Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 38 of 145
Found at i:13546522 original size:13 final size:14
Alignment explanation
Indices: 13546504--13546532 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13546494 GTTGTGTTCA
13546504 TTAGTTAATTA-AT
1 TTAGTTAATTATAT
13546517 TTAGTTAATTATAT
1 TTAGTTAATTATAT
13546531 TT
1 TT
13546533 TTAATCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTAGTTAATTATAT
Found at i:13551989 original size:14 final size:15
Alignment explanation
Indices: 13551956--13551993 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13551946 CATTAAGTGT
*
13551956 GCAAAAAAATTGTAT
1 GCAAAAAAATTGTAG
*
13551971 ACAAAAAAATT-TAG
1 GCAAAAAAATTGTAG
13551985 GCAAAAAAA
1 GCAAAAAAA
13551994 GACTGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (15 bp):
GCAAAAAAATTGTAG
Found at i:13563278 original size:20 final size:21
Alignment explanation
Indices: 13563255--13563296 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13563245 TTTTTTAGAT
*
13563255 AATTAAG-TTTATTTTCTTTA
1 AATTAAGAATTATTTTCTTTA
*
13563275 AATTAAGAATTATTTTTTTTA
1 AATTAAGAATTATTTTCTTTA
13563296 A
1 A
13563297 TTTCATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
AATTAAGAATTATTTTCTTTA
Found at i:13563298 original size:20 final size:20
Alignment explanation
Indices: 13563254--13563298 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13563244 CTTTTTTAGA
*
13563254 TAATTAAGTTTATTTTCTTT
1 TAATTAAGATTATTTTCTTT
*
13563274 AAATTAAGAATTATTTT-TTT
1 TAATTAAG-ATTATTTTCTTT
13563294 TAATT
1 TAATT
13563299 TCATGTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TAATTAAGATTATTTTCTTT
Found at i:13565508 original size:22 final size:22
Alignment explanation
Indices: 13565472--13565546 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
13565462 AAGATGTTTT
* *
13565472 GTTGTTGTTTCGCTACTATTTC
1 GTTGTTATTTTGCTACTATTTC
*
13565494 GTTGTTATTTTGCTACCATTTC
1 GTTGTTATTTTGCTACTATTTC
* * *
13565516 GTTATTATATTGCTACTATTTT
1 GTTGTTATTTTGCTACTATTTC
13565538 GTTGTTATT
1 GTTGTTATT
13565547 GTTTGGATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (22 bp):
GTTGTTATTTTGCTACTATTTC
Found at i:13570000 original size:13 final size:13
Alignment explanation
Indices: 13569978--13570009 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13569968 TCAAGTTTTT
*
13569978 TTAATCTTTTTAA
1 TTAATATTTTTAA
13569991 TTAATATTTTTAA
1 TTAATATTTTTAA
13570004 TTAATA
1 TTAATA
13570010 AATATATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATATTTTTAA
Found at i:13573328 original size:1 final size:1
Alignment explanation
Indices: 13573324--13573398 Score: 141
Period size: 1 Copynumber: 75.0 Consensus size: 1
13573314 CCCCCCCCCC
13573324 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
13573389 TTCTTTTTTT
1 TTTTTTTTTT
13573399 GCTATTTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.01, G:0.00, T:0.99
Consensus pattern (1 bp):
T
Found at i:13575471 original size:37 final size:37
Alignment explanation
Indices: 13575423--13575502 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
13575413 TGTACCATGC
13575423 AAAAAG-GCTCTTTAAGAACTATACAAGTTGTTTAGA
1 AAAAAGTGCTCTTTAAGAACTATACAAGTTGTTTAGA
13575459 AAAAAGTGCTCTTTAAGAACTATACAAGTTGTTTAGA
1 AAAAAGTGCTCTTTAAGAACTATACAAGTTGTTTAGA
13575496 AAAAAGT
1 AAAAAGT
13575503 AAACATTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 6 0.14
37 37 0.86
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (37 bp):
AAAAAGTGCTCTTTAAGAACTATACAAGTTGTTTAGA
Found at i:13585236 original size:114 final size:112
Alignment explanation
Indices: 13585005--13585215 Score: 280
Period size: 114 Copynumber: 1.8 Consensus size: 112
13584995 AAAGCGTCGC
* *
13585005 AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGTGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGGCGTTTTTAAGAAA
* *** * *
13585070 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGATTTA--GAAATATTTGAGAAAGAGCCGCA
* *
13585119 AAAAAACCTAAGCCCAACGATGCCATTTTCTAAGCATTCTGGGATTTAGCGGCGGCGTTTTTAAG
1 AAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTA---GCGGCGTTTTTAAG
13585184 AAAGCGCCGCTAATGCTCAGGGATTTA-AAATA
63 AAAGCGCCGCTAATGCTCAGGGATTTAGAAATA
13585216 ATTTAAAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
114 46 0.54
117 39 0.46
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (112 bp):
AAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGGCGTTTTTAAGAAA
GCGCCGCTAATGCTCAGGGATTTAGAAATATTTGAGAAAGAGCCGCA
Found at i:13585396 original size:7 final size:7
Alignment explanation
Indices: 13585375--13585426 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
13585365 TTATGTGTTA
13585375 AGGGTTT
1 AGGGTTT
13585382 ATGGGTTT
1 A-GGGTTT
13585390 AGGGTTTT
1 AGGG-TTT
13585398 AGGGTTT
1 AGGGTTT
*
13585405 A-AGTTT
1 AGGGTTT
*
13585411 AAGGTTT
1 AGGGTTT
*
13585418 AGGGATT
1 AGGGTTT
13585425 AG
1 AG
13585427 ATTAACTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 5 0.13
7 19 0.50
8 14 0.37
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:13589275 original size:42 final size:43
Alignment explanation
Indices: 13589156--13589310 Score: 224
Period size: 43 Copynumber: 3.6 Consensus size: 43
13589146 AAATATTTTT
* *
13589156 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAAGCGCCGT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAA-CGCCGC
* * *
13589199 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAATGCCAC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
*
13589242 TAAAGGTCTTGTTCTTTAG-GGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
*
13589284 TAAAGGTCTTGTTCTTTAGAGGCGTTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTT
13589311 ATTTCTAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
42 39 0.39
43 55 0.54
44 7 0.07
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAACGCCGC
Found at i:13597895 original size:20 final size:20
Alignment explanation
Indices: 13597857--13597895 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13597847 TCATTTTAAA
*
13597857 TTATAAAATATCATTAAAAT
1 TTATAAAATATCATAAAAAT
13597877 TTATAAAATGA-CATAAAAA
1 TTATAAAAT-ATCATAAAAA
13597896 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TTATAAAATATCATAAAAAT
Found at i:13623987 original size:28 final size:28
Alignment explanation
Indices: 13623955--13624011 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13623945 TCAATAGCTC
13623955 AGTCTCAAATTATCAGATAACAACTCAT
1 AGTCTCAAATTATCAGATAACAACTCAT
* * **
13623983 AGTCTCAGATTATCATATAGTAACTCAT
1 AGTCTCAAATTATCAGATAACAACTCAT
13624011 A
1 A
13624012 CGGTCTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (28 bp):
AGTCTCAAATTATCAGATAACAACTCAT
Found at i:13625106 original size:12 final size:11
Alignment explanation
Indices: 13625082--13625113 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
13625072 AAACGAAGGG
13625082 GAAAAGAAAAA
1 GAAAAGAAAAA
13625093 GAAAAGAGAAAA
1 GAAAAGA-AAAA
13625105 GAAAAGAAA
1 GAAAAGAAA
13625114 TGGAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:13625111 original size:23 final size:24
Alignment explanation
Indices: 13625082--13625127 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
13625072 AAACGAAGGG
13625082 GAAAAGAAAAAG-AAAAGAGAAAA
1 GAAAAGAAAAAGAAAAAGAGAAAA
**
13625105 GAAAAGAAATGGAAAAAGAGAAA
1 GAAAAGAAAAAGAAAAAGAGAAA
13625128 GAAGGACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (24 bp):
GAAAAGAAAAAGAAAAAGAGAAAA
Found at i:13629768 original size:22 final size:21
Alignment explanation
Indices: 13629727--13629770 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
13629717 ATATTTTTTA
*
13629727 ATAAAAATTAATTATATAAAT
1 ATAAAAATTAATAATATAAAT
13629748 ATAAAAATATATATAAT-TAAAT
1 ATAAAAAT-TA-ATAATATAAAT
13629770 A
1 A
13629771 CTAACATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAAATTAATAATATAAAT
Found at i:13632793 original size:2 final size:2
Alignment explanation
Indices: 13632786--13632817 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13632776 GAATGAATAT
13632786 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
13632818 TCCCCATCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13648709 original size:20 final size:20
Alignment explanation
Indices: 13648684--13648723 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13648674 AAAATATTTA
*
13648684 TTCTCTAAACCTTAACTCAT
1 TTCTCTAAACCTTAAATCAT
*
13648704 TTCTCTAATCCTTAAATCAT
1 TTCTCTAAACCTTAAATCAT
13648724 AAATTTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (20 bp):
