Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 64 of 144
Found at i:13739339 original size:26 final size:28
Alignment explanation
Indices: 13739310--13739369 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
13739300 AAAGATGACT
13739310 ATATAAAAAATT-TT-AATAAATAAAA-A
1 ATATAAAAAATTATTAAAT-AATAAAATA
* *
13739336 ATATATAAAATTATTAAATATTAAAATA
1 ATATAAAAAATTATTAAATAATAAAATA
13739364 ATATAA
1 ATATAA
13739370 TATAAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.39
27 8 0.29
28 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAAAATTATTAAATAATAAAATA
Found at i:13741188 original size:22 final size:21
Alignment explanation
Indices: 13741143--13741195 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
13741133 AATTTTTTTG
13741143 AAAATAATT-AATTAAATCAT
1 AAAATAATTAAATTAAATCAT
* *
13741163 AAAATTAATTAAATTTAATACAA
1 AAAA-TAATTAAATTAAAT-CAT
13741186 AAAATAATTA
1 AAAATAATTA
13741196 TTTTATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 13 0.46
23 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATTAAATTAAATCAT
Found at i:13755232 original size:15 final size:15
Alignment explanation
Indices: 13755212--13755240 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13755202 AATACCTGAC
13755212 CCAAGTGGCGGCACA
1 CCAAGTGGCGGCACA
13755227 CCAAGTGGCGGCAC
1 CCAAGTGGCGGCAC
13755241 CCATTGAGAG
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:0.24, C:0.34, G:0.34, T:0.07
Consensus pattern (15 bp):
CCAAGTGGCGGCACA
Found at i:13755385 original size:31 final size:30
Alignment explanation
Indices: 13755350--13755413 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
13755340 GTTTTTGTTT
13755350 TTTACCAAAATAAAATATA-AAAAAATATTTA
1 TTTACCAAAAT--AATATACAAAAAATATTTA
* *
13755381 TTTACTAAAATAATATACAAAAATTATTTA
1 TTTACCAAAATAATATACAAAAAATATTTA
13755411 TTT
1 TTT
13755414 TATTTGACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 14 0.47
31 10 0.33
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTACCAAAATAATATACAAAAAATATTTA
Found at i:13755431 original size:36 final size:36
Alignment explanation
Indices: 13755377--13755450 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
13755367 TAAAAAAATA
* *
13755377 TTTATTTACTAAAATAATA-TACAAAAATTATTTAT
1 TTTATTTACTAAAATAATATTAAAAAAATTATTAAT
*
13755412 TTTATTTGACTAAAGTAATATTAAAAAAATTATTAAT
1 TTTATTT-ACTAAAATAATATTAAAAAAATTATTAAT
13755449 TT
1 TT
13755451 AATAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
36 11 0.32
37 16 0.47
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (36 bp):
TTTATTTACTAAAATAATATTAAAAAAATTATTAAT
Found at i:13755725 original size:22 final size:22
Alignment explanation
Indices: 13755697--13755739 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13755687 GTGAAAAAAA
13755697 AACAAA-GAGAAACAAGAAGAAG
1 AACAAAGGAGAAA-AAGAAGAAG
*
13755719 AACAAAGGAGAAAAAGGAGAA
1 AACAAAGGAGAAAAAGAAGAA
13755740 AAAGAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.67, C:0.07, G:0.26, T:0.00
Consensus pattern (22 bp):
AACAAAGGAGAAAAAGAAGAAG
Found at i:13756279 original size:24 final size:24
Alignment explanation
Indices: 13756252--13756298 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
13756242 TGTGGAACTT
13756252 GTAGAAAATGAAGATCCAACTCCA
1 GTAGAAAATGAAGATCCAACTCCA
13756276 GTAGAAAATGAAGATCCAACTCC
1 GTAGAAAATGAAGATCCAACTCC
13756299 GTGTAAGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (24 bp):
GTAGAAAATGAAGATCCAACTCCA
Found at i:13758728 original size:20 final size:21
Alignment explanation
Indices: 13758705--13758743 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13758695 AAGGTTGTGA
*
13758705 AATTGA-GGTTAATGGTTTCT
1 AATTGAGGGTTAAGGGTTTCT
*
13758725 AATTTAGGGTTAAGGGTTT
1 AATTGAGGGTTAAGGGTTT
13758744 AGGGTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.44
Consensus pattern (21 bp):
AATTGAGGGTTAAGGGTTTCT
Found at i:13758744 original size:14 final size:14
Alignment explanation
Indices: 13758727--13758780 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
13758717 TGGTTTCTAA
* *
13758727 TTTAGGGTTAAGGG
1 TTTAGGGTTTATGG
13758741 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
13758755 TTTATGGTTTATGA
1 TTTAGGGTTTATGG
13758769 TTTAGGGTTTAT
1 TTTAGGGTTTAT
13758781 AGGTGTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:13758750 original size:7 final size:7
Alignment explanation
Indices: 13758727--13758779 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
13758717 TGGTTTCTAA
13758727 TTTAGGG
1 TTTAGGG
*
13758734 TTAAGGG
1 TTTAGGG
13758741 TTTAGGG
1 TTTAGGG
*
13758748 TTTATGG
1 TTTAGGG
*
13758755 TTTATGG
1 TTTAGGG
* *
13758762 TTTATGA
1 TTTAGGG
13758769 TTTAGGG
1 TTTAGGG
13758776 TTTA
1 TTTA
13758780 TAGGTGTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:13758780 original size:21 final size:21
Alignment explanation
Indices: 13758711--13758777 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
13758701 GTGAAATTGA
* *
13758711 GGTTAATGGTTTCTAATTTAG
1 GGTTAATGGTTTATGATTTAG
* * * *
13758732 GGTTAAGGGTTTAGGGTTTAT
1 GGTTAATGGTTTATGATTTAG
*
13758753 GGTTTATGGTTTATGATTTAG
1 GGTTAATGGTTTATGATTTAG
13758774 GGTT
1 GGTT
13758778 TATAGGTGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.48
Consensus pattern (21 bp):
GGTTAATGGTTTATGATTTAG
Found at i:13759237 original size:6 final size:6
Alignment explanation
Indices: 13759196--13759235 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
13759186 CATCCAATAC
* * *
13759196 CTCTTC CTCTTC CTCTTG CTCTTG CTCTTG CTCTGG CTCT
1 CTCTTG CTCTTG CTCTTG CTCTTG CTCTTG CTCTTG CTCT
13759236 GGGGCATGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.40, G:0.12, T:0.47
Consensus pattern (6 bp):
CTCTTG
Found at i:13761089 original size:16 final size:16
Alignment explanation
Indices: 13761068--13761116 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
13761058 GGATGGAGAT
13761068 ATTATTTTGGTAATTA
1 ATTATTTTGGTAATTA
*
13761084 ATTATTTT-TTATATT-
1 ATTATTTTGGTA-ATTA
13761099 A-TATTTTGGTAATTA
1 ATTATTTTGGTAATTA
13761114 ATT
1 ATT
13761117 TAGAGTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 9 0.33
15 6 0.22
16 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTATTTTGGTAATTA
Found at i:13764660 original size:23 final size:23
Alignment explanation
Indices: 13764633--13764724 Score: 123
Period size: 23 Copynumber: 4.0 Consensus size: 23
13764623 GCTCTCTATT
*
13764633 ATTAGCA-TTGTGTGTGTTCTCTG
1 ATTAGCACTT-TGTGTGCTCTCTG
*
13764656 ATTAGCACTTTGTGTGCTCTTTG
1 ATTAGCACTTTGTGTGCTCTCTG
13764679 ATTAGCACTTTGTGTGCTCTCTG
1 ATTAGCACTTTGTGTGCTCTCTG
* **
13764702 TTTAGCACAGTGTGTGCTCTCTG
1 ATTAGCACTTTGTGTGCTCTCTG
13764725 TTGCCCAGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
23 60 0.97
24 2 0.03
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (23 bp):
ATTAGCACTTTGTGTGCTCTCTG
Found at i:13769882 original size:49 final size:50
Alignment explanation
Indices: 13769739--13769889 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 50
13769729 ATATTATGAT
13769739 TTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATGTTATTAAATTATATATTA
1 TTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAA---TA-T-AATTA-A-ATTA
* *
13769798 TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATTA
1 TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTA
*
13769848 -TTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
13769890 AATAATAATC
Statistics
Matches: 85, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
49 37 0.44
50 5 0.06
51 1 0.01
52 5 0.06
53 1 0.01
54 2 0.02
57 4 0.05
58 17 0.20
59 9 0.11
60 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (50 bp):
TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTA
Found at i:13776545 original size:20 final size:21
Alignment explanation
Indices: 13776522--13776574 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
13776512 AACAATGACC
*
13776522 AAAAATTGCAAACAATGGTAA
1 AAAAATAGCAAACAATGGTAA
* ***
13776543 AAAAATGGCAAATGTTGGT-A
1 AAAAATAGCAAACAATGGTAA
13776563 AAAAATAGCAAA
1 AAAAATAGCAAA
13776575 TATTAATCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.19
Consensus pattern (21 bp):
AAAAATAGCAAACAATGGTAA
Found at i:13776575 original size:20 final size:21
Alignment explanation
Indices: 13776537--13776575 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13776527 TTGCAAACAA
*
13776537 TGGTAAAAAAATGGCAAATGT
1 TGGTAAAAAAATAGCAAATGT
13776558 TGGT-AAAAAATAGCAAAT
1 TGGTAAAAAAATAGCAAAT
13776576 ATTAATCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (21 bp):
TGGTAAAAAAATAGCAAATGT
Found at i:13779621 original size:94 final size:94
Alignment explanation
Indices: 13779446--13779851 Score: 494
Period size: 94 Copynumber: 4.4 Consensus size: 94
13779436 TTTGTATATT
* * * * * *
13779446 CTCGTCAGCTTAGTGTGAGCAGCATTGT-TA-GAG-AATAGTTATATGTATACATACCGTATTAA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCGTATCAA
* *
13779508 TGGCTGAGGTACCGCATATGTTGTGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* * *
13779537 CTCGTCAGCTTAGTGTAAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCATATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCGTATCAA
* * * *
13779602 TAGTTAAGGTACCATATATGTTGCGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* * * *
13779631 CTGGTTAGCTTAGTGTGAGCAACATCGTATACTAGTAACAGTTATATGTACATATACCGTATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCGTATCAA
*
13779696 TGGCTGAGGTACCATATATGTTGCGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* * * * *
