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 304 of 325
Found at i:96516259 original size:13 final size:13
Alignment explanation
Indices: 96516241--96516273 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
96516231 TGTGAAACAG
96516241 AAAAGAAATTTGA
1 AAAAGAAATTTGA
96516254 AAAAG-AATTTGA
1 AAAAGAAATTTGA
96516266 AGAAAGAA
1 A-AAAGAA
96516274 GAGAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 9 0.50
14 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (13 bp):
AAAAGAAATTTGA
Found at i:96519108 original size:10 final size:10
Alignment explanation
Indices: 96519081--96519138 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
96519071 TTAAATTCTA
96519081 AAAGATAAAT
1 AAAGATAAAT
*
96519091 ACAA-ATAATT
1 A-AAGATAAAT
*
96519101 AAAGATAATT
1 AAAGATAAAT
96519111 AAAGATAAAT
1 AAAGATAAAT
*
96519121 AAGGATAAAT
1 AAAGATAAAT
96519131 AAAGATAA
1 AAAGATAA
96519139 GAGCTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:96519117 original size:30 final size:30
Alignment explanation
Indices: 96519081--96519138 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
96519071 TTAAATTCTA
*
96519081 AAAGATAAATACA-AATAATTAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
*
96519111 AAAGATAAATAAGGATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
96519139 GAGCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:96528127 original size:11 final size:11
Alignment explanation
Indices: 96528106--96528139 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
96528096 AAAATTATTA
96528106 TTTTA-AATTT
1 TTTTAGAATTT
96528116 TTTTAGAATTT
1 TTTTAGAATTT
*
96528127 TTTTAGAAATT
1 TTTTAGAATTT
96528138 TT
1 TT
96528140 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:96528130 original size:12 final size:12
Alignment explanation
Indices: 96528110--96528139 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
96528100 TTATTATTTT
96528110 AAATTTTTTTAG
1 AAATTTTTTTAG
96528122 -AATTTTTTTAG
1 AAATTTTTTTAG
96528133 AAATTTT
1 AAATTTT
96528140 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (12 bp):
AAATTTTTTTAG
Found at i:96528822 original size:21 final size:21
Alignment explanation
Indices: 96528774--96528822 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
96528764 CTCTACTATT
* * *
96528774 TCCGCATTGGTTTTGTCCAAC
1 TCCGCCTTGGTTCTGGCCAAC
* *
96528795 TCAGCCTTGGTTCTGGCCACC
1 TCCGCCTTGGTTCTGGCCAAC
96528816 TCCGCCT
1 TCCGCCT
96528823 GGAGTGCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.10, C:0.37, G:0.20, T:0.33
Consensus pattern (21 bp):
TCCGCCTTGGTTCTGGCCAAC
Found at i:96540245 original size:24 final size:24
Alignment explanation
Indices: 96540213--96540260 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
96540203 GTAAAGTTAG
96540213 ATTGTACTAGCATGTTGCATGTTT
1 ATTGTACTAGCATGTTGCATGTTT
96540237 ATTGTACTAGCATGTTGCATGTTT
1 ATTGTACTAGCATGTTGCATGTTT
96540261 CATAACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (24 bp):
ATTGTACTAGCATGTTGCATGTTT
Found at i:96541798 original size:20 final size:19
Alignment explanation
Indices: 96541769--96541806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
96541759 AAAATTATAC
96541769 TTTTTAAATTTTTAATAAAA
1 TTTTTAAATTTTT-ATAAAA
*
96541789 TTTTTGAATTTTTATAAA
1 TTTTTAAATTTTTATAAA
96541807 GAACATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTAAATTTTTATAAAA
Found at i:96547952 original size:89 final size:89
Alignment explanation
Indices: 96547783--96547952 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 89
96547773 GTTATGGTTA
*
96547783 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACAGATTTGCAAATA
1 AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAAATA
* *
96547848 AAAGCTGTCAGATAATGGGTGGTG
66 AAAGCTGCCAAATAATGGGTGGTG
* * * *
96547872 AACCACCAAAGTTGTAGGTTAATATGA-TGCCAGATGGTTGTGAATACACAAC-GTGTTTGCAGA
1 AACCACAAAAGTTGTAGGTTAATA-CACTGCCAGATGGTTGTGAATACACAACAG-ATTTGCAAA
*
96547935 TAAAAGTTGCCAAATAAT
64 TAAAAGCTGCCAAATAAT
96547953 CTGTGGATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
88 1 0.01
89 69 0.97
90 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (89 bp):
AACCACAAAAGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATACACAACAGATTTGCAAATA
AAAGCTGCCAAATAATGGGTGGTG
Found at i:96550662 original size:26 final size:27
Alignment explanation
Indices: 96550631--96550709 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
96550621 TATTATCCCT
*
96550631 ATTTTACCCCCAGTAAAATTTTA-AAG
1 ATTTTACCCCTAGTAAAATTTTAGAAG
*
96550657 ATTTTACCCCTAGTAAAA-TTTAGACG
1 ATTTTACCCCTAGTAAAATTTTAGAAG
* *
96550683 ATTTTGCCCCTGGTAAAATTTTGAGAA
1 ATTTTACCCCTAGTAAAATTTT-AGAA
96550710 AATATATTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
25 4 0.09
26 35 0.78
27 3 0.07
28 3 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTAGAAG
Found at i:96550857 original size:6 final size:6
Alignment explanation
Indices: 96550846--96550879 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
96550836 AGGATTGCAA
*
96550846 ATTTCC ATTTCC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
96550880 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:96550869 original size:18 final size:18
Alignment explanation
Indices: 96550846--96550880 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
96550836 AGGATTGCAA
96550846 ATTTCCATTTCCATTTTC
1 ATTTCCATTTCCATTTTC
96550864 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
96550881 TGGAAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:96555367 original size:21 final size:21
Alignment explanation
Indices: 96555343--96555384 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
96555333 GGTACCTGGT
96555343 AAAAGGTATTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
*
96555364 AAAAGGTGTTGATACTTTTTG
1 AAAAGGTATTGATACTTTTTG
96555385 TAATTGACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAAAGGTATTGATACTTTTTG
Found at i:96556030 original size:17 final size:17
Alignment explanation
Indices: 96556008--96556042 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
96555998 CAATCACATA
*
96556008 GAATTTGTATTAGTGAT
1 GAATTTGCATTAGTGAT
96556025 GAATTTGCATTAGTGAT
1 GAATTTGCATTAGTGAT
96556042 G
1 G
96556043 TTCTTCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (17 bp):
GAATTTGCATTAGTGAT
Found at i:96560474 original size:182 final size:182
Alignment explanation
Indices: 96560161--96560524 Score: 719
Period size: 182 Copynumber: 2.0 Consensus size: 182
96560151 TCTGAGAAGG
96560161 ATACAAATAAGTAAGTTATGTATATGAGAATGAAATGGTGATGACCTTGTGAGTTTAGGTCTATG
1 ATACAAATAAGTAAGTTATGTATATGAGAATGAAATGGTGATGACCTTGTGAGTTTAGGTCTATG
96560226 ATTATGATGTACAAATATGCATTTGTACCATGAAGGTAAAATGGTTTGTAAAAGCATTACAAGCA
66 ATTATGATGTACAAATATGCATTTGTACCATGAAGGTAAAATGGTTTGTAAAAGCATTACAAGCA
96560291 TAATTACCATTACATTGCACTGAAACAGTTTGGATAGTAACAGTAGTCCGAA
131 TAATTACCATTACATTGCACTGAAACAGTTTGGATAGTAACAGTAGTCCGAA
96560343 ATACAAATAAGTAAGTTATGTATATGAGAATGAAATGGTGATGACCTTGTGAGTTTAGGTCTATG
1 ATACAAATAAGTAAGTTATGTATATGAGAATGAAATGGTGATGACCTTGTGAGTTTAGGTCTATG
*
96560408 ATTATGATGTACAAATATGCATTTGTACCATGAAGGTAAAATGGTTTGTAAAAGCATTATAAGCA
66 ATTATGATGTACAAATATGCATTTGTACCATGAAGGTAAAATGGTTTGTAAAAGCATTACAAGCA
96560473 TAATTACCATTACATTGCACTGAAACAGTTTGGATAGTAACAGTAGTCCGAA
131 TAATTACCATTACATTGCACTGAAACAGTTTGGATAGTAACAGTAGTCCGAA
96560525 TTTGAAAATC
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (182 bp):
ATACAAATAAGTAAGTTATGTATATGAGAATGAAATGGTGATGACCTTGTGAGTTTAGGTCTATG
ATTATGATGTACAAATATGCATTTGTACCATGAAGGTAAAATGGTTTGTAAAAGCATTACAAGCA
TAATTACCATTACATTGCACTGAAACAGTTTGGATAGTAACAGTAGTCCGAA
