Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 150 of 182
Found at i:46138055 original size:31 final size:31
Alignment explanation
Indices: 46138017--46138078 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46138007 TATGTGATAG
46138017 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
46138048 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
1 AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
46138079 GCTTTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (31 bp):
AGTCTCGTTTGTGTTTGTTTTTAACCCAGGT
Found at i:46141145 original size:5 final size:5
Alignment explanation
Indices: 46141137--46141163 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46141127 AAAATAAAAC
46141137 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
46141164 TTATCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:46141293 original size:43 final size:43
Alignment explanation
Indices: 46141218--46141446 Score: 282
Period size: 43 Copynumber: 5.3 Consensus size: 43
46141208 AGATTATGTT
* * * *
46141218 TTTAGCAGCGTTTGTGATAAAAAGTGCAGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGT-AAAAGAGCCGCTAAAGGTCTTGGTC
46141262 TTTAGCGGCGTTTGTGGTAAAAGAGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGAGCCGCTAAAGGTCTTGGTC
* * *
46141305 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGAGCCGCTAAAGGTCTTGGTC
* * * * *
46141348 TTTAGCGGCGTCTGTAGAAAAAGCA-CCGCTAAAGGACCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAG-AGCCGCTAAAGGTCTTGGTC
* * *
46141391 TTTAACGGCGTTTGTGAG-AAAAGTGCCGCTAAAGGTCTTTGTC
1 TTTAGCGGCGTTTGTG-GTAAAAGAGCCGCTAAAGGTCTTGGTC
46141434 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
46141447 TTTCTGGCGT
Statistics
Matches: 160, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
43 143 0.89
44 17 0.11
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGAGCCGCTAAAGGTCTTGGTC
Found at i:46144838 original size:22 final size:20
Alignment explanation
Indices: 46144803--46144844 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
46144793 ACTTCAGTTT
46144803 TAAAAAAAATAGAAATAAAA
1 TAAAAAAAATAGAAATAAAA
46144823 TAAAACAATAATAGAAATAAAA
1 TAAAA-AA-AATAGAAATAAAA
46144845 AAAGATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAAAAAAATAGAAATAAAA
Found at i:46145561 original size:40 final size:40
Alignment explanation
Indices: 46145504--46145949 Score: 396
Period size: 40 Copynumber: 10.8 Consensus size: 40
46145494 GTGGTTTTAG
* *
46145504 TCTGCTCCACTATTGCTTAGGGAGATAAGACTAGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* *
46145544 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* ** *
46145584 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTGATGCGA
* *
46145628 TCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * ** *
46145668 TCTGCTCCACTACTACTGAGGGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTGATGCGA
* * *
46145712 TCTGCTCCACTACTGCTTAGGGAGATGAGACTTCATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* ** *
46145752 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTGATGCGA
* ** *
46145796 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTGATGCGA
* * * *
46145840 TCTGTTCCACTGCTGCTTAGGGAGATAAGACTTCATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* *
46145880 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
46145920 TCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
46145950 TCTGTAATCT
Statistics
Matches: 346, Mismatches: 42, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.04
40 188 0.54
41 3 0.01
43 3 0.01
44 124 0.36
45 14 0.04
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:46145820 original size:128 final size:124
Alignment explanation
Indices: 46145504--46145953 Score: 515
Period size: 128 Copynumber: 3.6 Consensus size: 124
46145494 GTGGTTTTAG
* * ** *
46145504 TCTGCTCCACTATTGCTTAGGGAGATAAGACTAGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGAGAGATAAGACTTCATGTGATCTGCTCCACTACTGCTTAGGGAGA
* * *
46145569 TAAGA-C----TTCATGT-GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTC-TTTC
66 TAAGATCTGGTTTC-TTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTCATGT-
46145627 G-
123 GA
* * * ** * *
46145628 TCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCAATCTGCTCCACTACTACTGAGGGAGA
1 TCTGCTCCACTACTGCTTAGAGAGATAAGACTTCATGTGATCTGCTCCACTACTGCTTAGGGAGA
*
46145693 TAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATGAGACTTCATGTGA
66 TAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGA
*
46145752 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTC-TTTCG-TCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGAGAGATAAGA-C----TTCATGT-GATCTGCTCCACTACTGCTTA
* * *
46145815 AGGAGATAAGATCTGGTTTCTTTCGTCTGTTCCACTGCTGCTTAGGGAGATAAGACTTCATGTGA
60 GGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGA
*
46145880 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGAGAGATAAGACTTCATGTGATCTGCTCCACTACTGCTTAGGGAGA
46145945 TAAGATCTG
66 TAAGATCTG
46145954 TAATCTTCAA
Statistics
Matches: 287, Mismatches: 23, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
123 8 0.03
124 131 0.46
125 2 0.01
127 2 0.01
128 138 0.48
129 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (124 bp):
TCTGCTCCACTACTGCTTAGAGAGATAAGACTTCATGTGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATGTGA
Found at i:46145990 original size:84 final size:84
Alignment explanation
Indices: 46145504--46145953 Score: 566
Period size: 84 Copynumber: 5.4 Consensus size: 84
46145494 GTGGTTTTAG
* * * *
46145504 TCTGCTCCACTATTGCTTAGGGAGATAAGA-CTAG----ATGCGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAG
46145564 GGAGATAAGACTTCATGTGA
65 GGAGATAAGACTTCATGTGA
* *
46145584 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTATTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
* **
46145649 GAGATAAGACTTGATGCAA
66 GAGATAAGACTTCATGTGA
* *
46145668 TCTGCTCCACTACTACTGAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
46145733 GAGATGAGACTTCATGTGA
66 GAGATAAGACTTCATGTGA
* *
46145752 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
46145817 GAGATAAGATCTGGTTTC-TTTCG-
66 GAGATAAGA-C----TTCATGT-GA
* * *
46145840 TCTGTTCCACTGCTGCTTAGGGAGATAAGA-C----TTCATGT-GATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTC-TTTCG-TCTGCTCCACTACTGCTTA
46145899 GGGAGATAAGACTTCATGTGA
64 GGGAGATAAGACTTCATGTGA
46145920 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
46145954 TAATCTTCAA
Statistics
Matches: 321, Mismatches: 31, Indels: 33
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.01
80 58 0.18
81 4 0.01
83 5 0.02
84 212 0.66
85 4 0.01
87 1 0.00
88 29 0.09
89 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (84 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTTCATGTGA
Found at i:46146125 original size:44 final size:44
Alignment explanation
Indices: 46146075--46146212 Score: 135
Period size: 44 Copynumber: 3.2 Consensus size: 44
46146065 CAGTACAGGA
46146075 AGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAG
* * * ** * *
46146119 AGGCAAGA--T-TTGTGTTCGATCTGCT-TCGCTGTCAA-TGCAG-G
1 AGGCAAGATCTGTTGTCTTCAACCAACTCT-GCT-ACAACCG-AGAG
46146160 AAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAG
1 -AGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAG
46146205 AGGCAAGA
1 AGGCAAGA
46146213 GTTTGTGTTC
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
40 1 0.01
41 16 0.23
42 14 0.20
44 22 0.31
45 16 0.23
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAG
Found at i:46146169 original size:42 final size:43
Alignment explanation
Indices: 46146119--46146255 Score: 122
Period size: 42 Copynumber: 3.2 Consensus size: 43
46146109 CAACCGAGAG
46146119 AGGCAAGA-TTTGTGTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGACTTTGTGTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * ** * *
46146161 AGGCAAGATCTGTTGTCTTCAACCAAC-TCTGCT-ACAA--CCGAGA
1 AGGCAAGA-CT-TTGTGTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
46146204 GAGGCAAGAGTTTGTGTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGACTTTGTGTTCGATCTGCTTCGCTGTCAATGCAGGA
46146248 AGGCAAGA
1 AGGCAAGA
46146256 TCTGTTGTCT
Statistics
Matches: 70, Mismatches: 15, Indels: 19
0.67 0.14 0.18
Matches are distributed among these distances:
42 23 0.33
43 16 0.23
44 16 0.23
45 15 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
AGGCAAGACTTTGTGTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:46146192 original size:86 final size:87
Alignment explanation
Indices: 46146047--46146272 Score: 418
Period size: 86 Copynumber: 2.6 Consensus size: 87
46146037 ATCCGCCATC
* * *
46146047 TTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAA
46146112 CCGAGAGAGGCAAGA-TTTGTG
66 CCGAGAGAGGCAAGAGTTTGTG
46146133 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAA
46146198 CCGAGAGAGGCAAGAGTTTGTG
66 CCGAGAGAGGCAAGAGTTTGTG
46146220 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCA
46146273 GAGCAAGCCA
Statistics
Matches: 136, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 77 0.57
87 59 0.43
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAA
CCGAGAGAGGCAAGAGTTTGTG
Found at i:46147344 original size:13 final size:12
Alignment explanation
Indices: 46147316--46147370 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
46147306 GGCCTCTCCT
46147316 TTTTC-TTTTT-
1 TTTTCTTTTTTC
*
46147326 TGTTCTTCTTTTC
1 TTTTCTT-TTTTC
46147339 TTTTC-TTTTTC
1 TTTTCTTTTTTC
46147350 TTTTCATTTTTTC
1 TTTTC-TTTTTTC
46147363 TTTT-TTTT
1 TTTTCTTTT
46147371 CAAGTGAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 4 0.11
11 15 0.39
12 5 0.13
13 14 0.37
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:46147363 original size:29 final size:28
Alignment explanation
Indices: 46147314--46147371 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
46147304 TTGGCCTCTC
46147314 CTTTTTCTTTTTTGTTCTTCTTTTCTTTT
1 CTTTTTCTTTTTTGTTCTTCTTTT-TTTT
46147343 CTTTTTCTTTTCATT-TT-TTCTTTTTTTT
1 CTTTTTCTTTT--TTGTTCTTCTTTTTTTT
46147371 C
1 C
46147372 AAGTGAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 5 0.19