13779725 CTGGTTAGCTTAGTGTGAGCAGCATCGTATACTAGTAAAAGTTAAATGTACAGATACCGTATCAA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCGTATCAA
* * * *
13779790 TGGTTGAGATACTACATATGTTGTGAGTC
66 TGGCTGAGGTACCACATATGTTGCGAGTC
* * * *
13779819 CTCATCAGCTTAGTATGAACAGCACCGTATACT
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACT
13779852 GGCAACAAAG
Statistics
Matches: 273, Mismatches: 39, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
91 26 0.10
92 2 0.01
93 2 0.01
94 243 0.89
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (94 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACATATACCGTATCAA
TGGCTGAGGTACCACATATGTTGCGAGTC
Found at i:13780600 original size:21 final size:21
Alignment explanation
Indices: 13780576--13780631 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
13780566 CTGCAGTTTG
*
13780576 TTGTATTAGTAGAAGTAATAA
1 TTGTATCAGTAGAAGTAATAA
* * *
13780597 TTGTATCAGTAGTAGTCATAC
1 TTGTATCAGTAGAAGTAATAA
13780618 TTGTATCAGTAGAA
1 TTGTATCAGTAGAA
13780632 CCTTCCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTATCAGTAGAAGTAATAA
Found at i:13791102 original size:4 final size:4
Alignment explanation
Indices: 13791093--13791143 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
13791083 TAAAATTAAG
* * *
13791093 AAAT AAAT AAAT AAAT AAAT AAAA ATAAT AAAT AAAT GAA- AATT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
13791141 AAA
1 AAA
13791144 AGACAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 1 0.03
4 35 0.90
5 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:13791102 original size:17 final size:16
Alignment explanation
Indices: 13791082--13791139 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
13791072 ATGAAAAGAC
13791082 ATAAAATTAAGAAATAA
1 ATAAAATTAA-AAATAA
13791099 AT-AAA-T--AAATAA
1 ATAAAATTAAAAATAA
*
13791111 ATAAAAATAATAAATAA
1 ATAAAATTAA-AAATAA
13791128 ATGAAAATTAAA
1 AT-AAAATTAAA
13791140 TAAAAGACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 1 0.03
15 1 0.03
16 3 0.09
17 11 0.32
18 7 0.21
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:13791114 original size:29 final size:28
Alignment explanation
Indices: 13791082--13791144 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
13791072 ATGAAAAGAC
*
13791082 ATAAAATTAAGAAATAAATAAATAAATAA
1 ATAAAAATAAGAAATAAATAAA-AAATAA
* * *
13791111 ATAAAAATAATAAATAAATGAAAATTAA
1 ATAAAAATAAGAAATAAATAAAAAATAA
13791139 ATAAAA
1 ATAAAA
13791145 GACAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (28 bp):
ATAAAAATAAGAAATAAATAAAAAATAA
Found at i:13791166 original size:18 final size:17
Alignment explanation
Indices: 13791141--13791174 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13791131 AAAATTAAAT
13791141 AAAAGACAAAAAAATAC
1 AAAAGACAAAAAAATAC
*
13791158 AAAATGACATAAAAATA
1 AAAA-GACAAAAAAATA
13791175 ACAACACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAGACAAAAAAATAC
Found at i:13792615 original size:12 final size:11
Alignment explanation
Indices: 13792592--13792631 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13792582 ACCTTGAAAC
*
13792592 TATTTGGGTTT
1 TATTTTGGTTT
13792603 TATTTTGGCTTT
1 TATTTTGG-TTT
13792615 TGATTTTGGTTT
1 T-ATTTTGGTTT
13792627 TATTT
1 TATTT
13792632 ATTATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 11 0.42
12 8 0.31
13 7 0.27
ACGTcount: A:0.10, C:0.03, G:0.20, T:0.68
Consensus pattern (11 bp):
TATTTTGGTTT
Found at i:13799100 original size:13 final size:13
Alignment explanation
Indices: 13799078--13799109 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
13799068 TTTATAGCAG
13799078 TTTT-TCTTTTTC
1 TTTTCTCTTTTTC
13799090 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
13799103 TTTTCTC
1 TTTTCTC
13799110 ATTCAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:13815764 original size:42 final size:42
Alignment explanation
Indices: 13815701--13815793 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
13815691 TTAAATCAGT
*
13815701 TGTGCATGAGTGTGTTTATAAACTGGAAAGATAATAATTGTA
1 TGTGCATGAGTGTGTTTATAAACTGGAAAAATAATAATTGTA
13815743 TGTGCATGAGTGT-TTTAATAAACTGGAAAAATAATAATTGTA
1 TGTGCATGAGTGTGTTT-ATAAACTGGAAAAATAATAATTGTA
*
13815785 TATGCATGA
1 TGTGCATGA
13815794 ATGATTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 3 0.06
42 45 0.94
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (42 bp):
TGTGCATGAGTGTGTTTATAAACTGGAAAAATAATAATTGTA
Found at i:13819898 original size:20 final size:20
Alignment explanation
Indices: 13819875--13819939 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
13819865 TGCCTATGTA
*
13819875 TGCACTCCAATGCCCCTGTT
1 TGCACTCCAGTGCCCCTGTT
* * *
13819895 TGCACACCTGTGCCCATGTT
1 TGCACTCCAGTGCCCCTGTT
*
13819915 TGCACT-CAGGTGCCCCTATT
1 TGCACTCCA-GTGCCCCTGTT
13819935 TGCAC
1 TGCAC
13819940 ATTTGTGTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.15, C:0.37, G:0.18, T:0.29
Consensus pattern (20 bp):
TGCACTCCAGTGCCCCTGTT
Found at i:13819930 original size:40 final size:39
Alignment explanation
Indices: 13819865--13820000 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 39
13819855 ATGAAAAAAA
* * **
13819865 TGCCTATGTATGCACTCCAATGCCCCTGTTTGCACACCTG
1 TGCCCATGTTTGCACT-CAATGCCCCTGTTTGCACATATG
* * *
13819905 TGCCCATGTTTGCACTCAGGTGCCCCTATTTGCACATTTG
1 TGCCCATGTTTGCACTCA-ATGCCCCTGTTTGCACATATG
* * *
13819945 TGTCCATGTTTGCACTTCAATGCCTCTGATTGCACATATG
1 TGCCCATGTTTGCAC-TCAATGCCCCTGTTTGCACATATG
*
13819985 TGCCCTTGTTTGCACT
1 TGCCCATGTTTGCACT
13820001 TTGGTGCCAC
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 74 0.93
41 3 0.04
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.35
Consensus pattern (39 bp):
TGCCCATGTTTGCACTCAATGCCCCTGTTTGCACATATG
Found at i:13819997 original size:20 final size:20
Alignment explanation
Indices: 13819885--13819999 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 20
13819875 TGCACTCCAA
* **
13819885 TGCCCCTGTTTGCACACCTG
1 TGCCCATGTTTGCACATATG
*
13819905 TGCCCATGTTTGCAC-TCAGG
1 TGCCCATGTTTGCACAT-ATG
* * *
13819925 TGCCCCTATTTGCACATTTG
1 TGCCCATGTTTGCACATATG
* * *
13819945 TGTCCATGTTTGCACTTCA-A
1 TGCCCATGTTTGCACAT-ATG
*
13819965 TGCCTC-TGATTGCACATATG
1 TGCC-CATGTTTGCACATATG
*
13819985 TGCCCTTGTTTGCAC
1 TGCCCATGTTTGCAC
13820000 TTTGGTGCCA
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.03
20 66 0.94
21 2 0.03
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
TGCCCATGTTTGCACATATG
Found at i:13820347 original size:21 final size:20
Alignment explanation
Indices: 13820321--13820360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13820311 TAGCAAATGA
*
13820321 TTTTAAAACTATTAAAATTAT
1 TTTTAAAAATA-TAAAATTAT
13820342 TTTTAAAAATATAAAATTA
1 TTTTAAAAATATAAAATTA
13820361 GTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAAATATAAAATTAT
Found at i:13820395 original size:51 final size:50
Alignment explanation
Indices: 13820315--13820417 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 50
13820305 CCACATTAGC
13820315 AAATGATTTTAAAACTATTAAAATTATTTTTAAAAATATAAAATTAGTAA
1 AAATGATTTTAAAACTATTAAAATTATTTTTAAAAATATAAAATTAGTAA
* * * *
13820365 AAAT-ATTTTAAAATTAATTTAGAATTATTTTTTAAAATATAAAATTATTAA
1 AAATGATTTTAAAACT-A-TTAAAATTATTTTTAAAAATATAAAATTAGTAA
13820416 AA
1 AA
13820418 TATCATCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
49 10 0.21
50 5 0.11
51 32 0.68
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (50 bp):
AAATGATTTTAAAACTATTAAAATTATTTTTAAAAATATAAAATTAGTAA
Found at i:13821231 original size:28 final size:25
Alignment explanation
Indices: 13821180--13821230 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13821170 CAGACAGAAA
13821180 AACCCAGAAGAACAGGATGATGATG
1 AACCCAGAAGAACAGGATGATGATG
13821205 AACCCAGAAGAACAGGATGATGATG
1 AACCCAGAAGAACAGGATGATGATG
13821230 A
1 A
13821231 TTAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.27, T:0.12
Consensus pattern (25 bp):
AACCCAGAAGAACAGGATGATGATG
Found at i:13821273 original size:29 final size:30
Alignment explanation
Indices: 13821241--13821320 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
13821231 TTAAAATATT
*
13821241 AAAATAATTTTGATAATTTTATA-TTTTAA
1 AAAATAATTTTAATAATTTTATATTTTTAA
* *
13821270 AAAATAATTTTCATAATTTTATATTTTTTA
1 AAAATAATTTTAATAATTTTATATTTTTAA
13821300 AAAATAATTTTAATAATTTTA
1 AAAATAATTTTAATAATTTTA
13821321 AAACCATTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
AAAATAATTTTAATAATTTTATATTTTTAA
Found at i:13821319 original size:21 final size:21
Alignment explanation
Indices: 13821282--13821323 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13821272 AATAATTTTC
*
13821282 ATAATTTTATATTTTTTAAAA
1 ATAATTTTATATATTTTAAAA
13821303 ATAATTTTA-ATAATTTTAAAA
1 ATAATTTTATAT-ATTTTAAAA
13821324 CCATTTGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAATTTTATATATTTTAAAA
Found at i:13842677 original size:18 final size:18
Alignment explanation
Indices: 13842642--13842680 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13842632 ACAAAATTAC
*
13842642 CGACACAACTACTGATGT
1 CGACACAACAACTGATGT
13842660 CGACACAACCAACT-ATGT
1 CGACACAA-CAACTGATGT
13842678 CGA
1 CGA
13842681 GGCAACCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (18 bp):
CGACACAACAACTGATGT
Found at i:13848992 original size:20 final size:20
Alignment explanation
Indices: 13848967--13849019 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
13848957 TATTCTTTTC
13848967 TTTCTTTCTTTTTATCAACT
1 TTTCTTTCTTTTTATCAACT
13848987 TTTCTTTCTTTTTATCAACT
1 TTTCTTTCTTTTTATCAACT
13849007 TTTCTTTCTTTTT
1 TTTCTTTCTTTTT
