Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 16 of 144
Found at i:4316957 original size:388 final size:388
Alignment explanation
Indices: 4316241--4318119 Score: 3722
Period size: 388 Copynumber: 4.8 Consensus size: 388
4316231 AACGTCCAAG
4316241 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
1 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
4316306 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
66 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
4316371 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
131 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
4316436 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
196 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
4316501 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
261 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
4316566 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
326 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
4316629 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
1 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
4316694 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
66 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
4316759 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
131 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
4316824 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
196 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
4316889 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
261 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
4316954 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
326 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
4317017 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
1 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
4317082 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
66 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
4317147 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
131 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
4317212 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
196 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
4317277 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
261 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
4317342 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
326 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
4317405 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
1 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
4317470 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
66 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
*
4317535 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATT
131 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
4317600 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
196 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
4317665 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
261 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
4317730 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
326 AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
*
4317793 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGCAAAAAAT
1 TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
4317858 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
66 CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
*
4317923 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATT
131 AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
4317988 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
196 AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
*
4318053 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACCGCCTTAGCTTGC
261 TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
4318118 AA
326 AA
4318120 GATGTCATGA
Statistics
Matches: 1488, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
388 1488 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (388 bp):
TTTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAAT
CTTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGG
AAACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATT
AATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAA
TATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTGC
AACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCT
Found at i:4323837 original size:2 final size:2
Alignment explanation
Indices: 4323798--4323827 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4323788 TTCCGTATAG
4323798 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4323828 CATCCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4334449 original size:125 final size:124
Alignment explanation
Indices: 4334224--4334450 Score: 382
Period size: 124 Copynumber: 1.8 Consensus size: 124
4334214 TAATTTCGAG
* *
4334224 TTGACGTTTCTAATCAAATACTATAAAACCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATACTATAAAACCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
* *
4334289 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTAGACGCGCTTTTACTACAGTAGGTCATGGAAGAAATAATTTTTT
* * *
4334348 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATACTATAAAACCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
4334413 AAAATCGCGCCCTCGTAGACGCGCTTTTACTACAGTAG
66 -AAATCGCGCCCTCGTAGACGCGCTTTTACTACAGTAG
4334451 CATGTTTGGG
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 60 0.63
125 35 0.37
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (124 bp):
TTGACGTTTCTAAGCAAATACTATAAAACCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTAGACGCGCTTTTACTACAGTAGGTCATGGAAGAAATAATTTTTT
Found at i:4336371 original size:115 final size:115
Alignment explanation
Indices: 4336169--4336404 Score: 472
Period size: 115 Copynumber: 2.1 Consensus size: 115
4336159 TAAGTTTGTG
4336169 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTTTAAATTACATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTTTAAATTACATAAAATTATTAAT
4336234 TGTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
4336284 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTTTAAATTACATAAAATTATTAAT
1 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTTTAAATTACATAAAATTATTAAT
4336349 TGTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TGTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
4336399 AAATTA
1 AAATTA
4336405 GGTTAGGGTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 121 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTTTAAATTACATAAAATTATTAAT
TGTTAGTACCAATCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
Found at i:4336459 original size:23 final size:23
Alignment explanation
Indices: 4336400--4336846 Score: 537
Period size: 23 Copynumber: 19.1 Consensus size: 23
4336390 GTGAATGTAA
*
4336400 AATTAGGTTAGGGTTTTTAAGTT
1 AATTAGGTTAGGGTTTTTAATTT
* *
4336423 AA--GGGTTAGAGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
**
4336444 AATTAGGTTAGGGTTTTTAGCTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336467 AATTAGGTTAGGGTTTTTAAGTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336490 AATTAGGTTAGAGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336513 AATTAGGTTAGGGTTTTTAAGTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336536 AA--GGGTTAGGGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336557 AATTAGGTTAGGGTTTTAAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336580 AATTAGGTTAGGGTTTTTAAGTT
1 AATTAGGTTAGGGTTTTTAATTT
* * *
4336603 AA--GGGTTAAGATTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
**
4336624 AATTATATTAGGGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336647 AATTAGGTTAGAGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
4336670 AATTAGGTTAGGGTTTTTTAATTT
1 AATTAGGTTAGGG-TTTTTAATTT
4336694 AATTAGGTTAGGGTTAAGGTTTTAAAATTT
1 AATTAGGTTAGGG-T----TTTT--AATTT