TTCTCTAAACCTTAAATCAT
Found at i:13651524 original size:27 final size:27
Alignment explanation
Indices: 13651493--13651822 Score: 359
Period size: 27 Copynumber: 12.2 Consensus size: 27
13651483 AGTCAAGGGC
*
13651493 AAATGATTGAAATACCCTTGAAGGGTA
1 AAATGATCGAAATACCCTTGAAGGGTA
**
13651520 AAATGATCGAAATACCCTCAAAGGGTA
1 AAATGATCGAAATACCCTTGAAGGGTA
*
13651547 AAATGACCGAAAATACCCTTGAAGGGTA
1 AAATGATCG-AAATACCCTTGAAGGGTA
13651575 AAATGATCGAAATA-CCTCTGAAGGGTA
1 AAATGATCGAAATACCCT-TGAAGGGTA
13651602 AAATGA-CTGAAATACCCTTGAAGGGTA
1 AAATGATC-GAAATACCCTTGAAGGGTA
*
13651629 AAATAATCGAAATACACC-TGAAGGGTA
1 AAATGATCGAAATAC-CCTTGAAGGGTA
13651656 AAATGATCGAAATACCCTTGAAGGGTA
1 AAATGATCGAAATACCCTTGAAGGGTA
* *
13651683 AAATGATTGATATACTCC-TGAAGGGTA
1 AAATGATCGAAATAC-CCTTGAAGGGTA
* * *
13651710 AAATGACCGAAATACCCATAAAGGGTA
1 AAATGATCGAAATACCCTTGAAGGGTA
** **
13651737 AAATGGCCGAAATATCCC-CAAAGGGTA
1 AAATGATCGAAATA-CCCTTGAAGGGTA
* * * *
13651764 AAATGACCAAAAT-GCCTTCAAAGGGTA
1 AAATGATCGAAATACCCTT-GAAGGGTA
* *
13651791 AAATGATCGAAACACCCCT-AATGGGTA
1 AAATGATCGAAATACCCTTGAA-GGGTA
13651818 AAATG
1 AAATG
13651823 CACGAAACAC
Statistics
Matches: 263, Mismatches: 26, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
25 2 0.01
26 10 0.04
27 213 0.81
28 38 0.14
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (27 bp):
AAATGATCGAAATACCCTTGAAGGGTA
Found at i:13651639 original size:54 final size:53
Alignment explanation
Indices: 13651501--13651822 Score: 405
Period size: 54 Copynumber: 5.9 Consensus size: 53
13651491 GCAAATGATT
*
13651501 GAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATGACC
1 GAAATACCCTTGAAGGGTAAAATGATCGAAATACCCT-GAAGGGTAAAATGACC
*
13651555 GAAAATACCCTTGAAGGGTAAAATGATCGAAATACCTCTGAAGGGTAAAATGACT
1 G-AAATACCCTTGAAGGGTAAAATGATCGAAATACC-CTGAAGGGTAAAATGACC
* *
13651610 GAAATACCCTTGAAGGGTAAAATAATCGAAATACACCTGAAGGGTAAAATGATC
1 GAAATACCCTTGAAGGGTAAAATGATCGAAATAC-CCTGAAGGGTAAAATGACC
* *
13651664 GAAATACCCTTGAAGGGTAAAATGATTGATATACTCCTGAAGGGTAAAATGACC
1 GAAATACCCTTGAAGGGTAAAATGATCGAAATAC-CCTGAAGGGTAAAATGACC
* * ** **
13651718 GAAATACCCATAAAGGGTAAAATGGCCGAAATATCCCCAAAGGGTAAAATGACC
1 GAAATACCCTTGAAGGGTAAAATGATCGAAATA-CCCTGAAGGGTAAAATGACC
* * * *
13651772 AAAAT-GCCTTCAAAGGGTAAAATGATCGAAACACCCCT-AATGGGTAAAATG
1 GAAATACCCTT-GAAGGGTAAAATGATCGAAATA-CCCTGAA-GGGTAAAATG
13651823 CACGAAACAC
Statistics
Matches: 236, Mismatches: 26, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
53 5 0.02
54 178 0.75
55 51 0.22
56 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.20
Consensus pattern (53 bp):
GAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTGAAGGGTAAAATGACC
Found at i:13654356 original size:4 final size:4
Alignment explanation
Indices: 13654343--13654418 Score: 138
Period size: 4 Copynumber: 19.5 Consensus size: 4
13654333 TGATTTTTCG
13654343 AATT -ATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AA-T
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
13654389 AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
13654419 AGATCAAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 6 0.09
4 64 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:13654572 original size:16 final size:18
Alignment explanation
Indices: 13654545--13654577 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13654535 TAGAATTGGG
13654545 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
13654562 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
13654578 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:13655051 original size:58 final size:58
Alignment explanation
Indices: 13654980--13655095 Score: 137
Period size: 57 Copynumber: 2.0 Consensus size: 58
13654970 AATCAAATGG
*
13654980 TGAAAATAAAGAAATGGGAAA-CATTTGGAAATGATTATGATTTTCTCCAAAAT-AAAAA
1 TGAAAATAAAGAAAT--GAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAA
** * * * *
13655038 TGAAAATGGAGAAATGAAATCATTTTGAAATTAATGTGGTTTTCTCCAAAATGAAAAA
1 TGAAAATAAAGAAATGAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAA
13655096 GACCTAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
56 4 0.08
57 27 0.55
58 18 0.37
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.29
Consensus pattern (58 bp):
TGAAAATAAAGAAATGAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAA
Found at i:13677098 original size:16 final size:16
Alignment explanation
Indices: 13677077--13677128 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13677067 GAGTGGAAAG
13677077 AAAATTGGAAGGATGA
1 AAAATTGGAAGGATGA
* *
13677093 AAAATTGAAAGGGT-A
1 AAAATTGGAAGGATGA
*
13677108 GAAAATTAGAAGGATGGA
1 -AAAATTGGAAGGAT-GA
13677126 AAA
1 AAA
13677129 CATAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.82
17 3 0.11
18 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
AAAATTGGAAGGATGA
Found at i:13680118 original size:12 final size:12
Alignment explanation
Indices: 13680101--13680125 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13680091 TACACAAATT
13680101 CAGAGAGAGAGA
1 CAGAGAGAGAGA
13680113 CAGAGAGAGAGA
1 CAGAGAGAGAGA
13680125 C
1 C
13680126 CCTCGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.12, G:0.40, T:0.00
Consensus pattern (12 bp):
CAGAGAGAGAGA
Found at i:13686256 original size:6 final size:6
Alignment explanation
Indices: 13686245--13686270 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13686235 GTTCTCATCC
13686245 CTGTCA CTGTCA CTGTCA CTGTCA CT
1 CTGTCA CTGTCA CTGTCA CTGTCA CT
13686271 AGTTGACTCT
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:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (6 bp):
CTGTCA
Found at i:13689094 original size:132 final size:132
Alignment explanation
Indices: 13688939--13689189 Score: 405
Period size: 132 Copynumber: 1.9 Consensus size: 132
13688929 CTTTACTTGC
* *
13688939 TTGGTTTCTGGAGCACTAGCCTGCTCTGAAGCCTGTATATTCTCCCTAGGAGGCTTCAT-GGCAT
1 TTGGTTTCTGGAGCACTAGCCTGCTCTGAAGCCAGTATATTCTCCCTAGGAGGCTTCATAAG-AT
*
13689003 TCATAGGTAACTTGGTATCATCCTTATCAAAGAAGTCATCAGGAAGAGATCCTTTAACGTGCTTT
65 TCATAGGTAACTTGGTATCATCCCTATCAAAGAAGTCATCAGGAAGAGATCCTTTAACGTGCTTT
13689068 GTT
130 GTT
* ** *
13689071 TTGGTTTCTGGAGCACTAGCCTGCTTTGCTGCCAGTTTATTCTCCCTAGGAGGCTTCATAAGATT
1 TTGGTTTCTGGAGCACTAGCCTGCTCTGAAGCCAGTATATTCTCCCTAGGAGGCTTCATAAGATT
* *
13689136 CATAGGTAACTTGGTTTCATCCCTATCAAAGAAGTTATCAGGAAGAGATCCTTT
66 CATAGGTAACTTGGTATCATCCCTATCAAAGAAGTCATCAGGAAGAGATCCTTT
13689190 CACTTTCTTG
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
132 108 0.99
133 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (132 bp):
TTGGTTTCTGGAGCACTAGCCTGCTCTGAAGCCAGTATATTCTCCCTAGGAGGCTTCATAAGATT
CATAGGTAACTTGGTATCATCCCTATCAAAGAAGTCATCAGGAAGAGATCCTTTAACGTGCTTTG
TT
Found at i:13691511 original size:4 final size:4
Alignment explanation
Indices: 13691502--13691540 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
13691492 AAAGTATTTA
* *
13691502 TATC TATC TATC TCTC TCTC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
13691541 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:13694101 original size:2 final size:2
Alignment explanation
Indices: 13694094--13694118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13694084 TGAAAATTTA
13694094 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13694119 ATACAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13702015 original size:9 final size:9
Alignment explanation
Indices: 13702001--13702048 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
13701991 AAGAGGACTG
13702001 ATCCCCATC
1 ATCCCCATC
13702010 ATCCCCATC
1 ATCCCCATC
***
13702019 ATCAAAATC
1 ATCCCCATC
**
13702028 ATCATCATC
1 ATCCCCATC
13702037 ATCCCCATC
1 ATCCCCATC
13702046 ATC
1 ATC
13702049 ATCCACATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (9 bp):
ATCCCCATC
Found at i:13702046 original size:18 final size:18
Alignment explanation
Indices: 13702001--13702051 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
13701991 AAGAGGACTG
**
13702001 ATCCCCATCATCCCCATC
1 ATCCCCATCATCATCATC
***
13702019 ATCAAAATCATCATCATC
1 ATCCCCATCATCATCATC
13702037 ATCCCCATCATCATC
1 ATCCCCATCATCATC
13702052 CACATTTACT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.43, G:0.00, T:0.25
Consensus pattern (18 bp):
ATCCCCATCATCATCATC
Found at i:13713869 original size:14 final size:14
Alignment explanation
Indices: 13713850--13713889 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13713840 TTGTTTGCAA
