Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 199 of 211
Found at i:58604302 original size:156 final size:156
Alignment explanation
Indices: 58604070--58604382 Score: 529
Period size: 156 Copynumber: 2.0 Consensus size: 156
58604060 CGATATCAAA
*
58604070 TGTAAGCTCAAATAAACATGTCATGGAAAATTGGTATGTAAATGATATATCAATTAATAGCATGA
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTAATAGCATGA
* * *
58604135 TACCATTGAGAATTCCAAAGTCTTAATCCTAAGTAAAAATATGAATCTTATATCCTAAGTCTAAG
66 TACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAATCTTATATACTAAGTCTAAG
58604200 TCTAATCCTAATTCTAGTTCTAAACC
131 TCTAATCCTAATTCTAGTTCTAAACC
* *
58604226 TGTAAGCTCAAATAAACATGTCATGGAATAGTGGTATGTAAATGATATATTAATTCAA-AGCATG
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATT-AATAGCATG
* *
58604290 ATACCATCGAGAATTCCAAAGTCTTAAGCTTAAGTAAAAATATTAATCTTATATACTAAGTCTAA
65 ATACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAATCTTATATACTAAGTCTAA
*
58604355 GTTTAATCCTAATTCTAGTTCTAAACC
130 GTCTAATCCTAATTCTAGTTCTAAACC
58604382 T
1 T
58604383 AGTTTTGTGT
Statistics
Matches: 147, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
156 145 0.99
157 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (156 bp):
TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTAATAGCATGA
TACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAATCTTATATACTAAGTCTAAG
TCTAATCCTAATTCTAGTTCTAAACC
Found at i:58604432 original size:12 final size:11
Alignment explanation
Indices: 58604392--58604453 Score: 61
Period size: 12 Copynumber: 5.3 Consensus size: 11
58604382 TAGTTTTGTG
58604392 TTTAATCCTAA
1 TTTAATCCTAA
* *
58604403 GTTGAATTCTAAA
1 -TTTAATCCT-AA
*
58604416 CTTAATCCTAGA
1 TTTAATCCTA-A
58604428 TTTAATCCTAA
1 TTTAATCCTAA
58604439 TTCTAATCCTAA
1 TT-TAATCCTAA
58604451 TTT
1 TTT
58604454 TATAAACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.12
12 34 0.83
13 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (11 bp):
TTTAATCCTAA
Found at i:58605122 original size:15 final size:16
Alignment explanation
Indices: 58605088--58605137 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
58605078 GTTTTTCTGC
58605088 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
58605104 TTTATAGCCAACC-AT
1 TTTATAGCCAACCAAT
58605119 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
58605135 TTT
1 TTT
58605138 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (16 bp):
TTTATAGCCAACCAAT
Found at i:58615455 original size:23 final size:23
Alignment explanation
Indices: 58615428--58615478 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
58615418 AAATTATTTG
* *
58615428 AGTAATATCCCGAAAATTACTAC
1 AGTAATACCCCAAAAATTACTAC
*
58615451 TGTAATACCCCAAAAATTACTAC
1 AGTAATACCCCAAAAATTACTAC
58615474 AGTAA
1 AGTAA
58615479 GAAATCAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (23 bp):
AGTAATACCCCAAAAATTACTAC
Found at i:58626514 original size:19 final size:18
Alignment explanation
Indices: 58626490--58626527 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
58626480 TGACAATGAA
58626490 TCATTTCTCAGTTT-CATTT
1 TCATTTC-CA-TTTCCATTT
58626509 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
58626527 T
1 T
58626528 GACAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.03, T:0.58
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:58627582 original size:14 final size:14
Alignment explanation
Indices: 58627563--58627593 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58627553 TGATTATTTT
*
58627563 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58627577 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58627591 TAA
1 TAA
58627594 AAATACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58629517 original size:11 final size:11
Alignment explanation
Indices: 58629496--58629525 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
58629486 GTTAGGCTTA
58629496 AAGGAGTTCACT
1 AAGG-GTTCACT
58629508 AAGGGTTCACT
1 AAGGGTTCACT
58629519 AAGGGTT
1 AAGGGTT
58629526 AATTATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (11 bp):
AAGGGTTCACT
Found at i:58632007 original size:12 final size:12
Alignment explanation
Indices: 58631990--58632065 Score: 50
Period size: 12 Copynumber: 6.1 Consensus size: 12
58631980 GTATATATAT
*
58631990 AAATAAGAATAA
1 AAATAACAATAA
58632002 AAATAACAATAAA
1 AAATAACAAT-AA
58632015 AAATAA-AA-AA
1 AAATAACAATAA
58632025 TAATATAACTAATAA
1 -AA-ATAAC-AATAA
* *
58632040 GAATAATAAATAA
1 AAATAA-CAATAA
58632053 AAA-AACAAATAA
1 AAATAAC-AATAA
58632065 A
1 A
58632066 TAAAATAGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 23 0.45
13 19 0.37
14 3 0.06
15 2 0.04
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (12 bp):
AAATAACAATAA
Found at i:58632018 original size:25 final size:25
Alignment explanation
Indices: 58631990--58632065 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
58631980 GTATATATAT
58631990 AAATAAGAATAAAAATAAC-AATAAA
1 AAATAA-AATAAAAATAACAAATAAA
*
58632015 AAATAAAA-AATAATATAACTAATAAGA
1 AAATAAAATAA-AA-ATAACAAATAA-A
58632042 ATAAT-AAATAAAAA-AACAAATAAA
1 A-AATAAAATAAAAATAACAAATAAA
58632066 TAAAATAGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
23 2 0.05
24 5 0.11
25 19 0.43
26 6 0.14
27 7 0.16
28 5 0.11
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (25 bp):
AAATAAAATAAAAATAACAAATAAA
Found at i:58639316 original size:14 final size:14
Alignment explanation
Indices: 58639297--58639327 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58639287 TGATTGTTTT
*
58639297 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58639311 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58639325 TAA
1 TAA
58639328 AAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58640198 original size:30 final size:30
Alignment explanation
Indices: 58640149--58640354 Score: 304
Period size: 30 Copynumber: 6.9 Consensus size: 30
58640139 AGGGTTGGCT
* * *
58640149 CATGGGCATATGGCCAGCCCGTGTGGCTCA
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
* * *
58640179 CACGAGCGTGTGACCAGCCCGTGTGGCTCG
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
*
58640209 CATAAGCATGTGGCCAGCCCGTGTGGCTCG
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
58640239 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
*
58640269 CATGAGCATGTGGCCAGCCCGTGTGGCTCA
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
* *
58640299 CATGAGCGTGTGGCCAGCCCATGTGGCTCG
1 CATGAGCATGTGGCCAGCCCGTGTGGCTCG
* *
58640329 CACGAGCGTGTGGCCAGCCCGTGTGG
1 CATGAGCATGTGGCCAGCCCGTGTGG
58640355 AAATGCCCAG
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 159 1.00
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.19
Consensus pattern (30 bp):
CATGAGCATGTGGCCAGCCCGTGTGGCTCG
Found at i:58640252 original size:17 final size:17
Alignment explanation
Indices: 58640230--58640282 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
58640220 GGCCAGCCCG
58640230 TGTGGCTCGCATGAGCA
1 TGTGGCTCGCATGAGCA
** *
58640247 TGTGG--C-CA-GCCCG
1 TGTGGCTCGCATGAGCA
58640260 TGTGGCTCGCATGAGCA
1 TGTGGCTCGCATGAGCA
58640277 TGTGGC
1 TGTGGC
58640283 CAGCCCGTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 2 0.08
16 2 0.08
17 13 0.50
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (17 bp):
TGTGGCTCGCATGAGCA
Found at i:58641065 original size:21 final size:23
Alignment explanation
Indices: 58641031--58641074 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
58641021 ATGAACATCT
*
58641031 CTAAACTCTTATAC-AAGTATTC
1 CTAAACTCATATACAAAGTATTC
58641053 CTAAA-TCATATACAAAGTATTC
1 CTAAACTCATATACAAAGTATTC
58641075 TAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (23 bp):
CTAAACTCATATACAAAGTATTC
Found at i:58641077 original size:21 final size:21
Alignment explanation
Indices: 58641030--58641077 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
58641020 TATGAACATC
*
58641030 TCTAAACTCTTATACAAGTAT
1 TCTAAACTCATATACAAGTAT
58641051 TCCTAAA-TCATATACAAAGTAT
1 T-CTAAACTCATATAC-AAGTAT
58641073 TCTAA
1 TCTAA
58641078 TAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (21 bp):
TCTAAACTCATATACAAGTAT
Found at i:58652717 original size:17 final size:16
Alignment explanation
Indices: 58652692--58652738 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
58652682 AAACCTAATT
*
58652692 TTTATTTTTATTTTTTC
1 TTTA-TTTTATTTTTAC
58652709 TTTACTTTT-TTTATTAC
1 TTTA-TTTTATTT-TTAC
58652726 TTTATTTTATTTT
1 TTTATTTTATTTT
58652739 ATTTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTATTTTTAC
Found at i:58652743 original size:26 final size:26
Alignment explanation
Indices: 58652690--58652743 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
58652680 GGAAACCTAA
*
58652690 TTTTTATTTTTATTTTTTCTTTACTT
1 TTTTTATTTTTATTTTATCTTTACTT
58652716 TTTTTATTACTTTATTTTAT-TTTA-TT