13849020 CTCTTTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCTTTCTTTTTATCAACT
Found at i:13848993 original size:24 final size:24
Alignment explanation
Indices: 13848961--13849017 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 24
13848951 TATATATATT
13848961 CTTTTCTTTCTTTCTTTTTATCAA
1 CTTTTCTTTCTTTCTTTTTATCAA
13848985 C---T-TTTCTTTCTTTTTATCAA
1 CTTTTCTTTCTTTCTTTTTATCAA
13849005 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
13849018 TTCTCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 19 0.66
21 1 0.03
23 1 0.03
24 8 0.28
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (24 bp):
CTTTTCTTTCTTTCTTTTTATCAA
Found at i:13849639 original size:16 final size:18
Alignment explanation
Indices: 13849613--13849645 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13849603 GCATATACGA
13849613 AAACAAAT-AAAATGCAG
1 AAACAAATAAAAATGCAG
13849630 AAAC-AATAAAAATGCA
1 AAACAAATAAAAATGCA
13849646 ATGGCAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (18 bp):
AAACAAATAAAAATGCAG
Found at i:13861169 original size:21 final size:21
Alignment explanation
Indices: 13861119--13861171 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
13861109 AATAGTGTAG
*
13861119 AATTCTACCGATACCTATGAT
1 AATTCTACCGATACCTATGAA
*
13861140 AGTTCTACCGATA-CTAGTGAA
1 AATTCTACCGATACCTA-TGAA
*
13861161 AATTTTACCGA
1 AATTCTACCGA
13861172 AACAAATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (21 bp):
AATTCTACCGATACCTATGAA
Found at i:13862020 original size:52 final size:52
Alignment explanation
Indices: 13861932--13862164 Score: 371
Period size: 52 Copynumber: 4.5 Consensus size: 52
13861922 TTCTCATTTA
* * *
13861932 ATACTCACGATGACATATTA-TCATC-AGACCTCATAATCTGAAAAGGATTCAT
1 ATACTCACGATGACACA-TAGTCATCGA-ACCTTATAATCTGTAAAGGATTCAT
*
13861984 ATACTCACGATGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCTGTAAAGGATTCAT
13862036 ATACTCACGATGACACATAGTCATCGAACCTTATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCTGTAAAGGATTCAT
* * *
13862088 TTACTCATGATGACACATAGTCATCGGACCTTATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGAACCTTATAATCTGTAAAGGATTCAT
13862140 ATACTCACGATGACACATAGTCATC
1 ATACTCACGATGACACATAGTCATC
13862165 AGACCTTTTG
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
51 2 0.01
52 166 0.98
53 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGAACCTTATAATCTGTAAAGGATTCAT
Found at i:13867556 original size:12 final size:12
Alignment explanation
Indices: 13867541--13867581 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
13867531 TCAAGACGAG
13867541 GAAGAGAAAGAA
1 GAAGAGAAAGAA
13867553 GAAGAGAAAGAA
1 GAAGAGAAAGAA
13867565 GAAGAGAAAGAA
1 GAAGAGAAAGAA
13867577 GAAGA
1 GAAGA
13867582 AGAACCTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
GAAGAGAAAGAA
Found at i:13876193 original size:12 final size:12
Alignment explanation
Indices: 13876176--13876209 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13876166 GAATTGAGTT
13876176 AGTTTTTATTTC
1 AGTTTTTATTTC
*
13876188 AGTTTTTTATTTT
1 AG-TTTTTATTTC
13876201 AGTTTTTAT
1 AGTTTTTAT
13876210 GCATATCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (12 bp):
AGTTTTTATTTC
Found at i:13876196 original size:13 final size:13
Alignment explanation
Indices: 13876178--13876207 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13876168 ATTGAGTTAG
13876178 TTTTTATTTCAGT
1 TTTTTATTTCAGT
*
13876191 TTTTTATTTTAGT
1 TTTTTATTTCAGT
13876204 TTTT
1 TTTT
13876208 ATGCATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTATTTCAGT
Found at i:13893952 original size:2 final size:2
Alignment explanation
Indices: 13893945--13893992 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
13893935 TTAGTGTTTA
13893945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13893987 AT AT AT
1 AT AT AT
13893993 TTGTATTATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13895692 original size:23 final size:21
Alignment explanation
Indices: 13895641--13895699 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
13895631 ATAGAAATTA
13895641 TCAT-TTTGTTTTATATTTTC
1 TCATATTTGTTTTATATTTTC
* *
13895661 TCATCTTTGTTCTTATCATTTTT
1 TCATATTTGTT-TTAT-ATTTTC
*
13895684 TTATATTTGTTATTAT
1 TCATATTTGTT-TTAT
13895700 TGCAATCTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 6 0.19
22 4 0.12
23 18 0.56
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (21 bp):
TCATATTTGTTTTATATTTTC
Found at i:13906579 original size:58 final size:58
Alignment explanation
Indices: 13906508--13906635 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 58
13906498 CATTTCCAAG
* *
13906508 TCATTT-TTCATTTTCATTTTTATTTTGGAGAAAACCACAT-TCATTTCCAAATGTTTCC
1 TCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACATGT-ATTTCCAAATG-TTCC
*
13906566 -CATTTCTCCATTTTCATTTTCGTTTTGGAGAAAACCACATGTATTTCCAAATGTTCC
1 TCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACATGTATTTCCAAATGTTCC
*
13906623 TCATTTTTCCATT
1 TCATTTCTCCATT
13906636 ATCACCATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
57 9 0.14
58 53 0.84
59 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (58 bp):
TCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACATGTATTTCCAAATGTTCC
Found at i:13907908 original size:204 final size:209
Alignment explanation
Indices: 13907627--13908168 Score: 638
Period size: 204 Copynumber: 2.6 Consensus size: 209
13907617 CTTATCGATT
* * * * *
13907627 TTAAGTAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCACACCCAACACGTTAGGGCA-CAA
1 TTAA-TAGGATATTCGATTATTTAGGTTCGAAG-AAAAATCATACCCAACACGTTAGGGCACCAC
* * * * *
13907691 TCTCTCAAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTAAGACAACTTATGTATTTTGAAA
64 T-TTTCGAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTAAAACAATTTATGTATTTTAAAA
* *
13907756 AACGATATACATTTTATTTCGTTAAAAATGTTTTACAAAAGTTGGATAAATCC-ATGTAATTTAT
128 AACGATATACATTTTATTTCGTTAAAAATGTTTTACAAAAGATGGATAAA-CCGATGTAATTCAT
*
13907820 -ACATAAAAATGG-T-GA-
192 GA-ATAAAAATGGATCAAG
* *
13907835 TT-AT-TGATATTCGATTATTTAGGTTCGAAGAAAAATCATACTCAACACGTTAGGGCACCACTT
1 TTAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCATACCCAACACGTTAGGGCACCACTT
* *
13907898 TTCGAATTCCCTAAAATAAAAGAACATTGCTTTTATTTTTAAAACAATTTATGCA-TTTAAAAAA
66 TTCGAATTCCCTAAAATAAAAGAACATTGCCTTTA-TTTTAAAACAATTTATGTATTTTAAAAAA
* * *
13907962 CGATATACATTTTATTTTGTTAAAAATGTTTTGCAAAAGATGGATAAACCGATGTAATTCATGAG
130 CGATATACATTTTATTTCGTTAAAAATGTTTTACAAAAGATGGATAAACCGATGTAATTCATGAA
13908027 TAAAAATGGCAATTATCAAG
195 TAAAAATGG-----ATCAAG
* * * *
13908047 TTAAAATAGGATATTTGATTATTTAGGTTCGAAGAAAAATCATACCCAATACGTTAAGGCACCCC
1 TT--AATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCATACCCAACACGTTAGGGCACCAC
* *
13908112 TTTTCGAA-TCCCCAAAAT-AAAGAACATTGCCTTGTCGTTTTAAAACAATTTATGTAT
64 TTTTCGAATTCCCTAAAATAAAAGAACATTGCCTT-T-ATTTTAAAACAATTTATGTAT
13908169 AAAAAACAAT
Statistics
Matches: 285, Mismatches: 30, Indels: 30
0.83 0.09 0.09
Matches are distributed among these distances:
203 2 0.01
204 130 0.46
205 42 0.15
206 1 0.00
207 1 0.00
208 2 0.01
210 1 0.00
211 1 0.00
212 2 0.01
214 14 0.05
215 30 0.11
216 59 0.21
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (209 bp):
TTAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCATACCCAACACGTTAGGGCACCACTT
TTCGAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTAAAACAATTTATGTATTTTAAAAAAC
GATATACATTTTATTTCGTTAAAAATGTTTTACAAAAGATGGATAAACCGATGTAATTCATGAAT
AAAAATGGATCAAG
Found at i:13910218 original size:81 final size:81
Alignment explanation
Indices: 13910078--13910603 Score: 800
Period size: 81 Copynumber: 6.5 Consensus size: 81
13910068 TCATAACCTA
* * * *
13910078 TCTTTAATCTGCCTCATGATTGGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTCGGGGT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
13910143 AAGAGATTGGATGATG
66 AAGAGATTGGATGATG
* *
13910159 TCTTCAATCTTCCCCATGATCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
13910224 AAGAGATTGGATGATG
66 AAGAGATTGGATGATG
* * **
13910240 TCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATTATCGGGGT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
13910305 AAGAGATTGGATGATG
66 AAGAGATTGGATGATG
* ** * *
13910321 TCTTCAATTTTTCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCGGGAT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
13910386 AAGAGATTGGATGATG
66 AAGAGATTGGATGATG
*** * *
13910402 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCTTGTGGTTGAGGT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
13910467 AAGAGATTGGATGATG
66 AAGAGATTGGATGATG
** * * **
13910483 TCTTCAATCTTTCCCATGATCGGGGTAAGAGATTGGATGGCTTTAGTCTGCCTTATGGTCGGGGT
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
*
13910548 AAGAGATTGGAGGATG
66 AAGAGATTGGATGATG
*
13910564 TCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGG
1 TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGG
13910604 TAGCTTTGCT
Statistics
Matches: 405, Mismatches: 40, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 405 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (81 bp):
TCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGT
AAGAGATTGGATGATG
Found at i:13922192 original size:110 final size:110
Alignment explanation
Indices: 13921999--13922196 Score: 252
Period size: 110 Copynumber: 1.8 Consensus size: 110
13921989 TAAAGAAATA
** *
13921999 GATTTTAAATAGGATGTTCAAATACTTAGGTTCAAACAAAAAATCATACCTAACACATTAGGGCA
1 GATTTTAAATAGGATACTCAAATACTTAGGTTCAAACAAAAAATCATACCCAACACATTAGGGCA
* * * * *
13922064 CGATTTTTTGAGTCCCCTAAAATGATATAGCATTGAGCACTTATC
66 CAATCTCTCGAATCCCCTAAAATGATATAGCATTGAGCACTTATC
