Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 94 of 325
Found at i:31058307 original size:5 final size:5
Alignment explanation
Indices: 31058297--31058357 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
31058287 ACAAGAAAAC
* * *
31058297 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAA-A AAAGA AAACA AAATA AAATAA
1 AAAGA AAAGA AAAG-A AAAGA AAAGA -AAAGA AAAGA AAAGA AAAGA AAA-GA
31058348 AAAGA AAAGA
1 AAAGA AAAGA
31058358 GAGGCAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.08
5 35 0.73
6 9 0.19
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:31058513 original size:18 final size:17
Alignment explanation
Indices: 31058427--31058513 Score: 54
Period size: 18 Copynumber: 5.1 Consensus size: 17
31058417 TTGAAAAACA
* *
31058427 AAAAGAACTTGAACGAG
1 AAAAGAAATTGAAAGAG
* *
31058444 AAAATAAAATTGAAAAAG
1 AAAA-GAAATTGAAAGAG
*
31058462 AAAGTGAAA--GAAA-AG
1 AAA-AGAAATTGAAAGAG
* *
31058477 AGAAAGAACTTGAACGAG
1 A-AAAGAAATTGAAAGAG
31058495 AAAAGACAATTGAAAGAG
1 AAAAGA-AATTGAAAGAG
31058513 A
1 A
31058514 GAGAGAGCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 12 0.23
18 28 0.54
ACGTcount: A:0.61, C:0.06, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAAGAAATTGAAAGAG
Found at i:31064071 original size:44 final size:44
Alignment explanation
Indices: 31064008--31064096 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
31063998 AACATGCCTC
*
31064008 CGCAAGTTCCTAATGAAAAATTCCTACGACTCGAAATTCTCCAA
1 CGCAAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAA
31064052 CGCAAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAA
1 CGCAAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAA
31064096 C
1 C
31064097 TCCACGATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (44 bp):
CGCAAGTTCCTAATGAAAAATTCCTACGACTCAAAATTCTCCAA
Found at i:31065336 original size:25 final size:27
Alignment explanation
Indices: 31065299--31065348 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
31065289 TCAAACATGC
31065299 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
31065325 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
31065349 TAAAACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:31066861 original size:26 final size:26
Alignment explanation
Indices: 31066825--31066882 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
31066815 CATGAAATTC
31066825 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31066851 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31066877 TTATCA
1 TTATCA
31066883 ATTTGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:31069326 original size:26 final size:26
Alignment explanation
Indices: 31069290--31069373 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
31069280 CATGAAATTC
31069290 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31069316 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
31069342 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
31069368 TTATCA
1 TTATCA
31069374 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:31070152 original size:13 final size:13
Alignment explanation
Indices: 31070134--31070167 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31070124 TCTGACTTAG
31070134 GTCACACGGCCAA
1 GTCACACGGCCAA
31070147 GTCACACGGCCAA
1 GTCACACGGCCAA
*
31070160 GCCACACG
1 GTCACACG
31070168 CATGTGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.41, G:0.24, T:0.06
Consensus pattern (13 bp):
GTCACACGGCCAA
Found at i:31071366 original size:25 final size:25
Alignment explanation
Indices: 31071335--31071415 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
31071325 GCCATAAACG
*
31071335 GGAAGCTTTTGAGAGCCATTAATCA
1 GGAAGCTTATGAGAGCCATTAATCA
* * *
31071360 GGAAGCTCATGCGAGCCAAT-ATCA
1 GGAAGCTTATGAGAGCCATTAATCA
*
31071384 GGAAGCTTCA-GAGAGCTATTAATC-
1 GGAAGCTT-ATGAGAGCCATTAATCA
31071408 GTGAAGCT
1 G-GAAGCT
31071416 CGTGAAAGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
GGAAGCTTATGAGAGCCATTAATCA
Found at i:31071377 original size:49 final size:48
Alignment explanation
Indices: 31071305--31071416 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 48
31071295 TAGGCGCATG
* * * **
31071305 TAATCGGAAAGCTCTTTCGAGCC-ATAAACGGGAAGCTTTTGAGAGCCAT
1 TAATCGG-AAGCTCATGCGAGCCAAT-AACAGGAAGCTTCAGAGAGCCAT
* *
31071354 TAATCAGGAAGCTCATGCGAGCCAATATCAGGAAGCTTCAGAGAGCTAT
1 TAATC-GGAAGCTCATGCGAGCCAATAACAGGAAGCTTCAGAGAGCCAT
31071403 TAATCGTGAAGCTC
1 TAATCG-GAAGCTC
31071417 GTGAAAGCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.02
49 48 0.91
50 4 0.08
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (48 bp):
TAATCGGAAGCTCATGCGAGCCAATAACAGGAAGCTTCAGAGAGCCAT
Found at i:31071426 original size:49 final size:50
Alignment explanation
Indices: 31071335--31071437 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 50
31071325 GCCATAAACG
** **
31071335 GGAAGCTTTTGAGAGCCATTAATCAGGAAGCTCATGCGAGCC-AATATCA
1 GGAAGCTTCAGAGAGCCATTAATCAGGAAGCTCATGAAAGCCAAATATCA
* * *
31071384 GGAAGCTTCAGAGAGCTATTAATC-GTGAAGCTCGTGAAAGCCAAATATTA
1 GGAAGCTTCAGAGAGCCATTAATCAG-GAAGCTCATGAAAGCCAAATATCA
31071434 GGAA
1 GGAA
31071438 ACTCATATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.02
49 34 0.76
50 10 0.22
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (50 bp):
GGAAGCTTCAGAGAGCCATTAATCAGGAAGCTCATGAAAGCCAAATATCA
Found at i:31071497 original size:25 final size:24
Alignment explanation
Indices: 31071433--31071498 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
31071423 GCCAAATATT
*
31071433 AGGAAACTCATATGAGCCATAAAC
1 AGGAAACTCATAAGAGCCATAAAC
*
31071457 AAGAAACTCA-AGAGAGCCATATAAC
1 AGGAAACTCATA-AGAGCCATA-AAC
31071482 -GGAACACTCATAAGAGC
1 AGGAA-ACTCATAAGAGC
31071499 TGTGGTGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 20 0.57
25 13 0.37
26 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (24 bp):
AGGAAACTCATAAGAGCCATAAAC
Found at i:31077717 original size:18 final size:19
Alignment explanation
Indices: 31077680--31077716 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31077670 TATTTAATAC
31077680 TAATAT-ATATTTTTATTT
1 TAATATAATATTTTTATTT
31077698 TAATATAATATTTTTATTT
1 TAATATAATATTTTTATTT
31077717 ATATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATATAATATTTTTATTT
Found at i:31077722 original size:19 final size:20
Alignment explanation
Indices: 31077667--31077722 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 20
31077657 TTTTTTTTGG
31077667 TTTTATTTAATACTAATATATAT
1 TTTTATTT-ATA-T-ATATATAT
31077690 TTTTATTT-TA-ATATAATAT
1 TTTTATTTATATATAT-ATAT
31077709 TTTTATTTATATAT
1 TTTTATTTATATAT
31077723 TTTTAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 2 0.07
21 4 0.13
23 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTTATATATATATAT
Found at i:31077737 original size:14 final size:14
Alignment explanation
Indices: 31077695--31077737 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
31077685 TATATTTTTA
* *
31077695 TTTTAATATAATAT
1 TTTTAATTTATTAT
31077709 TTTT-ATTTATATAT
1 TTTTAATTTAT-TAT
31077723 TTTTAATTTATTAT
1 TTTTAATTTATTAT
31077737 T
1 T
31077738 ATATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 4 0.16
14 15 0.60
15 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTAATTTATTAT
Found at i:31077739 original size:21 final size:22
Alignment explanation
Indices: 31077707--31077748 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
31077697 TTAATATAAT
31077707 ATTTTTATTTATAT-ATTTTTA
1 ATTTTTATTTATATAATTTTTA
31077728 ATTTATTA-TTATATAATTTTT
1 ATTT-TTATTTATATAATTTTT
31077749 GAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTTATTTATATAATTTTTA
Found at i:31077757 original size:23 final size:21
Alignment explanation
Indices: 31077715--31077757 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31077705 ATATTTTTAT
**
31077715 TTATATATTTTTAATTTATTA
1 TTATATATTTTTAAAATATTA
31077736 TTATATAATTTTTGAAAATATT
1 TTATAT-ATTTTT-AAAATATT
31077758 TATGTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATATATTTTTAAAATATTA
Found at i:31081124 original size:23 final size:23
Alignment explanation
Indices: 31081094--31081150 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
31081084 TTGATATAAT
* *
31081094 AAATAATAATATTATTAAAAATC
1 AAATAATAATAGTATCAAAAATC
* *
31081117 AAATAATAAAAGTATCAAACATC
1 AAATAATAATAGTATCAAAAATC
31081140 AAATAATAATA
1 AAATAATAATA
31081151 AAAATCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATAATAATAGTATCAAAAATC
Found at i:31081162 original size:24 final size:23
Alignment explanation
Indices: 31081114--31081162 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
31081104 ATTATTAAAA
**
31081114 ATCAAATAATAAAAGTATCAAAC
1 ATCAAATAATAAAAAAATCAAAC
31081137 ATCAAATAATAATAAAAATCAAAC
1 ATCAAATAATAA-AAAAATCAAAC
31081161 AT
1 AT
31081163 AACAGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
ATCAAATAATAAAAAAATCAAAC
Found at i:31089368 original size:16 final size:16
Alignment explanation
Indices: 31089349--31089379 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31089339 GAAGAAATTC
31089349 AGAAGAATAGAAGTTT
1 AGAAGAATAGAAGTTT
31089365 AGAAGAATAGAAGTT
1 AGAAGAATAGAAGTT
31089380 AGGGTTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (16 bp):
AGAAGAATAGAAGTTT
Found at i:31094593 original size:26 final size:26
Alignment explanation
Indices: 31094557--31094666 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
31094547 CATGAAATTC
31094557 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31094583 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
31094609 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