1 TTTTTATT--TTTATTTTATCTTTACTT
58652742 TT
1 TT
58652744 AATTATTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 4 0.16
28 9 0.36
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTATTTTTATTTTATCTTTACTT
Found at i:58660434 original size:20 final size:20
Alignment explanation
Indices: 58660409--58660482 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
58660399 CAAAAAAGGA
* * *
58660409 CACCGAAGTGTATACAGGGG
1 CACCGAAGTGCAAACAGAGG
58660429 CACCGAAGTGCAAACAGAGG
1 CACCGAAGTGCAAACAGAGG
*
58660449 CACCGAAGTGCAAATAGAGG
1 CACCGAAGTGCAAACAGAGG
*
58660469 CACCAAAGTGCAAA
1 CACCGAAGTGCAAA
58660483 TCCTGTACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.39, C:0.23, G:0.28, T:0.09
Consensus pattern (20 bp):
CACCGAAGTGCAAACAGAGG
Found at i:58665319 original size:27 final size:27
Alignment explanation
Indices: 58665268--58665355 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
58665258 AAAAAATAAT
58665268 CAAAATATTATAA-TTTTTTTATTTAC
1 CAAAATATTATAATTTTTTTTATTTAC
*
58665294 TAAAATATTATAATTTTTTTTATTTAC
1 CAAAATATTATAATTTTTTTTATTTAC
58665321 CAAAATATTATAATTTTTTTTATTTAC
1 CAAAATATTATAATTTTTTTTATTTAC
58665348 CAAAATAT
1 CAAAATAT
58665356 ACAAAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 12 0.20
27 47 0.80
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (27 bp):
CAAAATATTATAATTTTTTTTATTTAC
Found at i:58665445 original size:27 final size:27
Alignment explanation
Indices: 58665415--58665466 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
58665405 GGCCAATTAC
58665415 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGTG
* *
58665442 ATTGGCGGCATCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
58665467 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGTG
Found at i:58666052 original size:18 final size:18
Alignment explanation
Indices: 58666030--58666138 Score: 110
Period size: 18 Copynumber: 5.9 Consensus size: 18
58666020 AGTAATAACT
*
58666030 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
* * *
58666048 ATATTCTCATTTAATAACT
1 CTATTCTAATTTAATAA-A
*
58666067 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
* *
58666085 CTATTCTCATTTAATAACT
1 CTATTCTAATTTAATAA-A
* *
58666104 CTATTTTAATTTAATTAA
1 CTATTCTAATTTAATAAA
*
58666122 CTATTCTCATTTAATAA
1 CTATTCTAATTTAATAA
58666139 CTCTATTTAT
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
18 43 0.61
19 28 0.39
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.50
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:58666063 original size:37 final size:37
Alignment explanation
Indices: 58666022--58666146 Score: 232
Period size: 37 Copynumber: 3.4 Consensus size: 37
58666012 TCTAATTAAG
*
58666022 TAATAACTCTATTTTAATTTAATAAAATATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
58666059 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
58666096 TAATAACTCTATTTTAATTTAATTAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
58666133 TAATAACTCTATTT
1 TAATAACTCTATTT
58666147 ATTAAATGAG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 86 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.50
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:58666178 original size:18 final size:18
Alignment explanation
Indices: 58666144--58666179 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58666134 AATAACTCTA
*
58666144 TTTATTAAATGAGAATAG
1 TTTATTAAATGAAAATAG
*
58666162 TTTATTAAATTAAAATAG
1 TTTATTAAATGAAAATAG
58666180 AGTTATTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTATTAAATGAAAATAG
Found at i:58666641 original size:27 final size:27
Alignment explanation
Indices: 58666607--58666674 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
58666597 TTTTTTTGGT
*
58666607 ATATTTTGGTAAAT-AAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAG-GATA
58666634 ATATTTTGGTAAATAAAAAAAAGGATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
58666661 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
58666675 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 31 0.79
28 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAAGGATA
Found at i:58666928 original size:31 final size:30
Alignment explanation
Indices: 58666871--58666975 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
58666861 TTGATCTTTG
*
58666871 AACTATTCGAAAGTTACAAATTGGTCACTC
1 AACTATTAGAAAGTTACAAATTGGTCACTC
* * *
58666901 AACTATTAGTAAGCTTAC-AATTCGGTCATTT
1 AACTATTAGAAAG-TTACAAATT-GGTCACTC
* * * *
58666932 AA-TTTTAAAAAGTTATAAATTGGTCACTA
1 AACTATTAGAAAGTTACAAATTGGTCACTC
* *
58666961 AACTATAAGTAAGTT
1 AACTATTAGAAAGTT
58666976 TACACTTTGA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
29 11 0.19
30 34 0.60
31 12 0.21
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (30 bp):
AACTATTAGAAAGTTACAAATTGGTCACTC
Found at i:58669828 original size:15 final size:15
Alignment explanation
Indices: 58669810--58669849 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
58669800 GTGATTGAAG
*
58669810 TTTTTATTTTTGTTA
1 TTTTTATTTTTGTAA
*
58669825 TTTTTATGTTTGTAA
1 TTTTTATTTTTGTAA
*
58669840 TTTATATTTT
1 TTTTTATTTT
58669850 AATAGATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTTGTAA
Found at i:58673881 original size:8 final size:9
Alignment explanation
Indices: 58673858--58673885 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58673848 TCACTTGTTT
58673858 ATAAAAATA
1 ATAAAAATA
58673867 ATAAAAATA
1 ATAAAAATA
58673876 ATAAAAATA
1 ATAAAAATA
58673885 A
1 A
58673886 AGATAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAAATA
Found at i:58674660 original size:45 final size:45
Alignment explanation
Indices: 58674550--58674714 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 45
58674540 TAGCTTCAAA
* * * *
58674550 CTGCTCCACTGCGACTTCAGGGAGATAAGGTTGGTTTATTTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTG-TTATCTTTAAC
* * * * **
58674596 CTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTTGTCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
**
58674641 CTGCTCCACTGCAACTTCAGGGAAATAAGACTTG-TATCTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
*
58674685 CTGCCCCACTGCAACTTCAGGGAAATAAGG
1 CTGCTCCACTGCAACTTCAGGGAAATAAGG
58674715 GAAATAAGAC
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 34 0.34
45 36 0.36
46 31 0.31
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
Found at i:58674713 original size:89 final size:90
Alignment explanation
Indices: 58674550--58674714 Score: 235
Period size: 89 Copynumber: 1.8 Consensus size: 90
58674540 TAGCTTCAAA
* * * * *
58674550 CTGCTCCACTGCGACTTCAGGGAGATAAGGTTGGTTTATTTTTAACCTGCTCCACTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAAATAAGCTTGG-TTATCTTTAACCTGCCCCACTACAACTTCA
*
58674615 GGGAGATAAGGTTTGTTGTCTTCAGT
65 GGGAAATAAGGTTTGTTGTCTTCAGT
*
58674641 CTGCTCCACTGCAACTTCAGGGAAATAAGACTT-G-TATCTTTAACCTGCCCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAAATAAG-CTTGGTTATCTTTAACCTGCCCCACTACAACTTCA
58674704 GGGAAATAAGG
65 GGGAAATAAGG
58674715 GAAATAAGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 36 0.55
91 28 0.42
92 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (90 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGCTTGGTTATCTTTAACCTGCCCCACTACAACTTCAG
GGAAATAAGGTTTGTTGTCTTCAGT
Found at i:58674918 original size:50 final size:50
Alignment explanation
Indices: 58674859--58675121 Score: 260
Period size: 50 Copynumber: 5.3 Consensus size: 50
58674849 GATCCGATTA
* * * *
58674859 GTAGCTTCAATCTATTTAACTGTAATGTC-GGTGAAGCAAGATTCACTCTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGG-GAAGTAAGATTCGCTGTT
** ** * *
58674909 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAAGATTCGCTGTT
* ** * *
58674959 GTAGCTTCAATCTATTTAATTATAATGTCAGGGAAGTAAAATTCACTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAAGATTCGCTGTT
** * ** * *
58675009 GTAGCTTCAATCTATTCCACTGCACTACCAAGGAAGTAAGATTCGCTATT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAAGATTCGCTGTT
* ** *
58675059 GTAGCTTCAATCTGTTTAACTGCAATGTC-GAGGAAACAAGATTCGTTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAG-GGAAGTAAGATTCGCTGTT
58675109 GTAGCTTCAATCT
1 GTAGCTTCAATCT
58675122 GTTCCACTAC
Statistics
Matches: 167, Mismatches: 44, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
50 165 0.99
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (50 bp):
GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAAGATTCGCTGTT
Found at i:58675003 original size:100 final size:99
Alignment explanation
Indices: 58674859--58675155 Score: 405
Period size: 100 Copynumber: 3.0 Consensus size: 99
58674849 GATCCGATTA
*
58674859 GTAGCTTCAATCTATTTAACTGTAATGTCGGTGAAGCAAGATTCACTCTTGTAGCTTCAATCTAT
1 GTAGCTTCAATCTATTTAACTGTAATGTCGG-GAAGCAAGATTCACTGTTGTAGCTTCAATCTAT
* *
58674924 TCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTT
65 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTATT
* * * *
58674959 GTAGCTTCAATCTATTTAATTATAATGTCAGGGAAGTAAAATTCACTGTTGTAGCTTCAATCTAT
1 GTAGCTTCAATCTATTTAACTGTAATGTC-GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTAT
** *
58675024 TCCACTGCACTACCAAGGAAGTAAGATTCGCTATT
65 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTATT
* * * ** *
58675059 GTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAACAAGATTCGTTGTTGTAGCTTCAATCTGT
1 GTAGCTTCAATCTATTTAACTGTAATGTCG-GGAAGCAAGATTCACTGTTGTAGCTTCAATCTAT
* *
58675124 TCCACTACACCGCCAGGGAAGTAAAATTCGCT
65 TCCACTGCACCGCCAGGGAAGTAAGATTCGCT
58675156 GCCTTCAGCT
Statistics
Matches: 170, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 167 0.98
101 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (99 bp):
GTAGCTTCAATCTATTTAACTGTAATGTCGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATT
CCACTGCACCGCCAGGGAAGTAAGATTCGCTATT
Found at i:58675153 original size:50 final size:50
Alignment explanation
Indices: 58674859--58675156 Score: 258
Period size: 50 Copynumber: 6.0 Consensus size: 50
58674849 GATCCGATTA
** * * * * * *
58674859 GTAGCTTCAATCTATTTAACTGTAATGTC-GGTGAAGCAAGATTCACTCTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGG-GAAGTAAGATTCGCTGTT
* *
58674909 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGTTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
** * ** * * * *
58674959 GTAGCTTCAATCTATTTAATTATAATGTCAGGGAAGTAAAATTCACTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
* * *
58675009 GTAGCTTCAATCTATTCCACTGCACTACCAAGGAAGTAAGATTCGCTATT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
* ** * * ** *
58675059 GTAGCTTCAATCTGTTTAACTGCAATGTC-GAGGAAACAAGATTCGTTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAG-GGAAGTAAGATTCGCTGTT
* * * *
58675109 GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCGCTG
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTG
58675157 CCTTCAGCTT
Statistics
Matches: 191, Mismatches: 54, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
50 188 0.98
51 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (50 bp):
GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
Found at i:58675289 original size:136 final size:136
Alignment explanation
Indices: 58675036--58675328 Score: 421
Period size: 136 Copynumber: 2.2 Consensus size: 136
58675026 CACTGCACTA
* *
58675036 CCAAGGA-AGTAAGATTCGCTATTGTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAACAAGA
1 CCAAGGAGA-TAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTAGAGGAAACAAGA
* * * * * *
58675100 TTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCGCTGCCTTCAGC
65 TTCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTACCTTCAGC
*
58675165 TTTAATG
130 TTTAACG
* *
58675172 CC-AGTGAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAATTGCAATGTA-AGGGAAGCAAG
1 CCAAG-GAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTAGA-GGAAACAAG
* *
58675235 ATTTGCTATTGTAGCTTCAATCTATTCCACTACATCACCAAGGAAGTAAAATTCGCTACCTTCAG
64 ATTCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTACCTTCAG
58675300 CTTTAACG
129 CTTTAACG
58675308 CCAAGGAGATAAGATTCGCTG
1 CCAAGGAGATAAGATTCGCTG
58675329 CCTTCAGCTT
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
135 3 0.02
136 134 0.96
137 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (136 bp):
CCAAGGAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTAGAGGAAACAAGAT
TCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTACCTTCAGCT
TTAACG
Found at i:58675325 original size:36 final size:36
Alignment explanation
Indices: 58675272--58675341 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
58675262 CACTACATCA
58675272 CCAAGGAAGTAAAATTCGCTACCTTCAGCTTTAACG
1 CCAAGGAAGTAAAATTCGCTACCTTCAGCTTTAACG
* *
58675308 CCAAGG-AGATAAGATTCGCTGCCTTCAGCTTTAA
1 CCAAGGAAG-TAAAATTCGCTACCTTCAGCTTTAA
58675342 TCTGCTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (36 bp):
CCAAGGAAGTAAAATTCGCTACCTTCAGCTTTAACG
Found at i:58675453 original size:51 final size:51
Alignment explanation
Indices: 58675308--58675454 Score: 154
Period size: 51 Copynumber: 2.9 Consensus size: 51
58675298 AGCTTTAACG
* * * * * *
58675308 CCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTTCGCTGCAACG
1 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACTGCAACA
* * * *
58675359 CC-AAGAAAATAGGATTCGCTACCTTT-AGATTTAATCTGTTCCACTGCAACA
1 CCAAAG-AGATAGGATTCGCT-GCTTTCAGCTTTAATCTGCTCCACTGCAACA
**
58675410 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCCACTCCACT
1 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACT
58675455 TCAGCTTTAA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
50 6 0.08
51 64 0.84
52 6 0.08
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (51 bp):
CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACTGCAACA
Found at i:58675459 original size:21 final size:21
Alignment explanation
Indices: 58675433--58675475 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58675423 ATTCGCTGCT
58675433 TTCAGCTTTAATCCACTCCAC
1 TTCAGCTTTAATCCACTCCAC
* *
58675454 TTCAGCTTTAATCTATTCCAC
1 TTCAGCTTTAATCCACTCCAC
58675475 T
1 T
58675476 GCAACATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.40
Consensus pattern (21 bp):
TTCAGCTTTAATCCACTCCAC
Found at i:58675549 original size:123 final size:123
Alignment explanation
Indices: 58675330--58675555 Score: 283
Period size: 123 Copynumber: 1.8 Consensus size: 123
58675320 GATTCGCTGC
* * * * * *
58675330 CTTCAGCTTTAATCTGCTTCGCTGCAACGCCAAGAAAATAGGATTCGCTACCTTTAGATTTAATC
1 CTTCAGCTTTAATCTGATTCACTGCAACACCAAGAAAACAAGATTCACTACCTTTAGATTTAATC
* * *
58675395 TGTTCCACTGCAACACCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCCACTCCA
66 TGTTCCACTACAACACCAAAGAAATAAGATTCGCTGCTTTCAGCTTTAATCCACTCCA
* * *
58675453 CTTCAGCTTTAATCT-ATTCCACTGCAACATCAAGGAAACAAGATTCACTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTGATT-CACTGCAACACCAAGAAAACAAGATTCACTACCTTTAGATTTAAT
* ** **
58675517 CTGTTCCGCTACAACGTCAGGGAAATAAGATTCGCTGCT
65 CTGTTCCACTACAACACCAAAGAAATAAGATTCGCTGCT
58675556 CTTTTCAAAC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 2 0.02
123 83 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTGATTCACTGCAACACCAAGAAAACAAGATTCACTACCTTTAGATTTAATC
TGTTCCACTACAACACCAAAGAAATAAGATTCGCTGCTTTCAGCTTTAATCCACTCCA
Found at i:58682184 original size:12 final size:12
Alignment explanation
Indices: 58682167--58682201 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58682157 ATATGCTTCT
58682167 TTCTTCTTAGAC
1 TTCTTCTTAGAC
*
58682179 TTCTTCTTGGAC
1 TTCTTCTTAGAC
*
58682191 TTCTTCATAGA
1 TTCTTCTTAGA
58682202 ACTCCATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (12 bp):
TTCTTCTTAGAC
Found at i:58687864 original size:30 final size:32
Alignment explanation
Indices: 58687830--58687897 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
58687820 GATATAATAG
* * *
58687830 AAAGTAT-ATATAAGTATGTATATATT-TACA
1 AAAGTATAAAATAAGTACGTATATATTATAAA
*
58687860 AAAGT-TAAAATATGTACGTATATATTATAAA
1 AAAGTATAAAATAAGTACGTATATATTATAAA
58687891 AAAGTAT
1 AAAGTAT
58687898 GTGTGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 21 0.68
31 8 0.26
32 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (32 bp):
AAAGTATAAAATAAGTACGTATATATTATAAA
Found at i:58694731 original size:22 final size:21
Alignment explanation
Indices: 58694696--58694737 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
58694686 TAAAATAGGA
*
58694696 AAATAAAAATAAATAATATAAC
1 AAATAAAAACAAATAA-ATAAC
*
58694718 AAATAATAACAAATAAATAA
1 AAATAAAAACAAATAAATAA
58694738 AATAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
AAATAAAAACAAATAAATAAC
Found at i:58694751 original size:26 final size:24
Alignment explanation
Indices: 58694680--58694758 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
58694670 GTATAAGAAT
*
58694680 AATAAATAAAATAG-GAAAATAAA
1 AATAAATAAAATAGAAAAAATAAA
*
58694703 AATAAATAATATA-ACAAATAATAACA
1 AATAAATAAAATAGA-AAA-AATAA-A
58694729 AATAAATAAAATAGAATAAAAT-AA
1 AATAAATAAAATAGAA-AAAATAAA
58694753 AATAAA
1 AATAAA
58694759 AGGGGTAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 12 0.26
24 9 0.19
25 6 0.13
26 17 0.36
27 3 0.06
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (24 bp):
AATAAATAAAATAGAAAAAATAAA
Found at i:58706538 original size:17 final size:16
Alignment explanation
Indices: 58706516--58706549 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58706506 ATTATATAAT
58706516 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
58706533 TAATGATATTATATTA
1 TAATGATATTAAATTA
58706549 T
1 T
58706550 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:58708011 original size:6 final size:6
Alignment explanation
Indices: 58707994--58708043 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