4336724 AATTAGGTTAGGGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336747 AATTAAGTTAGGGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
*
4336770 AATTAGGTTCGGGTTTTTAAATTT
1 AATTAGGTTAGGGTTTTT-AATTT
**
4336794 AATTAGGTTAGAATTTTTAAGTTAATTT
1 AATTAGGTTAG--GGTTT---TTAATTT
4336822 AATTAGGTTAGGGTTTTTAATTT
1 AATTAGGTTAGGGTTTTTAATTT
4336845 AA
1 AA
4336847 CTTAATTAAA
Statistics
Matches: 365, Mismatches: 40, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
21 54 0.15
23 220 0.60
24 40 0.11
25 4 0.01
26 6 0.02
28 20 0.05
29 3 0.01
30 18 0.05
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.49
Consensus pattern (23 bp):
AATTAGGTTAGGGTTTTTAATTT
Found at i:4336479 original size:67 final size:69
Alignment explanation
Indices: 4336400--4336846 Score: 482
Period size: 67 Copynumber: 6.4 Consensus size: 69
4336390 GTGAATGTAA
* *
4336400 AATTAGGTTAGGGTTTTTAAGTTAA-GGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTT-A
1 AATTAGGTTAGGGTTTTTAATTTAATAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAA
*
4336463 GCTT
66 GTTT
*
4336467 AATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTA
1 AATTAGGTTAGGGTTTTTAATTTAA-TAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTA
4336532 AG-TT
65 AGTTT
* * *
4336536 AA--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAGGGTTTTTA
1 AATTAGGTTAGGGTTTTTAATTTAA-TAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTA
4336599 AG-TT
65 AGTTT
* * * ** * *
4336603 AA--GGGTTAAGATTTTTAATTTAATTATATTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTA
1 AATTAGGTTAGGGTTTTTAATTTAA-TAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTA
4336666 A-TTT
65 AGTTT
*
4336670 AATTAGGTTAGGGTTTTTTAATTTAATTAGGTTAGGGTTAAGGTTTTAAAATTTAATTAGGTTAG
1 AATTAGGTTAGGG-TTTTTAATTTAA-TAGGTTA--G---A-GTTTT-TAATTTAATTAGGTTAG
4336735 GGTTTTTAA-TTT
57 GGTTTTTAAGTTT
* * * **
4336747 AATTAAGTTAGGGTTTTTAATTTAATTAGGTTCGGGTTTTTAAATTTAATTAGGTTAGAATTTTT
1 AATTAGGTTAGGGTTTTTAATTTAA-TAGGTTAGAGTTTTT-AATTTAATTAGGTTAGGGTTTTT
4336812 AAGTTAATTT
64 AAG----TTT
4336822 AATTAGGTTAGGGTTTTTAATTTAA
1 AATTAGGTTAGGGTTTTTAATTTAA
4336847 CTTAATTAAA
Statistics
Matches: 334, Mismatches: 26, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
67 148 0.44
69 46 0.14
70 48 0.14
72 1 0.00
74 1 0.00
75 27 0.08
76 24 0.07
77 39 0.12
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.49
Consensus pattern (69 bp):
AATTAGGTTAGGGTTTTTAATTTAATAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAA
GTTT
Found at i:4336715 original size:30 final size:30
Alignment explanation
Indices: 4336665--4336738 Score: 106
Period size: 24 Copynumber: 2.7 Consensus size: 30
4336655 TAGAGTTTTT
4336665 AATTTAATTAGGTTAGGGTT----TTTT--
1 AATTTAATTAGGTTAGGGTTAAGGTTTTAA
4336689 AATTTAATTAGGTTAGGGTTAAGGTTTTAA
1 AATTTAATTAGGTTAGGGTTAAGGTTTTAA
4336719 AATTTAATTAGGTTAGGGTT
1 AATTTAATTAGGTTAGGGTT
4336739 TTTAATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 20 0.45
28 4 0.09
30 20 0.45
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (30 bp):
AATTTAATTAGGTTAGGGTTAAGGTTTTAA
Found at i:4336907 original size:23 final size:23
Alignment explanation
Indices: 4336844--4337821 Score: 1167
Period size: 23 Copynumber: 43.2 Consensus size: 23
4336834 GTTTTTAATT
*
4336844 TAACTTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4336867 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4336888 TAACATAATTAAATTTAAAAACTC
1 TAACCTAATTAAA-TTAAAAACCC
* *
4336912 TAACTTAATTAAATTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
4336935 TAACCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4336958 TAACCTAATTAATTTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
*
4336981 TAACCTAATTAAATTAAAAACAC
1 TAACCTAATTAAATTAAAAACCC
*
4337004 TAACCTAATTAAATTAACAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4337027 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
4337048 TAACCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4337071 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337092 TAACCTAATTAAATTTAAAAACCT
1 TAACCTAATTAAA-TTAAAAACCC
* *
4337116 TAATCTAATTAAATTAAAGACCC
1 TAACCTAATTAAATTAAAAACCC
* * *
4337139 TAACC--CTTAACTTAAAGACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337160 TAACCTAATTAAATTTAAAAATCC
1 TAACCTAATTAAA-TTAAAAACCC
*
4337184 TAACATAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* * *
4337207 TAACCTGATTAACTTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
*
4337230 TAACCTAATTAAATTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
* *
4337253 TAACATAATTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337276 TAACTTAATTAAATTTAAAAACCC
1 TAACCTAATTAAA-TTAAAAACCC
*
4337300 GAACCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* * *
4337323 TAACC--CTTAACTTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
*
4337344 TAACCTAATTTAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4337367 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337388 TAACCTAATTAAATTAAAAACCT
1 TAACCTAATTAAATTAAAAACCC
* *
4337411 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
4337432 TAACCTAATTAAATTTAAAAACCC
1 TAACCTAATTAAA-TTAAAAACCC
*
4337456 TAATCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337479 TCACCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* * *
4337502 TAACC--CTTAACTTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
* *
4337523 TAGCCTAATTAAATTAAAAACTC
1 TAACCTAATTAAATTAAAAACCC
* *
4337546 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4337567 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337588 TAACCTAATTTAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337611 TAACCTAATTAAATTAAAAACCT
1 TAACCTAATTAAATTAAAAACCC
* *
4337634 TAACC--CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
4337655 TAACCTAATTAAATTTAAAAACCC
1 TAACCTAATTAAA-TTAAAAACCC
* *
4337679 TAATCTAATGAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
*
4337702 TCACCTAATTAAATTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
* *
4337725 TAA-CT-CTTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
4337746 TAACCTAATTAAATTTAAAAACCC
1 TAACCTAATTAAA-TTAAAAACCC
4337770 TAACCTAATTAAATTTAAAAACCC
1 TAACCTAATTAAA-TTAAAAACCC
*
4337794 TAACCTAATTAACTTAAAAACCC
1 TAACCTAATTAAATTAAAAACCC
4337817 TAACC
1 TAACC
4337822 AATCATTTGG
Statistics
Matches: 821, Mismatches: 105, Indels: 58
0.83 0.11 0.06
Matches are distributed among these distances:
21 219 0.27
22 4 0.00
23 426 0.52
24 172 0.21
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (23 bp):
TAACCTAATTAAATTAAAAACCC
Found at i:4337057 original size:44 final size:45
Alignment explanation
Indices: 4336850--4337821 Score: 1023
Period size: 44 Copynumber: 21.5 Consensus size: 45
4336840 AATTTAACTT
* * *
4336850 AATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACAT
1 AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC-C
* * *
4336894 AATTAAATTTAAAAACTCTAACTTAATTAAATTAAAAACTCTAACC
1 AATTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4336940 TAATTAAATTAAAAACCCTAACCTAATTAATTTAAAAACTCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4336986 TAATTAAATTAAAAACACTAACCTAATTAAATTAACAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4337032 -CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
1 AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * * *
4337076 -CTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCTTAATCT
1 AATTAAATTAAAAACCCTAACCTAATTAAA-TTAAAAACCCTAA-CC
* * * *
4337122 AATTAAATTAAAGACCCTAACC--CTTAACTTAAAGACCCTAACC
1 AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4337165 TAATTAAATTTAAAAATCCTAACATAATTAAATTAAAAACCCTAACC
1 -AATTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * * * *
4337212 TGATTAACTTAAAAACTCTAACCTAATTAAATTAAAAACTCTAACAT
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC-C
* * *
4337259 AATTAACTTAAAAACCCTAACTTAATTAAATTTAAAAACCCGAACC
