Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 206 of 318
Found at i:65188320 original size:19 final size:20
Alignment explanation
Indices: 65188280--65188324 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
65188270 ACGACTATGT
*
65188280 ATCAATTAACCTTAAGTTTA
1 ATCAATTAAACTTAAGTTTA
65188300 ATCAATTAAACTTAA-TTTA
1 ATCAATTAAACTTAAGTTTA
65188319 ATCAAT
1 ATCAAT
65188325 CCCTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (20 bp):
ATCAATTAAACTTAAGTTTA
Found at i:65188491 original size:16 final size:16
Alignment explanation
Indices: 65188458--65188499 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65188448 TAAAAAATCC
65188458 TAACCCT-AAATCAAT
1 TAACCCTAAAATCAAT
*
65188473 TAAACCCTAAAATC-TT
1 T-AACCCTAAAATCAAT
65188489 TAACCCTAAAA
1 TAACCCTAAAA
65188500 AACTCGGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
TAACCCTAAAATCAAT
Found at i:65189444 original size:31 final size:31
Alignment explanation
Indices: 65189409--65189478 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
65189399 TAAACCCAAT
* *
65189409 TGTGAGAATAATTACCTAATTTAAACTTT-AA
1 TGTGAAAACAATTACCTAATTTAAA-TTTCAA
65189440 TGTGAAAACAATTACCTAATTTAAATTTCAA
1 TGTGAAAACAATTACCTAATTTAAATTTCAA
*
65189471 TGTAAAAA
1 TGTGAAAA
65189479 AACCCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (31 bp):
TGTGAAAACAATTACCTAATTTAAATTTCAA
Found at i:65194267 original size:21 final size:21
Alignment explanation
Indices: 65194241--65194281 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65194231 AGACGAGCAA
* *
65194241 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65194262 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65194282 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65198658 original size:24 final size:26
Alignment explanation
Indices: 65198631--65198686 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
65198621 TTGCGAGCTT
65198631 TATCTCTAT-TTT-TTTGCTCAAGTG
1 TATCTCTATCTTTGTTTGCTCAAGTG
**
65198655 TATCTC-ATCTTTGTTTGCTCATTTG
1 TATCTCTATCTTTGTTTGCTCAAGTG
65198680 TATCTCT
1 TATCTCT
65198687 TTGAGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 9 0.33
25 16 0.59
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (26 bp):
TATCTCTATCTTTGTTTGCTCAAGTG
Found at i:65199167 original size:15 final size:16
Alignment explanation
Indices: 65199149--65199182 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65199139 AAATACAAAA
*
65199149 TTATTAA-TCTTATTT
1 TTATTAATTATTATTT
65199164 TTATTAATTATTATTT
1 TTATTAATTATTATTT
65199180 TTA
1 TTA
65199183 AAGTAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTAATTATTATTT
Found at i:65207587 original size:6 final size:6
Alignment explanation
Indices: 65207576--65207602 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
65207566 ACAATTATAC
65207576 CAACAT CAACAT CAACAT CAACAT CAA
1 CAACAT CAACAT CAACAT CAACAT CAA
65207603 TTTAGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
CAACAT
Found at i:65209392 original size:26 final size:24
Alignment explanation
Indices: 65209347--65209394 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
65209337 GTATCATTTT
*
65209347 TATTTGTTTTTATGTTTTTAAATA
1 TATTTGTTTTTATATTTTTAAATA
65209371 TATTTGATTTATTATATTTTTAAA
1 TATTTG-TTT-TTATATTTTTAAA
65209395 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATA
Found at i:65211877 original size:23 final size:22
Alignment explanation
Indices: 65211850--65211905 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
65211840 TTTAAACTTT
65211850 TAAATTTTAAAAAATAAAGAAAC
1 TAAATTTTAAAAAATAAA-AAAC
* *
65211873 TAAATTTTTAAAAATAAAAAAT
1 TAAATTTTAAAAAATAAAAAAC
*
65211895 TAAATATTAAA
1 TAAATTTTAAA
65211906 TTTCAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAATTTTAAAAAATAAAAAAC
Found at i:65219552 original size:46 final size:46
Alignment explanation
Indices: 65219485--65219660 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
65219475 TATTTGGGCA
65219485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
65219531 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
65219578 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
65219624 -CTTGAGCTCGTTGAGTTGATTCCAAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65219661 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 63 0.58
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:65219640 original size:93 final size:93
Alignment explanation
Indices: 65219481--65219653 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
65219471 GGGATATTTG
*
65219481 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
65219546 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
65219574 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
*
65219638 GTTGATTCCAAGTTCG
65 GTTGAGTCCAAGTTCG
65219654 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:65224557 original size:12 final size:12
Alignment explanation
Indices: 65224540--65224573 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
65224530 CAACCTACAT
65224540 GGTCGTGTGACA
1 GGTCGTGTGACA
*
65224552 GGTCGTGTGATA
1 GGTCGTGTGACA
65224564 GGTCGTGTGA
1 GGTCGTGTGA
65224574 AAAATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.29
Consensus pattern (12 bp):
GGTCGTGTGACA
Found at i:65229675 original size:45 final size:44
Alignment explanation
Indices: 65229561--65229680 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 44
65229551 GCTTAGTACG
* * * * *
65229561 GTGTGGATTAACCATTCATTGGTGCATATAAAAGCTACTAATAT
1 GTGTGGATAAACCACTCATTGGTGCAGATAAAACCTACTAATAC
* *
65229605 G-GTGAATAAACCACTCATTGTTGCAGATAAAACCTGA-TAATAC
1 GTGTGGATAAACCACTCATTGGTGCAGATAAAACCT-ACTAATAC
*
65229648 GATGTGGATAAACCACTCAATGGTGCAGATAAA
1 G-TGTGGATAAACCACTCATTGGTGCAGATAAA
65229681 CTGCTCACAC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 34 0.54
44 2 0.03
45 27 0.43
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (44 bp):
GTGTGGATAAACCACTCATTGGTGCAGATAAAACCTACTAATAC
Found at i:65231682 original size:16 final size:17
Alignment explanation
Indices: 65231649--65231687 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
65231639 AAATGCTCTT
*
65231649 TTTTTTATTGTTAAATA
1 TTTTTTATTATTAAATA
*
65231666 TTTTTTATTATT-TATA
1 TTTTTTATTATTAAATA
65231682 TTTTTT
1 TTTTTT
65231688 TACTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATTATTAAATA
Found at i:65236336 original size:26 final size:26
Alignment explanation
Indices: 65236307--65236414 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
65236297 TGGTACAAAT
65236307 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
65236333 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
65236359 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
65236385 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
65236411 TGAT
1 TGAT
65236415 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:65237941 original size:26 final size:25
Alignment explanation
Indices: 65237889--65237941 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
65237879 TTTACAGTTT
65237889 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
65237915 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
65237941 T
1 T
65237942 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:65243398 original size:26 final size:26
Alignment explanation
Indices: 65243379--65243476 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 26
65243369 TGATAATAAG
*
65243379 TTAGGCAAATGTTCCATGATAATGGA
1 TTAGGTAAATGTTCCATGATAATGGA
* *
65243405 TTAGGTAAATATTCCATGATAATGGG
1 TTAGGTAAATGTTCCATGATAATGGA
*
65243431 TTAGGTAAATGTTCCATGATAATGGT
1 TTAGGTAAATGTTCCATGATAATGGA
65243457 TTAGGTAAATGTTCCATGAT
1 TTAGGTAAATGTTCCATGAT
65243477 GGGCATTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TTAGGTAAATGTTCCATGATAATGGA
Found at i:65246821 original size:9 final size:8
Alignment explanation
Indices: 65246796--65246831 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
65246786 TTACAAATTT
65246796 AATTTAAA
1 AATTTAAA
65246804 AATTTAAA
1 AATTTAAA
65246812 AATTTAAA
1 AATTTAAA
65246820 AATTTTAAA
1 AA-TTTAAA
65246829 AAT
1 AAT
65246832 AAATTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTTAAA
Found at i:65253768 original size:28 final size:28
Alignment explanation
Indices: 65253737--65253807 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
65253727 CGATATTTTT
*
65253737 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
*
65253765 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
* * *
65253793 TACACTGAGTACCAT
1 CACACTAAGTGCCAT
65253808 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCG
Found at i:65256994 original size:23 final size:22
