Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 158 of 208
Found at i:51356808 original size:15 final size:16
Alignment explanation
Indices: 51356774--51356815 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
51356764 AAAAGAGAGT
51356774 GAAAAGAGAGTGAGAAAA
1 GAAAA-AGA-TGAGAAAA
51356792 GAAAAAGATGA-AAAA
1 GAAAAAGATGAGAAAA
51356807 GAAAAAGAT
1 GAAAAAGAT
51356816 TGCGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.54
16 3 0.12
17 3 0.12
18 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (16 bp):
GAAAAAGATGAGAAAA
Found at i:51372110 original size:40 final size:40
Alignment explanation
Indices: 51372055--51372365 Score: 559
Period size: 40 Copynumber: 7.8 Consensus size: 40
51372045 GCATGAGCAT
*
51372055 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51372095 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51372135 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
51372175 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51372215 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51372255 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
51372295 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
* *
51372335 TTGATATGTTCGGGCTAAGACCCGAAGGCAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAA
51372366 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
Found at i:51373765 original size:55 final size:55
Alignment explanation
Indices: 51373699--51373808 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
51373689 AAGTTTGTTA
51373699 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
1 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
51373754 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
1 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
51373809 GGTATCAGAG
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:0.13, C:0.24, G:0.31, T:0.33
Consensus pattern (55 bp):
ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
Found at i:51380789 original size:40 final size:40
Alignment explanation
Indices: 51380734--51381044 Score: 559
Period size: 40 Copynumber: 7.8 Consensus size: 40
51380724 GCATGAGCAT
*
51380734 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51380774 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51380814 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
51380854 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51380894 TTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
*
51380934 TTGATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
51380974 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
* *
51381014 TTGATATGTTCGGGCTAAGACCCGAAGGCAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCAA
51381045 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
Found at i:51382444 original size:55 final size:55
Alignment explanation
Indices: 51382378--51382482 Score: 210
Period size: 55 Copynumber: 1.9 Consensus size: 55
51382368 AAGTTTGTTA
51382378 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
1 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
51382433 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAAT
1 ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAAT
51382483 GCTTTTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (55 bp):
ACATCTCGTGTCCGACTCCGGTGTCGGTCTCGGGTTCGGGGTGTTACAATTTAGT
Found at i:51386488 original size:33 final size:34
Alignment explanation
Indices: 51386437--51386511 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
51386427 AGATTTAAAC
*
51386437 AAATTAATTACTAACACTTATTTAAGCTGAATTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
51386471 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
51386504 AATTTAAT
1 AAATTAAT
51386512 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:51388286 original size:18 final size:18
Alignment explanation
Indices: 51388260--51388303 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
51388250 CAATCTCTTT
51388260 TTTTCTCTTTTTC-ATTGTC
1 TTTT-TCTTTTTCAATT-TC
51388279 TTTTTCTTTTTCAATTTC
1 TTTTTCTTTTTCAATTTC
51388297 TTTTTCT
1 TTTTTCT
51388304 GTCCTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTTC
Found at i:51389976 original size:22 final size:22
Alignment explanation
Indices: 51389946--51389989 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51389936 TTTTATATTT
51389946 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
51389968 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
51389990 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:51408952 original size:28 final size:28
Alignment explanation
Indices: 51408899--51408955 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
51408889 AATGTGTTTT
* *
51408899 ATTTTATTACATGTTATTAATGTGTCTA
1 ATTTTATTACATGCTATTAATATGTCTA
51408927 ATTTTATTACATGCT-TTAATAATGTCTA
1 ATTTTATTACATGCTATTAAT-ATGTCTA
51408955 A
1 A
51408956 GTCTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (28 bp):
ATTTTATTACATGCTATTAATATGTCTA
Found at i:51435187 original size:173 final size:173
Alignment explanation
Indices: 51434891--51435217 Score: 600
Period size: 173 Copynumber: 1.9 Consensus size: 173
51434881 AACTCAAGGT
* *
51434891 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACATTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
51434956 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
51435021 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTGCAC
*
51435064 ACTTACATTTTCCGCTGTTCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACATTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
* *
51435129 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCTCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
51435194 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
51435218 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (173 bp):
ACTTACATTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTGCAC
Found at i:51435211 original size:29 final size:30
Alignment explanation
Indices: 51435177--51435248 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
51435167 ATCAACCGCT
*
51435177 CACACTTAGTGCCATGTAC-TTTAAACTCG
1 CACACTTAGTGCCATGTACATTTAAACCCG
51435206 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCG
51435235 CACACTTAGTGCCA
1 CACACTTAGTGCCA
51435249 ATATCATGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 31 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCG
Found at i:51456403 original size:40 final size:40
Alignment explanation
Indices: 51456344--51456616 Score: 474
Period size: 40 Copynumber: 6.8 Consensus size: 40
51456334 GAACATTGGA
* *
51456344 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
51456384 ACATATCCGGGCTAAGACCCGAAGGCAATTATGTGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51456424 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51456464 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51456504 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51456544 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
51456584 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
51456617 TTTGCGGCTG
Statistics
Matches: 223, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:51460408 original size:14 final size:14
Alignment explanation
Indices: 51460389--51460417 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51460379 CTTCTCTCAG
51460389 AATATGAAAGTACA
1 AATATGAAAGTACA
51460403 AATATGAAAGTACA
1 AATATGAAAGTACA
51460417 A
1 A
51460418 CAGGTTTTTT
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:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AATATGAAAGTACA
Found at i:51462296 original size:32 final size:33
Alignment explanation
Indices: 51462248--51462313 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
51462238 TGTATGCATT
51462248 TTAGCATTTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTTAATAGTTAATGGATGATGGGCA
51462281 TTAGCA-TTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTTAATAGTTAATGGATGATGGGCA
51462313 T
1 T
51462314 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (33 bp):
TTAGCATTTTTAATAGTTAATGGATGATGGGCA
Found at i:51463817 original size:26 final size:26
Alignment explanation
Indices: 51463788--51463840 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
51463778 ATTACAGTTT
51463788 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
51463814 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
51463840 T
1 T
51463841 GCACGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:51466616 original size:38 final size:39
Alignment explanation
Indices: 51466551--51466736 Score: 184
Period size: 38 Copynumber: 4.8 Consensus size: 39
51466541 ATAACCACAA
* * *
51466551 GCACAATTGCCTTCGGGTCTTAACCCGGGTAAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAGCAACTC
* *
51466590 GCACAAATGCC-TCGGGTCTTAGCCCGGATTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAGCAACTC
* *
51466628 GCACAAATGCCTTCGGGTCTTAGCCCGGATAA-AATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAGCA--ACTC
** * *
51466668 GCA-AAATGCCTTC-GAACTTAGCCCGGATAA-AATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAGCA--ACTC
* *
51466706 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
51466737 TCATTCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
38 61 0.47
39 49 0.37
40 21 0.16
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAGCAACTC
Found at i:51466675 original size:77 final size:78
Alignment explanation
Indices: 51466522--51466736 Score: 208
Period size: 77 Copynumber: 2.8 Consensus size: 78
51466512 ACCCAAGTTT
* * * * * *
51466522 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-AAGC
1 CTTC-GAACTTAGCCCGGATA-AATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAGC
*
51466585 AACTCGCACAAATGC
64 AACTAGCACAAATGC
** * * *
51466600 C-TCGGGTCTTAGCCCGGAT-TATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
1 CTTC-GAACTTAGCCCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAAG
51466663 C-ACTAGCA-AAATGC
63 CAACTAGCACAAATGC
* *
51466677 CTTCGAACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGAACTTAGCCCGGAT-AAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
