Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 40 of 362
Found at i:11739391 original size:28 final size:26
Alignment explanation
Indices: 11739318--11739391 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 26
11739308 AGTCAAGCTT
*
11739318 AATATTATTATATTAATAATATTTTAAA
1 AATATTATAAT-TTAA-AATATTTTAAA
* *
11739346 AAAATTAAAATTAATAAAATATTAATTAAA
1 AATATTATAATT--TAAAATATT--TTAAA
11739376 AATATTATAATTTAAA
1 AATATTATAATTTAAA
11739392 CATACATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
27 1 0.03
28 18 0.49
29 3 0.08
30 15 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATATTATAATTTAAAATATTTTAAA
Found at i:11739442 original size:16 final size:16
Alignment explanation
Indices: 11739421--11739470 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
11739411 ATATCTAATC
11739421 ATATAATAAATTATTA
1 ATATAATAAATTATTA
11739437 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
11739450 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
11739467 ATAT
1 ATAT
11739471 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:11739528 original size:15 final size:16
Alignment explanation
Indices: 11739479--11739528 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
11739469 ATTTTAATTT
11739479 TATT-TTAATAATAAA
1 TATTATTAATAATAAA
*
11739494 TATTTATTAAAATTATAAA
1 TA-TTATT--AATAATAAA
11739513 TA-TATTAATAATAAA
1 TATTATTAATAATAAA
11739528 T
1 T
11739529 TTTTTGTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 6 0.21
19 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATTAATAATAAA
Found at i:11741453 original size:30 final size:30
Alignment explanation
Indices: 11741419--11741481 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11741409 ACTTAACAAG
**
11741419 CAAATGTCTCTAAAATAATATTAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
11741449 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
11741479 CAA
1 CAA
11741482 TAAAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:11741919 original size:41 final size:41
Alignment explanation
Indices: 11741842--11741920 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
11741832 GTTGTTTTTT
* ** *
11741842 GAGAGAGAAATGAAAATACGTCTTACAAGGTGCATTTTTAG
1 GAGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAG
*
11741883 GAGAGAGAAATGAAAACACACCTTA-TAGGATACATTTT
1 GAGAGAGAAATGAAAACACACCTTACAAGG-TACATTTT
11741921 CAAATTGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.09
41 29 0.91
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (41 bp):
GAGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAG
Found at i:11743279 original size:45 final size:45
Alignment explanation
Indices: 11743215--11743303 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
11743205 GGATTGGATC
*
11743215 CGTGCATTTGGGTTGAGATGTCTTCATGGAGTTCGAAAATCTATT
1 CGTGCATTTAGGTTGAGATGTCTTCATGGAGTTCGAAAATCTATT
11743260 CGTGCATTTAGGTTGAGATGTCTTCATGGAGTTCGAAAATCTAT
1 CGTGCATTTAGGTTGAGATGTCTTCATGGAGTTCGAAAATCTAT
11743304 CTCTTAGCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (45 bp):
CGTGCATTTAGGTTGAGATGTCTTCATGGAGTTCGAAAATCTATT
Found at i:11749425 original size:25 final size:25
Alignment explanation
Indices: 11749392--11749483 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
11749382 TTCATATTCA
11749392 GGAATGCTCATACGAGCATGTAAACG
1 GGAA-GCTCATACGAGCATGTAAACG
* * *
11749418 GGAAGCTCTTTCGAGCCATAT-AACG
1 GGAAGCTCATACGAG-CATGTAAACG
**
11749443 GGAAGCTCATGTGAGC-TGTATAACG
1 GGAAGCTCATACGAGCATGTA-AACG
* *
11749468 AGAAGCTCTTACGAGC
1 GGAAGCTCATACGAGC
11749484 CATTTATCGG
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 41 0.79
26 8 0.15
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATACGAGCATGTAAACG
Found at i:11749451 original size:50 final size:50
Alignment explanation
Indices: 11749392--11749501 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
11749382 TTCATATTCA
* *
11749392 GGAATGCTCATACGAGCATGTA-AACGGGAAGCTCTTTCGAGCCATATAACG
1 GGAA-GCTCATACGAGC-TGTATAACGAGAAGCTCTTACGAGCCATATAACG
** * *
11749443 GGAAGCTCATGTGAGCTGTATAACGAGAAGCTCTTACGAGCCATTTATCG
1 GGAAGCTCATACGAGCTGTATAACGAGAAGCTCTTACGAGCCATATAACG
*
11749493 GAAAGCTCA
1 GGAAGCTCA
11749502 AGAGAGCCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 4 0.08
50 43 0.84
51 4 0.08
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (50 bp):
GGAAGCTCATACGAGCTGTATAACGAGAAGCTCTTACGAGCCATATAACG
Found at i:11751534 original size:56 final size:56
Alignment explanation
Indices: 11751448--11751560 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
11751438 GTTACCGTTG
*
11751448 CCCTGAAAACACGTCTTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
1 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
*
11751504 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTTTGTAAGAGGTGTTTT
1 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
11751560 C
1 C
11751561 ATTTTTCTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (56 bp):
CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
Found at i:11752048 original size:8 final size:8
Alignment explanation
Indices: 11752011--11752059 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
11752001 TTAAATGTGC
11752011 ATTTTTATT
1 ATTTTTA-T
11752020 ATTTTTAT
1 ATTTTTAT
* *
11752028 A-TATAATT
1 ATTTTTA-T
11752036 ATTTTTAT
1 ATTTTTAT
11752044 ATTTTTAT
1 ATTTTTAT
11752052 ATTTTTAT
1 ATTTTTAT
11752060 TCTAGATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 3 0.09
8 21 0.62
9 10 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
ATTTTTAT
Found at i:11752054 original size:16 final size:17
Alignment explanation
Indices: 11752011--11752059 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
11752001 TTAAATGTGC
11752011 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTTAT
* *
11752028 A-TATAATTATTTTTAT
1 ATTTTTATTATTTTTAT
11752044 ATTTTTA-TATTTTTAT
1 ATTTTTATTATTTTTAT
11752060 TCTAGATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:11754470 original size:17 final size:18
Alignment explanation
Indices: 11754448--11754485 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11754438 AACATAATTT
*
11754448 AAAAA-TAAAAATTTTAA
1 AAAAATTAAAAATTGTAA
*
11754465 AAAAATTAAATATTGTAA
1 AAAAATTAAAAATTGTAA
11754483 AAA
1 AAA
11754486 TGTATGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAATTGTAA
Found at i:11754848 original size:18 final size:18
Alignment explanation
Indices: 11754818--11754871 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
11754808 ATTTTATATA
*
11754818 TTTAATTTA--TTTACCT
1 TTTAATTTAGTTTTACAT
11754834 TTTAATTTAGTTTTACAT
1 TTTAATTTAGTTTTACAT
11754852 TTTAATTTAGTATTT-CAT
1 TTTAATTTAGT-TTTACAT
11754870 TT
1 TT
11754872 ACTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.26
18 22 0.65
19 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTAATTTAGTTTTACAT
Found at i:11759431 original size:11 final size:11
Alignment explanation
Indices: 11759382--11759424 Score: 86
Period size: 11 Copynumber: 3.9 Consensus size: 11
11759372 CACACTAAAA
11759382 TTCTCTCAAAT
1 TTCTCTCAAAT
11759393 TTCTCTCAAAT
1 TTCTCTCAAAT
11759404 TTCTCTCAAAT
1 TTCTCTCAAAT
11759415 TTCTCTCAAA
1 TTCTCTCAAA
11759425 GCTCTCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:11759438 original size:22 final size:22
Alignment explanation
Indices: 11759383--11759431 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11759373 ACACTAAAAT
**
11759383 TCTCTCAAATTTCTCTCAAATT
1 TCTCTCAAATTTCTCTCAAAGC
11759405 TCTCTCAAATTTCTCTCAAAGC
1 TCTCTCAAATTTCTCTCAAAGC
11759427 TCTCT
1 TCTCT
11759432 TTAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTTCTCTCAAAGC
Found at i:11761242 original size:18 final size:18
Alignment explanation
Indices: 11761219--11761256 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11761209 TGTCAGGTAC
*
11761219 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
11761237 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
11761255 GT
1 GT
11761257 TTTCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11761726 original size:25 final size:24
Alignment explanation
Indices: 11761669--11761726 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
11761659 CATTTAATAA
*
11761669 AATAAAAGTTATTTTTAATATTTT
1 AATAAAATTTATTTTTAATATTTT
11761693 AATTAAAATTTACTTTTT-ATATTTTT
1 AA-TAAAATTTA-TTTTTAATA-TTTT
11761719 AATAAAAT
1 AATAAAAT
11761727 AAAAGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 17 0.57
26 11 0.37
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
AATAAAATTTATTTTTAATATTTT
Found at i:11761735 original size:25 final size:27
Alignment explanation
Indices: 11761661--11761735 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 27
11761651 TATTGTTTCA
*
11761661 TTTAATAAAATAAAAGTTATTTTTAATAT
1 TTTAATAAAATAAAAG-T-TTTATAATAT
** **
11761690 TTTAATTAAAATTTACTTTTTAT-AT-T
1 TTTAA-TAAAATAAAAGTTTTATAATAT
11761716 TTTAATAAAATAAAAGTTTT
1 TTTAATAAAATAAAAGTTTT
11761736 TTTGAATAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