29 18 0.67
30 2 0.07
31 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (28 bp):
CTTTTTCTTTTTTGTTCTTCTTTTTTTT
Found at i:46149248 original size:62 final size:62
Alignment explanation
Indices: 46149172--46149350 Score: 322
Period size: 62 Copynumber: 2.9 Consensus size: 62
46149162 CTCGACCTAC
46149172 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAATGCGTAT
1 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAATGCGTAT
46149234 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAATGCGTAT
1 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAATGCGTAT
* * * *
46149296 TTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAA
46149351 AAGATACGTG
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 113 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.42
Consensus pattern (62 bp):
TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTGATGTTGATGGATGAATGCGTAT
Found at i:46151989 original size:22 final size:22
Alignment explanation
Indices: 46151940--46151989 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
46151930 GGTAAATAAT
46151940 AATAATAATAATAATAATGTAA
1 AATAATAATAATAATAATGTAA
** *
46151962 TGTAATAGTAATAATAGAT-TAA
1 AATAATAATAATAATA-ATGTAA
46151984 AATAAT
1 AATAAT
46151990 TTAATTTAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (22 bp):
AATAATAATAATAATAATGTAA
Found at i:46152755 original size:22 final size:21
Alignment explanation
Indices: 46152719--46152761 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
46152709 ACTTCAGTTT
46152719 TAAAAAAAAATAGAAATAAAA
1 TAAAAAAAAATAGAAATAAAA
*
46152740 TAAAACAATAATAGAAATAAAA
1 TAAAA-AAAAATAGAAATAAAA
46152762 AAAGATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
TAAAAAAAAATAGAAATAAAA
Found at i:46165076 original size:12 final size:12
Alignment explanation
Indices: 46165043--46165076 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46165033 AAAATATAAA
*
46165043 ATATATATAAGT
1 ATATATATATGT
*
46165055 ATGTATATATGT
1 ATATATATATGT
46165067 ATATATATAT
1 ATATATATAT
46165077 AAATTACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (12 bp):
ATATATATATGT
Found at i:46166731 original size:44 final size:44
Alignment explanation
Indices: 46166681--46166889 Score: 185
Period size: 44 Copynumber: 4.8 Consensus size: 44
46166671 AATATTTACC
46166681 ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * *
46166725 ATATTCGACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
* ** * * * * * * * * * *
46166766 ATGGCTTAAATCTGCTTCTCCACTG-TATTGGGAAGATA-ATATTTACC
1 AT--ATTCGACCTGCTCCACTACTGCT-TAGGG-TGACAGA-ATCTGCA
46166813 ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
*
46166857 ATATTCGACCTACTCCACTACTGCTTAGGGTGA
1 ATATTCGACCTGCTCCACTACTGCTTAGGGTGA
46166890 TAGGACTATT
Statistics
Matches: 125, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 19 0.15
44 79 0.63
45 20 0.16
46 1 0.01
47 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
ATATTCGACCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
Found at i:46166795 original size:132 final size:132
Alignment explanation
Indices: 46166559--46167095 Score: 833
Period size: 132 Copynumber: 4.1 Consensus size: 132
46166549 TATTGTTGAT
* * * * * * *
46166559 CTGCTCTACTACTACTTAGGGTGATAGAATCTACAATCTTCAACC-ATTCCACCACTGCTTAGGG
1 CTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
* * * *
46166623 TGATAGGACTAACGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAATATTTACCATATTCG
66 TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATATTCG
46166688 AC
131 AC
*
46166690 CTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
1 CTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
* * *
46166755 TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAATATTTACCATATTCG
66 TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATATTCG
46166820 AC
131 AC
*
46166822 CTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
1 CTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
* * *
46166887 TGATAGGACTATTGGCTTAAATCTGCTTCTCCACTGTAATGGAAAGATAAGATTCACCATATTTG
66 TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATATTCG
*
46166952 AT
131 AC
* * *
46166954 CTGCTCCACTACTAATTAGGGTGACAGAATCTGCAATCTTCGACGTACTCCACTACTGCTTAGGG
1 CTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
* *
46167019 TGATAGGACTAATGACTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATCTTCG
66 TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATATTCG
*
46167084 AT
131 AC
46167086 CTGCTCCACT
1 CTGCTCCACT
46167096 GCCAAATACA
Statistics
Matches: 380, Mismatches: 25, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 39 0.10
132 341 0.90
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
CTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATATTCGACCTACTCCACTACTGCTTAGGG
TGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATATTCG
AC
Found at i:46167451 original size:46 final size:46
Alignment explanation
Indices: 46167077--46167450 Score: 604
Period size: 46 Copynumber: 8.1 Consensus size: 46
46167067 AAGATTCACC
* * *
46167077 ATCTTCGATCTGCTCCACTGCCAAATACAGGAAGACATGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
46167123 ATCTTCGATCTGCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
46167169 ATCTTCGATCTCCTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
46167215 ATCTTTGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
46167261 ATCTTCGATCTCTTCCGCTTCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
46167307 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
46167353 ATCTTCGATCTTCTCCGCTGCCAAATACAGAAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
46167399 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
46167445 ATCTTC
1 ATCTTC
46167451 ATTGATCTGT
Statistics
Matches: 309, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 309 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:46169279 original size:26 final size:26
Alignment explanation
Indices: 46169247--46169310 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
46169237 TTATGGAAAT
46169247 TTTTCTTTCTTTTTTTCTCTCGTTTTC
1 TTTTCTTTCTTTTTTTCTCTC-TTTTC
* *
46169274 -TTTCTTCCCTTTTTTCTCTCTTTTC
1 TTTTCTTTCTTTTTTTCTCTCTTTTC
46169299 TTTTCTTTCTTT
1 TTTTCTTTCTTT
46169311 CCTTATCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTCTTTCTTTTTTTCTCTCTTTTC
Found at i:46169286 original size:14 final size:14
Alignment explanation
Indices: 46169248--46169314 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
46169238 TATGGAAATT
46169248 TTTCTTT-CTTTT-
1 TTTCTTTCCTTTTC
* *
46169260 TTTCTCTCGTTTTC
1 TTTCTTTCCTTTTC
*
46169274 TTTCTTCCCTTTTTTC
1 TTTCTTTCC--TTTTC
* *
46169290 TCTCTTTTCTTTTC
1 TTTCTTTCCTTTTC
46169304 TTTCTTTCCTT
1 TTTCTTTCCTT
46169315 ATCAATTGCT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 20 0.49
16 11 0.27
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTCTTTCCTTTTC
Found at i:46171092 original size:214 final size:214
Alignment explanation
Indices: 46170723--46171151 Score: 858
Period size: 214 Copynumber: 2.0 Consensus size: 214
46170713 GTAATCCTAC
46170723 ATGGTAGTCCAACTAGATTTTAAGTGCCAACTTGGATTTCCTAATGGGATGAGAATAGATTTTTA
1 ATGGTAGTCCAACTAGATTTTAAGTGCCAACTTGGATTTCCTAATGGGATGAGAATAGATTTTTA
46170788 ATTAAATAAATTTAATTAATTAAAAATTTTAAACCTTAATTCTTAGTTAAAAAACTGTTCATCTC
66 ATTAAATAAATTTAATTAATTAAAAATTTTAAACCTTAATTCTTAGTTAAAAAACTGTTCATCTC
46170853 CCCCCCCTTTTTTTTAGTTTTTTTTTCAATTGACTAAGAAAGCTATTATCATCAGAATTTTTTAT
131 CCCCCCCTTTTTTTTAGTTTTTTTTTCAATTGACTAAGAAAGCTATTATCATCAGAATTTTTTAT
46170918 TCACGTACAAAAACAAAAG
196 TCACGTACAAAAACAAAAG
46170937 ATGGTAGTCCAACTAGATTTTAAGTGCCAACTTGGATTTCCTAATGGGATGAGAATAGATTTTTA
1 ATGGTAGTCCAACTAGATTTTAAGTGCCAACTTGGATTTCCTAATGGGATGAGAATAGATTTTTA
46171002 ATTAAATAAATTTAATTAATTAAAAATTTTAAACCTTAATTCTTAGTTAAAAAACTGTTCATCTC
66 ATTAAATAAATTTAATTAATTAAAAATTTTAAACCTTAATTCTTAGTTAAAAAACTGTTCATCTC
46171067 CCCCCCCTTTTTTTTAGTTTTTTTTTCAATTGACTAAGAAAGCTATTATCATCAGAATTTTTTAT
131 CCCCCCCTTTTTTTTAGTTTTTTTTTCAATTGACTAAGAAAGCTATTATCATCAGAATTTTTTAT
46171132 TCACGTACAAAAACAAAAG
196 TCACGTACAAAAACAAAAG
46171151 A
1 A
46171152 GGATTCAATG
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (214 bp):
ATGGTAGTCCAACTAGATTTTAAGTGCCAACTTGGATTTCCTAATGGGATGAGAATAGATTTTTA
ATTAAATAAATTTAATTAATTAAAAATTTTAAACCTTAATTCTTAGTTAAAAAACTGTTCATCTC
CCCCCCCTTTTTTTTAGTTTTTTTTTCAATTGACTAAGAAAGCTATTATCATCAGAATTTTTTAT
TCACGTACAAAAACAAAAG
Found at i:46186131 original size:98 final size:98
Alignment explanation
Indices: 46185959--46186153 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
46185949 ACAATAAAAT
*
46185959 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
46186024 TCTAGAATCCCAAACTCAGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
46186057 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
46186122 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTA
46186154 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
Found at i:46187193 original size:19 final size:19
Alignment explanation
Indices: 46187169--46187319 Score: 230
Period size: 19 Copynumber: 7.8 Consensus size: 19
46187159 AATCATATAT
46187169 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
46187188 TCTAAGATTATATATAATA
1 TCTAAGATTGCATATCATA
46187207 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46187226 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
46187247 TCTAAGATTGCATCTCATA
1 TCTAAGATTGCATATCATA
46187266 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46187285 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46187304 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
46187320 CTCAAAAATT
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 100 0.84
21 19 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46187265 original size:78 final size:78
Alignment explanation
Indices: 46187169--46187318 Score: 246
Period size: 78 Copynumber: 1.9 Consensus size: 78
46187159 AATCATATAT
*