51466737 TCATTCAAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
76 2 0.02
77 58 0.52
78 46 0.41
79 6 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (78 bp):
CTTCGAACTTAGCCCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAGCAA
CTAGCACAAATGC
Found at i:51474849 original size:40 final size:41
Alignment explanation
Indices: 51474706--51474857 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 41
51474696 TATAACCACA
* * * * * * *
51474706 AGCACAATTGCCTTCGGGTCTTAACACGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCAACT
* *
51474746 CGCACAAATGCCTTCGGGTCTTAGCCCAGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCAACT
*
51474786 CGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCAACT
* * *
51474826 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCAGATA
51474858 TCATTCAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
40 95 0.96
41 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCAACT
Found at i:51482339 original size:40 final size:40
Alignment explanation
Indices: 51482295--51482425 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
51482285 CGACTAAGAT
51482295 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
51482335 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
51482375 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
51482415 CCGAAGGCATT
1 CCGAAGGCATT
51482426 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:51482446 original size:39 final size:38
Alignment explanation
Indices: 51482295--51482462 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 38
51482285 CGACTAAGAT
* *
51482295 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
51482335 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
*
51482375 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
51482415 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
51482454 CCGAAGGCA
1 CCGAAGGCA
51482463 CTTGAACGAG
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
39 31 0.28
40 78 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:51490231 original size:40 final size:40
Alignment explanation
Indices: 51490147--51490330 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
51490137 TTGAATGCTG
* * * *
51490147 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
51490186 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
51490227 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
*
51490267 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT--AAT
51490308 T-CGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51490331 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.02
40 109 0.87
41 14 0.11
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:51490284 original size:80 final size:81
Alignment explanation
Indices: 51490147--51490327 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
51490137 TTGAATGCTG
* *
51490147 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
*
51490211 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAT
**
51490227 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
51490288 ATTCGTGCGAGTTTTAAAAT
63 ATTCGTGCGAGTTTT-AAAT
51490308 T-CGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
51490328 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
79 4 0.04
80 73 0.81
81 13 0.14
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAT
Found at i:51497328 original size:28 final size:28
Alignment explanation
Indices: 51497288--51497379 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
51497278 TGGGAAGTAG
*
51497288 TTGGGCCTGATGGGCCATAAGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
51497316 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
51497344 TTGGGCCGGATGAGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
51497372 TTGGGCCT
1 TTGGGCCT
51497380 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:51498311 original size:27 final size:27
Alignment explanation
Indices: 51497689--51498298 Score: 585
Period size: 27 Copynumber: 22.7 Consensus size: 27
51497679 TAATAAAGAG
* *
51497689 AAATTATTGAAATACCCTCGATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
51497716 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
51497743 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* **
51497770 AAATTATTGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * * *
51497797 AAATTACCAAAATA-CTTACAATTT-TG
1 AAATTATCGAAATACCCT-CGATTTGTA
*
51497823 AAATTAT-TAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
51497849 AAATTATCGAAATACCCTCTCGATTTG-A
1 AAATTATCGAAATA-CC-CTCGATTTGTA
* * * *
51497877 AAATTATCGAAATACCCCCAAATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
51497904 AAATTA-CTAAAACACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
51497931 AAATTA-CTGAAAAACCTTCGATTTGCA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
51497958 GAATTA-CTGAAAAACCTTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * **
51497985 AAATTACCAAAATACCTTTAATTATG--
1 AAATTATCGAAATACCCTCGATT-TGTA
* * *
51498011 AAATTATTGAAATACCCTCAATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
51498038 AAATTATCAAAATACCCCCGATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
51498065 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
51498092 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
51498119 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
51498146 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
51498173 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
51498200 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* **
51498227 AAATTATCGAAACATCCC-AAATTTGTA
1 AAATTATCGAAATA-CCCTCGATTTGTA
* * *
51498254 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
51498281 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
51498299 TCTAGTGTAA
Statistics
Matches: 490, Mismatches: 78, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
25 11 0.02
26 48 0.10
27 399 0.81
28 23 0.05
29 9 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:51498322 original size:27 final size:27
Alignment explanation
Indices: 51498115--51498341 Score: 86
Period size: 27 Copynumber: 8.4 Consensus size: 27
51498105 ACCCTCGATT
* * *
51498115 TGTAAAATTACCGAAACACCCTTGAT-T
1 TGTAAAATGACCGAAATACCCTT-ATAG
* * * *
51498142 TGTAAAATTATCGAAATACCCTCA-ATT
1 TGTAAAATGACCGAAATACCCTTATA-G
* * * *
51498169 TGTAAAATTATCGAAATACCCTCA-ATT
1 TGTAAAATGACCGAAATACCCTTATA-G
* * * *
51498196 TGTAAAATTATCGAAATACCCTCGAT-T
1 TGTAAAATGACCGAAATACCCT-TATAG
* * * ** *
51498223 TGTAAAATTATCGAAACATCCCAAAT-T
1 TGTAAAATGACCGAAATA-CCCTTATAG
* * * *
51498250 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTATAG
* * *
51498277 TGTAAAATTATCGAAATACCCTTCTAG
1 TGTAAAATGACCGAAATACCCTTATAG
* * *
51498304 TGTAAAATGGCCGACATACCCCTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
51498331 GGTAAAATGAC
1 TGTAAAATGAC
51498342 TGTTTTTCCG
Statistics
Matches: 171, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.03
27 162 0.95
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:51501251 original size:28 final size:28
Alignment explanation
Indices: 51501166--51501239 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
51501156 TGGGAAGTAG
51501166 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
51501194 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
51501222 TTGGGCTTGATGGGCCAT
1 TTGGGCCTGATGGGCCAT
51501240 GTGACCGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:51501257 original size:56 final size:57
Alignment explanation
Indices: 51501166--51501274 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
51501156 TGGGAAGTAG
* * * * *
51501166 TTGGGCCTGATGGGCCATATGAATGTGATTGGGCCT-AATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTAAAGGGGCCAAATGAATGTGA
* * *
51501222 TTGGGCTTGATGGGCCATGTGACCGAGATTCGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTAAAGGGGCCAAATGAAT
51501275 AAGTGTGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
56 30 0.68
57 14 0.32
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.26
Consensus pattern (57 bp):
TTGGGCCTGATGGGCCATATGAACGAGATTCGGCCTAAAGGGGCCAAATGAATGTGA
Found at i:51501604 original size:27 final size:27
Alignment explanation
Indices: 51501574--51501921 Score: 330
Period size: 27 Copynumber: 13.0 Consensus size: 27
51501564 TAATAAAGAG
*
51501574 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
51501601 AAATTACCGAAACAACCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
51501628 AAATTACCAAAACACCCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
51501655 AAATTACCAAAATACCCT-TACTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
51501682 AAATTACCAAAGTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* *
51501708 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
51501735 AAATTACCGAAATACCCACGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
51501761 AAATTATCGAAATACCATCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
51501788 AAATTACCCAAATACCC-CAATTTTTG
1 AAATTACCAAAATACCCTCGATTTGTA
* *
51501814 AAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * ** *
51501841 AAATTACTAAAAAACATTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
51501868 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACCAAAATACCCTCGATT-TGTA
** *
51501894 AAATTACTGAAATACTCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
51501921 A
1 A
51501922 TTTGAATCAA
Statistics
Matches: 264, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.01
26 86 0.33
27 173 0.66
28 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:51501742 original size:80 final size:80
Alignment explanation
Indices: 51501574--51501921 Score: 321
Period size: 80 Copynumber: 4.3 Consensus size: 80
51501564 TAATAAAGAG
* * * *
51501574 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAACAACCTTGATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACC-AAATACCCTCGATTTGTAAAATTACCAAA
* **
51501639 ACACCCTTGATTTGTA
65 ATACCCTCAATTTGTA
* * *
51501655 AAATTACCAAAATACCCT-TACTTTGTAAAATTACCAAAGTACCCTCGA-TTGTGAAATTACTAA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAA-TACCCTCGATTTGTAAAATTACCAA
