Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 142 of 185
Found at i:43148551 original size:26 final size:27
Alignment explanation
Indices: 43148480--43148551 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
43148470 CAATATGACT
*
43148480 TTTAA-AAAAAAAAGATTAATAGTCAAA
1 TTTAACAAAAAAAAG-TAAATAGTCAAA
*
43148507 TTTAACTAAAATAAA-TAAATA-TCAAA
1 TTTAAC-AAAAAAAAGTAAATAGTCAAA
43148533 -TTAACAAAAAAAATGTAAA
1 TTTAACAAAAAAAA-GTAAA
43148552 CGTAAATACT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
24 7 0.18
25 5 0.13
26 9 0.24
27 10 0.26
29 7 0.18
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (27 bp):
TTTAACAAAAAAAAGTAAATAGTCAAA
Found at i:43151212 original size:16 final size:17
Alignment explanation
Indices: 43151191--43151237 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
43151181 CTTGTAGATA
43151191 AATATTAAATT-AATTT
1 AATATTAAATTCAATTT
*
43151207 AATATTAACATAATCACTTT
1 AATATTAA-AT--TCAATTT
43151227 AATATTAAATT
1 AATATTAAATT
43151238 TAATACTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
19 3 0.12
20 12 0.46
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTAAATTCAATTT
Found at i:43155256 original size:315 final size:315
Alignment explanation
Indices: 43154862--43155479 Score: 999
Period size: 315 Copynumber: 2.0 Consensus size: 315
43154852 CTTCTTGTTC
43154862 ATTAACAGTGTTGTTTGAGGTTTGGTCAGATTCTTGGGATTGATTAGAAACAAAGCTAGCAGAAG
1 ATTAACAGTGTTGTTTGAGGTTTGGTCAGATTCTTGGGATTGATTAGAAACAAAGCTAGCAGAAG
** * * *
43154927 AATTGGTTCTTCTAAGGAAAGGAAACATTCTTTGTTTTCGTATTTCCTACAGGGGGTTCTACTAT
66 AATTGACTCTTCTAAGGAAAGAAAACATTCTTTGTTATCGTATTTCCTACAGGGGGTTCTACTAC
* *
43154992 CT-GAATCTCTGAATTAATTAAGTTGCCTACGGGGATACT-TAGTCCTTGACACGCCTAACCCAT
131 CTAG-ATCTCTGAATTAATTAAGTTGCCTACAGGGATACTAT-GTCCTTAACACGCCTAACCCAT
43155055 GGCTAACTGGACACTGTATCAATTCTCAGCAAAATAATAATACGA-TAATAAAGATAGTTAAACC
194 GGCTAACTGGACACTGTATCAATTCTCAGCAAAATAATAATAC-ATTAATAAAGATAGTTAAACC
* *
43155119 AGAACTCAGAAATAACGAAAACAAATTGAATATTTTCTTAAACTTAAGAATACGGTTT
258 AGAACTCAGAAATAACGAAAAAAAATTAAATATTTTCTTAAACTTAAGAATACGGTTT
*
43155177 ATTAACAGTGTTGTTTGAGGTTTGGTCAGATTCTTGGGATTGATTAGAAACAAAGCTTGCAGAAG
1 ATTAACAGTGTTGTTTGAGGTTTGGTCAGATTCTTGGGATTGATTAGAAACAAAGCTAGCAGAAG
* *
43155242 AATTGACTCTTCTAAGGAAAGAAAATATTCTTTGTTATCTTATTTCCTACAGGGGGTTCTACTAC
66 AATTGACTCTTCTAAGGAAAGAAAACATTCTTTGTTATCGTATTTCCTACAGGGGGTTCTACTAC
* * * *
43155307 CTAGATTTCTGAATTAATTAAGTTGCCTATAGGGATACTATGTCTTTAACATGCCTAACCCATGG
131 CTAGATCTCTGAATTAATTAAGTTGCCTACAGGGATACTATGTCCTTAACACGCCTAACCCATGG
* *
43155372 CTAACTGGACACTGTATCAATTCTCAGCAAAATGATAATACATTAATGAAGATAGTTAAACCAGA
196 CTAACTGGACACTGTATCAATTCTCAGCAAAATAATAATACATTAATAAAGATAGTTAAACCAGA
* * *
43155437 ACTCGGAAATAATGAAAAAAAATTAAATTTTTTCTTAAACTTA
261 ACTCAGAAATAACGAAAAAAAATTAAATATTTTCTTAAACTTA
43155480 GAAATACCTG
Statistics
Matches: 279, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
314 1 0.00
315 276 0.99
316 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (315 bp):
ATTAACAGTGTTGTTTGAGGTTTGGTCAGATTCTTGGGATTGATTAGAAACAAAGCTAGCAGAAG
AATTGACTCTTCTAAGGAAAGAAAACATTCTTTGTTATCGTATTTCCTACAGGGGGTTCTACTAC
CTAGATCTCTGAATTAATTAAGTTGCCTACAGGGATACTATGTCCTTAACACGCCTAACCCATGG
CTAACTGGACACTGTATCAATTCTCAGCAAAATAATAATACATTAATAAAGATAGTTAAACCAGA
ACTCAGAAATAACGAAAAAAAATTAAATATTTTCTTAAACTTAAGAATACGGTTT
Found at i:43155592 original size:13 final size:13
Alignment explanation
Indices: 43155557--43155594 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
43155547 AAGATATTTG
43155557 TAATTTGAAAACT
1 TAATTTGAAAACT
43155570 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
43155584 TAATTTGAAAA
1 TAATTTGAAAA
43155595 TTTGGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:43155914 original size:34 final size:34
Alignment explanation
Indices: 43155832--43156042 Score: 244
Period size: 34 Copynumber: 6.1 Consensus size: 34
43155822 TCACCTGTCT
* * *
43155832 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* *
43155866 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* *
43155901 TTTCTTGCAGGGAATCTTTCTTGTTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* *
43155935 TTTCTTGCAGGGAA-CATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATC-TTTCCTGTTCACACATCA
* * * *
43155969 TTTTGTTGCAGAGAATCTCTCCTATTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
* * *
43156004 TTTCTTACAGGGAATCTTTCATGTTCATACATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
43156038 TTTCT
1 TTTCT
43156043 GGAATTATTT
Statistics
Matches: 149, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
33 1 0.01
34 92 0.62
35 55 0.37
36 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACACATCA
Found at i:43155932 original size:69 final size:68
Alignment explanation
Indices: 43155832--43156042 Score: 253
Period size: 69 Copynumber: 3.1 Consensus size: 68
43155822 TCACCTGTCT
* * * *
43155832 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA-TTTCTTGCAGGGAATCTTTCCTGTTCACAC
43155897 ATCA
65 ATCA
* *
43155901 TTTCTTGCAGGGAATCTTTCTTGTTCACGCATCATTTCTTGCAGGGAA-CATTTCCTGTTCACGC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATC-TTTCCTGTTCACAC
*
43155965 ATTA
65 ATCA
* * * * * * * *
43155969 TTTTGTTGCAGAGAATCTCTCCTATTCACACATCATTTCTTACAGGGAATCTTTCATGTTCATAC
1 -TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTTTCCTGTTCACAC
43156034 ATCA
65 ATCA
43156038 TTTCT
1 TTTCT
43156043 GGAATTATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
67 1 0.01
68 32 0.27
69 86 0.72
70 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (68 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTTTCCTGTTCACACA
TCA
Found at i:43155954 original size:16 final size:16
Alignment explanation
Indices: 43155899--43155954 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
43155889 GTTCACACAT
43155899 CATTTCTTGCAGGGAA
1 CATTTCTTGCAGGGAA
* * *
43155915 TC-TTTCTTGTTCACGCAT
1 -CATTTCTTG--CAGGGAA
43155933 CATTTCTTGCAGGGAA
1 CATTTCTTGCAGGGAA
43155949 CATTTC
1 CATTTC
43155955 CTGTTCACGC
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
16 17 0.57
17 2 0.07
18 11 0.37
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (16 bp):
CATTTCTTGCAGGGAA
Found at i:43156000 original size:103 final size:103
Alignment explanation
Indices: 43155832--43156042 Score: 359
Period size: 103 Copynumber: 2.0 Consensus size: 103
43155822 TCACCTGTCT
* * *
43155832 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTGCAGAGAATCTCTCCTATTCACAC
* * *
43155897 ATCATTTCTTGCAGGGAATCTTTCTTGTTCACGCATCA
66 ATCATTTCTTACAGGGAATCTTTCATGTTCACACATCA
43155935 TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTGCAGAGAATCTCTCCTATTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTGCAGAGAATCTCTCCTATTCACAC
*
43156000 ATCATTTCTTACAGGGAATCTTTCATGTTCATACATCA
66 ATCATTTCTTACAGGGAATCTTTCATGTTCACACATCA
43156038 TTTCT
1 TTTCT
43156043 GGAATTATTT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (103 bp):
TTTCTTGCAGGGAACATTTCCTGTTCACGCATTATTTTGTTGCAGAGAATCTCTCCTATTCACAC
ATCATTTCTTACAGGGAATCTTTCATGTTCACACATCA
Found at i:43163015 original size:26 final size:26
Alignment explanation
Indices: 43162978--43163042 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
43162968 AGTGAGGGTT
* *
43162978 TTAAAAACAAATATAAATT-TATTTGG
1 TTAAAAATAAATATAAATTATAATT-G
*
43163004 TTAAAAATAAATATTAATTATAATTG
1 TTAAAAATAAATATAAATTATAATTG
*
43163030 TTAAACATAAATA
1 TTAAAAATAAATA
43163043 AATACAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (26 bp):
TTAAAAATAAATATAAATTATAATTG
Found at i:43166538 original size:13 final size:15
Alignment explanation
Indices: 43166516--43166551 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
43166506 ACCAATTTGT
43166516 AACATATA-TTTTAA
1 AACATATATTTTTAA
43166530 AACAT-TATTTTTAA
1 AACATATATTTTTAA
43166544 AA-ATATAT
1 AACATATAT
43166552 AGTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AACATATATTTTTAA
Found at i:43175268 original size:14 final size:15
Alignment explanation
Indices: 43175251--43175284 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43175241 AATAAATATC
43175251 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
43175265 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
43175280 TAAAA
1 TAAAA
43175285 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:43175511 original size:22 final size:22
Alignment explanation
Indices: 43175481--43175522 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43175471 ATTTGGAGAT
*
43175481 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
43175503 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
43175523 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:43175530 original size:30 final size:30
Alignment explanation
Indices: 43175494--43175552 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43175484 TTGAAGGAAA
*
43175494 TTGAGAGGATTTTGGAA-GGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGGAA-TTGAGAGT
43175524 TTGAGAGAATTTTGGAAGGGAATTGAGAG
1 TTGAGAGAATTTTGGAAGGGAATTGAGAG
43175553 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGGAATTGAGAGT
Found at i:43175548 original size:52 final size:51
Alignment explanation
Indices: 43175472--43175571 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 51
43175462 TTAATATGGA
* * * *
43175472 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
* *
43175523 TTTGAGAGAATTTTGGAAGGGAATTGAGAGAATTTTTGAAGGAAATTGA
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGA
43175572 TATTGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 4 0.10
52 38 0.90
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