25 11 0.31
26 6 0.17
27 2 0.06
28 4 0.11
29 6 0.17
30 7 0.19
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTAATAAAATAAAAGTTTTATAATAT
Found at i:11761735 original size:26 final size:28
Alignment explanation
Indices: 11761661--11761736 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 28
11761651 TATTGTTTCA
*
11761661 TTTAATAAAATAAAAGTTATTTTTAATAT
1 TTTAATAAAATAAAAGTT-TTTATAATAT
** *
11761690 TTTAATTAAAAT-TTACTTTTTAT-AT-T
1 TTTAA-TAAAATAAAAGTTTTTATAATAT
11761716 TTTAATAAAATAAAAGTTTTT
1 TTTAATAAAATAAAAGTTTTT
11761737 TTGAATAAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
25 6 0.16
26 12 0.32
27 2 0.05
28 4 0.11
29 8 0.21
30 6 0.16
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTAATAAAATAAAAGTTTTTATAATAT
Found at i:11761764 original size:8 final size:9
Alignment explanation
Indices: 11761747--11761808 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
11761737 TTGAATAAGG
11761747 TAATATTTT
1 TAATATTTT
11761756 TAATATTTT
1 TAATATTTT
11761765 T-ATATTTT
1 TAATATTTT
11761773 TAATATATTT
1 TAATAT-TTT
*
11761783 GTACAAACTTTT
1 -TA-ATA-TTTT
*
11761795 TTATATTTT
1 TAATATTTT
11761804 TAATA
1 TAATA
11761809 AAATAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 8 0.18
9 22 0.50
10 5 0.11
11 3 0.07
12 5 0.11
13 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TAATATTTT
Found at i:11761813 original size:86 final size:86
Alignment explanation
Indices: 11761706--11761863 Score: 289
Period size: 86 Copynumber: 1.8 Consensus size: 86
11761696 TAAAATTTAC
* * *
11761706 TTTTTATATTTTTAATAAAATAAAAGTTTTTTTGAATAAGGTAATATTTTTAATATTTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
11761771 TTTAATATATTTGTACAAACT
66 TTTAATATATTTGTACAAACT
11761792 TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
11761857 TTTAATA
66 TTTAATA
11761864 AAATATAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (86 bp):
TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
TTTAATATATTTGTACAAACT
Found at i:11761850 original size:8 final size:9
Alignment explanation
Indices: 11761834--11761863 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11761824 TGAATAAGGC
11761834 AATATTTTT
1 AATATTTTT
11761843 AATATTTTT
1 AATATTTTT
11761852 -ATATTTTT
1 AATATTTTT
11761860 AATA
1 AATA
11761864 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:11761889 original size:86 final size:86
Alignment explanation
Indices: 11761711--11761890 Score: 220
Period size: 86 Copynumber: 2.1 Consensus size: 86
11761701 TTTACTTTTT
* * *
11761711 ATATTTTTAATAAAATAAAAGTTTTTTTGAATAAGGTAATATTTTTAATATTTTTATATTTTTAA
1 ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
** * * *****
11761776 TATATTTGTACAAACTTTTTT
66 TATAAATATACAAAATGCAAC
11761797 ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
1 ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
11761862 TA-AAATATA-AATAATGCAAC
66 TATAAATATACAA-AATGCAAC
*
11761882 ATAATTTTA
1 ATATTTTTA
11761891 TAACAACAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 2 0.03
85 14 0.17
86 64 0.80
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (86 bp):
ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
TATAAATATACAAAATGCAAC
Found at i:11765056 original size:126 final size:126
Alignment explanation
Indices: 11764894--11765649 Score: 1008
Period size: 126 Copynumber: 6.1 Consensus size: 126
11764884 CCAAATAGGA
* *
11764894 ACTACTGTAGAAAAA-AGTGTCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCTT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
11764958 GCTTGAAGCGTTTTGGACACTATTTGTTTAGAAACGTCTTCTTAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
11765019 ACTATTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
11765084 GCTTAAAGCGTTTTAGACACTATTTGTTGAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
11765145 ACTACTATAGAAAAAGAGCT-TCCACATGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCC
1 ACTACTGTAGAAAAAGAG-TGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
11765209 TGCTTGAAGTGTTTTAAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATCTTTTCAGAT
65 TGCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
11765271 ACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGTTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
11765336 GTTTGAAGC------G-------TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *** ** *
11765384 ACTACTGTACAAAAAGAACATCCACGTAAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
11765449 ACCTGAAGCGTTTT-GCACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAG-ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * ** * *
11765510 ACTACTATAGAAAAAAAGCATCCAGGTGGGAGC-TTTTTCAATAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
11765574 GCTTGAAGAGTTTTCA-AAACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTT-AGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
11765635 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
11765650 AAATAAAAAG
Statistics
Matches: 559, Mismatches: 54, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
113 98 0.18
118 1 0.00
125 113 0.20
126 346 0.62
127 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:11765431 original size:113 final size:113
Alignment explanation
Indices: 11765233--11765593 Score: 374
Period size: 113 Copynumber: 3.1 Consensus size: 113
11765223 TAAACACTAT
* *** *
11765233 TTGTTCAGAAACGTCTTCTCAAAATTATCTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACAT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAACATCCACGT
*
11765298 GGGAGCTTTTTTT-AGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
66 GGGAG-TTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCG
*
11765346 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAACATCCACGT
** *
11765411 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACA-CTAT
66 GGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCA---T-CCT-----G-TTTG-A-AGC--G
* * * *
11765472 TTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAA-AAGCATCCAGG
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAA-CATCCACG
* * * *
11765536 TGGGAG-CTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAG
65 TGGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCG
11765584 TT-TTCA-AAAC
1 TTGTTCAGAAAC
11765594 TATTTGTTCA
Statistics
Matches: 209, Mismatches: 22, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
110 4 0.02
111 4 0.02
112 9 0.04
113 83 0.40
114 1 0.00
115 3 0.01
116 2 0.01
117 3 0.01
121 3 0.01
122 2 0.01
123 4 0.02
124 2 0.01
125 29 0.14
126 60 0.29
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (113 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAACATCCACGT
GGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCG
Found at i:11765542 original size:239 final size:238
Alignment explanation
Indices: 11765107--11765593 Score: 690
Period size: 239 Copynumber: 2.1 Consensus size: 238
11765097 TAGACACTAT
* * * *
11765107 TTGTTGAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGAAAAAGAGCTTCCACAT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
** * * *
11765172 GGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGTGTTTTAAACACTATTTGT
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
* * * * **
11765237 TCAGAAACGTCTTCTCAAAATTATCTTTTCAGATACTACTGTAGAAAAAGAGTGTCCACATGGGA
131 TCAGAAACATCTTCTCAAAATTATCTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGGA
* * * * *
11765302 GCTTTTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
196 GC-TTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAG
* *
11765346 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
* * **
11765411 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTATTTGT
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
* **
11765476 TCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCAGGTGGGA
131 TCAGAAACATCTTCTCAAAATTATCTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGGA
11765541 GCTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAG
196 GCTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAG
11765584 TT-TTCA-AAAC
1 TTGTTCAGAAAC
11765594 TATTTGTTCA
Statistics
Matches: 219, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
236 4 0.02
237 4 0.02
238 38 0.17
239 173 0.79
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (238 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
TCAGAAACATCTTCTCAAAATTATCTTTTCAAATACTACTATAGAAAAAAAGCATCCACATGGGA
GCTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAG
Found at i:11765597 original size:125 final size:125
Alignment explanation
Indices: 11765346--11765651 Score: 454
Period size: 125 Copynumber: 2.4 Consensus size: 125
11765336 GTTTGAAGCG
* *
11765346 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAA-AACATCCACGT
* * * *
11765411 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTAT
65 AAGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGCAAACTAT
* * *