51501718 AATACCCTCAATTTGTA
64 AATACCCTCAATTTGTA
* * * * * * *
51501735 AAATTACCGAAATACCCACGA-TTGTGAAATTATCGAAATACCATCAATTTGTAAAATTACCCAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTA-CCAAATACCCTCGATTTGTAAAATTACCAAA
* *
51501799 ATACCC-CAATTTTTG
65 ATACCCTCAATTTGTA
* * * * ** * *
51501814 AAATTACTAAAACACCCTCGATTTGTAAAATTACTAAAAAACATTTGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTAC-CAAATACCCTCGATTTGTAAAATTACCAAA
*
51501879 ATACCCTCGATTATG--
65 ATACCCTCAATT-TGTA
** *
51501894 AAATTACTGAAATACTCTCGATTTGTAA
1 AAATTACCAAAATACCCTCGATTTGTAA
51501922 TTTGAATCAA
Statistics
Matches: 219, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
79 42 0.19
80 134 0.61
81 42 0.19
82 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAATACCCTCGATTTGTAAAATTACCAAAA
TACCCTCAATTTGTA
Found at i:51501921 original size:53 final size:53
Alignment explanation
Indices: 51501574--51501921 Score: 292
Period size: 53 Copynumber: 6.5 Consensus size: 53
51501564 TAATAAAGAG
* * * * *
51501574 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAACAACCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTG-A
* * *
51501628 AAATTACCAAAACACCCTTGATTTGTAAAATTACCAAAATACCCT-TACTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTTG-A
* * * *
51501682 AAATTACCAAAGTACCCTCGA-TTGTGAAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTG-A
* * * * * * *
51501735 AAATTACCGAAATACCCACGA-TTGTGAAATTATCGAAATACCATCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTG-A
* * * * * *
51501788 AAATTACCCAAATACCC-CAATTTTTGAAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTG-A
* * ** * *
51501841 AAATTACTAAAAAACATTTGATTTGTAAAATTACCGAAATACCCTCGATTATG-
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATT-TGA
** *
51501894 AAATTACTGAAATACTCTCGATTTGTAA
1 AAATTACCAAAATACCCTCGATTTGTAA
51501922 TTTGAATCAA
Statistics
Matches: 243, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.01
53 150 0.62
54 89 0.37
55 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGA
Found at i:51505255 original size:41 final size:41
Alignment explanation
Indices: 51505095--51505265 Score: 215
Period size: 41 Copynumber: 4.2 Consensus size: 41
51505085 TCGGGCTTTA
* * * *
51505095 TGCCTAGCAGGCTTTGTGCTGGTGTATAATATCAAGCCTAT
1 TGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTAT
*
51505136 TGCCTAGCAGGCTTTATGCTGGT-TCATTATATCATGCTTAT
1 TGCCTAGCAGGCTTTATGCTGGTGT-ATTATATCAGGCTTAT
51505177 TGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTAT
* *
51505218 TGCCTAGCAAGCTCTT-TGCCGGTGTATTATA-CTAGGCTT-T
1 TGCCTAGCAGGCT-TTATGCTGGTGTATTATATC-AGGCTTAT
51505258 ATGCCTAG
1 -TGCCTAG
51505266 AAAATTTTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
40 3 0.03
41 112 0.95
42 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCTGGTGTATTATATCAGGCTTAT
Found at i:51510711 original size:57 final size:57
Alignment explanation
Indices: 51510650--51510765 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
51510640 CACATACCTG
* *
51510650 TATATAGCCCACAAGGCCC-AATCTCTTTCATATGGCCCATAAGGCCCAAATCACATT
1 TATATAGCCCACAAGGCCCAAATCACATTCATATGG-CCATAAGGCCCAAATCACATT
* ** *
51510707 TATATGGCCCATTAGGCCCAAATCACATTCATATGGCCATTAGGCCCAAATCACATT
1 TATATAGCCCACAAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATT
51510764 TA
1 TA
51510766 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 38 0.73
58 14 0.27
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (57 bp):
TATATAGCCCACAAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATT
Found at i:51510712 original size:29 final size:29
Alignment explanation
Indices: 51510650--51510765 Score: 148
Period size: 28 Copynumber: 4.1 Consensus size: 29
51510640 CACATACCTG
* * *
51510650 TATATAGCCCACAAGGCCC-AATCTC-TT
1 TATATGGCCCATAAGGCCCAAATCACATT
51510677 TCATATGGCCCATAAGGCCCAAATCACATT
1 T-ATATGGCCCATAAGGCCCAAATCACATT
*
51510707 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATAAGGCCCAAATCACATT
* *
51510736 CATATGG-CCATTAGGCCCAAATCACATT
1 TATATGGCCCATAAGGCCCAAATCACATT
51510764 TA
1 TA
51510766 CAGCCATGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.01
28 38 0.47
29 38 0.47
30 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
TATATGGCCCATAAGGCCCAAATCACATT
Found at i:51510761 original size:28 final size:29
Alignment explanation
Indices: 51510663--51510763 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
51510653 ATAGCCCACA
* * *
51510663 AGGCCC-AATCTCTTTCATATGGCCCATA
1 AGGCCCAAATCACATTCATATGGCCCATT
*
51510691 AGGCCCAAATCACATTTATATGGCCCATT
1 AGGCCCAAATCACATTCATATGGCCCATT
51510720 AGGCCCAAATCACATTCATATGG-CCATT
1 AGGCCCAAATCACATTCATATGGCCCATT
51510748 AGGCCCAAATCACATT
1 AGGCCCAAATCACATT
51510764 TACAGCCATG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 27 0.40
29 40 0.60
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
AGGCCCAAATCACATTCATATGGCCCATT
Found at i:51513303 original size:24 final size:24
Alignment explanation
Indices: 51513205--51513304 Score: 137
Period size: 24 Copynumber: 4.2 Consensus size: 24
51513195 AGTCTGTCAA
*
51513205 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
51513229 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* * *
51513253 GATAGGATGTAGAAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
51513277 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
51513301 GAGA
1 GAGA
51513305 ACAGTGTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.24
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:51514754 original size:27 final size:27
Alignment explanation
Indices: 51514714--51514797 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
51514704 AGGAAGCGTC
*
51514714 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
*
51514741 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* * *
51514768 ATGGTGGCTCTGCCACACTTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
51514795 CTG
1 CTG
51514798 ACAGCAATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:51519294 original size:17 final size:16
Alignment explanation
Indices: 51519263--51519293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51519253 CAAACTAATC
51519263 CAAAAATCACATTTTA
1 CAAAAATCACATTTTA
*
51519279 CAAAAATTACATTTT
1 CAAAAATCACATTTT
51519294 TGCCCCCTAA
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:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
CAAAAATCACATTTTA
Found at i:51523873 original size:24 final size:24
Alignment explanation
Indices: 51523760--51523871 Score: 170
Period size: 24 Copynumber: 4.7 Consensus size: 24
51523750 AAGTCTGTCA
*
51523760 GGAGAGGATTTAGGAGTTGAGAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
51523784 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
51523808 GGATAGGATTTAAGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
51523832 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
51523856 GGAGAGAATTTAGGAG
1 GGAGAGGATTTAGGAG
51523872 CTAATTAGGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.35, C:0.01, G:0.40, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:51523881 original size:24 final size:24
Alignment explanation
Indices: 51523760--51523884 Score: 106
Period size: 24 Copynumber: 5.2 Consensus size: 24
51523750 AAGTCTGTCA
* * * *
51523760 GGAGAGGATTTAGGAGTTGAGAAG
1 GGAGAGAATTTAGGAGCTAATAAG
* * * *
51523784 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGAATTTAGGAGCTAATAAG
* * * * *
51523808 GGATAGGATTTAAGAGTTGATAAG
1 GGAGAGAATTTAGGAGCTAATAAG
* *
51523832 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGAATTTAGGAGCTAATAAG
*
51523856 GGAGAGAATTTAGGAGCTAATTAG
1 GGAGAGAATTTAGGAGCTAATAAG
51523880 GGAGA
1 GGAGA
51523885 ACAGTGTTGG
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GGAGAGAATTTAGGAGCTAATAAG
Found at i:51523882 original size:48 final size:48
Alignment explanation
Indices: 51523781--51523884 Score: 136
Period size: 48 Copynumber: 2.2 Consensus size: 48
51523771 AGGAGTTGAG
* * * * * *
51523781 AAGGGATAGGATTTAGGAGTTGATAAGGGATAGGATTTAAGAGTTGAT
1 AAGGGAGAGGATTTAGGAGCTGATAAGGGAGAGAATTTAAGAGCTAAT
*
51523829 AAGGGAGAGGATTTAGGAGCTGATAAGGGAGAGAATTTAGGAGCTAAT
1 AAGGGAGAGGATTTAGGAGCTGATAAGGGAGAGAATTTAAGAGCTAAT
*
51523877 TAGGGAGA
1 AAGGGAGA
51523885 ACAGTGTTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.02, G:0.38, T:0.24
Consensus pattern (48 bp):
AAGGGAGAGGATTTAGGAGCTGATAAGGGAGAGAATTTAAGAGCTAAT
Found at i:51525332 original size:27 final size:27
Alignment explanation
Indices: 51525292--51525392 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
51525282 AGGAAGCGTC
*
51525292 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* * *
51525319 CTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
51525346 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* * *
51525373 TTGGTGACTCTGTCACATTT
1 CTGGTGGCTCTGCCACATTT
51525393 CTGTTCTGGC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:51525378 original size:54 final size:52
Alignment explanation
Indices: 51525292--51525401 Score: 139
Period size: 54 Copynumber: 2.1 Consensus size: 52
51525282 AGGAAGCGTC
* **
51525292 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-T-TCTGTT
* * * *
51525346 CTGGTGGCTCTGCCACAATTATCTGTTTTGGTGACTCTGTCACATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTTCTGTT
51525398 CTGG
1 CTGG
51525402 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 10 0.20
53 1 0.02
54 38 0.78
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTTCTGTT
Found at i:51526799 original size:17 final size:18
Alignment explanation
Indices: 51526777--51526810 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51526767 CACATTGAAG
51526777 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
51526794 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
51526811 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:51528080 original size:27 final size:27
Alignment explanation
Indices: 51528039--51528121 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
51528029 ACATACCTGT
* * *
51528039 ATATAGCCCACTAGGCC-AATCTCTTTC
1 ATAT-GCCCATTAGGCCAAATCACATTC
51528066 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATAT-GCCCATTAGG-CCAAATCACATTC