Found at i:43175549 original size:22 final size:22
Alignment explanation
Indices: 43175524--43175571 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
43175514 ATTTGAGAGT
*
43175524 TTGAGAGAATTTTGGAAGGGAA
1 TTGAGAGAATTTTGGAAGGAAA
*
43175546 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
43175568 TTGA
1 TTGA
43175572 TATTGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:43176008 original size:30 final size:30
Alignment explanation
Indices: 43175969--43176027 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
43175959 GAAGGTGGGA
*
43175969 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAA-ATTTAGGGGAAAAG
* *
43176000 TGGG-AGGGAGTAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTAGGGGAAAA
43176028 ATAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTAGGGGAAAAG
Found at i:43176678 original size:21 final size:21
Alignment explanation
Indices: 43176652--43176694 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
43176642 CTAAACAATA
*
43176652 TAATGGTTTTGCCTTATAACT
1 TAATGGTTTTGACTTATAACT
*
43176673 TAATGGTTTTGACTTTTAACT
1 TAATGGTTTTGACTTATAACT
43176694 T
1 T
43176695 TAGAAGAGGT
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:0.12, G:0.14, T:0.51
Consensus pattern (21 bp):
TAATGGTTTTGACTTATAACT
Found at i:43177050 original size:29 final size:29
Alignment explanation
Indices: 43177017--43177072 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
43177007 AAGGCCGGTT
43177017 TTTTTTCAA-AATTTACCGGAATGGGCCGG
1 TTTTTT-AATAATTTACCGGAATGGGCCGG
*
43177046 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGGAATGGGCC
43177073 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGGAATGGGCCGG
Found at i:43189423 original size:42 final size:42
Alignment explanation
Indices: 43189350--43189452 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
43189340 CTGAACACGC
* * *
43189350 TAACAGAAGCTCATAAGAGTTGAATAGAAACTCAAAAGAGCT
1 TAACAGAAGCTCATAAGAGCTAAACAGAAACTCAAAAGAGCT
* ** *
43189392 TAACAGAAGCTCA-AATGAGCTAAACATAAACTCGTAAGAGGT
1 TAACAGAAGCTCATAA-GAGCTAAACAGAAACTCAAAAGAGCT
* *
43189434 GAACAGAAGCTCGTAAGAG
1 TAACAGAAGCTCATAAGAG
43189453 GTGATCCACC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
41 2 0.04
42 46 0.92
43 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (42 bp):
TAACAGAAGCTCATAAGAGCTAAACAGAAACTCAAAAGAGCT
Found at i:43189456 original size:21 final size:21
Alignment explanation
Indices: 43189351--43189452 Score: 89
Period size: 21 Copynumber: 4.9 Consensus size: 21
43189341 TGAACACGCT
*
43189351 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
* * * *
43189372 AATAGAAACTCAAAAGAGCTT
1 AACAGAAGCTCATAAGAGCTG
*
43189393 AACAGAAGCTCA-AATGAGCTA
1 AACAGAAGCTCATAA-GAGCTG
* * * *
43189414 AACATAAACTCGTAAGAGGTG
1 AACAGAAGCTCATAAGAGCTG
*
43189435 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
43189453 GTGATCCACC
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:43190832 original size:20 final size:22
Alignment explanation
Indices: 43190798--43190838 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
43190788 CTTTACTTTT
*
43190798 CACACTCATTCCATATGCATAA
1 CACACTCATTCCATAAGCATAA
43190820 CACAC-CATT-CATAAGCATA
1 CACACTCATTCCATAAGCATA
43190839 TTATTCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.39, C:0.32, G:0.05, T:0.24
Consensus pattern (22 bp):
CACACTCATTCCATAAGCATAA
Found at i:43191411 original size:42 final size:42
Alignment explanation
Indices: 43191344--43191466 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
43191334 GGCTAAATAG
** * *
43191344 AAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTGAACAA
1 AAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGTTGAACAA
*** * * * **
43191386 AAGCTTGTAAGAGCTGAACGAAAACCTATAAGAGTTAAACTG
1 AAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGTTGAACAA
*
43191428 AAGCTCAAAAGAGCTGAACGAAAACCCATTAGGGTTGAA
1 AAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGTTGAA
43191467 TGGAAACTCA
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGTTGAACAA
Found at i:43191417 original size:21 final size:21
Alignment explanation
Indices: 43191353--43191453 Score: 55
Period size: 21 Copynumber: 4.8 Consensus size: 21
43191343 GAAGCTCATG
* * *
43191353 AGAGCTAAACGGAAACCCATA
1 AGAGCTGAACGAAAACCTATA
* * * *
43191374 AGGGTTGAAC-AAAAGCTTGTA
1 AGAGCTGAACGAAAA-CCTATA
43191395 AGAGCTGAACGAAAACCTATA
1 AGAGCTGAACGAAAACCTATA
* * * *
43191416 AGAGTTAAACTG--AAGCTCAAA
1 AGAGCTGAAC-GAAAACCT-ATA
43191437 AGAGCTGAACGAAAACC
1 AGAGCTGAACGAAAACC
43191454 CATTAGGGTT
Statistics
Matches: 56, Mismatches: 18, Indels: 11
0.66 0.21 0.13
Matches are distributed among these distances:
20 8 0.14
21 40 0.71
22 8 0.14
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (21 bp):
AGAGCTGAACGAAAACCTATA
Found at i:43191601 original size:24 final size:24
Alignment explanation
Indices: 43191569--43191657 Score: 142
Period size: 24 Copynumber: 3.7 Consensus size: 24
43191559 GGTACATTTG
* *
43191569 CCGTTAATTCATCATTTGCATATA
1 CCGTCAATTCATCCTTTGCATATA
* *
43191593 TCGCCAATTCATCCTTTGCATATA
1 CCGTCAATTCATCCTTTGCATATA
43191617 CCGTCAATTCATCCTTTGCATATA
1 CCGTCAATTCATCCTTTGCATATA
43191641 CCGTCAATTCATCCTTT
1 CCGTCAATTCATCCTTT
43191658 ACCACAAAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (24 bp):
CCGTCAATTCATCCTTTGCATATA
Found at i:43192998 original size:24 final size:24
Alignment explanation
Indices: 43192966--43193108 Score: 241
Period size: 24 Copynumber: 5.9 Consensus size: 24
43192956 TGGGTACATT
43192966 TACCGTCAATTCATCCTTTGCATA
1 TACCGTCAATTCATCCTTTGCATA
*
43192990 TACCGTCAATTCATCCTTTGCATTT
1 TACCGTCAATTCATCCTTTGCA-TA
43193015 TACCGTCAATTCATCCTTTGCATA
1 TACCGTCAATTCATCCTTTGCATA
*
43193039 TACCGTCAATTCATCCTTTGCATTT
1 TACCGTCAATTCATCCTTTGCA-TA
43193064 TACCGTCAATTCATCCTTTGCATA
1 TACCGTCAATTCATCCTTTGCATA
*
43193088 TACCGTCAATTCATCATTTGC
1 TACCGTCAATTCATCCTTTGC
43193109 CACAGAACGA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
24 66 0.59
25 46 0.41
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (24 bp):
TACCGTCAATTCATCCTTTGCATA
Found at i:43193033 original size:49 final size:49
Alignment explanation
Indices: 43192964--43193108 Score: 281
Period size: 49 Copynumber: 3.0 Consensus size: 49
43192954 CTTGGGTACA
43192964 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGCAT
1 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGCAT
43193013 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGCAT
1 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGCAT
*
43193062 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCATTTGC
1 TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGC
43193109 CACAGAACGA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 95 1.00
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.41
Consensus pattern (49 bp):
TTTACCGTCAATTCATCCTTTGCATATACCGTCAATTCATCCTTTGCAT
Found at i:43196197 original size:46 final size:46
Alignment explanation
Indices: 43196123--43196399 Score: 437
Period size: 46 Copynumber: 6.0 Consensus size: 46
43196113 ACATTGCTAT
* *
43196123 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
43196169 AACTCAGTATGGTTTTCTTTACCAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
43196215 AACTCAATATGGTTTTCTTTACCGAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
43196261 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
** *
43196307 AACTCAGTATGGTTTTCTTCACTAAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
43196353 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
43196399 A
1 A
43196400 CTTTGCCATG
Statistics
Matches: 212, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 212 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:43196371 original size:138 final size:138
Alignment explanation
Indices: 43196123--43196395 Score: 492
Period size: 138 Copynumber: 2.0 Consensus size: 138
43196113 ACATTGCTAT
43196123 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
* * *
43196188 TACCAAAATACCATACCTACTTTTCACAACTCAATATGGTTTTCTTTACCGAAACACCATACCTA
66 CACCAAAACACCATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
43196253 CTTTTAAC
131 CTTTTAAC
43196261 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
* * *
43196326 CACTAAAACACCATACCTACTTTTCATAACTCAGTATGGTTTTCTTCACCGAAACACCATACCTA
66 CACCAAAACACCATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
43196391 CTTTT
131 CTTTT
43196396 CACACTTTGC
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 129 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (138 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
CACCAAAACACCATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
CTTTTAAC
Found at i:43201192 original size:44 final size:42
Alignment explanation
Indices: 43201129--43201242 Score: 147
Period size: 44 Copynumber: 2.7 Consensus size: 42
43201119 ACTGTGACAT
* *
43201129 CGTGTAAGACCACGTCTGGGACATTGGCCTCGATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCCTC-ATATGAGA-TTA
* *
43201173 CGTGTAAGACCATGTCTGGGACATTGGCGTCATATGTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCCTCATATGAGATTA
* * *
43201215 CGTGTAAGACCCTGTCTGAGACAGTGGC
1 CGTGTAAGACCATGTCTGGGACATTGGC
43201243 ATAGTTATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 28 0.44
43 6 0.10
44 29 0.46
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCCTCATATGAGATTA
Found at i:43201231 original size:42 final size:44
Alignment explanation
Indices: 43201129--43201242 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 44
43201119 ACTGTGACAT
*
43201129 CGTGTAAGACCAC-GTCTGGGACATTGGCCTCGATTTGAGATTTA