Found at i:96565710 original size:34 final size:34
Alignment explanation
Indices: 96565641--96565756 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
96565631 CATCGTCATG
* ** *
96565641 CCAACCAACACACCAGATGCTCACACTAGCCAAT
1 CCAACCAACACACCAGATGCTCATAAGAGCTAAT
** *
96565675 CCCTCCAACACACTAGATGCTCATAAGAGCTAAT
1 CCAACCAACACACCAGATGCTCATAAGAGCTAAT
* * *
96565709 CCAACCAACACACCA-ATACTCATCAGAACTAAT
1 CCAACCAACACACCAGATGCTCATAAGAGCTAAT
96565742 CCAACCAACACACCA
1 CCAACCAACACACCA
96565757 AACAAAGAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
33 30 0.43
34 39 0.57
ACGTcount: A:0.41, C:0.39, G:0.07, T:0.14
Consensus pattern (34 bp):
CCAACCAACACACCAGATGCTCATAAGAGCTAAT
Found at i:96565741 original size:33 final size:33
Alignment explanation
Indices: 96565679--96565757 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
96565669 GCCAATCCCT
* * *
96565679 CCAACACACTAGATGCTCATAAGAGCTAATCCAA
1 CCAACACACCA-ATACTCATAAGAACTAATCCAA
*
96565713 CCAACACACCAATACTCATCAGAACTAATCCAA
1 CCAACACACCAATACTCATAAGAACTAATCCAA
96565746 CCAACACACCAA
1 CCAACACACCAA
96565758 ACAAAGAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 31 0.76
34 10 0.24
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.14
Consensus pattern (33 bp):
CCAACACACCAATACTCATAAGAACTAATCCAA
Found at i:96568782 original size:5 final size:5
Alignment explanation
Indices: 96568768--96568800 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
96568758 AATTATTAAG
96568768 TATA- TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
96568801 ATAAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:96568869 original size:6 final size:6
Alignment explanation
Indices: 96568858--96568900 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
96568848 AACCAAACAG
* *
96568858 AAAGAA AAAGAA AAAGAA AAAGAA AGAA-AG AAAGAA AAGGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA A
96568901 TAGGAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:96569654 original size:13 final size:13
Alignment explanation
Indices: 96569636--96569660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96569626 ATTGAATTGG
96569636 TATATATATTGAA
1 TATATATATTGAA
96569649 TATATATATTGA
1 TATATATATTGA
96569661 TTATTTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATATATATTGAA
Found at i:96575131 original size:14 final size:15
Alignment explanation
Indices: 96575091--96575132 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
96575081 AATTTTATAA
*
96575091 TTTTTCAAATTGATT
1 TTTTTAAAATTGATT
*
96575106 TTTTATAGAATTG-TT
1 TTTT-TAAAATTGATT
96575121 TTTTTAAAATTG
1 TTTTTAAAATTG
96575133 GTATTACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTTAAAATTGATT
Found at i:96578252 original size:54 final size:54
Alignment explanation
Indices: 96578060--96578420 Score: 286
Period size: 54 Copynumber: 6.5 Consensus size: 54
96578050 TTTTACTAGT
* * *
96578060 CTGGTGCCAGCCATTAGAAGGCCAGCACCAAAAAAAATTTTCCTGATATTTTTGCA
1 CTGGTGCCGGCCATTAGAAGGCCAGCA-CAAAAAAAA-TTTCCTAATATTTTTGTA
* * * * ** ***
96578116 CTAGAGCCGG---TT-GAAGACTAGCACCCAAAAAATTTTGAAATATTTTT-TA
1 CTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTA
* * *
96578165 CGAGTGTGGTGCCAGCGATTAGAAGACCAGCACAAAAAAAATTTCCTAATATTTTTGTA
1 C-----TGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTA
* *
96578224 CTGGTGCCGACCATTAGAAGGCCAGCACAAAAAAAAATTCCTAATATTTTTGTA
1 CTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTA
** ** * *
96578278 CTGGTGCCGGCCATTAGAAAACCAGCACCCAAAAAATTT--TGAATTTTTTTTTTACTA
1 CTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAATTTCCT-AA---TATTTTT-GTA
* *
96578335 CAGTGGTGCCGGCCATTAGAAGGTCAGCACCAAAAAAAAATTTCCTGATATTTTTGTA
1 C--TGGTGCCGGCCATTAGAAGGCCAGCA-C-AAAAAAAATTTCCTAATATTTTTGTA
* *
96578393 CTGGTGTCGGTCATTAGAAGGCCAGCAC
1 CTGGTGCCGGCCATTAGAAGGCCAGCAC
96578421 CAAATTTTTT
Statistics
Matches: 239, Mismatches: 45, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
49 2 0.01
50 11 0.05
51 7 0.03
52 10 0.04
53 4 0.02
54 87 0.36
55 1 0.00
56 36 0.15
57 5 0.02
58 32 0.13
59 32 0.13
60 1 0.00
61 9 0.04
62 1 0.00
63 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
CTGGTGCCGGCCATTAGAAGGCCAGCACAAAAAAAATTTCCTAATATTTTTGTA
Found at i:96579591 original size:29 final size:29
Alignment explanation
Indices: 96579558--96579625 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
96579548 TATAAAAATG
96579558 TCACTAAATTATTAATTTTTCTGATTTAA
1 TCACTAAATTATTAATTTTTCTGATTTAA
96579587 TCACTAAATTATTAATTTTTCTGATTTAA
1 TCACTAAATTATTAATTTTTCTGATTTAA
96579616 TCACTAAATT
1 TCACTAAATT
96579626 GTTCGAGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (29 bp):
TCACTAAATTATTAATTTTTCTGATTTAA
Found at i:96581280 original size:7 final size:8
Alignment explanation
Indices: 96581261--96581287 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
96581251 TCAGTCTTTT
96581261 TTTTTTAC
1 TTTTTTAC
96581269 TTTTTTAC
1 TTTTTTAC
96581277 TTTTTTAC
1 TTTTTTAC
96581285 TTT
1 TTT
96581288 ACTTTTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAC
Found at i:96581307 original size:20 final size:19
Alignment explanation
Indices: 96581254--96581308 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
96581244 TGCCATGTCA
*
96581254 GTCTTTTTTTTTTACTTTT
1 GTCTTTTTTCTTTACTTTT
*
96581273 TTACTTTTTTACTTTACTTTT
1 GT-CTTTTTT-CTTTACTTTT
96581294 GTCTTTTTCTCTTTA
1 GTCTTTTT-TCTTTA
96581309 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.73
Consensus pattern (19 bp):
GTCTTTTTTCTTTACTTTT
Found at i:96581314 original size:4 final size:4
Alignment explanation
Indices: 96581305--96581349 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
96581295 TCTTTTTCTC
*
96581305 TTTA TTTA TTTTA TTTA TTTA TTATA TTTTA TTTA TTTA TCTA TT
1 TTTA TTTA -TTTA TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA TT
96581350 ATTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 26 0.72
5 8 0.22
6 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:96581332 original size:22 final size:23
Alignment explanation
Indices: 96581306--96581362 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
96581296 CTTTTTCTCT
*
96581306 TTATTTATTTTATTTATTTATTA
1 TTATTTATTTTATTTATCTATTA
96581329 -TATTT-TATTTATTTATCTATTA
1 TTATTTAT-TTTATTTATCTATTA
*
96581351 TTATTAATTTTA
1 TTATTTATTTTA
96581363 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 19 0.66
23 8 0.28
24 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTATTTATCTATTA
Found at i:96581334 original size:18 final size:17
Alignment explanation
Indices: 96581305--96581360 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
96581295 TCTTTTTCTC
96581305 TTTATTTATTTTATTTA
1 TTTATTTATTTTATTTA
96581322 TTTATTATATTTTATTTA
1 TTTATT-TATTTTATTTA
* *
96581340 TTTATCTATTATTATTAA
1 TTTATTTATT-TTATTTA
96581358 TTT
1 TTT
96581361 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
17 10 0.29
18 25 0.71
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:96581383 original size:23 final size:24
Alignment explanation
Indices: 96581357--96581408 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
96581347 ATTATTATTA
*
96581357 ATTTTAAAAATTTTA-AAATATGT
1 ATTTTAAAAATTTTATAAATATAT
* * *
96581380 ATTTGAAATATTTTATTAATATAT
1 ATTTTAAAAATTTTATAAATATAT
96581404 ATTTT
1 ATTTT
96581409 GAAATTACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATTTTATAAATATAT
Found at i:96581424 original size:26 final size:25
Alignment explanation
Indices: 96581367--96581425 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
96581357 ATTTTAAAAA
*
96581367 TTTTAAAATATGTATTTGAAATATT
1 TTTTAAAATATATATTTGAAATATT
*