58707984 GTGTGTTGAA
* ** *
58707994 TACTGT TCCTGT TACTGT TACTGT TACTAC TACCGT TACTGAT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT
58708043 T
1 T
58708044 TAGGTCCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:58714045 original size:17 final size:16
Alignment explanation
Indices: 58714023--58714056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58714013 ATTATATAAT
58714023 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
58714040 TAATGATATTATATTA
1 TAATGATATTAAATTA
58714056 T
1 T
58714057 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:58714476 original size:7 final size:7
Alignment explanation
Indices: 58714464--58714505 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
58714454 AAAACTTGAA
58714464 AGGGTTT
1 AGGGTTT
58714471 AGGGTTT
1 AGGGTTT
58714478 AGGGTTT
1 AGGGTTT
*
58714485 AAGGTTT
1 AGGGTTT
58714492 A-GGTTT
1 AGGGTTT
*
58714498 AAGGTTT
1 AGGGTTT
58714505 A
1 A
58714506 ATTGGTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:58714498 original size:13 final size:14
Alignment explanation
Indices: 58714464--58714505 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
58714454 AAAACTTGAA
*
58714464 AGGGTTTAGGGTTT
1 AGGGTTTAAGGTTT
58714478 AGGGTTTAAGGTTT
1 AGGGTTTAAGGTTT
58714492 A-GGTTTAAGGTTT
1 AGGGTTTAAGGTTT
58714505 A
1 A
58714506 ATTGGTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
AGGGTTTAAGGTTT
Found at i:58717287 original size:11 final size:11
Alignment explanation
Indices: 58717271--58717313 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
58717261 CCATTTTCTA
58717271 AATAAAATACT
1 AATAAAATACT
58717282 AAT-AAATATCT
1 AATAAAATA-CT
*
58717293 AAGTAAAATATT
1 AA-TAAAATACT
58717305 AATAAAATA
1 AATAAAATA
58717314 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 14 0.50
12 4 0.14
13 5 0.18
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATACT
Found at i:58717299 original size:23 final size:23
Alignment explanation
Indices: 58717267--58717310 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
58717257 ACTACCATTT
58717267 TCTAAATAAAATACTAATAAATA
1 TCTAAATAAAATACTAATAAATA
* *
58717290 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATACTAATAAA
58717311 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATACTAATAAATA
Found at i:58720970 original size:21 final size:21
Alignment explanation
Indices: 58720944--58720983 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58720934 ATAATTAAGT
*
58720944 ATATTTGATGGTTAAAATTTG
1 ATATTTGAAGGTTAAAATTTG
*
58720965 ATATTTGAAGTTTAAAATT
1 ATATTTGAAGGTTAAAATT
58720984 GTATAGTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
ATATTTGAAGGTTAAAATTTG
Found at i:58722955 original size:17 final size:17
Alignment explanation
Indices: 58722933--58722980 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
58722923 AAAAAGTATT
58722933 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
***
58722950 TTAAAAATAAAATAAAA
1 TTAAAAATATTTTAAAA
58722967 -TAAAAATATATTTA
1 TTAAAAATAT-TTTA
58722981 TTATATTCGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:58723221 original size:18 final size:18
Alignment explanation
Indices: 58723179--58723221 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58723169 GAAAATACAC
* *
58723179 ATAAAAAAATAAAGATTT
1 ATAAAAAAATAAAAAATT
58723197 A-ATAAAAAATAAAAAATT
1 ATA-AAAAAATAAAAAATT
58723215 ATAAAAA
1 ATAAAAA
58723222 TTTAGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
ATAAAAAAATAAAAAATT
Found at i:58725838 original size:152 final size:152
Alignment explanation
Indices: 58725646--58725950 Score: 610
Period size: 152 Copynumber: 2.0 Consensus size: 152
58725636 TTAGGGGCAA
58725646 AATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAATT
1 AATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAATT
58725711 CTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAAT
66 CTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAAT
58725776 TTTAAAAACAAGTGTTTTTGGG
131 TTTAAAAACAAGTGTTTTTGGG
58725798 AATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAATT
1 AATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAATT
58725863 CTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAAT
66 CTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAAT
58725928 TTTAAAAACAAGTGTTTTTGGG
131 TTTAAAAACAAGTGTTTTTGGG
58725950 A
1 A
58725951 CCAAAGTGAA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (152 bp):
AATAGTCATTTCACATCTCATATCCGAACACACACATAACAAAAATTTAGAACTACATTTTAATT
CTAAAATCCTTTTAGACACATTGTTGAAAGAATCAGATTAATCCGATCAACAATTCTCCTTTAAT
TTTAAAAACAAGTGTTTTTGGG
Found at i:58729884 original size:37 final size:38
Alignment explanation
Indices: 58729825--58729937 Score: 113
Period size: 39 Copynumber: 3.0 Consensus size: 38
58729815 AGTAAATAGT
* * * * *
58729825 AATCAGTAACGGTAACAGTATTCGGCACGC-AGTGTCA
1 AATCGGTAACAGTAACAATATTCGGCACACAAGTGCCA
* *
58729862 AATCGGTAACAGTAACAATATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAATATTCGGCACAC-AAGTGCCA
* *
58729901 AATCGGTAACAGTAA-AAGTAGTCGGCACATAAGTGCC
1 AATCGGTAACAGTAACAA-TATTCGGCACACAAGTGCC
58729938 TGATCAGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
37 25 0.40
38 9 0.14
39 29 0.46
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (38 bp):
AATCGGTAACAGTAACAATATTCGGCACACAAGTGCCA
Found at i:58738821 original size:18 final size:19
Alignment explanation
Indices: 58738800--58738839 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
58738790 TAAAATTATA
58738800 AAAAAACAT-AAAAAATTT
1 AAAAAACATAAAAAAATTT
**
58738818 AAAAATTATAAAAAAATTT
1 AAAAAACATAAAAAAATTT
58738837 AAA
1 AAA
58738840 TTTATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAACATAAAAAAATTT
Found at i:58742581 original size:13 final size:13
Alignment explanation
Indices: 58742563--58742626 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
58742553 AAATTTGAAT
58742563 TATTTAGTGATAA
1 TATTTAGTGATAA
58742576 TATTTA---A-AA
1 TATTTAGTGATAA
*
58742585 TTATTTAGTGAAAA
1 -TATTTAGTGATAA
58742599 TATTTAGT-AT--
1 TATTTAGTGATAA
58742609 TATTTAGTGATAA
1 TATTTAGTGATAA
58742622 TATTT
1 TATTT
58742627 TGCCTTTCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 16
0.71 0.02 0.27
Matches are distributed among these distances:
9 2 0.05
10 15 0.36
11 2 0.05
12 1 0.02
13 20 0.48
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:58742586 original size:23 final size:23
Alignment explanation
Indices: 58742560--58742626 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
58742550 TTAAAATTTG
58742560 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
* *
58742583 AATTATTTAGTGAAAATATTTAG
1 AATTATTTAGTGATAATATTTAA
*
58742606 TATTATTTAGTGATAATATTT
1 AATTATTTAGTGATAATATTT
58742627 TGCCTTTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.49
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAA
Found at i:58745532 original size:13 final size:13
Alignment explanation
Indices: 58745514--58745556 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
58745504 AAATTTGAAT
*
58745514 TATTTAGTAATAA
1 TATTTAGTGATAA
58745527 TATTTAG-GAT--
1 TATTTAGTGATAA
58745537 TATTTAGTGATAA
1 TATTTAGTGATAA
58745550 TATTTAG
1 TATTTAG
58745557 AAAAAACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:58745538 original size:23 final size:23
Alignment explanation
Indices: 58745512--58745556 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
58745502 TAAAATTTGA
58745512 ATTATTTAGTAATAATATTTAGG
1 ATTATTTAGTAATAATATTTAGG
*
58745535 ATTATTTAGTGATAATATTTAG
1 ATTATTTAGTAATAATATTTAG
58745557 AAAAAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGG
Found at i:58751470 original size:29 final size:30
Alignment explanation
Indices: 58751414--58751526 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 30
58751404 TAAATACTTG
* *
58751414 AATTTAACTCTCTAATATTTACATATTTTATC
1 AATTTAA-TCT-TAATATTTAAAAATTTTATC
*
58751446 AATTTAATCTTAA-ATTTAAAAA-TTTAAC
1 AATTTAATCTTAATATTTAAAAATTTTATC
* *
58751474 CATATTAGTCCTTAATATTTATAAAATTTT-TC
1 AAT-TTAAT-CTTAATATTTA-AAAATTTTATC
* *
58751506 -ATTTAATTTTAAT-TCTAAAAA
1 AATTTAATCTTAATATTTAAAAA
58751527 AATAAAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
27 4 0.06
28 10 0.15
29 16 0.24
30 12 0.18
31 10 0.15
32 12 0.18
33 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.48
Consensus pattern (30 bp):
AATTTAATCTTAATATTTAAAAATTTTATC
Found at i:58752460 original size:48 final size:49
Alignment explanation
Indices: 58752365--58752464 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 49
58752355 CAAACTTTAT
* * * *
58752365 AAACAAGGGCTAAAATTATTGAATTATTGATTTTAGGATCAAATTGATA
1 AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
* *
58752414 AAACGAGGGCTAAAATTATTGAATT-TTTAGTTCAAGACCAAATTGATA