13713850 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
13713864 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
13713878 GGAAAATGTTTT
1 GTAAAATGTTTT
13713890 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:13713898 original size:20 final size:20
Alignment explanation
Indices: 13713873--13713912 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13713863 CGTAAAATGA
*
13713873 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13713893 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13713913 GAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13713902 original size:34 final size:34
Alignment explanation
Indices: 13713858--13713923 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
13713848 AAGTAAAATG
*
13713858 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACT-GAAAATATTTTAC
*
13713892 TTTTCTGTAAAATGATTTACTGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAATATTTT
13713924 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTACTGAAAATATTTTAC
Found at i:13713988 original size:32 final size:31
Alignment explanation
Indices: 13713905--13713989 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 31
13713895 TCTGTAAAAT
*
13713905 GATTTACTGAAAATATTTTCTGGTGTTTGGATG
1 GATTT-CTGAAAATATTTTCTGCTGTTTGGA-G
* *
13713938 GATCTATGTAAAATATTTTCTGCTGTTTGGCA-
1 GATTTCTG-AAAATATTTTCTGCTGTTTGG-AG
13713970 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
13713990 CGGAAAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 17 0.39
33 26 0.59
34 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGAG
Found at i:13715304 original size:27 final size:29
Alignment explanation
Indices: 13715274--13715344 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
13715264 AATAATCAAT
* *
13715274 TCAATATCCAACAATTTTAAAACAT-A-A
1 TCAATATCCAACAAATTCAAAACATAATA
* *
13715301 TCAATATCTAACAAATTCAAGACATAATA
1 TCAATATCCAACAAATTCAAAACATAATA
*
13715330 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
13715345 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 21 0.58
28 1 0.03
29 14 0.39
ACGTcount: A:0.54, C:0.20, G:0.01, T:0.25
Consensus pattern (29 bp):
TCAATATCCAACAAATTCAAAACATAATA
Found at i:13717872 original size:10 final size:10
Alignment explanation
Indices: 13717857--13717882 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13717847 TCATTAAGTG
13717857 CTAACAAATA
1 CTAACAAATA
13717867 CTAACAAATA
1 CTAACAAATA
13717877 CTAACA
1 CTAACA
13717883 TATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:13718615 original size:16 final size:16
Alignment explanation
Indices: 13718594--13718630 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13718584 CAAACAAATT
*
13718594 TACTTAGAATTGTCAA
1 TACTTAGAATTCTCAA
13718610 TACTTAGAATTCTCAA
1 TACTTAGAATTCTCAA
13718626 TACTT
1 TACTT
13718631 GTATATCAGA
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:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (16 bp):
TACTTAGAATTCTCAA
Found at i:13721307 original size:36 final size:35
Alignment explanation
Indices: 13721267--13721384 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 35
13721257 AATCCCACCA
*
13721267 AAACACACCAGATGCTCACAAGAGCTAGTCCATTCG
1 AAACACACCAGATGCTCACAAGAGCTAATCCA-TCG
* * *
13721303 AAACATACC-GAATGCTCATAAGAGCTAATCCACCTG
1 AAACACACCAG-ATGCTCACAAGAGCTAATCCATC-G
* *
13721339 AAACACACTAG-TGGCTCAGAAGAGCTAATCCAATCG
1 AAACACACCAGAT-GCTCACAAGAGCTAATCC-ATCG
13721375 AAACACACCA
1 AAACACACCA
13721385 AAACAGAGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
35 3 0.04
36 62 0.91
37 3 0.04
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.16
Consensus pattern (35 bp):
AAACACACCAGATGCTCACAAGAGCTAATCCATCG
Found at i:13724028 original size:30 final size:30
Alignment explanation
Indices: 13723994--13724058 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13723984 ACTTATTTTA
*
13723994 TTGTTACTTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
13724024 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
13724054 TTGTT
1 TTGTT
13724059 TATTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:13724691 original size:21 final size:21
Alignment explanation
Indices: 13724667--13724778 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 21
13724657 GCTCGAAGGC
13724667 TGAACAGAAACTCATAAGGGT
1 TGAACAGAAACTCATAAGGGT
** * * * *
13724688 TGAATGGAAGCTCGTAAGAGC
1 TGAACAGAAACTCATAAGGGT
*
13724709 TGAA-AGGAAACCCATAAGGGT
1 TGAACA-GAAACTCATAAGGGT
* * * * *
13724730 TAAACAGAAGCTCTAAAAGAGC
1 TGAACAGAAACTC-ATAAGGGT
* *
13724752 TGAACGGAAACCCATAAGGGT
1 TGAACAGAAACTCATAAGGGT
*
13724773 TAAACA
1 TGAACA
13724779 AAAGCTCTAA
Statistics
Matches: 61, Mismatches: 27, Indels: 6
0.65 0.29 0.06
Matches are distributed among these distances:
21 46 0.75
22 15 0.25
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGGGT
Found at i:13724763 original size:43 final size:44
Alignment explanation
Indices: 13724665--13724873 Score: 221
Period size: 43 Copynumber: 4.9 Consensus size: 44
13724655 TAGCTCGAAG
* * * **
13724665 GCTGAACAGAAACTCATAAGGGTTGAATGGAAGCTCGT--AAGA
1 GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGA
*
13724707 GCTGAAAGGAAACCCATAAGGGTTAAACAGAAGCTC-TAAAAGA
1 GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGA
* *
13724750 GCTGAACGGAAACCCATAAGGGTTAAACAAAAGCTC-TAAAAAA
1 GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGA
* * *
13724793 GCTGAACGGAAACCTATAAGGGTTTAACAGAAGC-CTTAAAAGA
1 GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGA
** * *** *
13724836 AATGAACGGAAACTCATATCAGTTAAACGGAAGCTCGT
1 GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGT
13724874 GAGAGCTAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 31 0.22
43 106 0.76
44 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (44 bp):
GCTGAACGGAAACCCATAAGGGTTAAACAGAAGCTCGTAAAAGA
Found at i:13732294 original size:97 final size:96
Alignment explanation
Indices: 13732102--13732531 Score: 657
Period size: 96 Copynumber: 4.5 Consensus size: 96
13732092 GTTTTTAGAT
* * * * * *
13732102 TTTAGGGTTTTAAGGAAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAACTAATTAT
1 TTTAGGGTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
13732167 AAATTTT-AAAAAATTAGATTAGGGTTTAGTG
65 AAATTTTAAAAAAATTAGATTAGGGTTTAGTG
* *
13732198 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAT
1 TTTA-GGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
13732263 AAATTTTAAAAAAATTATATTAGGGTTTAGTG
65 AAATTTTAAAAAAATTAGATTAGGGTTTAGTG
* * *
13732295 TTGAGGGTTTTTTAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGG-TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
13732360 AAATTTTAAAAAAATTAGATTAGGGTTTTGTG
65 AAATTTTAAAAAAATTAGATTAGGGTTTAGTG
* *
13732392 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGAGTTTGGGGTTACTTGAGTAAATTAATTATA
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
* *
13732457 AATTTTTAAAAATTTAGATTAGGGTTTAGTG
66 AATTTTAAAAAAATTAGATTAGGGTTTAGTG
*
13732488 TTTAGGGTTTTAAGG-AAAAATCAAAAAAATTAGGGTTTAGGGTT
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTT
13732532 TAGGGTTACT
Statistics
Matches: 304, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
95 26 0.09
96 152 0.50
97 126 0.41
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
AATTTTAAAAAAATTAGATTAGGGTTTAGTG
Found at i:13732439 original size:193 final size:192
Alignment explanation
Indices: 13732105--13732531 Score: 651
Period size: 193 Copynumber: 2.2 Consensus size: 192
13732095 TTTAGATTTT
* * * *
13732105 AGGGTTTTAAGGAAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAACTAATTATAAA
1 AGGGTTTTAA-GAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAACTAATTATAAA
* *
13732170 TTTTAAAAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGG
65 TTTTAAAAAATTAGATTAGGGTTTAGTGTTTATGGGTTTTAAGGAAAAAATCAAATAAATTAGAG
*
13732235 TTTAAGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTATATTAGGGTTTAGTGTTG
130 TTTAAGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTG
* * *
13732298 AGGGTTTTTTAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA
1 AGGG-TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAACTAATTATAAA
*
13732363 TTTTAAAAAAATTAGATTAGGGTTTTGTGTTTA-GGGTTTTAAGGAAAAAATCAAATAAATTAGA
65 TTTT-AAAAAATTAGATTAGGGTTTAGTGTTTATGGGTTTTAAGGAAAAAATCAAATAAATTAGA
** * * *
13732427 GTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAATTTAGATTAGGGTTTAGTGTTT
129 GTTTAAGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTG
* *
13732491 AGGGTTTTAAG-GAAAAATCAAAAAAATTAGGGTTTAGGGTT
1 AGGGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTT
13732532 TAGGGTTACT
Statistics
Matches: 213, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
191 28 0.13
192 6 0.03
193 147 0.69
194 32 0.15
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (192 bp):
AGGGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAACTAATTATAAAT
TTTAAAAAATTAGATTAGGGTTTAGTGTTTATGGGTTTTAAGGAAAAAATCAAATAAATTAGAGT
TTAAGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTG
Found at i:13732800 original size:123 final size:126
Alignment explanation
Indices: 13732568--13732978 Score: 648
Period size: 126 Copynumber: 3.3 Consensus size: 126
13732558 TAATTTAAAA
* * * * *
13732568 AAGCTCCCACGTTGACACTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
* * *
13732633 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* *
13732694 AAGCTCCCACGTGGACGTTCTTTTGCAACAGTAGTTTCTG-AAAAA-AA-TTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
* *
13732756 CTGAGCAAATAGTGTCAAAAACGCGTCAAGCAGGATGTAATGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
** *
13732817 AAGCTCCCACGTGGATACTCTTTTACTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
* *
13732882 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAAGATGCAATGTCAGCAAAAGTACTAAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
13732943 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
13732979 CCTATTTGGC
Statistics
Matches: 258, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
123 105 0.41
124 7 0.03
125 7 0.03
126 139 0.54
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:13739138 original size:61 final size:62
Alignment explanation
Indices: 13739063--13739224 Score: 157
Period size: 61 Copynumber: 2.7 Consensus size: 62
13739053 ATGTTGTATT
* *
13739063 ATTTATATTTTATTAAATGAAATAATATAAAAATATTTAAAATATTACCTTATTTAAAA-GA-
1 ATTT-TATTTTATTAAATGAAATAATATAAAAATATTTAAAATATTACCTTATTCAAAACAAC
* *
13739124 ATTTCTATTTTATT-AA--AAAT-ATA-AAAGTAA-A-TT-ACA-ATTACTTTATTCAAAACAAC
1 ATTT-TATTTTATTAAATGAAATAATATAAA--AATATTTAAAATATTACCTTATTCAAAACAAC
* *
13739180 ATTTTATTTTATTACATGAAATAATATAAAAATATTCAAAATATT
1 ATTTTATTTTATTAAATGAAATAATATAAAAATATTTAAAATATT
13739225 TGTACAAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
54 14 0.17
55 12 0.15
56 10 0.12
57 4 0.05
58 12 0.15
59 4 0.05
60 6 0.08
61 15 0.19
62 3 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (62 bp):
ATTTTATTTTATTAAATGAAATAATATAAAAATATTTAAAATATTACCTTATTCAAAACAAC
Found at i:13739354 original size:21 final size:21
Alignment explanation
Indices: 13739330--13739388 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
13739320 GTCCAGCTTT
* *
13739330 CAGCGGGGATTGTGGTTGCTC
1 CAGCGGGGATTCTGGTTCCTC
13739351 CAGCGGGGATTCTGGTTCCTC
1 CAGCGGGGATTCTGGTTCCTC
*
13739372 CAGTAGGGGA-TCTGGTT
1 CAG-CGGGGATTCTGGTT
13739389 GTTTGTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.12, C:0.20, G:0.39, T:0.29
Consensus pattern (21 bp):
CAGCGGGGATTCTGGTTCCTC
Found at i:13740307 original size:7 final size:7
Alignment explanation
Indices: 13740297--13740343 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
13740287 CATAATACAT
13740297 AATACTA
1 AATACTA
13740304 AATACTA
1 AATACTA
13740311 AATACTA
1 AATACTA
13740318 AATACTA
1 AATACTA
13740325 AATACTA
1 AATACTA
13740332 AATACTA
1 AATACTA
13740339 AATAC
1 AATAC
13740344 GAATCGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13749920 original size:21 final size:21
Alignment explanation
Indices: 13749866--13750016 Score: 122
Period size: 21 Copynumber: 7.2 Consensus size: 21
13749856 TCATGTTTAC
*
13749866 TTTCCGTTTAACTCTTACGAG
1 TTTCCGTTTAACTCTTATGAG
* * *
13749887 CTTCTGTTTAACTCATATGAG
1 TTTCCGTTTAACTCTTATGAG
* * *
13749908 TTTCCGTTCAACTCTAATGGG
1 TTTCCGTTTAACTCTTATGAG
* * *
13749929 TTTCCGTTCAGCTCTTTTGAG
1 TTTCCGTTTAACTCTTATGAG
* * * *
13749950 CTTCTGTTTAACCCTTATGGG
1 TTTCCGTTTAACTCTTATGAG
* *
13749971 TTTTCGTTTAGCTCTTATGAG
1 TTTCCGTTTAACTCTTATGAG
* * * *
13749992 CTTCCGTTCAACCCTTATGGG
1 TTTCCGTTTAACTCTTATGAG
13750013 TTTC
1 TTTC
13750017 TTTTTAGCAC
Statistics
Matches: 96, Mismatches: 34, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 96 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (21 bp):
TTTCCGTTTAACTCTTATGAG
Found at i:13749984 original size:42 final size:42
Alignment explanation
Indices: 13749892--13750043 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
13749882 ACGAGCTTCT
* * * * * * * *
13749892 GTTTAACTCATATGAGTTTCCGTTCAACTCTAATGGGTTTCC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTC
* *
13749934 GTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTTC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTC
* *
13749976 GTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGG-TTTC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTC
* * *
13750017 TTTTTAGCACTTATGTGCTTCTGTTTA
1 -GTTTAGCTCTTATGAGCTTCTGTTTA
13750044 GCATTCGAGC
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 4 0.04
42 86 0.96
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTTC
Found at i:13750029 original size:21 final size:21
Alignment explanation
Indices: 13749949--13750046 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 21
13749939 GCTCTTTTGA
* *
13749949 GCTTCTGTTTAACCCTTATGG
1 GCTTCTGTTTAGCACTTATGG
* * *
13749970 G-TTTTCGTTTAGCTCTTATGA
1 GCTTCT-GTTTAGCACTTATGG
* * * *
13749991 GCTTCCGTTCAACCCTTATGG
1 GCTTCTGTTTAGCACTTATGG
* * *
13750012 GTTTCTTTTTAGCACTTATGT
1 GCTTCTGTTTAGCACTTATGG
13750033 GCTTCTGTTTAGCA
1 GCTTCTGTTTAGCA
13750047 TTCGAGCTTC
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 3 0.05
21 51 0.91
22 2 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
GCTTCTGTTTAGCACTTATGG
Found at i:13752063 original size:41 final size:41
Alignment explanation
Indices: 13752006--13752093 Score: 176
Period size: 41 Copynumber: 2.1 Consensus size: 41
13751996 CAGATGAAAC
13752006 TTTGGACCAGGTTTTCTATAGCTACCCTGTAATAATAAAAG
1 TTTGGACCAGGTTTTCTATAGCTACCCTGTAATAATAAAAG
13752047 TTTGGACCAGGTTTTCTATAGCTACCCTGTAATAATAAAAG
1 TTTGGACCAGGTTTTCTATAGCTACCCTGTAATAATAAAAG
13752088 TTTGGA
1 TTTGGA
13752094 ATTTACTGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (41 bp):
TTTGGACCAGGTTTTCTATAGCTACCCTGTAATAATAAAAG
Found at i:13754234 original size:14 final size:14
Alignment explanation
Indices: 13754193--13754234 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13754183 ATTATTTTTT
13754193 TTAAAAAATTAA-A
1 TTAAAAAATTAATA
*
13754206 TGTAAAAAA-TGATA
1 T-TAAAAAATTAATA
13754220 TTAAAAAATTAATA
1 TTAAAAAATTAATA
13754234 T
1 T
13754235 GGGTGGGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TTAAAAAATTAATA
Found at i:13755543 original size:38 final size:38
Alignment explanation
Indices: 13755492--13755564 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
13755482 GAGTTGAGTA
13755492 ATATTAAATGTCATGTTTTATTTTTATTAATTTAAGTG
1 ATATTAAATGTCATGTTTTATTTTTATTAATTTAAGTG
13755530 ATATTAAATGTCATGTTTTATTTTTATTAATTTAA
1 ATATTAAATGTCATGTTTTATTTTTATTAATTTAA
13755565 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (38 bp):
ATATTAAATGTCATGTTTTATTTTTATTAATTTAAGTG
Found at i:13757078 original size:17 final size:17
Alignment explanation
Indices: 13757056--13757105 Score: 100
Period size: 17 Copynumber: 2.9 Consensus size: 17
13757046 TCCCAGATTT
13757056 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
13757073 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
13757090 TGATACCCATATCTTT
1 TGATACCCATATCTTT
13757106 GACTTTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.24, C:0.28, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:13760611 original size:17 final size:17
Alignment explanation
Indices: 13760589--13760641 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
13760579 AAATCCCAGA
13760589 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
* *
13760606 TTTTGATACCTATATAT
1 TTTTGATACCCATATCT
*
13760623 TTCTGATACCCATATCT
1 TTTTGATACCCATATCT
13760640 TT
1 TT
13760642 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:13760923 original size:29 final size:28
Alignment explanation
Indices: 13760869--13760924 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
13760859 ATTTAAGGTT
*
13760869 TTATAAAATATATAAAAGAACTAAAAAG
1 TTATAAAATATATAAAAGAACCAAAAAG
13760897 TTATATAAATATATAAAA-AACCCAAAAA
1 TTATA-AAATATATAAAAGAA-CCAAAAA