96581392 TTATTAATATATAT-TTTGAAATTACTT
1 TT-TTAAAATATATATTTGAAA-TA-TT
96581419 TTTTAAA
1 TTTTAAA
96581426 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.32
26 15 0.54
27 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTAAAATATATATTTGAAATATT
Found at i:96581429 original size:21 final size:23
Alignment explanation
Indices: 96581402--96581458 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
96581392 TTATTAATAT
*
96581402 ATATTTTGAA-ATTACTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
*
96581424 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
96581446 ATA-TTTAAATATT
1 ATATTTTAAATATT
96581459 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.23
22 23 0.74
23 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTAAATATTACTTTTTTA
Found at i:96581541 original size:14 final size:15
Alignment explanation
Indices: 96581516--96581544 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96581506 TTAATTTGTT
96581516 TTATAATATTTTAAA
1 TTATAATATTTTAAA
96581531 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
96581545 CTATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:96581795 original size:16 final size:16
Alignment explanation
Indices: 96581774--96581807 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96581764 TCTTTCACTT
*
96581774 TTTTTTTACTTATTTA
1 TTTTTTTAATTATTTA
*
96581790 TTTTTTTAATTTTTTA
1 TTTTTTTAATTATTTA
96581806 TT
1 TT
96581808 ATCTTTTGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTAATTATTTA
Found at i:96582090 original size:18 final size:18
Alignment explanation
Indices: 96582059--96582093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96582049 AATAAAAAAA
* *
96582059 ATAAATAAATAAATAAAG
1 ATAAAGAAAAAAATAAAG
96582077 ATAAAGAAAAAAATAAA
1 ATAAAGAAAAAAATAAA
96582094 AAAATGTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
ATAAAGAAAAAAATAAAG
Found at i:96582193 original size:22 final size:22
Alignment explanation
Indices: 96582142--96582215 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
96582132 AAAAAACAAA
* **
96582142 TTTAAAAAATATATATTTAATGT
1 TTTAAAAAATA-ATATTAAAAAT
* *
96582165 TTAAAAAAATAATATTCAAAAT
1 TTTAAAAAATAATATTAAAAAT
96582187 TTT-AAAAATAAT-TTAAATAAT
1 TTTAAAAAATAATATTAAA-AAT
96582208 ATTTAAAA
1 -TTTAAAA
96582216 TTTAAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 13 0.31
23 13 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTAAAAAATAATATTAAAAAT
Found at i:96582195 original size:21 final size:22
Alignment explanation
Indices: 96582169--96582215 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
96582159 TAATGTTTAA
*
96582169 AAAAATAATATTCAA-AAT-TTT
1 AAAAATAAT-TTAAATAATATTT
96582190 AAAAATAATTTAAATAATATTT
1 AAAAATAATTTAAATAATATTT
96582212 AAAA
1 AAAA
96582216 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAATTTAAATAATATTT
Found at i:96582606 original size:21 final size:22
Alignment explanation
Indices: 96582562--96582616 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
96582552 ATAGAATTTA
* *
96582562 AAAAATAATTT-GAATATCTTT
1 AAAAATAATTTAAAATATCTAT
96582583 AAAAATAATTTAAAATAT-TAT
1 AAAAATAATTTAAAATATCTAT
*
96582604 -AAAATAAATTAAA
1 AAAAATAATTTAAA
96582617 TAATATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.40
21 13 0.43
22 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATAATTTAAAATATCTAT
Found at i:96582616 original size:31 final size:31
Alignment explanation
Indices: 96582581--96582736 Score: 117
Period size: 31 Copynumber: 4.8 Consensus size: 31
96582571 TTGAATATCT
96582581 TTAAA-AATAATTTAAAATATTATAAAATAAA
1 TTAAATAAT-ATTTAAAATATTATAAAATAAA
*
96582612 TTAAATAATATTTAAATTATTATAAAATAAA
1 TTAAATAATATTTAAAATATTATAAAATAAA
*
96582643 -TAAATTTGAATGTTTAAAATATT-TAAATATTAAA
1 TTAAA--T-AATATTTAAAATATTATAAA-A-TAAA
* *
96582677 --AAATAATATTTAAAAT-TTAAAAAAGTAAT
1 TTAAATAATATTTAAAATATTATAAAA-TAAA
*
96582706 TTCAAAATATATATTAATAAAATATTTTAAA
1 TT--AAATA-ATATT--TAAAATATTATAAA
96582737 TATATATTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
29 6 0.06
30 18 0.18
31 27 0.27
32 8 0.08
33 22 0.22
34 9 0.09
36 6 0.06
37 5 0.05
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (31 bp):
TTAAATAATATTTAAAATATTATAAAATAAA
Found at i:96582686 original size:21 final size:22
Alignment explanation
Indices: 96582660--96582713 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
96582650 GAATGTTTAA
96582660 AATATTT-AAATATTAAAAAA-T
1 AATATTTAAAAT-TTAAAAAAGT
96582681 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
96582703 AAT-TTCAAAAT
1 AATATTTAAAAT
96582714 ATATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:96582690 original size:30 final size:30
Alignment explanation
Indices: 96582582--96582700 Score: 120
Period size: 31 Copynumber: 3.9 Consensus size: 30
96582572 TGAATATCTT
96582582 TAAA-AATAATTTAAAATATTATAAAATAAA
1 TAAATAAT-ATTTAAAATATTATAAAATAAA
*
96582612 TTAAATAATATTTAAATTATTATAAAATAAA
1 -TAAATAATATTTAAAATATTATAAAATAAA
*
96582643 TAAATTTGAATGTTTAAAATATT-TAAATATTAAA
1 TAAA--T-AATATTTAAAATATTATAAA-A-TAAA
*
96582677 -AAATAATATTTAAAAT-TTAAAAAA
1 TAAATAATATTTAAAATATTATAAAA
96582701 GTAATTTCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
29 3 0.04
30 18 0.24
31 26 0.34
32 8 0.11
33 17 0.22
34 4 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAATAATATTTAAAATATTATAAAATAAA
Found at i:96582755 original size:22 final size:24
Alignment explanation
Indices: 96582710--96582758 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
96582700 AGTAATTTCA
96582710 AAATATATATTAATAAAATATTTT
1 AAATATATATTAATAAAATATTTT
*
96582734 AAATATATATT-TTAAAAT-TTTT
1 AAATATATATTAATAAAATATTTT
96582756 AAA
1 AAA
96582759 GTTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.29
23 6 0.25
24 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATATATATTAATAAAATATTTT
Found at i:96582827 original size:15 final size:14
Alignment explanation
Indices: 96582809--96582839 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
96582799 GACAAAAGAG
96582809 AAGTAAAAAAATAAA
1 AAGTAAAAAAA-AAA
96582824 AAGTAAAAAAAAAA
1 AAGTAAAAAAAAAA
96582838 AA
1 AA
96582840 CTGACATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (14 bp):
AAGTAAAAAAAAAA
Found at i:96584745 original size:15 final size:16
Alignment explanation
Indices: 96584715--96584745 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96584705 GTCTGTGAAG
96584715 CTATTTCATGAATGCT
1 CTATTTCATGAATGCT
96584731 CTATTTCAT-AATGCT
1 CTATTTCATGAATGCT
96584746 TGTTCGACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
CTATTTCATGAATGCT
Found at i:96586289 original size:31 final size:30
Alignment explanation
Indices: 96586238--96586306 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
96586228 GATTAAATCA
*
96586238 AAATTAAAATTTTAATTATATATTTA-AAC
1 AAATTAAAATTTTAATTATATAGTTACAAC
*
96586267 TATAATTAAAA-TTTCATGTATATAGTTACAAC
1 -A-AATTAAAATTTTAAT-TATATAGTTACAAC
96586299 AAATTAAA
1 AAATTAAA
96586307 TTGCGAAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 13 0.38
31 18 0.53
32 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTAAAATTTTAATTATATAGTTACAAC
Found at i:96586754 original size:30 final size:32
Alignment explanation
Indices: 96586720--96586784 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
96586710 ATGTCACATC
*
96586720 AATAAATAATTCAAAATTT-A-TAAAAATATA
1 AATAAATAAATCAAAATTTAATTAAAAATATA
*
96586750 AATAATTAAATCAAAATTTAAATTAAAAATATA
1 AATAAATAAATCAAAATTT-AATTAAAAATATA
96586783 AA
1 AA
96586785 AAAGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
32 1 0.03
33 12 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (32 bp):