31094635 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
31094661 TTATCA
1 TTATCA
31094667 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:31096542 original size:20 final size:20
Alignment explanation
Indices: 31096499--31096542 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31096489 ACGCCCATGT
* *
31096499 GGCCTGGGACATGTCCGTGT
1 GGCCTGGAACATGTCCGTGA
31096519 GGCCTGGAACATGGT-CGTGA
1 GGCCTGGAACAT-GTCCGTGA
31096539 GGCC
1 GGCC
31096543 AGGCCGTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.14, C:0.25, G:0.41, T:0.20
Consensus pattern (20 bp):
GGCCTGGAACATGTCCGTGA
Found at i:31098857 original size:18 final size:18
Alignment explanation
Indices: 31098836--31098869 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31098826 CTATGAAATA
31098836 AAAAAAT-TTAAAAATTT
1 AAAAAATATTAAAAATTT
31098853 AAAAAATATTAAAAATT
1 AAAAAATATTAAAAATT
31098870 ATTCTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATATTAAAAATTT
Found at i:31109181 original size:27 final size:27
Alignment explanation
Indices: 31109143--31109204 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
31109133 GTAAAGACTT
31109143 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
31109170 AACATTGAATTCAAGCATTTTGTAGAA
1 AACATTGAATTCAAGCATTTTGTAGAA
*
31109197 CACATTGA
1 AACATTGA
31109205 GAGCTTTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (27 bp):
AACATTGAATTCAAGCATTTTGTAGAA
Found at i:31109538 original size:3 final size:3
Alignment explanation
Indices: 31109530--31109575 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
31109520 CTATTTTTTC
* * *
31109530 TCT TCT TCT TCT TCT CCT T-T TCT TCT TCT TCT TCC TCT TTT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
31109576 CTTTTCTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:31109555 original size:20 final size:21
Alignment explanation
Indices: 31109530--31109575 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
31109520 CTATTTTTTC
31109530 TCTTCTTCTTCTT-CTCCTTT
1 TCTTCTTCTTCTTCCTCCTTT
*
31109550 TCTTCTTCTTCTTCCTCTTTT
1 TCTTCTTCTTCTTCCTCCTTT
31109571 TCTTC
1 TCTTC
31109576 CTTTTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTTCTTCTTCTTCCTCCTTT
Found at i:31109573 original size:12 final size:12
Alignment explanation
Indices: 31109529--31109582 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
31109519 TCTATTTTTT
31109529 CTCTTCTTCTTC
1 CTCTTCTTCTTC
* *
31109541 TTCTCCTT-TTC
1 CTCTTCTTCTTC
*
31109552 TTCTTCTTCTTC
1 CTCTTCTTCTTC
*
31109564 CTCTTTTTCTTC
1 CTCTTCTTCTTC
*
31109576 CTTTTCT
1 CTCTTCT
31109583 CTTTTTAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 10 0.29
12 24 0.71
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
CTCTTCTTCTTC
Found at i:31119955 original size:5 final size:5
Alignment explanation
Indices: 31119945--31119984 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
31119935 TCTTCATTCT
31119945 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
31119985 TTCTGATCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:31130786 original size:12 final size:12
Alignment explanation
Indices: 31130759--31130790 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
31130749 TTCCCTGTAA
31130759 AATAGTAAAAAT
1 AATAGTAAAAAT
31130771 -ATAGTAAAAAT
1 AATAGTAAAAAT
31130782 AATAGTAAA
1 AATAGTAAA
31130791 GGGGAAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:31131731 original size:20 final size:20
Alignment explanation
Indices: 31131693--31131740 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
31131683 TAAATTCTAA
* **
31131693 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
31131713 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
31131733 AAA-ATAAA
1 AAAGATAAA
31131741 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:31133159 original size:10 final size:9
Alignment explanation
Indices: 31133144--31133214 Score: 69
Period size: 10 Copynumber: 7.9 Consensus size: 9
31133134 TTAATATCTG
31133144 AAAAT-AAT
1 AAAATAAAT
31133152 -AAAT-AAT
1 AAAATAAAT
31133159 AAAAT-AAT
1 AAAATAAAT
*
31133167 AAGAAAAAAT
1 AA-AATAAAT
31133177 AAAATAAAAT
1 AAAAT-AAAT
31133187 AAAATAAAAT
1 AAAAT-AAAT
31133197 AAAATAAAAT
1 AAAAT-AAAT
31133207 AAAATAAA
1 AAAATAAA
31133215 AATAAAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.12
8 9 0.16
9 7 0.12
10 34 0.60
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.20
Consensus pattern (9 bp):
AAAATAAAT
Found at i:31133180 original size:5 final size:5
Alignment explanation
Indices: 31133156--31133221 Score: 93
Period size: 5 Copynumber: 13.4 Consensus size: 5
31133146 AATAATAAAT
31133156 AATAA AAT-- AATAA GAA-AA AATAA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA
31133204 AATAA AATAAA AATAA AA
1 AATAA AAT-AA AATAA AA
31133222 ATTAGGTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.05
4 2 0.04
5 44 0.79
6 7 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:31135853 original size:12 final size:12
Alignment explanation
Indices: 31135836--31135867 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
31135826 TTCCCTGTAA
31135836 AATAGTAAAAAT
1 AATAGTAAAAAT
31135848 AATAGTAAAAAT
1 AATAGTAAAAAT
31135860 AATAGTAA
1 AATAGTAA
31135868 CGGGGAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:31136809 original size:20 final size:20
Alignment explanation
Indices: 31136771--31136818 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
31136761 TAAATTCTAA
* **
31136771 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
31136791 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
31136811 AAA-ATAAA
1 AAAGATAAA
31136819 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:31136862 original size:15 final size:15
Alignment explanation
Indices: 31136842--31136871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31136832 ATAATTCTAA
*
31136842 TAATTATCTTAATAT
1 TAATTATCCTAATAT
31136857 TAATTATCCTAATAT
1 TAATTATCCTAATAT
31136872 AAATGAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:31139087 original size:16 final size:16
Alignment explanation
Indices: 31139068--31139100 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31139058 CCTCGACGAC
*
31139068 TTTTGCTTTCGACAAT
1 TTTTGCTTTCAACAAT
31139084 TTTTGCTTTCAACAAT
1 TTTTGCTTTCAACAAT
31139100 T
1 T
31139101 CGCTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (16 bp):
TTTTGCTTTCAACAAT
Found at i:31142504 original size:29 final size:29
Alignment explanation
Indices: 31142451--31142508 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
31142441 ACAATCAAAC
* *
31142451 TTTATTTTATTTTATAATTTGGCCCATTAT
1 TTTATTTTAATTTATAATTTAGCCC-TTAT
31142481 TTTATTTTAATTT-TAATTTAGCCCTTAT
1 TTTATTTTAATTTATAATTTAGCCCTTAT
31142509 GGCTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTATTTTAATTTATAATTTAGCCCTTAT
Found at i:31142820 original size:12 final size:12
Alignment explanation
Indices: 31142803--31142840 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
31142793 TCATAATTAT
31142803 TATTTTTATATA
1 TATTTTTATATA
31142815 TA-TTTTAT-TA
1 TATTTTTATATA
*
31142825 TATTTTTACATA
1 TATTTTTATATA
31142837 TATT
1 TATT
31142841 ATATATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 4 0.17
11 11 0.48
12 8 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTTATATA
Found at i:31142824 original size:20 final size:22
Alignment explanation
Indices: 31142798--31142923 Score: 76
Period size: 22 Copynumber: 5.3 Consensus size: 22
31142788 TTCTCTCATA
*
31142798 ATTATTATTTTTATATATATTTT
1 ATTA-TATTTTTACATATATTTT
31142821 ATTATATTTTTACATATATTATAT
1 ATTATATTTTTACATATATT-T-T
**
31142845 ATACATATTATTTTTACATATAAATT
1 AT---TA-TATTTTTACATATATTTT
* * *
31142871 -TT-CATTATTACATGCTATATTT
1 ATTATATTTTTACAT-ATAT-TTT
*
31142893 ATTATATTATTTCCCATATATTTT
1 ATTATATT-TTT-ACATATATTTT
31142917 ATTATAT
1 ATTATAT
31142924 AATATTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
20 9 0.11
21 2 0.03
22 18 0.23
23 7 0.09
24 16 0.20
25 6 0.08
26 4 0.05
27 3 0.04
28 14 0.18
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (22 bp):
ATTATATTTTTACATATATTTT
Found at i:31142831 original size:22 final size:23
Alignment explanation
Indices: 31142798--31142880 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 23
31142788 TTCTCTCATA
*
31142798 ATTATTATTTTTATATATATTTT
1 ATTATTATTTTTACATATATTTT
31142821 ATTA-TATTTTTACATATATTATAT
1 ATTATTATTTTTACATATATT-T-T
31142845 ATACATATTATTTTTACATATAAATTTT
1 AT---TATTATTTTTACATAT--ATTTT
31142873 CATTATTA
1 -ATTATTA
31142881 CATGCTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
22 15 0.30
23 5 0.10
24 3 0.06
26 5 0.10
27 2 0.04
28 14 0.28
29 3 0.06
30 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTATTTTTACATATATTTT
Found at i:31143019 original size:20 final size:19
Alignment explanation
Indices: 31142994--31143036 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31142984 ACATATTACC
31142994 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
31143014 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
31143033 AATT
1 AATT
31143037 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:31143227 original size:7 final size:7
Alignment explanation
Indices: 31143215--31143240 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31143205 AAATTCTTGT
31143215 TATTATA
1 TATTATA
31143222 TATTATA
1 TATTATA
31143229 TATTATA
1 TATTATA
31143236 TATTA
1 TATTA
31143241 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:31143468 original size:30 final size:30
Alignment explanation
Indices: 31143434--31143492 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31143424 CTTCTATTTG
* * *
31143434 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