13760925 AATGTCTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (28 bp):
TTATAAAATATATAAAAGAACCAAAAAG
Found at i:13772553 original size:9 final size:9
Alignment explanation
Indices: 13772539--13772572 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
13772529 AATTAAATTA
13772539 CATGAAAAT
1 CATGAAAAT
13772548 CATGAAAAT
1 CATGAAAAT
13772557 CATGAAAAT
1 CATGAAAAT
13772566 CATGAAA
1 CATGAAA
13772573 TGGAACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (9 bp):
CATGAAAAT
Found at i:13779907 original size:23 final size:20
Alignment explanation
Indices: 13779875--13779926 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
13779865 ATTTTATTTT
*
13779875 ATTTTTAAATATTCTTAACAATA
1 ATTTTAAAATA-TC-TAACAA-A
13779898 ATTTTAAAATATCTAACAAA
1 ATTTTAAAATATCTAACAAA
*
13779918 ATATTAAAA
1 ATTTTAAAA
13779927 ATAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 2 0.07
23 10 0.37
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTAAAATATCTAACAAA
Found at i:13779927 original size:21 final size:23
Alignment explanation
Indices: 13779881--13779929 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
13779871 TTTTATTTTT
*
13779881 AAATATTCTTAACAATAATTTTA
1 AAATATTCTTAACAATAATTTAA
13779904 AAATA-TC-TAACAA-AATATTAA
1 AAATATTCTTAACAATAAT-TTAA
13779925 AAATA
1 AAATA
13779930 AATATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 2 0.08
23 5 0.21
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATTCTTAACAATAATTTAA
Found at i:13779942 original size:20 final size:20
Alignment explanation
Indices: 13779919--13779968 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13779909 TCTAACAAAA
*
13779919 TATTAAAAATAAATAT-AAAT
1 TATTAAAAATAAAT-TGAAAC
*
13779939 TATTAAAAATATATTGAAAC
1 TATTAAAAATAAATTGAAAC
13779959 TATTAAAAAT
1 TATTAAAAAT
13779969 CATGTCTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TATTAAAAATAAATTGAAAC
Found at i:13780004 original size:132 final size:133
Alignment explanation
Indices: 13779839--13780105 Score: 527
Period size: 132 Copynumber: 2.0 Consensus size: 133
13779829 TATTAATTTG
13779839 GTCTCTGAACTATAGCTAAAATATCAATTTTATTTTATTTTTAAATATTCTTAACAATAATTTTA
1 GTCTCTGAACTATAGCTAAAATATCAATTTTATTTTATTTTTAAATATTCTTAACAATAATTTTA
13779904 AAATATCTAACAAAATATTAAAAATAAATATAAATTATTAAAAATATATTGAAACTATTAAAAAT
66 AAATATCTAACAAAATATTAAAAATAAATATAAATTATTAAAAATATATTGAAACTATTAAAAAT
13779969 CAT
131 CAT
13779972 GTCTCTGAAC-ATAGCTAAAATATCAATTTTATTTTATTTTTAAATATTCTTAACAATAATTTTA
1 GTCTCTGAACTATAGCTAAAATATCAATTTTATTTTATTTTTAAATATTCTTAACAATAATTTTA
13780036 AAATATCTAACAAAATATTAAAAATAAATATAAATTATTAAAAATATATTGAAACTATTAAAAAT
66 AAATATCTAACAAAATATTAAAAATAAATATAAATTATTAAAAATATATTGAAACTATTAAAAAT
13780101 CAT
131 CAT
13780104 GT
1 GT
13780106 TAAAATATTA
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 124 0.93
133 10 0.07
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (133 bp):
GTCTCTGAACTATAGCTAAAATATCAATTTTATTTTATTTTTAAATATTCTTAACAATAATTTTA
AAATATCTAACAAAATATTAAAAATAAATATAAATTATTAAAAATATATTGAAACTATTAAAAAT
CAT
Found at i:13780039 original size:23 final size:20
Alignment explanation
Indices: 13780007--13780058 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
13779997 ATTTTATTTT
*
13780007 ATTTTTAAATATTCTTAACAATA
1 ATTTTAAAATA-TC-TAACAA-A
13780030 ATTTTAAAATATCTAACAAA
1 ATTTTAAAATATCTAACAAA
*
13780050 ATATTAAAA
1 ATTTTAAAA
13780059 ATAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 2 0.07
23 10 0.37
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTAAAATATCTAACAAA
Found at i:13780059 original size:21 final size:23
Alignment explanation
Indices: 13780013--13780061 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
13780003 TTTTATTTTT
*
13780013 AAATATTCTTAACAATAATTTTA
1 AAATATTCTTAACAATAATTTAA
13780036 AAATA-TC-TAACAA-AATATTAA
1 AAATATTCTTAACAATAAT-TTAA
13780057 AAATA
1 AAATA
13780062 AATATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 2 0.08
23 5 0.21
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATTCTTAACAATAATTTAA
Found at i:13780074 original size:20 final size:20
Alignment explanation
Indices: 13780051--13780100 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13780041 TCTAACAAAA
*
13780051 TATTAAAAATAAATAT-AAAT
1 TATTAAAAATAAAT-TGAAAC
*
13780071 TATTAAAAATATATTGAAAC
1 TATTAAAAATAAATTGAAAC
13780091 TATTAAAAAT
1 TATTAAAAAT
13780101 CATGTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TATTAAAAATAAATTGAAAC
Found at i:13780114 original size:20 final size:18
Alignment explanation
Indices: 13780047--13780115 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 18
13780037 AATATCTAAC
*
13780047 AAAATATTAAAAATAAATAT
1 AAAATATTAAAAAT--ATTT
*
13780067 AAATTATTAAAAATATATT
1 AAAATATTAAAAATAT-TT
*
13780086 GAAACTATTAAAAATCATGTT
1 -AAAATATTAAAAAT-AT-TT
13780107 AAAATATTA
1 AAAATATTA
13780116 TATGTTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 34 0.83
21 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAATATTAAAAATATTT
Found at i:13785899 original size:97 final size:97
Alignment explanation
Indices: 13785733--13785926 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 97
13785723 CCTCTGAAAG
* *
13785733 AATGAGTTGAAGCTTTCAAAGCCTACTCTATTGAGGTAGAAATTCTGTTTATCTTCTGCTTATGG
1 AATGAGTTGAAGCTTTCAAAGCCTACTCTATTGAGGTAGAAATTCTGTTCATCTTCTGCTCATGG
13785798 ACCAACAAGGAGCTCTGAAGTTCATCAAGAGT
66 ACCAACAAGGAGCTCTGAAGTTCATCAAGAGT
** * *
13785830 AATGAGTTGAAGCTTTCAAAGCCTGTTCTATTGAGGTAGAATTTCTGTTCATTTTCTGCTCATGG
1 AATGAGTTGAAGCTTTCAAAGCCTACTCTATTGAGGTAGAAATTCTGTTCATCTTCTGCTCATGG
*
13785895 ACCAACAAGGAGCTTTGAAGTTCATCAAGAGT
66 ACCAACAAGGAGCTCTGAAGTTCATCAAGAGT
13785927 GAGTGCATCA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (97 bp):
AATGAGTTGAAGCTTTCAAAGCCTACTCTATTGAGGTAGAAATTCTGTTCATCTTCTGCTCATGG
ACCAACAAGGAGCTCTGAAGTTCATCAAGAGT
Found at i:13786787 original size:17 final size:17
Alignment explanation
Indices: 13786765--13786802 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
13786755 AAATACGAAA
13786765 AACAATCCA-ATTTTATT
1 AACAAT-CAGATTTTATT
13786782 AACAATCAGATTTTATT
1 AACAATCAGATTTTATT
13786799 AACA
1 AACA
13786803 GGAGCTCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (17 bp):
AACAATCAGATTTTATT
Found at i:13797692 original size:2 final size:2
Alignment explanation
Indices: 13797685--13797801 Score: 234
Period size: 2 Copynumber: 58.5 Consensus size: 2
13797675 AAAGACATGC
13797685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13797727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13797769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13797802 CCGAATTTGG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 115 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13821782 original size:9 final size:9
Alignment explanation
Indices: 13821770--13821817 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
13821760 TTTAATTAAT
13821770 TTTTAAAAA
1 TTTTAAAAA
13821779 TTTTAAAAA
1 TTTTAAAAA
**
13821788 TTAAAAAAA
1 TTTTAAAAA
*
13821797 TCATTAAAAA
1 T-TTTAAAAA
*
13821807 TTTAAAAAA
1 TTTTAAAAA
13821816 TT
1 TT
13821818 GTATTTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
9 25 0.81
10 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:13824816 original size:17 final size:16
Alignment explanation
Indices: 13824766--13824823 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
13824756 TGGTGAGAAG
13824766 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTA-GGG--AAA
*
13824785 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
13824802 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
13824819 GTAAA
1 -TAAA
13824824 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:13825073 original size:5 final size:5
Alignment explanation
Indices: 13825063--13825087 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13825053 TTGGGGGGTT
13825063 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
13825088 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:13825145 original size:30 final size:30
Alignment explanation
Indices: 13825084--13825145 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
13825074 GGAGGGGAGG
**
13825084 GGAGTAAAAGTTTTGGGGAGAAAGTGGAAA
1 GGAGTAAAAGTTTTGGGGAGAAAGTAAAAA
13825114 GGAGTAAAAGTTTTGAGGGA-AAAGTAAAAA
1 GGAGTAAAAGTTTTG-GGGAGAAAGTAAAAA
13825144 GG
1 GG
13825146 TTTGGGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGGGGAGAAAGTAAAAA
Found at i:13838525 original size:4 final size:4
Alignment explanation