*
51528095 ATATGTCCATTAGGCCCAAATCACATT
1 ATATGCCCATTAGG-CCAAATCACATT
51528122 TACAGTCACG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 13 0.27
28 24 0.49
29 12 0.24
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (27 bp):
ATATGCCCATTAGGCCAAATCACATTC
Found at i:51528105 original size:28 final size:29
Alignment explanation
Indices: 51528063--51528121 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
51528053 GCCAATCTCT
51528063 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
*
51528092 TTCATAT-GTCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCACA
51528120 TT
1 TT
51528122 TACAGTCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACA
Found at i:51529077 original size:12 final size:13
Alignment explanation
Indices: 51529050--51529082 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
51529040 ATATATATAC
51529050 TAAA-AAAATAAT
1 TAAATAAAATAAT
51529062 TAAATAAAATAA-
1 TAAATAAAATAAT
51529074 TAAATAAAA
1 TAAATAAAA
51529083 ATACAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAT
Found at i:51529083 original size:13 final size:14
Alignment explanation
Indices: 51529053--51529085 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
51529043 TATATACTAA
51529053 AAAAATAATTAAAT
1 AAAAATAATTAAAT
51529067 -AAAATAA-TAAAT
1 AAAAATAATTAAAT
51529079 AAAAATA
1 AAAAATA
51529086 CAAACCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAATTAAAT
Found at i:51530158 original size:27 final size:27
Alignment explanation
Indices: 51530125--51530179 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51530115 AGACTAAACA
51530125 TGCAATTATAAAATATTTAAACACATT
1 TGCAATTATAAAATATTTAAACACATT
51530152 TGCAATTATAAAATATTTAAACACATT
1 TGCAATTATAAAATATTTAAACACATT
51530179 T
1 T
51530180 CATTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (27 bp):
TGCAATTATAAAATATTTAAACACATT
Found at i:51536208 original size:41 final size:39
Alignment explanation
Indices: 51536151--51536441 Score: 307
Period size: 41 Copynumber: 7.1 Consensus size: 39
51536141 TGTCCGTAGT
* *
51536151 CTAGGCCTAAAGCCTAATATAATAC-ACCAGCACGAA-GCCTG
1 CTAGGCATAAAGCCT-ATA-AAT-CTACCGGCAC-AAGGCCTG
*
51536192 CTAGGCATAAAGCCTAATACATCTTACCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATC-TACCGGCACAAGGCCTG
* *
51536233 CTAGGCATAGAGCCTGATACATCTCACCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATCT-ACCGGCACAAGGCCTG
* *
51536274 CTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATC-TACCGGCACAAGGCCTG
* *
51536315 CTAGGCATAGAGCCTGATACATCTCACCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATCT-ACCGGCACAAGGCCTG
* *
51536356 CTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATC-TACCGGCACAAGGCCTG
* *
51536397 CTAGGCATAAAGCCTGATACATCTCCCCGGCACAAGGCCTG
1 CTAGGCATAAAGCCT-ATAAATCT-ACCGGCACAAGGCCTG
51536438 CTAG
1 CTAG
51536442 ACTCAAGGTC
Statistics
Matches: 229, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 219 0.96
42 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.19
Consensus pattern (39 bp):
CTAGGCATAAAGCCTATAAATCTACCGGCACAAGGCCTG
Found at i:51536288 original size:82 final size:82
Alignment explanation
Indices: 51536187--51536441 Score: 474
Period size: 82 Copynumber: 3.1 Consensus size: 82
51536177 CCAGCACGAA
**
51536187 GCCTGCTAGGCATAAAGCCTAATACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
1 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
51536252 CATCTCACCGGCACAAG
66 CATCTCACCGGCACAAG
51536269 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
1 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
51536334 CATCTCACCGGCACAAG
66 CATCTCACCGGCACAAG
*
51536351 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAAAGCCTGATA
1 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
*
51536416 CATCTCCCCGGCACAAG
66 CATCTCACCGGCACAAG
51536433 GCCTGCTAG
1 GCCTGCTAG
51536442 ACTCAAGGTC
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (82 bp):
GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAGGCCTGCTAGGCATAGAGCCTGATA
CATCTCACCGGCACAAG
Found at i:51536455 original size:41 final size:41
Alignment explanation
Indices: 51536187--51536441 Score: 429
Period size: 41 Copynumber: 6.2 Consensus size: 41
51536177 CCAGCACGAA
* *
51536187 GCCTGCTAGGCATAAAGCCTAATACATCTTACCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
*
51536228 GCCTGCTAGGCATAGAGCCTGATACATCTCACCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
* *
51536269 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
*
51536310 GCCTGCTAGGCATAGAGCCTGATACATCTCACCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
* *
51536351 GCCTGCTAGGCATAAAGCCTGTTACATCTTACCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
*
51536392 GCCTGCTAGGCATAAAGCCTGATACATCTCCCCGGCACAAG
1 GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
51536433 GCCTGCTAG
1 GCCTGCTAG
51536442 ACTCAAGGTC
Statistics
Matches: 199, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 199 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (41 bp):
GCCTGCTAGGCATAAAGCCTGATACATCTCACCGGCACAAG
Found at i:51541061 original size:57 final size:57
Alignment explanation
Indices: 51541000--51541115 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
51540990 CACATACCTG
* * *
51541000 TATATAGCCCACTAGGCCC-AATCTCTTTCATATGGCCCATGAGGCCCAAATCACATT
1 TATATAGCCCACTAGGCCCAAATCACATCCATATGG-CCATGAGGCCCAAATCACATT
* * *
51541057 TATATGGCCCATTAGGCCCAAATCACATCCATATGGCCATTAGGCCCAAATCACATT
1 TATATAGCCCACTAGGCCCAAATCACATCCATATGGCCATGAGGCCCAAATCACATT
51541114 TA
1 TA
51541116 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 39 0.75
58 13 0.25
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (57 bp):
TATATAGCCCACTAGGCCCAAATCACATCCATATGGCCATGAGGCCCAAATCACATT
Found at i:51541062 original size:29 final size:29
Alignment explanation
Indices: 51541000--51541115 Score: 148
Period size: 29 Copynumber: 4.1 Consensus size: 29
51540990 CACATACCTG
* * *
51541000 TATATAGCCCACTAGGCCC-AATCTC-TT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
51541027 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCATTAGGCCCAAATCACATT
*
51541057 TATATGGCCCATTAGGCCCAAATCACATC
1 TATATGGCCCATTAGGCCCAAATCACATT
*
51541086 CATATGG-CCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
51541114 TA
1 TA
51541116 CAGTCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.01
28 36 0.47
29 37 0.48
30 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:51544585 original size:43 final size:43
Alignment explanation
Indices: 51544520--51544606 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
51544510 AAATCGTACA
* * * **
51544520 ATGCCAACGTCCCCGACGTGGTCTTGCATGTAGCCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAACACATATCG
*
51544563 ATGCC-ACTGTCCCAGACATGGTCTTACTTGTAAACACATATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAACACATATCG
51544606 A
1 A
51544607 AATCACAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAACACATATCG
Found at i:51552550 original size:43 final size:43
Alignment explanation
Indices: 51552469--51552553 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
51552459 AAATCATGCA
* * **
51552469 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGCCACATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACATATCG
51552512 ATGCC-ACTGTCCCAAACATGGTCTTAC-TCGTAAACACATATC
1 ATGCCAAC-GTCCCAAACATGGTCTTACAT-GTAAACACATATC
51552554 AGAATCACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAAACACATATCG
Found at i:51557462 original size:39 final size:39
Alignment explanation
Indices: 51557418--51557624 Score: 190
Period size: 39 Copynumber: 5.3 Consensus size: 39
51557408 CCTTCGAAAT
**
51557418 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAACCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-C
* *
51557457 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGC
1 TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGC
* *
51557496 TTAGCCCGGA-ATTAGTAACTCGCACCAATGCCTTCGGGC
1 TTAACCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGC
* *
51557535 TTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATC
1 TTAACCCGGATA-TAGTAACTCGCACAAATGCCTTCGG-GC
** * * *
51557575 TTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGAC
1 TTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-C
*
51557615 TTAGCCCGGA
1 TTAACCCGGA
51557625 CATCATTCGA
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 78 0.53
40 60 0.41
41 9 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGC
Found at i:51557478 original size:40 final size:39
Alignment explanation
Indices: 51557441--51557571 Score: 208
Period size: 39 Copynumber: 3.3 Consensus size: 39
51557431 GCTACTCGTT
*
51557441 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCA
* *
51557481 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
* *
51557520 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
51557559 CAAATGCCTTCGG
1 CAAATGCCTTCGG
51557572 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 74 0.85
40 13 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
Found at i:51565548 original size:40 final size:39
Alignment explanation
Indices: 51565511--51565733 Score: 263
Period size: 39 Copynumber: 5.6 Consensus size: 39
51565501 GCTACTCGTT
* *
51565511 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
51565551 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
51565591 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
51565630 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
51565669 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
*
51565710 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
51565734 CATCATTCGA
Statistics
Matches: 165, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 85 0.52
40 70 0.42
41 10 0.06
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:51565622 original size:79 final size:79
Alignment explanation
Indices: 51565511--51565733 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
51565501 GCTACTCGTT
* * *
51565511 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
51565576 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