31143464 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
31143493 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:31147024 original size:15 final size:15
Alignment explanation
Indices: 31146990--31147034 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
31146980 ATATTCTTTA
31146990 TGCAT-TCATGCATT
1 TGCATCTCATGCATT
31147004 TGCATCTCATGGCATT
1 TGCATCTCAT-GCATT
*
31147020 T-CATCACAT-CATT
1 TGCATCTCATGCATT
31147033 TG
1 TG
31147035 TATTCAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 11 0.41
16 6 0.22
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (15 bp):
TGCATCTCATGCATT
Found at i:31155221 original size:119 final size:119
Alignment explanation
Indices: 31155005--31155722 Score: 999
Period size: 119 Copynumber: 6.0 Consensus size: 119
31154995 TAAGCCGCAG
* * *
31155005 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAATATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAAC-TTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGT
*
31155069 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* * *
31155124 TATAACAGATCTAAACTTCAGATGTTTATACTAAAACAGATCCAAGATGAATTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
31155189 TTTACAAGAAACAAATCTCA-GACATAGTAGATTTGACTCTCAGACGTTCTCAAA
66 TTTACAAGAAACAAATC-GAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* *
31155243 TATAGCAAATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
31155308 TTTACAAGGAACAAATCAAGGATATAACAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * * * **
31155364 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGT
* *
31155429 GTTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* * * *
31155484 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGGTCTAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
31155549 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * * **
31155605 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGT
*
31155670 GTTTACAAGAAACAAATCGATGACATAGCAGATTTGACTCTCAGATGTTCTCA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
31155723 AACAGACTCA
Statistics
Matches: 540, Mismatches: 50, Indels: 15
0.89 0.08 0.02
Matches are distributed among these distances:
118 1 0.00
119 286 0.53
120 37 0.07
121 67 0.12
122 149 0.28
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
Found at i:31155517 original size:241 final size:240
Alignment explanation
Indices: 31155005--31155724 Score: 1151
Period size: 241 Copynumber: 3.0 Consensus size: 240
31154995 TAAGCCGCAG
*
31155005 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAATATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAGC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * * * **
31155069 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAG--ATATAACAG
65 GTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAG
* ** * **
31155132 ATCTAAACTTCAGATGTTTATACT-AAAACAGATCCAAGATGAATTGGTATTCTTGTGTTTACAA
130 ATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAA
* *
31155196 GAAACAAATCTCAGACATAGTAGATTTGACTCTCAGACGTTCTCAAA
195 GAAACAAATC-GAGACATAGTAGATTTGACTCTCAGATGTTCTCAAA
* *
31155243 TATAGCAAATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
31155308 TTTACAAGGAACAAATCAAGGATATAACAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
*
31155373 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCTAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
* *
31155438 GAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCAGA
196 AAACAAATCGA-GACATAGTAGATTTGACTCTCAGATGTTCTCAAA
* *
31155484 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGGTCTAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
31155549 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
31155614 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
31155679 AAACAAATCGATGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
196 AAACAAATCGA-GACATAGTAGATTTGACTCTCAGATGTTCTCAAA
31155725 CAGACTCAAG
Statistics
Matches: 444, Mismatches: 33, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
238 107 0.24
239 2 0.00
240 30 0.07
241 305 0.69
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (240 bp):
TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
AAACAAATCGAGACATAGTAGATTTGACTCTCAGATGTTCTCAAA
Found at i:31157527 original size:18 final size:18
Alignment explanation
Indices: 31157460--31157548 Score: 67
Period size: 18 Copynumber: 4.9 Consensus size: 18
31157450 TAAGTGTTAT
* *
31157460 TTTTTATATGTATTATGA
1 TTTTTATATATATTATTA
31157478 TTGTTTAT-TATA-TATTA
1 TT-TTTATATATATTATTA
* * *
31157495 ATTCTCTCATA-ATTATTA
1 TTTTTAT-ATATATTATTA
31157513 TTTTTATATATATTATTATA
1 TTTTTATATATATTA-T-TA
*
31157533 TTTTTACATATATTAT
1 TTTTTATATATATTAT
31157549 ATATACATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.05
17 9 0.16
18 20 0.36
19 7 0.13
20 16 0.29
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:31157536 original size:20 final size:20
Alignment explanation
Indices: 31157506--31157552 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31157496 TTCTCTCATA
*
31157506 ATTATTATTTTTATATATATT
1 ATTA-TATTTTTACATATATT
31157527 ATTATATTTTTACATATATT
1 ATTATATTTTTACATATATT
31157547 A-TATAT
1 ATTATAT
31157553 ACATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATATTTTTACATATATT
Found at i:31157933 original size:7 final size:7
Alignment explanation
Indices: 31157921--31157946 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31157911 ATATTCTTGT
31157921 TATTATA
1 TATTATA
31157928 TATTATA
1 TATTATA
31157935 TATTATA
1 TATTATA
31157942 TATTA
1 TATTA
31157947 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:31158176 original size:30 final size:30
Alignment explanation
Indices: 31158142--31158200 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31158132 CTTCTATTTG
* * *
31158142 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
31158172 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
31158201 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:31159477 original size:23 final size:24
Alignment explanation
Indices: 31159450--31159503 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
31159440 TTATTGTGGC
*
31159450 ATATTATTG-TGT-ATTGTTTTGTT
1 ATATTATTGTTGTGA-TGTATTGTT
*
31159473 CTATT-TTGTTGTGATGTATTGTT
1 ATATTATTGTTGTGATGTATTGTT
31159496 ATATTATT
1 ATATTATT
31159504 ATTTTCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 19 0.76
24 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.63
Consensus pattern (24 bp):
ATATTATTGTTGTGATGTATTGTT
Found at i:31160108 original size:127 final size:127
Alignment explanation
Indices: 31159789--31160111 Score: 430
Period size: 127 Copynumber: 2.5 Consensus size: 127
31159779 GAAAATTCCT
* * * *
31159789 TAAAACCAAGACAATATTCGATGTTTGAAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
1 TAAAA-CAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
* ** *
31159854 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTTACTCGTGTTTTCTAAATCC
65 GTTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * *
31159917 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGAGATTCGTGGCCTATCGTGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
* * * * *
31159982 TTTCCCGTTTGCCCAAAATAGTCGAATATTTCTTTGGGATTTCACTCGTGTTTTCTAAATTC
66 TTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * *
31160044 TAAGATAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCTATCATGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
31160109 TTT
66 TTT
31160112 TTCATTGGAC
Statistics
Matches: 167, Mismatches: 28, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
127 162 0.97
128 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGG
TTTCCCGTTTGCCCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:31162598 original size:5 final size:5
Alignment explanation
Indices: 31162573--31162660 Score: 60
Period size: 5 Copynumber: 17.6 Consensus size: 5
31162563 TAAAAATAAT
*
31162573 ATATA ATAT- ATATTA AAATA ATATA ATATA ATGGATA ATAT- ATATA
1 ATATA ATATA ATA-TA ATATA ATATA ATATA AT--ATA ATATA ATATA
* * *
31162619 ATA-A A-ATG ATATAA TATATA ATAAA ATATA A-ACA ATATA ATA
1 ATATA ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA ATA
31162661 AACAATGGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
3 1 0.02
4 13 0.20
5 39 0.60
6 3 0.05
7 9 0.14
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:31162598 original size:20 final size:18
Alignment explanation
Indices: 31162573--31162695 Score: 80
Period size: 17 Copynumber: 6.8 Consensus size: 18
31162563 TAAAAATAAT
31162573 ATATAATATATATTAAAATA
1 ATATAATATA-A-TAAAATA
**
31162593 ATATAATATAAT-GGATA
1 ATATAATATAATAAAATA
*
31162610 ATAT-ATATAATAAAATG
1 ATATAATATAATAAAATA
31162627 ATATAATAT-ATAATAA-A
1 ATATAATATAATAA-AATA
* *
31162644 ATATAA-ACAATATAATA
1 ATATAATATAATAAAATA
*
31162661 A-ACAATGGATAAGTAAAAATA
1 ATATAAT--ATAA-T-AAAATA
31162682 ATAT-ATATAATAAA
1 ATATAATATAATAAA
31162696 TTATTTATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 25
0.68 0.10 0.21
Matches are distributed among these distances:
16 13 0.16
17 31 0.39
18 8 0.10
19 8 0.10
20 11 0.14
21 8 0.10
22 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
ATATAATATAATAAAATA
Found at i:31162639 original size:17 final size:20
Alignment explanation
Indices: 31162589--31162672 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 20
31162579 TATATATTAA
*
31162589 AATAATATAATATAATGGAT
1 AATAATATAATAAAATGGAT
*
31162609 AATATATATAATAAAATGATAT
1 AATA-ATATAATAAAATG-GAT
31162631 AAT-ATATAATAAAAT--AT
1 AATAATATAATAAAATGGAT
*
31162648 AAACAATATAATAAACAATGGAT
1 -AATAATATAAT-AA-AATGGAT