AATAAATAAATCAAAATTTAATTAAAAATATA
Found at i:96593651 original size:6 final size:6
Alignment explanation
Indices: 96593601--96593656 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
96593591 GAACTTTGTT
* * * * * *
96593601 TTTTTT TTTTTC TCTTTC TCTTTC ATTTTC ATTTTC ATTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
96593648 TTTTTC TTT
1 TTTTTC TTT
96593657 CCCTCCAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
5 4 0.09
6 40 0.91
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:96603097 original size:16 final size:15
Alignment explanation
Indices: 96603067--96603106 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
96603057 TTCATTGTTG
*
96603067 AAAAGAAAAAAAAAA
1 AAAACAAAAAAAAAA
96603082 AAAACAAAAAACAAAA
1 AAAACAAAAAA-AAAA
96603098 AAAACAAAA
1 AAAACAAAA
96603107 CCAACCTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAAAAA
Found at i:96604385 original size:15 final size:15
Alignment explanation
Indices: 96604367--96604412 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
96604357 CACCCACCTT
96604367 AAAAAAATGCAAAAG
1 AAAAAAATGCAAAAG
*
96604382 AAAAGAAAAG-AAAAG
1 AAAA-AAATGCAAAAG
*
96604397 AAAAGAAT-CAAAAG
1 AAAAAAATGCAAAAG
96604411 AA
1 AA
96604413 CAGAAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.35
15 13 0.50
16 4 0.15
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (15 bp):
AAAAAAATGCAAAAG
Found at i:96604387 original size:5 final size:5
Alignment explanation
Indices: 96604377--96604403 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96604367 AAAAAAATGC
96604377 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
96604404 TCAAAAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:96604408 original size:29 final size:32
Alignment explanation
Indices: 96604367--96604427 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 32
96604357 CACCCACCTT
96604367 AAAAAAATGCAAAAGAAAAGAAA-A-GAAAAG
1 AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
* *
96604397 AAAAGAAT-CAAAAGAACAGAAACATGAAAAG
1 AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
96604428 TTGTCATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 8 0.30
31 6 0.22
ACGTcount: A:0.72, C:0.07, G:0.16, T:0.05
Consensus pattern (32 bp):
AAAAAAATGCAAAAGAAAAGAAACATGAAAAG
Found at i:96610115 original size:18 final size:18
Alignment explanation
Indices: 96610082--96610132 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
96610072 GTTTACATTT
*
96610082 AGTTCGTATTCATATAAG
1 AGTTCGCATTCATATAAG
96610100 -GTTCGCATTGCATATAAG
1 AGTTCGCATT-CATATAAG
* *
96610118 AGTTCACATACATAT
1 AGTTCGCATTCATAT
96610133 TTACCTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
AGTTCGCATTCATATAAG
Found at i:96619147 original size:31 final size:31
Alignment explanation
Indices: 96619088--96619163 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
96619078 ACACACATAT
*
96619088 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
96619120 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
96619151 TTATCTAATTAAA
1 ATATCTAATTAAA
96619164 TAACTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 28 0.74
32 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:96619153 original size:23 final size:23
Alignment explanation
Indices: 96619094--96619153 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
96619084 ATATATATAC
96619094 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
96619114 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
96619137 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
96619154 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:96623065 original size:17 final size:17
Alignment explanation
Indices: 96623014--96623067 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
96623004 CGCTTGTTTT
*
96623014 ATAAAATTATT-ATTTAA
1 ATAAAATTATTGA-TAAA
*
96623031 ATAACAA-TATAG-TAAA
1 ATAA-AATTATTGATAAA
96623047 ATAAAATTATTGATAAA
1 ATAAAATTATTGATAAA
96623064 ATAA
1 ATAA
96623068 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 15 0.50
18 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAATTATTGATAAA
Found at i:96623305 original size:23 final size:24
Alignment explanation
Indices: 96623261--96623310 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
96623251 TATCTAATAC
*
96623261 TTTTTTTAATTTTAGAAATAAAGT
1 TTTTTTTAATTCTAGAAATAAAGT
96623285 TTTTTTTAA-TCTA-AAAGTAAAGT
1 TTTTTTTAATTCTAGAAA-TAAAGT
96623308 TTT
1 TTT
96623311 AAATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTTTTTAATTCTAGAAATAAAGT
Found at i:96623538 original size:22 final size:22
Alignment explanation
Indices: 96623512--96623555 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
96623502 AAAAAATCAG
96623512 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
96623534 TTTTGAGAGAAAAATATTTTAA
1 TTTTGAGAGAAAAATATTTTAA
96623556 CTATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTGAGAGAAAAATATTTTAA
Found at i:96623739 original size:22 final size:22
Alignment explanation
Indices: 96623713--96623778 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
96623703 TGATAATTAA
96623713 ATAATATTTATTTATTTTTATG
1 ATAATATTTATTTATTTTTATG
*
96623735 ATAATA-TTATTTATCTTTATG
1 ATAATATTTATTTATTTTTATG
*
96623756 A-AAAATATTATATTATGTTTTAT
1 ATAATAT-TTAT-TTAT-TTTTAT
96623779 TTTCAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.08
21 15 0.41
22 10 0.27
23 4 0.11
24 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
ATAATATTTATTTATTTTTATG
Found at i:96623778 original size:51 final size:52
Alignment explanation
Indices: 96623678--96623781 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 52
96623668 GATATAAATA
* * *
96623678 TTATGATAAATAATATTTACCTTTATGATAATTAAATAATATTTATTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
* * * *
96623730 TTATGAT-AATATTATTTATCTTTATGAAAAATATTATATTATGT-TTTATTT
1 TTATGATAAATAATATTTACCTTTATGAAAAATA-AATAATATGTATTTATTT
96623781 T
1 T
96623782 CAAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 30 0.68
52 14 0.32
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (52 bp):
TTATGATAAATAATATTTACCTTTATGAAAAATAAATAATATGTATTTATTT
Found at i:96624150 original size:13 final size:14
Alignment explanation
Indices: 96624132--96624190 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
96624122 TTATAACTTT
*
96624132 AAATT-AAATATTG
1 AAATTCAAATATTA
* *
96624145 AAATT-AATAAATTT
1 AAATTCAA-ATATTA
96624159 AAATTCAAATATTA
1 AAATTCAAATATTA
*
96624173 AAATTGAAA-ATTA
1 AAATTCAAATATTA
96624186 AAATT
1 AAATT
96624191 GTGTGATGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
13 16 0.41
14 21 0.54
15 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (14 bp):
AAATTCAAATATTA
Found at i:96624159 original size:27 final size:28
Alignment explanation
Indices: 96624124--96624190 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
96624114 TATGAGATTT
* *
96624124 ATAACTTTAAATT-AAATATTGAAATTA
1 ATAAATTTAAATTCAAATATTAAAATTA
*
96624151 ATAAATTTAAATTCAAATATTAAAATTG
1 ATAAATTTAAATTCAAATATTAAAATTA
*
96624179 A-AAATTAAAATT
1 ATAAATTTAAATT
96624191 GTGTGATGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAATTTAAATTCAAATATTAAAATTA
Found at i:96624191 original size:13 final size:13
Alignment explanation
Indices: 96624153--96624191 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
96624143 TGAAATTAAT
* *
96624153 AAATTTAAATTCA
1 AAATTAAAATTGA
96624166 AATATTAAAATTGA
1 AA-ATTAAAATTGA
96624180 AAATTAAAATTG
1 AAATTAAAATTG
96624192 TGTGATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (13 bp):
AAATTAAAATTGA