46187169 TCTAAGATTGCATATCATATCTAAGATTATATATAATATCTAAGATTGCATATCATATCTAAGAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATAATATCTAAGATTGCATATCATATCTAAGAT
46187234 TGCATATATCATA
66 TGCATATATCATA
* * * *
46187247 TCTAAGATTGCATCTCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATAATATCTAAGATTGCATATCATATCTAAGAT
*
46187312 TGTATAT
66 TGCATAT
46187319 CCTCAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (78 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATAATATCTAAGATTGCATATCATATCTAAGAT
TGCATATATCATA
Found at i:46187743 original size:132 final size:132
Alignment explanation
Indices: 46187604--46187876 Score: 377
Period size: 132 Copynumber: 2.1 Consensus size: 132
46187594 AACTTCAGAG
* * * * * * *
46187604 AGATAAGATCTAAGGT-TTTAATCCACTCCACTGCAACTTCAGGGATATAGGATCTACAATCTTC
1 AGATAAGATCCAACGTCTTCAATCCACTCCACTACAACTT-AGGAAGATAAGATCTACAATCTTC
* *
46187668 AACCTTCTCCACTGCTGCTGAGGGTGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
65 AACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
46187733 GAA
130 GAA
** * ** **
46187736 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCA
1 AGATAAGATCCAACGTCTTCAATCCACTCCACTACAACTTAGGAAGATAAGATCTACAATCTTCA
*
46187801 ACCTTCTCCGCTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
66 ACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
46187866 AA
131 AA
46187868 AGATAAGAT
1 AGATAAGAT
46187877 TCGCCGTCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 107 0.87
133 16 0.13
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
AGATAAGATCCAACGTCTTCAATCCACTCCACTACAACTTAGGAAGATAAGATCTACAATCTTCA
ACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AA
Found at i:46187891 original size:132 final size:132
Alignment explanation
Indices: 46187654--46187900 Score: 458
Period size: 132 Copynumber: 1.9 Consensus size: 132
46187644 AGGGATATAG
* *
46187654 GATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGTGACAAGGCTTGGTGGCTTAAATCTGC
1 GATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGC
46187719 TTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGAT
66 TTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGAT
46187784 AA
131 AA
*
46187786 GATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGC
1 GATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGC
*
46187851 TTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
66 TTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACT
46187901 GTCAATGCAG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 111 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (132 bp):
GATCTACAATCTTCAACCTTCTCCACTGCTGCTGAGGGAGACAAAGCTTGGTGGCTTAAATCTGC
TTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGAT
AA
Found at i:46189201 original size:15 final size:15
Alignment explanation
Indices: 46189178--46189246 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
46189168 GGTTTTAAGA
46189178 TTTAA-GGTTTAGGG
1 TTTAAGGGTTTAGGG
*
46189192 TTTAAGGGTTTAGCAG
1 TTTAAGGGTTTAG-GG
* **
46189208 CTTAAGATTTTAGGG
1 TTTAAGGGTTTAGGG
* *
46189223 TTTAGGGGTTTAAGG
1 TTTAAGGGTTTAGGG
46189238 TTT-AGGGTT
1 TTTAAGGGTT
46189247 AAATCCCAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
14 10 0.24
15 21 0.50
16 11 0.26
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (15 bp):
TTTAAGGGTTTAGGG
Found at i:46189863 original size:148 final size:148
Alignment explanation
Indices: 46189692--46189960 Score: 387
Period size: 148 Copynumber: 1.8 Consensus size: 148
46189682 TTTAAAAATG
** *
46189692 CCACAAATATTTACTACGAGTTGAGGAAACGGCGTCGTTTCCTACTTTTATTAGTGGCGCTTCAG
1 CCACAAATATTTACTACGAGTTGAGGAAACAACGCCGTTTCCTACTTTTATTAGTGGCGCTTCAG
* ** *
46189757 CTAAAGTGCCGCAAAAATGTTTAAGGTTATCTGATAACGGTGTCGTTTTGTCCATGTTATTAGTG
66 ATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCATGTTATTAGTG
46189822 ACATTTTTGCTGCAAGCA
131 ACATTTTTGCTGCAAGCA
* * * * **
46189840 CCACAAATATTTATTA-GTGGTTGAGGTAACAACGCCGTTTCCTATTTTTATTAGTGGCGCTTTT
1 CCACAAATATTTACTACG-AGTTGAGGAAACAACGCCGTTTCCTACTTTTATTAGTGGCGCTTCA
* *
46189904 GATAAAACGCCGTAAAAATGTTTATGGTTATCTAATAACGGTGTCGTTTTGTCCATG
65 GATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCATG
46189961 GTAATTTTGG
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
147 1 0.01
148 104 0.99
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (148 bp):
CCACAAATATTTACTACGAGTTGAGGAAACAACGCCGTTTCCTACTTTTATTAGTGGCGCTTCAG
ATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCATGTTATTAGTG
ACATTTTTGCTGCAAGCA
Found at i:46190027 original size:148 final size:149
Alignment explanation
Indices: 46189692--46190066 Score: 362
Period size: 148 Copynumber: 2.5 Consensus size: 149
46189682 TTTAAAAATG
* *
46189692 CCACAAATATTTACT-ACGAGTTGAGG--AAACGGCGTCGTTTCCTACTTTTATTAGTGGCGCTT
1 CCACAAATATTTATTAATG-GTTGAGGTAAAACGGCG-CGTTTCCTACTTTTATTAGTGGCGCTT
** * ** * *
46189754 CAGCTAAAGTGCCGCAAAAATGTTTAAGGTTATCTGATAACGGTGTCGTTTTGTCCATGTTATTA
64 TTGATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCATGTAATTA
46189819 GTGACATTTTTGCTGCAAGCA
129 GTGACATTTTTGCTGCAAGCA
* *
46189840 CCACAAATATTTATTAGTGGTTGAGGTAACAAC-GC-CGTTTCCTATTTTTATTAGTGGCGCTTT
1 CCACAAATATTTATTAATGGTTGAGGTAA-AACGGCGCGTTTCCTACTTTTATTAGTGGCGCTTT
* *
46189903 TGATAAAACGCCGTAAAAATGTTTATGGTTATCTAATAACGGTGTCGTTTTGTCCATGGTAATT-
65 TGATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCAT-GTAATTA
* * * **
46189967 TTGGCGTTTTTGCT-CTAAGTG
129 GTGACATTTTTGCTGC-AAGCA
* * * **
46189988 CCACAAGT-TTTAGCTTAAT-G-TG-TGTAAAACGGCTGCGTTT-GTACTGATATTAGTGGCGCT
1 CCACAAATATTTA--TTAATGGTTGAGGTAAAACGGC-GCGTTTCCTACTTTTATTAGTGGCGCT
*
46190048 TATTTAT-AAACGCCGCAAA
63 T-TTGATAAAACGCCGCAAA
46190067 TGATTCCATT
Statistics
Matches: 188, Mismatches: 27, Indels: 25
0.78 0.11 0.10
Matches are distributed among these distances:
145 3 0.02
146 6 0.03
147 35 0.19
148 128 0.68
149 10 0.05
150 3 0.02
151 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (149 bp):
CCACAAATATTTATTAATGGTTGAGGTAAAACGGCGCGTTTCCTACTTTTATTAGTGGCGCTTTT
GATAAAACGCCGCAAAAATGTTTAAGGTTATCTAATAACGGTGTCGTTTTGTCCATGTAATTAGT
GACATTTTTGCTGCAAGCA
Found at i:46190477 original size:16 final size:16
Alignment explanation
Indices: 46190456--46190564 Score: 77
Period size: 16 Copynumber: 6.9 Consensus size: 16
46190446 CTTATAACAT
46190456 TGGAATATATACTTGC
1 TGGAATATATACTTGC
* *
46190472 TGGAATATTTCCAGTTGC
1 TGGAATATAT--ACTTGC
46190490 TGG-A-ATATACTTGC
1 TGGAATATATACTTGC
*
46190504 TGG-A-ATATA-TGGC
1 TGGAATATATACTTGC
**
46190517 -CAAATATATACTTGC
1 TGGAATATATACTTGC
46190532 TGGAATATATTCCACTTGC
1 TGGAATATA-T--ACTTGC
*
46190551 TAGAATATATACTT
1 TGGAATATATACTT
46190565 TACTAAAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
13 4 0.05
14 19 0.26
15 3 0.04
16 22 0.30
17 2 0.03
18 9 0.12
19 14 0.19
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (16 bp):
TGGAATATATACTTGC
Found at i:46190505 original size:14 final size:14
Alignment explanation
Indices: 46190462--46190540 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
46190452 ACATTGGAAT
46190462 ATATACTTGCTGGA
1 ATATACTTGCTGGA
*
46190476 ATATTTCCAGTTGCTGGA
1 ATA--T--ACTTGCTGGA
46190494 ATATACTTGCTGGA
1 ATATACTTGCTGGA
* ***
46190508 ATATA-TGGCCAAA
1 ATATACTTGCTGGA
46190521 TATATACTTGCTGGA
1 -ATATACTTGCTGGA
46190536 ATATA
1 ATATA
46190541 TTCCACTTGC
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
13 4 0.08
14 27 0.55
15 4 0.08
16 2 0.04
18 12 0.24
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (14 bp):
ATATACTTGCTGGA
Found at i:46192076 original size:23 final size:22
Alignment explanation
Indices: 46192014--46192085 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 22
46192004 GCAAAAGTTT
*
46192014 TATTTTCAAACATCTTTGATATATA
1 TATTTT-AAA-AT-TTTTATATATA
*
46192039 TATTTATATACATTTTTAATATATA
1 TATTT-TA-AAATTTTT-ATATATA
46192064 TATTTTAAAA-TTTTATATATA
1 TATTTTAAAATTTTTATATATA
46192085 T
1 T
46192086 TTGAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 8 0.20
22 4 0.10
23 2 0.05
24 5 0.12
25 20 0.49
26 2 0.05
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (22 bp):
TATTTTAAAATTTTTATATATA
Found at i:46192080 original size:19 final size:19
Alignment explanation
Indices: 46192058--46192098 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
46192048 ACATTTTTAA
*
46192058 TATATATATTTTAAAATTT
1 TATATATATTTGAAAATTT
46192077 TATATATATTTGAAAATTT
1 TATATATATTTGAAAATTT
46192096 TAT
1 TAT
46192099 CAATCATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATATATATTTGAAAATTT
Found at i:46192180 original size:21 final size:21
Alignment explanation
Indices: 46192154--46192225 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
46192144 CTTACACGAC
46192154 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
*
46192175 ACATAACTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
46192198 ATATAACTTACATACATAACTT
1 ACATAACTTACATA-ATAACTT
*
46192220 AAATAA
1 ACATAA
46192226 AATTTATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 2 0.05
21 15 0.36
22 7 0.17
23 13 0.31
24 3 0.07
25 2 0.05
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:46192203 original size:23 final size:23
Alignment explanation
Indices: 46192177--46192339 Score: 98
Period size: 23 Copynumber: 6.9 Consensus size: 23
46192167 AATAACTTAC
46192177 ATAACTTATATATAAACTTATAT
1 ATAACTTATATATAAACTTATAT
* * *
46192200 ATAACTTACATACATAACTTAAAT
1 ATAACTTATATATA-AACTTATAT
* * * *
46192224 AAAATTTATATATAAACTTGCACAACAC
1 ATAACTTATATATAAACTT-----ATAT
* *
46192252 ATAACTTACATA-ATAAC-T-TAC
1 ATAACTTATATATA-AACTTATAT
*
46192273 ATAACTTATATATAAACTTATAA
1 ATAACTTATATATAAACTTATAT
* * *
46192296 ATAACTTACATACATAACTTAAAT
1 ATAACTTATATATA-AACTTATAT
* *
46192320 AAAATTTATATATAAACTTA
1 ATAACTTATATATAAACTTA
46192340 CACAACACAT
Statistics
Matches: 106, Mismatches: 23, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
21 16 0.15
22 2 0.02
23 37 0.35
24 35 0.33
27 2 0.02
28 14 0.13
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (23 bp):
ATAACTTATATATAAACTTATAT
Found at i:46192360 original size:9 final size:9
Alignment explanation
Indices: 46192334--46192453 Score: 53