Indices: 13838516--13838560 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
13838506 ATATTACAAA
13838516 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
13838561 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:13838565 original size:2 final size:2
Alignment explanation
Indices: 13838558--13838595 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13838548 TATGTATGTA
13838558 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
13838596 ATTTAGGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:13841202 original size:70 final size:71
Alignment explanation
Indices: 13841108--13841250 Score: 279
Period size: 70 Copynumber: 2.0 Consensus size: 71
13841098 TTCAAATATA
13841108 AATAATATAAATATCTTTTAATTTTTATTCTATTTTATAATGTGGAATTTTGAAAAAAAACCAAT
1 AATAATATAAATATCTTTTAATTTTTATTCTATTTTATAATGTGGAATTTTGAAAAAAAACCAAT
13841173 ATTTTT
66 ATTTTT
13841179 AATAATATAAAT-TCTTTTAATTTTTATTCTATTTTATAATGTGGAATTTTGAAAAAAAACCAAT
1 AATAATATAAATATCTTTTAATTTTTATTCTATTTTATAATGTGGAATTTTGAAAAAAAACCAAT
13841243 ATTTTT
66 ATTTTT
13841249 AA
1 AA
13841251 GTAGAATTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 60 0.83
71 12 0.17
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (71 bp):
AATAATATAAATATCTTTTAATTTTTATTCTATTTTATAATGTGGAATTTTGAAAAAAAACCAAT
ATTTTT
Found at i:13844112 original size:35 final size:34
Alignment explanation
Indices: 13844061--13844207 Score: 97
Period size: 34 Copynumber: 4.3 Consensus size: 34
13844051 AAATGCATGT
* *
13844061 TAAGCAAGTTTATTGCTACTGTAAT-GA-TATGTTA
1 TAAGCATGTTAATTGCTACT-TAATCGACT-TGTTA
*
13844095 TAATGCATGTTAATTGCTACTTTATCGACTTGTTA
1 TAA-GCATGTTAATTGCTACTTAATCGACTTGTTA
* * * * *
13844130 TAAGCATGTTTATTGCTCCCT-ATTGA-TCTATTA
1 TAAGCATGTTAATTGCTACTTAATCGACT-TGTTA
* * * * *
13844163 TAGGCATGATAATTCCTA-TTATATTGACTTATTA
1 TAAGCATGTTAATTGCTACTTA-ATCGACTTGTTA
13844197 TAAGCATGTTA
1 TAAGCATGTTA
13844208 TTACTTCCGT
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
32 2 0.02
33 21 0.23
34 40 0.44
35 26 0.29
36 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (34 bp):
TAAGCATGTTAATTGCTACTTAATCGACTTGTTA
Found at i:13844145 original size:34 final size:34
Alignment explanation
Indices: 13844061--13844146 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 34
13844051 AAATGCATGT
*
13844061 TAAGCAAGTTTATTGCTACTGTAATGATATGTTA
1 TAAGCATGTTTATTGCTACTGTAATGATATGTTA
* *
13844095 TAATGCATGTTAATTGCTACT-TTATCGACT-TGTTA
1 TAA-GCATGTTTATTGCTACTGTAAT-GA-TATGTTA
13844130 TAAGCATGTTTATTGCT
1 TAAGCATGTTTATTGCT
13844147 CCCTATTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
34 19 0.42
35 25 0.56
36 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
TAAGCATGTTTATTGCTACTGTAATGATATGTTA
Found at i:13844192 original size:67 final size:67
Alignment explanation
Indices: 13844092--13844237 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 67
13844082 TAATGATATG
* * * *
13844092 TTATAATGCATGTTAATTGCTACTTTATCGACTTGTTATAAGCATGTTTATTGC-TCCCTATTGA
1 TTATAA-GCATGATAATTCCTACTTTATCGACTTATTATAAGCATG-TTATTACTTCCCTATTGA
13844156 TCTA
64 TCTA
* * *
13844160 TTATAGGCATGATAATTCCTA-TTATATTGACTTATTATAAGCATGTTATTACTTCCGTATTGAT
1 TTATAAGCATGATAATTCCTACTT-TATCGACTTATTATAAGCATGTTATTACTTCCCTATTGAT
*
13844224 CTG
65 CTA
13844227 TTATAAGCATG
1 TTATAAGCATG
13844238 TCATGTTGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
66 8 0.12
67 54 0.81
68 5 0.07
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (67 bp):
TTATAAGCATGATAATTCCTACTTTATCGACTTATTATAAGCATGTTATTACTTCCCTATTGATC
TA
Found at i:13844238 original size:33 final size:34
Alignment explanation
Indices: 13844127--13844237 Score: 95
Period size: 33 Copynumber: 3.3 Consensus size: 34
13844117 TATCGACTTG
* * *
13844127 TTATAAGCATGTTTATTGC-TCCCTATTGATCTA
1 TTATAAGCATGATTATTACTTCCATATTGATCTA
* * * *
13844160 TTATAGGCATGATAATTCCTAT-TATATTGA-CTTA
1 TTATAAGCATGATTATTACT-TCCATATTGATC-TA
* *
13844194 TTATAAGCATG-TTATTACTTCCGTATTGATCTG
1 TTATAAGCATGATTATTACTTCCATATTGATCTA
13844227 TTATAAGCATG
1 TTATAAGCATG
13844238 TCATGTTGCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
32 1 0.02
33 40 0.66
34 19 0.31
35 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (34 bp):
TTATAAGCATGATTATTACTTCCATATTGATCTA
Found at i:13848148 original size:33 final size:33
Alignment explanation
Indices: 13848091--13848174 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
13848081 CATATTGATC
*
13848091 TATTATAAGCATGATAATTACTACTATATCGACT
1 TATTATAAGCATG-TTATTACTACTATATCGACT
* * * *
13848125 TATTATAAGTATGTTATTACTACTGTATTGATT
1 TATTATAAGCATGTTATTACTACTATATCGACT
13848158 TATTATAAGCATGTTAT
1 TATTATAAGCATGTTAT
13848175 GTTCTATTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.45
Consensus pattern (33 bp):
TATTATAAGCATGTTATTACTACTATATCGACT
Found at i:13850442 original size:22 final size:22
Alignment explanation
Indices: 13850417--13850460 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13850407 AAACACTATT
13850417 TTAACCTCCACTAAAG-ACAAAA
1 TTAACC-CCACTAAAGAACAAAA
* *
13850439 TTAAGCCCATTAAAGAACAAAA
1 TTAACCCCACTAAAGAACAAAA
13850461 AGAGAAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.52, C:0.23, G:0.07, T:0.18
Consensus pattern (22 bp):
TTAACCCCACTAAAGAACAAAA
Found at i:13852907 original size:21 final size:22
Alignment explanation
Indices: 13852865--13852907 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13852855 TAGACGAAGT
* *
13852865 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
13852887 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
13852908 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:13857400 original size:20 final size:20
Alignment explanation
Indices: 13857375--13857415 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13857365 GAACGATGGG
13857375 AAAGAACGAGAAAGAAAGTA
1 AAAGAACGAGAAAGAAAGTA
13857395 AAAGAACGAGAAAGAAAGTA
1 AAAGAACGAGAAAGAAAGTA
13857415 A
1 A
13857416 GCTGTAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.05, G:0.24, T:0.05
Consensus pattern (20 bp):
AAAGAACGAGAAAGAAAGTA
Found at i:13858979 original size:17 final size:17
Alignment explanation
Indices: 13858953--13858985 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13858943 CTGGAGTGAC
13858953 AGTACATCAAACATGAT
1 AGTACATCAAACATGAT
*
13858970 AGTACGTCAAACATGA
1 AGTACATCAAACATGA
13858986 GTGCCCGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
AGTACATCAAACATGAT
Found at i:13860377 original size:20 final size:21
Alignment explanation
Indices: 13860349--13860392 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
13860339 TATAATAAAT
13860349 AAAGATAAAAAACTAAAACTA
1 AAAGATAAAAAACTAAAACTA
**
13860370 AAAG-TAAAAGTCTAAAACTA
1 AAAGATAAAAAACTAAAACTA
13860390 AAA
1 AAA
13860393 CAGTAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAGATAAAAAACTAAAACTA
Found at i:13861590 original size:20 final size:20
Alignment explanation
Indices: 13861565--13861605 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13861555 GCCTTACAGC
13861565 TTACTTTCTTTCTCGTTCTT
1 TTACTTTCTTTCTCGTTCTT
13861585 TTACTTTCTTTCTCGTTCTT
1 TTACTTTCTTTCTCGTTCTT
13861605 T
1 T
13861606 CCCATCGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.66
Consensus pattern (20 bp):
TTACTTTCTTTCTCGTTCTT
Found at i:13862555 original size:2 final size:2
Alignment explanation
Indices: 13862548--13862583 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13862538 TAAGTCATGC
* *
13862548 AT AT AT AT CT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13862584 GCATGACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13863552 original size:20 final size:20
Alignment explanation
Indices: 13863527--13863567 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13863517 GAACGATGGG
13863527 AAAGAACGAGAAAGAAAGTA
1 AAAGAACGAGAAAGAAAGTA
13863547 AAAGAACGAGAAAGAAAGTA
1 AAAGAACGAGAAAGAAAGTA
13863567 A
1 A
13863568 GCTGTAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.05, G:0.24, T:0.05
Consensus pattern (20 bp):
AAAGAACGAGAAAGAAAGTA
Found at i:13865131 original size:17 final size:17
Alignment explanation
Indices: 13865105--13865137 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13865095 CTGGAGTGAC
13865105 AGTACATCAAACATGAT
1 AGTACATCAAACATGAT
*
13865122 AGTACGTCAAACATGA
1 AGTACATCAAACATGA
13865138 GTGCCCGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
AGTACATCAAACATGAT
Found at i:13866529 original size:20 final size:21
Alignment explanation