1 AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
58752462 AAA
1 AAA
58752465 TGTGTAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (49 bp):
AAACAAGGGCTAAAATTATTGAATTATTGAGTTCAAGACCAAATTGATA
Found at i:58753497 original size:3 final size:3
Alignment explanation
Indices: 58753491--58753535 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
58753481 CAACAACAGC
58753491 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG ACA- AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG
58753536 CGCCAAAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58764428 original size:8 final size:8
Alignment explanation
Indices: 58764415--58764483 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
58764405 TTTTAGTTCT
58764415 TTTATATA
1 TTTATATA
58764423 TTTATATA
1 TTTATATA
58764431 TTTATATAAA
1 TTTATAT--A
*
58764441 TTTATAAA
1 TTTATATA
* *
58764449 TTTTTTATTT
1 -TTTATA-TA
*
58764459 TTTATAAA
1 TTTATATA
*
58764467 TTTATGTA
1 TTTATATA
58764475 -TTATATA
1 TTTATATA
58764482 TT
1 TT
58764484 ACAATTTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
7 6 0.13
8 23 0.50
9 10 0.22
10 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:58764443 original size:18 final size:18
Alignment explanation
Indices: 58764417--58764451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58764407 TTAGTTCTTT
* *
58764417 TATATATTTATATATTTA
1 TATAAATTTATAAATTTA
58764435 TATAAATTTATAAATTT
1 TATAAATTTATAAATTT
58764452 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAAATTTATAAATTTA
Found at i:58764445 original size:26 final size:26
Alignment explanation
Indices: 58764415--58764483 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
58764405 TTTTAGTTCT
58764415 TTTATATATTTATATATTTATATAAA
1 TTTATATATTTATATATTTATATAAA
* * *
58764441 TTTATAAATTT-TTTATTTTTTATAAA
1 TTTATATATTTATATA-TTTATATAAA
*
58764467 TTTATGTA-TTATATATT
1 TTTATATATTTATATATT
58764484 ACAATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (26 bp):
TTTATATATTTATATATTTATATAAA
Found at i:58764579 original size:21 final size:21
Alignment explanation
Indices: 58764541--58764585 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58764531 TATTTTATAA
*
58764541 AATAAAAAAATATATAAAACG
1 AATAAAAAAATACATAAAACG
* *
58764562 AATAAAAAAATACCTAAAATG
1 AATAAAAAAATACATAAAACG
58764583 AAT
1 AAT
58764586 CTAGATAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (21 bp):
AATAAAAAAATACATAAAACG
Found at i:58764818 original size:22 final size:22
Alignment explanation
Indices: 58764793--58764836 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58764783 AGCCAATTTT
*
58764793 TTAACAGTG-CAAACTAATAGTG
1 TTAAC-GTGACAAACTAACAGTG
*
58764815 TTAACGTGACAAATTAACAGTG
1 TTAACGTGACAAACTAACAGTG
58764837 CAAACTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
TTAACGTGACAAACTAACAGTG
Found at i:58768288 original size:23 final size:22
Alignment explanation
Indices: 58768244--58768304 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
58768234 TTTTTGGCAT
* *
58768244 TTATGTGCAA-CATTCTGGTAC
1 TTATGTGCAATCATTCCGATAC
58768265 TTATGTGCAATTCATTCCGATAC
1 TTATGTGCAA-TCATTCCGATAC
58768288 TT-TAGTGCAAATCATTC
1 TTAT-GTGC-AATCATTC
58768305 TGGCACTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.29
22 1 0.03
23 21 0.62
24 2 0.06
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (22 bp):
TTATGTGCAATCATTCCGATAC
Found at i:58771459 original size:21 final size:23
Alignment explanation
Indices: 58771429--58771472 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
58771419 AAAATTTTAA
58771429 TAAATGAAAAAT-AT-TAAATAT
1 TAAATGAAAAATGATATAAATAT
*
58771450 TAAATTAAAAATGATATAAATAT
1 TAAATGAAAAATGATATAAATAT
58771473 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
TAAATGAAAAATGATATAAATAT
Found at i:58772139 original size:83 final size:83
Alignment explanation
Indices: 58772041--58772208 Score: 300
Period size: 83 Copynumber: 2.0 Consensus size: 83
58772031 TGTGGATAGT
* *
58772041 GATACATACAGTCTATTTCTCTAATTCGTCATTTTCATATATTCACATCATCGATCCAAACGCAA
1 GATACATACAATCTATTTCTCTAATTCATCATTTTCATATATTCACATCATCGATCCAAACGCAA
58772106 ACCGCTCAAGGATATATC
66 ACCGCTCAAGGATATATC
*
58772124 GATACATACAATCTATTTCTCTAATTCATCATTTTCATATATTCACATCATTGATCCAAACGCAA
1 GATACATACAATCTATTTCTCTAATTCATCATTTTCATATATTCACATCATCGATCCAAACGCAA
*
58772189 ACCGCTTAAGGATATATC
66 ACCGCTCAAGGATATATC
58772207 GA
1 GA
58772209 GCTACTAGAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (83 bp):
GATACATACAATCTATTTCTCTAATTCATCATTTTCATATATTCACATCATCGATCCAAACGCAA
ACCGCTCAAGGATATATC
Found at i:58777593 original size:20 final size:21
Alignment explanation
Indices: 58777561--58777612 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
58777551 AGATAGAACA
58777561 TTTAAATATTTA-TGTGATAT
1 TTTAAATATTTATTGTGATAT
*
58777581 TATTAAA-ATTTATTGTTATAT
1 T-TTAAATATTTATTGTGATAT
*
58777602 TTTAATTATTT
1 TTTAAATATTT
58777613 TAGGAGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTAAATATTTATTGTGATAT
Found at i:58780487 original size:50 final size:48
Alignment explanation
Indices: 58780433--58780615 Score: 228
Period size: 50 Copynumber: 3.8 Consensus size: 48
58780423 GGCAGTGAGT
**
58780433 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGTCCGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-AC-GTGAGATGA
*
58780483 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAGAGAAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-AC-G-T-GAGATGA
* *
58780535 GT-C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACGTGAGATGA
* *
58780580 GTGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
58780616 ACACCGATAT
Statistics
Matches: 120, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
45 7 0.06
46 2 0.02
47 30 0.25
48 1 0.01
50 72 0.60
51 2 0.02
52 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.23
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACGTGAGATGA
Found at i:58784345 original size:13 final size:13
Alignment explanation
Indices: 58784319--58784364 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 13
58784309 GCTTTGAACC
58784319 TTCTTTTC-TTCT
1 TTCTTTTCTTTCT
58784331 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
58784344 TTCTTTTTCTTTCT
1 TTC-TTTTCTTTCT
*
58784358 TCCTTTT
1 TTCTTTT
58784365 ACTATATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 8 0.26
13 11 0.35
14 12 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Found at i:58788233 original size:14 final size:14
Alignment explanation
Indices: 58788214--58788240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58788204 TAATAATGTA
58788214 ACAATAACAATAAT
1 ACAATAACAATAAT
58788228 ACAATAACAATAA
1 ACAATAACAATAA
58788241 ACATAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (14 bp):
ACAATAACAATAAT
Found at i:58793597 original size:3 final size:3
Alignment explanation
Indices: 58793543--58793584 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
58793533 TTTTGCTCCA
58793543 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58793585 ACTCCATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58795365 original size:37 final size:36
Alignment explanation
Indices: 58795298--58795379 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
58795288 TGTATTTACG
* *
58795298 GTTGGGTTAGCTCTTATAAGCATTCAGCGTGTTATCA
1 GTTGGATTAGCTCTTATAAGCATTCAGCGTGCT-TCA
* * **
58795335 GTTGGATTAGCTCTTATGAGCGTTTGGCGTGCTTCA
1 GTTGGATTAGCTCTTATAAGCATTCAGCGTGCTTCA
*
58795371 ATTGGATTA
1 GTTGGATTA
58795380 CTCGTGTACT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (36 bp):
GTTGGATTAGCTCTTATAAGCATTCAGCGTGCTTCA
Found at i:58811665 original size:90 final size:90
Alignment explanation
Indices: 58811508--58811688 Score: 258
Period size: 91 Copynumber: 2.0 Consensus size: 90
58811498 GCTGACTGTA
* * * *
58811508 AAGAAAAAGAACAAAGAAGGATAGAAGCAAGTAACTTAGAGTAAGATGAATAAATATCTAGTTAT
1 AAGAAAAAGAACAAAGAAGGATAAAAGCAAGGAACATAGAGTAAGATGAATAAATATCTAG-CAT
58811573 CCTCTAGAGAA-AAATTAGAAATTCT
65 CCTCTAGAGAATAAATTAGAAATTCT
* * *
58811598 AAGAAAAAGCACAAAGAACGTATAAAAGCAAGGAACATAGAGTGAAGATGAATACATATCTA-CA
1 AAGAAAAAGAACAAAGAA-GGATAAAAGCAAGGAACATAGAGT-AAGATGAATAAATATCTAGCA
58811662 TCCTCTAGAGAATAAATTAGAAATTCT
64 TCCTCTAGAGAATAAATTAGAAATTCT
58811689 TAGTCAATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
90 30 0.37
91 34 0.42
92 17 0.21
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (90 bp):
AAGAAAAAGAACAAAGAAGGATAAAAGCAAGGAACATAGAGTAAGATGAATAAATATCTAGCATC
CTCTAGAGAATAAATTAGAAATTCT
Found at i:58820624 original size:13 final size:13
Alignment explanation
Indices: 58820606--58820635 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58820596 AAAATAAAAA
58820606 ATATATATTTATT
1 ATATATATTTATT
58820619 ATATATATTTATT
1 ATATATATTTATT
58820632 ATAT
1 ATAT