Alignment explanation
Indices: 65256942--65256994 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
65256932 TCCACGTCTT
*
65256942 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
65256964 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
65256987 TTTCTTTT
1 TTTCTTTT
65256995 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:65260494 original size:16 final size:17
Alignment explanation
Indices: 65260467--65260501 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
65260457 TAGAATTGAG
*
65260467 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
65260484 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
65260500 TT
1 TT
65260502 ACTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:65262020 original size:40 final size:40
Alignment explanation
Indices: 65261983--65262207 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
65261973 GCTACTCGTT
* *
65261983 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
65262023 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
65262063 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
65262102 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
65262142 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
65262183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
65262208 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 39 0.24
40 113 0.68
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:65262094 original size:79 final size:79
Alignment explanation
Indices: 65261983--65262207 Score: 319
Period size: 79 Copynumber: 2.8 Consensus size: 79
65261973 GCTACTCGTT
* *
65261983 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
65262048 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
*
65262063 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
65262127 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * * * * *
65262142 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
65262206 GA
64 GA
65262208 CATCATTCAA
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 73 0.56
80 48 0.37
81 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:65262167 original size:119 final size:120
Alignment explanation
Indices: 65261983--65262207 Score: 323
Period size: 119 Copynumber: 1.9 Consensus size: 120
65261973 GCTACTCGTT
*
65261983 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
65262048 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* **
65262102 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
65262165 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65262208 CATCATTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
118 3 0.03
119 70 0.74
120 21 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:65268864 original size:15 final size:16
Alignment explanation
Indices: 65268832--65268864 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65268822 TGAAGATGGA
*
65268832 ATTTTGAATTCATTTG
1 ATTTTGAATTCATATG
65268848 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
65268863 AT
1 AT
65268865 ACTTGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
ATTTTGAATTCATATG
Found at i:65270628 original size:33 final size:33
Alignment explanation
Indices: 65270586--65270679 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
65270576 AACACAGTGT
*
65270586 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
* *
65270619 CAGTACAATCTAGGCCTTAGCCC--TT-A--AA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
*
65270647 CAGTAGCAATATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAATCTGGGCCTAAGCCCT-ATTCAGT
65270680 CTCGACATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 7 0.15
29 15 0.31
30 1 0.02
31 2 0.04
32 2 0.04
33 21 0.44
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (33 bp):
CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
Found at i:65270663 original size:29 final size:28
Alignment explanation
Indices: 65270617--65270671 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
65270607 CCTATTCAGT
* *
65270617 AACAGTACAATCTAGGCCTTAGCCCTTA
1 AACAGTACAATATAGGCCTAAGCCCTTA
*
65270645 AACAGTAGCAATATGGGCCTAAGCCCT
1 AACAGTA-CAATATAGGCCTAAGCCCT
65270672 AATTCAGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (28 bp):
AACAGTACAATATAGGCCTAAGCCCTTA
Found at i:65270732 original size:31 final size:31
Alignment explanation
Indices: 65270685--65270767 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
65270675 TCAGTCTCGA
*
65270685 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGTCGAAGCCTTTTCATAAAT
65270715 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGTCGAAGCCTTTTCATAAAT
*
65270746 CATATCACTGGCT-GAAGCCTTT
1 CATATCACTGGGTCGAAGCCTTT
65270768 ACTGTAAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.28
31 36 0.72
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGTCGAAGCCTTTTCATAAAT
Found at i:65271005 original size:24 final size:25
Alignment explanation
Indices: 65270978--65271029 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
65270968 GCTTAGCCTC
*
65270978 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTCGGGCAAAGCCCT
*
65271002 TTTTGATAAACTCGGGCAAAGCCCT
1 TTTTAATAAACTCGGGCAAAGCCCT
65271027 TTT
1 TTT
65271030 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTCGGGCAAAGCCCT
Found at i:65271013 original size:25 final size:25
Alignment explanation
Indices: 65270985--65271054 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
65270975 CTCTTTTAAT
*
65270985 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
65271010 AACTCGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
65271035 AACTGGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65271055 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:65271887 original size:25 final size:28
Alignment explanation
Indices: 65271850--65271910 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
65271840 TCATATGGAA
*
65271850 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGCATATTACGGTCACTTTAC
65271875 CATACAGGG-ATATTACGGTCACTTTAC
1 CATACAGGGCATATTACGGTCACTTTAC
*
65271902 CCTACAGGG
1 CATACAGGG
65271911 GCTTTACGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 5 0.16
27 17 0.55
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
CATACAGGGCATATTACGGTCACTTTAC
Found at i:65272013 original size:27 final size:27
Alignment explanation
Indices: 65271983--65272080 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
65271973 GTAAATCTAC
65271983 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
65272010 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
65272036 AAAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
65272066 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
65272081 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.53
28 7 0.11
29 20 0.32
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:65272087 original size:27 final size:27
Alignment explanation
Indices: 65272057--65272202 Score: 127
Period size: 27 Copynumber: 5.4 Consensus size: 27
65272047 GGTATTTCTA
**
65272057 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* *
65272084 TAATTTTACAAAT-TGAGGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
65272111 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
65272138 TAATTTTACAAA-CTAGGGGCATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
* ** *
65272165 TAATTCTACCCTAT-AGGGGTATTTTAG
1 TAATTTTA-CAAATCAGGGGTATTTTGG
*
65272192 TAATTTCACAA
1 TAATTTTACAA
65272203 TCGAGGGTAA
Statistics
Matches: 93, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
26 3 0.03
27 87 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:65272088 original size:56 final size:54
Alignment explanation
Indices: 65271987--65272144 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 54
65271977 ATCTACAAAC
* *
65271987 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTTCA-TAATTTTGTAAACCAGTGGTATTT-TGGTAATTTTTAAAAA-T
* * *
65272043 CAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
** * ***
65272097 TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTT
1 CAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
65272145 ACAAACTAGG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
54 36 0.42
55 12 0.14
56 36 0.42
57 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCATAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
Found at i:65272231 original size:27 final size:27
Alignment explanation
Indices: 65272201--65272292 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
65272191 GTAATTTCAC
*
65272201 AATCGAGGGTAAAAC-GATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