Indices: 13866501--13866544 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
13866491 TATAATAAAT
13866501 AAAGATAAAAAACTAAAACTA
1 AAAGATAAAAAACTAAAACTA
**
13866522 AAAG-TAAAAGTCTAAAACTA
1 AAAGATAAAAAACTAAAACTA
13866542 AAA
1 AAA
13866545 CAGTAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAGATAAAAAACTAAAACTA
Found at i:13867778 original size:32 final size:32
Alignment explanation
Indices: 13867705--13867769 Score: 109
Period size: 30 Copynumber: 2.1 Consensus size: 32
13867695 TTTAAAAATC
13867705 TTAAA-TTAAAAACTTTAAGAGTGAGTGATTT
1 TTAAATTTAAAAACTTTAAGAGTGAGTGATTT
13867736 TTAAATTTAAAAAC-TTAAGAG-GAGTGATTT
1 TTAAATTTAAAAACTTTAAGAGTGAGTGATTT
13867766 TTAA
1 TTAA
13867770 TCTCTTAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 13 0.39
31 12 0.36
32 8 0.24
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.38
Consensus pattern (32 bp):
TTAAATTTAAAAACTTTAAGAGTGAGTGATTT
Found at i:13870286 original size:69 final size:69
Alignment explanation
Indices: 13870211--13870354 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 69
13870201 AAGGTGAATG
* *
13870211 CAAGCTTTGTATAAAAAGTGTGAGTTGGAAAATGGTGGTGAGGATAAAACATCTAAGTTGGATAA
1 CAAGCTTTGTATAAAAAGTGTGACTTGGAAAACGGTGGTGAGGATAAAACATCTAAGTTGGATAA
13870276 ATAT
66 ATAT
* *
13870280 CAAGCTTTGTATAAAAATTGTGACTTGGAAAACGGTGGTGAGGATAAAACATCTGAGTTGGATAA
1 CAAGCTTTGTATAAAAAGTGTGACTTGGAAAACGGTGGTGAGGATAAAACATCTAAGTTGGATAA
13870345 ATAT
66 ATAT
*
13870349 CTAGCT
1 CAAGCT
13870355 AAGGCTAATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (69 bp):
CAAGCTTTGTATAAAAAGTGTGACTTGGAAAACGGTGGTGAGGATAAAACATCTAAGTTGGATAA
ATAT
Found at i:13885914 original size:85 final size:86
Alignment explanation
Indices: 13885741--13885996 Score: 336
Period size: 85 Copynumber: 3.0 Consensus size: 86
13885731 ACCATCGTTC
* * * * *
13885741 ATTTCCAGTTACTGCCACTTGTTGTGGGTACACAACATATTTGTAGATTAAA-AAAAAGTCACTT
1 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGTCACTT
* *
13885805 CGTTCGTGATTGAACCAAACT
66 GGTTCGTGATTGAACCACACT
** * * * *
13885826 ATTTGTAGTTACTGCCACTTGTTGTGAGTGCACAACATATTAGCAAATTAAACAAACTGCCACTT
1 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGTCACTT
*
13885891 GGCTCGTGATTGAACCACA-T
66 GGTTCGTGATTGAACCACACT
* * * *
13885911 ATTTACAGTTACTGCCACTTATTGTGAGTGCACAACATATTTGCAGATTAAACAAATTGTTACTC
1 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGTCACTT
13885976 GGTTCGTGATTGAACCACACT
66 GGTTCGTGATTGAACCACACT
13885997 GTTTGCAGAT
Statistics
Matches: 146, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 120 0.82
86 26 0.18
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (86 bp):
ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGTCACTT
GGTTCGTGATTGAACCACACT
Found at i:13889040 original size:16 final size:16
Alignment explanation
Indices: 13889019--13889051 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13889009 CAAGTCATGT
*
13889019 ACCAAAAATTAAATAA
1 ACCAAAAATAAAATAA
13889035 ACCAAAAATAAAATAA
1 ACCAAAAATAAAATAA
13889051 A
1 A
13889052 AATAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
ACCAAAAATAAAATAA
Found at i:13892314 original size:4 final size:4
Alignment explanation
Indices: 13892305--13892333 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13892295 ATAACATTTA
13892305 ATTC ATTC ATTC ATTC ATTC ATTC ATTC A
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC A
13892334 ATTAGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTC
Found at i:13899231 original size:17 final size:16
Alignment explanation
Indices: 13899209--13899241 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
13899199 AAAGTCAAAG
13899209 ATATGGGTATCAGAAAT
1 ATATGGGTATCA-AAAT
13899226 ATATGGGTATCAAAAT
1 ATATGGGTATCAAAAT
13899242 CTGAGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (16 bp):
ATATGGGTATCAAAAT
Found at i:13903805 original size:16 final size:18
Alignment explanation
Indices: 13903779--13903811 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13903769 AGAATCAGGC
13903779 TGAGAAAATT-ATTTAAT
1 TGAGAAAATTAATTTAAT
13903796 TGAG-AAATTAATTTAA
1 TGAGAAAATTAATTTAA
13903812 ATTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (18 bp):
TGAGAAAATTAATTTAAT
Found at i:13912094 original size:35 final size:35
Alignment explanation
Indices: 13912043--13912112 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
13912033 CGCTTCGTAG
* *
13912043 AACCTATATATCGATTACACAGTATCGCCTCGAAT
1 AACCTATATATCGATTACACAATATCACCTCGAAT
* *
13912078 AACCTATATATTGATTACACAATGTCACCTCGAAT
1 AACCTATATATCGATTACACAATATCACCTCGAAT
13912113 GACCAATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (35 bp):
AACCTATATATCGATTACACAATATCACCTCGAAT
Found at i:13918206 original size:18 final size:15
Alignment explanation
Indices: 13918170--13918198 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13918160 ATATATAATT
13918170 AAAAATAATTACATA
1 AAAAATAATTACATA
13918185 AAAAATAATTACAT
1 AAAAATAATTACAT
13918199 CCTAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATAATTACATA
Found at i:13918618 original size:23 final size:22
Alignment explanation
Indices: 13918575--13918632 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13918565 AAAGGGTATC
* *
13918575 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13918596 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13918619 TACATATCATATCT
1 TACAAATCATATCT
13918633 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13918626 original size:17 final size:17
Alignment explanation
Indices: 13918604--13918656 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
13918594 ATTACAAAAT
13918604 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
13918621 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
* *
13918640 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
13918657 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:13918635 original size:19 final size:20
Alignment explanation
Indices: 13918588--13918645 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
13918578 AAATTAAATC
*
13918588 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
13918611 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
13918630 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
13918646 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:13919379 original size:20 final size:20
Alignment explanation
Indices: 13919354--13919393 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13919344 AATATTTTCC
*
13919354 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
13919374 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
13919394 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:13919399 original size:34 final size:35
Alignment explanation
Indices: 13919342--13919408 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13919332 CAAACATCAG
*
13919342 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13919377 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13919409 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13919599 original size:37 final size:37
Alignment explanation
Indices: 13919549--13919626 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
13919539 AAATTTTGAG
*
13919549 GTTTTATTATATTTTCCTATATTCTATCTAATGTCTT
1 GTTTTATTATATTTTCATATATTCTATCTAATGTCTT
* *
13919586 GTTTTATTATATTTTTATATATTCTATTTAATGTCTT
1 GTTTTATTATATTTTCATATATTCTATCTAATGTCTT
13919623 GTTT
1 GTTT
13919627 GAAAACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.63
Consensus pattern (37 bp):
GTTTTATTATATTTTCATATATTCTATCTAATGTCTT
Found at i:13919862 original size:22 final size:23
Alignment explanation
Indices: 13919825--13919871 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
13919815 TCCAAATTTG
13919825 ATTTAAATAATAAAAA-ATATTAA
1 ATTTAAATAATAAAAATATA-TAA
*
13919848 ATTT-AATTATAAAAATATATAA
1 ATTTAAATAATAAAAATATATAA
13919870 AT
1 AT
13919872 ATATATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTAAATAATAAAAATATATAA
Found at i:13935337 original size:40 final size:40
Alignment explanation
Indices: 13935293--13935459 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
13935283 AGGGGTACCG
* * *
13935293 AAGTGCATTCAACGGTACCGAAGTAAAAATAGGGGCACGT
1 AAGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGT
* * * *
13935333 AAGTGCATTCAGGGGAACTGAAGTACAAACAAGGGCACGT
1 AAGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGT
* * *
13935373 AAGTGCGA-TCAGGGGTGCCAAAGTAC-AACTAGGGGCACGT
1 AAGTGC-ATTCAAGGGTACCGAAGTACAAAC-AGGGGCACGT