* * * * * * *
13922109 GATTTTAAGTAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCGTACCCAACACGTTCGGGCA
1 GATTTTAAATAGGATACTCAAATACTTAGGTTCAAACAAAAAATCATACCCAACACATTAGGGCA
*
13922174 CAATCTCTCGAATTCCCTAAAAT
66 CAATCTCTCGAATCCCCTAAAAT
13922197 AAAAAAATAT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
110 72 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (110 bp):
GATTTTAAATAGGATACTCAAATACTTAGGTTCAAACAAAAAATCATACCCAACACATTAGGGCA
CAATCTCTCGAATCCCCTAAAATGATATAGCATTGAGCACTTATC
Found at i:13922504 original size:205 final size:210
Alignment explanation
Indices: 13922129--13922652 Score: 602
Period size: 205 Copynumber: 2.5 Consensus size: 210
13922119 AGGATACTCA
* * * *
13922129 ATTATTTAGGTTCAAAGAAAAAATCGTACCCAACACGTTCGGGCA-CAATCTCTCGAATTCCCTA
1 ATTATTTAGGTTCAAAG-AAAAATCGTACCCAACACATTAGGGCACCACT-TTTCGAATTCCCTA
* * * * * **
13922193 AAATAAAAAAATATTGCCTTTATTTTTAAGACAACTTATGTATTTTGAAAATGATATACATTTTA
64 AAATAAAAGAATATTGCTTTTATTTTTAAAACAATTTATGCATTTAAAAAATGATATACATTTTA
* * *
13922258 TTTTGTTAAAAATATTTTACAAAATATCGATAAATCCATGTAATTTAC-ACGTAAAAATGGCGAT
129 TTTTGTTAAAAACATTTTACAAAAGATCGATAAACCCATGTAATTTACGA-GTAAAAATGGCGAT
*
13922322 TA-T-CG-AT-AT-TT-G
193 TATTGAGAATGATATTCG
** * * *
13922334 ATTATTTAGGTTCAAAGAAAAATTATAACCAACACTTTAGGACACCACTTTTCGAATTCCCTAAA
1 ATTATTTAGGTTCAAAGAAAAATCGTACCCAACACATTAGGGCACCACTTTTCGAATTCCCTAAA
* *
13922399 ATAAAAGAACATTGCTTTTATTTTTAAAACAATTTATGCATTTAAAAAAATGATATAGATTTTAT
66 ATAAAAGAATATTGCTTTTATTTTTAAAACAATTTATGCATTT-AAAAAATGATATACATTTTAT
* * * *
13922464 TTTGTTAAAAACGTTTTGCAAAAGATGGATAAACCCATGTAATTTACGAGTAAAAATGGTGATTA
130 TTTGTTAAAAACATTTTACAAAAGATCGATAAACCCATGTAATTTACGAGTAAAAATGGCGATTA
13922529 TTGAGTTAAAATAGGATATTCG
195 TTGAG----AAT--GATATTCG
* *
13922551 ATTATTTAGGTTCGAAGAAAAATCGTACCCAACACATTAGGGCACCAC-TTTC-AAGTTCCCCAA
1 ATTATTTAGGTTCAAAGAAAAATCGTACCCAACACATTAGGGCACCACTTTTCGAA-TTCCCTAA
*
13922614 AAT-AAAGAATATTGCTTTTTTGTTTTAAAACAATTTATG
65 AATAAAAGAATATTGCTTTTAT-TTTTAAAACAATTTATG
13922653 TATAAAAAAC
Statistics
Matches: 268, Mismatches: 34, Indels: 23
0.82 0.10 0.07
Matches are distributed among these distances:
204 73 0.27
205 94 0.35
206 2 0.01
207 1 0.00
212 2 0.01
215 20 0.07
216 33 0.12
217 43 0.16
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (210 bp):
ATTATTTAGGTTCAAAGAAAAATCGTACCCAACACATTAGGGCACCACTTTTCGAATTCCCTAAA
ATAAAAGAATATTGCTTTTATTTTTAAAACAATTTATGCATTTAAAAAATGATATACATTTTATT
TTGTTAAAAACATTTTACAAAAGATCGATAAACCCATGTAATTTACGAGTAAAAATGGCGATTAT
TGAGAATGATATTCG
Found at i:13924413 original size:14 final size:14
Alignment explanation
Indices: 13924394--13924420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13924384 ATGAATATTT
13924394 TTTATTTTCTTTTC
1 TTTATTTTCTTTTC
13924408 TTTATTTTCTTTT
1 TTTATTTTCTTTT
13924421 GTGTGGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTCTTTTC
Found at i:13931409 original size:25 final size:25
Alignment explanation
Indices: 13931371--13931421 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
13931361 TTAATATATG
*
13931371 AAATATAATTTTAAAATATTTGTAAA
1 AAATATAATATT-AAATATTTGTAAA
*
13931397 AAAT-TAATATTAATTATTTGTAAA
1 AAATATAATATTAAATATTTGTAAA
13931421 A
1 A
13931422 TTTAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 13 0.57
25 6 0.26
26 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATATAATATTAAATATTTGTAAA
Found at i:13931852 original size:12 final size:11
Alignment explanation
Indices: 13931801--13931846 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
13931791 CAGCCAAAAA
*
13931801 TTAATAATTTTT
1 TTAA-AATTATT
13931813 TTAAAA-TATT
1 TTAAAATTATT
*
13931823 TTAAAATTAAT
1 TTAAAATTATT
13931834 TTAAAATTATT
1 TTAAAATTATT
13931845 TT
1 TT
13931847 TTAAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.30
11 17 0.57
12 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:13931951 original size:13 final size:13
Alignment explanation
Indices: 13931933--13931968 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
13931923 CCGTTCTCCT
13931933 TCCAAGAAATGAA
1 TCCAAGAAATGAA
13931946 TCCAAGAAATGAA
1 TCCAAGAAATGAA
13931959 TCCAAGAAAT
1 TCCAAGAAAT
13931969 TCTTCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (13 bp):
TCCAAGAAATGAA
Found at i:13933076 original size:28 final size:28
Alignment explanation
Indices: 13933014--13933078 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
13933004 ATGATCAATT
***
13933014 TGACAAAAAAAAAGGTTAAGAGCCAAAG
1 TGACAAAAAAAAACCATAAGAGCCAAAG
*
13933042 TGAACAAAAAAAAACCATAAGGGCCAAAG
1 TG-ACAAAAAAAAACCATAAGAGCCAAAG
13933071 TGACAAAA
1 TGACAAAA
13933079 CACCCAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.09
Consensus pattern (28 bp):
TGACAAAAAAAAACCATAAGAGCCAAAG
Found at i:13933594 original size:24 final size:23
Alignment explanation
Indices: 13933545--13933594 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
13933535 TTAATATATG
* * *
13933545 AAATATTAATTTTAAATATTTTT
1 AAATATTAATATTAAATACTTAT
*
13933568 AAATAATTAATATTAATTACTTAT
1 AAAT-ATTAATATTAAATACTTAT
13933592 AAA
1 AAA
13933595 ATCTAATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTAATATTAAATACTTAT
Found at i:13933646 original size:20 final size:20
Alignment explanation
Indices: 13933605--13933650 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
13933595 ATCTAATTAG
* *
13933605 AATATATAAACTATATTTTT
1 AATATTTAAACTATATTATT
13933625 AATATTTAAA-TATAATTATT
1 AATATTTAAACTAT-ATTATT
13933645 AA-ATTT
1 AATATTT
13933651 TTGTAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTAAACTATATTATT
Found at i:13937422 original size:42 final size:42
Alignment explanation
Indices: 13937375--13937462 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
13937365 AAAAGGAGTT
13937375 GTTTATGAGTGTTATTT-AGAAATAAAATTATATTTGAGTTTA
1 GTTTATGAGTGTTATTTAAG-AATAAAATTATATTTGAGTTTA
* * *
13937417 GTTTATGAGTGTTTTTTAAGAATGAAATTATATTTGGGTTTA
1 GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGAGTTTA
13937459 GTTT
1 GTTT
13937463 GTTGATGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (42 bp):
GTTTATGAGTGTTATTTAAGAATAAAATTATATTTGAGTTTA
Found at i:13937617 original size:9 final size:9
Alignment explanation
Indices: 13937591--13937628 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
13937581 TAATATAGTT
*
13937591 TTATTCGAT
1 TTATTCGAA
13937600 TTATTCGAA
1 TTATTCGAA
13937609 TTATTCGAA
1 TTATTCGAA
*
13937618 TAATTCGAA
1 TTATTCGAA
13937627 TT
1 TT
13937629 TGAAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:13939319 original size:19 final size:20
Alignment explanation
Indices: 13939295--13939337 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
13939285 ACTTTAAAAT
13939295 CAAGTT-AAAATGATTTTAA
1 CAAGTTAAAAATGATTTTAA
**
13939314 CAAGTTAAAAATTCTTTTAA
1 CAAGTTAAAAATGATTTTAA
13939334 CAAG
1 CAAG
13939338 ACAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAAATGATTTTAA
Found at i:13940887 original size:14 final size:15
Alignment explanation
Indices: 13940861--13940890 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13940851 TAAGGAAGGG
13940861 GTTGAAGAAGAAAAA
1 GTTGAAGAAGAAAAA
13940876 GTTGAA-AAGAAAAA
1 GTTGAAGAAGAAAAA
13940890 G
1 G
13940891 GTTGGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (15 bp):
GTTGAAGAAGAAAAA
Found at i:13940894 original size:15 final size:16
Alignment explanation
Indices: 13940860--13940894 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
13940850 CTAAGGAAGG
13940860 GGTTGAAGAAGAAAAA
1 GGTTGAAGAAGAAAAA
13940876 -GTTGAA-AAGAAAAA
1 GGTTGAAGAAGAAAAA
13940890 GGTTG
1 GGTTG
13940895 GTATTTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (16 bp):
GGTTGAAGAAGAAAAA
Found at i:13943101 original size:52 final size:52
Alignment explanation
Indices: 13943045--13943145 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 52
13943035 GCTTGTCAGC
13943045 TATATATATGCATTTACGCTCCCCAGCTTGCACATGTTTAC-TCTCGTCAACT
1 TATATATATGCATTTACGCTCCCCAGCTTGCACATGTTTACGT-TCGTCAACT
* * *
13943097 TATATATATGCGTTTATGCTCTCCAGCTTGCACATGTTTACGTTCGTCA
1 TATATATATGCATTTACGCTCCCCAGCTTGCACATGTTTACGTTCGTCA
13943146 GCTTGTACGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (52 bp):
TATATATATGCATTTACGCTCCCCAGCTTGCACATGTTTACGTTCGTCAACT
Found at i:13943150 original size:76 final size:76
Alignment explanation
Indices: 13943068--13943254 Score: 212
Period size: 76 Copynumber: 2.5 Consensus size: 76
13943058 TTACGCTCCC
* * * * * *
13943068 CAGCTTGCACATGTTTACTCTCGTCAACTTATATATATGCGTTTATGCTCTCCAGCTTGCACATG
1 CAGCTTGCACACGGTTACACTCATCAACTTATATATATGCGTTTATGCTCGCCAGCTTGCACACG
13943133 TTTACGTTCGT
66 TTTACGTTCGT
* * *
13943144 CAGCTTGTACGCGGTTACACTCATCAGCTTATATATATGCGTTTATGCTCGCCAGCTTGCACACG
1 CAGCTTGCACACGGTTACACTCATCAACTTATATATATGCGTTTATGCTCGCCAGCTTGCACACG
** *
13943209 TTTACACTCAT
66 TTTACGTTCGT
* * ** * *
13943220 TAGCTTGCGCACATTTACGCTCATCAGCTTATATA
1 CAGCTTGCACACGGTTACACTCATCAACTTATATA
13943255 ACGTTGCTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 92 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (76 bp):
CAGCTTGCACACGGTTACACTCATCAACTTATATATATGCGTTTATGCTCGCCAGCTTGCACACG
TTTACGTTCGT
Found at i:13943224 original size:24 final size:24
Alignment explanation
Indices: 13943196--13943249 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13943186 TTATGCTCGC
*
13943196 CAGCTTGCACACGTTTACACTCAT
1 CAGCTTGCACACATTTACACTCAT
* * *
13943220 TAGCTTGCGCACATTTACGCTCAT
1 CAGCTTGCACACATTTACACTCAT
13943244 CAGCTT
1 CAGCTT
13943250 ATATAACGTT