65272228 AATCGATGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** * *
65272255 AATTAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
65272282 AATCGAGGGTA
1 AATCGAGGGTA
65272293 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:65274643 original size:40 final size:40
Alignment explanation
Indices: 65274588--65274685 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
65274578 CGGTTATTTG
* *
65274588 TGGCACTTAGTGTGCGATACGATAAAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
* *
65274628 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
* *
65274668 TGTCATTTAGTGTGCGAT
1 TGGCACTTAGTGTGCGAT
65274686 TTGAGATAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
Found at i:65274686 original size:40 final size:40
Alignment explanation
Indices: 65274594--65274724 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
65274584 TTTGTGGCAC
* * * * * *
65274594 TTAGTGTGCGATACGATAAAGCTTCGGCTATATATGGCAC
1 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
*
65274634 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGTCAT
1 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
* * * * *
65274674 TTAGTGTGCGATTTGAGATAGTTTC-AGCTATGTACGACAT
1 TTAGTGTGCGATTCGACATAGCTTCGA-CTATATATGACAT
65274714 TTAGTGTGCGA
1 TTAGTGTGCGA
65274725 GATATTGAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (40 bp):
TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
Found at i:65274749 original size:28 final size:28
Alignment explanation
Indices: 65274709--65274764 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
65274699 AGCTATGTAC
* *
65274709 GACATTTAGTGTGCGAGATATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
65274737 GACACTTAGTGTGCGAGACATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
65274765 TCGACGGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGACATTGAGTAT
Found at i:65276143 original size:22 final size:23
Alignment explanation
Indices: 65276113--65276156 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
65276103 GATTTATGAG
*
65276113 AATGAATGCTTTATGTT-TGAAA
1 AATGAATGCTATATGTTGTGAAA
*
65276135 AATGCATGCTATATGTTGTGAA
1 AATGAATGCTATATGTTGTGAA
65276157 TAGATTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGAAA
Found at i:65278423 original size:29 final size:29
Alignment explanation
Indices: 65278389--65278462 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65278379 TAATCAACCG
*
65278389 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
65278418 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
65278447 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
65278463 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:65286516 original size:29 final size:29
Alignment explanation
Indices: 65286482--65286555 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65286472 TAATCAACCG
*
65286482 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
65286511 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
65286540 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
65286556 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:65295341 original size:652 final size:653
Alignment explanation
Indices: 65294098--65295413 Score: 2481
Period size: 652 Copynumber: 2.0 Consensus size: 653
65294088 ACGGGCGTGC
65294098 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
1 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
*
65294163 TCCAAAGTTCTTGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
66 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
65294228 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
131 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
* *
65294293 TGATTGTTTGCATTTAAGTTTGGTAATTCCTTGTATCCTATCCGGGCATTGGACACGGGTAAGGG
196 TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
65294358 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGCTAAAGA
261 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGCTAAAGA
*
65294423 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACTCGGCTGCTCAAC
326 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
65294488 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
391 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
*
65294553 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTTAGAGCTACTATTGAT
456 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
* *
65294618 GATGATCCTGAGAGAGCTGATTTTTGGCTTTAAAATACGATCCGAGTGTTTAACGAGCTTTCTTG
521 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
**
65294683 CATGCTAGCTGAATGTTTAAAATGTGCCA-TTTTTTGTTGAGAGACACAGCATATCAATGGTGGA
586 CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
65294747 ATA
651 ATA
65294750 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
1 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
65294815 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
66 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
65294880 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
131 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
*
65294945 TGATTGTTTGCGTTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
196 TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
*
65295010 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCTAGGGAGGAGAGGCTAAAGA
261 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGCTAAAGA
65295075 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
326 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
*
65295140 AACCTCCACCCCCTCCTAATCCCCAACCTGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
391 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
*
65295205 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTGTTGAT
456 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
65295270 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
521 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
* *
65295335 CATGCTAGCTGAATGTTTAAAGTGTGCCATTTTTTTGTTGAGAGACATAGCATATCAAAAGTGGA
586 CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
65295400 ATA
651 ATA
65295403 CCTTGGTGTCT
1 CCTT-GTGTCT
65295414 GTAGTATCGA
Statistics
Matches: 647, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
652 602 0.93
653 39 0.06
654 6 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (653 bp):
CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGCTAAAGA
AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
ATA
Found at i:65296492 original size:117 final size:117
Alignment explanation
Indices: 65296286--65296525 Score: 462
Period size: 117 Copynumber: 2.1 Consensus size: 117
65296276 TTATATCTGT
65296286 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
1 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
65296351 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
66 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
*
65296403 ATGAATTTAGTATCTAGTAAGACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
1 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
*
65296468 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTGTTA
66 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
65296520 ATGAAT
1 ATGAAT
65296526 CGGGATTTCT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (117 bp):
ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
Found at i:65302056 original size:49 final size:50
Alignment explanation
Indices: 65301928--65302058 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
65301918 TATTGTGAGG
*
65301928 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGTGA
* * * * *
65301979 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGG
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-TGA
* *
65302028 TTGCATGTGTAGTACTAAGTGTAGGCTACTA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
65302059 TGCATACCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 5 0.07
49 29 0.42
50 2 0.03
51 33 0.48
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGTGA
Found at i:65302067 original size:49 final size:48
Alignment explanation
Indices: 65301928--65302069 Score: 167
Period size: 49 Copynumber: 2.9 Consensus size: 48
65301918 TATTGTGAGG
*
65301928 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTGA
* * * * *
65301979 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGG
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-TGA
* * *
65302028 TTGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCAGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
65302070 TAGCTTCGGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 5 0.06
49 37 0.48
50 2 0.03