11765472 TTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCAGGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA-CATCCACGT
** * *
11765537 GGGAG-CTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTTGAAGAGTTTT-CAAAACTAT
65 AAGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGC-AAACTAT
11765597 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA
11765652 ATAAAAAGTT
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
124 1 0.01
125 102 0.63
126 60 0.37
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (125 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAACATCCACGTA
AGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGCAAACTAT
Found at i:11765922 original size:16 final size:16
Alignment explanation
Indices: 11765901--11765952 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
11765891 TTTGGTTCGC
11765901 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11765917 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
11765933 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
11765949 TGTA
1 TGTA
11765953 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11765999 original size:45 final size:44
Alignment explanation
Indices: 11765933--11766027 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
11765923 GGATTAGAGG
* * *
11765933 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
11765978 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
11766022 TGTAAT
1 TGTAAT
11766028 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:11766210 original size:18 final size:17
Alignment explanation
Indices: 11766189--11766223 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11766179 TTATTATTTA
*
11766189 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11766207 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11766224 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11766217 original size:28 final size:27
Alignment explanation
Indices: 11766147--11766219 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
11766137 TTTATTATCA
*
11766147 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
11766175 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
11766202 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
11766220 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:11766357 original size:18 final size:17
Alignment explanation
Indices: 11766336--11766370 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11766326 TTATTATTAA
*
11766336 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11766354 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11766371 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11766382 original size:147 final size:149
Alignment explanation
Indices: 11766108--11766382 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
11766098 ATGATTATTG
*
11766108 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
11766173 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
11766238 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
11766257 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
11766320 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
11766383 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:11766478 original size:18 final size:17
Alignment explanation
Indices: 11766438--11766490 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
11766428 AAATATAAAT
11766438 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
11766452 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
11766467 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
11766485 TAAAAT
1 TAAAAT
11766491 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:11766548 original size:60 final size:59
Alignment explanation
Indices: 11766364--11766550 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
11766354 ATATAATTTA
*
11766364 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
11766425 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
11766483 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
11766544 ATAAAAT
1 ATAAAAT
11766551 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:11766549 original size:119 final size:120
Alignment explanation
Indices: 11766316--11766610 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
11766306 TTACTCATAT
*
11766316 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
11766381 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
11766437 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
11766501 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
11766556 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
11766611 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:11770572 original size:23 final size:23
Alignment explanation
Indices: 11770530--11770586 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
11770520 TGTTAAACAG
* *
11770530 ATTAAATAATATTACTTTATATTA
1 ATTAAATAAAATTACATTAT-TTA
11770554 ATTAAA-AAAATTACATTATTTA
1 ATTAAATAAAATTACATTATTTA
* *
11770576 ATGAATTAAAA
1 ATTAAATAAAA
11770587 AAATAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 7 0.25
23 15 0.54
24 6 0.21
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTAAATAAAATTACATTATTTA
Found at i:11772925 original size:13 final size:13
Alignment explanation
Indices: 11772907--11772934 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11772897 GAATAATTGG
11772907 GAATAGCTTGAAA
1 GAATAGCTTGAAA
11772920 GAATAGCTTGAAA
1 GAATAGCTTGAAA
11772933 GA
1 GA
11772935 CTGATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.21
Consensus pattern (13 bp):
GAATAGCTTGAAA
Found at i:11777574 original size:17 final size:17
Alignment explanation
Indices: 11777552--11777585 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11777542 GTTAATAAAG
11777552 AAAATAAGAA-AAAAACA
1 AAAATAA-AATAAAAACA
11777569 AAAATAAAATAAAAACA
1 AAAATAAAATAAAAACA
11777586 GAATTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAATAAAATAAAAACA
Found at i:11781685 original size:20 final size:21
Alignment explanation
Indices: 11781660--11781702 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
11781650 TTGTTTCTTA
11781660 TTCTTTTTTTCT-CATTTTTT
1 TTCTTTTTTTCTCCATTTTTT
*
11781680 TTCTTTTTTTCTCCCTTTTTT
1 TTCTTTTTTTCTCCATTTTTT
11781701 TT
1 TT
11781703 GGGTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTTTTTTCTCCATTTTTT
Found at i:11782353 original size:16 final size:17
Alignment explanation
Indices: 11782322--11782354 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11782312 TTCATAAGTA
11782322 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
11782339 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
11782355 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:11782700 original size:46 final size:47
Alignment explanation
Indices: 11782635--11782958 Score: 403
Period size: 46 Copynumber: 7.0 Consensus size: 47
11782625 TTATCTTTGA
* * * * *
11782635 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
11782681 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* * * ***
11782727 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
11782773 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTATTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
11782819 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA--CATGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTTCATAT
* * *
11782865 CAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
11782911 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
11782957 CA
1 CA
11782959 GAGAGCACAC
Statistics
Matches: 253, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 245 0.97
48 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:11782888 original size:138 final size:137
Alignment explanation
Indices: 11782635--11782958 Score: 445
Period size: 138 Copynumber: 2.4 Consensus size: 137
11782625 TTATCTTTGA
* * * *
11782635 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATGGTATCT
* * **
11782699 TTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTC
65 TTCAACCATGGTCTTA-TCATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACAC
* *
11782764 ATTTCCCGT
129 ATTTCACAT
*
11782773 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
* *
11782838 TCAACCATGGTCTTA-CATGTTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
66 TCAACCATGGTCTTATCA--TTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACAC
*
11782902 ATTTCATAT
129 ATTTCACAT
* * *
11782911 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCA
11782959 GAGAGCACAC
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
136 2 0.01
137 4 0.02
138 159 0.96
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (137 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATCATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACAT
TTCACAT
Found at i:11790963 original size:8 final size:8
Alignment explanation
Indices: 11790947--11790980 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
11790937 TTGGAATAAC