Found at i:96629256 original size:26 final size:25
Alignment explanation
Indices: 96629227--96629303 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
96629217 ACAGAATAAC
96629227 ATATGAAAATTTAAAATAAATAATAT
1 ATAT-AAAATTTAAAATAAATAATAT
* * *
96629253 ATATAATGATTTAACATAAATAATGT
1 ATATAA-AATTTAAAATAAATAATAT
* *
96629279 ATA-AAATATTTAGAATAAATGATAT
1 ATATAAA-ATTTAAAATAAATAATAT
96629304 GAAAAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATAAAATTTAAAATAAATAATAT
Found at i:96631486 original size:99 final size:99
Alignment explanation
Indices: 96631300--96631478 Score: 234
Period size: 99 Copynumber: 1.8 Consensus size: 99
96631290 ATCGTAACTT
* ** * * *
96631300 CAACCTGCCTCACTGCAACTTTAGGGGGATAAGGTTTGTGACTTCAATCTGCTTCGCTACAACTT
1 CAACCTGCCTCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTACAACTT
96631365 CAGGAAGATAAGATTCACCATGGCATACTTGGCC
66 CAGGAAGATAAGATTCACCATGGCATACTTGGCC
* * * *
96631399 CAACCTG-CTCCACTGTAACTTCAGGGAAATAAGGTTAGTGGCTTCGATCTGCTCCACTGCAACT
1 CAACCTGCCT-CACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTACAACT
* *
96631463 TCAGGGAGATAGGATT
65 TCAGGAAGATAAGATT
96631479 TGCCATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 2 0.03
99 65 0.97
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (99 bp):
CAACCTGCCTCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTCCACTACAACTT
CAGGAAGATAAGATTCACCATGGCATACTTGGCC
Found at i:96644069 original size:26 final size:25
Alignment explanation
Indices: 96644040--96644116 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
96644030 ACAGAATAAC
96644040 ATATGAAAATTTAAAATAAATAATAT
1 ATAT-AAAATTTAAAATAAATAATAT
* * *
96644066 ATATAATGATTTAACATAAATAATGT
1 ATATAA-AATTTAAAATAAATAATAT
* *
96644092 ATA-AAATATTTAGAATAAATGATAT
1 ATATAAA-ATTTAAAATAAATAATAT
96644117 GAAAAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATAAAATTTAAAATAAATAATAT
Found at i:96649481 original size:20 final size:20
Alignment explanation
Indices: 96649456--96649493 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
96649446 ATTTATTTAA
*
96649456 TTTTATTTTTATTAAATACT
1 TTTTATTTTTAATAAATACT
96649476 TTTTATTTTTAATAAATA
1 TTTTATTTTTAATAAATA
96649494 TTGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATTTTTAATAAATACT
Found at i:96654359 original size:39 final size:40
Alignment explanation
Indices: 96654306--96654459 Score: 249
Period size: 40 Copynumber: 3.9 Consensus size: 40
96654296 GATTCCACTC
*
96654306 CCCCCATGCTATTTTG-TTTTATTATTAATTAAAACTATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
96654345 CCCCCATACTATTTTG-TTTTATTATTAATTAAAACTATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
* * *
96654384 CTCCCATACTATTTTGTTTTTATTATTAATTGAAACAATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
*
96654424 TCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
96654460 CATACTTTAT
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 53 0.50
40 54 0.50
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (40 bp):
CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
Found at i:96654438 original size:79 final size:79
Alignment explanation
Indices: 96654308--96654459 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
96654298 TTCCACTCCC
* *
96654308 CCCATGCTATTTTGTTTTATTATTAATTAAAACTATTCCCCCATACTATTTTG-TTTTATTATTA
1 CCCATACTATTTTGTTTTATTATTAATTAAAACAATTCCCCCATACTATTTTGTTTTTATTATTA
96654372 ATTAAAACTATTCT
66 ATTAAAACTATTCT
* *
96654386 CCCATACTATTTTGTTTTTATTATTAATTGAAACAATTTCCCCATACTATTTTGTTTTTATTATT
1 CCCATACTATTTTG-TTTTATTATTAATTAAAACAATTCCCCCATACTATTTTGTTTTTATTATT
96654451 AATTAAAAC
65 AATTAAAAC
96654460 CATACTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 13 0.19
79 36 0.53
80 19 0.28
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (79 bp):
CCCATACTATTTTGTTTTATTATTAATTAAAACAATTCCCCCATACTATTTTGTTTTTATTATTA
ATTAAAACTATTCT
Found at i:96655106 original size:23 final size:22
Alignment explanation
Indices: 96655080--96655125 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
96655070 ATCCAATCTC
96655080 TTCTCTCCCCAAAATACAATCGA
1 TTCT-TCCCCAAAATACAATCGA
** *
96655103 TTCTTCTTCAAAATACCATCGA
1 TTCTTCCCCAAAATACAATCGA
96655125 T
1 T
96655126 CCCCCCTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (22 bp):
TTCTTCCCCAAAATACAATCGA
Found at i:96655567 original size:18 final size:18
Alignment explanation
Indices: 96655546--96655584 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
96655536 TTTTAAAAGT
96655546 AATAACAGAGGTAAATAA
1 AATAACAGAGGTAAATAA
96655564 AATAACAGAGGTAAATAA
1 AATAACAGAGGTAAATAA
96655582 AAT
1 AAT
96655585 TTGTGTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.15, T:0.18
Consensus pattern (18 bp):
AATAACAGAGGTAAATAA
Found at i:96656528 original size:17 final size:18
Alignment explanation
Indices: 96656508--96656547 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
96656498 TTCAAACTTA
96656508 TTTTTTAA-ATATTTTAT
1 TTTTTTAATATATTTTAT
* *
96656525 TTTTTTAATGTCTTTTAT
1 TTTTTTAATATATTTTAT
96656543 TTTTT
1 TTTTT
96656548 GAGCAGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTTAATATATTTTAT
Found at i:96658064 original size:30 final size:27
Alignment explanation
Indices: 96658028--96658094 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
96658018 TTAACTGAAC
96658028 CGAATTTTTTTCAAAAAAAACTAACCAAA
1 CGAATTTTTTT--AAAAAAACTAACCAAA
*
96658057 TCGAA-TTTTTTAAAAAAATTAACCAAA
1 -CGAATTTTTTTAAAAAAACTAACCAAA
*
96658084 CCAATTTTTTT
1 CGAATTTTTTT
96658095 TCGATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 3 0.09
27 21 0.62
29 6 0.18
30 4 0.12
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (27 bp):
CGAATTTTTTTAAAAAAACTAACCAAA
Found at i:96658201 original size:9 final size:9
Alignment explanation
Indices: 96658171--96658203 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
96658161 ATAAGTATAA
96658171 AATTAACCG
1 AATTAACCG
*
96658180 AATCAACCG
1 AATTAACCG
96658189 AATTAACCG
1 AATTAACCG
96658198 AATTAA
1 AATTAA
96658204 ATTATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:96662578 original size:12 final size:12
Alignment explanation
Indices: 96662561--96662585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96662551 TTAGTTTTAG
96662561 ACTTTTACTTTT
1 ACTTTTACTTTT
96662573 ACTTTTACTTTT
1 ACTTTTACTTTT
96662585 A
1 A
96662586 GATTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (12 bp):
ACTTTTACTTTT
Found at i:96662578 original size:26 final size:26
Alignment explanation
Indices: 96662549--96662599 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
96662539 TGTTACTATG
*
96662549 TTTTAGTTTTAGACTTTTACTTTTAC
1 TTTTACTTTTAGACTTTTACTTTTAC
* *
96662575 TTTTACTTTTAGATTTTTATTTTTA
1 TTTTACTTTTAGACTTTTACTTTTA
96662600 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.08, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTTACTTTTAGACTTTTACTTTTAC
Found at i:96676230 original size:13 final size:14
Alignment explanation
Indices: 96676206--96676234 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96676196 GTAATGTGAT
96676206 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
96676220 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
96676233 TT
1 TT
96676235 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:96679357 original size:32 final size:32
Alignment explanation
Indices: 96679321--96679384 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
96679311 AAGTTTTAAT
96679321 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
96679353 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
96679385 AGTCTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (32 bp):