1 AATTAAATTAAAAACCCTAACCTAATTAAA-TTAAAAACCCTAACC
* * *
4337305 TAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACTCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337349 TAATTTAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337393 TAATTAAATTAAAAACCTTAACC--CTTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4337437 TAATTAAATTTAAAAACCCTAATCTAATTAAATTAAAAACCCTCACC
1 -AATTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * * *
4337484 TAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACTCTAGCC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337528 TAATTAAATTAAAAACTCTAACC--CTTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337572 -CTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC
1 AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337616 TAATTAAATTAAAAACCTTAACC--CTTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* * *
4337660 TAATTAAATTTAAAAACCCTAATCTAATGAAATTAAAAACCCTCACC
1 -AATTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
* *
4337707 TAATTAAATTAAAAACCCTAA-CT-CTTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
4337751 TAATTAAATTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACC
1 -AATTAAA-TTAAAAACCCTAACCTAATTAAA-TTAAAAACCCTAACC
*
4337799 TAATTAACTTAAAAACCCTAACC
1 -AATTAAATTAAAAACCCTAACC
4337822 AATCATTTGG
Statistics
Matches: 805, Mismatches: 95, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
42 18 0.02
43 1 0.00
44 325 0.40
45 86 0.11
46 185 0.23
47 168 0.21
48 22 0.03
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (45 bp):
AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
Found at i:4337384 original size:272 final size:267
Alignment explanation
Indices: 4336844--4337820 Score: 1290
Period size: 272 Copynumber: 3.6 Consensus size: 267
4336834 GTTTTTAATT
* *
4336844 TAACTTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACATAATTAAATTTAAAAA
1 TAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAA
* * *
4336909 CTCTAACTTAATTAAATTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAATTAATTTA
66 CCCTAAC-TAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTA
* *
4336974 AAAACTCTAACCTAATTAAATTAAAAACACTAACCTAATTAAATTAACAACCCTAACCCTTAACT
130 AAAACTCTAACCTAATTAAATTAAAAACCCTAA-CTAATTAAATTAAAAACCCTAACCCTTAACT
* *
4337039 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC---CTTAACTTAAAAACCCTAACCTAAT
194 TAAAAACCCTAACC-AATT-AATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACC--CT
* *
4337101 TAAATTTAAAAACCT
254 T-AACTTAAAAACCC
* * *
4337116 TAATCTAATTAAATTAAAGACCCTAACCCTTAACTTAAAGACCCTAACCTAATTAAATTTAAAAA
1 TAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAA
* * * *
4337181 TCCTAACATAATTAAATTAAAAACCCTAACCTGATTAACTTAAAAACTCTAACCTAATTAAATTA
66 CCCTAAC-TAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTA
* * * *
4337246 AAAACTCTAACATAATTAACTTAAAAACCCTAACTTAATTAAATTTAAAAACCCGAACCTAATTA
130 AAAACTCTAACCTAATTAAATTAAAAACCCTAAC-TAATTAAA-TTAAAAACCCTAACC--CTTA
* * *
4337311 AATTAAAAACCCTAACC-CTTAACTTAAAAACTCTAACCTAATTTAATTAAAAACCCTAACCCTT
191 ACTTAAAAACCCTAACCAATTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTT
4337375 AACTTAAAAACCC
255 AACTTAAAAACCC
*
4337388 TAACCTAATTAAATTAAAAACCTTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAA
1 TAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAA
* * *
4337453 CCCTAATCTAATTAAATTAAAAACCCTCACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
66 CCCTAA-CTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTA
* * ** *
4337516 AAAACTCTAGCCTAATTAAATTAAAAACTCTAAC-CCTTAACTTAAAAACCCTAACCCTTAACTT
130 AAAACTCTAACCTAATTAAATTAAAAACCCTAACTAATTAAATTAAAAACCCTAACCCTTAACTT
* *
4337580 AAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACCCTTAAC
195 AAAAACCCTAACC-AA-TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAAC
4337645 TTAAAAACCC
258 TTAAAAACCC
* * *
4337655 TAACCTAATTAAATTTAAAAACCCTAA-TCTAATGAAATTAAAAACCCTCACCTAATTAAA-TTA
1 TAACCTAATTAAA-TTAAAAACCCTAACCCT--T-AACTTAAAAACCCTAACCTAATTAAATTTA
* *
4337718 AAAACCCTAACT-CTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAATTAA
62 AAAACCCTAACTAATTAAATTAAAAACCCTAACCTAATTAAA-TTAAAAACCCTAACCTAATTAA
* *
4337782 ATTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAAC
126 A-TTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
4337821 CAATCATTTG
Statistics
Matches: 621, Mismatches: 64, Indels: 41
0.86 0.09 0.06
Matches are distributed among these distances:
265 19 0.03
267 106 0.17
268 37 0.06
269 14 0.02
270 65 0.10
271 34 0.05
272 276 0.44
273 32 0.05
275 34 0.05
276 4 0.01
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (267 bp):
TAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAA
CCCTAACTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAA
AAACTCTAACCTAATTAAATTAAAAACCCTAACTAATTAAATTAAAAACCCTAACCCTTAACTTA
AAAACCCTAACCAATTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAACTTA
AAAACCC
Found at i:4337965 original size:23 final size:23
Alignment explanation
Indices: 4337939--4338181 Score: 302
Period size: 23 Copynumber: 10.7 Consensus size: 23
4337929 TTGTTTAGTA
*
4337939 TTTTTAATTTAATTAAGTTAGGG
1 TTTTTAATTTAATTAGGTTAGGG
*
4337962 TTTTTAAGTTAATTAGGTTAGGG
1 TTTTTAATTTAATTAGGTTAGGG
4337985 TTTTTAAATTTAATTAGGTTAGGG
1 TTTTT-AATTTAATTAGGTTAGGG
4338009 TTTTTAAATTTAATTAGGTTAGGG
1 TTTTT-AATTTAATTAGGTTAGGG
* * *
4338033 TTTTAAAGTTAA--GGGTTAGGG
1 TTTTTAATTTAATTAGGTTAGGG
4338054 TTTTTAATTTAATTAGGTTAGGG
1 TTTTTAATTTAATTAGGTTAGGG
* *
4338077 TTTTTAAGTT-A--AGGATTAGAG
1 TTTTTAATTTAATTAGG-TTAGGG
*
4338098 TTTTTAATTTAATTAGGTGAGGG
1 TTTTTAATTTAATTAGGTTAGGG
*
4338121 TTTTTAATTTAATTAGATTAGGG
1 TTTTTAATTTAATTAGGTTAGGG
* * *
4338144 TTTTTAAGTTAA--GGGTTAAGG
1 TTTTTAATTTAATTAGGTTAGGG
4338165 TTTTTAATTTAATTAGG
1 TTTTTAATTTAATTAGG
4338182 CATCCCCAGC
Statistics
Matches: 189, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
20 3 0.02
21 49 0.26
22 2 0.01
23 87 0.46
24 48 0.25
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (23 bp):
TTTTTAATTTAATTAGGTTAGGG
Found at i:4338142 original size:67 final size:66
Alignment explanation
Indices: 4337946--4338181 Score: 284
Period size: 67 Copynumber: 3.5 Consensus size: 66
4337936 GTATTTTTAA
*
4337946 TTTAA-TTAA-GTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGGG
1 TTTAAGTTAAGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTT-AATTTAATTAGGTTAGGG
4338009 TT
65 TT
* * * *
4338011 TTTAAATTTAATTAGGTTAGGGTTTTAAAGTTAA--GGGTTAGGGTTTTTAATTTAATTAGGTTA
1 TTT-AAGTT-A--AGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA
4338074 GGGTT
62 GGGTT
* * *
4338079 TTTAAGTTAAGGATTAGAGTTTTTAATTTAATTAGGTGAGGGTTTTTAATTTAATTAGATTAGGG
1 TTTAAGTTAAGG-TTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
4338144 TT
65 TT
*
4338146 TTTAAGTTAAGGGTTA-AGGTTTTTAATTTAATTAGG
1 TTTAAGTTAA-GGTTAGA-GTTTTTAAGTTAATTAGG
4338182 CATCCCCAGC
Statistics
Matches: 151, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
64 3 0.02
65 18 0.12
66 4 0.03
67 68 0.45
68 26 0.17
69 13 0.09
70 1 0.01
71 18 0.12
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (66 bp):
TTTAAGTTAAGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGT
T
Found at i:4338177 original size:44 final size:45
Alignment explanation
Indices: 4337939--4338180 Score: 262
Period size: 44 Copynumber: 5.4 Consensus size: 45
4337929 TTGTTTAGTA
*
4337939 TTTTTAATTTAATTA-AGTTAGGGTTTTTAAGTTAATTAGGTTAGGG
1 TTTTTAATTTAATTAGA-TTAGGGTTTTTAATTTAA-TAGGTTAGGG
*
4337985 TTTTTAAATTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGGG
1 TTTTT-AATTTAATTAGATTAGGGTTTTT-AATTTAA-TAGGTTAGGG
* * * *
4338033 TTTTAAAGTTAA--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
1 TTTTTAATTTAATTAGATTAGGGTTTTTAATTTAA-TAGGTTAGGG
* * * *
4338077 TTTTTAAGTTAA--GGATTAGAGTTTTTAATTTAATTAGGTGAGGG
1 TTTTTAATTTAATTAGATTAGGGTTTTTAATTTAA-TAGGTTAGGG
* * *
4338121 TTTTTAATTTAATTAGATTAGGGTTTTTAAGTTAA-GGGTTAAGG
1 TTTTTAATTTAATTAGATTAGGGTTTTTAATTTAATAGGTTAGGG