1 CGTGTAAGACC-CTGTCTGGGACATTGGCCTCGATATGAGATTTA
* * *
43201173 CGTGTAAGACCATGTCTGGGACATTGGCGTC-ATATGTGA-TTA
1 CGTGTAAGACCCTGTCTGGGACATTGGCCTCGATATGAGATTTA
* *
43201215 CGTGTAAGACCCTGTCTGAGACAGTGGC
1 CGTGTAAGACCCTGTCTGGGACATTGGC
43201243 ATAGTTATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 28 0.45
43 6 0.10
44 28 0.45
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (44 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCCTCGATATGAGATTTA
Found at i:43202676 original size:32 final size:31
Alignment explanation
Indices: 43202640--43202712 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 31
43202630 GAGTATATTG
43202640 AATGGTTATGAGACATGTCTATATAAATGAC
1 AATGGTTATGAGACATGTCTATATAAATGAC
43202671 AAATGGTTATGAGACATGTCTATATAAATGAC
1 -AATGGTTATGAGACATGTCTATATAAATGAC
43202703 AATGTGTTAT
1 AATG-GTTAT
43202713 TATTCATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (31 bp):
AATGGTTATGAGACATGTCTATATAAATGAC
Found at i:43205868 original size:27 final size:27
Alignment explanation
Indices: 43205812--43205872 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43205802 ACATCATACA
* * * *
43205812 TAGTCTGTTGGGACATTAAATATGGAG
1 TAGTTTGTCGGGACATTAAACAAGGAG
43205839 TAGTTTGTCGGGACATTAAACACAGG-G
1 TAGTTTGTCGGGACATTAAACA-AGGAG
43205866 TAGTTTG
1 TAGTTTG
43205873 CTAGGACGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (27 bp):
TAGTTTGTCGGGACATTAAACAAGGAG
Found at i:43209717 original size:13 final size:13
Alignment explanation
Indices: 43209699--43209723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43209689 TCAAATTATT
43209699 TTTTTATTTTTTA
1 TTTTTATTTTTTA
43209712 TTTTTATTTTTT
1 TTTTTATTTTTT
43209724 GCGCAATGAG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:43213198 original size:39 final size:39
Alignment explanation
Indices: 43213155--43213229 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
43213145 TGCCAACTTG
43213155 CAAATCACATTACCATTCACTTTTCCAACCAAAACAAAC
1 CAAATCACATTACCATTCACTTTTCCAACCAAAACAAAC
43213194 CAAATCACATTACCATTCACTTTTCCAACCAAAACA
1 CAAATCACATTACCATTCACTTTTCCAACCAAAACA
43213230 CATCTCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (39 bp):
CAAATCACATTACCATTCACTTTTCCAACCAAAACAAAC
Found at i:43214443 original size:34 final size:35
Alignment explanation
Indices: 43214375--43214444 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
43214365 TCCATCTTTC
* * *
43214375 TCAATTCATTATCATATCATATAACACATTTCAAT
1 TCAATTCAATATCATATCAAATAACACATATCAAT
* *
43214410 TCAATTCAAT-TCATATCAAATATCATATATCAAT
1 TCAATTCAATATCATATCAAATAACACATATCAAT
43214444 T
1 T
43214445 AAGTAATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (35 bp):
TCAATTCAATATCATATCAAATAACACATATCAAT
Found at i:43215318 original size:19 final size:19
Alignment explanation
Indices: 43215291--43215328 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43215281 AGTTTATTAA
43215291 TTAAACTTAATTAATTATT
1 TTAAACTTAATTAATTATT
* *
43215310 TTAATCTTAGTTAATTATT
1 TTAAACTTAATTAATTATT
43215329 CATTTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAACTTAATTAATTATT
Found at i:43216022 original size:31 final size:31
Alignment explanation
Indices: 43215965--43216023 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
43215955 CGTCTAAGTT
* **
43215965 AGGACTAAAATTTCAAAATTTGAAAAATACA
1 AGGACTAAAATTACAAAATTAAAAAAATACA
43215996 AGGACTAAAATTAACAAAA-TAAAAAAAT
1 AGGACTAAAATT-ACAAAATTAAAAAAAT
43216024 TATAAGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (31 bp):
AGGACTAAAATTACAAAATTAAAAAAATACA
Found at i:43226179 original size:12 final size:13
Alignment explanation
Indices: 43226157--43226187 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
43226147 TTTTTTCCTA
43226157 AAAATAGAAAAAG
1 AAAATAGAAAAAG
43226170 AAAA-AGAAAAAG
1 AAAATAGAAAAAG
43226182 AAAATA
1 AAAATA
43226188 CTTTTTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (13 bp):
AAAATAGAAAAAG
Found at i:43227480 original size:73 final size:73
Alignment explanation
Indices: 43227361--43227507 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
43227351 CAAATTAATT
43227361 TCTTGTAATAGCAAATCTATAACAGAAATGAATGTATCAAATTGATAGTGATGCTCAATTGTAAG
1 TCTTGTAATAGCAAATCTATAACAGAAATGAATGTATCAAATTGATAGTGATGCTCAATTGTAAG
43227426 GCTATCTC
66 GCTATCTC
43227434 TCTTGTAATAGCAAATCTATAACAGAAATGAATGTATCAAATTGATAGTGATGCTCAATTGTAAG
1 TCTTGTAATAGCAAATCTATAACAGAAATGAATGTATCAAATTGATAGTGATGCTCAATTGTAAG
43227499 GCTATCTC
66 GCTATCTC
43227507 T
1 T
43227508 TTGATTGCGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (73 bp):
TCTTGTAATAGCAAATCTATAACAGAAATGAATGTATCAAATTGATAGTGATGCTCAATTGTAAG
GCTATCTC
Found at i:43233116 original size:23 final size:23
Alignment explanation
Indices: 43233088--43233208 Score: 170
Period size: 23 Copynumber: 5.3 Consensus size: 23
43233078 GTGTTATTGA
*
43233088 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
* *
43233111 TTAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
* *
43233134 ACAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
43233157 TCAGTGTTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
43233180 TCAGTGGTAGCTTCGGATACATA
1 TCAGTGGTAGCTTCGGCTACATT
43233203 TCAGTG
1 TCAGTG
43233209 TTGCACTTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 85 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:43234693 original size:51 final size:51
Alignment explanation
Indices: 43234617--43234719 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
43234607 CTTAGTCAAC
*
43234617 ATACATGTATTACATTTTTCAATATTATTATTAAATAT-GGAAATTAAATCT
1 ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGG-AATTAAATCT
* *
43234668 ATACATGTATTGCATTTTTTAATATTATTATTAAAAATAGGAATTAAATCT
1 ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGGAATTAAATCT
43234719 A
1 A
43234720 ACTTATGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (51 bp):
ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGGAATTAAATCT
Found at i:43236374 original size:21 final size:21
Alignment explanation
Indices: 43236349--43236388 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43236339 TGTACTAAAA
43236349 ATAATAAACAACATTATATAT
1 ATAATAAACAACATTATATAT
* * *
43236370 ATAATCAACATCTTTATAT
1 ATAATAAACAACATTATAT
43236389 CGCTTATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAAACAACATTATATAT
Found at i:43240593 original size:34 final size:34
Alignment explanation
Indices: 43240509--43240577 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
43240499 CTGCAATTTG
*
43240509 AAACACGAGGTCATTTTGAACTTTAGATGGAATC
1 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
43240543 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
1 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
43240577 A
1 A
43240578 GTAAATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (34 bp):
AAACACGAGGTCATTTTGAACTGTAGATGGAATC
Found at i:43246260 original size:23 final size:22
Alignment explanation
Indices: 43246209--43246260 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
43246199 CCTCGTCTTT
*
43246209 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
43246231 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
43246254 TTCTTTT
1 TTCTTTT
43246261 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:43246275 original size:18 final size:18
Alignment explanation
Indices: 43246254--43246292 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43246244 TTTCTTCAAC
* *
43246254 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
43246272 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
43246290 TTC
1 TTC
43246293 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:43248872 original size:45 final size:45
Alignment explanation
Indices: 43248806--43248911 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
43248796 GACTCGTATC
* *
43248806 ACCATAGTTGAAAGACACTATGACATCATGAT-TAAGATAAGTAAG
1 ACCATAGCTGAAAGACACTATGACATCATGATATAA-ATAAGTAAA
** * *
43248851 ACCATAGCTGAAAGATGCTATGACATCGTGATATAAATGAGTAAA
1 ACCATAGCTGAAAGACACTATGACATCATGATATAAATAAGTAAA
* *
43248896 ATCATGGCTGAAAGAC
1 ACCATAGCTGAAAGAC
43248912 GCTTTAACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 48 0.94
46 3 0.06
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (45 bp):
ACCATAGCTGAAAGACACTATGACATCATGATATAAATAAGTAAA
Found at i:43249071 original size:27 final size:27
Alignment explanation
Indices: 43249038--43249112 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
43249028 AGTCCGACAA
*** **
43249038 GACGTTAAACATGGGGTAGTCTGATAG
1 GACGTTAAACACAAGGTAGTCCAATAG
*
43249065 GATGTTAAACACAAGGTAGTCCAATAG
1 GACGTTAAACACAAGGTAGTCCAATAG
* *
43249092 GACGTTAAACACGAGATAGTC
1 GACGTTAAACACAAGGTAGTC
43249113 TGACGAGACA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (27 bp):
GACGTTAAACACAAGGTAGTCCAATAG
Found at i:43252401 original size:34 final size:33
Alignment explanation
Indices: 43252358--43252477 Score: 131
Period size: 32 Copynumber: 3.7 Consensus size: 33
43252348 GTATGTGTTT
*
43252358 TATAAATTGCCGAATTGATTTGTATATGGAAATA
1 TATACATTGCCGAATTGATTTGTATATGG-AATA
* * * *
43252392 TATACATTGCCAAATTGATTTATATATAG-ATG
1 TATACATTGCCGAATTGATTTGTATATGGAATA
* *
43252424 TATATATAGCCGAATTGATTTGTATATGG---A
1 TATACATTGCCGAATTGATTTGTATATGGAATA
*
43252454 TATACGTTGCCGAATTGATTTGTA
1 TATACATTGCCGAATTGATTTGTA
43252478 CATGTATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
30 21 0.29
32 26 0.36
34 25 0.35
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (33 bp):
TATACATTGCCGAATTGATTTGTATATGGAATA
Found at i:43252468 original size:30 final size:30
Alignment explanation