*
11790947 TTCTCTTT
1 TTCTTTTT
11790955 TTCTTTTT
1 TTCTTTTT
11790963 TTCTTTTT
1 TTCTTTTT
11790971 TTCTTTTT
1 TTCTTTTT
11790979 TT
1 TT
11790981 AAGAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:11791525 original size:20 final size:20
Alignment explanation
Indices: 11791500--11791540 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11791490 TATGAGTAAC
* *
11791500 TTTATAATTCATATATATAA
1 TTTATAAATAATATATATAA
11791520 TTTATAAATAATATATATAA
1 TTTATAAATAATATATATAA
11791540 T
1 T
11791541 CCAAAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATAAATAATATATATAA
Found at i:11796663 original size:46 final size:46
Alignment explanation
Indices: 11796610--11796699 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
11796600 GAAGGAAGAT
11796610 GCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCATAA
1 GCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCATAA
11796656 GCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
1 GCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCAT
11796700 GTCAACCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (46 bp):
GCATACTTCCTACAAGAGAATATGCAGTTGTAATTATGAATCATAA
Found at i:11798070 original size:17 final size:17
Alignment explanation
Indices: 11797973--11798070 Score: 117
Period size: 17 Copynumber: 5.7 Consensus size: 17
11797963 AGCTCTCATG
*
11797973 TTTGGTAAGCTCGCAAT
1 TTTGGTGAGCTCGCAAT
*
11797990 CTTTGGTGAGCTTCGCACT
1 -TTTGGTGAGC-TCGCAAT
* * *
11798009 TTT-GTGAGCTTGTAGT
1 TTTGGTGAGCTCGCAAT
*
11798025 TTTGGTGAGCTCGCAGT
1 TTTGGTGAGCTCGCAAT
11798042 TTTGGTGAGCTCGCAAT
1 TTTGGTGAGCTCGCAAT
11798059 TTTGGTGAGCTC
1 TTTGGTGAGCTC
11798071 ATAGTTTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
16 7 0.10
17 45 0.64
18 12 0.17
19 6 0.09
ACGTcount: A:0.14, C:0.17, G:0.30, T:0.39
Consensus pattern (17 bp):
TTTGGTGAGCTCGCAAT
Found at i:11798076 original size:51 final size:52
Alignment explanation
Indices: 11797973--11798077 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 52
11797963 AGCTCTCATG
* **
11797973 TTTGGTAAGCTCGCAATCTTTGGTGAGCTTCGCACTTTTGTGAGCTTGTAGT
1 TTTGGTAAGCTCGCAATCTTTGGTGAGCTTCGCAATTTTGTGAGCTCATAGT
* *
11798025 TTTGGTGAGCTCGCAGT-TTTGGTGAGC-TCGCAATTTTGGTGAGCTCATAGT
1 TTTGGTAAGCTCGCAATCTTTGGTGAGCTTCGCAATTTT-GTGAGCTCATAGT
11798076 TT
1 TT
11798078 ACAATTCGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
50 9 0.19
51 23 0.49
52 15 0.32
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.40
Consensus pattern (52 bp):
TTTGGTAAGCTCGCAATCTTTGGTGAGCTTCGCAATTTTGTGAGCTCATAGT
Found at i:11800906 original size:18 final size:19
Alignment explanation
Indices: 11800869--11800909 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11800859 ATTTAGAATC
11800869 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
11800888 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
11800906 AAAA
1 AAAA
11800910 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:11800911 original size:31 final size:31
Alignment explanation
Indices: 11800835--11800908 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
11800825 TCAAGTTATC
*
11800835 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
11800867 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
11800897 TTAAATATAAAA
1 TTAAATATAAAA
11800909 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:11806326 original size:22 final size:21
Alignment explanation
Indices: 11806301--11806341 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11806291 TTTGGAATTT
*
11806301 TTTTTAATTTTAAATATTGAAC
1 TTTTTAA-TTAAAATATTGAAC
11806323 TTTTTAATTAAAATATTGA
1 TTTTTAATTAAAATATTGA
11806342 TTAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTTAATTAAAATATTGAAC
Found at i:11806361 original size:8 final size:8
Alignment explanation
Indices: 11806350--11806428 Score: 103
Period size: 8 Copynumber: 10.4 Consensus size: 8
11806340 GATTAAAATA
11806350 TTAAATTT
1 TTAAATTT
11806358 TT-AATTT
1 TTAAATTT
*
11806365 TTAATTTT
1 TTAAATTT
*
11806373 TTTAA-TT
1 TTAAATTT
11806380 TT-AATTT
1 TTAAATTT
*
11806387 TT-TATTT
1 TTAAATTT
11806394 TTAAATTT
1 TTAAATTT
11806402 TTAAATTT
1 TTAAATTT
11806410 TTAAATTT
1 TTAAATTT
11806418 TTAAATTT
1 TTAAATTT
11806426 TTA
1 TTA
11806429 TTTTTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
6 2 0.03
7 21 0.33
8 40 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTAAATTT
Found at i:11806384 original size:22 final size:21
Alignment explanation
Indices: 11806350--11806433 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 21
11806340 GATTAAAATA
11806350 TTAAATTTTTAATTTTTAATTT
1 TTAAA-TTTTAATTTTTAATTT
* *
11806372 TTTTAATTTTAATTTTTTATTT
1 T-TAAATTTTAATTTTTAATTT
11806394 TTAAATTTTTAAATTTTTAAATTT
1 TTAAA-TTTT-AATTTTT-AATTT
*
11806418 TTAAATTTTTATTTTT
1 TTAAATTTTAATTTTT
11806434 TTATTTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
21 3 0.06
22 27 0.51
23 14 0.26
24 9 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAAATTTTAATTTTTAATTT
Found at i:11806434 original size:16 final size:15
Alignment explanation
Indices: 11806350--11806441 Score: 100
Period size: 16 Copynumber: 6.1 Consensus size: 15
11806340 GATTAAAATA
*
11806350 TTAAATTTTTAATTT
1 TTAATTTTTTAATTT
11806365 TTAATTTTTTTAA-TT
1 TTAA-TTTTTTAATTT
11806380 TTAATTTTTT-ATTT
1 TTAATTTTTTAATTT
*
11806394 TTAAATTTTTAAATTT
1 TT-AATTTTTTAATTT
*
11806410 TTAAATTTTTAAATTT
1 TT-AATTTTTTAATTT
*
11806426 TT-ATTTTTTTATTT
1 TTAATTTTTTAATTT
11806440 TT
1 TT
11806442 GAGTTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.01
14 22 0.32
15 17 0.25
16 29 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTAATTTTTTAATTT
Found at i:11806458 original size:7 final size:7
Alignment explanation
Indices: 11806353--11806441 Score: 90
Period size: 7 Copynumber: 12.0 Consensus size: 7
11806343 TAAAATATTA
11806353 AATTTTT
1 AATTTTT
11806360 AATTTTT
1 AATTTTT
11806367 AATTTTTTT
1 AA--TTTTT
11806376 AA-TTTT
1 AATTTTT
11806382 AATTTTT
1 AATTTTT
*
11806389 TATTTTT
1 AATTTTT
11806396 AAATTTTT
1 -AATTTTT
11806404 AAATTTTT
1 -AATTTTT
11806412 AAATTTTT
1 -AATTTTT
11806420 AAATTTTT
1 -AATTTTT
*
11806428 ATTTTTT
1 AATTTTT
*
11806435 TATTTTT
1 AATTTTT
11806442 GAGTTTATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.08
7 30 0.41
8 30 0.41
9 7 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
AATTTTT
Found at i:11806537 original size:23 final size:23
Alignment explanation
Indices: 11806510--11806557 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11806500 TTTAAATGTA
11806510 TAGTTGAAACTTTAATTTTGATT
1 TAGTTGAAACTTTAATTTTGATT
11806533 TAGTTGAAACTTTAATTTTGATT
1 TAGTTGAAACTTTAATTTTGATT
11806556 TA
1 TA
11806558 ATCATACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TAGTTGAAACTTTAATTTTGATT
Found at i:11807010 original size:15 final size:15
Alignment explanation
Indices: 11806987--11807037 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
11806977 ATACCCATGG
*
11806987 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
11807002 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
11807017 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
11807031 CCTTAAA
1 CCATAAA
11807038 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:11807216 original size:37 final size:37
Alignment explanation
Indices: 11807160--11807232 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
11807150 ATGTGATGTT
11807160 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
1 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
*
11807197 TTTTGGGGTTT-AGGTTTTTAGAGGTTATAGTTTAGT
1 TTTTGGGGTTTAAGG-TTTTAGAAGTTATAGTTTAGT
11807233 GTTCATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 3 0.09
37 31 0.91
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (37 bp):
TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
Found at i:11807355 original size:41 final size:41
Alignment explanation
Indices: 11807292--11807614 Score: 312
Period size: 41 Copynumber: 8.1 Consensus size: 41
11807282 GCGGCGTTTT
** *
11807292 CGTTTTACCGAAAACGGTGCTAATGCTCCGATTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* *
11807333 CGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* *
11807374 CATTTTACCG---A-------AATGCTCCGATTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* *
11807405 CGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* ** *
11807446 CATTTTACCGAAAGTGCCGCTAATGCTCTGACTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* * *
11807487 CGTTTTACCGAAAGCGCCACTAATGCTCTGACTTTTAGCGG
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
* * * *
11807528 CATTTTACC-AAAAGCGCCGCTATTGCTCTG-TTTTTAGCGG
1 CGTTTTACCGAAAA-CGCCGCTAATGCTCCGACTTTTAGCGG
** * * *
11807568 CGTTTTAACAAAAAACGCCGCTATTGCTCTG-TTTTTAGCGG
1 CGTTTT-ACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
11807609 CGTTTT
1 CGTTTT
11807615 TGGTGAAACG
Statistics
Matches: 244, Mismatches: 25, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
31 27 0.11