51 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTGA
Found at i:65303914 original size:40 final size:39
Alignment explanation
Indices: 65303859--65303992 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 39
65303849 CGATTATTTG
* * *
65303859 TGGCACTTAGTGTGCGATACGATATAGCTTTGGCAATATA
1 TGGCACTTAGTGTGCGATTCGACATAG-TTTGGCTATATA
65303899 TGGCACTTAGTGTGCGATTCGACATAGTTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGTTT-GGCTATATA
* * * *
65303939 TGGCACTTCGTGTGCGATTTGAGATAGTTTTGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAG-TTTGGCTATATA
* *
65303979 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
65303993 AGAGCTATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 76 0.93
41 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (39 bp):
TGGCACTTAGTGTGCGATTCGACATAGTTTGGCTATATA
Found at i:65306364 original size:44 final size:44
Alignment explanation
Indices: 65306301--65306388 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
65306291 GTTCTTGGTG
65306301 TATGGCGGTTTATAACATCCCATTTTTCAGTGGTGTCAGAAACA
1 TATGGCGGTTTATAACATCCCATTTTTCAGTGGTGTCAGAAACA
65306345 TATGGCGGTTTATAACATCCCATTTTTCAGTGGTGTCAGAAACA
1 TATGGCGGTTTATAACATCCCATTTTTCAGTGGTGTCAGAAACA
65306389 GTGGTTTCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
TATGGCGGTTTATAACATCCCATTTTTCAGTGGTGTCAGAAACA
Found at i:65306879 original size:21 final size:21
Alignment explanation
Indices: 65306853--65306892 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
65306843 GCAATTTTAT
65306853 AATTAAA-TGGAAATTAAAATA
1 AATTAAAGT-GAAATTAAAATA
65306874 AATTAAAGTGAAATTAAAA
1 AATTAAAGTGAAATTAAAA
65306893 CATTTTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (21 bp):
AATTAAAGTGAAATTAAAATA
Found at i:65307869 original size:35 final size:35
Alignment explanation
Indices: 65307813--65307976 Score: 130
Period size: 35 Copynumber: 4.6 Consensus size: 35
65307803 TACTCTCTGT
*
65307813 TTGGCGTGTTTCGGTTGGATTAGCTTTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* * *
65307848 TTGGCGTGTTTTGGTTAGATTAGATCTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
** * * * * *
65307883 TTTACGTGTTTTTGTTGGACTAACTTTTGTGAGTA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* ** * * * *
65307918 CTTGGTGTGTTTTGGAGGGATTGGGTTGTATGAGCA
1 -TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* *
65307954 TTTGGCGTGTTATGATTGGATTA
1 -TTGGCGTGTTTTGGTTGGATTA
65307977 TCGATGTACT
Statistics
Matches: 94, Mismatches: 34, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
35 56 0.60
36 38 0.40
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (35 bp):
TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
Found at i:65310772 original size:18 final size:19
Alignment explanation
Indices: 65310749--65310784 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65310739 AACTTGGCAT
*
65310749 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
65310767 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
65310785 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:65311114 original size:30 final size:30
Alignment explanation
Indices: 65311080--65311140 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65311070 TCCTTAACTC
65311080 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65311110 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65311140 A
1 A
65311141 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65320205 original size:28 final size:27
Alignment explanation
Indices: 65320177--65320264 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
65320167 GTGACATAGT
*
65320177 CACCAGATACAGATATTTGTGGCAGAGT
1 CACCAGA-ACAGATATTTGTGGCAGAGC
* * *
65320205 CACCAAAATAGATATTTGTGGTAGAGC
1 CACCAGAACAGATATTTGTGGCAGAGC
* * *
65320232 CACCATAACAGATAATTGTGGCATAGC
1 CACCAGAACAGATATTTGTGGCAGAGC
65320259 CACCAG
1 CACCAG
65320265 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 44 0.88
28 6 0.12
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGAGC
Found at i:65328029 original size:27 final size:27
Alignment explanation
Indices: 65327999--65328076 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
65327989 GTCACCACAT
65327999 ACAGATATTTGTGGCAGAGCCACCAAA
1 ACAGATATTTGTGGCAGAGCCACCAAA
* *
65328026 ACAGATATTTGTGGTAGAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAAA
*
65328053 ACAGATA-TTGTGGCATAGCCACCA
1 ACAGATATTTGTGGCAGAGCCACCA
65328077 GGACGCTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 15 0.32
27 32 0.68
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGAGCCACCAAA
Found at i:65329332 original size:18 final size:18
Alignment explanation
Indices: 65329295--65329364 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
65329285 GTTCGGCTAT
65329295 AGAAGAAAA-AGCAA-AGA
1 AGAAGAAAAGAG-AATAGA
65329312 AGAAGAAAAGAGAATAGA
1 AGAAGAAAAGAGAATAGA
* * * *
65329330 AGATGAGAGGAGAAAAGA
1 AGAAGAAAAGAGAATAGA
* *
65329348 AAAAGAGAAGAGAATAG
1 AGAAGAAAAGAGAATAG
65329365 TCAAAACCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
17 11 0.26
18 32 0.74
ACGTcount: A:0.64, C:0.01, G:0.30, T:0.04
Consensus pattern (18 bp):
AGAAGAAAAGAGAATAGA
Found at i:65338741 original size:40 final size:40
Alignment explanation
Indices: 65338681--65338778 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
65338671 CGGAAGTTTT
*
65338681 GGCACTAAGTGTGCGATTTAAATTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
* *
65338721 GGCACTAAGTGTGTGCTTTAAACTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
65338761 GGCACTAAGTGTGCGATT
1 GGCACTAAGTGTGCGATT
65338779 CTGACTTAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
Found at i:65344226 original size:73 final size:73
Alignment explanation
Indices: 65344107--65344251 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
65344097 AACAATAGAT
*
65344107 AAATAAAAGAGACTTGATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
1 AAATAAAAGAGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
65344172 GGTTAAGA
66 GGTTAAGA
* ** * * *
65344180 AAAT-AAAGAAGACTTCATAGATTTTGAAATGTTGATGTCCAAAGGATCTTGCAACCTAACATAC
1 AAATAAAAG-AGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAA
65344244 TGGTTAAG
65 TGGTTAAG
65344252 TCAGGTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
72 4 0.06
73 60 0.94
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (73 bp):
AAATAAAAGAGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
GGTTAAGA
Found at i:65347003 original size:22 final size:21
Alignment explanation
Indices: 65346967--65347009 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
65346957 GAAAGTAAAA
* *
65346967 TTTAATTAATTTATATAATAT
1 TTTAATTAATATATAAAATAT
65346988 TTTAATATAATATATAAAATAT
1 TTTAAT-TAATATATAAAATAT
65347010 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTAATATATAAAATAT
Found at i:65347022 original size:13 final size:14
Alignment explanation
Indices: 65346979--65347022 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
65346969 TAATTAATTT
65346979 ATATAATATTTT-A
1 ATATAATATTTTAA
* *
65346992 ATATAATATATAAA
1 ATATAATATTTTAA
65347006 ATATAA-ATTTTAA
1 ATATAATATTTTAA
65347019 ATAT
1 ATAT
65347023 CATTTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAATATTTTAA
Found at i:65347195 original size:31 final size:31
Alignment explanation
Indices: 65346983--65347196 Score: 88
Period size: 31 Copynumber: 6.6 Consensus size: 31
65346973 TAATTTATAT
* *
65346983 AATATTTTAATATAATATATAAAATATAAATTTTA
1 AATAATTTAATATAATA-AT-AAAT-TATA-TTTA
65347018 AATATCATTTAA-ATAATTAATATAATT-TATTTGA
1 AATA--ATTTAATATAA-TAATA-AATTATATTT-A
*
65347052 AA-AA-TTAATGAT-AT-ATAAAATAT-TTTA
1 AATAATTTAAT-ATAATAATAAATTATATTTA
* * *
65347079 AA-ATTTTAAATATAATGATAAATTATATTGA
1 AATAATTT-AATATAATAATAAATTATATTTA
* * * * *
65347110 AA-ATTTTAATAAAATGATATTTGTGAATAACATTTA
1 AATAATTTAATATAAT-A-A----TAAATTATATTTA
*
65347146 AATAATTTAACT-TGATAATAAATTATATTTA
1 AATAATTTAA-TATAATAATAAATTATATTTA
65347177 AATAATTTAATATAATAATA
1 AATAATTTAATATAATAATA
65347197 CAAAAATATA
Statistics
Matches: 138, Mismatches: 19, Indels: 48
0.67 0.09 0.23
Matches are distributed among these distances:
27 4 0.03
28 10 0.07
29 9 0.07
30 21 0.15
31 39 0.28
32 3 0.02
33 4 0.03
34 4 0.03
35 7 0.05
36 21 0.15
37 15 0.11
38 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
AATAATTTAATATAATAATAAATTATATTTA
Found at i:65347540 original size:16 final size:17
Alignment explanation
Indices: 65347507--65347540 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65347497 TATTCTCTCA
*
65347507 ATTCTCTTAAATTATTT
1 ATTCTCTTAAACTATTT
65347524 ATTCTCTT-AACTATTT
1 ATTCTCTTAAACTATTT
65347540 A
1 A