Indices: 43252358--43252492 Score: 126
Period size: 30 Copynumber: 4.3 Consensus size: 30
43252348 GTATGTGTTT
*
43252358 TATAAATTGCCGAATTGATTTGTATATGGAAATA
1 TATACATTGCCGAATTGATTTGTATATGG----A
* * *
43252392 TATACATTGCCAAATTGATTTATATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
43252422 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
* * *
43252454 TATACGTTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
43252484 TATATATTG
1 TATACATTG
43252493 TAATGACCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
30 33 0.40
32 25 0.30
34 25 0.30
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:43255135 original size:30 final size:30
Alignment explanation
Indices: 43255061--43255207 Score: 159
Period size: 30 Copynumber: 4.8 Consensus size: 30
43255051 TATTACATAT
* * *
43255061 ATTGCCGAAATGATTTGTATATGTTCACATATAT
1 ATTGCCGAATTGATTTGTATATG----GATATAC
* *
43255095 ATTGCAGAATTGATTTGGATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
* *
43255125 ATTACTGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
* * *
43255155 ATTGCCGAATTGATTTGTACATGTATATAT
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
43255185 ATTGCCGAAATGATTTGTATATG
1 ATTGCCGAATTGATTTGTATATG
43255208 TTTACATATA
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
30 78 0.80
34 20 0.20
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (30 bp):
ATTGCCGAATTGATTTGTATATGGATATAC
Found at i:43255461 original size:41 final size:41
Alignment explanation
Indices: 43255405--43255521 Score: 198
Period size: 41 Copynumber: 2.8 Consensus size: 41
43255395 TGAGAAAATA
* * *
43255405 TATAAGACCATGTCTGGGACATTGGCATCGTATATGATTCC
1 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
43255446 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
1 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
43255487 TATAAGACCCTGTCTGGGACAGTGACATCGATATA
1 TATAAGACCCTGTCTGGGACAGTGACATCG-TATA
43255522 CGCTAACATG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 68 0.94
42 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
Found at i:43261897 original size:30 final size:30
Alignment explanation
Indices: 43261784--43262061 Score: 304
Period size: 30 Copynumber: 8.9 Consensus size: 30
43261774 GTATGTGTTT
* *
43261784 TATATATTGTCGAATTGATTTGTATATGGAAA
1 TATACATTGCCGAATTGATTTGTATATGG--A
* * *
43261816 TACATACATTGCCGAATTTATTTATATATAGA
1 T--ATACATTGCCGAATTGATTTGTATATGGA
* *
43261848 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
*
43261880 TATACATTGCTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
43261910 TAGACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
43261940 TATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATACATTGCCGAATTGATTTGTATATG----GA
*
43261974 TATATATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
43262004 TATACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
43262034 TATATATTGCTGAAATGATTTGTATATG
1 TATACATTGCCGAATTGATTTGTATATG
43262062 TTTACATATA
Statistics
Matches: 209, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
30 131 0.63
32 26 0.12
34 52 0.25
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:43261998 original size:94 final size:93
Alignment explanation
Indices: 43261784--43262089 Score: 384
Period size: 94 Copynumber: 3.2 Consensus size: 93
43261774 GTATGTGTTT
* * * *
43261784 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTACAT-G-T
* * *
43261849 GTATATATAGCCGAATTGATTTGTATATG---GA
60 ATATATATTGCCGAATTGATTTGTATATGTTACA
* * * *
43261880 TATACATTGCTGAATTGATTTGTATATGGATAGACATTGCCGAATTGATTTGTACATGTATATAC
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
43261945 ATTGCCGAATTGATTTGTATATGTTCACA
66 ATTGCCGAATTGATTTGTATATGTT-ACA
43261974 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
* *
43262039 ATTGCTGAAATGATTTGTATATGTTTACA
66 ATTGCCGAATTGATTTGTATATG-TTACA
* *
43262068 TATATTTTGTCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
43262090 AGCATAGGAT
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
90 27 0.15
91 1 0.01
92 22 0.12
94 108 0.58
95 2 0.01
96 26 0.14
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (93 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
ATTGCCGAATTGATTTGTATATGTTACA
Found at i:43262071 original size:64 final size:61
Alignment explanation
Indices: 43261784--43262061 Score: 335
Period size: 60 Copynumber: 4.5 Consensus size: 61
43261774 GTATGTGTTT
* * *
43261784 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTATAT-GAT
*
43261849 G
61 A
* * *
43261850 TATATATAGCCGAATTGATTTGTATATGGATATACATTGCTGAATTGATTTGTATATG-GA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* * * * *
43261910 TAGACATTGCCGAATTGATTTGTACATGTATATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATG---ATA
*
43261974 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATG-TA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* *
43262034 TATATATTGCTGAAATGATTTGTATATG
1 TATATATTGCCGAATTGATTTGTATATG
43262062 TTTACATATA
Statistics
Matches: 186, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
60 79 0.42
61 1 0.01
62 23 0.12
64 56 0.30
66 27 0.15
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (61 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
Found at i:43265169 original size:11 final size:11
Alignment explanation
Indices: 43265153--43265196 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
43265143 TCATTAATAA
43265153 ATAAACGAGTC
1 ATAAACGAGTC
43265164 ATAAACGAGTC
1 ATAAACGAGTC
* *
43265175 AATAAACAAGCTT
1 -ATAAACGAG-TC
43265188 ATAAACGAG
1 ATAAACGAG
43265197 CTTGTTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.39
12 16 0.57
13 1 0.04
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (11 bp):
ATAAACGAGTC
Found at i:43265181 original size:12 final size:12
Alignment explanation
Indices: 43265152--43265181 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
43265142 ATCATTAATA
43265152 AATAAACGAGTC
1 AATAAACGAGTC
43265164 -ATAAACGAGTC
1 AATAAACGAGTC
43265175 AATAAAC
1 AATAAAC
43265182 AAGCTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:43265818 original size:20 final size:17
Alignment explanation
Indices: 43265793--43265834 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
43265783 TTAGCTTCAA
43265793 TTTAATTTTTATTACTTATT
1 TTTAATTTTT-TTA-TT-TT
43265813 TTTAATTTTTTTATTTT
1 TTTAATTTTTTTATTTT
43265830 TTTAA
1 TTTAA
43265835 AATCAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 3 0.14
20 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAATTTTTTTATTTT
Found at i:43267690 original size:16 final size:16
Alignment explanation
Indices: 43267669--43267707 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
43267659 GTTTGGTTCC
*
43267669 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
43267685 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
43267701 CTGTAAT
1 CTGTAAT
43267708 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:43267925 original size:58 final size:57
Alignment explanation
Indices: 43267874--43267997 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 57
43267864 TTTTAATAAG
43267874 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACCATATTTTAACATA
* * ** * *
43267932 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATT-TTAACATA
43267990 ATTATTAT
1 ATTATTAT
43267998 ATGAATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATTTTAACATA
Found at i:43272765 original size:12 final size:12
Alignment explanation
Indices: 43272736--43272773 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43272726 AATTATTATC
43272736 ATATA-ATAATA
1 ATATATATAATA
* *
43272747 ATTTATATAAAA
1 ATATATATAATA
43272759 ATATATATAATA
1 ATATATATAATA
43272771 ATA
1 ATA
43272774 ATGTATGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATAATA
Found at i:43272991 original size:21 final size:22
Alignment explanation
Indices: 43272943--43272992 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
43272933 TAAATAATGA
*
43272943 TATGATAAGTTTAAATAGTACT
1 TATGATAAGTTTAAATAGTACG
*
43272965 TATGATAATTTTAAATTA-TA-G
1 TATGATAAGTTTAAA-TAGTACG
43272986 TATGATA
1 TATGATA
43272993 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 16 0.64
23 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (22 bp):
TATGATAAGTTTAAATAGTACG
Found at i:43273000 original size:41 final size:42
Alignment explanation
Indices: 43272913--43273020 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 42
43272903 ACACACTAAA
*
43272913 AAAATAGTAC-ATGATAAATCTAAATAATGATATGATAAGTT
1 AAAATAGTACTATGATAAATTTAAATAATGATATGATAAGTT
* * *
43272954 TAAATAGTACTTATGATAATTTTAAATTAT-AGTATGAT-A-TT
1 AAAATAGTAC-TATGATAAATTTAAATAATGA-TATGATAAGTT
**
43272995 AAAATAAAACTAATGATAAATTTAAA
1 AAAATAGTACT-ATGATAAATTTAAA
43273021 ACAATGTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 31 0.56
42 2 0.04
43 21 0.38
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (42 bp):
AAAATAGTACTATGATAAATTTAAATAATGATATGATAAGTT
Found at i:43276858 original size:19 final size:18
Alignment explanation
Indices: 43276830--43276866 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
43276820 AGATAAAGTG
*
43276830 GGCTATGTCTCGAGACAT
1 GGCTATGTCTCGAAACAT
43276848 GGCTCATGTCTCGAAACAT
1 GGCT-ATGTCTCGAAACAT
43276867 TCAAAGTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (18 bp):
GGCTATGTCTCGAAACAT
Found at i:43277254 original size:24 final size:24
Alignment explanation
Indices: 43277219--43277268 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
43277209 TAAACTACAT
*
43277219 AGCATTACTAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