31162671 AA
1 AA
31162673 GTAAAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 7 0.13
20 18 0.34
21 15 0.28
22 7 0.13
23 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATATAATAAAATGGAT
Found at i:31162648 original size:32 final size:33
Alignment explanation
Indices: 31162568--31162648 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
31162558 AAAATTAAAA
* *
31162568 ATAAT-ATATAATATATATTAAAATAATATAAT
1 ATAATAATAAAATATATAATAAAATAATATAAT
* * *
31162600 ATAATGGATAATATATATAATAAAATGATATAAT
1 ATAAT-AATAAAATATATAATAAAATAATATAAT
31162634 AT-ATAATAAAATATA
1 ATAATAATAAAATATA
31162649 AACAATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 14 0.34
33 2 0.05
34 25 0.61
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (33 bp):
ATAATAATAAAATATATAATAAAATAATATAAT
Found at i:31163269 original size:17 final size:17
Alignment explanation
Indices: 31163247--31163290 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
31163237 CCACTAGGCT
31163247 GCACGCGCCCACGGGCC
1 GCACGCGCCCACGGGCC
31163264 GCACGCGCCCACGGGCC
1 GCACGCGCCCACGGGCC
*
31163281 ACACGCGCCC
1 GCACGCGCCC
31163291 CCTTACACGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.55, G:0.32, T:0.00
Consensus pattern (17 bp):
GCACGCGCCCACGGGCC
Found at i:31164423 original size:45 final size:46
Alignment explanation
Indices: 31164383--31164773 Score: 253
Period size: 45 Copynumber: 8.2 Consensus size: 46
31164373 GATCTGCTAC
*
31164383 CTTCGATCTG-TTCCCCGTCTAATGCAGAGATGCCAAATCTGTCAT
1 CTTCGATCTGCTTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
31164428 CTTCGATCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
1 CTTCGATC--TG--CT--TCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
**** * * * *
31164480 CTTCGATCTGCTTGGATGT-AAATACACGA-ATGTCAGATCTGTTAT
1 CTTCGATCTGCTTCCCCGTCTAATACA-GAGATGCCAAATCTGTCAT
* *
31164525 CTTCGACCTGC-TCCCCGTCTAATACAGAGATGCCAAATCTATCAT
1 CTTCGATCTGCTTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
* *** * * *** * *
31164570 CTTCGATCTTCTTCGATGT-AAACACACGA-ATATTAGATCTG-CTAC
1 CTTCGATCTGCTTCCCCGTCTAATACA-GAGATGCCAAATCTGTC-AT
* *
31164615 CTTCAATCTGC-TCCCTGTCTAATACAGAGATGCCAAATCTGTCAT
1 CTTCGATCTGCTTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
* *
31164660 CTTCGATCTTCGATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGTCAT
1 CTTCGATC-T-G--CT--TCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
*
31164712 CTTCGATTTCTTCGATTTACTCCCCGTC-AATACAGAGATGCCAAATCTG-CTAT
1 CTTCGA--TC-T-G--CT--TCCCCGTCTAATACAGAGATGCCAAATCTGTC-AT
31164765 CTTCGATCT
1 CTTCGATCT
31164774 ACATTGTCCC
Statistics
Matches: 271, Mismatches: 49, Indels: 47
0.74 0.13 0.13
Matches are distributed among these distances:
44 13 0.05
45 107 0.39
46 13 0.05
47 3 0.01
48 2 0.01
50 4 0.01
51 2 0.01
52 80 0.30
53 29 0.11
54 18 0.07
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (46 bp):
CTTCGATCTGCTTCCCCGTCTAATACAGAGATGCCAAATCTGTCAT
Found at i:31164530 original size:142 final size:140
Alignment explanation
Indices: 31164305--31164579 Score: 397
Period size: 142 Copynumber: 1.9 Consensus size: 140
31164295 CTTCGATATG
* * * *
31164305 CTCCCCGTCTGATAGAGATGCCAAATCTATCATCTTTGATCTGTTTCAATGTAAACACACTAATA
1 CTCCCCGTCTAATAGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATGTAAACACACGAATA
* * * *
31164370 TCAGATCTGCTACCTTCGATCTGTTCCCCGTCTAATGCAGAGATGCCAAATCTGTCATCTTCGAT
66 TCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGAT
31164435 CTTTGATCTA
131 CTTTGATCTA
* ** *
31164445 CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTGGATGTAAATACACGAA
1 CTCCCCGTCTAAT--AGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATGTAAACACACGAA
* * *
31164510 TGTCAGATCTGTTATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCG
64 TATCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCG
31164575 ATCTT
129 ATCTT
31164580 CTTCGATGTA
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
140 12 0.10
142 106 0.90
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (140 bp):
CTCCCCGTCTAATAGAGATGCCAAATCTATCATCTTCGATCTGCTTCAATGTAAACACACGAATA
TCAGATCTGCTACCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGAT
CTTTGATCTA
Found at i:31164588 original size:90 final size:90
Alignment explanation
Indices: 31164445--31164670 Score: 353
Period size: 90 Copynumber: 2.5 Consensus size: 90
31164435 CTTTGATCTA
* * *
31164445 CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTGGATGTAAATACACGAA
1 CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCTTCGATGTAAACACACGAA
* * * *
31164510 TGTCAGATCTGTTATCTTCGACCTG
66 TATCAGATCTGCTACCTTCAACCTG
*
31164535 CTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTCGATCTTCTTCGATGTAAACACACGAA
1 CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCTTCGATGTAAACACACGAA
* *
31164600 TATTAGATCTGCTACCTTCAATCTG
66 TATCAGATCTGCTACCTTCAACCTG
*
31164625 CTCCCTGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTC
1 CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTC
31164671 GATTTGCTCC
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 124 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
CTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCTTCGATGTAAACACACGAA
TATCAGATCTGCTACCTTCAACCTG
Found at i:31164690 original size:232 final size:230
Alignment explanation
Indices: 31164278--31164718 Score: 704
Period size: 232 Copynumber: 1.9 Consensus size: 230
31164268 ATCTGCTTCA
* * *
31164278 AATGTCAGATCTGCTATCTTCGATATGCTCCCCGTCTGATAGAGATGCCAAATCTATCATCTTTG
1 AATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAATAGAGATGCCAAATCTATCATCTTCG
* * * *
31164343 ATCTGTTTCAATGTAAACACACTAATATCAGATCTGCTACCTTCGATCTGTTCCCCGTCTAATGC
66 ATCTGTTTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCTAATAC
* *
31164408 AGAGATGCCAAATCTGTCATCTTCGATCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAAAT
131 AGAGATGCCAAATCTGTCATCTTCGATCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAAT
31164473 CTGTCATCTTCGATCTGCTTGGATGTAAATACACG
196 CTGTCATCTTCGATCTGCTTGGATGTAAATACACG
* *
31164508 AATGTCAGATCTGTTATCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTT
1 AATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAAT--AGAGATGCCAAATCTATCATCTT
* * *
31164573 CGATCT-TCTTCGATGTAAACACACGAATATTAGATCTGCTACCTTCAATCTGCTCCCTGTCTAA
64 CGATCTGT-TTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCTAA
* *
31164637 TACAGAGATGCCAAATCTGTCATCTTCGATCTTCGATTTGCTCCCCATCTAATACAGAGATGCCA
128 TACAGAGATGCCAAATCTGTCATCTTCGATCTTCGATCTACTCCCCATCTAATACAGAGATGCCA
31164702 AATCTGTCATCTTCGAT
193 AATCTGTCATCTTCGAT
31164719 TTCTTCGATT
Statistics
Matches: 192, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
230 36 0.19
231 1 0.01
232 155 0.81
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (230 bp):
AATGTCAGATCTGCTATCTTCGACATGCTCCCCGTCTAATAGAGATGCCAAATCTATCATCTTCG
ATCTGTTTCAATGTAAACACACGAATATCAGATCTGCTACCTTCAATCTGCTCCCCGTCTAATAC
AGAGATGCCAAATCTGTCATCTTCGATCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAAT
CTGTCATCTTCGATCTGCTTGGATGTAAATACACG
Found at i:31164701 original size:52 final size:52
Alignment explanation
Indices: 31164623--31164773 Score: 234
Period size: 52 Copynumber: 2.9 Consensus size: 52
31164613 ACCTTCAATC
*
31164623 TGCTCCCTGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCGATT
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCGATT
*
31164675 TGCTCCCCATCTAATACAGAGATGCCAAATCTGTCATCTTCGATTTCTTCGATT
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGA--TCTTCGATT
*
31164729 TACTCCCCGTC-AATACAGAGATGCCAAATCTG-CTATCTTCGATCT
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC-ATCTTCGATCT
31164774 ACATTGTCCC
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
51 3 0.03
52 42 0.46
53 29 0.32
54 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (52 bp):
TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTTCGATT
Found at i:31176822 original size:5 final size:5
Alignment explanation
Indices: 31176793--31176922 Score: 87
Period size: 5 Copynumber: 26.2 Consensus size: 5
31176783 AAAATTAAAC
* *
31176793 ATAAT AATAA- ATAAT AATAAA ATAAT ATAAT ATAAT AT-AT ATTAAA
1 ATAAT -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT
*
31176839 ATAAT ATAAT ATAAT GGATAAT AT-AT ATAAT A-AA- ATGAT ATAAT AT-AT
1 ATAAT ATAAT ATAAT --ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
31176887 AATAAA AT-AT ATAAAT AAAAT ATAA- ACAAT ATAAT A
1 -ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT A
31176923 AAAAATGCAT
Statistics
Matches: 98, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
3 1 0.01
4 22 0.22
5 56 0.57
6 14 0.14
7 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:31176844 original size:20 final size:18
Alignment explanation
Indices: 31176793--31176957 Score: 102
Period size: 17 Copynumber: 9.4 Consensus size: 18
31176783 AAAATTAAAC
*
31176793 ATAATAATA-AATAATAAT
1 ATAATAAAATAAT-ATAAT
* *
31176811 AAAATAATATAATATAAT
1 ATAATAAAATAATATAAT
31176829 ATATATTAAAATAATATAAT
1 ATA-A-TAAAATAATATAAT
**
31176849 ATAAT-GGATAATAT-AT
1 ATAATAAAATAATATAAT
*
31176865 ATAATAAAATGATATAAT
1 ATAATAAAATAATATAAT
31176883 AT-ATAATAA-AATAT-AT
1 ATAATAA-AATAATATAAT
* *
31176899 A-AATAAAATATAAACAAT
1 ATAATAAAATA-ATATAAT
31176917 ATAATAAAA-AATGCATAA-
1 ATAATAAAATAAT--ATAAT
*
31176935 GT-A-AAAATAATAT-AT
1 ATAATAAAATAATATAAT
31176950 ATAATAAA
1 ATAATAAA
31176958 TTATTTATAT
Statistics
Matches: 115, Mismatches: 15, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
14 1 0.01
15 5 0.04
16 20 0.17
17 31 0.27
18 27 0.23
19 15 0.13
20 16 0.14
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAAAATAATATAAT
Found at i:31176897 original size:32 final size:31
Alignment explanation
Indices: 31176817--31176957 Score: 117
Period size: 34 Copynumber: 4.3 Consensus size: 31
31176807 TAATAAAATA
* *
31176817 ATATAATATAATATATATTAAAATAATATAAT
1 ATATAATAAAATATATAATAAAAT-ATATAAT
* *
31176849 ATAATGGATAATATATATAATAAAATGATATAAT
1 AT-AT-AATAAAATATATAATAAAAT-ATATAAT
*
31176883 ATATAATAAAATATATAAATAAAATATA-AACA
1 ATATAATAAAATATAT-AATAAAATATATAA-T
*
31176915 ATATAATAAAAAATGCATAAGTAAAA-ATA-ATAT
1 ATATAATAAAATAT--ATAA-TAAAATATATA-AT
31176948 ATATAATAAA
1 ATATAATAAA
31176958 TTATTTATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.02
32 28 0.31
33 28 0.31
34 33 0.36
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (31 bp):
ATATAATAAAATATATAATAAAATATATAAT
Found at i:31176908 original size:25 final size:25
Alignment explanation
Indices: 31176796--31176910 Score: 101
Period size: 25 Copynumber: 4.5 Consensus size: 25
31176786 ATTAAACATA
31176796 ATAAT-AAATA-ATAATAAAATAAT
1 ATAATAAAATATATAATAAAATAAT
* *
31176819 ATAATATAATATATATTAAAATAAT
1 ATAATAAAATATATAATAAAATAAT
* * *
31176844 ATAATATAATGGATAATATATATAATAAA
1 ATAATAAAAT--AT-ATA-ATAAAATAAT
* *
31176873 ATGATATAATATATAATAAAAT-AT
1 ATAATAAAATATATAATAAAATAAT
31176897 ATAAATAAAATATA
1 AT-AATAAAATATA
31176911 AACAATATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
23 5 0.07
24 7 0.09
25 37 0.49
26 3 0.04
27 4 0.05
28 3 0.04
29 16 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (25 bp):
ATAATAAAATATATAATAAAATAAT
Found at i:31176911 original size:59 final size:53
Alignment explanation
Indices: 31176803--31176904 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 53
31176793 ATAATAATAA
* *
31176803 ATAATAATAAAATAATATAATATAATATATATTAAAATAATATAATATAATGG
1 ATAATAATAAAATAAAATAATATAATATATAATAAAATAATATAATATAATGG
* *
31176856 ATAATATATATAATAAAATGATATAATATATAATAAAAT-ATATAA-ATAA
1 ATAATA-ATAAAATAAAATAATATAATATATAATAAAATAATATAATATAA
31176905 AATATAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 4 0.09
53 12 0.27
54 28 0.64
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (53 bp):
ATAATAATAAAATAAAATAATATAATATATAATAAAATAATATAATATAATGG
Found at i:31176957 original size:33 final size:31
Alignment explanation
Indices: 31176799--31176957 Score: 101
Period size: 32 Copynumber: 4.9 Consensus size: 31
31176789 AAACATAATA
* *
31176799 ATAAATAATAATA-AAATAATATAATATAATAT
1 ATAAATAA-AATATAAAT-ATATAATAAAAAAT
* * * *
31176831 AT-ATTAAAATA-ATATAATATAATGGATAATAT
1 ATAAATAAAATATAAAT-ATATAAT--AAAAAAT
*
31176863 ATATAATAAAATGATATAATATATAATAAAATAT
1 ATA-AATAAAAT-ATA-AATATATAATAAAAAAT
*
31176897 ATAAATAAAATATAAACAATATAATAAAAAAT
1 ATAAATAAAATATAAA-TATATAATAAAAAAT
*
31176929 GCATAAGTAAAA-ATAATATATATAATAAA
1 --ATAAATAAAATATAA-ATATATAATAAA
31176958 TTATTTATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
30 15 0.14
31 6 0.06
32 27 0.25
33 22 0.21
34 26 0.24
35 1 0.01
36 8 0.07
37 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (31 bp):
ATAAATAAAATATAAATATATAATAAAAAAT
Found at i:31177038 original size:26 final size:25
Alignment explanation
Indices: 31176985--31177056 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
31176975 ATGTTGTTAG
*
31176985 TAAAATAAATAATATATAAAATATT
1 TAAAATAAATAATATAAAAAATATT
*
31177010 TAAAATAAATAAATTTAAAAAATGA-T
1 TAAAATAAAT-AATATAAAAAAT-ATT
*
31177036 TAAAATTAAATGAAAATAAAA
1 TAAAA-TAAAT-AATATAAAA
31177057 CTCTAGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 10 0.26
26 16 0.41
27 13 0.33
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
TAAAATAAATAATATAAAAAATATT
Found at i:31186286 original size:17 final size:18
Alignment explanation
Indices: 31186235--31186393 Score: 207
Period size: 17 Copynumber: 8.8 Consensus size: 18
31186225 TCATATCTTT
*
31186235 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
31186254 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
31186272 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
31186289 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
31186307 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
31186324 AAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
31186342 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
31186359 TAAGATTGTATATCACATC
1 TAAGATTG-CTATCATATC
31186378 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
31186394 TGAAGATTAT
Statistics
Matches: 123, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
17 47 0.38
18 47 0.38
19 29 0.24
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:31186290 original size:35 final size:35
Alignment explanation
Indices: 31186235--31186385 Score: 248
Period size: 35 Copynumber: 4.2 Consensus size: 35
31186225 TCATATCTTT
31186235 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
31186272 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
31186307 TAAGATTGTATCATATCAAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
* *
31186342 TAAGATTGTATCATATCTAAGATTGTATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
31186378 TAAGATTG
1 TAAGATTG
31186386 CATATCATTG
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 86 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:31187181 original size:207 final size:207
Alignment explanation
Indices: 31186724--31187637 Score: 1481
Period size: 207 Copynumber: 4.4 Consensus size: 207
31186714 AAACCTGCTT
* * * *
31186724 CTTCAATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
** * * *
31186789 GCAAAAGTCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
31186854 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCT-CTCATCCATCGAATA
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTAC-CCTCCATCGAATA
* *
31186917 TGGAAACGCTAAA
195 TGGAGACGCCAAA
31186930 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
31186995 GTGAAAGCCAAATCAGCTATGTCTTCAATTTTTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
31187060 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTGTCTACCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTACCCTCCATCGAATAT
31187125 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
31187137 CTTTGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
31187202 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
31187267 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTACCCTCCATCGAATAT
31187332 GGAGACGCCAAA
196 GGAGACGCCAAA
31187344 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
31187409 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAACCACAAGGATGCCAATCCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
31187474 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTACCCTCCGTTGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTACCCTCCATCGAATAT
*
31187539 GGAGACGCTAAA
196 GGAGACGCCAAA
* * * *
31187551 CTTCTATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
31187616 GTGAAAGCCAAATCAGCTATGT
66 GTGAAAGCCAAATCAGCTATGT
31187638 TTTTTATTTG
Statistics
Matches: 665, Mismatches: 41, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
206 124 0.19
207 540 0.81
208 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTACCCTCCATCGAATAT
GGAGACGCCAAA
Found at i:31187871 original size:84 final size:86
Alignment explanation
Indices: 31187773--31187930 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 86
31187763 CTATACTTTA
* *
31187773 ACCTGTTACCCTACTGCTCAGGGGGTTAAGGC-G-CATCTTCGATCTGCTCCACTACTGCTTAGG
1 ACCTGTTACCCTACTGCTCAGGGGGTTAAGGCAGTCATCGTCGATCTGCTCCACTACTACTTAGG
31187836 GAGATAAGATCCGCAATTTTG
66 GAGATAAGATCCGCAATTTTG
* **
31187857 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCATCGTCGATCTGCTCTGCTACTACTTAG
1 ACCTGTTACCCTACTGCTCAGGGGGTTAAGGC-AGTCATCGTCGATCTGCTCCACTACTACTTAG
31187922 GGAGATAAG
65 GGAGATAAG
31187931 TTCTGTGAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 31 0.47
86 1 0.02
87 34 0.52
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (86 bp):
ACCTGTTACCCTACTGCTCAGGGGGTTAAGGCAGTCATCGTCGATCTGCTCCACTACTACTTAGG
GAGATAAGATCCGCAATTTTG
Found at i:31194726 original size:17 final size:18
Alignment explanation
Indices: 31194672--31194830 Score: 198
Period size: 17 Copynumber: 8.8 Consensus size: 18
31194662 TCATATCTTT
*
31194672 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
* *
31194691 TAATATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
31194709 TAAGATTG-TATTATATC
1 TAAGATTGCTATCATATC
*
31194726 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
31194744 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
31194761 AAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
31194779 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
31194796 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
31194815 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
31194831 TGAAGATTAT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
17 46 0.38
18 45 0.37
19 30 0.25
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:31194734 original size:35 final size:35
Alignment explanation
Indices: 31194672--31194822 Score: 239
Period size: 35 Copynumber: 4.2 Consensus size: 35
31194662 TCATATCTTT
*
31194672 TAAGATTGTATATCATATCTAATATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
*
31194709 TAAGATTGTATTATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
31194744 TAAGATTGTATCATATCAAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
31194779 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
31194815 TAAGATTG
1 TAAGATTG
31194823 CATATCATTG
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
35 84 0.79
36 15 0.14
37 8 0.07
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:31198654 original size:44 final size:44