51565591 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
51565654 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * *
51565669 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTC-GGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
51565732 GA
64 GA
51565734 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 38 0.30
79 66 0.53
80 21 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:51565694 original size:118 final size:119
Alignment explanation
Indices: 51565513--51565733 Score: 297
Period size: 118 Copynumber: 1.9 Consensus size: 119
51565503 TACTCGTTCA
*
51565513 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * * *
51565578 TTAGTAAC-TCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACC
* **
51565632 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
51565694 ATATGGTCACTTAGCACAAAGCCTTCGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGACTTAGCCCGGA
51565734 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 69 0.78
119 16 0.18
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:51567530 original size:42 final size:43
Alignment explanation
Indices: 51567484--51567569 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
51567474 TGTGTCTCAT
*
51567484 AATCATGAACTGAAACCACAACTC-ATAAGTTCAAATCACATA
1 AATCATGAACTCAAACCACAACTCAATAAGTTCAAATCACATA
* * * *
51567526 AATCATGAACTCAGACCACAACTCAATGAGTTCAGATTACATA
1 AATCATGAACTCAAACCACAACTCAATAAGTTCAAATCACATA
51567569 A
1 A
51567570 TTCCTAGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 22 0.58
43 16 0.42
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.22
Consensus pattern (43 bp):
AATCATGAACTCAAACCACAACTCAATAAGTTCAAATCACATA
Found at i:51577177 original size:29 final size:30
Alignment explanation
Indices: 51577143--51577203 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
51577133 CAAGTAGTCG
*
51577143 AAGCTAG-TTAAACCGCACACTTAGTGCCA
1 AAGCTAGTTTAAACCACACACTTAGTGCCA
*
51577172 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAACCACACACTTAGTGCCA
51577202 AA
1 AA
51577204 AATTCTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (30 bp):
AAGCTAGTTTAAACCACACACTTAGTGCCA
Found at i:51584975 original size:50 final size:49
Alignment explanation
Indices: 51584862--51585037 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
51584852 CTGGTACGCA
* * *
51584862 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * *
51584911 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
51584961 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
*
51585012 TAGTAGCCTGCATTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
51585038 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 45 0.41
51 34 0.31
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:51585045 original size:101 final size:99
Alignment explanation
Indices: 51584862--51585045 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
51584852 CTGGTACGCA
* * *
51584862 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
51584927 GTACTACACACGTGACCTAATCATCTGATACACG
66 GTACTACACACGCGACCTAATCATCTGATACACG
* * * * * *
51584961 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCATT
1 TAGTAGCCTACACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
51585026 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
51585046 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.38
100 3 0.04
101 42 0.58
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAATCATCTGATACACG
Found at i:51587706 original size:54 final size:53
Alignment explanation
Indices: 51587619--51587721 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
51587609 AAAATTATTA
* ** *
51587619 AAATACCCCTGTAGGGTAGAATTATTGAAATACCCTGGTTGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAAAATTACCGAAATACCCTGGTGGGGTA-AAATACCG
* *
51587673 AAATACCCCTGTAGGGTAAAATTACCGAGATACCCTTGTGGGGTAAAAT
1 AAATACCCCTGTAGGGTAAAATTACCGAAATACCCTGGTGGGGTAAAAT
51587722 TACCATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.09
54 39 0.91
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (53 bp):
AAATACCCCTGTAGGGTAAAATTACCGAAATACCCTGGTGGGGTAAAATACCG
Found at i:51587724 original size:27 final size:27
Alignment explanation
Indices: 51587619--51587725 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
51587609 AAAATTATTA
* **
51587619 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAAAATTACCG
*
51587646 AAATA-CCCTGGTTGGGTAGAAA-TACCG
1 AAATACCCCT-GTAGGGTA-AAATTACCG
51587673 AAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAAAATTACCG
* * *
51587700 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAAAATTACC
51587726 ATTTTGCCCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 7 0.10
27 55 0.81
28 6 0.09
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAAAATTACCG
Found at i:51589401 original size:39 final size:39
Alignment explanation
Indices: 51589284--51589544 Score: 327
Period size: 39 Copynumber: 6.6 Consensus size: 39
51589274 GCTCCTCGTT
* *
51589284 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
51589324 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
51589364 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
51589403 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
51589442 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
** * *
51589481 CAAATGCCTTCGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-ATC-TCGCA
51589521 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
51589545 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
38 7 0.03
39 138 0.68
40 55 0.27
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:51597405 original size:39 final size:40
Alignment explanation
Indices: 51597288--51597510 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
51597278 GCTCCTCGTT
* *
51597288 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
51597328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
51597368 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
51597407 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
51597446 CAAATGCCTTC-CGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
51597487 C-AA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51597511 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 88 0.54
40 63 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:51597465 original size:79 final size:79
Alignment explanation
Indices: 51597288--51597471 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 79
51597278 GCTCCTCGTT
* * *
51597288 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGAG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
51597351 GGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
* *
51597368 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
51597432 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* *
51597446 CAAATGCCTTCCGATCTTAGTCCGGA
1 CAAATGCCTT-CGAGCTTAGCCCGGA
51597472 TATTGTCACT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
78 34 0.37
79 44 0.47
80 15 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:51597494 original size:78 final size:79
Alignment explanation
Indices: 51597325--51597510 Score: 229
Period size: 79 Copynumber: 2.4 Consensus size: 79
51597315 ATAGTAATTC
* * *
51597325 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGCTTAGCCC
*
51597390 GGAATTAGTATCTC
66 GGAATTAGTATCTA
* * *
51597404 GCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCCGATCTTAGTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTT-CGAGCTTAGCC
51597468 CGGATATT-GTCA-CTTA
65 CGGA-ATTAGT-ATC-TA
*
51597484 GCAC-AA-GCCTTTGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA
51597511 CATCATTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 40 0.43
79 45 0.48
80 9 0.10
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGCTTAGCCC
GGAATTAGTATCTA
Found at i:51602773 original size:44 final size:44
Alignment explanation
Indices: 51602723--51603029 Score: 339
Period size: 44 Copynumber: 7.0 Consensus size: 44
51602713 GGCAAATCCT
* * *
51602723 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAAATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
51602767 GCAGATTTGGCGTCTCTGTATTGTCAGAG-GACAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAG-CAGATCGAAGATA
* * * *
51602811 GCAGATTTGGCATCTCTGTATTGGCGGAAAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* ** * *
51602855 GAAGATTTGGCGTCTCTACATTGTCAGAGGGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
51602899 GCCGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * * * * *
51602943 GCAGATTTGGCGTTTCTATATCGTCAAAGGGCAGATCAAAGAT-
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
51602986 GACAGATTTGGTGTCTCTGTGATTGACAAAGAGCAAATCGAAGA
1 G-CAGATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGA
51603030 CGACGAATCT
Statistics
Matches: 219, Mismatches: 40, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.01
44 198 0.90
45 19 0.09
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:51602878 original size:88 final size:88
Alignment explanation
Indices: 51602723--51603010 Score: 407
Period size: 88 Copynumber: 3.3 Consensus size: 88
51602713 GGCAAATCCT
* * *
51602723 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTAT
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAT
*
51602788 TGTCAGAGGACAGATCGAAGATA
66 TGTCAGAGGGCAGATCGAAGATA
* * *
51602811 GCAGATTTGGCATCTCTGTATTGGCGGAAAGCAGATCAAAGATAGAAGATTTGGCGTCTCTACAT
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAT
51602876 TGTCAGAGGGCAGATCGAAGATA
66 TGTCAGAGGGCAGATCGAAGATA
* * * *
51602899 GCCGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTTTCTATAT
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAT
* * *
51602964 CGTCAAAGGGCAGATCAAAGAT-
66 TGTCAGAGGGCAGATCGAAGATA
**
51602986 GACAGATTTGGTGTCTCTGTGATTG
1 G-CAGATTTGGCATCTCTGT-ATTG
51603011 ACAAAGAGCA
Statistics
Matches: 179, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
87 1 0.01
88 174 0.97
89 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (88 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAT
TGTCAGAGGGCAGATCGAAGATA
Found at i:51603500 original size:263 final size:265