43277243 AGCATTAATAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
43277267 AG
1 AG
43277269 AAGCTCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (24 bp):
AGCATTAATAGACAAGATCCAAAG
Found at i:43307497 original size:108 final size:107
Alignment explanation
Indices: 43307239--43307978 Score: 1014
Period size: 109 Copynumber: 7.0 Consensus size: 107
43307229 AAAGAAAAAC
* * *
43307239 AAAAAAAAAATTTGGATGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTAAAAAAAA-----
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
* * *
43307299 --ATTT-GTGTCAGAGTCAGATATCAATATACGAAAAAAA-T
66 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* *
43307337 ---AAAAAAATTT-TGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
* *
43307398 TTTTTTCGTATTAGAA-CTAGATATCAGTATACGAAAAAAATT
66 TTTTTTCGTGTCAGAATC-AGATATCAGTATACGAAAAAAATT
* * *
43307440 AAAAAAAAAATTTTGGGTGTTGTCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATTC
1 AAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAATTC
* *
43307505 TTTTTTTTCATGTCAGAATCAGATATTAGTATACGAAAAAAATTTT
64 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAA--TT
* *
43307551 AAAAAAAAATTTTGGTTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
*
43307616 TTTTTTCGTGTCAAAATCAGATATCAGTATACGAAAAAAA-T
66 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* * *
43307657 -AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCTAGTA-AAATTTAAAAAAAAATCT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAAAAAATTCT
*
43307720 TTTTTTTCGTGTCAGAATCAGATATCAGTTTACG-AAAAAATT
65 TTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* *
43307762 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTATAAATTAAAAAAAATTCTC
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-T-TC
*
43307827 TTTTTTTTCATGTCAGAATCAGATATCAGTATACGAAAAAAATT
64 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
43307871 AAAAAAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTC
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-T-TC
*
43307935 TTTTTTTTTCGTGTCAGAATCAAATATCAGTATACGAAAAAAAT
64 -TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
43307979 AAACATAATT
Statistics
Matches: 575, Mismatches: 40, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
94 43 0.07
95 10 0.02
101 4 0.01
102 27 0.05
103 1 0.00
104 9 0.02
105 87 0.15
106 60 0.10
107 6 0.01
108 122 0.21
109 156 0.27
110 39 0.07
111 11 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (107 bp):
AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
Found at i:43308307 original size:107 final size:100
Alignment explanation
Indices: 43308173--43308697 Score: 697
Period size: 100 Copynumber: 5.1 Consensus size: 100
43308163 TATAATTATG
*
43308173 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAGACATTTTTTTTAATTTGTA
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAA-A-A----TTTTAAATTGTA
43308238 CTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAAAAATT
60 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAAAAAAATT
*
43308280 TTTATTTTTTTCGTATATTGATATCTGATTCTGACACGAAAAAAAAAA-TTT-AATTGTACTGGG
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACAC-AAAAAAAAAATTTTAAATTGTACTGGG
* *
43308343 TGCCGGCCATTGACAGGCCAGCACTCAAAAAAATTTT
65 TGCCGGCCATTGACAGGCCAGCACCCAAAAAAA-ATT
*
43308380 TTTATTTTTTTCGTATACTGATATCTGATTCTGACAC--AAAAAAAATTTTAATTTGTACT-GGT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
43308442 GCCGGCCATTGACAGGCCAGCA-CCAAAAAAAATT
66 GCCGGCCATTGACAGGCCAGCACCCAAAAAAAATT
* * *
43308476 TTAATTTTTTTCGTATACTGATATCTGATTCTAACGCGAAAAAAAAAGAAAAAAATTTTAAATTG
1 TTTATTTTTTTCGTATACTGATATCTGATTCT-----G--ACACAAA-AAAAAAATTTTAAATTG
43308541 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTT
58 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA--TT
* *
43308586 TTTATTTTTTTCGTATACTGATATCTAACTCTGACAC-AAAAAAAAA-TTTAAATTGTACTGGGT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
*
43308649 GCCGGCCATTAACAGGCCAGCACCCAAAAAACAATT
66 GCCGGCCATTGACAGGCCAGCACCCAAAAAA-AATT
*
43308685 TTTTTTGTTTTTC
1 TTTATT-TTTTTC
43308698 TTTTTTTCCC
Statistics
Matches: 379, Mismatches: 19, Indels: 47
0.85 0.04 0.11
Matches are distributed among these distances:
96 33 0.09
97 16 0.04
98 28 0.07
99 24 0.06
100 125 0.33
101 13 0.03
102 2 0.01
103 4 0.01
105 2 0.01
106 21 0.06
107 62 0.16
108 18 0.05
110 31 0.08
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (100 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
GCCGGCCATTGACAGGCCAGCACCCAAAAAAAATT
Found at i:43316672 original size:12 final size:13
Alignment explanation
Indices: 43316655--43316691 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
43316645 ACTATCAAGA
43316655 TAAATTTTAA-AT
1 TAAATTTTAATAT
43316667 TAAA-TTTAATAT
1 TAAATTTTAATAT
43316679 TAAATTTATAATA
1 TAAATTT-TAATA
43316692 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 10 0.45
13 2 0.09
14 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTTAATAT
Found at i:43317259 original size:20 final size:22
Alignment explanation
Indices: 43317215--43317259 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
43317205 TCTAGTTAAG
* *
43317215 CAATTCTCACGATTGACTAATT
1 CAATTCTCACGATTGAATAAAT
43317237 CAATTC-CAC-ATTGAATAAAT
1 CAATTCTCACGATTGAATAAAT
43317257 CAA
1 CAA
43317260 CTCAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 3 0.14
22 6 0.29
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
CAATTCTCACGATTGAATAAAT
Found at i:43319737 original size:23 final size:22
Alignment explanation
Indices: 43319694--43319749 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
43319684 GAAAGGTATC
* *
43319694 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
43319715 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
43319738 TACATATCATAT
1 TACAAATCATAT
43319750 TTACCATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:43324853 original size:22 final size:21
Alignment explanation
Indices: 43324818--43324875 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
43324808 GAAAGGTATC
* *
43324818 TACAAATCAAATCTCAAAGAT
1 TACAAATTATATCTCAAAGAT
*
43324839 TACAAAATTATATCTTCTAAGAT
1 TAC-AAATTATATC-TCAAAGAT
*
43324862 TACACATTATATCT
1 TACAAATTATATCT
43324876 ACGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (21 bp):
TACAAATTATATCTCAAAGAT
Found at i:43333570 original size:16 final size:18
Alignment explanation
Indices: 43333536--43333573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43333526 TTTAATATTT
43333536 AAAAATGAATATTACAAA
1 AAAAATGAATATTACAAA
*
43333554 AAAAATGTATA-TA-AAA
1 AAAAATGAATATTACAAA
43333570 AAAA
1 AAAA
43333574 GTCTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATGAATATTACAAA
Found at i:43335113 original size:5 final size:5
Alignment explanation
Indices: 43335104--43335138 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
43335094 AAACAACTGT
* *
43335104 ACTCT ACTCT ACTCA ACTCA ACTCA ACTCA ACTCA
1 ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA
43335139 GCGCCATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (5 bp):
ACTCA
Found at i:43338420 original size:220 final size:218
Alignment explanation
Indices: 43338053--43338641 Score: 905
Period size: 220 Copynumber: 2.7 Consensus size: 218
43338043 CCTTCATTTG
* * * * *
43338053 TTAGCATTTTTTTTATCATCATCGATCCAAGATTGCTGCTCAACCAACCATCTATTTTGCAGGGG
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAA-CATC-AATTTGCAGGGA
*
43338118 CCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
43338183 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
43338248 AAGATTGTTGTTTTCCCATCAATCC
194 AAGATTGTTGTTTTCCCATCAATCC
* *
43338273 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACTAACTATCAAATTTGCAGGGT
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAAC-ATC-AATTTGCAGGGA
*
43338338 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGCTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
* *
43338403 TTGTTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGGTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
43338468 AAGATTGTTGTTTTCCCATCAATCC
194 AAGATTGTTGTTTTCCCATCAATCC
* *
43338493 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGTTGCTCAACCAAC--C-A---GTA---ATC
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
** *
43338549 T--TGCGCTTAGGATTTGAAAGATTCAAATATATTTGTTATCATCTTTTATCCTAGTTTTGAATT
66 TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
*
43338612 ATTGTTTTATC-TATCTTTATTTTAAATGTA
131 ATTGTTTTATCTTATCTTTATTCTAAATGTA
43338642 TTATCTTTAC
Statistics
Matches: 347, Mismatches: 21, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
206 18 0.05
207 68 0.20
209 3 0.01
212 2 0.01
215 1 0.00
217 1 0.00
219 1 0.00
220 253 0.73
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (218 bp):
TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
ATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTCAA
GATTGTTGTTTTCCCATCAATCC
Found at i:43347668 original size:29 final size:29
Alignment explanation
Indices: 43347623--43347684 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
43347613 ATATATTTCT
43347623 TTGTTCTCTTTTCTCTCACTGTGAGATCC
1 TTGTTCTCTTTTCTCTCACTGTGAGATCC
*
43347652 TTGTTCTCTTTTTTCTCACTGTGAGATCC
1 TTGTTCTCTTTTCTCTCACTGTGAGATCC
43347681 TTGT
1 TTGT
43347685 CAAAATGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.10, C:0.24, G:0.15, T:0.52
Consensus pattern (29 bp):
TTGTTCTCTTTTCTCTCACTGTGAGATCC
Found at i:43348127 original size:15 final size:15
Alignment explanation
Indices: 43348109--43348138 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43348099 TGAAAACATT