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:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (24 bp):
CAGCTTGCACACATTTACACTCAT
Found at i:13949516 original size:24 final size:24
Alignment explanation
Indices: 13949485--13949750 Score: 181
Period size: 24 Copynumber: 10.7 Consensus size: 24
13949475 TTCATTTTGT
*
13949485 TTTACGCTCGCCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* * * *
13949509 TTTACGCTCATCAGTTTGCGCACA
1 TTTACGCTCGTCAGCTTGCACACG
13949533 TTTACGCTCGTCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
*
13949557 TTTACGCTCATCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* * * * *
13949581 TTTACGCTTGTTAGCTATGTATAATCA
1 TTTACGCTCGTCAGCT-TGCA-CA-CG
* * *
13949608 TTTATGCTCGCCAGGTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* ** ** * *
13949632 TTTACTCTCGTCAAATTATATATATATGCA
1 TTTACGCTCGTC--A-GCT-TGCACA--CG
* * *
13949662 TTTATGCTCATCAGCTTGCACACA
1 TTTACGCTCGTCAGCTTGCACACG
* *
13949686 TTTACTCTCATCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* * *
13949710 CTTACGCTCGCCAGCTTGCATACG
1 TTTACGCTCGTCAGCTTGCACACG
*
13949734 TTTACGCTTGTCAGCTT
1 TTTACGCTCGTCAGCTT
13949751 ATATATATGC
Statistics
Matches: 181, Mismatches: 52, Indels: 18
0.72 0.21 0.07
Matches are distributed among these distances:
24 141 0.78
25 4 0.02
26 8 0.04
27 14 0.08
28 4 0.02
30 10 0.06
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTTGCACACG
Found at i:13949681 original size:54 final size:51
Alignment explanation
Indices: 13949557--13949694 Score: 150
Period size: 54 Copynumber: 2.6 Consensus size: 51
13949547 CTTGCACACG
* * * * * *
13949557 TTTACGCTCATCAGCTTGCACACGTTTACGCTTGTTAGCTATGTATAATCA
1 TTTATGCTCATCAGCTTGCACACGTTTACTCTCGTAAACTATATATAATCA
** * *
13949608 TTTATGCTCGCCAGGTTGCACACGTTTACTCTCGTCAAATTATATATATATGCA
1 TTTATGCTCATCAGCTTGCACACGTTTACTCTCGT-AAACTATATATA-AT-CA
*
13949662 TTTATGCTCATCAGCTTGCACACATTTACTCTC
1 TTTATGCTCATCAGCTTGCACACGTTTACTCTC
13949695 ATCAGCTTGC
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
51 29 0.41
52 8 0.11
53 2 0.03
54 31 0.44
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (51 bp):
TTTATGCTCATCAGCTTGCACACGTTTACTCTCGTAAACTATATATAATCA
Found at i:13949717 original size:153 final size:154
Alignment explanation
Indices: 13949509--13949790 Score: 424
Period size: 153 Copynumber: 1.8 Consensus size: 154
13949499 CTTGCACACG
* * * * *
13949509 TTTACGCTCATCAGTTTGCGCACATTTACGCTCGTCAGCTTGCACACGTTTACGCTCATCAGCTT
1 TTTACGCTCATCAGCTTGCACACATTTACGCTCATCAGCTTGCACACGCTTACGCTCACCAGCTT
* * * *
13949574 GCACACGTTTACGCTTGTTAGC-TATGTATAAT-CATTTATGCTCGCCAGGTTGCACACGTTTAC
66 GCACACGTTTACGCTTGTCAGCTTATATAT-ATGCATTTATACTCGCCAGCTTGCACACGTTTAC
13949637 TCTCGTCAAATTATATATATATGCA
130 TCTCGTCAAATTATATATATATGCA
* * *
13949662 TTTATGCTCATCAGCTTGCACACATTTACTCTCATCAGCTTGCACACGCTTACGCTCGCCAGCTT
1 TTTACGCTCATCAGCTTGCACACATTTACGCTCATCAGCTTGCACACGCTTACGCTCACCAGCTT
*
13949727 GCATACGTTTACGCTTGTCAGCTTATATATATGCATTTATACTCGCCAGCTTGCACACGTTTAC
66 GCACACGTTTACGCTTGTCAGCTTATATATATGCATTTATACTCGCCAGCTTGCACACGTTTAC
13949791 GCTCACCAGC
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
153 79 0.69
154 35 0.31
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (154 bp):
TTTACGCTCATCAGCTTGCACACATTTACGCTCATCAGCTTGCACACGCTTACGCTCACCAGCTT
GCACACGTTTACGCTTGTCAGCTTATATATATGCATTTATACTCGCCAGCTTGCACACGTTTACT
CTCGTCAAATTATATATATATGCA
Found at i:13949779 original size:52 final size:52
Alignment explanation
Indices: 13949568--13949809 Score: 217
Period size: 52 Copynumber: 4.7 Consensus size: 52
13949558 TTACGCTCAT
* * *
13949568 CAGCTTGCACACGTTTACGCTTGTTAGC-TATGTATAAT-CATTTATGCTCGC
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATATAT-ATGCATTTATGCTCGC
* * ** **
13949619 CAGGTTGCACACGTTTACTCTCGTCAAATTATATATATATGCATTTATGCTCAT
1 CAGCTTGCACACGTTTACGCTCGTC-AGCT-TATATATATGCATTTATGCTCGC
* * * ** * * *
13949673 CAGCTTGCACACATTTACTCTCATCAGC-T-TGCACACGC--TTACGCTCGC
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATATATATGCATTTATGCTCGC
* * *
13949721 CAGCTTGCATACGTTTACGCTTGTCAGCTTATATATATGCATTTATACTCGC
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATATATATGCATTTATGCTCGC
**
13949773 CAGCTTGCACACGTTTACGCTCACCAGCTTATATATA
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATATATA
13949810 CATTGCTTTA
Statistics
Matches: 147, Mismatches: 36, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
48 30 0.20
49 1 0.01
50 10 0.07
51 22 0.15
52 42 0.29
53 3 0.02
54 39 0.27
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (52 bp):
CAGCTTGCACACGTTTACGCTCGTCAGCTTATATATATGCATTTATGCTCGC
Found at i:13949790 original size:100 final size:102
Alignment explanation
Indices: 13949613--13949802 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 102
13949603 AATCATTTAT
* * * * *
13949613 GCTCGCCAGGTTGCACACGTTTACTCTCGTCAAATTATATATATATGCATTTATGCTCATCAGCT
1 GCTCGCCAGCTTGCACACGTTTACGCTCGTCAAACTATATATATATGCATTTATACTCACCAGCT
* *
13949678 TGCACACATTTACTCTCATCAGCTTGCACACGCTTAC
66 TGCACACATTTACGCTCACCAGCTTGCACACGCTTAC
* * * *
13949715 GCTCGCCAGCTTGCATACGTTTACGCTTGTC-AGCT-TATATATATGCATTTATACTCGCCAGCT
1 GCTCGCCAGCTTGCACACGTTTACGCTCGTCAAACTATATATATATGCATTTATACTCACCAGCT
*
13949778 TGCACACGTTTACGCTCACCAGCTT
66 TGCACACATTTACGCTCACCAGCTT
13949803 ATATATACAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
100 47 0.62
101 2 0.03
102 27 0.36
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (102 bp):
GCTCGCCAGCTTGCACACGTTTACGCTCGTCAAACTATATATATATGCATTTATACTCACCAGCT
TGCACACATTTACGCTCACCAGCTTGCACACGCTTAC
Found at i:13960776 original size:26 final size:25
Alignment explanation
Indices: 13960747--13960954 Score: 130
Period size: 26 Copynumber: 8.0 Consensus size: 25
13960737 AAAAATCATT
*
13960747 GGCTCAAGGCCTGCTATTTAGTCACC
1 GGCTCAA-GCCTGCTATTTAATCACC
* * * *
13960773 GGCTCGAAGCCTACTAATGATTCACC
1 GGCTC-AAGCCTGCTATTTAATCACC
** * *
13960799 GGCTTGTAGCCTGCTA-TTAGTCACT
1 GGC-TCAAGCCTGCTATTTAATCACC
* * *
13960824 AGCTCAAGGTCTGCTATTTAATCATC
1 GGCTCAA-GCCTGCTATTTAATCACC
* *
13960850 GGCTCGAAGCCTGCTAGTAAATCACC
1 GGCTC-AAGCCTGCTATTTAATCACC
* * *
13960876 GGCTCAAGGCCTACTATTTAATTATC
1 GGCTCAA-GCCTGCTATTTAATCACC
* * *
13960902 GGCTCGAAGCCTGTTAGTAAATCACC
1 GGCTC-AAGCCTGCTATTTAATCACC
* * *
13960928 AGCTCAAGGCCTACTACTTAATCACC
1 GGCTCAA-GCCTGCTATTTAATCACC
13960954 G
1 G
13960955 AATTTCTACT
Statistics
Matches: 135, Mismatches: 39, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 107 0.79
27 7 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (25 bp):
GGCTCAAGCCTGCTATTTAATCACC
Found at i:13960893 original size:77 final size:77
Alignment explanation
Indices: 13960748--13960893 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 77
13960738 AAAATCATTG
* * * ** *
13960748 GCTCAAGGCCTGCTATTTAGTCACCGGCTCGAAGCCTACTAATGATTCACCGGCTTGTAGCCTGC
1 GCTCAAGGCCTGCTATTTAATCACCGGCTCGAAGCCTACTAATAAATCACCGGCTTCAAGCCTAC
13960813 TATTAGTCACTA
66 TATTAGTCACTA
* * * *
13960825 GCTCAAGGTCTGCTATTTAATCATCGGCTCGAAGCCTGCTAGTAAATCACCGGC-TCAAGGCCTA
1 GCTCAAGGCCTGCTATTTAATCACCGGCTCGAAGCCTACTAATAAATCACCGGCTTCAA-GCCTA
13960889 CTATT
65 CTATT
13960894 TAATTATCGG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 2 0.03
77 56 0.97
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (77 bp):
GCTCAAGGCCTGCTATTTAATCACCGGCTCGAAGCCTACTAATAAATCACCGGCTTCAAGCCTAC
TATTAGTCACTA
Found at i:13960894 original size:52 final size:52
Alignment explanation
Indices: 13960740--13960951 Score: 205
Period size: 52 Copynumber: 4.1 Consensus size: 52
13960730 GCCTACTAAA
* * * * * * *
13960740 AATCATTGGCTC-AAGGCCTGCTATTTAGTCACCGGCTCGAA-GCCTACTAATG
1 AATCATCGGCTCGAA-GCCTGCTAGTAAATCACCAGCTC-AAGGCCTACTATTT
* * * * * * * * *
13960792 ATTCACCGGCTTGTAGCCTGCTA-TTAGTCACTAGCTCAAGGTCTGCTATTT
1 AATCATCGGCTCGAAGCCTGCTAGTAAATCACCAGCTCAAGGCCTACTATTT
*
13960843 AATCATCGGCTCGAAGCCTGCTAGTAAATCACCGGCTCAAGGCCTACTATTT
1 AATCATCGGCTCGAAGCCTGCTAGTAAATCACCAGCTCAAGGCCTACTATTT
* * *
13960895 AATTATCGGCTCGAAGCCTGTTAGTAAATCACCAGCTCAAGGCCTACTACTT
1 AATCATCGGCTCGAAGCCTGCTAGTAAATCACCAGCTCAAGGCCTACTATTT
13960947 AATCA
1 AATCA
13960952 CCGAATTTCT
Statistics
Matches: 131, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.02
51 38 0.29
52 90 0.69
53 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (52 bp):
AATCATCGGCTCGAAGCCTGCTAGTAAATCACCAGCTCAAGGCCTACTATTT
Found at i:13962307 original size:24 final size:24
Alignment explanation
Indices: 13962275--13962327 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
13962265 AAGGTCACAT
13962275 GTTCATCTTGAACTCACATGGTGA
1 GTTCATCTTGAACTCACATGGTGA
13962299 GTTCATCTTGAACTCACATGGTGA
1 GTTCATCTTGAACTCACATGGTGA
13962323 GTTCA
1 GTTCA
13962328 CCTCTCTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (24 bp):
GTTCATCTTGAACTCACATGGTGA
Found at i:13964818 original size:15 final size:15
Alignment explanation
Indices: 13964788--13964863 Score: 80
Period size: 15 Copynumber: 5.1 Consensus size: 15
13964778 GCTAAAAAGA
**
13964788 TGCGAGCACTGGTGT
1 TGCGAGCACTCATGT
13964803 TGCGAGCACTCATGT
1 TGCGAGCACTCATGT
** *
13964818 TATGAACACTCATGT
1 TGCGAGCACTCATGT
13964833 TGCGAGCACTCATGT
1 TGCGAGCACTCATGT
* * *
13964848 TGTGAACACTGATGT
1 TGCGAGCACTCATGT
13964863 T
1 T
13964864 CCAAGCATGG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (15 bp):
TGCGAGCACTCATGT
Found at i:13964836 original size:30 final size:30
Alignment explanation
Indices: 13964800--13964863 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
13964790 CGAGCACTGG
13964800 TGTTGCGAGCACTCATGTTATGAACACTCA
1 TGTTGCGAGCACTCATGTTATGAACACTCA