Alignment explanation
Indices: 51603017--51603639 Score: 928
Period size: 263 Copynumber: 2.4 Consensus size: 265
51603007 ATTGACAAAG
* * *
51603017 AGCAAATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGTAGTGAAGCAGATTTAAGCCACCATC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
* * * * *
51603082 CTAGCTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGTAGT
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATCTCGTTTCCCTAAAGCTGCAGT
* * ****
51603147 GGAGCAGATCAAATATGGTGAATCTAGGCTTCCTGAAATTGCAGTGAAACAGATTTAAGCCACCA
131 GGAGCAAATCAAAGACAACGAATCTAGGCTTCCTGAAATTGCAGTGAAACAGATTTAAGCCACCA
* ** *
51603212 ACCTAGCTCCCTAAAGTTTTAGTGGAGTAGGCTGAA-ATTTTAGATCTTGTTTCCCTGAAATTGC
196 ACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATAGTAGATCTTGTCTCCCTGAAATTGC
51603276 AGTGA
261 AGTGA
* * *
51603281 AGCAGATCGAAGA-GGCGAATCTTGGCTTCTTGAAGTTGCAGTGAAGTAGATTTAAGCCACCGTC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
*
51603345 CTAGCTCCCTAAAGTCGTAGTGGAGTAGGCTAAAATTTTAGATCTCGTTTCCCTAAAGCTGCAGT
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATCTCGTTTCCCTAAAGCTGCAGT
* * * * *
51603410 GGAGCAAATCGAAGACAACGAATCTTGGCTTCCTGAAGTTTCAGTGAAGCAGATTTAAGCCACCA
131 GGAGCAAATCAAAGACAACGAATCTAGGCTTCCTGAAATTGCAGTGAAACAGATTTAAGCCACCA
* * *
51603475 TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATAGTAGATTTTGTCTCCCTGAAGTTGC
196 ACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATAGTAGATCTTGTCTCCCTGAAATTGC
51603540 AGTGA
261 AGTGA
* *
51603545 AGCAGATCGAAGACGACAAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCTACCAAT
1 AGCAGATCGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACC-AT
51603610 -CTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
65 CCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
51603640 CGAAGATCGC
Statistics
Matches: 320, Mismatches: 36, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
263 193 0.60
264 53 0.17
265 73 0.23
266 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (265 bp):
AGCAGATCGAAGACGACGAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATCTCGTTTCCCTAAAGCTGCAGT
GGAGCAAATCAAAGACAACGAATCTAGGCTTCCTGAAATTGCAGTGAAACAGATTTAAGCCACCA
ACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATAGTAGATCTTGTCTCCCTGAAATTGC
AGTGA
Found at i:51603646 original size:133 final size:132
Alignment explanation
Indices: 51603017--51603639 Score: 881
Period size: 132 Copynumber: 4.7 Consensus size: 132
51603007 ATTGACAAAG
* *
51603017 AGCAAATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGTAGTGAAGCAGATTTAAGCCACCATC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
* *
51603082 CTAGCTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGTAGT
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGCAGT
*
51603147 GG
131 GA
* * * ** * * * *
51603149 AGCAGATCAAATATGGTGAATCTAGGCTTCCTGAAATTGCAGTGAAACAGATTTAAGCCACCAAC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
* * *
51603214 CTAGCTCCCTAAAGTTTTAGTGGAGTAGGCTGAAATTTTAGATCTTGTTTCCCTGAAATTGCAGT
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGCAGT
51603279 GA
131 GA
* * * *
51603281 AGCAGATCGAAGA-GGCGAATCTTGGCTTCTTGAAGTTGCAGTGAAGTAGATTTAAGCCACCGTC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
* * * *
51603345 CTAGCTCCCTAAAGTCGTAGTGGAGTAGGCTAAAATTTTAGATCTCGTTTCCCTAAAGCTGCAGT
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGCAGT
*
51603410 GG
131 GA
* * *
51603412 AGCAAATCGAAGACAACGAATCTTGGCTTCCTGAAGTTTCAGTGAAGCAGATTTAAGCCACCATC
1 AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
** * * *
51603477 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATAGTAGATTTTGTCTCCCTGAAGTTGCAG
66 CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA-ATTTTAGATCTCGTTTCCCTGAAGTTGCAG
51603542 TGA
130 TGA
* * *
51603545 AGCAGATCGAAGACGACAAATCTTGGCTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCTACCAAT
1 AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACC-AT
51603610 -CTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
65 CCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
51603640 CGAAGATCGC
Statistics
Matches: 430, Mismatches: 58, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
131 114 0.27
132 203 0.47
133 111 0.26
134 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
CTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTCGTTTCCCTGAAGTTGCAGT
GA
Found at i:51606892 original size:130 final size:130
Alignment explanation
Indices: 51606593--51606978 Score: 365
Period size: 131 Copynumber: 2.9 Consensus size: 130
51606583 ATAATTGTTT
* * * * * *
51606593 TAAAAA-CTCTTTAAAACG-AAGACGAGATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAAC
1 TAAAAACCT-TTTAAAACGAAAGA-AATATTCGATGTTTGGCAATTCGAGGAATCATGCCCTATC
* * * * * * **
51606656 GTGTTGGGTTACAATTTCGT-GTTTGTTCGAAATAATCGAATATCGCTTC-AAACTTTCACCCAT
64 GAGCTGGGTT-GAATTTC-TCGTTTGTTCAAAATAATCGAATA-CCCTTCGGAA-TTTCATTCAT
51606719 GTCTTC
125 GTCTTC
* * * * * *
51606725 CAAAAATCC-TTCAAAACGAAGGCAATACTCGATGTTTGACAATTCG-GGAATCATGCCCTATCG
1 TAAAAA-CCTTTTAAAACGAAAGAAATATTCGATGTTTGGCAATTCGAGGAATCATGCCCTATCG
* * *
51606788 AGCTGGGTTGAGATTTCTCGTTTATTCAAAACAATCGAATACCCTTCGGAATTTCATTCATGTTT
65 AGCTGGGTTGA-ATTTCTCGTTTGTTCAAAATAATCGAATACCCTTCGGAATTTCATTCATGTCT
51606853 TC
129 TC
*
51606855 TAAAAACCTTTTAAAACGAAAGAAATATTCGATGTTTGGCGATTCGAGGAAT-AGTGCCCTATC-
1 TAAAAACCTTTTAAAACGAAAGAAATATTCGATGTTTGGCAATTCGAGGAATCA-TGCCCTATCG
* * *
51606918 ATGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATGTCTCTTCGGAATTTCATTC
65 A-GCTGGGTTG-AATTTCTCGTTTGTTCAAAATAATCGAAT-ACCCTTCGGAATTTCATTC
51606979 GTATTTTTCT
Statistics
Matches: 208, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
129 2 0.01
130 58 0.28
131 96 0.46
132 49 0.24
133 2 0.01
134 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (130 bp):
TAAAAACCTTTTAAAACGAAAGAAATATTCGATGTTTGGCAATTCGAGGAATCATGCCCTATCGA
GCTGGGTTGAATTTCTCGTTTGTTCAAAATAATCGAATACCCTTCGGAATTTCATTCATGTCTTC
Found at i:51617999 original size:37 final size:37
Alignment explanation
Indices: 51617949--51618027 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
51617939 TTATTACGAA
* * *
51617949 GTCTTACCAGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
* *
51617986 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
51618023 GTCTT
1 GTCTT
51618028 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51618233 original size:47 final size:47
Alignment explanation
Indices: 51618146--51618482 Score: 476
Period size: 47 Copynumber: 7.1 Consensus size: 47
51618136 CCTTTCGGGA
* * * * * * * * *
51618146 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51618193 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51618240 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
51618287 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51618334 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51618381 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51618428 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51618479 CTTA
1 CTTA
51618483 CTATCATTTC
Statistics
Matches: 263, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 222 0.84
51 41 0.16
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51626049 original size:14 final size:14
Alignment explanation
Indices: 51626030--51626067 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
51626020 GTTTGCCAGT
*
51626030 AAAATGTTTTCCGA
1 AAAATGATTTCCGA
*
51626044 AAAATGATTTCTGA
1 AAAATGATTTCCGA
51626058 AAAATGATTT
1 AAAATGATTT
51626068 ATTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGA
Found at i:51626083 original size:19 final size:19
Alignment explanation
Indices: 51626059--51626096 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51626049 GATTTCTGAA
*
51626059 AAATGATTTATTTTTCTAG
1 AAATGATTTACTTTTCTAG
51626078 AAATGATTTACTTTTCTAG
1 AAATGATTTACTTTTCTAG
51626097 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (19 bp):
AAATGATTTACTTTTCTAG
Found at i:51627709 original size:92 final size:93
Alignment explanation
Indices: 51627598--51627784 Score: 313
Period size: 92 Copynumber: 2.0 Consensus size: 93
51627588 AGGAGCTGCC
* **
51627598 AAGACATAATAGAAAAAAGATGAATAAACAATTAAACCCAAAACAAAATCTCTAATCAGAGTTCA
1 AAGAAATAATAGAAAAAAGATGAATAAACAATTAAACCCAAAACAAAATCTCTAATCAGACCTCA
51627663 ATCCTAAC-AAAGTAAATAAAGGCGAAG
66 ATCCTAACAAAAGTAAATAAAGGCGAAG
*
51627690 AAGAAATAATAGAAAAAAGATGAATCAACAATTAAACCCAAAACAAAATCTCTAATCAGACCTCA
1 AAGAAATAATAGAAAAAAGATGAATAAACAATTAAACCCAAAACAAAATCTCTAATCAGACCTCA
* *
51627755 ATCCTAACAAAAGTAAATTAAGGCTAAG
66 ATCCTAACAAAAGTAAATAAAGGCGAAG
51627783 AA
1 AA
51627785 AAGGATTTCT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 69 0.78
93 19 0.22
ACGTcount: A:0.56, C:0.16, G:0.11, T:0.18
Consensus pattern (93 bp):
AAGAAATAATAGAAAAAAGATGAATAAACAATTAAACCCAAAACAAAATCTCTAATCAGACCTCA
ATCCTAACAAAAGTAAATAAAGGCGAAG
Found at i:51632919 original size:48 final size:49
Alignment explanation
Indices: 51632844--51633110 Score: 180
Period size: 48 Copynumber: 5.6 Consensus size: 49
51632834 ACATTAAAGT
* * *
51632844 CGATGCCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * *
51632893 CGATGCCATGT-CCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GC
* *
51632941 CGATGACATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGC
* * * * * ** *
51632990 CGACG-CATGTCCTAGACATGTCTTACACT-AGCTTTC--GTCTCGTTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGC
* * * * ** * *
51633036 CAATG-CATGTCCTAGACACGTCTTACACTGGCACTCAT-GAT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
*
51633082 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
51633111 AGCTTATATA
Statistics
Matches: 176, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
46 64 0.36
47 3 0.02
48 66 0.38
49 41 0.23
50 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:51632961 original size:97 final size:93
Alignment explanation
Indices: 51632842--51633114 Score: 275
Period size: 97 Copynumber: 2.9 Consensus size: 93
51632832 GCACATTAAA
* *
51632842 GTCGATGCCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATTGAGGCCGATGCCATGTCCA
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGATG-CATGTCCA