34 1 0.00
38 1 0.00
40 17 0.07
41 194 0.80
42 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (41 bp):
CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGG
Found at i:11807386 original size:82 final size:81
Alignment explanation
Indices: 11807294--11807614 Score: 351
Period size: 82 Copynumber: 4.0 Consensus size: 81
11807284 GGCGTTTTCG
** *
11807294 TTTTACCGAAAACGGTGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGC
1 TTTTACCGAAAACGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGC
11807359 TCCTACTTTTAGCGGCA
66 T-CTACTTTTAGCGGCA
*
11807376 TTTTACCG---A-------AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGC
1 TTTTACCGAAAACGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGC
11807431 TCCTACTTTTAGCGGCA
66 T-CTACTTTTAGCGGCA
** * * * *
11807448 TTTTACCGAAAGTGCCGCTAATGCTCTGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGC
1 TTTTACCGAAAACGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGC
11807513 TCTGACTTTTAGCGGCA
66 TCT-ACTTTTAGCGGCA
* * ** *
11807530 TTTTACC-AAAAGCGCCGCTATTGCTCTG-TTTTTAGCGGCGTTTTAACAAAAAACGCCGCTATT
1 TTTTACCGAAAA-CGCCGCTAATGCTCCGATTTTTAGCGGCGTTTT-ACCGAAAACGCCGCTAAT
** *
11807593 GCTCTGTTTTTAGCGGCG
64 GCTCTACTTTTAGCGGCA
11807611 TTTT
1 TTTT
11807615 TGGTGAAACG
Statistics
Matches: 208, Mismatches: 18, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
72 71 0.34
79 1 0.00
81 34 0.16
82 102 0.49
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (81 bp):
TTTTACCGAAAACGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGC
TCTACTTTTAGCGGCA
Found at i:11807389 original size:31 final size:31
Alignment explanation
Indices: 11807354--11807417 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11807344 AAATGCCGCT
*
11807354 AATGCTCCTACTTTTAGCGGCATTTTACCGA
1 AATGCTCCGACTTTTAGCGGCATTTTACCGA
* *
11807385 AATGCTCCGATTTTTAGCGGCGTTTTACCGA
1 AATGCTCCGACTTTTAGCGGCATTTTACCGA
11807416 AA
1 AA
11807418 ATGCCGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (31 bp):
AATGCTCCGACTTTTAGCGGCATTTTACCGA
Found at i:11807393 original size:72 final size:72
Alignment explanation
Indices: 11807313--11807536 Score: 306
Period size: 72 Copynumber: 3.0 Consensus size: 72
11807303 AAACGGTGCT
11807313 AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATT
1 AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATT
11807378 TTACCGA
66 TTACCGA
11807385 AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATT
1 AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATT
11807450 TTACCGA
66 TTACCGA
* ** *
11807457 AAGTGCCGCTAATGCTCTGACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCT-CTGACTT
1 AA-T---GC---T-C-C-GATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCT-ACTT
11807521 TTAGCGGCATTTTACC
55 TTAGCGGCATTTTACC
11807537 AAAAGCGCCG
Statistics
Matches: 137, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
72 74 0.54
73 1 0.01
76 2 0.01
79 1 0.01
80 1 0.01
81 3 0.02
82 55 0.40
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (72 bp):
AATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATT
TTACCGA
Found at i:11807427 original size:113 final size:113
Alignment explanation
Indices: 11807292--11807499 Score: 328
Period size: 113 Copynumber: 1.8 Consensus size: 113
11807282 GCGGCGTTTT
** * *
11807292 CGTTTTACCGAAAACGGTGCTAATGCTCCGATTTTTAGCGGCGTTTTACCGAAAATGCCGCTAAT
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGGCATTTTACCGAAAATGCCGCTAAT
11807357 GCTCCT-ACTTTTAGCGGCATTTTACCGAAATGCTCCGATTTTTAGCGG
66 GCT-CTGACTTTTAGCGGCATTTTACCGAAATGCTCCGATTTTTAGCGG
* * *
11807405 CGTTTTACCGAAAATGCCGCTAATGCTCCTACTTTTAGCGGCATTTTACCGAAAGTGCCGCTAAT
1 CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGGCATTTTACCGAAAATGCCGCTAAT
*
11807470 GCTCTGACTTTTAGCGGCGTTTTACCGAAA
66 GCTCTGACTTTTAGCGGCATTTTACCGAAA
11807500 GCGCCACTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 2 0.02
113 84 0.98
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (113 bp):
CGTTTTACCGAAAACGCCGCTAATGCTCCGACTTTTAGCGGCATTTTACCGAAAATGCCGCTAAT
GCTCTGACTTTTAGCGGCATTTTACCGAAATGCTCCGATTTTTAGCGG
Found at i:11813503 original size:11 final size:10
Alignment explanation
Indices: 11813487--11813534 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11813477 ATGATAATAA
11813487 ATAATTTAAT
1 ATAATTTAAT
11813497 CATAATTTAAT
1 -ATAATTTAAT
11813508 ATAA--TAAT
1 ATAATTTAAT
*
11813516 -T-ATTAAAT
1 ATAATTTAAT
11813524 ATAATTTAAT
1 ATAATTTAAT
11813534 A
1 A
11813535 ACATTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.03
7 1 0.03
8 7 0.23
9 1 0.03
10 11 0.35
11 10 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:11813513 original size:24 final size:22
Alignment explanation
Indices: 11813463--11813551 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 22
11813453 ACTATTAAAT
* *
11813463 ATAATTTAATAAAAATGATAATAA
1 ATAATTTAAT-ATAAT-TTAATAA
11813487 ATAATTTAATCATAATTTAATATA
1 ATAATTTAAT-ATAATTTAATA-A
11813511 ATAATTATTAAATATAATTTAATAA
1 ATAA-T-TT-AATATAATTTAATAA
11813536 CAT--TTGTAATATAATT
1 -ATAATT-TAATATAATT
11813552 ATTTTTAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
22 10 0.18
23 7 0.12
24 19 0.34
25 2 0.04
26 15 0.27
27 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATTTAATATAATTTAATAA
Found at i:11813523 original size:35 final size:35
Alignment explanation
Indices: 11813463--11813561 Score: 85
Period size: 37 Copynumber: 2.7 Consensus size: 35
11813453 ACTATTAAAT
* *
11813463 ATAATTTAATA-AA-AATGATAATAAATAATTTAATC
1 ATAATTTAATATAATAAT--TATTAAATAATTTAATA
11813498 ATAATTTAATATAATAATTATTAAATATAATTTAATA
1 ATAATTTAATATAATAATTATT-AA-ATAATTTAATA
* * * *
11813535 ACATTTGTAATATAATTATTTTTAAAT
1 ATAATT-TAATATAATAATTATTAAAT
11813562 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
35 14 0.26
36 6 0.11
37 19 0.36
38 14 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (35 bp):
ATAATTTAATATAATAATTATTAAATAATTTAATA
Found at i:11813527 original size:26 final size:28
Alignment explanation
Indices: 11813480--11813534 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
11813470 AATAAAAATG
*
11813480 ATAATAAATAATTTAATCATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
*
11813508 ATAAT-AATTATTAAAT-ATAATTTAAT
1 ATAATAAATAATTAAATCATAATTTAAT
11813534 A
1 A
11813535 ACATTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 9 0.36
28 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATAAATAATTAAATCATAATTTAAT
Found at i:11813560 original size:38 final size:37
Alignment explanation
Indices: 11813487--11813561 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
11813477 ATGATAATAA
* *
11813487 ATAATTTAATCATAATTTAATATAATAATTATTAAAT
1 ATAATTTAATAACAATTTAATATAATAATTATTAAAT
* * *
11813524 ATAATTTAATAACATTTGTAATATAATTATTTTTAAAT
1 ATAATTTAATAACAATT-TAATATAATAATTATTAAAT
11813562 TAAAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (37 bp):
ATAATTTAATAACAATTTAATATAATAATTATTAAAT
Found at i:11813613 original size:15 final size:15
Alignment explanation
Indices: 11813590--11813652 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
11813580 TTATATTAAA
11813590 TTATATTAAAATATT
1 TTATATTAAAATATT
*
11813605 TTATTTTAAATTATATT
1 TTATATTAAA--ATATT
*
11813622 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
11813637 TTATATTAAAATATT
1 TTATATTAAAATATT
11813652 T
1 T
11813653 CAAATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 27 0.68
17 11 0.28
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:11820046 original size:14 final size:15
Alignment explanation
Indices: 11820027--11820056 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11820017 TTAAAACCTT
11820027 AATCCTAA-TAATAA
1 AATCCTAATTAATAA
11820041 AATCCTAATTAATAA
1 AATCCTAATTAATAA
11820056 A
1 A
11820057 CCCTAAAATC
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:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCTAATTAATAA
Found at i:11820243 original size:26 final size:27
Alignment explanation
Indices: 11820181--11820234 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
11820171 CCCATTTCCA
11820181 TCAT-ATTTAAAAAAAATTGTCTTATTT
1 TCATAATTT-AAAAAAATTGTCTTATTT
11820208 TCATAATTTAAAAAAATTG-CTTTATTT
1 TCATAATTTAAAAAAATTGTC-TTATTT
11820235 GGTAATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.04
27 20 0.80
28 4 0.16
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
TCATAATTTAAAAAAATTGTCTTATTT
Found at i:11821030 original size:21 final size:22
Alignment explanation
Indices: 11821006--11821046 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
11820996 TTATTATTTT
11821006 TTTAAATATTT-AT-ATTTTTAA
1 TTTAAA-ATTTAATAATTTTTAA
11821027 TTTAAAATTTAATAATTTTT
1 TTTAAAATTTAATAATTTTT
11821047 TCATTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAAAATTTAATAATTTTTAA
Found at i:11823173 original size:23 final size:23
Alignment explanation
Indices: 11823147--11823193 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11823137 AATATCAATA
11823147 TGAGTACAAACCATTGCATACAT