Period size: 9 Copynumber: 13.7 Consensus size: 9
46192324 TTTATATATA
*
46192334 AACTTACAC
1 AACTTACAT
46192343 AAC--ACAT
1 AACTTACAT
46192350 AACTTACATAAT
1 AACTTAC---AT
46192362 AACTTACAT
1 AACTTACAT
46192371 AACTTATACAT
1 AAC-T-TACAT
* *
46192382 GACTTATATAT
1 AAC-T-TACAT
*
46192393 AACTTTCAT
1 AACTTACAT
46192402 AACTTAC-T
1 AACTTACAT
*
46192410 TA--TA-AT
1 AACTTACAT
46192416 AACTTACAT
1 AACTTACAT
46192425 AACTTAC-T
1 AACTTACAT
*
46192433 TA--TA-AT
1 AACTTACAT
46192439 AACTTACAT
1 AACTTACAT
46192448 AACTTA
1 AACTTA
46192454 TTAATATTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
6 8 0.09
7 6 0.07
8 8 0.09
9 36 0.42
10 2 0.02
11 16 0.19
12 9 0.11
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:46192386 original size:11 final size:11
Alignment explanation
Indices: 46192346--46192407 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
46192336 CTTACACAAC
46192346 ACATAACTTACAT
1 ACATAACTT--AT
46192359 A-ATAAC-T-T
1 ACATAACTTAT
46192367 ACATAACTTAT
1 ACATAACTTAT
*
46192378 ACATGACTTAT
1 ACATAACTTAT
*
46192389 ATATAACTT-T
1 ACATAACTTAT
46192399 -CATAACTTA
1 ACATAACTTA
46192408 CTTATAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 2 0.05
11 19 0.46
12 5 0.12
13 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (11 bp):
ACATAACTTAT
Found at i:46192396 original size:43 final size:45
Alignment explanation
Indices: 46192348--46192451 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 45
46192338 TACACAACAC
* *
46192348 ATAACTTACATAA-TAACTTA-CATAACTTATACATGACTTA-TAT-
1 ATAACTTACATAACTAACTTATAATAAC-T-TACATAACTTACTATA
* *
46192391 ATAACTTTCATAACTTACTTATAATAACTTACATAACTTACTTATA
1 ATAACTTACATAACTAACTTATAATAACTTACATAACTTAC-TATA
46192437 ATAACTTACATAACT
1 ATAACTTACATAACT
46192452 TATTAATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 22 0.43
44 7 0.14
45 8 0.16
46 14 0.27
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.38
Consensus pattern (45 bp):
ATAACTTACATAACTAACTTATAATAACTTACATAACTTACTATA
Found at i:46192403 original size:31 final size:32
Alignment explanation
Indices: 46192154--46192453 Score: 135
Period size: 32 Copynumber: 9.3 Consensus size: 32
46192144 CTTACACGAC
46192154 ACATAACTTACATAATAACTTACATAACTTAT
1 ACATAACTTACATAATAACTTACATAACTTAT
* * *
46192186 ATATAAACTTATAT-ATAACTTACATACATAACTTAA
1 ACAT-AACTTACATAATAAC-T---TACATAACTTAT
* * * * * *
46192222 ATAAAATTTATAT-ATAAACTTGCACAAC----
1 ACATAACTTACATAAT-AACTTACATAACTTAT
46192250 ACATAACTTACATAATAACTTACATAACTTAT
1 ACATAACTTACATAATAACTTACATAACTTAT
* * *
46192282 ATATAAACTTATA-AATAACTTACATACATAACTTAA
1 ACAT-AACTTACATAATAAC-T---TACATAACTTAT
* * * * *
46192318 ATAAAATTTATAT-ATAAACTTACACAAC----
1 ACATAACTTACATAAT-AACTTACATAACTTAT
46192346 ACATAACTTACATAATAACTTACATAACTTAT
1 ACATAACTTACATAATAACTTACATAACTTAT
* * *
46192378 ACATGACTTATAT-ATAACTTTCATAACTTACTT
1 ACATAACTTACATAATAACTTACATAACTTA--T
* * *
46192411 ATAATAACTTACATAACTTACTTATAATAAC-T-T
1 A-CATAACTTACATAA-TAACTTA-CATAACTTAT
46192444 ACATAACTTA
1 ACATAACTTA
46192454 TTAATATTTA
Statistics
Matches: 205, Mismatches: 34, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
28 39 0.19
29 4 0.02
31 16 0.08
32 49 0.24
33 21 0.10
34 9 0.04
35 22 0.11
36 40 0.20
37 5 0.02
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (32 bp):
ACATAACTTACATAATAACTTACATAACTTAT
Found at i:46192417 original size:96 final size:96
Alignment explanation
Indices: 46192115--46192402 Score: 499
Period size: 96 Copynumber: 3.0 Consensus size: 96
46192105 TATCATAATT
* *
46192115 TACAT-ACATAAATAAAATTTATATATAAACTTACACGACACATAACTTACATAATAACTTACAT
1 TACATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACAT
46192179 AACTTATATATAAACTTATATATAACTTACA
66 AACTTATATATAAACTTATATATAACTTACA
*
46192210 TACATAACTTAAATAAAATTTATATATAAACTTGCACAACACATAACTTACATAATAACTTACAT
1 TACATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACAT
*
46192275 AACTTATATATAAACTTATAAATAACTTACA
66 AACTTATATATAAACTTATATATAACTTACA
46192306 TACATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACAT
1 TACATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACAT
* * *
46192371 AACTTATACAT-GACTTATATATAACTTTCA
66 AACTTATATATAAACTTATATATAACTTACA
46192401 TA
1 TA
46192403 ACTTACTTAT
Statistics
Matches: 183, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 23 0.13
96 160 0.87
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (96 bp):
TACATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACAT
AACTTATATATAAACTTATATATAACTTACA
Found at i:46192419 original size:14 final size:14
Alignment explanation
Indices: 46192400--46192445 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
46192390 TATAACTTTC
46192400 ATAACTTACTTATA
1 ATAACTTACTTATA
46192414 ATAACTTAC-----
1 ATAACTTACTTATA
46192423 ATAACTTACTTATA
1 ATAACTTACTTATA
46192437 ATAACTTAC
1 ATAACTTAC
46192446 ATAACTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 9 0.33
14 18 0.67
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAACTTACTTATA
Found at i:46192425 original size:23 final size:23
Alignment explanation
Indices: 46192383--46192453 Score: 124
Period size: 23 Copynumber: 3.0 Consensus size: 23
46192373 CTTATACATG
*
46192383 ACTTATATATAACTTTCATAACTT
1 ACTTATA-ATAACTTACATAACTT
46192407 ACTTATAATAACTTACATAACTT
1 ACTTATAATAACTTACATAACTT
46192430 ACTTATAATAACTTACATAACTT
1 ACTTATAATAACTTACATAACTT
46192453 A
1 A
46192454 TTAATATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 39 0.85
24 7 0.15
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (23 bp):
ACTTATAATAACTTACATAACTT
Found at i:46199971 original size:13 final size:13
Alignment explanation
Indices: 46199953--46199980 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46199943 GGAGAACGAA
46199953 ATGAAGAATGAAG
1 ATGAAGAATGAAG
46199966 ATGAAGAATGAAG
1 ATGAAGAATGAAG
46199979 AT
1 AT
46199981 AATGATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.18
Consensus pattern (13 bp):
ATGAAGAATGAAG
Found at i:46207136 original size:27 final size:26
Alignment explanation
Indices: 46207106--46207195 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
46207096 TCATCGGGAT
*
46207106 AGTAAATACCGGATAGTCCATCATGAC
1 AGTAAACACCGGATAGTCC-TCATGAC
* * *
46207133 AGTAAACACAGGGTAGTCCGTCAGGAC
1 AGTAAACACCGGATAGTCC-TCATGAC
*
46207160 AGTAAACA-CGGAATAGTCCGCAATGAC
1 AGTAAACACCGG-ATAGTCCTC-ATGAC
46207187 AGTAAACAC
1 AGTAAACAC
46207196 GGAAAAGTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
AGTAAACACCGGATAGTCCTCATGAC
Found at i:46207196 original size:27 final size:27
Alignment explanation
Indices: 46207118--46207199 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
46207108 TAAATACCGG
*
46207118 ATAGTCCATCATGACAGTAAACACAGG-
1 ATAGTCCGTCATGACAGTAAACAC-GGA
* *
46207145 GTAGTCCGTCAGGACAGTAAACACGGA
1 ATAGTCCGTCATGACAGTAAACACGGA
46207172 ATAGTCCG-CAATGACAGTAAACACGGA
1 ATAGTCCGTC-ATGACAGTAAACACGGA
46207199 A
1 A
46207200 AAGTTCACTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
ATAGTCCGTCATGACAGTAAACACGGA
Found at i:46211088 original size:8 final size:8
Alignment explanation
Indices: 46211077--46211181 Score: 50
Period size: 8 Copynumber: 12.1 Consensus size: 8
46211067 TTTGAATTTA
46211077 TATTTTTT
1 TATTTTTT
46211085 TATTTTTT
1 TATTTTTT
*
46211093 TATATTTT
1 TATTTTTT
*
46211101 CATTTTTT
1 TATTTTTT
*
46211109 GTAATTTTCTA
1 -T-ATTTT-TT
* *
46211120 AATTTTTAAC
1 TATTTTT--T
46211130 TATTTTTT
1 TATTTTTT
*
46211138 TA-ATTTT
1 TATTTTTT
46211145 TATTTTTT
1 TATTTTTT
46211153 TCGAAATTTTTT
1 T----ATTTTTT
*
46211165 TATTTGTT
1 TATTTTTT
*
46211173 CATTTTTT
1 TATTTTTT
46211181 T
1 T
46211182 GTAATTTTCT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
7 6 0.08
8 41 0.57
9 5 0.07
10 11 0.15
11 1 0.01
12 8 0.11
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (8 bp):
TATTTTTT
Found at i:46211126 original size:19 final size:17
Alignment explanation
Indices: 46211102--46211199 Score: 54
Period size: 19 Copynumber: 5.4 Consensus size: 17
46211092 TTATATTTTC
46211102 ATTTTTTGTAATTTTCTAA
1 ATTTTTT-T-ATTTTCTAA
* * *
46211121 ATTTTTAACTATTTTTTTA
1 ATTTTT--TTATTTTCTAA
* *
46211140 ATTTTTATTTTTTTCGAA
1 ATTTTT-TTATTTTCTAA
*
46211158 ATTTTTTTATTTGT-TCA
1 ATTTTTTTATTT-TCTAA
*
46211175 TTTTTTTGTAATTTTCTAA
1 ATTTTTT-T-ATTTTCTAA
46211194 ATTTTT
1 ATTTTT
46211200 AACTATTTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
17 12 0.20
18 16 0.27
19 30 0.51
20 1 0.02
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.68
Consensus pattern (17 bp):
ATTTTTTTATTTTCTAA
Found at i:46211161 original size:27 final size:26
Alignment explanation
Indices: 46211131--46211200 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
46211121 ATTTTTAACT
46211131 ATTTTTTTAATTTTTATTTTTTTCGAA
1 ATTTTTTTAATTTTTATTTTTTT-GAA
*
46211158 ATTTTTTT-ATTTGTTCATTTTTTTGTA
1 ATTTTTTTAATTT-TT-ATTTTTTTGAA
* *
46211185 ATTTTCTAAATTTTTA
1 ATTTTTTTAATTTTTA
46211201 ACTATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 5 0.14
27 20 0.54
28 12 0.32
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (26 bp):
ATTTTTTTAATTTTTATTTTTTTGAA
Found at i:46211184 original size:73 final size:69
Alignment explanation
Indices: 46211086--46211221 Score: 220
Period size: 73 Copynumber: 1.9 Consensus size: 69
46211076 ATATTTTTTT
46211086 ATTTTTTTATATTTTCATTTTTTGTAATTTTCTAAATTTTTAACTATTTTTTTAATTTTTATTTT
1 ATTTTTTTATATTTTCATTTTTTGTAATTTTCTAAATTTTTAACTA--TTTTT-ATTTTTATTTT
46211151 TTTCGAA
63 TTTCGAA
46211158 ATTTTTTTAT-TTGTTCATTTTTTTGTAATTTTCTAAATTTTTAACTATTTTTATTTTTATTTTT
1 ATTTTTTTATATT-TTCA-TTTTTTGTAATTTTCTAAATTTTTAACTATTTTTATTTTTATTTTT
46211222 GAATTATATA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
70 12 0.19
71 7 0.11
72 14 0.23
73 29 0.47
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (69 bp):
ATTTTTTTATATTTTCATTTTTTGTAATTTTCTAAATTTTTAACTATTTTTATTTTTATTTTTTT
CGAA
Found at i:46225707 original size:13 final size:13
Alignment explanation
Indices: 46225648--46225709 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
46225638 GTATTTCATT
*