* *
13964830 TGTTGCGAGCACTCATGTTGTGAACACTGA
1 TGTTGCGAGCACTCATGTTATGAACACTCA
13964860 TGTT
1 TGTT
13964864 CCAAGCATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
TGTTGCGAGCACTCATGTTATGAACACTCA
Found at i:13967209 original size:18 final size:18
Alignment explanation
Indices: 13967188--13967254 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
13967178 AAGAAATAGA
13967188 GAGAAGAAAAAAAGAAA-T
1 GAGAAG-AAAAAAGAAATT
13967206 GAG-AG-AAAAAGAAATT
1 GAGAAGAAAAAAGAAATT
*
13967222 GA-AAGAGAAAAAGAACTT
1 GAGAAGA-AAAAAGAAATT
*
13967240 AAGAGAGAAAAAAGA
1 GAGA-AGAAAAAAGA
13967255 GAAGAGTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.22
16 5 0.12
17 2 0.05
18 14 0.34
19 8 0.20
20 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.24, T:0.07
Consensus pattern (18 bp):
GAGAAGAAAAAAGAAATT
Found at i:13967225 original size:21 final size:19
Alignment explanation
Indices: 13967161--13967215 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 19
13967151 TAATGAGAGA
*
13967161 AAATGAGCGAAAAATAAAAG
1 AAATGAGAGAAAAA-AAAAG
13967181 AAATAGAGAGAAGAAAAAAAG
1 AAAT-GAGAGAA-AAAAAAAG
13967202 AAATGAGAGAAAAA
1 AAATGAGAGAAAAA
13967216 GAAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 15 0.47
22 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.07
Consensus pattern (19 bp):
AAATGAGAGAAAAAAAAAG
Found at i:13978164 original size:78 final size:77
Alignment explanation
Indices: 13978043--13978192 Score: 255
Period size: 78 Copynumber: 1.9 Consensus size: 77
13978033 AGTCACATTA
*
13978043 TTTTATAGTGTTGGTTCAGTTCTGGGACAAGTTTCGTTTTATAAGTTATATCCATCTCTATCCTT
1 TTTTATAGTGTTGGTTCAGTTCTGGGACAAATTTCGTTTTATAAGTTATATCCATCTCTATCC-T
13978108 TTATTTCACAATG
65 TTATTTCACAATG
* * *
13978121 TTTTATAGTGTTGGTTCATTTCTGGGATAAATTTTGTTTTATAAGTTATATCCATCTCTATCCTT
1 TTTTATAGTGTTGGTTCAGTTCTGGGACAAATTTCGTTTTATAAGTTATATCCATCTCTATCCTT
13978186 TATTTCA
66 TATTTCA
13978193 TTACCCTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
77 9 0.13
78 59 0.87
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (77 bp):
TTTTATAGTGTTGGTTCAGTTCTGGGACAAATTTCGTTTTATAAGTTATATCCATCTCTATCCTT
TATTTCACAATG
Found at i:13989298 original size:19 final size:19
Alignment explanation
Indices: 13989274--13989314 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
13989264 GATAGTATGA
13989274 CATTATCCTTTTATCCTTG
1 CATTATCCTTTTATCCTTG
13989293 CATTATCCTTTTATCCTTG
1 CATTATCCTTTTATCCTTG
13989312 CAT
1 CAT
13989315 GGAATAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (19 bp):
CATTATCCTTTTATCCTTG
Found at i:13992462 original size:3 final size:3
Alignment explanation
Indices: 13992449--13992498 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
13992439 GGCCCAAATT
*
13992449 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
13992497 AT
1 AT
13992499 TATTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:13993210 original size:152 final size:150
Alignment explanation
Indices: 13992929--13993359 Score: 555
Period size: 152 Copynumber: 2.8 Consensus size: 150
13992919 GATTTTGGGA
* * *
13992929 AAAGTTTTGA-TTTTTTAAACAATTTCGAAATAAAAATTTTAATGTTTAAGTAAAATAGTGATTT
1 AAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAA-TTTAATTTTTAAGTAAAATAGTGATTT
* * * **
13992993 TTTTAAAAAAAAAAAGAGAGAAAGTTTATATTTTTAAAAATAAAAATCTATTTTTTAATTGTTTT
65 TTTT---TAAAAAAAGAGAGAAAGTTTACATTTTTAAAAATAAAAATCTATTTTTTAGTCATTTT
*
13993058 AAAGAAAAAGTTT-CATTTTTAAA-
127 AAAG-AAAAGTTTAAATTTTTAAAC
13993081 AACAGTTTTGATTTTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGAT
1 AA-AGTTTTGA-TTTTTTTTAACTATTTCGAAATAAAAATTTA-ATTTTTAAGTAAAATAGTGAT
* *
13993146 TTTCTTTTAAAAAAA-CGACAAAGTTTACATTTTTAAAAATAAAAATCTATTTTTTAGTCATTTT
63 TTT-TTTTAAAAAAAGAGAGAAAGTTTACATTTTTAAAAATAAAAATCTATTTTTTAGTCATTTT
13993210 AAAGAAAAGTTTAAATTTTTAAAC
127 AAAGAAAAGTTTAAATTTTTAAAC
* * *
13993234 AAAATTTTGATTTTTTTTAACTATTTCGAAGTAAAATTTTAAATTTTTAAGTAAAATAGTGATTT
1 AAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAATTT-AATTTTTAAGTAAAATAGTGA-TT
* * *
13993299 TTTTTTAAAAAAAAAGAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTC
64 TTTTTT--AAAAAAAGAGAGAAAGTTTACATTTTTAAAAATAAAAATCT-ATTTTTTAGTC
13993360 TTTAAATTTT
Statistics
Matches: 247, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
151 60 0.24
152 70 0.28
153 24 0.10
154 33 0.13
155 57 0.23
156 3 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (150 bp):
AAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAATTTAATTTTTAAGTAAAATAGTGATTTT
TTTTAAAAAAAGAGAGAAAGTTTACATTTTTAAAAATAAAAATCTATTTTTTAGTCATTTTAAAG
AAAAGTTTAAATTTTTAAAC
Found at i:13993524 original size:22 final size:21
Alignment explanation
Indices: 13993507--13993545 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13993497 GATTTTAAAG
13993507 AAAAAG-TTTAAATTTTTTAA
1 AAAAAGTTTTAAATTTTTTAA
*
13993527 ACAAAGTTTTAAATTTTTT
1 AAAAAGTTTTAAATTTTTT
13993546 TAACTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (21 bp):
AAAAAGTTTTAAATTTTTTAA
Found at i:13993620 original size:22 final size:20
Alignment explanation
Indices: 13993591--13993631 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
13993581 AAAATGGTGA
13993591 TTTTATTTTAATAAAAAAAAC
1 TTTTATTTT-ATAAAAAAAAC
*
13993612 TTTTGATTTTTTAAAAAAAA
1 TTTT-ATTTTATAAAAAAAA
13993632 TAAGAAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTTATTTTATAAAAAAAAC
Found at i:13993634 original size:293 final size:290
Alignment explanation
Indices: 13993072--13993607 Score: 731
Period size: 293 Copynumber: 1.8 Consensus size: 290
13993062 AAAAAGTTTC
*
13993072 ATTTTTAAAAACAGTTTTGATTTTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAA
1 ATTTTTAAAAACAATTTTGATTTTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAA
* * *
13993137 AATAGTGATTTTCTTTTAAAAAAACGACAAAGTTTACATTTTTAAAAATAAAAATCTATTTTTTA
66 AATAGTGATTTTCTATTAAAAAAAC-ACAAAGTTCACATTTTAAAAAATAAAAATCTATTTTTTA
* * * *
13993202 GTCATTTTAAAGAAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTTAACTATTTCGAAGTA
130 ATCATTTTAAAGAAAAGTTTAAATTTTTAAACAAAATTTTAAATTTTTTTAACTATTTCGAAATA
* * *
13993267 AAATTTTAAATTTTTAAGTAAAATAGTGATTTTTTTTTAAAAAAAAAGAGAGAAAGTTTAGATTT
195 AAATTTTAAATTTTGAAGTAAAATAGTGATTTTATTTT--AAAAAAAGAGAGAAACTTTAGATTT
13993332 TTAAAAATAAAAATATGTTTTTTTAGTCTTTAA
258 TTAAAAATAAAAATATGTTTTTTTAGTCTTTAA
* *
13993365 ATTTTTAAACAA-AATTTTGA-TTTTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTTAAGT
1 ATTTTTAAA-AACAATTTTGATTTTTTTTTAACTATTTCGAAATAAAAATTTAGA-TTTTTAAGT
** * * *
13993428 AATGTAGTGATTTTC-ATTAAAAAGAA-AGAAAGTTCAGACTTTTAAAAAAATAAAATTCTATTT
64 AAAATAGTGATTTTCTATTAAAAA-AACACAAAGTTCACA-TTTT-AAAAAATAAAAATCTATTT
* *
13993491 TTTAATGATTTTAAAGAAAAAGTTTAAATTTTTTAAACAAAGTTTTAAATTTTTTTAACTATTTC
126 TTTAATCATTTTAAAG-AAAAGTTTAAA-TTTTTAAACAAAATTTTAAATTTTTTTAACTATTTC
* *
13993556 GAAATAAAAGTTTT-GATTTTGAAGTAAAATGGTGATTTTATTTTAATAAAAA
189 GAAATAAAA-TTTTAAATTTTGAAGTAAAATAGTGATTTTATTTTAA-AAAAA
13993608 AAACTTTTGA
Statistics
Matches: 213, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
291 9 0.04
292 42 0.20
293 73 0.34
294 18 0.08
295 67 0.31
296 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (290 bp):
ATTTTTAAAAACAATTTTGATTTTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAA
AATAGTGATTTTCTATTAAAAAAACACAAAGTTCACATTTTAAAAAATAAAAATCTATTTTTTAA
TCATTTTAAAGAAAAGTTTAAATTTTTAAACAAAATTTTAAATTTTTTTAACTATTTCGAAATAA
AATTTTAAATTTTGAAGTAAAATAGTGATTTTATTTTAAAAAAAGAGAGAAACTTTAGATTTTTA
AAAATAAAAATATGTTTTTTTAGTCTTTAA
Found at i:14000347 original size:12 final size:13
Alignment explanation
Indices: 14000320--14000353 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
14000310 TGCAATGATA
14000320 TTATTGTACTATAT
1 TTATTGTAC-ATAT
14000334 TTATTGTA-ATAT
1 TTATTGTACATAT
14000346 TTATTGTA
1 TTATTGTA
14000354 TTACATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (13 bp):
TTATTGTACATAT
Found at i:14002132 original size:29 final size:29
Alignment explanation
Indices: 14002090--14002164 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
14002080 AATCAAATTT
*
14002090 AAATATCTCACAAACCTCTTTACGAAAAA
1 AAATATCTCACAAACCTCTCTACGAAAAA
14002119 AAATATCTCACAAACCTCTCTACGAAAAA
1 AAATATCTCACAAACCTCTCTACGAAAAA
14002148 AAATATCTCACAAACCT
1 AAATATCTCACAAACCT
14002165 AATCAAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.23
Consensus pattern (29 bp):
AAATATCTCACAAACCTCTCTACGAAAAA
Found at i:14002351 original size:22 final size:23
Alignment explanation
Indices: 14002312--14002355 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14002302 CTCGAAATAA
*
14002312 ACTAAAATTCTAGTCAAACTTAC
1 ACTAAAATTCAAGTCAAACTTAC
14002335 ACTAAAATT-AAGTCAAACTTA
1 ACTAAAATTCAAGTCAAACTTA
14002356 TTATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (23 bp):
ACTAAAATTCAAGTCAAACTTAC
Found at i:14010908 original size:27 final size:27
Alignment explanation
Indices: 14010838--14010908 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
14010828 ACACATTAGG
*
14010838 AATGGAAGCCTTTGTGAAAATCTATAA
1 AATGGAAGCCTTTGTGGAAATCTATAA
* * *
14010865 AATGGAAGCCTTTGTGGTAGTCTATGA
1 AATGGAAGCCTTTGTGGAAATCTATAA
*
14010892 AATGGAAGTCTTTGTGG
1 AATGGAAGCCTTTGTGG
14010909 CGAACTATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (27 bp):
AATGGAAGCCTTTGTGGAAATCTATAA
Found at i:14010916 original size:27 final size:27
Alignment explanation
Indices: 14010838--14010917 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
14010828 ACACATTAGG
* * *
14010838 AATGGAAGCCTTTGT-GAAAATCTATAA
1 AATGGAAGCCTTTGTGGGAGA-CTATGA
* *