* *
51632907 GACAGGTCTTACACTGGCTCTCATCTATCGGT
64 GACATGTCTTACACTAGCTCTCATC--TCGGT
* * *
51632939 GTCGATGACATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCGACGCATGTCC
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATTGAGGCCGATGCATGTCC
* * *
51633002 TAGACATGTCTTACACTAGCTTTCGTCTCGTT
63 -AGACATGTCTTACACTAGCTCTCATCTCGGT
* * * * ** * *
51633034 GTCAATGCATGTCCTAGACACGTCTTACACTGGCACTCAT-GA-TGTGGCCGATGCATGTCCCAG
1 GTCGATGCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGATGCATGT-CCAG
51633097 ACATGTCTTACACTAGCT
65 ACATGTCTTACACTAGCT
51633115 TATATACCAC
Statistics
Matches: 148, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
92 33 0.22
93 3 0.02
94 25 0.17
95 10 0.07
96 8 0.05
97 68 0.46
98 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (93 bp):
GTCGATGCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGATGCATGTCCAGA
CATGTCTTACACTAGCTCTCATCTCGGT
Found at i:51633048 original size:46 final size:46
Alignment explanation
Indices: 51632852--51633115 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 46
51632842 GTCGATGCCG
* * * *
51632852 TGTCCCAAACAGGTCTTACACT-GACTTTCATATATTGAGGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAG-CTTTC--ATCTCGTGGCCGATG-CA
* * *
51632901 TGT-CCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATGACA
1 TGTCCCAGACAGGTCTTACACTAGCTTTCATC--TCGTG-GCCGATG-CA
* * *
51632949 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGACGCA
1 TGTCCCAGACAGGTCTTACACTAGCTT-T-CATCTCGTGGCCGATGCA
* * * * * *
51632997 TGTCCTAGACATGTCTTACACTAGCTTTCGTCTCGTTGTCAATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTTCATCTCGTGGCCGATGCA
* * * ** *
51633043 TGTCCTAGACACGTCTTACACTGGCACTCATGAT-GTGGCCGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTTCAT-CTCGTGGCCGATGCA
*
51633089 TGTCCCAGACATGTCTTACACTAGCTT
1 TGTCCCAGACAGGTCTTACACTAGCTT
51633116 ATATACCACC
Statistics
Matches: 172, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
46 70 0.41
47 3 0.02
48 61 0.35
49 33 0.19
50 2 0.01
51 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
TGTCCCAGACAGGTCTTACACTAGCTTTCATCTCGTGGCCGATGCA
Found at i:51640529 original size:49 final size:49
Alignment explanation
Indices: 51640462--51640594 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
51640452 GCACATTAAA
* * *
51640462 GTCAATGTCGTGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG-
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCG-GT
* * ** * *
51640511 GTCAATGCCATGTTCCAGATAGGTCTTACACTGGCTCTCATCTATTGGT
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGT
* *
51640560 GTCGATGCCATGTCCCAGACAAGTCTTACACTAAC
1 GTCAATGCCATGTCCCAGACAGGTCTTACACTAAC
51640595 ACACAACAAG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
GTCAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGT
Found at i:51640718 original size:46 final size:46
Alignment explanation
Indices: 51640652--51640780 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
51640642 TATATCTCGA
* * * *
51640652 GGCCGACGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAT-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC--ATCATGT
* * *
51640699 -GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATGATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATGT
* *
51640744 GGCCGATGCATTTCCCAGAAATGTCTTACACTGGCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
51640781 ACATACCACC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.04
45 1 0.01
46 65 0.94
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATGT
Found at i:51645402 original size:64 final size:67
Alignment explanation
Indices: 51645286--51645422 Score: 165
Period size: 64 Copynumber: 2.1 Consensus size: 67
51645276 TCTTGGAATT
* * * *
51645286 ATAACAAATCTAACCCTCCAATGTTTACAGATTTTATTATTTTGAGTCTAATTCTAAAAAAT-AA
1 ATAAAAAATCTAACCCTCCAATCTTTACAGATTCTATTAATTTGAGTCTAATTCTAAAAAATAAA
51645350 AA
66 AA
* * * *
51645352 ATAAAAAATTTAACCCT-CAA-CTTTACATATTCTATTAATTT-AGTCGTAATTCTTAAAATTAA
1 ATAAAAAATCTAACCCTCCAATCTTTACAGATTCTATTAATTTGAGTC-TAATTCTAAAAAATAA
51645414 AAA
65 AAA
51645417 ATAAAA
1 ATAAAA
51645423 TTTTAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.07
64 29 0.48
65 13 0.21
66 15 0.25
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.36
Consensus pattern (67 bp):
ATAAAAAATCTAACCCTCCAATCTTTACAGATTCTATTAATTTGAGTCTAATTCTAAAAAATAAA
AA
Found at i:51650410 original size:41 final size:40
Alignment explanation
Indices: 51650247--51650427 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
51650237 ACCCAAGTAT
* ** * *
51650247 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
51650285 TTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
51650325 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
51650365 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
51650406 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51650428 CATTCGAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 10 0.08
39 18 0.15
40 61 0.51
41 28 0.23
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51650423 original size:81 final size:79
Alignment explanation
Indices: 51650247--51650427 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 79
51650237 ACCCAAGTAT
* * * * *
51650247 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCTTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
* *
51650311 ACTAGCATAAATGC
66 ACTAGCACAAAAGC
** * * *
51650325 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
51650390 CACTTAGCACAAAAGC
65 CAC-TAGCACAAAAGC
51650406 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51650428 CATTCGAATA
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 12 0.14
79 16 0.18
80 28 0.32
81 32 0.36
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:51659644 original size:23 final size:22
Alignment explanation
Indices: 51659617--51659668 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
51659607 TTAAATATAT
*
51659617 TTTTTAGTTTTTAGTTTTTAAAG
1 TTTTTAATTTTTA-TTTTTAAAG
* *
51659640 TTTTTAAATTTTTATTTTTGAAT
1 TTTTT-AATTTTTATTTTTAAAG
51659663 TTTTTA
1 TTTTTA
51659669 TAAATTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.68
24 7 0.28
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTTTAATTTTTATTTTTAAAG
Found at i:51659731 original size:13 final size:13
Alignment explanation
Indices: 51659713--51659738 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51659703 TGAGAGTTAA
51659713 ATTTATTGAATTT
1 ATTTATTGAATTT
51659726 ATTTATTGAATTT
1 ATTTATTGAATTT
51659739 TTAAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTATTGAATTT
Found at i:51660270 original size:23 final size:23
Alignment explanation
Indices: 51660244--51660290 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
51660234 TATTGTTTAC
*
51660244 CAAGATCAATCAGTAATTAACTG
1 CAAGATCAATCAATAATTAACTG
51660267 CAAGATCAATCAATAATTAACTG
1 CAAGATCAATCAATAATTAACTG
51660290 C
1 C
51660291 TTGAAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (23 bp):
CAAGATCAATCAATAATTAACTG
Found at i:51662797 original size:38 final size:38
Alignment explanation
Indices: 51662746--51662822 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
51662736 TATACCTCTC
*
51662746 ATTGTCTCTAAAAATTATTCCCGTCACTGAACTAAGCA
1 ATTGTCTCTAAAAATTATTCCAGTCACTGAACTAAGCA
51662784 ATTGTCTCTAAAAATTATTCCAGTCACTGAACTAAGCA
1 ATTGTCTCTAAAAATTATTCCAGTCACTGAACTAAGCA
51662822 A
1 A
51662823 ACACATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (38 bp):
ATTGTCTCTAAAAATTATTCCAGTCACTGAACTAAGCA
Found at i:51668587 original size:21 final size:21
Alignment explanation
Indices: 51668563--51668608 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
51668553 AAACATAATT
51668563 AATACTTGACGAGACTAATAG
1 AATACTTGACGAGACTAATAG
*
51668584 AATACTTGACGAGATTAATAG
1 AATACTTGACGAGACTAATAG
51668605 AATA
1 AATA
51668609 AATTAAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (21 bp):
AATACTTGACGAGACTAATAG
Found at i:51669418 original size:3 final size:3
Alignment explanation
Indices: 51669412--51669444 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
51669402 GAAGAAGAAT
51669412 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51669445 AGGATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:51671158 original size:3 final size:3
Alignment explanation
Indices: 51671152--51671180 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
51671142 TCATCAACAA
51671152 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
51671181 ATCGCTTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:51672868 original size:8 final size:8
Alignment explanation
Indices: 51672851--51672896 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
51672841 AATTTTTTAA
51672851 AAATTA-T
1 AAATTATT
51672858 AAATTATT
1 AAATTATT
51672866 AAATTA-T
1 AAATTATT
51672873 AAATTATT
1 AAATTATT
51672881 AAATTATT
1 AAATTATT
51672889 AAAATTAT
1 -AAATTAT
51672897 ATTTCTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.36
8 16 0.44
9 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATTATT
Found at i:51672871 original size:15 final size:15
Alignment explanation
Indices: 51672851--51672887 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
51672841 AATTTTTTAA
51672851 AAATTATAAATTATT
1 AAATTATAAATTATT
51672866 AAATTATAAATTATT
1 AAATTATAAATTATT
51672881 AAATTAT
1 AAATTAT
51672888 TAAAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATTATAAATTATT
Found at i:51679785 original size:79 final size:81
Alignment explanation
Indices: 51679683--51679867 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
51679673 GCTCCTCGTT
* *
51679683 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51679746 GGATTTTGTAACTT-GCA
64 GGATATGGTAACTTAGCA
* *
51679763 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAATCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
51679827 ATATGGTCACTTAGCA
66 ATATGGTAACTTAGCA
*
51679843 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51679868 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.61
80 33 0.35
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATGGTAACTTAGCA
Found at i:51679803 original size:39 final size:40