46225648 AAGTGTTTTTCATC
1 AAGT-TTTTTTATC
*
46225662 TAGTTCTTTTT-TC
1 AAGTT-TTTTTATC
*
46225675 AAGTTTTTAATTACC
1 AAGTTTTT--TTATC
46225690 AAGTTTTTTTATC
1 AAGTTTTTTTATC
46225703 AAGTTTT
1 AAGTTTT
46225710 GCAACAAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 3 0.08
13 18 0.46
14 9 0.23
15 9 0.23
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (13 bp):
AAGTTTTTTTATC
Found at i:46225717 original size:25 final size:24
Alignment explanation
Indices: 46225689--46225771 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
46225679 TTTTAATTAC
* *
46225689 CAAGTTTTTTTATCAAGTTTTGCAA
1 CAAGTTTTTTTAT-AAGTTTTCCAT
*
46225714 CAAGTTCTTTTTA-AAGTTTTTCAT
1 CAAGTT-TTTTTATAAGTTTTCCAT
* * *
46225738 CAAGTCTTTTCATAAAATTTTCCAT
1 CAAGTTTTTTTAT-AAGTTTTCCAT
46225763 CAAGTTTTT
1 CAAGTTTTT
46225772 AATCATTTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
23 5 0.10
24 14 0.29
25 23 0.48
26 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.49
Consensus pattern (24 bp):
CAAGTTTTTTTATAAGTTTTCCAT
Found at i:46225742 original size:12 final size:12
Alignment explanation
Indices: 46225652--46225776 Score: 63
Period size: 12 Copynumber: 9.9 Consensus size: 12
46225642 TTCATTAAGT
*
46225652 GTTTTTCATCTA
1 GTTTTTCATCAA
**
46225664 GTTCTTTTTTCAA
1 GTT-TTTCATCAA
*
46225677 GTTTTTAATTACCAA
1 GTTTTTCA-T--CAA
*
46225692 GTTTTTTTATCAA
1 G-TTTTTCATCAA
* *
46225705 GTTTTGCAACAA
1 GTTTTTCATCAA
* *
46225717 GTTCTTT-TTAAA
1 GTT-TTTCATCAA
46225729 GTTTTTCATCAA
1 GTTTTTCATCAA
*
46225741 GTCTTTTCATAAA
1 GT-TTTTCATCAA
* *
46225754 ATTTTCCATCAA
1 GTTTTTCATCAA
*
46225766 GTTTTTAATCA
1 GTTTTTCATCA
46225777 TTTCGTTTTT
Statistics
Matches: 83, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
11 3 0.04
12 43 0.52
13 26 0.31
15 5 0.06
16 6 0.07
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (12 bp):
GTTTTTCATCAA
Found at i:46227982 original size:23 final size:23
Alignment explanation
Indices: 46227956--46228027 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 23
46227946 TCATAAGATA
46227956 TTATCATAATATAAATTAAATAT
1 TTATCATAATATAAATTAAATAT
* *** *
46227979 TTAT--TAAAATGTTTTTAATAAT
1 TTATCATAATATAAATTAAAT-AT
46228001 TTATCATAATATAAATTAAATAT
1 TTATCATAATATAAATTAAATAT
46228024 TTAT
1 TTAT
46228028 TAATATCAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 10 0.28
22 6 0.17
23 10 0.28
24 10 0.28
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
TTATCATAATATAAATTAAATAT
Found at i:46228043 original size:45 final size:45
Alignment explanation
Indices: 46227956--46228043 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
46227946 TCATAAGATA
*****
46227956 TTATCATAATATAAATTAAATATTTATTAAAATGTTTTTAATAAT
1 TTATCATAATATAAATTAAATATTTATTAAAATCAAAATAATAAT
*
46228001 TTATCATAATATAAATTAAATATTTATTAATATCAAAATAATA
1 TTATCATAATATAAATTAAATATTTATTAAAATCAAAATAATA
46228044 CAAACATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (45 bp):
TTATCATAATATAAATTAAATATTTATTAAAATCAAAATAATAAT
Found at i:46230187 original size:39 final size:39
Alignment explanation
Indices: 46230133--46230246 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
46230123 CATGTTTTTA
*
46230133 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
*
46230172 AGTATTGTGATATATGCTTAAATTTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
* * * * *
46230211 TGTAATGTGATACATGCTTAAACGTGAATGTGATTA
1 AGTATTGTGATATATGCTTAAATGT-TATGTGATTA
46230247 CCATGTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 57 0.86
40 9 0.14
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
Found at i:46231156 original size:30 final size:30
Alignment explanation
Indices: 46231116--46231182 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
46231106 TATTTAAAAG
46231116 CATGTTTGGCATGTTCTAATGATTATTGATA
1 CATG-TTGGCATGTTCTAATGATTATTGATA
*
46231147 CATGTTGGCATGTTTTAATGATTATTGATA
1 CATGTTGGCATGTTCTAATGATTATTGATA
46231177 CATGTT
1 CATGTT
46231183 TGACTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (30 bp):
CATGTTGGCATGTTCTAATGATTATTGATA
Found at i:46238073 original size:21 final size:21
Alignment explanation
Indices: 46237996--46238070 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
46237986 AGCTCTATTA
*
46237996 AGCTTCTGTTTAACCCTTATG
1 AGCTTCTGTTCAACCCTTATG
* * *
46238017 GGTTTCCGTTCAACCCTTATG
1 AGCTTCTGTTCAACCCTTATG
* * * *
46238038 GGTTTCTGTTTAGCCCTTATG
1 AGCTTCTGTTCAACCCTTATG
46238059 AGCTTCTGTTCA
1 AGCTTCTGTTCA
46238071 GCCTTCGGGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
AGCTTCTGTTCAACCCTTATG
Found at i:46241448 original size:16 final size:16
Alignment explanation
Indices: 46241427--46241458 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46241417 ACAGTTGCAA
46241427 GATTTATTAGACCGAG
1 GATTTATTAGACCGAG
*
46241443 GATTTATTTGACCGAG
1 GATTTATTAGACCGAG
46241459 CATGTCTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (16 bp):
GATTTATTAGACCGAG
Found at i:46243661 original size:24 final size:24
Alignment explanation
Indices: 46243634--46243691 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
46243624 AGAGCACCCT
* *
46243634 GTTATTAGCGCTCTTGAGCTTCTC
1 GTTATTAGCGCTCATGAGCTTCCC
**
46243658 GTTATATAGTTCTCATGAGCTTCCC
1 GTTAT-TAGCGCTCATGAGCTTCCC
*
46243683 GTTAATAGC
1 GTTATTAGC
46243692 TCTGCGGAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (24 bp):
GTTATTAGCGCTCATGAGCTTCCC
Found at i:46243944 original size:73 final size:73
Alignment explanation
Indices: 46243806--46243946 Score: 171
Period size: 73 Copynumber: 1.9 Consensus size: 73
46243796 GGCTATTTGT
* * *
46243806 GAGCTTCCTAATTAATGGCTCTCTAGAGCTTCCCGATATGGCTCGCTTGAACTTCTTGATATATG
1 GAGCTTCCTAATTAATGGCTCTCTAGAGCTACCCGATATGGCTCGCATGAACTTCCTGATATATG
46243871 GCTATCCA
66 GCTATCCA
** * *
46243879 GAGCTTCCTGGTTAATGGCTCT-TCGGAGCTACCCGTTATTGGCTCGCAT-AAGCTTCCTGAT-T
1 GAGCTTCCTAATTAATGGCTCTCT-AGAGCTACCCGATA-TGGCTCGCATGAA-CTTCCTGATAT
46243941 ATGGCT
63 ATGGCT
46243947 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
72 1 0.02
73 40 0.69
74 17 0.29
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTCTAGAGCTACCCGATATGGCTCGCATGAACTTCCTGATATATG
GCTATCCA
Found at i:46243979 original size:49 final size:49
Alignment explanation
Indices: 46243880--46243984 Score: 113
Period size: 49 Copynumber: 2.1 Consensus size: 49
46243870 GGCTATCCAG
* * ** *
46243880 AGCTTCCTGGTTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATA
1 AGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTATCAGCCCGCATA
* * *
46243929 AGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGTTATACAGCCCGGATA
1 AGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTAT-CAGCCCGCATA
*
46243978 AGGTTCC
1 AGCTTCC
46243985 CGTTACAAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
48 22 0.48
49 24 0.52
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (49 bp):
AGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTATCAGCCCGCATA
Found at i:46249381 original size:79 final size:82
Alignment explanation
Indices: 46249270--46249454 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
46249260 GCTACTCGTT
* *
46249270 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46249333 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46249350 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46249413 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46249430 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46249455 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46249454 original size:40 final size:40
Alignment explanation
Indices: 46249251--46249454 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46249241 CGGAATTTAA
** *
46249251 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46249291 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46249331 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46249370 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46249410 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46249450 CCGGA
1 CCGGA
46249455 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46251993 original size:4 final size:4
Alignment explanation
Indices: 46251984--46252421 Score: 520
Period size: 4 Copynumber: 109.5 Consensus size: 4
46251974 TATAATTCAA
*
46251984 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
46252032 ATGC ATGC ATGC ATAT ATAT TTAC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
46252080 ATAC ATAC ATAC ATAC ATCC ATAC ATCC ATCC ATCC ATCC ATCC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46252128 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
46252176 AT-C TATAC ATGC ATCC ATAC ATGC ATGC ATAC ATAC ATGC ATAT ATAC
1 ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
46252224 TTAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
46252272 ATAC ATCC ATAC ATCC ATCC ATCC ATCC ATCC ATCC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
46252320 ATAC ATAC ATAC ATAC ATAC AT-C TATAC ATGC ATCC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
46252368 ATGC ATGC ATGC ATAC ATAC ATAA ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46252416 ATAC AT
1 ATAC AT
46252422 CACTTATACT
Statistics
Matches: 394, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
3 2 0.01
4 390 0.99
5 2 0.01
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:46252860 original size:21 final size:21
Alignment explanation
Indices: 46252822--46252881 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
46252812 TAAATATGCC
*
46252822 AACAGAAGCTCG--AAAGCTG
1 AACAAAAGCTCGTAAAAGCTG
*
46252841 AATAAAAGCTCGTAAAAGCTG
1 AACAAAAGCTCGTAAAAGCTG
* *
46252862 AACAGAAGCTCGTAAGAGCT
1 AACAAAAGCTCGTAAAAGCT
46252882 AATCCACTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 10 0.29
21 24 0.71
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (21 bp):
AACAAAAGCTCGTAAAAGCTG
Found at i:46264845 original size:20 final size:20
Alignment explanation
Indices: 46264817--46264859 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
46264807 ATTCCTAGTA
*
46264817 CTTAGAAATATT-GATAAATC