Alignment explanation
Indices: 31198440--31198795 Score: 125
Period size: 44 Copynumber: 8.0 Consensus size: 44
31198430 TATCTCTCTG
* * * * **
31198440 AGGTAGAAAAAGAGCAGGTTGAAGATTAAAGTCTTATCTTCCCG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
* * * *
31198484 AGGTAGCAAG-GAAGTAGACTGAGGATTGAAGATCTTATCTCCCTA
1 AGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-TCTTATCTTCCTA
* ** * **
31198529 A-GCAATAATG-GAGCAGATCGAAGATGGTGAA-TCTTATCTTCCCG
1 AGGTAGCAA-GAGAGCAGATTGAAGAT--TGAAGTCTTATCTTCCTA
* * ** ***** * *
31198573 AGGTAGCAGGGGAGCAGATTTTAGCCACCAG-CTTTATC-TCTTTG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTC-TTATCTTC-CTA
*
31198617 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
*** * * ** ***** *
31198661 AGGTAGTGGGGGAGTAGATTTTAGCCACCAGCCTTATC-TCTCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTC-CTA
* * * * *
31198705 AGGTAGCGAGAGAACAGGTTGAAGATTGAAGTCTTATCTTCTTG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
* * *
31198749 AGGTAGCAAG-GAAGCAGATTGAAGATTGTAGATCTTGTCTCCCTA
1 AGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-TCTTATCTTCCTA
31198794 AG
1 AG
31198796 CAGTAGTGGA
Statistics
Matches: 212, Mismatches: 84, Indels: 31
0.65 0.26 0.09
Matches are distributed among these distances:
43 8 0.04
44 158 0.75
45 42 0.20
46 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
Found at i:31198673 original size:88 final size:88
Alignment explanation
Indices: 31198556--31198768 Score: 302
Period size: 88 Copynumber: 2.4 Consensus size: 88
31198546 TCGAAGATGG
* * * *
31198556 TGAA-TCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCTTTATCTCTTTGAGG
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
*
31198620 TAGCAAGAGAGCAGGTTGAAGAT
66 TAGCAAGAGAACAGGTTGAAGAT
* ** *
31198643 TGAAGTCTTATCTTCCTAAGGTAGTGGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
*
31198708 TAGCGAGAGAACAGGTTGAAGAT
66 TAGCAAGAGAACAGGTTGAAGAT
* * *
31198731 TGAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATT
1 TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATT
31198769 GAAGATTGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 4 0.04
88 104 0.96
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (88 bp):
TGAAGTCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
TAGCAAGAGAACAGGTTGAAGAT
Found at i:31198889 original size:88 final size:88
Alignment explanation
Indices: 31198773--31198970 Score: 290
Period size: 88 Copynumber: 2.2 Consensus size: 88
31198763 CAGATTGAAG
*
31198773 ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAA-TAGATCGAAGACGGTGAGCCTTAACCCCCT
1 ATTGTAGATCTTGTCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGACGGTGAGCCTTAACCCCCT
* * *
31198837 AAACAGTAGGGTAACAGGCTAAAA
65 AAACAATAAGGTAACAGGATAAAA
* * **
31198861 ATTGTGGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAGGGTGGTGAGCCTTAACCCCCTA
1 ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAGCCTTAACCCCCTA
*
31198926 AGCAATAAGGTAACAGGATAAAA
66 AACAATAAGGTAACAGGATAAAA
*
31198949 ATTATAGATCTTGTCTCCCTAA
1 ATTGTAGATCTTGTCTCCCTAA
31198971 AGTTGCAGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 3 0.03
88 95 0.97
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (88 bp):
ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAGCCTTAACCCCCTA
AACAATAAGGTAACAGGATAAAA
Found at i:31202184 original size:19 final size:19
Alignment explanation
Indices: 31202162--31202198 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
31202152 CATTATAAGC
31202162 AATAAA-TAACTCAATAACT
1 AATAAATTAACT-AATAACT
31202181 AATAAATTAACTAATAAC
1 AATAAATTAACTAATAAC
31202199 CTAGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAATTAACTAATAACT
Found at i:31204551 original size:19 final size:19
Alignment explanation
Indices: 31204527--31204624 Score: 160
Period size: 19 Copynumber: 5.1 Consensus size: 19
31204517 TCTTTAAGGT
31204527 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
31204546 TATGCAGTCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
31204565 TATGCAGTCTTAGATATGA
1 TATGCAATCTTAGATATGA
31204584 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
31204603 TATGCAATCTTGAAGATATGA
1 TATGCAATCTT--AGATATGA
31204624 T
1 T
31204625 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
19 66 0.88
21 9 0.12
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:31210297 original size:22 final size:21
Alignment explanation
Indices: 31210263--31210327 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 21
31210253 TTCTATTTCA
31210263 AAAAAAAGGAAAAAAAGAAAAG
1 AAAAAAA-GAAAAAAAGAAAAG
*
31210285 AAAAAGAGAAAAAAAGAAAAAG
1 AAAAAAAGAAAAAAAG-AAAAG
31210307 AAAAAAAGAGAAAAAAGAAAA
1 AAAAAAAGA-AAAAAAGAAAA
31210328 AATGGAGAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.23
22 23 0.59
23 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAGAAAAG
Found at i:31210299 original size:16 final size:14
Alignment explanation
Indices: 31210262--31210329 Score: 73
Period size: 16 Copynumber: 4.5 Consensus size: 14
31210252 CTTCTATTTC
*
31210262 AAAAAAAAGGAAAA
1 AAAAAAAAGAAAAA
*
31210276 AAAGAAAAGAAAAA
1 AAAAAAAAGAAAAA
31210290 GAGAAAAAAAGAAAAA
1 -A-AAAAAAAGAAAAA
31210306 GAAAAAAAGAGAAAAA
1 -AAAAAAA-AGAAAAA
31210322 AGAAAAAA
1 A-AAAAAA
31210330 TGGAGAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.26
15 8 0.17
16 27 0.57
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:31210335 original size:18 final size:17
Alignment explanation
Indices: 31210264--31210329 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
31210254 TCTATTTCAA
*
31210264 AAAAAAGGAAAAAAAGAAA
1 AAAAAA-GAAAAAAAG-AG
31210283 AGAAAAAGAGAAAAAA-AG
1 A-AAAAAGA-AAAAAAGAG
31210301 -AAAAAGAAAAAAAGAG
1 AAAAAAGAAAAAAAGAG
31210317 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
31210330 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.14
16 9 0.21
17 12 0.29
18 1 0.02
19 3 0.07
20 11 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAG
Found at i:31211335 original size:44 final size:44
Alignment explanation
Indices: 31211285--31211385 Score: 168
Period size: 44 Copynumber: 2.3 Consensus size: 44
31211275 AGCGCCTTAA
* *
31211285 TCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
*
31211329 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
31211373 T-CCCTAAGCAGTA
1 TCCCCTAAGCAGTA
31211386 TTGGAGCATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 12 0.22
44 42 0.78
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
Found at i:31211893 original size:220 final size:220
Alignment explanation
Indices: 31211444--31212455 Score: 1580
Period size: 220 Copynumber: 4.6 Consensus size: 220
31211434 AGGTTAAAGT
* * * *
31211444 ATAGCAGATCTGGCCTTCAGGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
31211509 TGTCAGATAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAC-G-GAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* ** *
31211572 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGATATTCGTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
31211637 TGTTTACAAGGAGCAAATCAAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* *
31211662 ATAGCAGATCTGACCTTTAGGTGTTTACAATGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
31211727 TGTCAGATAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGG
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * *
31211792 CATAACAGATCTGACCTTTGGATGTTTTCACATCGAAGCATATCCAAGATAATTTGGCATTCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
31211857 TGTTTACAAGGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* *
31211882 ATAGTAGATCTGACCTTCAGGTGTTTACACTGAAACAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
31211947 TGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
*
31212012 CATAGCAGATCTGACCTTTGGATGTTTTCACATCAAAGCAGATCCAAGATGATTTGGCATTCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
31212077 TGTTTACAAGGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* *
31212102 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTGTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
31212167 TGTCAGAGAACAAATTGAATAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* * * * *
31212232 CATAGCAGATCTGACCTTCGGATATTTTCACATTGAAGCAGATCCAAGATGATTTAGCATCCTTG
131 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
31212297 TGTTTACAAGGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* * * *
31212322 ATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATATCTATAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * ** * *** *
31212387 TGTCA-AGGAACGAATCGAAGGTAGTAGATTTGACATCTTTGTATTCGACGGAGAGAAGATCGAA
66 TGTCAGA-GAACAAATCGAA-GAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
31212451 AACAT
129 GACAT
31212456 CAACATGACA
Statistics
Matches: 733, Mismatches: 57, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
218 107 0.15
219 2 0.00
220 585 0.80
221 39 0.05
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (220 bp):
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAGCAAATCGAAGAC
Found at i:31212403 original size:87 final size:89
Alignment explanation
Indices: 31212224--31212406 Score: 216
Period size: 87 Copynumber: 2.1 Consensus size: 89
31212214 CGGAGAGCAG
* *
31212224 ATCGAAGACATAGCAGATCTGACCTTCGGATATTTTCACATTGAAGCAGATCCAAGATGATTTAG
1 ATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAGATGATTTAG
* * *
31212289 CATCCTTGTGTTTACAAGGAGCAA
66 CATCCTTATGTGTACAAGGAACAA
*
31212313 ATCGAAGACATAGCAGATCTGACCTTCAGG-T-GTTT-ACGCTGAAGCAGATCCAAGATGATTT-
1 ATCGAAGACATAGCAGATCTGACCTTC-GGATAGTTTCACACTGAAGCAGATCCAAGATGATTTA
* *