4338165 TTTTTAATTTAATTAG
1 TTTTTAATTTAATTAG
4338181 GCATCCCCAG
Statistics
Matches: 175, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
44 91 0.52
45 13 0.07
46 23 0.13
47 27 0.15
48 21 0.12
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (45 bp):
TTTTTAATTTAATTAGATTAGGGTTTTTAATTTAATAGGTTAGGG
Found at i:4338598 original size:22 final size:23
Alignment explanation
Indices: 4338573--4338623 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
4338563 TAGATTTAAA
*
4338573 AGAATTTTTG-AAGGAAATTGAG
1 AGAATTATTGAAAGGAAATTGAG
* *
4338595 AGAA-AATTGAAAGGAATTTGAG
1 AGAATTATTGAAAGGAAATTGAG
4338617 AGAATTA
1 AGAATTA
4338624 GTTTGTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.13
22 19 0.83
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.27
Consensus pattern (23 bp):
AGAATTATTGAAAGGAAATTGAG
Found at i:4344433 original size:6 final size:6
Alignment explanation
Indices: 4344422--4344452 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4344412 TTAGGAAAAA
4344422 AAATAT AAATAT AAATAT AAATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
4344453 TATGAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:4344466 original size:18 final size:17
Alignment explanation
Indices: 4344422--4344476 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
4344412 TTAGGAAAAA
4344422 AAATATAAATATAAATAT-
1 AAATATAAATAT--ATATG
4344440 AAATATAAATATATATG
1 AAATATAAATATATATG
4344457 AAATATTAAA-A-ATATG
1 AAATA-TAAATATATATG
4344473 AAAT
1 AAAT
4344477 TTATATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.37
17 6 0.17
18 16 0.46
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
AAATATAAATATATATG
Found at i:4344471 original size:16 final size:15
Alignment explanation
Indices: 4344420--4344476 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
4344410 AATTAGGAAA
4344420 AAAAATAT-AAATAT
1 AAAAATATGAAATAT
4344434 --AAATAT-AAATAT
1 AAAAATATGAAATAT
4344446 AAATATATATGAAATATT
1 AAA-A-ATATGAAATA-T
4344464 AAAAATATGAAAT
1 AAAAATATGAAAT
4344477 TTATATAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 12 0.32
14 1 0.03
15 1 0.03
16 13 0.35
17 6 0.16
18 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (15 bp):
AAAAATATGAAATAT
Found at i:4344500 original size:19 final size:18
Alignment explanation
Indices: 4344478--4344559 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
4344468 ATATGAAATT
4344478 TATATAAACTTATTAAAAA
1 TATATAAACTTA-TAAAAA
* *
4344497 TATAAAAACTTATAAATA
1 TATATAAACTTATAAAAA
* *
4344515 T-TATAAAAATTATAAAAT
1 TATAT-AAACTTATAAAAA
*
4344533 TA-ATCAAACTTATTCAAAA
1 TATAT-AAACTTA-TAAAAA
*
4344552 TATTTAAA
1 TATATAAA
4344560 TCTAAAATAC
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 2 0.04
18 25 0.52
19 20 0.42
20 1 0.02
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
TATATAAACTTATAAAAA
Found at i:4344518 original size:28 final size:29
Alignment explanation
Indices: 4344460--4344554 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 29
4344450 ATATATGAAA
* *
4344460 TATTAAAAATAT-GAAATTTATATAAACT
1 TATTAAAAATATAAAAACTTATATAAACT
4344488 TATTAAAAATATAAAAACTTATA-AATA-T
1 TATTAAAAATATAAAAACTTATATAA-ACT
4344516 TA-TAAAAAT-TATAAAA-TTA-ATCAAACT
1 TATTAAAAATATA-AAAACTTATAT-AAACT
*
4344543 TATTCAAAATAT
1 TATTAAAAATAT
4344555 TTAAATCTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 16 0.29
28 23 0.41
29 10 0.18
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (29 bp):
TATTAAAAATATAAAAACTTATATAAACT
Found at i:4346459 original size:46 final size:46
Alignment explanation
Indices: 4346409--4346504 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
4346399 ACAATGCTAT
* * * *
4346409 AACTCAGTATGGTTTCCTTCATTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
4346455 AACTCAGTATAGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
4346501 AACT
1 AACT
4346505 TTCCATGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (46 bp):
AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:4347763 original size:16 final size:17
Alignment explanation
Indices: 4347717--4347764 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
4347707 AAATTCTTTT
4347717 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
4347734 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
4347751 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
4347765 TTCTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:4348266 original size:9 final size:9
Alignment explanation
Indices: 4348252--4348394 Score: 96
Period size: 9 Copynumber: 15.6 Consensus size: 9
4348242 TATAACCTTT
4348252 TTTTTATAA
1 TTTTTATAA
*
4348261 TTTTTATGA
1 TTTTTATAA
4348270 TTTTTATAAA
1 TTTTTAT-AA
* *
4348280 ATTTTAAAA
1 TTTTTATAA
* *
4348289 ATTTTAAATA
1 TTTTTATA-A
*
4348299 TGTTTTATTA
1 T-TTTTATAA
*
4348309 CTTTTATAA
1 TTTTTATAA
4348318 TTTTTTATAA
1 -TTTTTATAA
4348328 TTTATTAT-A
1 TTT-TTATAA
4348337 TTTTTATAA
1 TTTTTATAA
4348346 TTTTTATAA
1 TTTTTATAA
*
4348355 GTTTATATCAA
1 -TTTTTAT-AA
*
4348366 TTTTAAT-A
1 TTTTTATAA
*
4348374 -TTTTATTA
1 TTTTTATAA
*
4348382 -TTTAATAA
1 TTTTTATAA
4348390 TTTTT
1 TTTTT
4348395 CTTATATTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
7 5 0.05
8 12 0.11
9 52 0.49
10 31 0.29
11 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4348285 original size:28 final size:25
Alignment explanation
Indices: 4348253--4348353 Score: 76
Period size: 29 Copynumber: 3.6 Consensus size: 25
4348243 ATAACCTTTT
4348253 TTTTATAATTTTTATGATTTTTATAAAA
1 TTTTATAATTTTTAT-ATTTTTAT--AA
* * *
4348281 TTTTAAAAATTTTAAATATGTTTTATTAC
1 TTTT-ATAATTTT-TATAT-TTTTA-TAA
*
4348310 TTTTATAATTTTTTATAATTTATTATAT
1 TTTTATAA-TTTTTAT-ATTT-TTATAA
4348338 TTTTATAATTTTTATA
1 TTTTATAATTTTTATA
4348354 AGTTTATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
26 1 0.02
27 7 0.12
28 21 0.35
29 23 0.38
30 7 0.12
31 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTATAATTTTTATATTTTTATAA
Found at i:4348349 original size:8 final size:8
Alignment explanation
Indices: 4348310--4348393 Score: 53
Period size: 8 Copynumber: 9.5 Consensus size: 8
4348300 GTTTTATTAC
4348310 TTTTATAA
1 TTTTATAA
4348318 TTTTTTATAA
1 --TTTTATAA
*
4348328 TTTATTATAT
1 -TT-TTATAA
4348338 TTTTATAA
1 TTTTATAA
4348346 TTTTTATAA
1 -TTTTATAA
4348355 GTTTATATCAA
1 -TTT-TAT-AA
4348366 TTTTA-ATA
1 TTTTATA-A
*
4348374 TTTTATTA
1 TTTTATAA
*
4348382 TTTAATAA
1 TTTTATAA
4348390 TTTT
1 TTTT
4348394 TCTTATATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.02
8 21 0.34
9 18 0.30
10 19 0.31
11 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:4348369 original size:28 final size:26
Alignment explanation
Indices: 4348253--4348393 Score: 90
Period size: 28 Copynumber: 5.2 Consensus size: 26
4348243 ATAACCTTTT
* *
4348253 TTTTATAATTTTTATGATTTTTATAAAA
1 TTTTATAATTTTTAT-A-ATTTATATAA
* * * * *
4348281 TTTTAAAAATTTTAAATATGTTTTATTAC
1 TTTTATAATTTTTATA-AT-TTATA-TAA
*
4348310 TTTTATAATTTTTTATAATTTATTATAT
1 TTTTATAA-TTTTTATAATTTA-TATAA
4348338 TTTTATAATTTTTATAAGTTTATATCAA
1 TTTTATAATTTTTATAA-TTTATAT-AA
*
4348366 -TTT-TAATATTTTATTATTTA-ATAA
1 TTTTATAAT-TTTTATAATTTATATAA
4348390 TTTT
1 TTTT
4348394 TCTTATATTT
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
24 2 0.02
25 5 0.05
26 8 0.09
27 25 0.27
28 33 0.36
29 12 0.13
30 6 0.07
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTATAATTTTTATAATTTATATAA
Found at i:4348738 original size:38 final size:39
Alignment explanation
Indices: 4348683--4348756 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 39
4348673 ACCCAAAGGA
4348683 ATTTGAAAAAAAAGAATATTAGCTATTAAAATTATCGGG
1 ATTTGAAAAAAAAGAATATTAGCTATTAAAATTATCGGG
*
4348722 ATTTG-AAAAAAAGAATATTAGCTATTAAATTTATC
1 ATTTGAAAAAAAAGAATATTAGCTATTAAAATTATC
4348757 TCCTGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 29 0.85
39 5 0.15
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (39 bp):
ATTTGAAAAAAAAGAATATTAGCTATTAAAATTATCGGG