43348109 TTTTTTTAAAAAGTA
1 TTTTTTTAAAAAGTA
*
43348124 TTTTTTTTAAAAGTA
1 TTTTTTTAAAAAGTA
43348139 CTTGATGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTTTTAAAAAGTA
Found at i:43361528 original size:28 final size:28
Alignment explanation
Indices: 43361495--43361555 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
43361485 GTTTAAACCA
43361495 AAATTTTTAAATTAAAAAATAAAAAAAT
1 AAATTTTTAAATTAAAAAATAAAAAAAT
* *** *
43361523 AAATTTTTAACTTTTTAAATATAAAAAT
1 AAATTTTTAAATTAAAAAATAAAAAAAT
43361551 AAATT
1 AAATT
43361556 CTCAAATTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATTTTTAAATTAAAAAATAAAAAAAT
Found at i:43364016 original size:31 final size:29
Alignment explanation
Indices: 43363951--43364019 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
43363941 ACGATAACGT
* *
43363951 AAGTGACTAAAATGTAATATTTCAAACAT
1 AAGTGACTAAAATGTAATATTGCAAACAA
*
43363980 TAGTGACTAAAATGTAAT-TTGAAGCAAACAA
1 AAGTGACTAAAATGTAATATT---GCAAACAA
43364011 AAGTGACTA
1 AAGTGACTA
43364020 CTTTTGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATTGCAAACAA
Found at i:43365284 original size:26 final size:28
Alignment explanation
Indices: 43365237--43365290 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
43365227 GCCCATTTTT
*
43365237 TAATAAACATTAAAAATTTATTTTAAAAA
1 TAATAAACAATAAAAA-TTATTTTAAAAA
43365266 TAATAAA-AATAAAAA-TATTTTAAAA
1 TAATAAACAATAAAAATTATTTTAAAA
43365291 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
28 7 0.29
29 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TAATAAACAATAAAAATTATTTTAAAAA
Found at i:43366221 original size:16 final size:16
Alignment explanation
Indices: 43366187--43366239 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
43366177 ATGGCATCAG
43366187 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
43366203 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
43366219 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
43366235 TCATG
1 TCATG
43366240 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:43367427 original size:17 final size:17
Alignment explanation
Indices: 43367407--43367451 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
43367397 CTTTCTTTCC
43367407 CTTTTTTCTTTTTCTTT
1 CTTTTTTCTTTTTCTTT
* *
43367424 CTTTCTTCTTTTTGTTT
1 CTTTTTTCTTTTTCTTT
* *
43367441 CGTTTTGCTTT
1 CTTTTTTCTTT
43367452 GTTTCTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.76
Consensus pattern (17 bp):
CTTTTTTCTTTTTCTTT
Found at i:43372020 original size:6 final size:6
Alignment explanation
Indices: 43372009--43372034 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43371999 AAAGAATCAA
43372009 GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GT
43372035 CTATACTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:43376094 original size:16 final size:17
Alignment explanation
Indices: 43376073--43376114 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
43376063 TTTTATGTGT
43376073 TATAAAATATATA-AT-A
1 TATAAAATATA-ACATAA
43376089 TATAAAA-ATAACATAA
1 TATAAAATATAACATAA
43376105 TATAAAATAT
1 TATAAAATAT
43376115 TAAAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 5 0.22
16 15 0.65
17 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAATATAACATAA
Found at i:43376843 original size:27 final size:26
Alignment explanation
Indices: 43376807--43376858 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
43376797 TTTCTTAAGT
* *
43376807 TGGTATCTAAACTTTTTCTGTCATTAG
1 TGGTACCTAAACTATTTCT-TCATTAG
43376834 TGGTACCTAAACTATTTCTTCATTA
1 TGGTACCTAAACTATTTCTTCATTA
43376859 CCATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (26 bp):
TGGTACCTAAACTATTTCTTCATTAG
Found at i:43383085 original size:23 final size:22
Alignment explanation
Indices: 43383055--43383110 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
43383045 TTTAGTATGG
43383055 AAAATAGAAAGAA-GCAAAGAAA
1 AAAATAGAAA-AATGCAAAGAAA
*
43383077 AATAATAGAGAAAATGCAGAGAAA
1 AA-AATAGA-AAAATGCAAAGAAA
*
43383101 AAAAAAGAAA
1 AAAATAGAAA
43383111 TAAATAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 13 0.45
24 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (22 bp):
AAAATAGAAAAATGCAAAGAAA
Found at i:43383392 original size:15 final size:15
Alignment explanation
Indices: 43383372--43383406 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
43383362 GGAGGAGTGG
43383372 ACGTGGTGGTGGCGC
1 ACGTGGTGGTGGCGC
43383387 ACGTGGTGGTGGCGC
1 ACGTGGTGGTGGCGC
43383402 ACGTG
1 ACGTG
43383407 TGATGGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (15 bp):
ACGTGGTGGTGGCGC
Found at i:43387733 original size:35 final size:35
Alignment explanation
Indices: 43387694--43387766 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
43387684 TACGTTTTAA
43387694 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
43387729 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
43387764 TGA
1 TGA
43387767 GTCGTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (35 bp):
TGACTTACATTAACATGTTGTAATATTTTAGTAAC
Found at i:43389585 original size:29 final size:30
Alignment explanation
Indices: 43389548--43389606 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
43389538 TATGGTTTAA
*
43389548 TGTGTAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
43389577 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
43389607 GATCTAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:43390905 original size:21 final size:22
Alignment explanation
Indices: 43390871--43390911 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
43390861 TCATGTCAAC
*
43390871 AAATAATTTAAAATTTATAAAA
1 AAATAATTCAAAATTTATAAAA
43390893 AAAT-ATTCAAAATTTATAA
1 AAATAATTCAAAATTTATAA
43390912 CTATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAATTCAAAATTTATAAAA
Found at i:43393677 original size:41 final size:42
Alignment explanation
Indices: 43393561--43393677 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 42
43393551 TTGTATAAAA
* *
43393561 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
* *
43393602 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAATTA-A-TT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
*
43393643 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAA
43393678 AATCTCAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 60 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:43393846 original size:64 final size:67
Alignment explanation
Indices: 43393722--43393874 Score: 197
Period size: 64 Copynumber: 2.3 Consensus size: 67
43393712 TACAACATTA
* * *
43393722 AAATTCAGTTCAAAGAA-TTTGTAACCTATATTCGAACCATACACATATGTATGTAAAATTCATA
1 AAATTCAGCTC-AAGAACTTTATAACCTATATTCGAA-CATACACATATGTATATAAAATTCATA
43393786 AATT
64 AATT
* * *
43393790 AAATTCAGCTCAAGAACTTTATAACCTATATTTG-A-AT-CACATATGTATATAAAATTCGTACA
1 AAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATGTATATAAAATTCATAAA
43393852 TT
66 TT
*
43393854 AATTTCAGCTCAAGAACTTTA
1 AAATTCAGCTCAAGAACTTTA
43393875 AAATATATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
64 44 0.57
65 2 0.03
67 6 0.08
68 25 0.32
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (67 bp):
AAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATGTATATAAAATTCATAAA
TT
Found at i:43394020 original size:60 final size:60
Alignment explanation
Indices: 43393901--43394025 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
43393891 ACCGTATGTG
* * * **
43393901 TATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTCAACTA
1 TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
* *
43393961 TATATATATAATTCATAACT-TTAAATTCAACTC-ATGAAATTAAATCTTACATTCGAACTA
1 TATATATATAATTCATAA-TATTAAATTCAACTCAAAGAAATTAAATCATACATTC-AACTA
*
43394021 CATAT
1 TATAT
43394026 CCATGTAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 16 0.29
60 38 0.69
61 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (60 bp):
TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
Found at i:43394516 original size:41 final size:42
Alignment explanation
Indices: 43394400--43394516 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 42
43394390 TTGCATAAAA
*
43394400 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAATACATTT
* * *
43394441 CACCGGCATAAAGCCTGCTAGACATCAAGTCTGAATTA-A-TT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
* * *
43394482 CACCGGCATCAAGCCTGCTAGGCATTAGGCCTGAA
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAA
43394517 AATCTCAGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 61 0.94
42 2 0.03
43 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (42 bp):
CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:43398594 original size:10 final size:10
Alignment explanation
Indices: 43398579--43398606 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43398569 TATATGCATA
43398579 ATATATATCT
1 ATATATATCT
43398589 ATATATATCT
1 ATATATATCT
43398599 ATATATAT
1 ATATATAT
43398607 ATTCATCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATCT
Found at i:43401920 original size:90 final size:90
Alignment explanation
Indices: 43401767--43401945 Score: 349
Period size: 90 Copynumber: 2.0 Consensus size: 90
43401757 TTTTCTTAAG
43401767 TAAATCTTATCTTAACCGAATGTATATGTATATATATTCAAAGTGTCATTCAATTCAAAGACATA
1 TAAATCTTATCTTAACCGAATGTATATGTATATATATTCAAAGTGTCATTCAATTCAAAGACATA
43401832 ATATCATTATATATCCGAATATATA
66 ATATCATTATATATCCGAATATATA
43401857 TAAATCTTATCTTAACCGAATGTATATGTATATATATTCAAAGTGTCATTCAATTCAAAGACATA
1 TAAATCTTATCTTAACCGAATGTATATGTATATATATTCAAAGTGTCATTCAATTCAAAGACATA
*
43401922 ATATCATTATATATTCGAATATAT
66 ATATCATTATATATCCGAATATAT