CACAACCAAATCATGTTACACAATCAATTCTA
Found at i:96679374 original size:18 final size:18
Alignment explanation
Indices: 96679321--96679375 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
96679311 AAGTTTTAAT
96679321 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
* *
96679339 CACAATC-AAT--T-CTA
1 CACAACCAAATCATGTTA
96679353 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
96679371 CACAA
1 CACAA
96679376 TCAATTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
17 4 0.14
18 13 0.45
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (18 bp):
CACAACCAAATCATGTTA
Found at i:96691059 original size:23 final size:23
Alignment explanation
Indices: 96691010--96691059 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
96691000 GGAACTTATG
**
96691010 ATTTAATTAACTTAATTAACCTT
1 ATTTAATTAACTTAATTAACCAA
*
96691033 ATTTACTTAA-TTAATTAAACCAA
1 ATTTAATTAACTTAATT-AACCAA
96691056 ATTT
1 ATTT
96691060 TAAGCTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTAACTTAATTAACCAA
Found at i:96695510 original size:20 final size:19
Alignment explanation
Indices: 96695484--96695528 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
96695474 TTTTTAATTA
* *
96695484 TTAAAATCTTTTAATATTT
1 TTAAAATATATTAATATTT
*
96695503 TATAAAATATATTATTATTT
1 T-TAAAATATATTAATATTT
96695523 TTAAAA
1 TTAAAA
96695529 ATTGAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATATATTAATATTT
Found at i:96706586 original size:14 final size:15
Alignment explanation
Indices: 96706562--96706590 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96706552 TTTGTGACTC
96706562 GACTAATATAGGTTA
1 GACTAATATAGGTTA
96706577 GACT-ATATAGGTTA
1 GACTAATATAGGTTA
96706591 AAACTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
GACTAATATAGGTTA
Found at i:96707262 original size:60 final size:60
Alignment explanation
Indices: 96707188--96707309 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
96707178 GGTTCTTAAA
*
96707188 TCAAAAAGATAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
*
96707248 TCAAAAAGAAAAAAACTATGTGCAAATATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
96707308 TC
1 TC
96707310 CTATGGTAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (60 bp):
TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
Found at i:96708524 original size:19 final size:20
Alignment explanation
Indices: 96708497--96708555 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
96708487 TCTTCGAAGA
*
96708497 TATGCAATCTTAGATATG-G
1 TATGTAATCTTAGATATGAG
*
96708516 TATGTAATCTTAAAAGATATGAT
1 TATGTAATCTT---AGATATGAG
*
96708539 TTTGTAATCTTAGATAT
1 TATGTAATCTTAGATAT
96708556 TTAATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
22 7 0.21
23 10 0.30
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
TATGTAATCTTAGATATGAG
Found at i:96708536 original size:22 final size:23
Alignment explanation
Indices: 96708508--96708550 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
96708498 ATGCAATCTT
96708508 AGATATG-GTATGTAATCTTAAA
1 AGATATGAGTATGTAATCTTAAA
* *
96708530 AGATATGATTTTGTAATCTTA
1 AGATATGAGTATGTAATCTTA
96708551 GATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAGTATGTAATCTTAAA
Found at i:96713670 original size:17 final size:17
Alignment explanation
Indices: 96713620--96713670 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
96713610 TGGAAACATG
*
96713620 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
96713637 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
96713656 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
96713671 ATTTTGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:96714733 original size:21 final size:21
Alignment explanation
Indices: 96714709--96714772 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
96714699 GAAGTTGAAA
96714709 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
* * **
96714730 CATGTAAGTTA-GTAAG---AA
1 CATG-AATTTACTTAAGCTTGC
96714748 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
96714769 CATG
1 CATG
96714773 TAAGTTAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (21 bp):
CATGAATTTACTTAAGCTTGC
Found at i:96714750 original size:39 final size:39
Alignment explanation
Indices: 96714707--96714785 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
96714697 AGGAAGTTGA
96714707 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
96714746 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
96714785 A
1 A
96714786 TGAAGTAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
Found at i:96714784 original size:21 final size:21
Alignment explanation
Indices: 96714721--96714784 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
96714711 TGAATTTACT
96714721 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
** * *
96714742 TAAG---AACATG-AATTTACT
1 TAAGCTTGCCATGTAAGTTA-G
96714760 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
96714781 TAAG
1 TAAG
96714785 ATGAAGTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TAAGCTTGCCATGTAAGTTAG
Found at i:96719899 original size:214 final size:217
Alignment explanation
Indices: 96719509--96719939 Score: 595
Period size: 214 Copynumber: 2.0 Consensus size: 217
96719499 ATTTGTTAAT
* * * *
96719509 TTGTTAAACTGAAAAGGTGAAGAATCCATCCAAAAGAAACCGTTGAGTTTAAACATATAAATACG
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATAAATACG
* * * *
96719574 ATATATGTAAGTCATGCAAAAATTTAAAGCACATGGAACTAGGCATGCACAAAATGACAGACTAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
* * *
96719639 CAAAGAAGCAATAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTTGCAAT-AT
131 CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
96719703 ACCTTGTTTCAGTGGCAAGGAG
196 ACCTTGTTTCAGTGGCAAGGAG
* * * *
96719725 TTGTTACATTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATA-T
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATAAATACG
* * **
96719789 A-ATATGTAAGTCATACAAAAATTTAAATCACATAGAACTAGGTATGCA-AAAAAG-TTGACCAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
** *
96719851 CAAAGAAGCAAAAGATTATTA-GAACCATCATTTGAACTTCATGAGCATATTCAATATTCGCAAT
131 CAAAGAAGCAAAAGA-TA--AGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAAT
96719915 GAAACCTTGTTTCAGTGGCAAGGAG
193 GAAACCTTGTTTCAGTGGCAAGGAG
96719940 GAGGCTTTGG
Statistics
Matches: 189, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
212 19 0.10
213 7 0.04
214 82 0.43
215 25 0.13
216 56 0.30
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (217 bp):
TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATAAATACG
ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
ACCTTGTTTCAGTGGCAAGGAG
Found at i:96722724 original size:18 final size:17
Alignment explanation
Indices: 96722701--96722759 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
96722691 ATAAGTATAA
*
96722701 AATTAATTGAATTAATCG
1 AATTAACTGAATTAA-CG
* *
96722719 AATTAACTAAATTACACA
1 AATTAACTGAATTA-ACG
96722737 AATTAACTGAATTAACCG
1 AATTAACTGAATTAA-CG
96722755 AATTA
1 AATTA
96722760 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (17 bp):
AATTAACTGAATTAACG
Found at i:96724121 original size:18 final size:18
Alignment explanation
Indices: 96724094--96724129 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96724084 TTTTATCAAT
96724094 ATTTAGTAAATATATATA
1 ATTTAGTAAATATATATA
* *
96724112 ATTTATTAAATATCTATA
1 ATTTAGTAAATATATATA
96724130 CATAGAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTAGTAAATATATATA
Found at i:96725687 original size:14 final size:14
Alignment explanation
Indices: 96725651--96725679 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96725641 AAAGAAAGGC