* * *
13935413 ATGTGCATTC-AGGGATATCGAAGTACAAACAGGGGCACAT
1 AAGTGCATTCAAGGG-TACCGAAGTACAAACAGGGGCACGT
13935453 AAGTGCA
1 AAGTGCA
13935460 ATCATCAATA
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 7 0.07
40 92 0.89
41 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (40 bp):
AAGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGT
Found at i:13935346 original size:20 final size:19
Alignment explanation
Indices: 13935323--13935387 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
13935313 AAGTAAAAAT
13935323 AGGGGCACGTAAGTGCATTC
1 AGGGGCACGTAAGTGCA-TC
* * *
13935343 AGGGGAAC-TGAAGTACAAAC
1 AGGGGCACGT-AAGTGC-ATC
*
13935363 AAGGGCACGTAAGTGCGATC
1 AGGGGCACGTAAGTGC-ATC
13935383 AGGGG
1 AGGGG
13935388 TGCCAAAGTA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.03
20 30 0.91
21 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.37, T:0.14
Consensus pattern (19 bp):
AGGGGCACGTAAGTGCATC
Found at i:13935426 original size:80 final size:80
Alignment explanation
Indices: 13935313--13935463 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
13935303 AACGGTACCG
*
13935313 AAGTAAAAATAGGGGCACGTAAGTGCATTCAGGGGA-A-CTGAAGTACAAACAAGGGCACGTAAG
1 AAGTAAAAATAGGGGCACGTAAGTGCATTCA-GGGATATC-GAAGTACAAACAAGGGCACATAAG
*
13935376 TGCGATCAGGGGTGCCA
64 TGCAATCAGGGGTGCCA
* * * *
13935393 AAGTACAACTAGGGGCACGTATGTGCATTCAGGGATATCGAAGTACAAACAGGGGCACATAAGTG
1 AAGTAAAAATAGGGGCACGTAAGTGCATTCAGGGATATCGAAGTACAAACAAGGGCACATAAGTG
13935458 CAATCA
66 CAATCA
13935464 TCAATAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
79 4 0.06
80 58 0.92
81 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (80 bp):
AAGTAAAAATAGGGGCACGTAAGTGCATTCAGGGATATCGAAGTACAAACAAGGGCACATAAGTG
CAATCAGGGGTGCCA
Found at i:13941760 original size:8 final size:9
Alignment explanation
Indices: 13941749--13941781 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
13941739 AAAGAAAACA
13941749 AAATAAAT-
1 AAATAAATC
13941757 AAATAAATC
1 AAATAAATC
13941766 ACAATAAATC
1 A-AATAAATC
13941776 AAATAA
1 AAATAA
13941782 TAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 6 0.26
10 9 0.39
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAATC
Found at i:13951754 original size:44 final size:44
Alignment explanation
Indices: 13951706--13951843 Score: 117
Period size: 44 Copynumber: 3.2 Consensus size: 44
13951696 CAATGCAGGA
13951706 AGGCAAGATCTGCTATCTTTAACAAGCTCCACTGTAACCAATGG
1 AGGCAAGATCTGCTATCTTTAACAAGCTCCACTGTAACCAATGG
* * * * * * * *
13951750 AGGCAAGGCTTTG-T-T-TTCGATC-TGCTTCACTATCAATGC-A-GG
1 AGGCAA-GATCTGCTATCTT-TAACAAGCTCCACTGT-AA-CCAATGG
13951792 AAGGCAAGATCTGCTATCTTTAACAAGCTCCACTGTAACCAATGG
1 -AGGCAAGATCTGCTATCTTTAACAAGCTCCACTGTAACCAATGG
13951837 AGGCAAG
1 AGGCAAG
13951844 GCTTTGTTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
42 16 0.24
43 14 0.21
44 21 0.31
45 16 0.24
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTTAACAAGCTCCACTGTAACCAATGG
Found at i:13951799 original size:43 final size:43
Alignment explanation
Indices: 13951750--13951886 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 43
13951740 TAACCAATGG
13951750 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGA
* * * * * * * *
13951793 AGGCAA-GATCTGCTATCTT-TAACAAGCTCCACTGT-AA-CCAATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATC-TGCTTCACTATCAATGC-A-GGA
13951837 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGA
13951880 AGGCAAG
1 AGGCAAG
13951887 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
42 16 0.24
43 21 0.31
44 14 0.21
45 16 0.24
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGA
Found at i:13951804 original size:87 final size:87
Alignment explanation
Indices: 13951556--13952119 Score: 860
Period size: 87 Copynumber: 6.5 Consensus size: 87
13951546 AATTCAATCT
** *
13951556 GCTCCACTGCAACCGATGGAGGCAAGGCTTCATTTTCGATCTGCTTTGCTATCAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
*
13951621 CAAGATCTACTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * *
13951643 GCTCCACTGCAACCGATGGAGGCAAGGCTTGGGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTATCAATGCAGGAAG
*
13951708 GCAAGATCTGCTATCTTTAACAA
65 GCAAGATCTGCTATCTTTAACCA
* * *
13951731 GCTCCACTGTAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
*
13951796 CAAGATCTGCTATCTTTAACAA
66 CAAGATCTGCTATCTTTAACCA
* * *
13951818 GCTCCACTGTAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTATCAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
13951883 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * * * *
13951905 GCTCCACTGCAACCGATGGAGGCAAGGCTTGGTTTTCGATCTACTTCGCTGTTAATGCAAGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
*
13951970 CAAAATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * * *
13951992 GCTCCACTGCGACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
13952057 CAAGATCTGCT-TCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * *
13952078 GTTCCACTGCAACCGATGGAGGCAAGGTTTTATTTTCGATCT
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
13952120 TCACTGATCT
Statistics
Matches: 443, Mismatches: 33, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
86 48 0.11
87 317 0.72
88 78 0.18
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATCAATGCAGGAAGG
CAAGATCTGCTATCTTTAACCA
Found at i:13953382 original size:13 final size:14
Alignment explanation
Indices: 13953366--13953417 Score: 97
Period size: 14 Copynumber: 3.8 Consensus size: 14
13953356 CCATTTTTAC
13953366 TTTTTCATTTTCA-
1 TTTTTCATTTTCAT
13953379 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
13953393 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
13953407 TTTTTCATTTT
1 TTTTTCATTTT
13953418 TCACCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 13 0.34
14 25 0.66
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTTCAT
Found at i:13953399 original size:8 final size:7
Alignment explanation
Indices: 13953357--13953420 Score: 73
Period size: 6 Copynumber: 9.3 Consensus size: 7
13953347 TTAGCCTCTC
13953357 CATTTTT
1 CATTTTT
13953364 -ACTTTTT
1 CA-TTTTT
13953371 CA-TTTT
1 CATTTTT
13953377 CATTTTT
1 CATTTTT
13953384 CA-TTTT
1 CATTTTT
13953390 CATTTTTT
1 CA-TTTTT
13953398 CA-TTTT
1 CATTTTT
13953404 CATTTTTT
1 CA-TTTTT
13953412 CATTTTT
1 CATTTTT
13953419 CA
1 CA
13953421 CCTTTTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
6 19 0.38
7 18 0.36
8 13 0.26
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:13954258 original size:16 final size:16
Alignment explanation
Indices: 13954230--13954273 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
13954220 TTCGCCTTGA
*
13954230 TCTCTCCTTTTTTCCT
1 TCTCTCTTTTTTTCCT
* *
13954246 TTTTTCTTTTTTTCCT
1 TCTCTCTTTTTTTCCT
13954262 TCTCTCTTTTTT
1 TCTCTCTTTTTT
13954274 CATTTTCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTCTCTTTTTTTCCT
Found at i:13954344 original size:15 final size:16
Alignment explanation
Indices: 13954326--13954360 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13954316 TTTTCTCTCA
13954326 TTTTA-TTTTGATTTT
1 TTTTATTTTTGATTTT
13954341 TTTTATTTTTGATTTT
1 TTTTATTTTTGATTTT
13954357 TTTT
1 TTTT
13954361 TTTGAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTATTTTTGATTTT
Found at i:13958955 original size:24 final size:24
Alignment explanation
Indices: 13958928--13959123 Score: 392
Period size: 24 Copynumber: 8.2 Consensus size: 24
13958918 ATGAATATTC
13958928 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13958952 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13958976 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959000 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959024 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959048 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959072 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959096 CTATTGTACATCATGCTAATATCA
1 CTATTGTACATCATGCTAATATCA
13959120 CTAT
1 CTAT
13959124 CTACATTCAA
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 172 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (24 bp):
CTATTGTACATCATGCTAATATCA
Found at i:13960291 original size:14 final size:15
Alignment explanation
Indices: 13960272--13960304 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13960262 GATTGGGCTG
*
13960272 TTTAATT-GTTTTTT
1 TTTAATTGGTTTTAT
13960286 TTTAATTGGTTTTAT
1 TTTAATTGGTTTTAT
13960301 TTTA
1 TTTA
13960305 CTAATGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (15 bp):
TTTAATTGGTTTTAT
Done.