1 TGAGTACAAACCATTGCATACAT
*
11823170 TGAGTACAAACCATTGTATACAT
1 TGAGTACAAACCATTGCATACAT
11823193 T
1 T
11823194 TGGCTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (23 bp):
TGAGTACAAACCATTGCATACAT
Found at i:11825667 original size:53 final size:53
Alignment explanation
Indices: 11825604--11825707 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
11825594 ATCAAACTTC
*
11825604 TCGATGTTATACCTCATTACCAACTCTGAACGGGTTGAATGCAAAAAATTGGA
1 TCGATGTTATACCTCATTACCAACCCTGAACGGGTTGAATGCAAAAAATTGGA
* *
11825657 TCGATGTTATACCTCATTACCAACCCTGAATGGGTTGAATTCAAAAAATTG
1 TCGATGTTATACCTCATTACCAACCCTGAACGGGTTGAATGCAAAAAATTG
11825708 AATCAAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
TCGATGTTATACCTCATTACCAACCCTGAACGGGTTGAATGCAAAAAATTGGA
Found at i:11834008 original size:17 final size:17
Alignment explanation
Indices: 11833952--11834011 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
11833942 TCTTATTTAT
11833952 ATATTTAATATTTCACAATA
1 ATATTTAA-A-TT-ACAATA
* * *
11833972 AAATTTATTATTA-AAAA
1 ATATTTA-AATTACAATA
11833989 ATATTTAAATTACAATA
1 ATATTTAAATTACAATA
11834006 ATATTT
1 ATATTT
11834012 CACAATACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.12
17 18 0.56
18 1 0.03
19 2 0.06
20 7 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTTAAATTACAATA
Found at i:11834622 original size:9 final size:9
Alignment explanation
Indices: 11834592--11834640 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
11834582 TTGGTTATAC
11834592 TTTAACATTT
1 TTTAA-ATTT
*
11834602 TTTAAAATT
1 TTTAAATTT
11834611 TTTAAATTTT
1 TTTAAA-TTT
*
11834621 TTTAAGTTT
1 TTTAAATTT
11834630 TTTGAAATTT
1 TTT-AAATTT
11834640 T
1 T
11834641 AAATATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTAAATTT
Found at i:11835000 original size:21 final size:21
Alignment explanation
Indices: 11834976--11835020 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11834966 ATTAGAATGT
11834976 AATACAGTTTAT-AATAATTAA
1 AATA-AGTTTATAAATAATTAA
**
11834997 AATATTTTTATAAATAATTAA
1 AATAAGTTTATAAATAATTAA
11835018 AAT
1 AAT
11835021 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAAGTTTATAAATAATTAA
Found at i:11835028 original size:21 final size:20
Alignment explanation
Indices: 11834983--11835043 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
11834973 TGTAATACAG
11834983 TTTATAATAATTAAAATATT
1 TTTATAATAATTAAAATATT
11835003 TTTATAAATAATTAAAAT-TT
1 TTTAT-AATAATTAAAATATT
* *
11835023 TATTATTTATAATTGAAATAT
1 T-TTA-TAATAATTAAAATAT
11835044 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.23
21 25 0.71
22 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATAATAATTAAAATATT
Found at i:11845474 original size:3 final size:3
Alignment explanation
Indices: 11845437--11845496 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
11845427 TCCTATTAAA
* * * *
11845437 TAT TCT TAT TATT TAT ATAA TAT TAG TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11845484 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
11845497 GTGTATTAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11847942 original size:22 final size:22
Alignment explanation
Indices: 11847914--11847955 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11847904 TTCGATTAAC
11847914 TAAAGATTTATTAACCACTAAT
1 TAAAGATTTATTAACCACTAAT
*
11847936 TAAAGATTTGTTAACCACTA
1 TAAAGATTTATTAACCACTA
11847956 CACCACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAGATTTATTAACCACTAAT
Found at i:11850482 original size:5 final size:5
Alignment explanation
Indices: 11850472--11850497 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11850462 TAATAATATA
11850472 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
11850498 TAAAATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:11854068 original size:24 final size:24
Alignment explanation
Indices: 11854020--11854073 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
11854010 GATTGGGGAG
* **
11854020 ATAATTTATCTTGATTATCTGAGC
1 ATAATTTATCTTGACTATCAAAGC
*
11854044 ATAATTTATCTTGGCTATCAAAGC
1 ATAATTTATCTTGACTATCAAAGC
*
11854068 AGAATT
1 ATAATT
11854074 GGCTTCTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
ATAATTTATCTTGACTATCAAAGC
Found at i:11859706 original size:15 final size:15
Alignment explanation
Indices: 11859686--11859715 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11859676 AAATGTCATG
11859686 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
11859701 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
11859716 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:11860890 original size:16 final size:16
Alignment explanation
Indices: 11860869--11860899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11860859 CTATGCATGC
*
11860869 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
11860885 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
11860900 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:11864935 original size:11 final size:11
Alignment explanation
Indices: 11864919--11864943 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11864909 CTAAACCACC
11864919 AAATTGTGATA
1 AAATTGTGATA
11864930 AAATTGTGATA
1 AAATTGTGATA
11864941 AAA
1 AAA
11864944 GATAAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
AAATTGTGATA
Found at i:11866190 original size:37 final size:36
Alignment explanation
Indices: 11866144--11866224 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
11866134 AAATTATTAA
11866144 ATTAAATTAAAATTTATC-TATATCTACTATTTATATT
1 ATTAAATTAAAATTTA-CAT-TATCTACTATTTATATT
* * *
11866181 ATTAAATTAAATTTTACATTTTGTACTATTTATATT
1 ATTAAATTAAAATTTACATTATCTACTATTTATATT
*
11866217 ATTGAATT
1 ATTAAATT
11866225 GTTTAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 23 0.59
37 16 0.41
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (36 bp):
ATTAAATTAAAATTTACATTATCTACTATTTATATT
Found at i:11870935 original size:23 final size:23
Alignment explanation
Indices: 11870905--11871003 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
11870895 CTGATGAACA
* *
11870905 GTAAGCTCTATTGATCTTAAACG
1 GTAAGCTCTATTGAGCTAAAACG
11870928 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATTGAGCTAAAACG
* * *
11870951 GTAAGCTCTATCGAGCT-GAACA
1 GTAAGCTCTATTGAGCTAAAACG
* *
11870973 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTAAAACG
11870996 GTAAGCTC
1 GTAAGCTC
11871004 CAATGAGTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 2 0.03
22 17 0.25
23 48 0.72
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:11870974 original size:68 final size:69
Alignment explanation
Indices: 11870899--11871063 Score: 190
Period size: 68 Copynumber: 2.3 Consensus size: 69
11870889 CCTGAGCTGA
* * * * * *
11870899 TGAACAGTAAGCTC-TATTGATCTTAAACGGTAAGCTCTATTGAGCT-AAAACGGTAAGCTCTAT
1 TGAACAGTAAGCTCATA-CGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTAT
11870962 CGAGC
65 CGAGC
* * *
11870967 TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGTTGAAAATAGTAAGCTCTTTC
1 TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTATC
11871032 GAGC
66 GAGC
11871036 TGATACATCGGTAAGCTCATACGAGCTG
1 TGA-ACA---GTAAGCTCATACGAGCTG
11871064 TGGTGAGTCG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
68 37 0.45
69 24 0.29
70 3 0.04
73 18 0.22
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (69 bp):
TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTATC
GAGC
Found at i:11870989 original size:45 final size:46
Alignment explanation
Indices: 11870905--11871003 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 46
11870895 CTGATGAACA
* * * *
11870905 GTAAGCTCTATTGATCTTAAACGGTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTATCGAGCTAAAACG
* *
11870951 GTAAGCTCTATCGAGC-TGAACAGTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTAT-CGAGCTAAAACG
11870996 GTAAGCTC
1 GTAAGCTC
11871004 CAATGAGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.04
45 30 0.65
46 14 0.30
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (46 bp):
GTAAGCTCTATCGAGCTTAAACAGTAAGCTCTATCGAGCTAAAACG
Found at i:11871015 original size:23 final size:22
Alignment explanation
Indices: 11870891--11871016 Score: 92
Period size: 23 Copynumber: 5.5 Consensus size: 22
11870881 AAGCTCCTCC
* *
11870891 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACGGTAAGCTC-AA
* * *
11870916 TGATCTTAAACGGTAAGCTCTAT
1 TGAGCTGAAACGGTAAGCTC-AA
* *
11870939 TGAGCTAAAACGGTAAGCTCTA
1 TGAGCTGAAACGGTAAGCTCAA
*
11870961 TCGAGCTG-AACAGTAAGCTCATA
1 T-GAGCTGAAACGGTAAGCTCA-A
*
11870984 CGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAACGGTAAGCT-CAA
*
11871007 TGAGTTGAAA
1 TGAGCTGAAA
11871017 ATAGTAAGCT
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
22 18 0.22
23 57 0.69
24 2 0.02
25 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (22 bp):
TGAGCTGAAACGGTAAGCTCAA
Found at i:11872293 original size:138 final size:139
Alignment explanation
Indices: 11872044--11872332 Score: 519
Period size: 138 Copynumber: 2.1 Consensus size: 139