65347541 GTTCCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTCTTAAACTATTT
Found at i:65349557 original size:30 final size:29
Alignment explanation
Indices: 65349500--65349557 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
65349490 CTCATCAATA
* **
65349500 TTCAATTTCCACATACATGTATTTATCAC
1 TTCAATTTCCACAAACATGTACATATCAC
*
65349529 TTCAATTGTCCATAAACATGTACATATCA
1 TTCAATT-TCCACAAACATGTACATATCA
65349558 TATCTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
TTCAATTTCCACAAACATGTACATATCAC
Found at i:65349764 original size:27 final size:27
Alignment explanation
Indices: 65349724--65349849 Score: 107
Period size: 27 Copynumber: 4.8 Consensus size: 27
65349714 AATGCTCATA
65349724 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGGGAAGCTCTCTCT
* *
65349751 CGAGCCATATAACGAGAAACTCTCTCT
1 CGAGCCATATAACGGGAAGCTCTCTCT
* * * * *
65349778 TGAGCCGTTTAACGAGAAACTCTCTCT
1 CGAGCCATATAACGGGAAGCTCTCTCT
* * * *
65349805 TGAGCCATATAACAGAAAG--CTCTGT
1 CGAGCCATATAACGGGAAGCTCTCTCT
*
65349830 -GAGCCATGTAACGGGAAGCT
1 CGAGCCATATAACGGGAAGCT
65349850 TATCTGGGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
24 15 0.19
25 5 0.06
26 4 0.05
27 57 0.70
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (27 bp):
CGAGCCATATAACGGGAAGCTCTCTCT
Found at i:65349802 original size:29 final size:27
Alignment explanation
Indices: 65349724--65349827 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
65349714 AATGCTCATA
* *
65349724 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGAGAAACTCTCTCT
65349751 CGAGCCATATAACGAGAAACTCTCTCT
1 CGAGCCATATAACGAGAAACTCTCTCT
* * *
65349778 TGAGCCGTTTAACGAGAAACTCTCTCT
1 CGAGCCATATAACGAGAAACTCTCTCT
*
65349805 TGAGCCATATAAC-AGAAAGCTCT
1 CGAGCCATATAACGAGAAA-CTCT
65349828 GTGAGCCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.13
27 59 0.87
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (27 bp):
CGAGCCATATAACGAGAAACTCTCTCT
Found at i:65352343 original size:46 final size:46
Alignment explanation
Indices: 65352259--65352425 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
65352249 TATCGTAGCC
* * *
65352259 GATGCATGTCTCAGACATGTCTTACATTAG-CTTACGTCTCGAGGTC-
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCGAGG-CA
* *
65352305 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGGCA
* * * * * * *
65352351 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTCGAGGCA
65352399 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACATGTCTTACAC
65352426 CAGCTCACAC
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 28 0.28
48 22 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGGCA
Found at i:65356203 original size:99 final size:99
Alignment explanation
Indices: 65356028--65356226 Score: 337
Period size: 99 Copynumber: 2.0 Consensus size: 99
65356018 CTCAGTACAT
* * *
65356028 AATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTTGTCGACCCTACGGAAGGTT
1 AATTCACATAGATACTTTCACACAAATAAGGGTCTAAGTAGTGCTTCTCGACCCTACGAAAGGTT
**
65356093 CACAGTTGACTTGGGCGACCCGTGCAACCTTAAC
66 CACAGCCGACTTGGGCGACCCGTGCAACCTTAAC
65356127 AATTCACATAGATACTTTCACACAAATAAGGGTCTAAGTAGTGCTTACT-GACCCTACGAAAGGT
1 AATTCACATAGATACTTTCACACAAATAAGGGTCTAAGTAGTGCTT-CTCGACCCTACGAAAGGT
65356191 TCACAGCCGACTTGGGCGACCCGTGCAACCTTAAC
65 TCACAGCCGACTTGGGCGACCCGTGCAACCTTAAC
65356226 A
1 A
65356227 GTCACTTCCG
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 93 0.99
100 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (99 bp):
AATTCACATAGATACTTTCACACAAATAAGGGTCTAAGTAGTGCTTCTCGACCCTACGAAAGGTT
CACAGCCGACTTGGGCGACCCGTGCAACCTTAAC
Found at i:65359841 original size:17 final size:18
Alignment explanation
Indices: 65359819--65359852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65359809 CTATCCTCGG
65359819 TAATGGAT-ACTTGTTCT
1 TAATGGATAACTTGTTCT
*
65359836 TAATGGTTAACTTGTTC
1 TAATGGATAACTTGTTC
65359853 AGTTGCCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (18 bp):
TAATGGATAACTTGTTCT
Found at i:65367293 original size:15 final size:15
Alignment explanation
Indices: 65367273--65367314 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
65367263 GTTTGATAAA
65367273 CTGAAAAATTAAATG
1 CTGAAAAATTAAATG
**
65367288 CTGAAAAAAGAAATG
1 CTGAAAAATTAAATG
*
65367303 TTGAAAAATTAA
1 CTGAAAAATTAA
65367315 GTATTGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (15 bp):
CTGAAAAATTAAATG
Found at i:65367324 original size:14 final size:15
Alignment explanation
Indices: 65367303--65367337 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
65367293 AAAAGAAATG
*
65367303 TTGAAAAATTAAGTA
1 TTGAAAATTTAAGTA
65367318 TTGAAAATTTAAGTA
1 TTGAAAATTTAAGTA
65367333 TTGAA
1 TTGAA
65367338 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (15 bp):
TTGAAAATTTAAGTA
Found at i:65371229 original size:9 final size:9
Alignment explanation
Indices: 65371215--65371264 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
65371205 ATAAGTACAA
65371215 AATTAACCG
1 AATTAACCG
*
65371224 AATTAATCG
1 AATTAACCG
*
65371233 AATTAAACG
1 AATTAACCG
*
65371242 AATTACCCG
1 AATTAACCG
65371251 AATTAACCG
1 AATTAACCG
65371260 AATTA
1 AATTA
65371265 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:65371299 original size:5 final size:6
Alignment explanation
Indices: 65371284--65371324 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
65371274 AATTATATGC
65371284 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
65371325 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:65371314 original size:14 final size:13
Alignment explanation
Indices: 65371284--65371321 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
65371274 AATTATATGC
65371284 TTTTTATTTTT-A
1 TTTTTATTTTTAA
65371296 TTTTTATTTTTAGA
1 TTTTTATTTTTA-A
65371310 TTTTTATTTTTA
1 TTTTTATTTTTA
65371322 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:65376562 original size:40 final size:40
Alignment explanation
Indices: 65376507--65376815 Score: 537
Period size: 40 Copynumber: 7.7 Consensus size: 40
65376497 TGAGCATTGG
65376507 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65376547 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65376587 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65376627 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
65376667 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65376707 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
65376747 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
65376787 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
65376816 ATGTGTTTGC
Statistics
Matches: 257, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:65381962 original size:9 final size:9
Alignment explanation
Indices: 65381943--65381979 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
65381933 TGAGTTTTCG
65381943 AATTCGAAT
1 AATTCGAAT
65381952 AACTT-GAAT
1 AA-TTCGAAT
65381961 AATTCGAAT
1 AATTCGAAT
65381970 AATTCGAAT
1 AATTCGAAT
65381979 A
1 A
65381980 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:65382503 original size:23 final size:23
Alignment explanation
Indices: 65382472--65382517 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
65382462 TTTATTTATA
65382472 TATACTATTTATATTATTAAATT
1 TATACTATTTATATTATTAAATT
* *
65382495 TATATTATTTATATTATTGAATT
1 TATACTATTTATATTATTAAATT
65382518 GTTTAGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TATACTATTTATATTATTAAATT
Found at i:65385332 original size:30 final size:30
Alignment explanation
Indices: 65385275--65385332 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
65385265 TTTTCGAGCA
**
65385275 TAGGGGCAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
65385305 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
65385333 ACGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:65385739 original size:47 final size:48
Alignment explanation
Indices: 65385657--65385913 Score: 161
Period size: 47 Copynumber: 5.6 Consensus size: 48
65385647 TTTGTGCACT
* * * *
65385657 AGTGTAAGACGTGTCTGGGACAT-GCTTCAGCCACAG-TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* *
65385703 AGTGTAAGACCATGTTTGGGACATGGCATC-GACACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* * * * * * *
65385751 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTC-GACATGGATAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGAT-GAGAGCC
* * * *
65385798 AGAGTAAGACATGTCTGGGACAT-GCATCAG---C-----TTA-TGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* * * *
65385836 AGTGTAAGACATGTCTAGGACAT-GCATCAG-CACGCGTATATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACAC-AG-AGATGAGAGCC
65385884 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