1 CTTAAAAATATTAG-TAAATC
46264837 CTTAAAAATATTAGTAAATC
1 CTTAAAAATATTAGTAAATC
46264857 CTT
1 CTT
46264860 GTATATCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
CTTAAAAATATTAGTAAATC
Found at i:46270709 original size:15 final size:15
Alignment explanation
Indices: 46270691--46270728 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
46270681 AAAATATTTT
46270691 TTATAAAATTCTAAA
1 TTATAAAATTCTAAA
*
46270706 TTATATAATTCTAAA
1 TTATAAAATTCTAAA
*
46270721 TTTTAAAA
1 TTATAAAA
46270729 ATTCAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATAAAATTCTAAA
Found at i:46271403 original size:29 final size:31
Alignment explanation
Indices: 46271348--46271406 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
46271338 ATCTCAAAAT
*
46271348 TATACATGAACTTTGATTTAGTGTGCAATTG
1 TATACATGAACTTTAATTTAGTGTGCAATTG
46271379 TATACATGAACTTTAATTT-G-GTGCAATT
1 TATACATGAACTTTAATTTAGTGTGCAATT
46271407 ATACACCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 1 0.04
31 18 0.67
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAGTGTGCAATTG
Found at i:46271417 original size:29 final size:28
Alignment explanation
Indices: 46271345--46271440 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 28
46271335 TAAATCTCAA
*
46271345 AATTATACA-TGAACTTTGATTTAGTGTGC
1 AATTATACACTGAACTTTAATTT-G-GTGC
46271374 AATTGTATACA-TGAACTTTAATTTGGTGC
1 AA-T-TATACACTGAACTTTAATTTGGTGC
* *
46271403 AATTATACACCTGAAACTCTAATTGTGGTTC
1 AATTATACA-CTG-AACTTTAATT-TGGTGC
*
46271434 AAATATA
1 AATTATA
46271441 TATTTAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 6 0.11
28 1 0.02
29 10 0.18
30 11 0.19
31 29 0.51
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (28 bp):
AATTATACACTGAACTTTAATTTGGTGC
Found at i:46271652 original size:29 final size:30
Alignment explanation
Indices: 46271599--46271657 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
46271589 GAATTGGATC
46271599 AAATCAAAATTTTATGTATAAAATTACATA
1 AAATCAAAATTTTATGTATAAAATTACATA
*
46271629 AAATCAAAA-TTTATGTATACAATTACATA
1 AAATCAAAATTTTATGTATAAAATTACATA
46271658 TTACACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATCAAAATTTTATGTATAAAATTACATA
Found at i:46272168 original size:22 final size:22
Alignment explanation
Indices: 46272123--46272197 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 22
46272113 AAAATTTATA
* *
46272123 TTACCATATATAT-T-GATATG
1 TTACCATATATATATATATATT
*
46272143 TTACCGTATATATATATATATT
1 TTACCATATATATATATATATT
* *
46272165 TTACCATACA-AAATA-ATATT
1 TTACCATATATATATATATATT
*
46272185 TTACCTTATATAT
1 TTACCATATATAT
46272198 CAATTGATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 25 0.58
21 6 0.14
22 12 0.28
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (22 bp):
TTACCATATATATATATATATT
Found at i:46272921 original size:19 final size:19
Alignment explanation
Indices: 46272897--46272936 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
46272887 CAATTTTATA
46272897 TCTATTAAGGGGGATTGAC
1 TCTATTAAGGGGGATTGAC
46272916 TCTATTAAGGGGGATTGAC
1 TCTATTAAGGGGGATTGAC
46272935 TC
1 TC
46272937 ATTCGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (19 bp):
TCTATTAAGGGGGATTGAC
Found at i:46276021 original size:7 final size:7
Alignment explanation
Indices: 46276009--46276043 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
46275999 TGCCCTTTTT
46276009 CTTCTTC
1 CTTCTTC
46276016 CTTCTTC
1 CTTCTTC
46276023 CTTCTTC
1 CTTCTTC
46276030 CTTC-TC
1 CTTCTTC
46276036 CTTTCTTC
1 C-TTCTTC
46276044 ACAATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.12
7 21 0.81
8 2 0.08
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
CTTCTTC
Found at i:46277620 original size:36 final size:36
Alignment explanation
Indices: 46277580--46277656 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
46277570 AGTCATTGAT
* *
46277580 CGATTAAGTAGATATGACCACGTG-TTGGTAATCAAC
1 CGATTAAGTAGATATGAACACATGCTT-GTAATCAAC
46277616 CGATTAAGTAGATATGAACACATGCTTGTAATCAAC
1 CGATTAAGTAGATATGAACACATGCTTGTAATCAAC
*
46277652 TGATT
1 CGATT
46277657 GTGTAGCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (36 bp):
CGATTAAGTAGATATGAACACATGCTTGTAATCAAC
Found at i:46278336 original size:36 final size:36
Alignment explanation
Indices: 46278241--46278312 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
46278231 AGTCACTGAT
* *
46278241 CGATTAAGTAGATATGACCATGTG-TTGGTAATCAAC
1 CGATTAAGTAGATATGAACACGTGCTT-GTAATCAAC
46278277 CGATTAAGTAGATATGAACACGTGCTTGTAATCAAC
1 CGATTAAGTAGATATGAACACGTGCTTGTAATCAAC
46278313 TGTTTGAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (36 bp):
CGATTAAGTAGATATGAACACGTGCTTGTAATCAAC
Found at i:46278344 original size:36 final size:36
Alignment explanation
Indices: 46278241--46278344 Score: 100
Period size: 36 Copynumber: 2.9 Consensus size: 36
46278231 AGTCACTGAT
* * * *
46278241 CGATTAAGTAGATATGACCATGTGTTGGTAATCAAC
1 CGATTAAGTAGATATGAACACGTGCTAGTAATCAAC
*
46278277 CGATTAAGTAGATATGAACACGTGCTTGTAATCAAC
1 CGATTAAGTAGATATGAACACGTGCTAGTAATCAAC
* * * * * * *
46278313 TGTTTGAGTAGTTCTGATCACGTGGTAGTAAT
1 CGATTAAGTAGATATGAACACGTGCTAGTAAT
46278345 TGATGGATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (36 bp):
CGATTAAGTAGATATGAACACGTGCTAGTAATCAAC
Found at i:46278742 original size:36 final size:35
Alignment explanation
Indices: 46278673--46278793 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 35
46278663 TGTAATCAAC
* *
46278673 TGATTGTGTAGCTCTGAGCACATGTTAGTAATTAA
1 TGATTGAGTAGCTCTGAGCACATGTTAGAAATTAA
* * * *
46278708 TGGATTGAGTAGTTCTGAGCACTTTTTTGAAATTAA
1 T-GATTGAGTAGCTCTGAGCACATGTTAGAAATTAA
* * *
46278744 TGATCGAGTA---CTGAGCACGTGTTAGCAATTAA
1 TGATTGAGTAGCTCTGAGCACATGTTAGAAATTAA
* * *
46278776 CAGTTTGAGTAGTTCTGA
1 -TGATTGAGTAGCTCTGA
46278794 TCACTTGATA
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
32 18 0.27
33 7 0.10
35 9 0.13
36 33 0.49
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (35 bp):
TGATTGAGTAGCTCTGAGCACATGTTAGAAATTAA
Found at i:46282799 original size:34 final size:35
Alignment explanation
Indices: 46282751--46282819 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
46282741 CAAGTCTCAG
46282751 GCACGAATTGATGCATCTAAGAAAAACAGAAACAT
1 GCACGAATTGATGCATCTAAGAAAAACAGAAACAT
46282786 GCAC-AATTGATGCATCTAAGAAAAACAGAAACAT
1 GCACGAATTGATGCATCTAAGAAAAACAGAAACAT
46282820 ACTTATAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.17
Consensus pattern (35 bp):
GCACGAATTGATGCATCTAAGAAAAACAGAAACAT
Found at i:46304906 original size:19 final size:19
Alignment explanation
Indices: 46304882--46304928 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
46304872 GGATGAAAAG
46304882 AGAAAATAGAAACGTA-GAA
1 AGAAAATA-AAACGTAGGAA
**
46304901 AGAAAATAAAATTTAGGAA
1 AGAAAATAAAACGTAGGAA
46304920 AGAAAATAA
1 AGAAAATAA
46304929 GAGATGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.66, C:0.02, G:0.17, T:0.15
Consensus pattern (19 bp):
AGAAAATAAAACGTAGGAA
Found at i:46310031 original size:223 final size:224
Alignment explanation
Indices: 46309642--46310085 Score: 782
Period size: 223 Copynumber: 2.0 Consensus size: 224
46309632 GACTTATTAA
* *
46309642 GTCAATATTCCTACAACACGAAACATCCTTAACTAGCTGGATTGCCAATAATACATTGATTCCAC
1 GTCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCAC
46309707 CCCTTATGTCTCAACTCACCAATACAACACATTATTGTTGTCGGGTATCCAAGATACATATACAA
66 CCCTTATGTCTCAACTCACCAATACAACACATTATTGTTGTCGGGTATCCAAGATACATATACAA
46309772 TCGACAAAAAGAACCAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
131 TCGACAAAAAGAACCAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
46309837 ACCATCCAAGTGAATGACCTCAAAACCTT
196 ACCATCCAAGTGAATGACCTCAAAACCTT
* * *
46309866 GTCAATATTCCTACAACACAAAACATCTTTAACTAGTTGG-TTGCCAACAATGCATTGATTCCAC
1 GTCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCAC
* *
46309930 CCTTTATGTCTCGACTCACCAATACAACACATTATTGTTGTCGGGTATCCAAGATACATATACAA
66 CCCTTATGTCTCAACTCACCAATACAACACATTATTGTTGTCGGGTATCCAAGATACATATACAA
* *
46309995 TCGACAAAAAGAACCAGTAAAACATTACTATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
131 TCGACAAAAAGAACCAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
* *
46310060 ATCATCCAAGTGAATGGCCTCAAAAC
196 ACCATCCAAGTGAATGACCTCAAAAC
46310086 ATTTATTATC
Statistics
Matches: 209, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
223 172 0.82
224 37 0.18
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.25
Consensus pattern (224 bp):
GTCAATATTCCTACAACACAAAACATCCTTAACTAGCTGGATTGCCAACAATACATTGATTCCAC
CCCTTATGTCTCAACTCACCAATACAACACATTATTGTTGTCGGGTATCCAAGATACATATACAA
TCGACAAAAAGAACCAATAAAACATTAATATTATCAAGGAAATTCAAGCCAAGAACAAAGTCGAA
ACCATCCAAGTGAATGACCTCAAAACCTT
Found at i:46310950 original size:30 final size:29
Alignment explanation
Indices: 46310916--46310980 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46310906 ATAAATTACA
* *
46310916 ATTTAGGCACTAAATTATTTGAAAATTTTC
1 ATTTAGGCACTAAACTA-TTCAAAATTTTC
* *
46310946 ATTTAAGTCACTAAACTATTCAAAATTTTT
1 ATTT-AGGCACTAAACTATTCAAAATTTTC
46310976 ATTTA
1 ATTTA
46310981 AGTCACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.03
30 18 0.60
31 11 0.37
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (29 bp):
ATTTAGGCACTAAACTATTCAAAATTTTC
Found at i:46310981 original size:30 final size:31
Alignment explanation
Indices: 46310923--46310987 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
46310913 ACAATTTAGG
* *
46310923 CACTAAATTATTTGAAAATTTTCATTTAAGT
1 CACTAAACTATTTCAAAATTTTCATTTAAGT
*
46310954 CACTAAACTA-TTCAAAATTTTTATTTAAGT
1 CACTAAACTATTTCAAAATTTTCATTTAAGT
46310984 CACT
1 CACT
46310988 GTTAATGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (31 bp):
CACTAAACTATTTCAAAATTTTCATTTAAGT
Found at i:46311280 original size:44 final size:44
Alignment explanation
Indices: 46311217--46311303 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
46311207 TTGCATTTAA
*
46311217 CCTTTTTTTTCTTAATGATTTAAATTAAAATTTTTGAATAATTT
1 CCTTTTTTTTCTTAATGATTTAAATTAAAACTTTTGAATAATTT
46311261 CCTTTTTTTTCTTAATGATTTAAATTAAAACTTTTGAATAATT
1 CCTTTTTTTTCTTAATGATTTAAATTAAAACTTTTGAATAATT