43401946 CTTTACACAC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.39
Consensus pattern (90 bp):
TAAATCTTATCTTAACCGAATGTATATGTATATATATTCAAAGTGTCATTCAATTCAAAGACATA
ATATCATTATATATCCGAATATATA
Found at i:43402325 original size:41 final size:45
Alignment explanation
Indices: 43402267--43402364 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 45
43402257 ATGCTATCTC
* *
43402267 ATATCGATGCCACTGTCCTAGACAAGGTCTTATACG-AATCA-A-
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
*
43402309 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
43402353 ATATCGATGCCA
1 ATATCGATGCCA
43402365 TCATCCCAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 29 0.59
42 8 0.16
43 1 0.02
44 3 0.06
45 8 0.16
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
Found at i:43402381 original size:45 final size:44
Alignment explanation
Indices: 43402240--43402388 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 44
43402230 ATGCCAATGC
* * *
43402240 CCCAGACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGT
1 CCCAGACATGGTCTTACACG-TAATCACAATATCGATGCCATC-GT
* * *
43402283 CCTAGACAAGGTCTTATACG-AATCA-AATA-CGATGCCAAT-GT
1 CCCAGACATGGTCTTACACGTAATCACAATATCGATGCC-ATCGT
* *
43402324 CCTAGACATGGTCTTACACGTAATCACATATATCGATGCCATCAT
1 CCCAGACATGGTCTTACACGTAATCACA-ATATCGATGCCATCGT
* *
43402369 CCCAGACGTGGTCTTCCACG
1 CCCAGACATGGTCTTACACG
43402389 AGAACACATA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 27 0.32
42 12 0.14
43 16 0.19
44 5 0.06
45 25 0.29
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (44 bp):
CCCAGACATGGTCTTACACGTAATCACAATATCGATGCCATCGT
Found at i:43405151 original size:19 final size:21
Alignment explanation
Indices: 43405108--43405161 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
43405098 TGCCTCTTTT
43405108 TGCATT-CATTTCATACATCA
1 TGCATTACATTTCATACATCA
*
43405128 -ACATTACATTTCAT-CAT-A
1 TGCATTACATTTCATACATCA
* *
43405146 TGCATTAAATTCCATA
1 TGCATTACATTTCATA
43405162 AAAAGACCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (21 bp):
TGCATTACATTTCATACATCA
Found at i:43406205 original size:110 final size:109
Alignment explanation
Indices: 43405985--43406277 Score: 435
Period size: 110 Copynumber: 2.7 Consensus size: 109
43405975 GTCAATCGAG
* * * * * *
43405985 AAATCGAAACTCAGCACATTAGGGCACG-TTTCTCGGATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
43406049 TTGAAATTTTTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TT-AAA--ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
43406096 AAATTGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTACCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
43406161 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
43406206 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTAT
43406271 TTTAAAA
65 TTTAAAA
43406278 AAATTTCCTC
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
110 102 0.61
111 26 0.16
112 14 0.08
113 24 0.14
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:43406429 original size:18 final size:18
Alignment explanation
Indices: 43406406--43406445 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
43406396 CATAACAAAT
43406406 AAATAAA-TAAATAAATAA
1 AAATAAACTAAA-AAATAA
*
43406424 AAATAAACTAAAACATAA
1 AAATAAACTAAAAAATAA
43406442 AAAT
1 AAAT
43406446 GGACATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAACTAAAAAATAA
Found at i:43406788 original size:14 final size:15
Alignment explanation
Indices: 43406764--43406792 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43406754 AGTAAGATGA
43406764 AAAATATATACATAT
1 AAAATATATACATAT
43406779 AAAA-ATATACATAT
1 AAAATATATACATAT
43406793 TTTAATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATATACATAT
Found at i:43407043 original size:15 final size:15
Alignment explanation
Indices: 43407025--43407063 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
43407015 ATAAAACTAC
**
43407025 TAATAATACTTATAA
1 TAATAATAAATATAA
*
43407040 TAATAGTAAATATAA
1 TAATAATAAATATAA
43407055 TAATAATAA
1 TAATAATAA
43407064 TAAAAGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:43416734 original size:45 final size:45
Alignment explanation
Indices: 43416584--43417167 Score: 557
Period size: 45 Copynumber: 12.8 Consensus size: 45
43416574 CATCGTGGTG
* *
43416584 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
43416628 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT-AAAACAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* *
43416672 AATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
43416717 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----A-TAACA
* * * *
43416768 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-ACA
* * *
43416813 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * ***
43416858 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
43416903 AATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A---ACA
* * ***
43416954 AATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAGACAGTG
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGATAACA
* *
43416999 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAG-TTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
43417043 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
43417088 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGACATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * *
43417133 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
43417168 AAAGCTACAA
Statistics
Matches: 435, Mismatches: 86, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.00
44 102 0.23
45 256 0.59
46 3 0.01
47 2 0.00
48 2 0.00
49 1 0.00
50 2 0.00
51 65 0.15
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
Found at i:43416860 original size:141 final size:138
Alignment explanation
Indices: 43416584--43417221 Score: 606
Period size: 141 Copynumber: 4.6 Consensus size: 138
43416574 CATCGTGGTG
* *
43416584 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT----AAAGCTACAAATCTTATCTCCCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * *
43416645 GTTGTAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
43416709 AGATAACA
131 AGACAGCA
* * * *
43416717 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
* * *
43416782 GAAGTTGTAGTGGAGTAGATTGAAAATAGA-AAATCTTATTTCCCTGAAGTTGCAGTGAAGCAGA
63 AAAGTTGCAGTGGAGTAGATTGAAAATA-ACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
*
43416846 TTGAAGATAGCA
127 TTGAAGACAGCA
* * * * * * * *
43416858 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG-T--GAATTTTATCTCCTTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* **
43416920 GTTACAGTGGAACAGATT-AAAGCTATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGT-AGA
66 GTTGCAGTGGAGTAGATTGAAA---AT-A---ACAAATCTTATCTCCCTGAAGTTGC-AGTGA-A
**
43416982 GCAGATTGAAGACAGTG
122 GCAGATTGAAGACAGCA
* * * *
43416999 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATT---G-AAGTTACAAATCTCATCTCCCTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * *
43417060 GTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
43417125 AGACATCG
131 AGACAGCA
* * * *
43417133 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACTAATCTTATCCCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
*
43417198 AAAGTTGCAGTGCAGTAGATTGAA
63 AAAGTTGCAGTGGAGTAGATTGAA
43417222 GCAACAAATC
Statistics
Matches: 411, Mismatches: 63, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
133 31 0.08
134 75 0.18
135 28 0.07
137 7 0.02
138 7 0.02
139 2 0.00
140 69 0.17
141 191 0.46
142 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
AGACAGCA
Found at i:43416894 original size:186 final size:185
Alignment explanation
Indices: 43416587--43417122 Score: 691
Period size: 186 Copynumber: 2.9 Consensus size: 185
43416577 CGTGGTGAAT
* * * *
43416587 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CAAATCTTATCTCCCTAAAGTTGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-ATAGAAAATCTTATCTCCCTAAAGTTGC
* * * *
43416650 AGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATA
65 AGTGGAGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATA
* * *
43416714 ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
129 ACGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * *
43416771 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGAAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* * * *
43416836 GTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG
66 GTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAA
* * * * * * *
43416901 TGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACAAAT
130 CGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * * * ** *
43416957 CTTATCTCCCTGAAGTTCTAGTAGAGCAGATTGAAGACAGTGAATCTTATCTCCCTCAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* *
43417022 GTGGAGCAGATTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
66 GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
* * *
43417087 GAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATT
131 GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATT
43417123 GAAGACATCG
Statistics
Matches: 301, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
184 32 0.11
185 107 0.36
186 162 0.54
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (185 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
Found at i:43417058 original size:230 final size:233
Alignment explanation
Indices: 43416584--43417208 Score: 700
Period size: 230 Copynumber: 2.7 Consensus size: 233
43416574 CATCGTGGTG
* * *
43416584 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* ** * * ** *