58820636 GAATACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATATTTATT
Found at i:58828970 original size:6 final size:6
Alignment explanation
Indices: 58828959--58829012 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
58828949 TATAAGCAAC
58828959 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
1 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
58829007 CATGGG
1 CATGGG
58829013 ATTTTTGTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (6 bp):
CATGGG
Found at i:58829540 original size:17 final size:16
Alignment explanation
Indices: 58829518--58829550 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
58829508 AATTATAAAA
58829518 AAATTATTAAATTATTT
1 AAATTATT-AATTATTT
58829535 AAATTATTAATTATTT
1 AAATTATTAATTATTT
58829551 TTAGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATTATTAATTATTT
Found at i:58830659 original size:15 final size:15
Alignment explanation
Indices: 58830639--58830669 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58830629 ACCCAAAATA
58830639 TCAATCCTTCAACCT
1 TCAATCCTTCAACCT
*
58830654 TCAATCGTTCAACCT
1 TCAATCCTTCAACCT
58830669 T
1 T
58830670 ACCTTTACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.35, G:0.03, T:0.35
Consensus pattern (15 bp):
TCAATCCTTCAACCT
Found at i:58832743 original size:41 final size:41
Alignment explanation
Indices: 58832686--58832900 Score: 225
Period size: 41 Copynumber: 4.9 Consensus size: 41
58832676 GAGTTTTTAG
*
58832686 GGCCTTTAGCGTCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
58832727 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGTT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC---T
* *
58832771 GGCTAATGCTCTGGGCTTTAGCGGCGTTTTTGATGTAGCGCCGCTAATGCTCT
1 -G-----G--C----CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
58832824 GGCCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* *
58832865 GGCCTTTAGCGGCG-TTTTGAAAAAAGCACCGCTAAT
1 GGCCTTTAGCGGCGTTTTTG-AAGAAGCGCCGCTAAT
58832901 AATAATAAAA
Statistics
Matches: 149, Mismatches: 9, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
40 5 0.03
41 101 0.68
44 1 0.01
45 2 0.01
47 1 0.01
50 1 0.01
52 2 0.01
53 1 0.01
56 35 0.23
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:58832802 original size:56 final size:56
Alignment explanation
Indices: 58832716--58832822 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 56
58832706 AAGAAGCGCC
58832716 GCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGTTG
1 GCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGTTG
* * *
58832772 GCTAATGCTCTGGGCTTTAGCGGCGTTTTTGATGTAGCGCCGCTAATGCTC
1 GCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
58832823 TGGCCTTTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (56 bp):
GCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGTTG
Found at i:58834044 original size:14 final size:14
Alignment explanation
Indices: 58834025--58834052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58834015 TGGGATTTAA
58834025 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
58834039 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
58834053 ATGTTAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (14 bp):
GGTTTAGGGGTTAG
Found at i:58834650 original size:15 final size:15
Alignment explanation
Indices: 58834630--58834659 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58834620 ACTTTTTATT
58834630 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
58834645 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
58834660 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAATTTATAAAAAA
Found at i:58834924 original size:93 final size:93
Alignment explanation
Indices: 58834757--58834931 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 93
58834747 TAAGCAATAG
* * * *
58834757 AACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGCATAACAAAACGG
1 AACGCCGCAAAAAATAAAACAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAACAAAACGA
*
58834822 TGTCATTTTGTTCAAAATGAAATAGCGAA
66 TGT-ATTTTGTTAAAAATGAAATAGCGAA
**
58834851 AACGCCGC-AAAAATAAAACAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGTAAAACAG
1 AACGCCGCAAAAAATAAAACAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAACAAAAC-G
58834915 CATGT-TTTTGTTAAAAA
65 -ATGTATTTTGTTAAAAA
58834932 AATTTTGCGG
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 60 0.83
94 9 0.12
95 3 0.04
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.26
Consensus pattern (93 bp):
AACGCCGCAAAAAATAAAACAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAACAAAACGA
TGTATTTTGTTAAAAATGAAATAGCGAA
Found at i:58837782 original size:23 final size:23
Alignment explanation
Indices: 58837752--58838099 Score: 247
Period size: 23 Copynumber: 15.3 Consensus size: 23
58837742 GAAATTTGAT
58837752 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
58837775 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
*
58837797 AGTTGCTAG-AAATTG-AGATGTTTT
1 AG-TGCT-GCAAATTGAAG-TGTTTA
* * * *
58837821 ATTGCTG-TAATTGAGGTGTATA
1 AGTGCTGCAAATTGAAGTGTTTA
* * **
58837843 AATGTTGTTAATTGATA-TG-TTA
1 AGTGCTGCAAATTGA-AGTGTTTA
* *
58837865 AGTGCTTCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
58837888 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
58837911 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
58837933 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
58837957 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
58837979 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
58838002 AATGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
58838025 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
58838047 AGTTGTTGCAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* *
58838071 A-TCGCTGTAAATTGAAGTGTTAA
1 AGT-GCTGCAAATTGAAGTGTTTA
58838094 AGTGCT
1 AGTGCT
58838100 ACTTTCCATT
Statistics
Matches: 261, Mismatches: 40, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.00
22 56 0.21
23 197 0.75
24 7 0.03
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:58837917 original size:136 final size:137
Alignment explanation
Indices: 58837754--58838062 Score: 514
Period size: 136 Copynumber: 2.3 Consensus size: 137
58837744 AATTTGATAG
*
58837754 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATGTT
1 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTAGAAATTGAGATGTT
* * * *
58837819 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG-TTAAGTGCTTCAAATTTAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCTGCAAATTGAAGT
58837883 GTTTAAA
131 GTTTAAA
* *
58837890 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTAGAAATTGAGATGTT
58837955 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCTGCAAATTGAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCTGCAAATTGAAGT
*
58838020 GTTTAAG
131 GTTTAAA
*
58838027 TGCTGCAAATTGAAGTGTTT-AGTTGTTGCAAATTGA
1 TGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
58838063 GATGTTTTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
136 106 0.66
137 55 0.34
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (137 bp):
TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTAGAAATTGAGATGTT
TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCTGCAAATTGAAGT
GTTTAAA
Found at i:58838008 original size:68 final size:67
Alignment explanation
Indices: 58837806--58838016 Score: 221
Period size: 68 Copynumber: 3.1 Consensus size: 67
58837796 TAGTTGCTAG
*
58837806 AAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG-TTAAGTGC
1 AAATTGAGATGTTTTA-TGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGC
*
58837870 TTC
65 TGC
* * * * * * ** * **
58837873 AAATTTA-AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTATTTAGT
1 AAATTGAGA-TGTTT-TATGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAA
*
58837936 TGCTGG
62 TGCTGC
58837942 AAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGC
1 AAATTGAGATGTTTTAT-GCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGC
58838007 TGC
65 TGC
58838010 AAATTGA
1 AAATTGA
58838017 AGTGTTTAAG
Statistics
Matches: 111, Mismatches: 25, Indels: 15
0.74 0.17 0.10
Matches are distributed among these distances:
66 1 0.01
67 18 0.16
68 67 0.60
69 24 0.22
70 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (67 bp):
AAATTGAGATGTTTTATGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAATGCT
GC
Found at i:58838023 original size:114 final size:114
Alignment explanation
Indices: 58837882--58838094 Score: 365
Period size: 114 Copynumber: 1.9 Consensus size: 114
58837872 CAAATTTAAG
* *
58837882 TGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCAAATT
*
58837947 GAGATGTTTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA
66 GAGATGTTTTATCGCTGTAAATTGAAGTGT-TAAATGTTGTTAATTGATA
* *