46311304 CAATAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (44 bp):
CCTTTTTTTTCTTAATGATTTAAATTAAAACTTTTGAATAATTT
Found at i:46322192 original size:41 final size:40
Alignment explanation
Indices: 46322131--46322252 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 40
46322121 TTAATTAAAA
*
46322131 CAGATTCAACGGCACTTAGCCTGCTACGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTA-GCTTATAGCCTGATT
* * *
46322173 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTA-GCTTATAGCCTGATT
* * *
46322214 CAGATCACCGGCAATTAGCTTGCTAGACTTAAAGCCTGA
1 CAGATCACCGGCACTTAGCCTGCTAG-CTTATAGCCTGA
46322253 AAAATTCACC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 63 0.93
42 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAGATCACCGGCACTTAGCCTGCTAGCTTATAGCCTGATT
Found at i:46336749 original size:13 final size:13
Alignment explanation
Indices: 46336731--46336761 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46336721 GTCCCAAATT
46336731 TCTTTTGTTAAAC
1 TCTTTTGTTAAAC
*
46336744 TCTTTTGTTAAAT
1 TCTTTTGTTAAAC
46336757 TCTTT
1 TCTTT
46336762 GAATTTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (13 bp):
TCTTTTGTTAAAC
Found at i:46337196 original size:8 final size:8
Alignment explanation
Indices: 46337183--46337217 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
46337173 TTACAGTTTC
46337183 AAAATCAT
1 AAAATCAT
46337191 AAAATCAT
1 AAAATCAT
46337199 AAAATCAT
1 AAAATCAT
*
46337207 AAAATAAT
1 AAAATCAT
46337215 AAA
1 AAA
46337218 CCTAAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATCAT
Found at i:46337693 original size:88 final size:90
Alignment explanation
Indices: 46337568--46337774 Score: 269
Period size: 91 Copynumber: 2.3 Consensus size: 90
46337558 TGGACACTCC
* * * * *
46337568 AATTTGTAGTTAAACCACCAGTG-TTGCAGGTTAATACGTTAT-TAGTAGCTT-GAATACACAAC
1 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTT-TCCAGTAGCTTGGAATACACAAC
46337630 GGGCTTGCAGAT-AAAGCTGCCAGTA
65 GGGCTTGCAGATAAAAGCTGCCAGTA
* *
46337655 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGGTTGGGAATACACAAT
1 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGCTT-GGAATACACAAC
* * *
46337720 GTGTTTGCAGATAAAAGTTGCCAGTA
65 GGGCTTGCAGATAAAAGCTGCCAGTA
*
46337746 AATTTGTGGATAAATCACTGGTGTTTGCA
1 AATTTGTGGATAAATCACTAGTGTTTGCA
46337775 AATAAACTGC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
87 20 0.19
88 24 0.23
90 20 0.19
91 40 0.38
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (90 bp):
AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGCTTGGAATACACAACG
GGCTTGCAGATAAAAGCTGCCAGTA
Found at i:46337774 original size:46 final size:45
Alignment explanation
Indices: 46337634--46337780 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 45
46337624 CACAACGGGC
*
46337634 TTGCAGAT-AAAGCTGCCAGTAAATTTGTGGATAAATCACTAGTGT
1 TTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACT-GTGT
* * * ** * *
46337679 TTGCAGGTTAATACGTTTCCAGT-AGGTTG-GGAATACA-CAATGTGT
1 TTGCA-GATAA-AAGTTGCCAGTAAATTTGTGG-ATAAATCACTGTGT
46337724 TTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACTGGTGT
1 TTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACT-GTGT
*
46337770 TTGCAAATAAA
1 TTGCAGATAAA
46337781 CTGCTAGTAC
Statistics
Matches: 78, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
43 9 0.12
44 12 0.15
45 19 0.24
46 21 0.27
47 9 0.12
48 8 0.10
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (45 bp):
TTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACTGTGT
Found at i:46341615 original size:18 final size:18
Alignment explanation
Indices: 46341592--46341629 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46341582 ACCGTGTTAT
46341592 TTTGTGT-TCTATGCTATA
1 TTTGTGTAT-TATGCTATA
*
46341610 TTTGTGTATTATGTTATA
1 TTTGTGTATTATGCTATA
46341628 TT
1 TT
46341630 GTGACCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (18 bp):
TTTGTGTATTATGCTATA
Found at i:46342418 original size:17 final size:18
Alignment explanation
Indices: 46342404--46342463 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 18
46342394 TATGATGTGA
46342404 TATGAACTGTTATGT-AG
1 TATGAACTGTTATGTCAG
* *
46342421 TATGAATTGCTAT-TCAG
1 TATGAACTGTTATGTCAG
* *
46342438 TATGAATTGTTATCTCA-
1 TATGAACTGTTATGTCAG
46342455 TATGAACTG
1 TATGAACTG
46342464 ACATTTGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 33 0.89
18 3 0.08
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (18 bp):
TATGAACTGTTATGTCAG
Found at i:46355819 original size:7 final size:7
Alignment explanation
Indices: 46355807--46355831 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46355797 TTATACACAT
46355807 AATACTA
1 AATACTA
46355814 AATACTA
1 AATACTA
46355821 AATACTA
1 AATACTA
46355828 AATA
1 AATA
46355832 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:46356804 original size:19 final size:20
Alignment explanation
Indices: 46356782--46356820 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46356772 ATTAATTAAA
*
46356782 ATTATATAA-ATGAAAAAAT
1 ATTAAATAATATGAAAAAAT
*
46356801 ATTAAATAATATTAAAAAAT
1 ATTAAATAATATGAAAAAAT
46356821 TAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATTAAATAATATGAAAAAAT
Found at i:46356807 original size:24 final size:25
Alignment explanation
Indices: 46356755--46356806 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
46356745 ACTGTTATAA
*
46356755 AAAATTATA-AAATAAAAATTAATT
1 AAAATTATATAAATAAAAAATAATT
46356779 AAAATTATATAAATGAAAAAAT-ATT
1 AAAATTATATAAAT-AAAAAATAATT
46356804 AAA
1 AAA
46356807 TAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATTATATAAATAAAAAATAATT
Found at i:46360013 original size:16 final size:17
Alignment explanation
Indices: 46359976--46360029 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
46359966 TTAAACATAC
*
46359976 ATATTTAATTATAT-AT
1 ATATTTAATCATATAAT
46359992 ATATTTAATCATATAAT
1 ATATTTAATCATATAAT
* *
46360009 A-ATTTATTGATATAAT
1 ATATTTAATCATATAAT
*
46360025 TTATT
1 ATATT
46360030 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATTTAATCATATAAT
Found at i:46366830 original size:3 final size:3
Alignment explanation
Indices: 46366822--46366889 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
46366812 TTTTTCGTAG
46366822 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
46366870 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
46366890 GTCTGGTTCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:46371404 original size:19 final size:18
Alignment explanation
Indices: 46371382--46371418 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46371372 TTAATCACCC
46371382 TCTTCAAACAAAGTATTTT
1 TCTTC-AACAAAGTATTTT
*
46371401 TCTTCACCAAAGTATTTT
1 TCTTCAACAAAGTATTTT
46371419 AAATAGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (18 bp):
TCTTCAACAAAGTATTTT
Found at i:46374143 original size:15 final size:15
Alignment explanation
Indices: 46374123--46374151 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46374113 GTATTGTTAT
46374123 TTGATAACACGGTGA
1 TTGATAACACGGTGA
46374138 TTGATAACACGGTG
1 TTGATAACACGGTG
46374152 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:46377003 original size:56 final size:56
Alignment explanation
Indices: 46376917--46377028 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
46376907 GGCGGTGACC
46376917 TTGTTAGTATAACTTGTTACACCCTAATGCTGTCACAGGTTATAATAACGAGGTCA
1 TTGTTAGTATAACTTGTTACACCCTAATGCTGTCACAGGTTATAATAACGAGGTCA
* *
46376973 TTGTTAGTATAACTTGTTACACCTTAATGCTGTCACAGGTTATTATAACGAGGTCA
1 TTGTTAGTATAACTTGTTACACCCTAATGCTGTCACAGGTTATAATAACGAGGTCA
46377029 CCACTGTCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (56 bp):
TTGTTAGTATAACTTGTTACACCCTAATGCTGTCACAGGTTATAATAACGAGGTCA
Found at i:46377897 original size:3 final size:3
Alignment explanation
Indices: 46377889--46377927 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
46377879 GATCAAGAAC
46377889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46377928 GAAAAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46378140 original size:22 final size:21
Alignment explanation
Indices: 46378101--46378144 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
46378091 AAAATTATAA
*
46378101 AATATAAAAATATATATATGT
1 AATATAAAAAAATATATATGT
46378122 AATATAAGAAAAATATATATGT
1 AATATAA-AAAAATATATATGT
46378144 A
1 A
46378145 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
AATATAAAAAAATATATATGT
Found at i:46378146 original size:26 final size:25
Alignment explanation
Indices: 46378106--46378160 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
46378096 TATAAAATAT
46378106 AAAAATATATATATGT-AA-TATAA
1 AAAAATATATATATGTGAATTATAA
46378129 GAAAAATATATATGTATGTGAATTATAA
1 -AAAAATATATA--TATGTGAATTATAA
46378157 AAAA
1 AAAA
46378161 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.41
26 5 0.19
27 6 0.22
28 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AAAAATATATATATGTGAATTATAA
Found at i:46378897 original size:19 final size:19
Alignment explanation
Indices: 46378873--46378946 Score: 121
Period size: 19 Copynumber: 3.8 Consensus size: 19
46378863 AATCATATCT
*
46378873 TCTAAGAATGCATATCATA
1 TCTAAGATTGCATATCATA
46378892 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
46378913 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46378932 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
46378947 TCTTGAAGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46378910 original size:21 final size:21
Alignment explanation
Indices: 46378884--46378946 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
46378874 CTAAGAATGC
46378884 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
46378905 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
46378924 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
46378945 AT
1 AT
46378947 TCTTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:46379242 original size:20 final size:17
Alignment explanation
Indices: 46379200--46379242 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
46379190 GCTGGGTTCT
46379200 GACTTCTTCGAGTGCTC