Found at i:4348926 original size:16 final size:16
Alignment explanation
Indices: 4348905--4348957 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
4348895 AATTTTAATA
4348905 TTAAATATTTATAAAT
1 TTAAATATTTATAAAT
* * **
4348921 TTAAATGTATATTTA-
1 TTAAATATTTATAAAT
4348936 TTAAATATTTATAAAT
1 TTAAATATTTATAAAT
4348952 TTAAAT
1 TTAAAT
4348958 GTCTATTTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTAAATATTTATAAAT
Found at i:4348938 original size:31 final size:31
Alignment explanation
Indices: 4348903--4348969 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
4348893 AAAATTTTAA
4348903 TATTAAATATTTATAAATTTAAATGTATATT
1 TATTAAATATTTATAAATTTAAATGTATATT
*
4348934 TATTAAATATTTATAAATTTAAATGTCTATT
1 TATTAAATATTTATAAATTTAAATGTATATT
4348965 TATTA
1 TATTA
4348970 TTAAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (31 bp):
TATTAAATATTTATAAATTTAAATGTATATT
Found at i:4375794 original size:38 final size:38
Alignment explanation
Indices: 4375722--4375794 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
4375712 TTTGGCCCCC
* * *
4375722 ATGAAATTTAATTTTTTATTATCTTTTTTATTTTTATA
1 ATGAAAATTAATTTTTTAATATCTGTTTTATTTTTATA
4375760 ATGAAAATTAATTTAATTTAATAT-TGTTTT-TTTTT
1 ATGAAAATTAATTT--TTTAATATCTGTTTTATTTTT
4375795 CTATTTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
38 18 0.60
39 5 0.17
40 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (38 bp):
ATGAAAATTAATTTTTTAATATCTGTTTTATTTTTATA
Found at i:4381571 original size:23 final size:23
Alignment explanation
Indices: 4381545--4381618 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
4381535 ATAAGTGCCA
4381545 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4381568 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4381591 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4381613 CACTGA
1 CACTGA
4381619 AAATCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.42
23 28 0.58
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4386363 original size:23 final size:23
Alignment explanation
Indices: 4386337--4386434 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4386327 ATAAGTGCCA
4386337 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4386360 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
4386383 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4386405 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4386428 CACTGAT
1 CACTGAT
4386435 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4386402 original size:45 final size:45
Alignment explanation
Indices: 4386344--4386432 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4386334 CCACACTGAT
* *
4386344 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
4386389 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
4386433 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:4408255 original size:37 final size:37
Alignment explanation
Indices: 4408204--4408277 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
4408194 TCGATATACT
4408204 GAGTTTAATCGGTTTTGAATACAGCCTATTAAGCTTG
1 GAGTTTAATCGGTTTTGAATACAGCCTATTAAGCTTG
* *
4408241 GAGTTTAATTGGTTTTGAATACAGTCTATTAAGCTTG
1 GAGTTTAATCGGTTTTGAATACAGCCTATTAAGCTTG
4408278 CCATTTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (37 bp):
GAGTTTAATCGGTTTTGAATACAGCCTATTAAGCTTG
Found at i:4418737 original size:22 final size:21
Alignment explanation
Indices: 4418697--4418737 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4418687 AACTATTAAA
* *
4418697 ATAATAAAATTATATTTTACC
1 ATAATAAAATTACAATTTACC
4418718 ATAATAAAAATTACAATTTA
1 ATAAT-AAAATTACAATTTA
4418738 ATTTCGATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATAAAATTACAATTTACC
Found at i:4421933 original size:24 final size:24
Alignment explanation
Indices: 4421906--4422023 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 24
4421896 TGGCTATCCG
4421906 GAGCTTCCCGTTATTGGCTCATAT
1 GAGCTTCCCGTTATTGGCTCATAT
* *
4421930 GAGCTTCTCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCATAT
* ** * *
4421954 GAGCTTCCTGTATACAGCCTGA-AT
1 GAGCTTCCCGT-TATTGGCTCATAT
* * * * *
4421978 AAGCTTCCCATTACATGGCTCACAC
1 GAGCTTCCCGTTA-TTGGCTCATAT
4422003 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTAT-TGGCTC
4422024 GAGAGAAGGC
Statistics
Matches: 69, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
23 3 0.04
24 42 0.61
25 24 0.35
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCATAT
Found at i:4426910 original size:17 final size:17
Alignment explanation
Indices: 4426888--4426926 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4426878 ATTTCAATGT
*
4426888 ATTTTTCTGATTTTCTG
1 ATTTTTCTGATTTTCGG
*
4426905 ATTTTTCTTATTTTCGG
1 ATTTTTCTGATTTTCGG
4426922 ATTTT
1 ATTTT
4426927 ATTACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (17 bp):
ATTTTTCTGATTTTCGG
Found at i:4427083 original size:157 final size:157
Alignment explanation
Indices: 4426900--4427262 Score: 593
Period size: 157 Copynumber: 2.3 Consensus size: 157
4426890 TTTTCTGATT
* *
4426900 TTCTGATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAA-ATACTATTTTTGTATTTTATTA
1 TTCTTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAACATACTATTTTCGTATTTTATTA
* * * *
4426964 TTTTTTATTATTTTAGTACATAATGTTTGAAATATATTATTTTAGTGTGTTTTTTATATAAATTT
66 -TTTATATTATTTTAGTACATAAAGTTTGAAATATATTAATTTAGTGTGTGTTTTATATAAATTT
*
4427029 AGTAAAAAACCCTTATTTTGGCCATTTG
130 AGTAAAAAACCATTATTTTGGCCATTTG
* *
4427057 TTCTTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTA
1 TTCTTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAACATACTATTTTCGTATTTTATTA
*
4427122 TTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTGTTTTATATAAATTTA
66 TTTATATTATTTTAGTACATAAAGTTTGAAATATATTAATTTAGTGTGTGTTTTATATAAATTTA
* *
4427187 GTAAAAAACTATTATTTTGGTCATTTG
131 GTAAAAAACCATTATTTTGGCCATTTG
*
4427214 TTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAACATACTA
1 TTCTTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAACATACTA
4427263 ACTAAAATAA
Statistics
Matches: 191, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
157 170 0.89
158 21 0.11
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.54
Consensus pattern (157 bp):
TTCTTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAACATACTATTTTCGTATTTTATTA
TTTATATTATTTTAGTACATAAAGTTTGAAATATATTAATTTAGTGTGTGTTTTATATAAATTTA
GTAAAAAACCATTATTTTGGCCATTTG
Found at i:4427606 original size:19 final size:21
Alignment explanation
Indices: 4427578--4427621 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
4427568 GGTTGTATTA
4427578 TTTTGATATT-TTTAAATTTT
1 TTTTGATATTATTTAAATTTT
**
4427598 TTTTG-TATTATTTAGGTTTT
1 TTTTGATATTATTTAAATTTT
4427618 TTTT
1 TTTT
4427622 TTTAGTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTTGATATTATTTAAATTTT
Found at i:4427630 original size:18 final size:20
Alignment explanation
Indices: 4427594--4427630 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4427584 TATTTTTAAA
*
4427594 TTTTTTTTGTATTATTTAGG
1 TTTTTTTTGTATTAGTTAGG
4427614 TTTTTTTT-T-TTAGTTAG
1 TTTTTTTTGTATTAGTTAG
4427631 CAGCCACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 1 0.06
20 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (20 bp):
TTTTTTTTGTATTAGTTAGG
Found at i:4427862 original size:21 final size:20
Alignment explanation
Indices: 4427825--4427871 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 20
4427815 ATAAATTAGA
4427825 TTTTTTATATATAATTTTTAAT
1 TTTTTTATATATAA--TTTAAT
4427847 TTTTTTA-AT-TAGATTTAAT
1 TTTTTTATATATA-ATTTAAT
4427866 TTTTTT
1 TTTTTT
4427872 TAAGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 3 0.12
22 7 0.29
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTATATATAATTTAAT
Found at i:4441052 original size:15 final size:14
Alignment explanation
Indices: 4441029--4441080 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4441019 AATATTATGT
*
4441029 ATTTTTATTTTATA
1 ATTTTTATTATATA
4441043 ATTTTATATTATATA
1 ATTTT-TATTATATA