58837996 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGCAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCAAATT
58838061 GAGATGTTTTATCGCTGTAAATTGAAGTGTTAAA
66 GAGATGTTTTATCGCTGTAAATTGAAGTGTTAAA
58838095 GTGCTACTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 83 0.89
115 10 0.11
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (114 bp):
TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGCAAATT
GAGATGTTTTATCGCTGTAAATTGAAGTGTTAAATGTTGTTAATTGATA
Found at i:58839066 original size:43 final size:43
Alignment explanation
Indices: 58839005--58839183 Score: 254
Period size: 43 Copynumber: 4.2 Consensus size: 43
58838995 TTTTTACAAT
58839005 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGCC
* * * *
58839048 GCTAAAGGTCTTAGTCTTTAGTGGCGTTTGTGTGAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGCC
* * *
58839091 GTTAAAGGT-TCTGGTCTTTAGCAGCGTTTGT-GAAAAAAGCGCC
1 GCTAAAGGTCT-TGGTCTTTAGCGGCGTTTGTGGGAAAAA-CGCC
*
58839134 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGCC
58839177 GCTAAAG
1 GCTAAAG
58839184 CTAGCGACAC
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
42 5 0.04
43 106 0.91
44 6 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAACGCC
Found at i:58843106 original size:7 final size:7
Alignment explanation
Indices: 58843094--58843123 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
58843084 TGGATGTTTC
58843094 TAATCTA
1 TAATCTA
58843101 TAATCTA
1 TAATCTA
58843108 TAATCTA
1 TAATCTA
*
58843115 TAATATA
1 TAATCTA
58843122 TA
1 TA
58843124 TTGCCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATCTA
Found at i:58843385 original size:18 final size:18
Alignment explanation
Indices: 58843341--58843389 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
58843331 ATTTTAAAAA
* *
58843341 TTAATTTTT-TATTATTT
1 TTAATTTTTAAATCATTT
58843358 TTATACTTTTTAAATCATTT
1 TTA-A-TTTTTAAATCATTT
58843378 TTAATTTTTAAA
1 TTAATTTTTAAA
58843390 AATAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 6 0.22
20 9 0.33
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATTTTTAAATCATTT
Found at i:58845491 original size:3 final size:3
Alignment explanation
Indices: 58845483--58845515 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58845473 TTTCCCTACT
58845483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58845516 TGTCACTAGT
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):
ATA
Found at i:58848106 original size:143 final size:143
Alignment explanation
Indices: 58847925--58848339 Score: 616
Period size: 143 Copynumber: 2.9 Consensus size: 143
58847915 GTCATCATGG
* * **
58847925 CGAATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGATGGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATC
*
58847990 TTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGC
66 TTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGC
58848055 AAACTGAAAACAA
131 AAACTGAAAACAA
* * * *
58848068 CGAATCTTATTTCCCTGGCGTTGAAATGGAACAAATTAAAGTTACAAATTATGGCGGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATC
* * *
58848133 TTCCTAAAGTTGCAATGGAGCAGATTGAAGCCACCGGCCTTATCTCTCTGAAGTTGCAGCGGAGC
66 TTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGC
* * *
58848198 AGACTGAAGACAG
131 AAACTGAAAACAA
* * * *
58848211 TGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAATGCTACAAATTATGGCGGATATTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATC
* * *
58848276 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAATCC-TATCTCCCTGAAGTTGCAGTGGAG
66 TTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACC-AGCCTTATCTCCCTGAAGTTGCAGCGGAG
58848340 TGGATTAAAA
Statistics
Matches: 242, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
143 240 0.99
144 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATC
TTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGC
AAACTGAAAACAA
Found at i:58850177 original size:15 final size:15
Alignment explanation
Indices: 58850159--58850189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58850149 ACATTATTAC
58850159 TATTATTATTATCAT
1 TATTATTATTATCAT
*
58850174 TATTATTTTTATCAT
1 TATTATTATTATCAT
58850189 T
1 T
58850190 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTATTATCAT
Found at i:58855883 original size:22 final size:25
Alignment explanation
Indices: 58855858--58855911 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
58855848 TTATAGATTC
58855858 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
58855880 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
58855905 AATTTAA
1 AATTTAA
58855912 TCTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:58858203 original size:30 final size:30
Alignment explanation
Indices: 58858167--58858231 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
58858157 GGCTAAATAG
58858167 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
58858197 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
58858227 TTTGT
1 TTTGT
58858232 GGGAGTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.09, C:0.15, G:0.20, T:0.55
Consensus pattern (30 bp):
TTTGTTTCGGTTCTTGCCTGTATTGCATTA
Found at i:58863252 original size:24 final size:25
Alignment explanation
Indices: 58863225--58863272 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
58863215 TTATGAAATT
58863225 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
58863249 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
58863273 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTATTATTTAAATTATATG
Found at i:58863268 original size:93 final size:91
Alignment explanation
Indices: 58863088--58863297 Score: 280
Period size: 93 Copynumber: 2.3 Consensus size: 91
58863078 TTGATTTTAG
* *
58863088 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAACAATTTTATGAAATTATATATAACTATTAAATTAT
*
58863153 ATTTAATATTAATTATTTTAAATTATA
65 ATGTAATATTAATTATTTTAAATTATA
* *
58863180 TAAATTCATATAAGAAAATTTATTATCTAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTAT-TAACAATTTTATGAAATTAT-ATA-TAACTATTAAATT
58863244 ATATGTAATAATT-ATTATTTTAAATTATA
63 ATATGTAAT-ATTAATTATTTTAAATTATA
* * * *
58863273 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
58863298 GTTATAATTA
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
91 10 0.10
92 36 0.34
93 56 0.53
94 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:58863421 original size:66 final size:63
Alignment explanation
Indices: 58863350--58863680 Score: 206
Period size: 66 Copynumber: 5.4 Consensus size: 63
58863340 AAATATATTT
58863350 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTAATATAA
58863415 G
63 G
* * * * *
58863416 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-TAACA-T-AT-T--T
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAA-ATTAATATAAG
*
58863470 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTAATATA
58863534 AG
62 AG
* * * * *
58863536 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-TAACA-T-AT-T--T
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAA-ATTAATATAAG
* * * *
58863590 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAATATATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTAATATA
58863654 AG
62 AG
*
58863656 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
58863681 AAATTATATA
Statistics
Matches: 202, Mismatches: 26, Indels: 75
0.67 0.09 0.25
Matches are distributed among these distances:
53 10 0.05
54 26 0.13
55 2 0.01
56 8 0.04
57 6 0.03
58 8 0.04
59 22 0.11
60 16 0.08
61 22 0.11
62 7 0.03
63 6 0.03
64 8 0.04
65 6 0.03
66 45 0.22
67 10 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTAATATAAG
Found at i:58863459 original size:120 final size:120
Alignment explanation
Indices: 58863315--58863724 Score: 691
Period size: 120 Copynumber: 3.4 Consensus size: 120
58863305 TTATTTTAAA
* * * *
58863315 TTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTT
1 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTT--AATTTAT-ATTTT
*
58863377 ATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
63 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
58863435 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTTACA
1 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTTACA
58863500 GTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
58863555 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTTACA
1 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTTACA
* * *
58863620 GTATCATATATTATGATTTGAATATATTCATATAAGAATATTAATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
*
58863675 TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTT
58863725 TAAATATGAT
Statistics
Matches: 278, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
119 6 0.02
120 270 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTTACA
GTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAAT
Found at i:58863707 original size:16 final size:16
Alignment explanation
Indices: 58863686--58863727 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58863676 TTATTAAATT
*
58863686 ATATATTTTAATTATA
1 ATATATTTTAATAATA
58863702 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
58863717 AT-TATGTTTAA
1 ATATAT-TTTAA
58863728 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:58863833 original size:157 final size:157
Alignment explanation
Indices: 58863661--58863970 Score: 566
Period size: 157 Copynumber: 2.0 Consensus size: 157
58863651 ATAAGAATAT
* *
58863661 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
* *
58863726 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
58863791 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
58863818 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
58863883 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
58863948 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
58863971 ATGCTAAGGG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 147 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:58863858 original size:18 final size:18
Alignment explanation
Indices: 58863830--58863880 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
58863820 ATTATTAAGA
58863830 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
58863847 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
58863863 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
58863881 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:58872389 original size:3 final size:3
Alignment explanation
Indices: 58872381--58872405 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58872371 GTGAGTAGAG
58872381 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
58872406 CGAGTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:58873981 original size:19 final size:18
Alignment explanation
Indices: 58873947--58873996 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
58873937 TTTCTTTCAA
*
58873947 CAAAAATTATAAAAAAATT
1 CAAAAATT-TATAAAAATT
58873966 CAAAATATTTATAAAAATT
1 CAAAA-ATTTATAAAAATT
*
58873985 CCAAAATTTATA
1 CAAAAATTTATA
58873997 CTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.25
19 18 0.64
20 3 0.11
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
CAAAAATTTATAAAAATT
Found at i:58874036 original size:20 final size:20
Alignment explanation
Indices: 58873998--58874036 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58873988 AAATTTATAC
*
58873998 TTTTTAAAAAAATTATAAAA
1 TTTTTAAAAAAAATATAAAA
*
58874018 TTTTTAAAAAAAATCTAAA
1 TTTTTAAAAAAAATATAAA
58874037 GAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTTAAAAAAAATATAAAA
Found at i:58875666 original size:2 final size:2
Alignment explanation
Indices: 58875659--58875683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58875649 GGTAAGCTTC
58875659 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
58875684 ACCCTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:58879939 original size:3 final size:3
Alignment explanation
Indices: 58879931--58879962 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
58879921 CACCAGCTCC
58879931 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58879963 CAACGGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58891920 original size:3 final size:3
Alignment explanation
Indices: 58891912--58891936 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58891902 TTAGCTCTCA
58891912 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
58891937 TGATTGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58899147 original size:48 final size:46
Alignment explanation
Indices: 58899081--58899208 Score: 123
Period size: 48 Copynumber: 2.7 Consensus size: 46
58899071 CAGGTGAAAG
* * * *
58899081 TAATAGTGCCTAAG-TACCCGTTTGGGTTAAACCTACACGAGTAATGAA
1 TAATAGTGCCT-GGTTACCCATTAGGGTTAAACCTACACGAATAA-G-A
* * * *
58899129 TCATAGTGCCTGGTTACCCATTAGGGTTGAACCTGCACGAATCAGA
1 TAATAGTGCCTGGTTACCCATTAGGGTTAAACCTACACGAATAAGA
* * *
58899175 TAATAGTGCCTGGTCACCCATTAAGGTTGAACCT
1 TAATAGTGCCTGGTTACCCATTAGGGTTAAACCT
58899209 GCACAACAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 32 0.47
47 2 0.03
48 34 0.50
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
TAATAGTGCCTGGTTACCCATTAGGGTTAAACCTACACGAATAAGA
Found at i:58901197 original size:20 final size:21
Alignment explanation
Indices: 58901158--58901197 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
58901148 AGGCGGGTTA
58901158 TACGCATTATATGAGTTAGTTG
1 TACGCATTATAT-AGTTAGTTG
58901180 TACGCATTATAT-GTTAGT
1 TACGCATTATATAGTTAGT
58901198 CCAAACTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (21 bp):
TACGCATTATATAGTTAGTTG
Found at i:58901865 original size:22 final size:22
Alignment explanation
Indices: 58901835--58901888 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
58901825 TATCCAAACA
58901835 ATAACAACAAAAT-AGTAACAAT
1 ATAACAACAAAATGAG-AACAAT
* *
58901857 ATAATAACAAAATGAGAACAAA
1 ATAACAACAAAATGAGAACAAT
*
58901879 ACAACAACAA
1 ATAACAACAA
58901889 CCAGCAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.67, C:0.15, G:0.06, T:0.13
Consensus pattern (22 bp):
ATAACAACAAAATGAGAACAAT
Found at i:58903873 original size:3 final size:3
Alignment explanation
Indices: 58903865--58903916 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
58903855 ATAGCCCTAT
* *
58903865 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGA AGC AGA
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
58903913 AGC A
1 AGC A
58903917 AGGGGTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.38, C:0.29, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:58906544 original size:24 final size:22
Alignment explanation
Indices: 58906517--58906585 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 22
58906507 ACTTAGAATT
58906517 AATTGAAATCTAAATCTAAATTTG
1 AATT-AAATC-AAATCTAAATTTG
* *
58906541 AATTATA-CAAATAATAAATTTG
1 AATTAAATCAAAT-CTAAATTTG
*
58906563 AATTAATTCAAAATCTTAAATTT
1 AATTAAATC-AAATC-TAAATTT
58906586 CAAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 4 0.11
22 14 0.39
23 3 0.08
24 15 0.42
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTAAATCAAATCTAAATTTG
Found at i:58916505 original size:13 final size:13
Alignment explanation
Indices: 58916489--58916513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58916479 TATTGCTATC
58916489 AAAAAGTGCTTTT
1 AAAAAGTGCTTTT
58916502 AAAAAGTGCTTT
1 AAAAAGTGCTTT
58916514 GGAAATGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AAAAAGTGCTTTT
Found at i:58925387 original size:50 final size:50
Alignment explanation
Indices: 58925263--58925511 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
58925253 GATAATAACA
* * ** * *
58925263 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
58925314 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
58925364 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
58925414 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
58925469 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
58925512 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:58925441 original size:100 final size:104
Alignment explanation
Indices: 58925262--58925511 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
58925252 TGATAATAAC
**
58925262 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
58925327 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
58925364 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
58925427 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
58925469 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
58925512 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:58925627 original size:13 final size:13
Alignment explanation
Indices: 58925606--58925637 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
58925596 GCTTGGATCA
*
58925606 TCATCAAATAAAT
1 TCATAAAATAAAT
58925619 TCATAAAATAAAT
1 TCATAAAATAAAT
58925632 TCATAA
1 TCATAA
58925638 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:58925883 original size:30 final size:30
Alignment explanation
Indices: 58925848--58925905 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
58925838 CCTCGACTCT
*
58925848 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
58925878 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
58925906 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:58929862 original size:17 final size:18
Alignment explanation
Indices: 58929825--58929862 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
58929815 GATTGAGAGT
* *
58929825 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
58929843 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
58929860 GAA
1 GAA
58929863 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Done.