1 GACTTCTTCGAGTGCTC
46379217 GACTTCTTCGAGTGCTC
1 GACTTCTTCGAGTGCTC
*
46379234 GTCTTCTTC
1 GACTTCTTC
46379243 AAGTAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.30, G:0.21, T:0.40
Consensus pattern (17 bp):
GACTTCTTCGAGTGCTC
Found at i:46379554 original size:44 final size:44
Alignment explanation
Indices: 46379505--46379708 Score: 159
Period size: 44 Copynumber: 4.7 Consensus size: 44
46379495 TTCTGATCCA
* * * * *
46379505 CTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
*
46379549 TTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
* * * * *
46379593 CTCCACTGCAACCTCGGGGAGATGAGACTGG---ATACGATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
* * * * * *
46379634 CTCTACTGCAACTTCAGAGAGACAAGATCTGTTG-TT-TT-AACCCG
1 CTCCACTGCAACCTCAGGGAGATAAGAT-TG--GCTTATTCAATCTG
* * *
46379678 CTCCACTGAAACTTCAGGGAGATAGGATTGG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGG
46379709 TTACTTCTGT
Statistics
Matches: 127, Mismatches: 28, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
41 30 0.24
42 2 0.02
43 2 0.02
44 92 0.72
45 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
Found at i:46379829 original size:45 final size:45
Alignment explanation
Indices: 46379718--46380704 Score: 1221
Period size: 45 Copynumber: 21.9 Consensus size: 45
46379708 GTTACTTCTG
* * *
46379718 TCTTCGATCTACTTCGCTGTCAATACAGGAAGATAAGATC---TA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * *
46379760 TTTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCCGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * *
46379805 TCTTCGATCTACTTTGCTACCAATATAGGAA-ACCCAA-ATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGA--CAAGATCTGTTA
46379850 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * * *
46379895 TCTTCGATCTACTTTGCTACCAATATAGGAAGACAATATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
46379940 TCTTTGATCTACTTCGCTG-CAGATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCA-ATACAGGAAGACAAGATCTGTTA
* * *
46379985 TCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGAC---AAGATCTGTTA
* *
46380033 TCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * *
46380078 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAATATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * *
46380123 TCTTCGATCTACTTCGCTACCAATATAAGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* *
46380168 TATTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * *
46380213 TCTTCGATCTACTTCGCTACCGATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * *
46380258 TCTTTGATCTACTTCGCTGTCAGTACAGGAAGACAAGATTTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * * *
46380303 TCTTCGATCTACTTCGCTACCAATATAGAAAGACAAGATCCGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* *
46380348 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAAATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * *
46380393 TCTTCGATCTACTTCACTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * *
46380438 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
*
46380483 TCTTTGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * * *
46380528 TCTTCGATCTACTTCGCTACCAATATAAGAAGACAAGATCTGTTG
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * *
46380573 TTTTTGATCTACTTTGCTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* * * *
46380618 TTTTTGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTATTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
* *
46380663 TTTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTG
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
46380705 CTGTTTTCAC
Statistics
Matches: 809, Mismatches: 124, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
42 35 0.04
44 6 0.01
45 721 0.89
46 6 0.01
48 41 0.05
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
Found at i:46383191 original size:25 final size:25
Alignment explanation
Indices: 46383135--46383203 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
46383125 TGGAAGAAAA
*
46383135 TCAAAAAGAATGAAAGAATAATTAT
1 TCAAAAAGAATGAAAGAATAATTAC
* *
46383160 TCGAAAAGAATGAAAGAAT-ATTGGC
1 TCAAAAAGAATGAAAGAATAATT-AC
46383185 TCAAAAATGAATGCAAAGA
1 TCAAAAA-GAATG-AAAGA
46383204 TGTATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.08
25 24 0.65
26 5 0.14
27 5 0.14
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.20
Consensus pattern (25 bp):
TCAAAAAGAATGAAAGAATAATTAC
Found at i:46385473 original size:16 final size:16
Alignment explanation
Indices: 46385452--46385486 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
46385442 TTCTATGATG
*
46385452 AAATGTCATGCAGTCA
1 AAATGTCATGCAGCCA
46385468 AAATGTCATGCAGCCA
1 AAATGTCATGCAGCCA
46385484 AAA
1 AAA
46385487 GAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGTCATGCAGCCA
Found at i:46386946 original size:9 final size:9
Alignment explanation
Indices: 46386932--46386961 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
46386922 CAAGAACAAA
*
46386932 AATAATAAT
1 AATAATATT
46386941 AATAATATT
1 AATAATATT
46386950 AATAATATT
1 AATAATATT
46386959 AAT
1 AAT
46386962 GAAAGGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATAATATT
Found at i:46387176 original size:23 final size:22
Alignment explanation
Indices: 46387136--46387179 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
46387126 AAATTATAAA
*
46387136 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
46387158 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
46387180 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:46387947 original size:19 final size:19
Alignment explanation
Indices: 46387902--46387955 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
46387892 AATCATATCT
*
46387902 TCTAAGAATGCATATCATA
1 TCTAAGATTGCATATCATA
46387921 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46387940 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
46387956 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46388763 original size:15 final size:15
Alignment explanation
Indices: 46388743--46388799 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
46388733 ATTCAATATT
46388743 AATATTTTAATAATA
1 AATATTTTAATAATA
*
46388758 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
46388777 AATATATTAATAATA
1 AATATTTTAATAATA
*
46388792 AATGTTTT
1 AATATTTT
46388800 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:46389337 original size:15 final size:15
Alignment explanation
Indices: 46389317--46389348 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
46389307 CTCCTTAAAC
46389317 TTTAAAATATTTTAA
1 TTTAAAATATTTTAA
46389332 TTTAAAATATTTTAA
1 TTTAAAATATTTTAA
46389347 TT
1 TT
46389349 GAATCCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATATTTTAA
Found at i:46390472 original size:43 final size:43
Alignment explanation
Indices: 46390408--46390593 Score: 248
Period size: 43 Copynumber: 4.3 Consensus size: 43
46390398 CGCTAAAGAA
* * * *
46390408 CACAAACGCTGCTAAATGTCATGTCCTTTAGCGGCG-TCTATCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCT-TCTCT
* * *
46390451 CACAAATGCCGCTAAAGGTCATGTTCTTTAACGGCGCTTTTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
* *
46390494 CACAAACGCCGCTAAAGTTCATGTTCTTTAGCGGTGCTTCTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
* * *
46390537 CACAAACGCTGCTAAAGTTCATGTTCTTTAGCGGTGCTTCTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
46390580 CACAAACGCCGCTA
1 CACAAACGCCGCTA
46390594 TTGTTTGATG
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 128 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
Found at i:46390970 original size:21 final size:21
Alignment explanation
Indices: 46390946--46390992 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
46390936 TGCTCTGCTT
46390946 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCCGCCTC
*
46390967 TGCTTCCCTCGCTGCTGCCTC
1 TGCTTCCCTCGCTGCCGCCTC
46390988 TGCTT
1 TGCTT
46390993 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.47, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCCGCCTC
Found at i:46392753 original size:26 final size:25
Alignment explanation
Indices: 46392724--46392788 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
46392714 ATTTTACATG
* *
46392724 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGTAAAT-ATATAACTT
* *
46392750 ATTAAGTTATGCATATATATAACTT
1 ATTAAGTTATGTAAATATATAACTT
46392775 ATTAAGTTATGTAA
1 ATTAAGTTATGTAA
46392789 GTTATTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTAAGTTATGTAAATATATAACTT
Found at i:46392868 original size:25 final size:25
Alignment explanation
Indices: 46392807--46392856 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
46392797 GTGAGTTATG
46392807 ATATAA-C-ATGTAAGTTATGTATT
1 ATATAAGCTATGTAAGTTATGTATT
*
46392830 ATATAAGCTATGTAAGTTGTGTATT
1 ATATAAGCTATGTAAGTTATGTATT
46392855 AT
1 AT
46392857 GTTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 17 0.71
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (25 bp):
ATATAAGCTATGTAAGTTATGTATT
Found at i:46392881 original size:25 final size:25
Alignment explanation
Indices: 46392853--46392907 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
46392843 AAGTTGTGTA
46392853 TTATGT-TATTTATGTACTATGTAAG
1 TTATGTGTA-TTATGTACTATGTAAG
* *
46392878 TTATGTGTATTATGTATTATGTATG
1 TTATGTGTATTATGTACTATGTAAG
46392903 TTATG
1 TTATG
46392908 CATAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.55
Consensus pattern (25 bp):
TTATGTGTATTATGTACTATGTAAG
Found at i:46392898 original size:32 final size:31
Alignment explanation
Indices: 46392821--46392900 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
46392811 AACATGTAAG
*
46392821 TTATGTATTATATAAGCTATGTAAGTTGTGTA
1 TTATGTATTATGT-AGCTATGTAAGTTGTGTA
46392853 TTATGTTATTTATGTA-CTATGTAAGTTATGTGTA
1 TTATG-TA-TTATGTAGCTATGTAAG-T-TGTGTA
46392887 TTATGTATTATGTA
1 TTATGTATTATGTA
46392901 TGTTATGCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
32 21 0.49
33 6 0.14
34 16 0.37
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (31 bp):
TTATGTATTATGTAGCTATGTAAGTTGTGTA
Done.