Alignment explanation
Indices: 51679683--51679867 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
51679673 GCTCCTCGTT
*
51679683 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
51679723 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
51679763 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
51679802 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
51679843 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51679868 CATCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51689368 original size:30 final size:30
Alignment explanation
Indices: 51689334--51689395 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
51689324 ATTTATTTTA
51689334 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
51689364 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
51689394 TT
1 TT
51689396 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:51690140 original size:30 final size:30
Alignment explanation
Indices: 51690104--51690202 Score: 189
Period size: 30 Copynumber: 3.3 Consensus size: 30
51690094 GACCCGGATT
51690104 CCCACACGCTCTGTAGTTCACTCGTGTGGG
1 CCCACACGCTCTGTAGTTCACTCGTGTGGG
51690134 CCCACACGCTCTGTAGTTCACTCGTGTGGG
1 CCCACACGCTCTGTAGTTCACTCGTGTGGG
*
51690164 CCCACACACTCTGTAGTTCACTCGTGTGGG
1 CCCACACGCTCTGTAGTTCACTCGTGTGGG
51690194 CCCACACGC
1 CCCACACGC
51690203 CCGTGTGGCT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.24
Consensus pattern (30 bp):
CCCACACGCTCTGTAGTTCACTCGTGTGGG
Found at i:51695734 original size:42 final size:42
Alignment explanation
Indices: 51695580--51695741 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
51695570 TACTGTTCCA
** * * *
51695580 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATTG
* * *
51695622 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACATAGTCTCATATTG
* * *
51695665 ATGCCATATCCCTGATATGATCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATTG
*
51695707 ATGTCATATCCCAGATATGGTCTTACACATAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCT
51695742 TAGTAACCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 67 0.66
43 34 0.34
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATTG
Found at i:51699049 original size:43 final size:44
Alignment explanation
Indices: 51698983--51699098 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
51698973 AACTCGTACA
* * *
51698983 ATGCCAATGTCCCAGACATGGTCTTACATGT-TATC-AAATATTG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAAATCTAAA-ATTG
* * *
51699026 ATGCCACTGTCCCAGATAGGGTCTTACACGTAAATCTCAAATTG
1 ATGCCAATGTCCCAGATAGGGTCTTACATGTAAATCTAAAATTG
51699070 ATGCCAATGTCCCAGAT-GTGGTCTTACAT
1 ATGCCAATGTCCCAGATAG-GGTCTTACAT
51699099 AAAATCACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
43 28 0.45
44 32 0.52
45 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
ATGCCAATGTCCCAGATAGGGTCTTACATGTAAATCTAAAATTG
Found at i:51711714 original size:24 final size:26
Alignment explanation
Indices: 51711684--51711733 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
51711674 CATAAAAGAA
51711684 AACATTC-ATATTT-AGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51711708 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51711734 CATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.29
25 6 0.25
26 11 0.46
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:51713821 original size:25 final size:26
Alignment explanation
Indices: 51713788--51713838 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
51713778 AGTAAAAGAA
51713788 AACATTCAATATTT-AGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51713813 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51713839 CATTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:51715921 original size:25 final size:26
Alignment explanation
Indices: 51715892--51715942 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
51715882 CATAAAAGAA
51715892 AACATTCAATATTT-AGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51715917 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51715943 CATTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:51720070 original size:26 final size:26
Alignment explanation
Indices: 51720041--51720092 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
51720031 AATAAAACAA
51720041 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
*
51720067 AACATTCAATATTTGAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
51720093 CATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:51743536 original size:15 final size:15
Alignment explanation
Indices: 51743500--51743538 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
51743490 GCAAATATCG
*
51743500 TGATAACAAATACAA
1 TGATAATAAATACAA
51743515 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
51743530 TGATAATAA
1 TGATAATAA
51743539 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:51743759 original size:24 final size:25
Alignment explanation
Indices: 51743731--51743785 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
51743721 ATGAAGCTTA
51743731 AAAATATACAT-ATGATTTACA-TAT
1 AAAATATACATAAT-ATTTACATTAT
* *
51743755 AAAATATATATAATATTTATATTAT
1 AAAATATACATAATATTTACATTAT
51743780 AAAATA
1 AAAATA
51743786 AATAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAATATACATAATATTTACATTAT
Found at i:51746089 original size:26 final size:26
Alignment explanation
Indices: 51746059--51746110 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
51746049 AAAATTAATG
*
51746059 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
51746085 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
51746111 TTCTTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:51750852 original size:15 final size:14
Alignment explanation
Indices: 51750831--51750866 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
51750821 ATAATCCTTA
*
51750831 ATAATTATCTTAAT
1 ATAATTATCCTAAT
51750845 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
51750860 ATAATTA
1 ATAATTA
51750867 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:51751418 original size:20 final size:21
Alignment explanation
Indices: 51751385--51751423 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
51751375 ATTTATGCAT
*
51751385 ATTAGATTTATTTATTTGTGC
1 ATTAGATTTATTTAATTGTGC
*
51751406 ATTA-ATTTGTTTAATTGT
1 ATTAGATTTATTTAATTGT
51751424 ATAATGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (21 bp):
ATTAGATTTATTTAATTGTGC
Found at i:51753726 original size:4 final size:4
Alignment explanation
Indices: 51753709--51753750 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
51753699 GTGCCCCAAT
* * *
51753709 TTCA TTCA TCCA TTCA TTCA TTCG TTCA CTCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
51753751 TGTTTATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (4 bp):
TTCA
Found at i:51753954 original size:12 final size:12
Alignment explanation
Indices: 51753939--51753964 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51753929 TGGAGGACCA
51753939 GATGGAAATGAT
1 GATGGAAATGAT
51753951 GATGGAAATGAT
1 GATGGAAATGAT
51753963 GA
1 GA
51753965 CAATAATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (12 bp):
GATGGAAATGAT
Found at i:51755871 original size:24 final size:24
Alignment explanation
Indices: 51755804--51755893 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
51755794 GCTTATCCGG
* *
51755804 GCAATATAACGAGAAGCTCACAAAGA
1 GCAAT-TAACGGGTAGCTC-CAAAGA
* * * *
51755830 GC-CTATAACAGGTTGCTCTAAAGA
1 GCAAT-TAACGGGTAGCTCCAAAGA
* **
51755854 GCAATTAATGGGTAGCTCCGTAGA
1 GCAATTAACGGGTAGCTCCAAAGA
51755878 GCAATTAACGGGTAGC
1 GCAATTAACGGGTAGC
51755894 ACCGGATAGC
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
24 35 0.71
25 12 0.24
26 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (24 bp):
GCAATTAACGGGTAGCTCCAAAGA
Found at i:51755966 original size:26 final size:26
Alignment explanation
Indices: 51755901--51755996 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
51755891 AGCACCGGAT
* **
51755901 AGCCATATAACGGGAAGTTCA-AGCG
1 AGCCATATAACGGGAAGCTCACAAAG
* *
51755926 AG-CA-CTAACGAGAAGCTCACAAAG
1 AGCCATATAACGGGAAGCTCACAAAG
*
51755950 AGCC-TTTAATCGGGAAGCTCACAAAG
1 AGCCATATAA-CGGGAAGCTCACAAAG
*
51755976 AGCCATATAACGGGACGCTCA
1 AGCCATATAACGGGAAGCTCA
51755997 TAAGAGCTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
23 12 0.21
24 6 0.11
25 6 0.11
26 29 0.51
27 4 0.07
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGCCATATAACGGGAAGCTCACAAAG
Found at i:51760659 original size:21 final size:21
Alignment explanation
Indices: 51760633--51760686 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
51760623 ATTTTTAACA
51760633 TTATA-TTATCATTTAAATATT
1 TTATATTTATCATTTAAA-ATT
**
51760654 TTATATTTAAAATTTAAAATT
1 TTATATTTATCATTTAAAATT
*
51760675 TTACATTTATCA
1 TTATATTTATCA
51760687 AATTGTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATATTTATCATTTAAAATT
Found at i:51760759 original size:21 final size:22
Alignment explanation
Indices: 51760717--51760759 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
51760707 ATCTTAATTT
*
51760717 TAAATAAAATATCAAAAGTTTA
1 TAAATAAAATATCAAAACTTTA
* *
51760739 TAAATCAAAT-TCAATACTTTA
1 TAAATAAAATATCAAAACTTTA
51760760 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATAAAATATCAAAACTTTA
Found at i:51761834 original size:5 final size:5
Alignment explanation
Indices: 51761824--51761862 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
51761814 ACGCATATCT
51761824 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
51761863 TGAAATTATG
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:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:51765933 original size:16 final size:16
Alignment explanation
Indices: 51765912--51765980 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
51765902 TTTGGTTCGC
51765912 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
51765928 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
51765944 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
51765961 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
51765977 TGTA
1 TGTA
51765981 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Done.