96725651 CACACAAAATGGTT
1 CACACAAAATGGTT
96725665 CACACAAAATGGTT
1 CACACAAAATGGTT
96725679 C
1 C
96725680 CTCTAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (14 bp):
CACACAAAATGGTT
Found at i:96727829 original size:42 final size:42
Alignment explanation
Indices: 96727782--96727866 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
96727772 TAGTTGAACA
96727782 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
96727824 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
96727866 T
1 T
96727867 ATGAAAAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (42 bp):
TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
Found at i:96741407 original size:23 final size:23
Alignment explanation
Indices: 96741377--96741427 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
96741367 AATCAATAAT
*
96741377 TTGCACCAAAGTGACACTATCAC
1 TTGCACCAAAGTGACACAATCAC
*
96741400 TTGCACCAAAGTGTCACAATCAC
1 TTGCACCAAAGTGACACAATCAC
96741423 TTGCA
1 TTGCA
96741428 TGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (23 bp):
TTGCACCAAAGTGACACAATCAC
Found at i:96746791 original size:3 final size:3
Alignment explanation
Indices: 96746780--96746813 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
96746770 ATTATTTTGT
*
96746780 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96746814 TGTTTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96747369 original size:16 final size:16
Alignment explanation
Indices: 96747350--96747380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96747340 TACACCCATA
*
96747350 TATATGTACATATTTT
1 TATATATACATATTTT
96747366 TATATATACATATTT
1 TATATATACATATTT
96747381 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:96759704 original size:46 final size:44
Alignment explanation
Indices: 96759637--96759922 Score: 197
Period size: 46 Copynumber: 6.6 Consensus size: 44
96759627 ATAATACAGG
*
96759637 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
96759683 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
96759727 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
96759766 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
96759807 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * * *
96759853 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
96759896 TCCTATCTCCCTGA-AGTTACAGTGGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAA
96759923 TGGATTAAAA
Statistics
Matches: 190, Mismatches: 33, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 23 0.12
40 1 0.01
41 27 0.14
42 6 0.03
43 25 0.13
44 33 0.17
45 2 0.01
46 71 0.37
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:96761570 original size:3 final size:3
Alignment explanation
Indices: 96761559--96761592 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
96761549 ATTATTTTGT
*
96761559 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96761593 TGTTTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96762149 original size:16 final size:16
Alignment explanation
Indices: 96762130--96762160 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96762120 TACACCCATA
*
96762130 TATATGTACATATTTT
1 TATATATACATATTTT
96762146 TATATATACATATTT
1 TATATATACATATTT
96762161 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:96772495 original size:131 final size:131
Alignment explanation
Indices: 96772285--96772741 Score: 383
Period size: 131 Copynumber: 3.5 Consensus size: 131
96772275 ACACTTGGTT
* * * * * * *** * * *
96772285 ATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTATCATTTACCCAAAGTAATCGAAGGT
1 ATTCG-GGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAATAATCGAATGA
* * * * *
96772350 C-CCTTTA-GAATTTCACTCATGTCTTCCAAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTT
65 CTCC-TTAGGAATTTCATTCATGTCTTCTAAAAA-CCTTTAAAACGAAGGAAATATTCGATGTTT
**
96772413 GATA
128 GGCA
* * * *
96772417 ATTCGGGAATCATACCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAATAATCGAATG-T
1 ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAATAATCGAATGAC
* * ** ** * **
96772481 TCCTTCAGG-TTTTCATTCATGT-TTATTAAAAACCTTCCGAAACGAAGGCGATTTTAAATGTTT
66 TCCTT-AGGAATTTCATTCATGTCTT-CTAAAAACCTT-TAAAACGAAGGAAATATTCGATGTTT
*
96772544 GGCG
128 GGCA
* * * * *
96772548 ATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGTATTT-TCGTTTGTTCAAAACAATC-AAAGA
1 ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCG-ATTTCTCGTTTGTTCAAAATAATCGAATGA
* *
96772611 CTCCTTAGGAATTTCATTCATG-CTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGATGTTT
65 CTCCTTAGGAATTTCATTCATGTC-TTCTAAAAA-CCTTTAAAACGAAGGAAATATTCGATGTTT
96772675 GGCA
128 GGCA
*
96772679 ATTCGGTGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAT
1 ATTCGG-GAATCA-TGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAATAATCGAAT
96772742 ATATCTTCGG
Statistics
Matches: 255, Mismatches: 55, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
130 14 0.05
131 180 0.71
132 59 0.23
133 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
ATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAATAATCGAATGAC
TCCTTAGGAATTTCATTCATGTCTTCTAAAAACCTTTAAAACGAAGGAAATATTCGATGTTTGGC
A
Found at i:96776873 original size:42 final size:43
Alignment explanation
Indices: 96776827--96776908 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
96776817 ATAAACTTAT
* *
96776827 AAATAATATA-GTTTTTATATA-ATAAATTTTATATGTTTTTAA
1 AAATAATATAGGTTTATATATATATAAATTGTATAT-TTTTTAA
* *
96776869 AAATATTATAGGTTTATATATATATTAATTGTATATTTTT
1 AAATAATATAGGTTTATATATATATAAATTGTATATTTTT
96776909 ATATTTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 14 0.41
44 11 0.32
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (43 bp):
AAATAATATAGGTTTATATATATATAAATTGTATATTTTTTAA
Found at i:96776909 original size:42 final size:41
Alignment explanation
Indices: 96776827--96776909 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
96776817 ATAAACTTAT
* *
96776827 AAATAATATAGTTTTTATATAATAAATTTTATATGTTTTTAA
1 AAATAATATAGTTTATATATAATAAATTGTATA-GTTTTTAA
* *
96776869 AAATATTATAGGTTTATATATATATTAATTGTATA-TTTTTA
1 AAATAATATA-GTTTATATATA-ATAAATTGTATAGTTTTTA
96776910 TATTTTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 15 0.43
43 10 0.29
44 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (41 bp):
AAATAATATAGTTTATATATAATAAATTGTATAGTTTTTAA
Found at i:96800945 original size:28 final size:29
Alignment explanation
Indices: 96800909--96800965 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
96800899 TTATTTGGGG
*
96800909 TTTCTGGTTGTAATTTTGGAC-TTTGAACT
1 TTTCTGGTTGTAATTTCGG-CTTTTGAACT
*
96800938 TTTC-GGTTTTAATTTCGGCTTTTGAACT
1 TTTCTGGTTGTAATTTCGGCTTTTGAACT
96800966 GTGGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.04
28 20 0.80
29 4 0.16
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (29 bp):
TTTCTGGTTGTAATTTCGGCTTTTGAACT
Found at i:96812540 original size:22 final size:22
Alignment explanation
Indices: 96812470--96812541 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
96812460 TGCACCAGTA
* *
96812470 TATGAGAGCCCTTTAAGGGACG
1 TATGAGAGCCCTTTATGAGACG
* * *
96812492 TTTGAGAGCCCCTTGTGTAGGACG
1 TATGAGAGCCCTTTATG-A-GACG
*
96812516 TATGAAAGCCCTTTATGAGACG
1 TATGAGAGCCCTTTATGAGACG
96812538 TATG
1 TATG
96812542 GAAGACCATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 21 0.54
23 1 0.03
24 17 0.44
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:96812630 original size:28 final size:29
Alignment explanation
Indices: 96812595--96812661 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
96812585 CATGGATTAT
* *