11872034 AATCATGGTC
*
11872044 AAATTTCAGTATAAGGACTTTTACTTTAATAATTCATAGCTATTTAATACATTTAAACAATAGAA
1 AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
*
11872109 CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACTGAATTAAGCATTTAAACGGTAAAATT
66 CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
*
11872174 TCTTAATGA
131 TCTTAACGA
* *
11872183 AAATTTTAGTATAAGGAC-TTTACTTTAATGATCCATAGCTATTTAATACATTTAAACAATAGAA
1 AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
11872247 CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
66 CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
11872312 TCTTAACGA
131 TCTTAACGA
11872321 AAATTTCA-TATA
1 AAATTTCAGTATA
11872333 GTTAATCTAT
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 4 0.03
138 123 0.85
139 17 0.12
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (139 bp):
AAATTTCAGTATAAGGACTTTTACTTTAATAATCCATAGCTATTTAATACATTTAAACAATAGAA
CTCAACTTTTACGCGTTATGCGATTTAGTTCTTTTTACCGAATTAAGCATTTAAACGGTAAAATT
TCTTAACGA
Found at i:11873601 original size:22 final size:21
Alignment explanation
Indices: 11873559--11873602 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11873549 TAAAAAATGT
* *
11873559 ATAAAATTATTAAATATTAAA
1 ATAAAATTATTAAAAAATAAA
*
11873580 ATAAATATTTTTAAAAAATAAA
1 ATAAA-ATTATTAAAAAATAAA
11873602 A
1 A
11873603 ATAATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATTATTAAAAAATAAA
Found at i:11873876 original size:84 final size:85
Alignment explanation
Indices: 11873768--11873947 Score: 231
Period size: 91 Copynumber: 2.1 Consensus size: 85
11873758 ATAAACATTT
*
11873768 TTTTCTTAAAAAAAATACTCTGGCATCATAAAATTTGTAACCCTT-A-AAAGTATCTAAAAATCA
1 TTTTCTTAAAAAAAATACTCTGGCACCATAAAATTTGTAACCCTTAATAAAGTATCTAAAAATCA
* *
11873831 ACGGTTAGAAATACTCACTC
66 AAGGTTAGAAATACGCACTC
*
11873851 TTTTCTTAAAAAATAATAC-CTTGGCACCCTAAAATTTGTAACCCTTAGATTTTTAAAGTATCTA
1 TTTTCTTAAAAAA-AATACTC-TGGCACCATAAAATTTGTAACCCTTA-A----TAAAGTATCTA
*
11873915 AAAATCAAAGGTTAGAAATACGCAGTC
59 AAAATCAAAGGTTAGAAATACGCACTC
11873942 TTTTCT
1 TTTTCT
11873948 CCACAAATAA
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
83 14 0.17
84 28 0.34
86 1 0.01
91 40 0.48
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (85 bp):
TTTTCTTAAAAAAAATACTCTGGCACCATAAAATTTGTAACCCTTAATAAAGTATCTAAAAATCA
AAGGTTAGAAATACGCACTC
Found at i:11880034 original size:42 final size:42
Alignment explanation
Indices: 11879984--11880098 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
11879974 CTTCATTTTC
** * *
11879984 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
11880027 T-GATGCCATAGCCCAACTATGGTGTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
11880068 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
11880099 GAATCACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:11880130 original size:46 final size:47
Alignment explanation
Indices: 11880069--11880188 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
11880059 ATTCATATAT
* * * *
11880069 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATAACTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
* * * * * *
11880115 TGATGCCATATCCCAGAAATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
11880162 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
11880189 TACGGAAATC
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
46 25 0.41
47 36 0.59
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACACAC
Found at i:11880252 original size:31 final size:31
Alignment explanation
Indices: 11880217--11880396 Score: 256
Period size: 31 Copynumber: 5.8 Consensus size: 31
11880207 CTTGTCACTT
* *
11880217 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
11880248 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
11880279 GTAGCC-AGAGCTAGCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
11880310 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
11880341 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
11880372 GTAGTTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
11880397 TGTCATTTGT
Statistics
Matches: 134, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.02
31 129 0.96
32 1 0.01
33 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11880476 original size:50 final size:51
Alignment explanation
Indices: 11880378--11880500 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
11880368 TCAGGTAGTT
* *
11880378 GAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
*
11880429 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCC
11880479 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
11880501 TGCCATGGTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
Found at i:11889090 original size:34 final size:34
Alignment explanation
Indices: 11889051--11889120 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
11889041 TCTTACATAC
11889051 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
11889085 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
1 TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
11889119 TG
1 TG
11889121 GTATTGCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.56
Consensus pattern (34 bp):
TGTTGTCTATATCTATGTTGTTTATTCTTGTGCG
Found at i:11897429 original size:50 final size:50
Alignment explanation
Indices: 11897372--11897475 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
11897362 TAACCACAAA
11897372 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
1 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
11897422 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
1 TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
11897472 TTTT
1 TTTT
11897476 CACTTCTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (50 bp):
TTTTATTCATACTAGTATTTATTTCACGATTTTCATAATTTAGCTACACT
Found at i:11898479 original size:11 final size:11
Alignment explanation
Indices: 11898450--11898493 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
11898440 ACTTAATCAT
11898450 TAATAAATATAA
1 TAATAAA-ATAA
*
11898462 AAATAAAATAA
1 TAATAAAATAA
*
11898473 TAGTAAAATAA
1 TAATAAAATAA
11898484 TAATAAAATA
1 TAATAAAATA
11898494 TTTTAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 22 0.79
12 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:11899215 original size:10 final size:10
Alignment explanation
Indices: 11899200--11899225 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11899190 TATAGGTTCG
11899200 AGTGCGCTAA
1 AGTGCGCTAA
11899210 AGTGCGCTAA
1 AGTGCGCTAA
11899220 AGTGCG
1 AGTGCG
11899226 TTATATTCTT
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:0.27, C:0.19, G:0.35, T:0.19
Consensus pattern (10 bp):
AGTGCGCTAA
Found at i:11911242 original size:16 final size:16
Alignment explanation
Indices: 11911221--11911252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11911211 ACTTGGTTTG
*
11911221 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
11911237 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
11911253 TAATTTAAAT
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:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:11930575 original size:18 final size:19
Alignment explanation
Indices: 11930528--11930577 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
11930518 CGATCAAATG
*
11930528 TTCAGTAACAATT-AGTTA
1 TTCAGTAACAGTTGAGTTA
*
11930546 TTCAGTATCAGTTGA-TTA
1 TTCAGTAACAGTTGAGTTA
11930564 TTCAGTAACAGTTG
1 TTCAGTAACAGTTG
11930578 GTATCATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (19 bp):
TTCAGTAACAGTTGAGTTA
Found at i:11930712 original size:6 final size:6
Alignment explanation
Indices: 11930701--11930732 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11930691 AGTCAAAAAA
*
11930701 TAACAG TAACAG TGACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
11930733 CGGTACAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:11931949 original size:16 final size:17
Alignment explanation
Indices: 11931911--11932003 Score: 63
Period size: 16 Copynumber: 5.7 Consensus size: 17
11931901 TACACTTGTC
*
11931911 ATAAT-TAAATTTATTT
1 ATAATATAAATATATTT
*
11931927 ATTATATAAATAT-TTT
1 ATAATATAAATATATTT
*
11931943 ATAATAT-AAT-TACTT
1 ATAATATAAATATATTT
* *
11931958 A-ATTAATAAATATCTTT
1 ATAAT-ATAAATATATTT
* *
11931975 AATAATAAAAATATATTA
1 -ATAATATAAATATATTT
11931993 ATAAT-TAAATA
1 ATAATATAAATA
11932004 CATGTATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 21 0.36
17 14 0.24
18 10 0.17
19 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAAATATATTT
Found at i:11931980 original size:20 final size:18
Alignment explanation
Indices: 11931957--11932001 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
11931947 TATAATTACT
*
11931957 TAATTAATAAATATCTTTAA
1 TAATTAA-AAATAT-ATTAA
11931977 TAA-TAAAAATATATTAA
1 TAATTAAAAATATATTAA
11931994 TAATTAAA
1 TAATTAAA
11932002 TACATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 3 0.13
20 3 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAAAATATATTAA
Found at i:11934156 original size:20 final size:19
Alignment explanation
Indices: 11934127--11934177 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
11934117 ATATTTTATG
11934127 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATTAGATAT-T
*
11934146 ATTATTTTAATGAGATATT
1 ATTATTTTAATTAGATATT
11934165 -TTATTATTAATTA
1 ATTATT-TTAATTA
11934178 TTTAGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 11 0.39
20 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
ATTATTTTAATTAGATATT
Found at i:11936367 original size:46 final size:46
Alignment explanation
Indices: 11936319--11936592 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
11936309 GCTCTTTGAT
* * * *
11936319 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
11936365 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11936411 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
11936457 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
11936503 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
11936549 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11936593 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:11936472 original size:92 final size:92
Alignment explanation
Indices: 11936315--11936587 Score: 393
Period size: 92 Copynumber: 3.0 Consensus size: 92
11936305 GTGTGCTCTT
* * * *
11936315 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATGAGTAAGA
11936380 CCATGGTTGAAAGATACCATGGCAGCC
66 CCATGGTTGAAAGATACCATGGCAGCC
* * * * *
11936407 TGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATGAGTAAGA
*
11936472 CCATGGTTGAAAGATACCATGGCAGCG
66 CCATGGTTGAAAGATACCATGGCAGCC
* ** *
11936499 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATGAGTAAGA
* * *
11936564 CCATAGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
11936588 TCATGTCAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 159 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAGCC
Found at i:11936573 original size:138 final size:138
Alignment explanation
Indices: 11936329--11936592 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 138
11936319 ATGAAATGTG
* **
11936329 TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * * *
11936394 TACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGACAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
11936459 GAAATAAA
131 GAAATAAA
* * *
11936467 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
11936532 TACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGACAACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATG
11936593 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 108 0.99
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGACAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGACAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATAAA
Found at i:11938684 original size:30 final size:30
Alignment explanation
Indices: 11938626--11938684 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
11938616 ATTTTTGGGC
* * **
11938626 CTAGGGGTAAAATAGTTATTTTGTCAAAGT
1 CTAGGGGCAAAATAGTCATTTTACCAAAGT
*
11938656 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATAGTCATTTTACCAAAG
11938685 ATATAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATAGTCATTTTACCAAAGT
Found at i:11939138 original size:46 final size:43
Alignment explanation
Indices: 11939087--11939209 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 43
11939077 GACAAGTGTT
*
11939087 AGTGTAAGACATGTCTAGGACATGTATCGGCCT-CGAG-TCGTAAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCGG-CTACGAGAT-GT--GCC
* *
11939133 AGTGTAAAACATGTCTGAGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTG-GACATGCATCGGCTACGAGATGTGCC
11939177 AGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCT-GGACAT-GCATCGGC
11939210 ACAGATATGC
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
44 10 0.15
45 15 0.22
46 41 0.61
47 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCTACGAGATGTGCC
Found at i:11949947 original size:20 final size:20
Alignment explanation
Indices: 11949911--11949950 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11949901 TTGAAATGCT
*
11949911 AATAGAGGCACCGAAGTGCA
1 AATAGAGGCACCAAAGTGCA
*
11949931 AATAGAGGCACTAAAGTGCA
1 AATAGAGGCACCAAAGTGCA
11949951 CTCCCATACA
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:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (20 bp):
AATAGAGGCACCAAAGTGCA
Found at i:11963703 original size:104 final size:103
Alignment explanation
Indices: 11963531--11963741 Score: 352
Period size: 104 Copynumber: 2.0 Consensus size: 103
11963521 GGGTTGCTGT
* *
11963531 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
11963596 GGGGGTTGCTATGTGCTGATTCCCCCGAGGAGTTGCTAA
66 -GGGGTTGCTATGTGCTGATTCCCCCGAGGAGTTGCTAA
* *
11963635 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAA
*
11963699 AGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AGGGGTTGCTATGTGCTGATTCCCCCGAGGAGTTGCTAA
11963738 GTGC
1 GTGC
11963742 GATATCCATT
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
103 41 0.41
104 59 0.58
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
GGGGTTGCTATGTGCTGATTCCCCCGAGGAGTTGCTAA
Found at i:11963761 original size:71 final size:71
Alignment explanation
Indices: 11963661--11963811 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
11963651 TCATTGGTGG
* *
11963661 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
11963725 GAGGGGT
65 GAGGGGT
***
11963732 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
11963797 AGGGGT
66 AGGGGT
11963803 TGCTAAGTG
1 TGCTAAGTG
11963812 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 3 0.04
71 71 0.96
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:11968302 original size:11 final size:11
Alignment explanation
Indices: 11968286--11968325 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11968276 GTGGTGTTTG
*
11968286 GATATGAATTT
1 GATATGTATTT
11968297 GATATGTATTT
1 GATATGTATTT
*
11968308 GGTATGTATTT
1 GATATGTATTT
*
11968319 GGTATGT
1 GATATGT
11968326 TTGTAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GATATGTATTT
Found at i:11968318 original size:22 final size:23
Alignment explanation
Indices: 11968282--11968325 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11968272 CTTGGTGGTG
11968282 TTTGGATATGAATTTGATATGTA
1 TTTGGATATGAATTTGATATGTA
* *
11968305 TTTGG-TATGTATTTGGTATGT
1 TTTGGATATGAATTTGATATGT
11968326 TTGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (23 bp):
TTTGGATATGAATTTGATATGTA
Found at i:11971250 original size:138 final size:138
Alignment explanation
Indices: 11970996--11971364 Score: 432
Period size: 138 Copynumber: 2.8 Consensus size: 138
11970986 ATGAAATGTG
* *
11970996 TAAGACCATGGTTGAAAGATACCATGGCAAC----CTG----TGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
* * * *
11971053 TACCATGGCAACCT-A-TG----TG--TAAGACCATGGTTGAAAGATATCATGGAAACCTGATAT
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGACAT
* **
11971110 GAAATGTG
131 GAAAAGAA
* * * *
11971118 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATGGTTGAAAG
* * *
11971182 ATACCATGGCAACGTGACATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
65 ATACCATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGAC
11971246 ATGAAAAGAA
129 ATGAAAAGAA
11971256 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
* *
11971321 TACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAA
66 TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAA
11971365 AACACTATGG
Statistics
Matches: 210, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
122 31 0.15
127 1 0.00
130 36 0.17
131 1 0.00
133 1 0.00
136 1 0.00
137 6 0.03
138 133 0.63
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGACAT
GAAAAGAA
Found at i:11971376 original size:46 final size:47
Alignment explanation
Indices: 11971071--11971364 Score: 420
Period size: 46 Copynumber: 6.4 Consensus size: 47
11971061 CAACCTATGT
* * * * *
11971071 GTAAGACCATGGTTGAAAGATATCATGGAAACCTGATATG-AAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
* * * *
11971117 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11971163 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
* *
11971209 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11971255 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
11971301 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
*
11971347 GTAAGACCATAGTTGAAA
1 GTAAGACCATGGTTGAAA
11971365 AACACTATGG
Statistics
Matches: 235, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 5 0.02
46 228 0.97
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA
Found at i:11971682 original size:23 final size:25
Alignment explanation
Indices: 11971637--11971683 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11971627 AATAAATATA
*
11971637 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
11971662 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
11971684 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Done.