43416649 TAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAG--
66 TAGTGGAGCAGATTGAAGAC-ATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCT
* * * *
43416711 AT-A---ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACC
130 ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGC-ACAAGTTA-AAACC
* * *
43416772 TTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGAA
193 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
* *
43416813 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * *
43416878 GTAATGGAGCAGATTGAAGATAGTGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACA-TGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
43416943 TATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAG-AC-AG-T-GAATC
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGC-AGTAGAACAGATTAAAGCACAAGTTAAAACC
** *
43417003 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
193 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
* * * * *
43417043 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTT
* *
43417108 GCAGTGGAGCAGATTGAAGACATCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACAT-GAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
43417173 TACAAGTTACTAATCTTATCCCCCTAAAGTTGCAGT
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGT
43417209 GCAGTAGATT
Statistics
Matches: 333, Mismatches: 50, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
229 39 0.12
230 179 0.54
231 72 0.22
233 3 0.01
234 3 0.01
235 2 0.01
236 1 0.00
237 34 0.10
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (233 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
TAGTGGAGCAGATTGAAGACATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA
TAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCACAAGTTAAAACCTTA
TCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
Found at i:43421087 original size:22 final size:22
Alignment explanation
Indices: 43421050--43421104 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 22
43421040 ACTTAATATT
43421050 TAAGTATATATATAAT-ATAAT-AA
1 TAAGTA-A-ATATAATCA-AATAAA
43421073 TAAAGTAAATATAATCAAATAAA
1 T-AAGTAAATATAATCAAATAAA
43421096 TAAGTAAAT
1 TAAGTAAAT
43421105 GAAATAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAGTAAATATAATCAAATAAA
Found at i:43421202 original size:4 final size:4
Alignment explanation
Indices: 43421105--43421191 Score: 54
Period size: 4 Copynumber: 22.0 Consensus size: 4
43421095 ATAAGTAAAT
* * * *
43421105 GAAA TAAA GAAA GAAA GAAA GAAA AAAA GAATT GAAA G-AA CAAA GCAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA G-AAA
* * * * *
43421154 -AAC GAAA CAGA GAAG GAAA GAAA GAAA -AAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
43421192 AGGAGAAAGA
Statistics
Matches: 60, Mismatches: 18, Indels: 10
0.68 0.20 0.11
Matches are distributed among these distances:
3 6 0.10
4 48 0.80
5 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.22, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:43421635 original size:41 final size:42
Alignment explanation
Indices: 43421554--43421637 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
43421544 GAGTTCAGAG
*
43421554 ATTACTTCGACTTCAAGTCGATGAGACACATGGTGTCAATTT
1 ATTACTTCGACTTCAAGTCGATGAGACACATGGTGCCAATTT
* *
43421596 ATTACTTCGGA-TT-AATTCGATGAGGCAC-TAGGTGCCAATTT
1 ATTACTTC-GACTTCAAGTCGATGAGACACAT-GGTGCCAATTT
43421637 A
1 A
43421638 CTTCGGTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
40 1 0.03
41 24 0.65
42 10 0.27
43 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTACTTCGACTTCAAGTCGATGAGACACATGGTGCCAATTT
Found at i:43421915 original size:14 final size:15
Alignment explanation
Indices: 43421896--43421924 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43421886 GAATTGAATA
43421896 TGTTATGAA-TGATT
1 TGTTATGAACTGATT
43421910 TGTTATGAACTGATT
1 TGTTATGAACTGATT
43421925 AATTGAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTTATGAACTGATT
Found at i:43436377 original size:24 final size:25
Alignment explanation
Indices: 43436322--43436383 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
43436312 TACAAGCCCT
* *
43436322 TTCA-AGCTTCTCGTTATAGTGTTC
1 TTCAGAGCTTCTCGTTATAATGCTC
43436346 TTGC-GAGCTTCTCGTTA-AATGCTC
1 TT-CAGAGCTTCTCGTTATAATGCTC
*
43436370 TTCAGAGCATCTCG
1 TTCAGAGCTTCTCG
43436384 ATCAGTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 1 0.03
24 18 0.56
25 13 0.41
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
TTCAGAGCTTCTCGTTATAATGCTC
Found at i:43436574 original size:24 final size:25
Alignment explanation
Indices: 43436547--43436594 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
43436537 CCGTTAATTG
43436547 CTCTTTG-GAGCTACCCATTATAGA
1 CTCTTTGTGAGCTACCCATTATAGA
* *
43436571 CTCTTTGTGAGCTTCCCGTTATAG
1 CTCTTTGTGAGCTACCCATTATAG
43436595 TGCTTGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
CTCTTTGTGAGCTACCCATTATAGA
Found at i:43436592 original size:25 final size:24
Alignment explanation
Indices: 43436421--43436594 Score: 72
Period size: 26 Copynumber: 7.1 Consensus size: 24
43436411 GGCACACCGC
* *
43436421 AGCTC-TTATGAGCGTCCCGTTATAT
1 AGCTCTTTGTGAGCTTCCCG-T-TAT
* * *
43436446 AACTCTTCGTGAGCTTCCCGATTAA
1 AGCTCTTTGTGAGCTTCCCG-TTAT
*
43436471 AGGCTCTTTGTGAGCTTCCTGTTAGT
1 A-GCTCTTTGTGAGCTTCCCGTTA-T
** *
43436497 -GCTCGCT-TGAACTTCCCGTTAT
1 AGCTCTTTGTGAGCTTCCCGTTAT
* * **
43436519 ATG-GCTATCCG-GCGTTACCCGTTAAT
1 A-GCTCTTTGTGAGC-TT-CCCGTT-AT
* * *
43436545 TGCTCTTTG-GAGCTACCCATTAT
1 AGCTCTTTGTGAGCTTCCCGTTAT
43436568 AGACTCTTTGTGAGCTTCCCGTTAT
1 AG-CTCTTTGTGAGCTTCCCGTTAT
43436593 AG
1 AG
43436595 TGCTTGAAAG
Statistics
Matches: 108, Mismatches: 28, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
22 1 0.01
23 18 0.17
24 21 0.19
25 33 0.31
26 35 0.32
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
AGCTCTTTGTGAGCTTCCCGTTAT
Found at i:43440413 original size:60 final size:60
Alignment explanation
Indices: 43440320--43440439 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
43440310 GAACTGTGTT
43440320 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
1 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
43440380 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
1 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
43440440 GATGTGTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (60 bp):
TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
Found at i:43441297 original size:15 final size:15
Alignment explanation
Indices: 43441271--43441304 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43441261 GATTTCGTAT
43441271 TTTTATATAATTAATA
1 TTTTATATAATTAA-A
43441287 TTTTA-ATAATTAAA
1 TTTTATATAATTAAA
43441301 TTTT
1 TTTT
43441305 TGTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 8 0.44
16 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATATAATTAAA
Found at i:43441305 original size:15 final size:15
Alignment explanation
Indices: 43441269--43441319 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
43441259 GTGATTTCGT
43441269 ATTTTTATATAATT-A
1 ATTTTTA-ATAATTAA
43441284 ATATTTTAATAATTAA
1 AT-TTTTAATAATTAA
** *
43441300 ATTTTTGTTTATTAA
1 ATTTTTAATAATTAA
43441315 ATTTT
1 ATTTT
43441320 CATTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTTTAATAATTAA
Found at i:43456179 original size:93 final size:93
Alignment explanation
Indices: 43456020--43456203 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
43456010 TATCACTTGC
* *
43456020 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGTAAGTGCGTTATTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
43456085 CCTTGATCTGTTGAACAGCCTTTGTCCA
66 CCTTGATCTGTTGAACAGCCTTTGTCCA
*
43456113 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTGTTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
43456178 CCTTGATCTGTTGAACAGCCTTTGTC
66 CCTTGATCTGTTGAACAGCCTTTGTC
43456204 TGTTTGGACT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (93 bp):
ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
CCTTGATCTGTTGAACAGCCTTTGTCCA
Found at i:43458396 original size:13 final size:13
Alignment explanation
Indices: 43458378--43458404 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43458368 TCAGATCTTC
43458378 AGGATTACCAATA
1 AGGATTACCAATA
43458391 AGGATTACCAATA
1 AGGATTACCAATA
43458404 A
1 A
43458405 AGTAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGGATTACCAATA
Found at i:43460611 original size:18 final size:18
Alignment explanation
Indices: 43460588--43460625 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43460578 AGGCATGATC
43460588 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
43460606 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
43460624 TT
1 TT
43460626 TAGTATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
TTGGACCCTATACACTAT
Found at i:43463790 original size:14 final size:14
Alignment explanation
Indices: 43463760--43463801 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
43463750 ATTACCTTCT
43463760 AAAT-AATCA-TG-
1 AAATAAATCACTGA
43463771 AAATAAATCACTGA
1 AAATAAATCACTGA
*
43463785 AAATAAACCACTGA
1 AAATAAATCACTGA
43463799 AAA
1 AAA
43463802 AGTATCAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 16 0.59
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATCACTGA
Found at i:43465707 original size:12 final size:12
Alignment explanation
Indices: 43465692--43465719 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43465682 TTACAATATT
43465692 TTTTAAATATAA
1 TTTTAAATATAA
43465704 TTTTAAATATAA
1 TTTTAAATATAA
43465716 TTTT
1 TTTT
43465720 CAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAATATAA
Done.