96812595 TTAAATGTGGGGAGCCCTTCAAGACTG-TC
1 TTAAATGTGGGCAGCCCATCAAGAC-GATC
* *
96812624 -TAAATGTAGGCAGTCCATCAAGACGATC
1 TTAAATGTGGGCAGCCCATCAAGACGATC
96812652 TTAAATGTGG
1 TTAAATGTGG
96812662 AAGTTGTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 22 0.71
29 8 0.26
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (29 bp):
TTAAATGTGGGCAGCCCATCAAGACGATC
Found at i:96812673 original size:28 final size:29
Alignment explanation
Indices: 96812642--96812698 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
96812632 GGCAGTCCAT
* *
96812642 CAAGACGATCTTAAATGTGGAAGT-TGTC
1 CAAGACAATCTTAAATGAGGAAGTCTGTC
96812670 CAAGACAATCTTAAATGAGGAAGTCTGTC
1 CAAGACAATCTTAAATGAGGAAGTCTGTC
96812699 TGAATGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (29 bp):
CAAGACAATCTTAAATGAGGAAGTCTGTC
Found at i:96826549 original size:22 final size:22
Alignment explanation
Indices: 96826511--96826554 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96826501 TTGCCCGAGC
* *
96826511 CCAAAACCAGACACAAATAAAA
1 CCAAAACCAAACACAAAAAAAA
96826533 CCAAAACCAAA-ACCAAAAAAAA
1 CCAAAACCAAACA-CAAAAAAAA
96826555 AACAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.68, C:0.27, G:0.02, T:0.02
Consensus pattern (22 bp):
CCAAAACCAAACACAAAAAAAA
Found at i:96826572 original size:11 final size:11
Alignment explanation
Indices: 96826524--96826573 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
96826514 AAACCAGACA
96826524 CAAAT-AAAAC
1 CAAATAAAAAC
96826534 CAAA-ACCAAAAC
1 CAAATA--AAAAC
* *
96826546 CAAAAAAAAAA
1 CAAATAAAAAC
96826557 CAAATAAAAAC
1 CAAATAAAAAC
96826568 CAAATA
1 CAAATA
96826574 TTAACAGTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.12
11 19 0.58
12 9 0.27
13 1 0.03
ACGTcount: A:0.74, C:0.20, G:0.00, T:0.06
Consensus pattern (11 bp):
CAAATAAAAAC
Found at i:96827767 original size:16 final size:17
Alignment explanation
Indices: 96827735--96827771 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
96827725 TATTCTTATT
96827735 TTTATTTCTCGTTGCTTA
1 TTTATTTCTC-TTGCTTA
96827753 TTTATTTCT-TTGCTTA
1 TTTATTTCTCTTGCTTA
96827769 TTT
1 TTT
96827772 TTACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTATTTCTCTTGCTTA
Found at i:96827774 original size:18 final size:19
Alignment explanation
Indices: 96827729--96827774 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
96827719 CGTCATTATT
96827729 CTTATTTTTATTTCTCGTTG
1 CTTATTTTTATTTCTC-TTG
96827749 CTTA--TTTATTTCT-TTG
1 CTTATTTTTATTTCTCTTG
96827765 CTTATTTTTA
1 CTTATTTTTA
96827775 CACTTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.29
18 13 0.54
20 4 0.17
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTATTTTTATTTCTCTTG
Found at i:96829475 original size:82 final size:84
Alignment explanation
Indices: 96829338--96829533 Score: 315
Period size: 82 Copynumber: 2.3 Consensus size: 84
96829328 TGAATTCAAT
96829338 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTA-A-TCAT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAGAGTCAT
96829401 ATCCCAGAGTTTGGATGGA
66 ATCCCAGAGTTTGGATGGA
96829420 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAGTGAGTT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTA--GAG-T
*
96829485 CATATCCCAGAGTTTGGATGGT
63 CATATCCCAGAGTTTGGATGGA
* * *
96829507 CCTATTGAGACGAACTTGATGAATTCA
1 CCTATTCAGATGGACTTGATGAATTCA
96829534 CTGAATTTAA
Statistics
Matches: 105, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
82 58 0.55
85 1 0.01
87 46 0.44
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (84 bp):
CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAGAGTCAT
ATCCCAGAGTTTGGATGGA
Found at i:96833369 original size:3 final size:3
Alignment explanation
Indices: 96833363--96833387 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96833353 TCATCAAACC
96833363 CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG C
96833388 TTCAAGTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:96839324 original size:28 final size:28
Alignment explanation
Indices: 96839276--96839329 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
96839266 TTTTGGGCTC
*
96839276 AAATTAAATTATATATTTTTACTAGTAA
1 AAATTAAATTATATATTTTTAATAGTAA
96839304 AAATATAAATT-TATCA-TTTTAATAGT
1 AAAT-TAAATTATAT-ATTTTTAATAGT
96839330 TTATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
AAATTAAATTATATATTTTTAATAGTAA
Found at i:96841873 original size:18 final size:18
Alignment explanation
Indices: 96841847--96841895 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
96841837 GTAACAGTCG
*
96841847 ATAACAATCAATTATTCA
1 ATAATAATCAATTATTCA
*
96841865 ATAATAATCAGTTATTCA
1 ATAATAATCAATTATTCA
*
96841883 GT-ATCAATCAATT
1 ATAAT-AATCAATT
96841896 GATCGGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAATAATCAATTATTCA
Found at i:96841905 original size:26 final size:27
Alignment explanation
Indices: 96841875--96841931 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
96841865 ATAATAATCA
*
96841875 GTTATTC-AGTATCAATCAATTGATCG
1 GTTATTCTAGTAACAATCAATTGATCG
96841901 GTTA-TCTAGTAACAATCAATTGATCG
1 GTTATTCTAGTAACAATCAATTGATCG
96841927 GTTAT
1 GTTAT
96841932 CCAATAGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
GTTATTCTAGTAACAATCAATTGATCG
Found at i:96841932 original size:26 final size:26
Alignment explanation
Indices: 96841882--96841932 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
96841872 TCAGTTATTC
*
96841882 AGTATCAATCAATTGATCGGTTATCT
1 AGTAACAATCAATTGATCGGTTATCT
96841908 AGTAACAATCAATTGATCGGTTATC
1 AGTAACAATCAATTGATCGGTTATC
96841933 CAATAGCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (26 bp):
AGTAACAATCAATTGATCGGTTATCT
Found at i:96841945 original size:26 final size:26
Alignment explanation
Indices: 96841887--96841947 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
96841877 TATTCAGTAT
* *
96841887 CAATCAATTGATCGGTTATCTAGTAA
1 CAATCAATTGATCGGTTATCCAATAA
*
96841913 CAATCAATTGATCGGTTATCCAATAG
1 CAATCAATTGATCGGTTATCCAATAA
*
96841939 CAGTCAATT
1 CAATCAATT
96841948 ATTCAGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (26 bp):
CAATCAATTGATCGGTTATCCAATAA
Found at i:96841963 original size:18 final size:18
Alignment explanation
Indices: 96841942--96841979 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96841932 CCAATAGCAG
*
96841942 TCAATTATTCAGTAAAAA
1 TCAAATATTCAGTAAAAA
*
96841960 TCAAATATTCAGTAACAA
1 TCAAATATTCAGTAAAAA
96841978 TC
1 TC
96841980 GATCTTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
TCAAATATTCAGTAAAAA
Found at i:96842221 original size:12 final size:12
Alignment explanation
Indices: 96842204--96842228 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96842194 AGTGCCGAAT
96842204 CGGTAACAGTAA
1 CGGTAACAGTAA
96842216 CGGTAACAGTAA
1 CGGTAACAGTAA
96842228 C
1 C
96842229 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:96843327 original size:5 final size:5
Alignment explanation
Indices: 96843319--96843357 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
96843309 TTCTTTAGTT
96843319 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
96843358 GTTAAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:96844206 original size:36 final size:35
Alignment explanation
Indices: 96844141--96844208 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
96844131 AAAATAATAG
*
96844141 CAAAAATAACAATAAAACAAGAGTCATATAATATC
1 CAAAAATAACAATAAAACAAGAGTAATATAATATC
*
96844176 CAAACAATAACAATAAAA-TAGTAGTAATATAAT
1 CAAA-AATAACAATAAAACAAG-AGTAATATAAT
96844209 GATGAAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.22
Consensus pattern (35 bp):
CAAAAATAACAATAAAACAAGAGTAATATAATATC
Done.