14010865 AATGGAAGCCTTTGTGGTAGTCTATGA
1 AATGGAAGCCTTTGTGGGAGACTATGA
*
14010892 AATGGAAGTCTTTGTGGCGA-ACTATG
1 AATGGAAGCCTTTGTGG-GAGACTATG
14010918 CAGGAATAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 41 0.93
28 3 0.07
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (27 bp):
AATGGAAGCCTTTGTGGGAGACTATGA
Found at i:14020460 original size:19 final size:19
Alignment explanation
Indices: 14020436--14020473 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14020426 ATCACATGCC
*
14020436 AAAGTGAAAAATTGATTTT
1 AAAGTGAAAAAGTGATTTT
14020455 AAAGTGAAAAAGTGATTTT
1 AAAGTGAAAAAGTGATTTT
14020474 GTGGCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (19 bp):
AAAGTGAAAAAGTGATTTT
Found at i:14020588 original size:47 final size:47
Alignment explanation
Indices: 14020528--14020626 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
14020518 GAAGTGGTAA
14020528 TTTATCTGCAAAAGTGGTGGCTTGTCCACAATATTACAAAGTGACAG
1 TTTATCTGCAAAAGTGGTGGCTTGTCCACAATATTACAAAGTGACAG
* **
14020575 TTTATCTGCAAAAGTGGTGGCTTGTCCACAATATTATAAAGTGGGAG
1 TTTATCTGCAAAAGTGGTGGCTTGTCCACAATATTACAAAGTGACAG
14020622 TTTAT
1 TTTAT
14020627 TTGCGTTACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (47 bp):
TTTATCTGCAAAAGTGGTGGCTTGTCCACAATATTACAAAGTGACAG
Found at i:14022698 original size:421 final size:421
Alignment explanation
Indices: 14021914--14022755 Score: 1675
Period size: 421 Copynumber: 2.0 Consensus size: 421
14021904 AGCTATTACA
14021914 AAACACGAGAAAATATACCTACATTTGTAAGACATTTTCAGATCTTTCCACTCTTCACATCCCAA
1 AAACACGAGAAAATATACCTACATTTGTAAGACATTTTCAGATCTTTCCACTCTTCACATCCCAA
14021979 CACTTTGTTAAACCCTCCCTCTCCTTCCCCTTTCGTTACAGACCCAATGCTTGCCATCGCTCCTA
66 CACTTTGTTAAACCCTCCCTCTCCTTCCCCTTTCGTTACAGACCCAATGCTTGCCATCGCTCCTA
14022044 CTGTTTTCATCTGCTTCAAGGTTGCTCTCTCTTCCCATCTTTATTCTTCTTTGTTTGTCTCTGTA
131 CTGTTTTCATCTGCTTCAAGGTTGCTCTCTCTTCCCATCTTTATTCTTCTTTGTTTGTCTCTGTA
14022109 AGTTTGATTGATTGACTTTTTTTTGTTGGATTTAGTTTTACTATTTGGGATCTGGCTTTGATCTA
196 AGTTTGATTGATTGACTTTTTTTTGTTGGATTTAGTTTTACTATTTGGGATCTGGCTTTGATCTA
14022174 TTTCACTTGTATGTTCGTGAGTTTTTGTTATGTGTGTCGCTTTGATTTAGCTTTAATTTTGTGGG
261 TTTCACTTGTATGTTCGTGAGTTTTTGTTATGTGTGTCGCTTTGATTTAGCTTTAATTTTGTGGG
14022239 TTTTAAGAATTGTGATTGGGATTTTAATATTTTTGTAATTGTTTTTTTATCTGCCTCGAACAATA
326 TTTTAAGAATTGTGATTGGGATTTTAATATTTTTGTAATTGTTTTTTTATCTGCCTCGAACAATA
14022304 TCTTCTTGCTTCTTCCATCACTCTTCAGGCT
391 TCTTCTTGCTTCTTCCATCACTCTTCAGGCT
14022335 AAACACGAGAAAATATACCTACATTTGTAAGACATTTTCAGATCTTTCCACTCTTCACATCCCAA
1 AAACACGAGAAAATATACCTACATTTGTAAGACATTTTCAGATCTTTCCACTCTTCACATCCCAA
14022400 CACTTTGTTAAACCCTCCCTCTCCTTCCCCTTTCGTTACAGACCCAATGCTTGCCATCGCTCCTA
66 CACTTTGTTAAACCCTCCCTCTCCTTCCCCTTTCGTTACAGACCCAATGCTTGCCATCGCTCCTA
14022465 CTGTTTTCATCTGCTTCAAGGTTGCTCTCTCTTCCCATCTTTATTCTTCTTTGTTTGTCTCTGTA
131 CTGTTTTCATCTGCTTCAAGGTTGCTCTCTCTTCCCATCTTTATTCTTCTTTGTTTGTCTCTGTA
14022530 AGTTTGATTGATTGACTTTTTTTTGTTGGATTTAGTTTTACTATTTGGGATCTGGCTTTGATCTA
196 AGTTTGATTGATTGACTTTTTTTTGTTGGATTTAGTTTTACTATTTGGGATCTGGCTTTGATCTA
14022595 TTTCACTTGTATGTTCGTGAGTTTTTGTTATGTGTGTCGCTTTGATTTAGCTTTAATTTTGTGGG
261 TTTCACTTGTATGTTCGTGAGTTTTTGTTATGTGTGTCGCTTTGATTTAGCTTTAATTTTGTGGG
*
14022660 TTTTAAGAATTGTGATTGGGATTTTAATATTTTTGTAATTGTTTTTTTATTTGCCTCGAACAATA
326 TTTTAAGAATTGTGATTGGGATTTTAATATTTTTGTAATTGTTTTTTTATCTGCCTCGAACAATA
14022725 TCTTCTTGCTTCTTCCATCACTCTTCAGGCT
391 TCTTCTTGCTTCTTCCATCACTCTTCAGGCT
14022756 CTTCTGGAGA
Statistics
Matches: 420, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
421 420 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (421 bp):
AAACACGAGAAAATATACCTACATTTGTAAGACATTTTCAGATCTTTCCACTCTTCACATCCCAA
CACTTTGTTAAACCCTCCCTCTCCTTCCCCTTTCGTTACAGACCCAATGCTTGCCATCGCTCCTA
CTGTTTTCATCTGCTTCAAGGTTGCTCTCTCTTCCCATCTTTATTCTTCTTTGTTTGTCTCTGTA
AGTTTGATTGATTGACTTTTTTTTGTTGGATTTAGTTTTACTATTTGGGATCTGGCTTTGATCTA
TTTCACTTGTATGTTCGTGAGTTTTTGTTATGTGTGTCGCTTTGATTTAGCTTTAATTTTGTGGG
TTTTAAGAATTGTGATTGGGATTTTAATATTTTTGTAATTGTTTTTTTATCTGCCTCGAACAATA
TCTTCTTGCTTCTTCCATCACTCTTCAGGCT
Found at i:14024102 original size:10 final size:11
Alignment explanation
Indices: 14024083--14024128 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
14024073 TTTTTAAATA
14024083 TAAATT-TTTT
1 TAAATTATTTT
14024093 TAAA-TATTTT
1 TAAATTATTTT
* *
14024103 AAAATTAATTT
1 TAAATTATTTT
*
14024114 AAAATTATTTT
1 TAAATTATTTT
14024125 TAAA
1 TAAA
14024129 CATAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 1 0.03
10 11 0.37
11 18 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TAAATTATTTT
Found at i:14024929 original size:15 final size:15
Alignment explanation
Indices: 14024906--14024940 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14024896 CTATCTAGGA
*
14024906 AAGGCAAATAAGAAG
1 AAGGAAAATAAGAAG
14024921 AAGGAAAATAAGAAG
1 AAGGAAAATAAGAAG
14024936 -AGGAA
1 AAGGAA
14024941 GGAGAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.06
Consensus pattern (15 bp):
AAGGAAAATAAGAAG
Found at i:14025088 original size:12 final size:13
Alignment explanation
Indices: 14025057--14025090 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
14025047 TAATTTTATA
14025057 TTTAAAATATAAT
1 TTTAAAATATAAT
14025070 TTT-AAAT-TAAT
1 TTTAAAATATAAT
14025081 TTTAAAATAT
1 TTTAAAATAT
14025091 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.37
12 8 0.42
13 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTAAAATATAAT
Found at i:14026801 original size:25 final size:25
Alignment explanation
Indices: 14026773--14026825 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
14026763 TGTTATTTTT
*
14026773 TTAAAATGT-TGGTTGGATATTGATA
1 TTAAAAT-TATGGTTGGATATTGAAA
*
14026798 TTAAAATTATTGTTGGATATTGAAA
1 TTAAAATTATGGTTGGATATTGAAA
14026823 TTA
1 TTA
14026826 TTATGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (25 bp):
TTAAAATTATGGTTGGATATTGAAA
Found at i:14026843 original size:32 final size:32
Alignment explanation
Indices: 14026807--14026891 Score: 170
Period size: 32 Copynumber: 2.7 Consensus size: 32
14026797 ATTAAAATTA
14026807 TTGTTGGATATTGAAATTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
14026839 TTGTTGGATATTGAAATTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
14026871 TTGTTGGATATTGAAATTATT
1 TTGTTGGATATTGAAATTATT
14026892 TAAAATGGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:14028337 original size:14 final size:14
Alignment explanation
Indices: 14028318--14028353 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14028308 AAAACATAAT
14028318 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
14028332 TCATTTTCCGGAAA
1 TCATTTTCCAGAAA
*
14028346 CCATTTTC
1 TCATTTTC
14028354 AATCAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:14033289 original size:13 final size:13
Alignment explanation
Indices: 14033271--14033298 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14033261 TAATTTTTTA
14033271 TATCAAAACATAT
1 TATCAAAACATAT
14033284 TATCAAAACATAT
1 TATCAAAACATAT
14033297 TA
1 TA
14033299 GCCAATACGT
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TATCAAAACATAT
Found at i:14037980 original size:24 final size:25
Alignment explanation
Indices: 14037944--14037996 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
14037934 ATATTGAATG
*
14037944 ATTTGTATGATAT-ATCTAAAATTA
1 ATTTGTATAATATAATCTAAAATTA
* *
14037968 ATTTTTATAATATACATTTAAAATTA
1 ATTTGTATAATATA-ATCTAAAATTA
14037994 ATT
1 ATT
14037997 ATACAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTTGTATAATATAATCTAAAATTA
Found at i:14038001 original size:18 final size:20
Alignment explanation
Indices: 14037972--14038018 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14037962 AAATTAATTT
* *
14037972 TTATAATATAC-ATTTAAAA
1 TTATATTATACAAATTAAAA
14037991 TTA-ATTATACAAATTAAAA
1 TTATATTATACAAATTAAAA
14038010 TTATATTAT
1 TTATATTAT
14038019 TTTTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATATTATACAAATTAAAA
Found at i:14038308 original size:41 final size:39
Alignment explanation
Indices: 14038225--14038323 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 39
14038215 CATTTAATTA
** *
14038225 ATTTTTTAAAAATTAAAAATATATTTTTATGTTTTTATT
1 ATTTTTTAAAAATTAAAAATATATTTTTACATTTTTAGT
*
14038264 ATTTTTTAATAATATTTAAAAATATTTTTTTACATTTTT-GT
1 ATTTTTTAA-AA-A-TTAAAAATATATTTTTACATTTTTAGT
**
14038305 ATTTTTTAAATTTTAAAAA
1 ATTTTTTAAAAATTAAAAA
14038324 ATTAATTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
38 7 0.14
39 9 0.18
40 3 0.06
41 11 0.22
42 21 0.41
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (39 bp):
ATTTTTTAAAAATTAAAAATATATTTTTACATTTTTAGT
Found at i:14039948 original size:9 final size:9
Alignment explanation
Indices: 14039934--14039973 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
14039924 ACAGTCAAAT
14039934 ATTACTTAA
1 ATTACTTAA
14039943 ATTACTTAA
1 ATTACTTAA
14039952 ATTACTTAA
1 ATTACTTAA
14039961 ATTACTTAA
1 ATTACTTAA
14039970 ATTA
1 ATTA
14039974 TAATATATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTACTTAA
Found at i:14042118 original size:20 final size:20
Alignment explanation
Indices: 14042093--14042155 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
14042083 CATTATATTC
14042093 TTTATAAATTTTCATAATTT
1 TTTATAAATTTTCATAATTT
* * *
14042113 TTTAT-AGTATTTAATAATGT
1 TTTATAAAT-TTTCATAATTT
* *
14042133 TTAATAAAGTTTCTATAATTT
1 TTTATAAATTTTC-ATAATTT
14042154 TT
1 TT
14042156 GAAAATCTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.06
20 21 0.66
21 9 0.28
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTATAAATTTTCATAATTT
Found at i:14050968 original size:75 final size:76
Alignment explanation
Indices: 14050862--14051056 Score: 241
Period size: 75 Copynumber: 2.6 Consensus size: 76
14050852 AAGAGAGGCC
* * * * *
14050862 CACAGCCTCGACACACGAGCGTGTGCCAGACCGTGTGATCACTGGGCGTATTTTTAAAT-GATTT
1 CACAGCCTAGACACACGGGCGTGTGCTAGACCGTGTGATCACTGGGCGTATTTTTAAATAAAATT
*
14050926 TTGAAACAACA
66 TCGAAACAACA
* * *
14050937 CACGGCCTAGACACACGGGCGTGTGCTAGACCGTGTG-TAATTGGGCGTATTTTTAAATAAAATT
1 CACAGCCTAGACACACGGGCGTGTGCTAGACCGTGTGATCACTGGGCGTATTTTTAAATAAAATT
**
14051001 TCGAAATGACA
66 TCGAAACAACA
* ** *
14051012 CACAGCCTAGAGACACGGGCGTGTGCTAGATTGTGTGACCACTGG
1 CACAGCCTAGACACACGGGCGTGTGCTAGACCGTGTGATCACTGG
14051057 AGCTTTATTT
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
74 19 0.19
75 77 0.77
76 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (76 bp):
CACAGCCTAGACACACGGGCGTGTGCTAGACCGTGTGATCACTGGGCGTATTTTTAAATAAAATT
TCGAAACAACA
Found at i:14056585 original size:26 final size:26
Alignment explanation
Indices: 14056556--14056649 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 26
14056546 CTTCGAGCCG
* *
14056556 GTGAATATTTAGCAGGCCTTAAGTCA
1 GTGAATGTTTAGCAGGCATTAAGTCA
* * * *
14056582 GTGAATGTTTGGCAGGCTTTAAATCG
1 GTGAATGTTTAGCAGGCATTAAGTCA
* * *
14056608 GTAAATGTTTAGCAGGCATTAAGCCC
1 GTGAATGTTTAGCAGGCATTAAGTCA
14056634 GTGAATG-TTAGCAGGC
1 GTGAATGTTTAGCAGGC
14056650 TCGGTGAATG
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
25 9 0.16
26 47 0.84
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
GTGAATGTTTAGCAGGCATTAAGTCA
Found at i:14062386 original size:24 final size:24
Alignment explanation
Indices: 14062358--14062496 Score: 107
Period size: 24 Copynumber: 5.7 Consensus size: 24
14062348 TTCATTGCGT
*
14062358 TTTACGCTCGCCAGCTTGCTCACG
1 TTTACGCTCGCCAGCTTGCACACG
** *
14062382 TTTACGCTCGTTAGCTTGCACATG
1 TTTACGCTCGCCAGCTTGCACACG
* ** ** *
14062406 TTTAATGCTCATCAGCTATATATACG
1 TTT-ACGCTCGCCAGCT-TGCACACG
* *
14062432 TTTACGCTCGCCAGCTTACACACA
1 TTTACGCTCGCCAGCTTGCACACG
* * * *
14062456 TTTACACTCACCAACTTGCACACA
1 TTTACGCTCGCCAGCTTGCACACG
*
14062480 TTTACGCTCGTCAGCTT
1 TTTACGCTCGCCAGCTT
14062497 ATATATGTGT
Statistics
Matches: 88, Mismatches: 25, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
24 61 0.69
25 20 0.23
26 7 0.08
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (24 bp):
TTTACGCTCGCCAGCTTGCACACG
Found at i:14062500 original size:74 final size:74
Alignment explanation
Indices: 14062358--14062502 Score: 166
Period size: 74 Copynumber: 2.0 Consensus size: 74
14062348 TTCATTGCGT
* * * * *** * ** *
14062358 TTTACGCTCGCCAGCTTGCTCACGTTTACGCTCGTTAGCTTGCACATGTTTAATGCTCATCAGCT
1 TTTACGCTCGCCAGCTTACACACATTTACACTCACCAACTTGCACACATTTAACGCTCATCAGCT
14062423 ATATATACG
66 ATATATACG
*
14062432 TTTACGCTCGCCAGCTTACACACATTTACACTCACCAACTTGCACACATTT-ACGCTCGTCAGCT
1 TTTACGCTCGCCAGCTTACACACATTTACACTCACCAACTTGCACACATTTAACGCTCATCAGC-
14062496 TATATAT
65 TATATAT
14062503 GTGTTTGTGC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
73 10 0.17
74 48 0.83
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (74 bp):
TTTACGCTCGCCAGCTTACACACATTTACACTCACCAACTTGCACACATTTAACGCTCATCAGCT
ATATATACG
Found at i:14062543 original size:50 final size:50
Alignment explanation
Indices: 14062470--14062615 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
14062460 CACTCACCAA
* * * *
14062470 CTTGCACACATTTACGCTCGTCAGCTTATATATGTGTTTGTGCTCAACAG
1 CTTGCACACGTTTATGCTCGTCAGCTTATATATGCGTTTGCGCTCAACAG
* **
14062520 CTTGCACACGTTTATGCTTGTCAGCTTATATATGCGTTTGCGCTCGCCAG
1 CTTGCACACGTTTATGCTCGTCAGCTTATATATGCGTTTGCGCTCAACAG
* * * *
14062570 GTTGCACACGTTTATGCTCGTCAGTTTATAAATGCGTTTCCGCTCA
1 CTTGCACACGTTTATGCTCGTCAGCTTATATATGCGTTTGCGCTCA
14062616 CCAACTTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (50 bp):
CTTGCACACGTTTATGCTCGTCAGCTTATATATGCGTTTGCGCTCAACAG
Found at i:14063581 original size:32 final size:32
Alignment explanation
Indices: 14063544--14063606 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
14063534 GTGATCTTGG
14063544 TCTCTAAATTTTCCCTTTATAATTAATCAATA
1 TCTCTAAATTTTCCCTTTATAATTAATCAATA
14063576 TCTCTAAATTTTCCCTTTATAATTAATCAAT
1 TCTCTAAATTTTCCCTTTATAATTAATCAAT
14063607 CATTTCCCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (32 bp):
TCTCTAAATTTTCCCTTTATAATTAATCAATA
Found at i:14065985 original size:71 final size:71
Alignment explanation
Indices: 14065908--14066042 Score: 243
Period size: 71 Copynumber: 1.9 Consensus size: 71
14065898 TACTTTCTTT
* * *
14065908 TCTTTGCTTTATTCTTTTTGTTTCTTCCTTTGAGTTTTTTTCTCTTTTGATTGATTCTTGAGTGT
1 TCTTTGCTTTATTCTTTTTATTTCTTCCATTGAGTTTTTTTCTCTTTTGATTAATTCTTGAGTGT
14065973 TGCTTC
66 TGCTTC
14065979 TCTTTGCTTTATTCTTTTTATTTCTTCCATTGAGTTTTTTTCTCTTTTGATTAATTCTTGAGTG
1 TCTTTGCTTTATTCTTTTTATTTCTTCCATTGAGTTTTTTTCTCTTTTGATTAATTCTTGAGTG
14066043 CTGGCAATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.63
Consensus pattern (71 bp):
TCTTTGCTTTATTCTTTTTATTTCTTCCATTGAGTTTTTTTCTCTTTTGATTAATTCTTGAGTGT
TGCTTC
Found at i:14069930 original size:49 final size:49
Alignment explanation
Indices: 14069874--14070005 Score: 201
Period size: 49 Copynumber: 2.7 Consensus size: 49
14069864 CAGCCTTGTT
* *
14069874 AAATCATGCAAGGTGTGTGGGTAGACTGTGTGGACCACACGATCGTGTG
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGACCACACGACCGTGTG
* * *
14069923 AAATCATGCAAGGTGTGTGGGTAAACCATGTGGACCACACGGCCGTGTG
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGACCACACGACCGTGTG
* *
14069972 AAATCATGCAAAGTGTGTGGATAGACCGTGTGGA
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGA
14070006 ATCATGCAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 74 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (49 bp):
AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGACCACACGACCGTGTG
Found at i:14070001 original size:32 final size:32
Alignment explanation
Indices: 14069965--14070035 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
14069955 GACCACACGG
14069965 CCGTGTGAAATCATGCAAAGTGTGTGGATAGA
1 CCGTGTGAAATCATGCAAAGTGTGTGGATAGA
* ** *
14069997 CCGTGTGGAATCATGCAGGGTGTGTGGGTAGA
1 CCGTGTGAAATCATGCAAAGTGTGTGGATAGA
*
14070029 CCATGTG
1 CCGTGTG
14070036 GACCACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.37, T:0.25
Consensus pattern (32 bp):
CCGTGTGAAATCATGCAAAGTGTGTGGATAGA
Found at i:14070020 original size:49 final size:47
Alignment explanation
Indices: 14069874--14070020 Score: 136
Period size: 49 Copynumber: 3.0 Consensus size: 47
14069864 CAGCCTTGTT
* **
14069874 AAATCATGCAAGGTGTGTGGGTAGACTGTGTGGACCACA-CGATCGTGTG
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGA--ACAGC-AGGGTGTG
* * *
14069923 AAATCATGCAAGGTGTGTGGGTAAACCATGTGGACCA-CACGGCCGTGTG
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGAACAGCA-GG--GTGTG
* *
14069972 AAATCATGCAAAGTGTGTGGATAGACCGTGTGGAATCATGCAGGGTGTG
1 AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGAA-CA-GCAGGGTGTG
14070021 TGGGTAGACC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
46 1 0.01
47 3 0.04
49 71 0.88
50 2 0.02
51 2 0.02
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (47 bp):
AAATCATGCAAGGTGTGTGGGTAGACCGTGTGGAACAGCAGGGTGTG
Found at i:14070727 original size:20 final size:20
Alignment explanation
Indices: 14070684--14070733 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14070674 AAGACATGAT
**
14070684 ATGTTATGATATGATTCGTT
1 ATGTTATGATATGATTCGAC
*
14070704 ATGTTATGATATGATTTGAC
1 ATGTTATGATATGATTCGAC
*
14070724 ATGTTTTGAT
1 ATGTTATGAT
14070734 TTACGGTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (20 bp):
ATGTTATGATATGATTCGAC
Found at i:14072719 original size:17 final size:17
Alignment explanation
Indices: 14072697--14072729 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14072687 GTTTTAGGGA
14072697 TAAAATTGA-ATAAAATG
1 TAAAATT-ATATAAAATG
14072714 TAAAATTATATAAAAT
1 TAAAATTATATAAAAT
14072730 AGGAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAATTATATAAAATG
Found at i:14074201 original size:68 final size:68
Alignment explanation
Indices: 14074120--14074250 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 68
14074110 TTAAACTTAA
* * *
14074120 TCACTTTAATATTAAATTAATATAATATTTATTAAAA-AAATATTAGATTAAATTTAATATTAAG
1 TCACTTTAATATTAAATTAATAAAATA-ATATTAAAATAAATATTAAATTAAATTTAATATTAAG
14074184 ATAT
65 ATAT
* *
14074188 TCACTTTACTATTAAATTAATAAAATAATATTAAAATAAGTATTAAATTAAATTTAATATTAA
1 TCACTTTAATATTAAATTAATAAAATAATATTAAAATAAATATTAAATTAAATTTAATATTAA
14074251 ACTATTAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 8 0.14
68 49 0.86
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (68 bp):
TCACTTTAATATTAAATTAATAAAATAATATTAAAATAAATATTAAATTAAATTTAATATTAAGA
TAT
Found at i:14077612 original size:15 final size:15
Alignment explanation
Indices: 14077574--14077613 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14077564 TAGCTCGCAC
*
14077574 ATAAACAGTTCGCAT
1 ATAAACAGTTCACAT
* *
14077589 ACAATCAGTTCACAT
1 ATAAACAGTTCACAT
14077604 ATAAACAGTT
1 ATAAACAGTT
14077614 TAGTGATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (15 bp):
ATAAACAGTTCACAT
Found at i:14078061 original size:24 final size:24
Alignment explanation
Indices: 14078029--14078074 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14078019 CGCTAGCAAT
*
14078029 AGAGCTCGCAATACAAAATTCAAA
1 AGAGATCGCAATACAAAATTCAAA
* *
14078053 AGAGATCGCAATATACAATTCA
1 AGAGATCGCAATACAAAATTCA
14078075 CATTGGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.20
Consensus pattern (24 bp):
AGAGATCGCAATACAAAATTCAAA
Done.