* * * *
4441058 GTTTTCATAATTTA
1 ATTTTTATTATATA
4441072 ATTTTTATT
1 ATTTTTATT
4441081 TCGTAAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTTTTATTATATA
Found at i:4441121 original size:24 final size:24
Alignment explanation
Indices: 4441094--4441146 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
4441084 TAAAAAAAAA
4441094 TTAAATTGTTTT-AT-TTTTATAATT
1 TTAAATT-TTTTAATATTTTAT-ATT
4441118 TT-AATTTTTTAATATTTTATATT
1 TTAAATTTTTTAATATTTTATATT
4441141 TATAAA
1 T-TAAA
4441147 GACAGGGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 9 0.36
25 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTAAATTTTTTAATATTTTATATT
Found at i:4441459 original size:25 final size:25
Alignment explanation
Indices: 4441422--4441474 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
4441412 TCATTATTTT
* ** *
4441422 AAATGTTTAAAAAGTTATAATTATA
1 AAATATTTAAAAAAATAAAATTATA
*
4441447 AAATATTTTAAAAAATAAAATTATA
1 AAATATTTAAAAAAATAAAATTATA
4441472 AAA
1 AAA
4441475 AAACAACTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (25 bp):
AAATATTTAAAAAAATAAAATTATA
Found at i:4441529 original size:15 final size:14
Alignment explanation
Indices: 4441500--4441551 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
4441490 GTTTTATGAA
*
4441500 ATAAAAATTAAATT
1 ATAAAAATAAAATT
4441514 ATAAAATATAAAATT
1 ATAAAA-ATAAAATT
*
4441529 ATAAAACTAAAATAT
1 ATAAAAATAAAAT-T
4441544 ATTAAAAA
1 A-TAAAAA
4441552 AAAGTAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.38
15 15 0.47
16 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAAATAAAATT
Found at i:4443387 original size:25 final size:24
Alignment explanation
Indices: 4443337--4443391 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
4443327 AGAATGAAGG
*
4443337 AGAAA-AAAAGGAAAGAAACAGGA
1 AGAAATAAAAGGAAAAAAACAGGA
* *
4443360 AGAAATAAAAGGAAAAATAATAGTA
1 AGAAATAAAAGGAAAAA-AACAGGA
4443385 AGAAATA
1 AGAAATA
4443392 TGGTGGGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 5 0.19
24 10 0.37
25 12 0.44
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.09
Consensus pattern (24 bp):
AGAAATAAAAGGAAAAAAACAGGA
Found at i:4449359 original size:17 final size:18
Alignment explanation
Indices: 4449339--4449376 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4449329 TTTAAATTTT
4449339 AAATTT-AGTTAATAAAA
1 AAATTTAAGTTAATAAAA
*
4449356 AAATTTAAAGTTGATAAAA
1 AAATTT-AAGTTAATAAAA
4449375 AA
1 AA
4449377 CTATAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATTTAAGTTAATAAAA
Found at i:4454590 original size:17 final size:16
Alignment explanation
Indices: 4454537--4454591 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
4454527 AAATATTCGC
*
4454537 ATATAAAATATTTATAA
1 ATATAAAAAATTTA-AA
*
4454554 ATATAAAAAA--TAAG
1 ATATAAAAAATTTAAA
4454568 AT-TAAATAAATTTAAA
1 ATATAAA-AAATTTAAA
4454584 ATATAAAA
1 ATATAAAA
4454592 TACTTTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.13
14 6 0.19
15 2 0.06
16 6 0.19
17 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATATAAAAAATTTAAA
Found at i:4457049 original size:36 final size:36
Alignment explanation
Indices: 4457002--4457074 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
4456992 AAACAGTGAT
4457002 GTCTGGTTGGCATAAGAATCTATTCAATAAGTGTAA
1 GTCTGGTTGGCATAAGAATCTATTCAATAAGTGTAA
* *
4457038 GTCTGGTTGGCATATGAATCTATTCAATATGTGTAA
1 GTCTGGTTGGCATAAGAATCTATTCAATAAGTGTAA
4457074 G
1 G
4457075 ACTTGATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (36 bp):
GTCTGGTTGGCATAAGAATCTATTCAATAAGTGTAA
Found at i:4462745 original size:22 final size:23
Alignment explanation
Indices: 4462701--4462755 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
4462691 TTTTGTTACC
**
4462701 TTTTGTTATTA-TGTTATTTATA
1 TTTTGTTATTATTGTTATGGATA
4462723 TTTTGTTATTATTGTT-TGGATA
1 TTTTGTTATTATTGTTATGGATA
4462745 TTTT-TT-TTATT
1 TTTTGTTATTATT
4462756 AATTTTGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 19 0.63
23 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (23 bp):
TTTTGTTATTATTGTTATGGATA
Found at i:4466373 original size:14 final size:15
Alignment explanation
Indices: 4466354--4466382 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4466344 AATCATTATA
4466354 TTTTATTTA-ATATT
1 TTTTATTTATATATT
4466368 TTTTATTTATATATT
1 TTTTATTTATATATT
4466383 ACTTCTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTATATATT
Found at i:4492657 original size:6 final size:6
Alignment explanation
Indices: 4492646--4492689 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
4492636 GTTTGAGGGA
4492646 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
4492690 AGTCTATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GATGGT
Found at i:4503275 original size:44 final size:44
Alignment explanation
Indices: 4503208--4503325 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
4503198 CTGTCATTTT
** *
4503208 GGCTTGCA-CCACTC-ACCTTGCATTTAGACTGTTCACCACTTC
1 GGCTTGCATCCACTCGGGCTTGCATTTAGACTGTCCACCACTTC
* *
4503250 GGCTTGCATCCACTCGGGCTTGCATTTAGACAGTCCGCCACTTC
1 GGCTTGCATCCACTCGGGCTTGCATTTAGACTGTCCACCACTTC
* *
4503294 GACTTGCATCCATTCGGGCTTGCATTTAGACT
1 GGCTTGCATCCACTCGGGCTTGCATTTAGACT
4503326 TGCTCGCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
42 8 0.12
43 6 0.09
44 52 0.79
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (44 bp):
GGCTTGCATCCACTCGGGCTTGCATTTAGACTGTCCACCACTTC
Found at i:4505914 original size:14 final size:14
Alignment explanation
Indices: 4505895--4505934 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4505885 TTGATTGCCA
4505895 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
4505909 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
4505923 GAAAAATGTTTT
1 GTAAAATGTTTT
4505935 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:4505943 original size:20 final size:20
Alignment explanation
Indices: 4505918--4505957 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4505908 CGTAAAATGA
*
4505918 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
4505938 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
4505958 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:4505947 original size:34 final size:35
Alignment explanation
Indices: 4505903--4505969 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4505893 CAGTAAAATG
*
4505903 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
4505937 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
4505970 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:4506604 original size:18 final size:18
Alignment explanation
Indices: 4506583--4506621 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4506573 GTTGTATCTT
4506583 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
4506601 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
4506619 TAA
1 TAA
4506622 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:4508311 original size:12 final size:12
Alignment explanation
Indices: 4508294--4508319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4508284 AAACCAAATC
4508294 AAGGGAGAACGA
1 AAGGGAGAACGA
4508306 AAGGGAGAACGA
1 AAGGGAGAACGA
4508318 AA
1 AA
4508320 CCAGATCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.38, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:4511343 original size:17 final size:17
Alignment explanation
Indices: 4511323--4511365 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
4511313 AAATTAAAGT
4511323 GGATGAAAAAATTTTAA
1 GGATGAAAAAATTTTAA
4511340 GGATGAAAAAATTTTAA
1 GGATGAAAAAATTTTAA
*
4511357 AGATGAAAA
1 GGATGAAAA
4511366 TTCAAGTACT
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:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (17 bp):
GGATGAAAAAATTTTAA
Found at i:4515080 original size:10 final size:10
Alignment explanation
Indices: 4515067--4515108 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
4515057 ATTATTATTT
*
4515067 TATTATATTA
1 TATTAAATTA
4515077 TATTGTAAATTA