65385914 GGTAATATAA
Statistics
Matches: 169, Mismatches: 25, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
38 31 0.18
39 1 0.01
40 2 0.01
44 1 0.01
46 17 0.10
47 67 0.40
48 32 0.19
49 13 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
Found at i:65392394 original size:29 final size:30
Alignment explanation
Indices: 65392339--65392395 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
65392329 TTTTCGAGCA
**
65392339 TAGGGGCAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
65392369 TAGGGGC-AAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
65392396 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:65392845 original size:47 final size:46
Alignment explanation
Indices: 65392735--65392999 Score: 175
Period size: 47 Copynumber: 5.7 Consensus size: 46
65392725 TGATTTGTGC
* * ** * * *
65392735 GCCAGTATAAGACGTGTCTCAGACATGCTTCGGCCACAG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGT
*
65392781 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGT
* * ** *
65392829 GCCAGTGTAAGACATGTTTGGGACATGCATTGGC-C-TCGATAGGGAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGAT-GAG-T
* * * *
65392875 AGCCAGAGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAG-T-TGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGT
* ** * * *
65392920 GCTAGTGTAAGACATGTCTGGGACATGCATCAACACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-AGATGAGT
65392968 GCCAGTGTAAGACCATGTCT-GGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
65393000 AGCAATATAA
Statistics
Matches: 172, Mismatches: 31, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 5 0.03
46 21 0.12
47 59 0.34
48 42 0.24
49 13 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGT
Found at i:65396632 original size:31 final size:33
Alignment explanation
Indices: 65396564--65396635 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
65396554 CCGTGTGGCC
65396564 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
1 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
* * ** *
65396597 CACACTGCCTAAATTGGTCGAGCCTGTGTGTCA
1 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
65396630 CACACG
1 CACACG
65396636 ACCTCGCTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (33 bp):
CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
Found at i:65400790 original size:30 final size:30
Alignment explanation
Indices: 65400756--65400816 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
65400746 ATAAGTATGT
65400756 GTGATTAATCTTTAAGTGATATCGATTGTA
1 GTGATTAATCTTTAAGTGATATCGATTGTA
65400786 GTGATTAATCTTTAAGTGATATCGATTGTA
1 GTGATTAATCTTTAAGTGATATCGATTGTA
65400816 G
1 G
65400817 GTTTGGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (30 bp):
GTGATTAATCTTTAAGTGATATCGATTGTA
Found at i:65401164 original size:28 final size:28
Alignment explanation
Indices: 65401128--65401216 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
65401118 GTGAGCATGA
* * *
65401128 ATATCAATGTAACTGGGCCTAATGGGGC
1 ATATAAATGTAATTGGGCCTAATGGGCC
*
65401156 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGT-AATTGGGCCTAATGGGCC
* * * *
65401185 ATATATAGGTGATTGGGCCTAATGGGCT
1 ATATAAATGTAATTGGGCCTAATGGGCC
65401213 ATAT
1 ATAT
65401217 GAATATGATT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 28 0.55
29 23 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
ATATAAATGTAATTGGGCCTAATGGGCC
Found at i:65401178 original size:29 final size:28
Alignment explanation
Indices: 65401141--65401216 Score: 107
Period size: 29 Copynumber: 2.7 Consensus size: 28
65401131 TCAATGTAAC
* *
65401141 TGGGCCTAATGGGGCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGA-T
*
65401170 TGGGCCTAATGGGCCATATATAGGTGAT
1 TGGGCCTAATGGGCCATATAAAGGTGAT
*
65401198 TGGGCCTAATGGGCTATAT
1 TGGGCCTAATGGGCCATAT
65401217 GAATATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAAGGTGAT
Found at i:65401225 original size:28 final size:26
Alignment explanation
Indices: 65401141--65401226 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 26
65401131 TCAATGTAAC
*
65401141 TGGGCCTAATGGGGCATATAAATGTGATT
1 TGGGCCTAAT-GGGCATAT-AATATGA-T
65401170 TGGGCCTAATGGGCCATAT-ATAGGTGAT
1 TGGGCCTAATGGG-CATATAATA--TGAT
65401198 TGGGCCTAATGGGCTATATGAATATGAT
1 TGGGCCTAATGGGC-ATAT-AATATGAT
65401226 T
1 T
65401227 AGGCTTAGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.06
28 26 0.52
29 18 0.36
30 3 0.06
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (26 bp):
TGGGCCTAATGGGCATATAATATGAT
Found at i:65406176 original size:40 final size:39
Alignment explanation
Indices: 65406118--65406196 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
65406108 ACTTAATTCA
* * * *
65406118 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCAGATACAATC
* *
65406158 CCAGCATGAAGCGAGCGGGTCTCTAACCCAGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
65406197 TCCGCACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
Found at i:65406423 original size:47 final size:47
Alignment explanation
Indices: 65406274--65406429 Score: 156
Period size: 47 Copynumber: 3.3 Consensus size: 47
65406264 TGCACACTTT
* * * * *
65406274 TCACAATTGGTCATTCGGCCTTGTCACATGT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTCCACAT-TCA
** * * **
65406320 TCACATTAACCATCCGGCCTTATCACATGTATGCACTTCCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
*
65406367 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
*
65406414 TCACGTTGGCCATTCG
1 TCACATTGGCCATTCG
65406430 ATCTTAAGCC
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 21 0.23
46 5 0.05
47 66 0.72
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
Found at i:65409823 original size:28 final size:28
Alignment explanation
Indices: 65409725--65409826 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
65409715 TGAATGTAAC
** * *
65409725 TGGGCCTAACAGGTCATATAAATGTGATT
1 TGGGCCTAATGGGCCATAT-AATATGATT
65409754 TGGGCCTAATGGGCCATAT-ATAGTTGATT
1 TGGGCCTAATGGGCCATATAATA--TGATT
65409783 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATAT-AATATGATT
* *
65409811 TGGGCTTAGTGGGCCA
1 TGGGCCTAATGGGCCA
65409827 AATACAGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.03
28 15 0.24
29 43 0.68
31 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAATATGATT
Found at i:65428479 original size:47 final size:47
Alignment explanation
Indices: 65428418--65428945 Score: 822
Period size: 47 Copynumber: 11.4 Consensus size: 47
65428408 CAGCCAAGAC
65428418 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65428465 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65428512 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65428559 AGTG----TA----ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65428598 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65428645 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
65428692 AGTGTATATGTATGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
65428739 AGTGTATATGTGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65428786 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65428833 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
65428880 AGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAA
* *
65428927 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
65428946 TCCCGAAGGG
Statistics
Matches: 446, Mismatches: 25, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
39 36 0.08
43 4 0.01
46 5 0.01
47 399 0.89
48 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:65429120 original size:37 final size:37
Alignment explanation
Indices: 65429068--65429142 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
65429058 GCTCTAAAGG
* *
65429068 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
65429105 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
65429142 C
1 C
65429143 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:65431048 original size:43 final size:43
Alignment explanation
Indices: 65431000--65431145 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
65430990 TTGGTTTTCA
65431000 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
65431043 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
65431086 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
65431129 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
65431146 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:65431166 original size:29 final size:29
Alignment explanation
Indices: 65431127--65431200 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65431117 GTTGTGAGAT
* *
65431127 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
