642021 original size:47 final size:47
Alignment explanation
Indices: 9641965--9642081 Score: 207
Period size: 47 Copynumber: 2.5 Consensus size: 47
9641955 ATTAAAAACT
*
9641965 CTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
*
9642012 CTAATTTAATTAAAAATCCTAACTTAATTAAAAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
*
9642059 ATAATTTAATTAAAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAC
9642082 CCTAACTCTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (47 bp):
CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAAC
Found at i:9642084 original size:6 final size:6
Alignment explanation
Indices: 9642073--9642102 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9642063 TTTAATTAAA
*
9642073 AACCCT AACCCT AACTCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCCT AACCCT
9642103 CGCATTCGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (6 bp):
AACCCT
Found at i:9642102 original size:47 final size:47
Alignment explanation
Indices: 9641520--9641987 Score: 510
Period size: 47 Copynumber: 10.2 Consensus size: 47
9641510 TAAAAACCCT
*
9641520 AACCCTAACCCTAACCCTAATTTAATTAAAACCCCTAACTTAATTAAA
1 AACCCTAACCCTAA-CCTAATTTAATTAAAAACCCTAACTTAATTAAA
* *
9641568 AACTCTAACCCTAACCTAATTTAATTAAAAACTCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
*
9641615 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
*
9641662 AACTCTAACCCTAACCTAATTTAATTAAAAA-CC---C-----T---
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
9641697 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
* * ** * *
9641744 AACCCTAA-CTTAA-TTAA-AAACACTAACCCTAA-CCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTA-ATTAA---AAACCCTAACTTAATTAAA
* * * * * * *
9641791 AACCCCAA-CTTAA-TTAA--AAACCCTAACCCTAA-CCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA--TTAA---AAACCCTAACTTAATTAAA
* *
9641838 GACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTAAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
9641885 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
*
9641932 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
9641979 AACCCTAAC
1 AACCCTAAC
9641988 TTAATTAAAA
Statistics
Matches: 368, Mismatches: 29, Indels: 47
0.83 0.07 0.11
Matches are distributed among these distances:
35 30 0.08
36 2 0.01
38 1 0.00
39 1 0.00
43 1 0.00
44 2 0.01
45 8 0.02
46 10 0.03
47 286 0.78
48 19 0.05
49 6 0.02
51 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.27
Consensus pattern (47 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAA
Found at i:9645581 original size:20 final size:20
Alignment explanation
Indices: 9645558--9645604 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9645548 GGGTTAAGAT
*
9645558 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
9645578 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
9645598 TGAGCTG
1 TGAGCTG
9645605 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:9646412 original size:126 final size:125
Alignment explanation
Indices: 9646091--9646437 Score: 619
Period size: 126 Copynumber: 2.8 Consensus size: 125
9646081 AACTTGCTAT
9646091 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
*
9646156 GGCGATTTTATACTATTTGCTCAAAAACGTC--AAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTAC
9646214 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
9646279 GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATTATTTCTTACATGACCTAC
66 GGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAAATTATTTCTTACATGACCTAC
*
9646340 TGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
* *
9646405 AGCGATTTTATATTATTTGAC-CAGAAACGTCAA
66 GGCGATTTTATACTATTTG-CTCAGAAACGTCAA
9646438 CTCGAAATAA
Statistics
Matches: 216, Mismatches: 4, Indels: 6
0.96 0.02 0.03
Matches are distributed among these distances:
123 95 0.44
125 2 0.01
126 118 0.55
127 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (125 bp):
TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
GGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGACCTAC
Found at i:9646485 original size:10 final size:9
Alignment explanation
Indices: 9646460--9646485 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9646450 TATTCCGGGA
9646460 CCTAAAAAC
1 CCTAAAAAC
9646469 CCTAAAAAC
1 CCTAAAAAC
9646478 CCTAAAAA
1 CCTAAAAA
9646486 TCCTGAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (9 bp):
CCTAAAAAC
Found at i:9646706 original size:29 final size:29
Alignment explanation
Indices: 9646646--9646705 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
9646636 GATTTCCCGG
*
9646646 AAAAT-GGCCCATTCCGGTAAATAATAAA
1 AAAATCGGCCCATTCCGATAAATAATAAA
* *
9646674 AAAATCGGCCCATTTCGATAAAT-TTAAA
1 AAAATCGGCCCATTCCGATAAATAATAAA
9646702 AAAA
1 AAAA
9646706 AACGGCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGATAAATAATAAA
Done.