1 TA-T-TAAATTA
4515089 TATT-AATTA
1 TATTAAATTA
4515098 TATTAAATTA
1 TATTAAATTA
4515108 T
1 T
4515109 TATATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 9 0.32
10 9 0.32
11 2 0.07
12 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TATTAAATTA
Found at i:4515109 original size:17 final size:21
Alignment explanation
Indices: 4515065--4515114 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4515055 ATATTATTAT
4515065 TTTATTATATTATATTGTAAA
1 TTTATTATATTATATTGTAAA
4515086 TTATATTA-ATTATA-T-TAAA
1 TT-TATTATATTATATTGTAAA
4515105 -TTATTATATT
1 TTTATTATATT
4515115 TTAAATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 4 0.15
20 1 0.04
21 8 0.30
22 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATTATATTATATTGTAAA
Found at i:4519300 original size:6 final size:6
Alignment explanation
Indices: 4519289--4519321 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
4519279 CTGTATTGGC
4519289 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAG
1 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAG
4519322 AGAAATGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.30
Consensus pattern (6 bp):
GAGTGT
Found at i:4521756 original size:20 final size:19
Alignment explanation
Indices: 4521731--4521793 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
4521721 GTACTTACTC
4521731 TAAAAAATTAAAGAAATATA
1 TAAAAAATTAAA-AAATATA
* *
4521751 T-AAAAA-TACAAAGTATA
1 TAAAAAATTAAAAAATATA
*
4521768 TAATAAACTTAAAAAATATA
1 TAA-AAAATTAAAAAATATA
4521788 TAAAAA
1 TAAAAA
4521794 GTGACAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.20
18 4 0.11
19 11 0.31
20 13 0.37
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
TAAAAAATTAAAAAATATA
Found at i:4521802 original size:20 final size:18
Alignment explanation
Indices: 4521744--4521803 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
4521734 AAAATTAAAG
4521744 AAATATATAAAAATAC-A
1 AAATATATAAAAATACAA
*
4521761 AAGTATATAATAAACTTA-AA
1 AAATATATAA-AAA--TACAA
4521781 AAATATATAAAAAGTGACAA
1 AAATATATAAAAA-T-ACAA
4521801 AAA
1 AAA
4521804 AGGAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
19 4 0.12
20 17 0.50
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATATATAAAAATACAA
Found at i:4526194 original size:52 final size:48
Alignment explanation
Indices: 4526175--4526377 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
4526165 TGACAAGTGG
* *
4526175 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4526221 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
4526273 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
4526319 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4526365 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4526378 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:4526229 original size:98 final size:98
Alignment explanation
Indices: 4526109--4526377 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4526099 TTTGAGTACT
*
4526109 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4526174 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4526207 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4526272 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
4526305 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
4526370 GATAAGTG
65 GAAAAGTG
4526378 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4526385 original size:37 final size:37
Alignment explanation
Indices: 4526341--4526486 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4526331 GATAGCTTTA
*
4526341 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4526378 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4526415 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4526452 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4526487 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4527802 original size:49 final size:49
Alignment explanation
Indices: 4527741--4527884 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
4527731 ATGTGAACAT
* *
4527741 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4527791 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4527840 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
4527885 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:4531095 original size:52 final size:48
Alignment explanation
Indices: 4531076--4531278 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
4531066 TGACAAGTGG
* *
4531076 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4531122 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
4531174 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
4531220 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4531266 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4531279 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:4531130 original size:98 final size:98
Alignment explanation
Indices: 4531010--4531278 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4531000 TTTGAGTACT
*
4531010 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4531075 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4531108 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4531173 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
4531206 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
4531271 GATAAGTG
65 GAAAAGTG
4531279 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4531286 original size:37 final size:37
Alignment explanation
Indices: 4531242--4531350 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
4531232 GATAGCTTTA
4531242 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
4531279 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
4531316 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
4531351 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:4532382 original size:33 final size:33
Alignment explanation
Indices: 4532340--4532415 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
4532330 TGTTTATATG
4532340 TAAGACCATAGCTAGGCTATGACATTCTGATGA
1 TAAGACCATAGCTAGGCTATGACATTCTGATGA
* *
4532373 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTAGGCTATGACATTCTGATGA
4532406 TAAGACCATA
1 TAAGACCATA
4532416 ACAGGGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGACATTCTGATGA
Found at i:4532427 original size:33 final size:33
Alignment explanation
Indices: 4532340--4532429 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
4532330 TGTTTATATG
*
4532340 TAAGACCATAGCTA-GGCTATGACATTCTGATGA
1 TAAGACCATAGC-AGGGCTATGGCATTCTGATGA
*
4532373 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCAGGGCTATGGCATTCTGATGA
* *
4532406 TAAGACCATAACAGGGTTATGGCA
1 TAAGACCATAGCAGGGCTATGGCA
4532430 CTACGAATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCAGGGCTATGGCATTCTGATGA
Found at i:4534672 original size:16 final size:17
Alignment explanation
Indices: 4534647--4534689 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
4534637 AAATTAAAGT
*
4534647 GGATGAAAAAATTTTAA
1 GGATGAAAAATTTTTAA
4534664 GGATGAAAAATTTTTAA
1 GGATGAAAAATTTTTAA
*
4534681 AGATGAAAA
1 GGATGAAAA
4534690 TTCAAGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
GGATGAAAAATTTTTAA
Found at i:4536955 original size:72 final size:72
Alignment explanation
Indices: 4536838--4536972 Score: 261
Period size: 72 Copynumber: 1.9 Consensus size: 72
4536828 TTTAAAATCC
4536838 AAAGTGAAAATGTTCGTAGCTTGTTATTGGCTTTATCTTTTCTTAGGACAATGTATCCTTGTTAT
1 AAAGTGAAAATGTTCGTAGCTTGTTATTGGCTTTATCTTTTCTTAGGACAATGTATCCTTGTTAT
4536903 CTGAAAA
66 CTGAAAA
*
4536910 AAAGTGAAGATGTTCGTAGCTTGTTATTGGCTTTATCTTTTCTTAGGACAATGTATCCTTGTT
1 AAAGTGAAAATGTTCGTAGCTTGTTATTGGCTTTATCTTTTCTTAGGACAATGTATCCTTGTT
4536973 GTTATCTGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (72 bp):
AAAGTGAAAATGTTCGTAGCTTGTTATTGGCTTTATCTTTTCTTAGGACAATGTATCCTTGTTAT
CTGAAAA
Found at i:4537526 original size:27 final size:26
Alignment explanation