65431156 TGGCACCAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65431185 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65431201 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65436527 original size:29 final size:29
Alignment explanation
Indices: 65436464--65436531 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
65436454 TAATCAACCG
*
65436464 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
65436493 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
65436522 CGCACACTTA
1 CGCACACTTA
65436532 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:65436643 original size:174 final size:174
Alignment explanation
Indices: 65436353--65436680 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
65436343 AACTCAAGGT
* **
65436353 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
65436418 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
65436483 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
65436527 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
*
65436592 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
65436657 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
65436681 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:65436672 original size:29 final size:30
Alignment explanation
Indices: 65436633--65436711 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
65436623 CTTAATAATC
65436633 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
65436663 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
65436692 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65436712 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:65452626 original size:29 final size:29
Alignment explanation
Indices: 65452563--65452630 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
65452553 TAATCAACCG
*
65452563 CGCACACTTAATGCCATGTACTTTAAACT
1 CGCACACTTAATGCCATGCACTTTAAACT
* * **
65452592 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAATGCCATGCACTTT-AAACT
65452621 CGCACACTTA
1 CGCACACTTA
65452631 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAATGCCATGCACTTTAAACT
Found at i:65452742 original size:174 final size:174
Alignment explanation
Indices: 65452452--65452779 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
65452442 AACTCAAGGT
* **
65452452 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
65452517 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAATGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAATGCCATGT
65452582 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
65452626 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
* *
65452691 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAATGCCATGT
*
65452756 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
65452780 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTGAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAATGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:65452771 original size:29 final size:30
Alignment explanation
Indices: 65452732--65452810 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
65452722 CTTAATAATC
65452732 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
65452762 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
65452791 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65452811 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:65454874 original size:47 final size:47
Alignment explanation
Indices: 65454813--65455254 Score: 722
Period size: 47 Copynumber: 9.4 Consensus size: 47
65454803 CAGCCAAGAC
65454813 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65454860 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65454907 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
65454954 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65455001 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
65455048 AGTGTATATGTATGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
65455095 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
65455142 AGTATATATAGGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
65455189 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
65455236 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
65455255 TCCCGAAGGG
Statistics
Matches: 366, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 366 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:65455442 original size:37 final size:37
Alignment explanation
Indices: 65455379--65455452 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
65455369 TCTAAAGGCC
* *
65455379 CGATGACTACGTGTGGGAATTTTGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
*
65455416 CGATAACTTCGTGT-GGAGATTATGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGA-ATTATGTCCGGGTAAGACT
65455453 TCGTAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (37 bp):
CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
Found at i:65458252 original size:18 final size:18
Alignment explanation
Indices: 65458229--65458264 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
65458219 AAATTCCATG
65458229 TTCATATATTACCATCTC
1 TTCATATATTACCATCTC
*
65458247 TTCATATATTATCATCTC
1 TTCATATATTACCATCTC
65458265 GTATTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCATATATTACCATCTC
Found at i:65460266 original size:16 final size:16
Alignment explanation
Indices: 65460247--65460277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65460237 TTATTTATTA
*
65460247 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
65460263 AATTAAATAATTTTC
1 AATTAAATAATTTTC
65460278 TTAACCAATG
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:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:65461421 original size:20 final size:18
Alignment explanation
Indices: 65461274--65461422 Score: 68
Period size: 17 Copynumber: 8.5 Consensus size: 18
65461264 ACTATGATTA
65461274 AAATTAATCATTTTAATATT
1 AAATTAAT-A-TTTAATATT
65461294 AAATTAATA--TAATATT
1 AAATTAATATTTAATATT
* * * *
65461310 -TATCAAGA-TAAATATT
1 AAATTAATATTTAATATT
*
65461326 AGATTAA-ATTTAATATT
1 AAATTAATATTTAATATT
* *
65461343 AAATT-TTA-TTAA-AAT
1 AAATTAATATTTAATATT
* * *
65461358 -AATAGAATGTTTAAACATT
1 AAAT-TAATATTT-AATATT
65461377 AAATTAA-ATTTAATATT
1 AAATTAATATTTAATATT
65461394 AAGA-TAATCACTTTAATATT
1 AA-ATTAAT-A-TTTAATATT
65461414 AAATTAATA
1 AAATTAATA
65461423 AAATACTATT
Statistics
Matches: 97, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 3 0.03
15 7 0.07
16 19 0.20
17 28 0.29
18 6 0.06
19 8 0.08
20 26 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATTAATATTTAATATT
Found at i:65462477 original size:26 final size:26
Alignment explanation
Indices: 65462445--65462526 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
65462435 TGATACAAAT
65462445 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
65462471 TGGTAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
65462497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
65462523 TGAT
1 TGAT
65462527 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:65465769 original size:36 final size:36
Alignment explanation
Indices: 65465729--65465803 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
65465719 ATCACAGCAT
65465729 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
1 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
65465765 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
1 GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
65465801 GAA
1 GAA
65465804 TTAATTAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (36 bp):
GAACGTCACAAGTGAATTAATTCACAACTAGATTCA
Found at i:65466144 original size:16 final size:16
Alignment explanation
Indices: 65466123--65466153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65466113 CTATACATAC
*
65466123 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
65466139 AAAATACAAAAGACA
1 AAAATACAAAAGACA
65466154 TAACAGTAAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:65468147 original size:40 final size:40
Alignment explanation
Indices: 65467927--65468143 Score: 339
Period size: 40 Copynumber: 5.5 Consensus size: 40
65467917 ACCCAAGTAT
*
65467927 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
65467966 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGT
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
65468006 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
65468046 CTTCGGGTCTTAGCCCGGTTATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
65468086 CTTCGGGCCTTAGCCCGGTTATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
65468126 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