31212374 GACATATCTATAT-TGT-CAAGGAACGA
65 G-CAT-CCT-TATGTGTACAAGGAACAA
31212400 ATCGAAG
1 ATCGAAG
31212407 GTAGTAGATT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
86 1 0.01
87 42 0.51
88 7 0.09
89 30 0.37
90 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (89 bp):
ATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAGATGATTTAG
CATCCTTATGTGTACAAGGAACAA
Found at i:31212809 original size:19 final size:19
Alignment explanation
Indices: 31212785--31212865 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
31212775 AATCTTTAAG
31212785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
31212804 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
31212823 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31212842 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
31212863 GAT
1 GAT
31212866 CTTGTAATCT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 49 0.84
21 9 0.16
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31221336 original size:24 final size:24
Alignment explanation
Indices: 31221309--31221360 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
31221299 TTAGTAAGTC
*
31221309 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
31221333 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
31221357 AAAT
1 AAAT
31221361 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:31231142 original size:8 final size:9
Alignment explanation
Indices: 31231118--31231142 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31231108 GGGTGTTTCA
31231118 AAGAAAAAG
1 AAGAAAAAG
31231127 AAGAAAAAG
1 AAGAAAAAG
31231136 AAGAAAA
1 AAGAAAA
31231143 TGGGGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:31231518 original size:10 final size:10
Alignment explanation
Indices: 31231498--31231551 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
31231488 GGTGTTTTAA
31231498 TTTCATTTTTT
1 TTTC-TTTTTT
31231509 TTTCTTTTTT
1 TTTCTTTTTT
31231519 TTTCCTTTTTT
1 TTT-CTTTTTT
* **
31231530 CTATCTTTTCC
1 -TTTCTTTTTT
31231541 TTTCTTTTTT
1 TTTCTTTTTT
31231551 T
1 T
31231552 CCCTTTGGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 17 0.49
11 16 0.46
12 2 0.06
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:31231536 original size:22 final size:22
Alignment explanation
Indices: 31231498--31231552 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
31231488 GGTGTTTTAA
* **
31231498 TTTCATTTTTT-TTTCTTTTTT
1 TTTCATTTTTTCTATCTTTTCC
*
31231519 TTTCCTTTTTTCTATCTTTTCC
1 TTTCATTTTTTCTATCTTTTCC
*
31231541 TTTCTTTTTTTC
1 TTTCATTTTTTC
31231553 CCTTTGGGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCATTTTTTCTATCTTTTCC
Found at i:31231734 original size:17 final size:18
Alignment explanation
Indices: 31231691--31231736 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
31231681 GATTGGGTGG
*
31231691 TGGGTATTGGGTTGATTT
1 TGGGTATTGGGTTGATTA
*
31231709 TGGGT-TTGGGTTTA-TA
1 TGGGTATTGGGTTGATTA
31231725 TGGGTATTGGGT
1 TGGGTATTGGGT
31231737 ATGGTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.48
Consensus pattern (18 bp):
TGGGTATTGGGTTGATTA
Found at i:31240669 original size:38 final size:38
Alignment explanation
Indices: 31240618--31240925 Score: 456
Period size: 38 Copynumber: 8.1 Consensus size: 38
31240608 TTAAGCTCGA
* * **
31240618 ATATAATACCAGCACTAAGCCTGCGGAATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * * *
31240656 ATATAATATCAGCATGAAGCCTACGGGATAAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
31240694 ATATAATACTAGCACGAAGCCTGCGGGAT-AAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
31240731 ATATAATACCAGCACAAAGCCTACGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
31240769 ATATAATACCAGCACTAAGCCTGCGGAATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
31240807 ATATAATTCCAGTACGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
31240845 ATATAATACTAGCACGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
31240883 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
31240921 ATATA
1 ATATA
31240926 CATCAAATAT
Statistics
Matches: 242, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
37 34 0.14
38 208 0.86
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.17
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
Found at i:31250130 original size:16 final size:16
Alignment explanation
Indices: 31250111--31250143 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31250101 CCTCGACGAC
*
31250111 TTTTGCTTTCGACAAT
1 TTTTGCTTTCAACAAT
31250127 TTTTGCTTTCAACAAT
1 TTTTGCTTTCAACAAT
31250143 T
1 T
31250144 CGCTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (16 bp):
TTTTGCTTTCAACAAT
Found at i:31253548 original size:29 final size:29
Alignment explanation
Indices: 31253495--31253552 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
31253485 ACAATCAAAC
* *
31253495 TTTATTTTATTTTATAATTTGGCCCATTAT
1 TTTATTTTAATTTATAATTTAGCCC-TTAT
31253525 TTTATTTTAATTT-TAATTTAGCCCTTAT
1 TTTATTTTAATTTATAATTTAGCCCTTAT
31253553 GGCTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTATTTTAATTTATAATTTAGCCCTTAT
Found at i:31253862 original size:11 final size:11
Alignment explanation
Indices: 31253848--31253891 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
31253838 TCATAATTAT
31253848 TATTTTATATA
1 TATTTTATATA
31253859 TATTTTAT-TA
1 TATTTTATATA
*
31253869 TATTTT-TACA
1 TATTTTATATA
*
31253879 TATATTATATA
1 TATTTTATATA
31253890 TA
1 TA
31253892 CATATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 1 0.04
10 14 0.50
11 13 0.46
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTATATA
Found at i:31253868 original size:22 final size:22
Alignment explanation
Indices: 31253850--31253966 Score: 67
Period size: 24 Copynumber: 5.0 Consensus size: 22
31253840 ATAATTATTA
*
31253850 TTTTATATATATTTTATTATAT
1 TTTTACATATATTTTATTATAT
*
31253872 TTTTACATATATTATATATACATATT
1 TTTTACATATATT-T-TAT-TATA-T
** *
31253898 ATTTTACATATAAATT-TT-CAT
1 -TTTTACATATATTTTATTATAT
* *
31253919 TATTACATGCTATATTTATTATAT
1 TTTTACAT-ATAT-TTTATTATAT
*
31253943 TATTTCCCATATATTTTATTATAT
1 T-TTT-ACATATATTTTATTATAT
31253967 AATATTTATT
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
20 7 0.10
21 3 0.04
22 15 0.21
23 3 0.04
24 17 0.24
25 9 0.13
26 5 0.07
27 11 0.16
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.57
Consensus pattern (22 bp):
TTTTACATATATTTTATTATAT
Found at i:31253902 original size:27 final size:24
Alignment explanation
Indices: 31253845--31253909 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 24
31253835 CTCTCATAAT
* *
31253845 TATTATTTTATATATATTTTATTA
1 TATTATTTTACATATATTTTATCA
31253869 TA-T-TTTTACATATATTATATATACA
1 TATTATTTTACATATATT-T-TAT-CA
31253894 TATTATTTTACATATA
1 TATTATTTTACATATA
31253910 AATTTTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 12 0.35
23 2 0.06
24 5 0.15
25 3 0.09
26 1 0.03
27 11 0.32
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTTTACATATATTTTATCA
Found at i:31254063 original size:20 final size:19
Alignment explanation
Indices: 31254038--31254080 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31254028 ACATATTACC
31254038 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
31254058 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
31254077 AATT
1 AATT
31254081 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:31254271 original size:7 final size:7
Alignment explanation
Indices: 31254259--31254284 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31254249 AAATTCTTGT
31254259 TATTATA
1 TATTATA
31254266 TATTATA
1 TATTATA
31254273 TATTATA
1 TATTATA
31254280 TATTA
1 TATTA
31254285 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:31254515 original size:30 final size:30
Alignment explanation
Indices: 31254481--31254539 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31254471 CTTCTATTTG
* * *
31254481 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCATTTAATTATTATTTTT
*
31254511 TATATCATGCATCATTTAATTATTATTTT
1 TATATCATACATCATTTAATTATTATTTT
31254540 ATATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATCATACATCATTTAATTATTATTTTT
Found at i:31258075 original size:15 final size:15
Alignment explanation
Indices: 31258041--31258085 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
31258031 ATATTCTTTA
31258041 TGCAT-TCATGCATT
1 TGCATCTCATGCATT
31258055 TGCATCTCATGGCATT
1 TGCATCTCAT-GCATT
*
31258071 T-CATCACAT-CATT
1 TGCATCTCATGCATT
31258084 TG
1 TG
31258086 TATTCAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 11 0.41
16 6 0.22
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (15 bp):
TGCATCTCATGCATT
Found at i:31270527 original size:25 final size:24
Alignment explanation
Indices: 31270499--31270558 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
31270489 ATCCTTTTTA
**
31270499 TTTTAAATATTTTTTTATATTTATT
1 TTTTAAATATTTTAGT-TATTTATT
31270524 TTTTATAA-ATTTTAGTTATTTATT
1 TTTTA-AATATTTTAGTTATTTATT
*
31270548 TATTTATATAT
1 T-TTTAAATAT
31270559 ATTATCCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 10 0.34
25 17 0.59
26 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTAAATATTTTAGTTATTTATT
Found at i:31270581 original size:38 final size:36
Alignment explanation
Indices: 31270539--31270636 Score: 85
Period size: 38 Copynumber: 2.7 Consensus size: 36
31270529 TAAATTTTAG
31270539 TTATTTATTTATTTATATATATTATCCATTATATTATA
1 TTATTTATTTATTTATATATATTAT--ATTATATTATA
* * * *
31270577 TTATTGTATAT-TTTCTATAAATTATATTTTATTATA
1 TTATT-TATTTATTTATATATATTATATTATATTATA
* *
31270613 -TATTTCA-TTATATATATATCTTAT
1 TTATTT-ATTTATTTATATATATTAT
31270637 GCATATAATC
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
34 2 0.04
35 15 0.31
36 10 0.21
38 17 0.35
39 4 0.08
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (36 bp):
TTATTTATTTATTTATATATATTATATTATATTATA
Found at i:31288946 original size:26 final size:26
Alignment explanation
Indices: 31288917--31288966 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
31288907 TATTTTTTTA
31288917 TATTATTTATT-TTTATAAATATTAGT
1 TATTATTT-TTATTTATAAATATTAGT
*
31288943 TATTATTTTTATTTATATATATTA
1 TATTATTTTTATTTATAAATATTA
31288967 TCCATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTTATTTATAAATATTAGT
Found at i:31288960 original size:22 final size:19
Alignment explanation
Indices: 31288909--31289022 Score: 56
Period size: 22 Copynumber: 5.7 Consensus size: 19
31288899 ATTTTAAATA
31288909 TTTT-TTTATATTATTTAT
1 TTTTATTTATATTATTTAT
**
31288927 TTTTATAAATATTAGTTATTAT
1 TTTTATTTATATTA--T-TTAT
31288949 TTTTATTTATA-TATATTAT
1 TTTTATTTATATTAT-TTAT
**
31288968 CCATTATATTATATTATTGTAT
1 -TTTTAT-TTATATTATT-TAT
* *
31288990 ATTTTATCTATA--AATTAT
1 -TTTTATTTATATTATTTAT
31289008 ATTTTATTATATATT
1 -TTTTATT-TATATT
31289023 TCATTATATA
Statistics
Matches: 73, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
18 14 0.19
19 19 0.26
20 4 0.05
21 13 0.18
22 23 0.32
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTATTTATATTATTTAT
Found at i:31288965 original size:19 final size:19
Alignment explanation
Indices: 31288894--31288967 Score: 52
Period size: 22 Copynumber: 4.1 Consensus size: 19
31288884 TTTTAATCCT
*
31288894 TTTTTATTT-TAAATATT-
1 TTTTTATTTATATATATTA
31288911 TTTTTA--TAT-TAT-TTA
1 TTTTTATTTATATATATTA
**
31288926 TTTTTATAAATATTAGTTATTA
1 TTTTTATTTATA-TA--TATTA
31288948 TTTTTATTTATATATATTA
1 TTTTTATTTATATATATTA
31288967 T
1 T
31288968 CCATTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
14 2 0.05
15 9 0.20
16 1 0.02
17 8 0.18
19 8 0.18
21 3 0.07
22 13 0.30
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (19 bp):
TTTTTATTTATATATATTA
Found at i:31288973 original size:26 final size:26
Alignment explanation
Indices: 31288918--31288979 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
31288908 ATTTTTTTAT
*
31288918 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
31288944 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
31288970 ATTATATTAT
1 ATTAT-TTAT
31288980 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:31300169 original size:3 final size:3
Alignment explanation
Indices: 31300161--31300190 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31300151 TTTTTGACAA
31300161 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31300191 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31301189 original size:43 final size:43
Alignment explanation
Indices: 31301141--31301227 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
31301131 AAACAGATCC
* *
31301141 AAGATGATTTGG-AGTCTCTGTATTGTCAGGGAGCAGATCGAAG
1 AAGATGATTTGGCA-TCTCTGTATTGGCAGAGAGCAGATCGAAG
31301184 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
1 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
31301227 A
1 A
31301228 CAGAGCTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (43 bp):
AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
Found at i:31301330 original size:87 final size:87
Alignment explanation
Indices: 31301184--31301401 Score: 364
Period size: 87 Copynumber: 2.5 Consensus size: 87
31301174 CAGATCGAAG
*
31301184 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
31301249 GTGTTTACGTTGAAGCAAATCT
66 GTGTTTACGTTGAAGCAAATCT
* * * *
31301271 AAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTTAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
31301336 GTGTTTACGTTGAAGCAAATCT
66 GTGTTTACGTTGAAGCAAATCT
* * *
31301358 AAGATGATTTGGCGTCTCTGTATTGTCAGAGTGCGGATCGAAGA
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
31301402 TAACAGATTT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 122 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (87 bp):
AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACAGAGCTGATCTGGCTTTCAC
GTGTTTACGTTGAAGCAAATCT
Found at i:31306025 original size:28 final size:26
Alignment explanation
Indices: 31305991--31306049 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
31305981 AACATGCATG
*
31305991 CAAGAATCGATATCAAACAACCCAGAAT
1 CAAGAAT--ATATCAAACAACCCAAAAT
31306019 CAAG-A-ATATCAAACAACCCAAAAT
1 CAAGAATATATCAAACAACCCAAAAT
31306043 CAAGAAT
1 CAAGAAT
31306050 TTTTCTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 22 0.79
25 1 0.04
27 1 0.04
28 4 0.14
ACGTcount: A:0.54, C:0.24, G:0.08, T:0.14
Consensus pattern (26 bp):
CAAGAATATATCAAACAACCCAAAAT
Found at i:31306029 original size:24 final size:24
Alignment explanation
Indices: 31306000--31306049 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
31305990 GCAAGAATCG
*
31306000 ATATCAAACAACCCAGAATCAAGA
1 ATATCAAACAACCCAAAATCAAGA
31306024 ATATCAAACAACCCAAAATCAAGA
1 ATATCAAACAACCCAAAATCAAGA
31306048 AT
1 AT
31306050 TTTTCTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.24, G:0.06, T:0.14
Consensus pattern (24 bp):
ATATCAAACAACCCAAAATCAAGA
Found at i:31331820 original size:17 final size:17
Alignment explanation
Indices: 31331798--31331832 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31331788 AAAATCAAAG
31331798 AATTATAATATAAAAAT
1 AATTATAATATAAAAAT
31331815 AATTATAATATAAAAAT
1 AATTATAATATAAAAAT
31331832 A
1 A
31331833 GTGCAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTATAATATAAAAAT
Found at i:31334842 original size:334 final size:334
Alignment explanation
Indices: 31334233--31334908 Score: 1226
Period size: 334 Copynumber: 2.0 Consensus size: 334
31334223 AAGAAGTAAG
*
31334233 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
31334298 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* **
31334363 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACTGT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
* *
31334428 AGCCATTATTTTAGATCATGAATACCATGTTTGCCTCGATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
31334493 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
31334558 CTTGTCAGT
326 CTTGTCAGT
*
31334567 ATAGATTATATTATCATATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
* *
31334632 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAATAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* *
31334697 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTTTCCACACTTGTTTCGACAAAACACT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
31334762 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
31334827 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTTGCATTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
*
31334892 CTTGTTAGT
326 CTTGTCAGT
31334901 ATAGATTA
1 ATAGATTA
31334909 ACAAAAAATG
Statistics
Matches: 328, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
334 328 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (334 bp):
ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
CTTGTCAGT
Found at i:31336190 original size:9 final size:9
Alignment explanation
Indices: 31336176--31336204 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
31336166 CGACTTTTAA
31336176 TTATTATTT
1 TTATTATTT
31336185 TTATTATTT
1 TTATTATTT
31336194 TTATTATTT
1 TTATTATTT
31336203 TT
1 TT
31336205 TAAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTATTT
Found at i:31336412 original size:16 final size:16
Alignment explanation
Indices: 31336381--31336419 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
31336371 TTTTCATTCT
*
31336381 TTATATTAAAAAAATA
1 TTATTTTAAAAAAATA
31336397 TT-TTTTAAATAAAATA
1 TTATTTTAAA-AAAATA
31336413 TTATTTT
1 TTATTTT
31336420 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTTTAAAAAAATA
Found at i:31337311 original size:27 final size:27
Alignment explanation
Indices: 31337269--31337343 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
31337259 TACCATTTTC
* * *
31337269 CGCCTCTAAGATAGGCACGATTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
* *
31337296 CGCCTCTGAGAAAGGCTCAACTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
* *
31337323 CACCTCTGACATAGGCACAAC
1 CGCCTCTGAGATAGGCACAAC
31337344 CTATATTCGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (27 bp):
CGCCTCTGAGATAGGCACAACTAGTCG
Found at i:31339956 original size:17 final size:19
Alignment explanation
Indices: 31339926--31339972 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
31339916 CTAAAATTTT
31339926 ATTTATAAATATAT-AAAAA
1 ATTTA-AAATATATCAAAAA
*
31339945 ATTTAAAA-ATATCAACAA
1 ATTTAAAATATATCAAAAA
*
31339963 ACTTAAAATA
1 ATTTAAAATA
31339973 GAGCACATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTAAAATATATCAAAAA
Found at i:31347628 original size:55 final size:55
Alignment explanation
Indices: 31347567--31347676 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
31347557 ATGGGGACGT
31347567 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
1 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
31347622 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
1 GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
31347677 TTGTGTAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (55 bp):
GGTGTAAATAAAGAAAAAGGAATGAAAGAACATTGAATATCAATGTCTAAAATAA
Found at i:31348874 original size:7 final size:7
Alignment explanation
Indices: 31348862--31348886 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31348852 TCAAATAAAT
31348862 AATTTTA
1 AATTTTA
31348869 AATTTTA
1 AATTTTA
31348876 AATTTTA
1 AATTTTA
31348883 AATT
1 AATT
31348887 ATTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Done.