65468144 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 154 0.93
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:65475608 original size:16 final size:16
Alignment explanation
Indices: 65475587--65475658 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
65475577 TATGATTAAC
*
65475587 TTAAATCACTTTAATA
1 TTAAATCAATTTAATA
* *
65475603 TTAAATTAATATAATA
1 TTAAATCAATTTAATA
*
65475619 TT-AATCAATATAAATA
1 TTAAATCAAT-TTAATA
* *
65475635 TTAGATTAAATTTAATA
1 TTA-AATCAATTTAATA
65475652 TTAAATC
1 TTAAATC
65475659 TTATTAAAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
15 6 0.14
16 23 0.55
17 8 0.19
18 5 0.12
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATCAATTTAATA
Found at i:65475737 original size:37 final size:35
Alignment explanation
Indices: 65475696--65475802 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 35
65475686 TAAGATGAAC
65475696 ATTAAATTTAATTTAATATTAAGATAATCACTTTAAT
1 ATTAAATTTAATTTAATATTAAGATAAT-A-TTTAAT
** *
65475733 ATTAAATTAATAAAATATTATTAAGATAAATATTTAAT
1 ATTAAATT--TAATTTAATATTAAGAT-AATATTTAAT
*
65475771 -TT-AATTTAATATTAAATTATTAAAATAATATT
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATATT
65475803 ATTTTTGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 11 0.19
37 18 0.32
38 6 0.11
39 15 0.26
40 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (35 bp):
ATTAAATTTAATTTAATATTAAGATAATATTTAAT
Found at i:65476001 original size:15 final size:15
Alignment explanation
Indices: 65475981--65476020 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
65475971 GCACCCTGAG
65475981 CCGGTTCGGTTGCTA
1 CCGGTTCGGTTGCTA
65475996 CCGGTTCGGTTGCTA
1 CCGGTTCGGTTGCTA
* *
65476011 TCGATTCGGT
1 CCGGTTCGGT
65476021 CCAAGTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.07, C:0.25, G:0.33, T:0.35
Consensus pattern (15 bp):
CCGGTTCGGTTGCTA
Found at i:65477448 original size:16 final size:16
Alignment explanation
Indices: 65477427--65477460 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
65477417 CTATGCATGC
*
65477427 AAAATATAAAAGATAT
1 AAAATACAAAAGATAT
65477443 AAAATACAAAAGATAT
1 AAAATACAAAAGATAT
65477459 AA
1 AA
65477461 CAGTGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATACAAAAGATAT
Found at i:65478376 original size:16 final size:16
Alignment explanation
Indices: 65478355--65478385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65478345 TGTATTTAAA
*
65478355 TAAATTAATTAATTTC
1 TAAATTAAATAATTTC
65478371 TAAATTAAATAATTT
1 TAAATTAAATAATTT
65478386 TCTCCATCCG
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:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTAAATAATTTC
Found at i:65481130 original size:103 final size:103
Alignment explanation
Indices: 65480951--65481256 Score: 393
Period size: 103 Copynumber: 3.0 Consensus size: 103
65480941 AATTATTAAG
* * * * **
65480951 GTTAGAAGAGTTAAGCGCGCAAC-TCCAAGACAGCTAGCGGACCTATGGTCCCAGTTGATTATTA
1 GTTAGAAGAGTTAAGCTCGCAACTTCCAA-ACAGCTAGTGGACCTATGCTCCTAACTGATTATTA
*
65481015 AGGTTAGAAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
65 AGGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
* * * *
65481054 GTTAGAAGAGTTAAGCTCGTAACTTCTAAACAACTAGTGGACCTACGCTCCTAACTGATTATTAA
1 GTTAGAAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATTAA
*
65481119 GGTTAGTAGAGTTAAGCTTGCAACCTCT-AGCCTTTTGA
66 GGTTAGTAGAGTTAAGCTTGCAACCTCTGA-TCTTTTGA
* * * *
65481157 GTTAGCAA-AGTTAAGCTTGCAACTCCCAGACAGCTAGTGAACCTATGCTCCTAACTGATTATTA
1 GTTAG-AAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATT-
* *
65481221 AAGGTTAGTAGAGTTAAGCTCGCAACCTCCGATCTT
64 AAGGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTT
65481257 ATTTACAAAC
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
102 1 0.01
103 136 0.78
104 37 0.21
105 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (103 bp):
GTTAGAAGAGTTAAGCTCGCAACTTCCAAACAGCTAGTGGACCTATGCTCCTAACTGATTATTAA
GGTTAGTAGAGTTAAGCTTGCAACCTCTGATCTTTTGA
Found at i:65495033 original size:12 final size:12
Alignment explanation
Indices: 65495016--65495040 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65495006 AACTCTGTAA
65495016 CTAGTTTAAATT
1 CTAGTTTAAATT
65495028 CTAGTTTAAATT
1 CTAGTTTAAATT
65495040 C
1 C
65495041 AATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (12 bp):
CTAGTTTAAATT
Found at i:65495081 original size:23 final size:23
Alignment explanation
Indices: 65495050--65495124 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
65495040 CAATTTTTAA
*
65495050 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
65495073 ATTTAGAATTATTTAGTGATGAT
1 ATTTAGAATTATTTAGTGATAAT
* *
65495096 ATTTAAAATTATTTGGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
65495119 ATTTAG
1 ATTTAG
65495125 GAAAAATCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:65497869 original size:22 final size:24
Alignment explanation
Indices: 65497843--65497896 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
65497833 TTATAAATTC
* *
65497843 AATTTAAAGGATA-TAAT-ATAAT
1 AATTTAAAGCATATTAATAACAAT
*
65497865 AATTTCAAGCATATTTAATAACAAT
1 AATTTAAAGCATA-TTAATAACAAT
65497890 AATTTAA
1 AATTTAA
65497897 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 11 0.44
24 4 0.16
25 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AATTTAAAGCATATTAATAACAAT
Found at i:65503022 original size:22 final size:21
Alignment explanation
Indices: 65502987--65503045 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
65502977 AATTATTTTC
*
65502987 AATAATTTATTAATTTATTAA
1 AATAATTAATTAATTTATTAA
*
65503008 TATAATTAATATAATTTATTAA
1 AATAATTAAT-TAATTTATTAA
*
65503030 AATAATAAATT-ATTTA
1 AATAATTAATTAATTTA
65503046 ATATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 5 0.15
21 9 0.27
22 19 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTAATTAATTTATTAA
Found at i:65509047 original size:8 final size:8
Alignment explanation
Indices: 65509031--65509086 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
65509021 TTTTAATTTC
65509031 TTTTAAAT
1 TTTTAAAT
*
65509039 TTTTGAAT
1 TTTTAAAT
65509047 TTTCTATATAT
1 TTT-TA-A-AT
65509058 TTTTAAAT
1 TTTTAAAT
65509066 TTTTATAA-
1 TTTTA-AAT
65509074 TTTTATAAT
1 TTTTA-AAT
65509083 TTTT
1 TTTT
65509087 TCAATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 25 0.61
9 8 0.20
10 3 0.07
11 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTAAAT
Found at i:65509059 original size:19 final size:17
Alignment explanation
Indices: 65509031--65509086 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
65509021 TTTTAATTTC
*
65509031 TTTTA-AATTTTTGAAT
1 TTTTATAATTTTTAAAT
65509047 TTTCTATATATTTTTAAAT
1 TTT-TATA-ATTTTTAAAT
65509066 TTTTATAA-TTTTATAAT
1 TTTTATAATTTTTA-AAT
65509083 TTTT
1 TTTT
65509087 TCAATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 8 0.23
17 10 0.29
18 5 0.14
19 12 0.34
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTATAATTTTTAAAT
Found at i:65509060 original size:18 final size:17
Alignment explanation
Indices: 65509039--65509113 Score: 55
Period size: 19 Copynumber: 4.2 Consensus size: 17
65509029 TCTTTTAAAT
65509039 TTTTGAATTTTCTATATA
1 TTTTGAATTTT-TATATA
*
65509057 TTTTTAAATTTTTATA-A
1 -TTTTGAATTTTTATATA
*
65509074 TTTTATAATTTTT-TCAATA
1 TTTT-GAATTTTTAT--ATA
**
65509093 TTTTGAGCTTTTATATA
1 TTTTGAATTTTTATATA
65509110 TTTT
1 TTTT
65509114 CTTGAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 5 0.11
17 15 0.33
18 10 0.22
19 16 0.35
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTGAATTTTTATATA
Found at i:65509066 original size:27 final size:26
Alignment explanation
Indices: 65509031--65509113 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
65509021 TTTTAATTTC
65509031 TTTTAAATTTTTGAATTTTCTATATAT
1 TTTTAAATTTTTGAATTTT-TATATAT
*
65509058 TTTTAAATTTTT-ATAATTTTATA-ATT
1 TTTTAAATTTTTGA-ATTTTTATATA-T
* **
65509084 TTTTCAATATTTTGAGCTTTTATATAT
1 TTTTAAAT-TTTTGAATTTTTATATAT
65509111 TTT
1 TTT
65509114 CTTGAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 13 0.28
27 31 0.66
28 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTAAATTTTTGAATTTTTATATAT
Found at i:65509087 original size:19 final size:17
Alignment explanation
Indices: 65509019--65509087 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 17
65509009 ATCATATACC
65509019 ATTTTTAATTTCTTT-TAA
1 ATTTTTAATTT-TTTAT-A
*
65509037 ATTTTTGAATTTTCTATA
1 ATTTTT-AATTTTTTATA
*
65509055 TATTTTTAAATTTTTATA
1 -ATTTTTAATTTTTTATA
65509073 ATTTTATAATTTTTT
1 ATTTT-TAATTTTTT
65509088 CAATATTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 26 0.60
19 12 0.28
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTTTAATTTTTTATA
Done.