Indices: 4537492--4537542 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
4537482 ATTTAAAGAA
*
4537492 ATATATAAAAC-TACAAAATATATACT
1 ATATAT-AAACTTAAAAAATATATACT
4537518 ATATAATAAACTTAAAAAATATATA
1 ATAT-ATAAACTTAAAAAATATATA
4537543 AAAAGTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (26 bp):
ATATATAAACTTAAAAAATATATACT
Found at i:4540400 original size:32 final size:33
Alignment explanation
Indices: 4540301--4540421 Score: 190
Period size: 33 Copynumber: 3.7 Consensus size: 33
4540291 TGTTTATATG
*
4540301 TAAGACCATAGCTAGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
*
4540334 TAAGACCATAGTTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
*
4540367 TAAGACCATAGCTGGGCTAT-GCATTCTGGTGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
* *
4540399 TAAGACCATAACTGGGTTATGGC
1 TAAGACCATAGCTGGGCTATGGC
4540422 GTTACGAATG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 29 0.36
33 52 0.64
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTGATGA
Found at i:4545363 original size:32 final size:32
Alignment explanation
Indices: 4545304--4545365 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4545294 AGAGAAAGAT
* **
4545304 GGTCAAATATTCAAAATGTCTAATAATTTAAG
1 GGTCAAATAGTCAAAAAATCTAATAATTTAAG
* *
4545336 GGTCAAATAGTGAAAAAATCTACTAATTTA
1 GGTCAAATAGTCAAAAAATCTAATAATTTA
4545366 TACTTTGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (32 bp):
GGTCAAATAGTCAAAAAATCTAATAATTTAAG
Found at i:4559679 original size:5 final size:5
Alignment explanation
Indices: 4559669--4559715 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
4559659 TTGAATGTTC
4559669 TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTA- TTTA- TTTA
1 TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTA
4559716 ATCTTTGGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 8 0.19
5 34 0.81
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (5 bp):
TTTAG
Found at i:4565784 original size:21 final size:21
Alignment explanation
Indices: 4565758--4565798 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4565748 TCAAGATTAC
4565758 ATTATAATTTCCCTTTTCTTA
1 ATTATAATTTCCCTTTTCTTA
*
4565779 ATTATAATTTCCTTTTTCTT
1 ATTATAATTTCCCTTTTCTT
4565799 CAATCGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATAATTTCCCTTTTCTTA
Found at i:4565930 original size:29 final size:32
Alignment explanation
Indices: 4565892--4565956 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
4565882 GCATTAATCC
* *
4565892 AAATATTA-TTATCTAA-ATTTAAAT-TAAAT
1 AAATACTATTTATCGAATATTTAAATATAAAT
4565921 AAATACTATTTATCGAATATTTAAATCATAAAT
1 AAATACTATTTATCGAATATTTAAAT-ATAAAT
4565954 AAA
1 AAA
4565957 ATCAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 8 0.27
33 8 0.27
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (32 bp):
AAATACTATTTATCGAATATTTAAATATAAAT
Found at i:4569388 original size:48 final size:47
Alignment explanation
Indices: 4569297--4569388 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
4569287 CGGCTTTAGT
*
4569297 ATATTAATTAAATCCAACCATTTTCTCTCATTTTAGGTTGGATTGGA
1 ATATTAATTAAATCCAACCATTTTCTCTCATATTAGGTTGGATTGGA
* * *
4569344 ATATTAATTAAATCTAACGATTTT-TCCTTCATATTCGGTTGGATT
1 ATATTAATTAAATCCAACCATTTTCT-C-TCATATTAGGTTGGATT
4569389 AGGGTATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
46 1 0.03
47 23 0.59
48 15 0.38
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (47 bp):
ATATTAATTAAATCCAACCATTTTCTCTCATATTAGGTTGGATTGGA
Found at i:4579378 original size:15 final size:16
Alignment explanation
Indices: 4579348--4579379 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4579338 TTATATTATA
4579348 AAAATATTATTAAATT
1 AAAATATTATTAAATT
4579364 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
4579379 A
1 A
4579380 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:4579383 original size:25 final size:26
Alignment explanation
Indices: 4579340--4579392 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
4579330 TTCTTGATTT
4579340 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
4579367 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
4579391 AT
1 AT
4579393 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:4579400 original size:25 final size:22
Alignment explanation
Indices: 4579350--4579407 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
4579340 ATATTATAAA
**
4579350 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
4579374 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
4579399 AATATATTA
1 AATATATTA
4579408 TAGAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:4579407 original size:28 final size:27
Alignment explanation
Indices: 4579351--4579409 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
4579341 TATTATAAAA
4579351 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
4579379 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
4579407 ATA
1 ATA
4579410 GAAAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:4580595 original size:23 final size:22
Alignment explanation
Indices: 4580568--4580650 Score: 109
Period size: 21 Copynumber: 3.9 Consensus size: 22
4580558 TTGCCGATCG
4580568 GGCACTTTATGTGTCGTATCTCA
1 GGCACTTTATGTGTCGTAT-TCA
4580591 GGCACTTTATGTGTCGTA-TCA
1 GGCACTTTATGTGTCGTATTCA
* **
4580612 GGCACCTCGTGTGTCGT-TTCA
1 GGCACTTTATGTGTCGTATTCA
4580633 GGCAC-TTATGTGTCGTAT
1 GGCACTTTATGTGTCGTAT
4580651 ACTGATCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 9 0.17
21 26 0.49
23 18 0.34
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (22 bp):
GGCACTTTATGTGTCGTATTCA
Found at i:4588647 original size:40 final size:41
Alignment explanation
Indices: 4588550--4588647 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
4588540 GAAAACGCTT
* *
4588550 CCTCAAGAAAACG-TTT-TGTCCACGTGGACACAAAGCGCGC
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGA-ACAAAGCGCGC
**
4588590 CCTCAAGGAAGCGTTTTCTGTCCACGTGG-ACAAAGCGCTT
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGAACAAAGCGCGC
**
4588630 CCTTGAGGAAGCGTTTTC
1 CCTCAAGGAAGCGTTTTC
4588648 CTGCTTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 36 0.72
41 3 0.06
42 11 0.22
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (41 bp):
CCTCAAGGAAGCGTTTTCTGTCCACGTGGAACAAAGCGCGC
Found at i:4598023 original size:61 final size:62
Alignment explanation
Indices: 4597957--4598094 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 62
4597947 TTTAATTTTA
* * ** * *
4597957 TTTTTATAGTTAGGACTAAGTTGACAAATTTTATAAATGTTGATGACTAAACTTATTG-ATT
1 TTTTTATAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGACTAAACTTATTGAATT
* * ** * *
4598018 TTTTTAAAATTAGAACTAAAATGATACTTTTTATAAATATTGAGGGCTAAATTTATTGAATT
1 TTTTTATAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGACTAAACTTATTGAATT
*
4598080 TTTTTATATTTAGAA
1 TTTTTATAATTAGAA
4598095 TCAAATTGAT
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
61 46 0.74
62 16 0.26
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (62 bp):
TTTTTATAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGACTAAACTTATTGAATT
Found at i:4611429 original size:23 final size:21
Alignment explanation
Indices: 4611397--4611443 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
4611387 AAAACACCCT
**
4611397 TAAAATAATATTTTTTGTTTTG
1 TAAAATAATACGTTTT-TTTTG
4611419 TAAAAGTAATACGTTTTTTTTG
1 TAAAA-TAATACGTTTTTTTTG
4611441 TAA
1 TAA
4611444 TTTTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (21 bp):
TAAAATAATACGTTTTTTTTG
Found at i:4613770 original size:103 final size:101
Alignment explanation
Indices: 4613589--4613784 Score: 275
Period size: 103 Copynumber: 1.9 Consensus size: 101
4613579 AATAAGCGGA
* * * *
4613589 TAAGACCATGGTTAGACCATGACAATGTTTAAATGTAAGACCATGGCTTAGCTATGACATTTTAA
1 TAAGACCATGGTTAGACCATGACAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTCTAA
4613654 TGAAAAGAACATAACTGGGTTATGGCACCTTGAACG
66 TGAAAAGAACATAACTGGGTTATGGCACCTTGAACG
* * * *
4613690 TAAGACCATGGTTGGACCATGGCAATATATATATATGTAAGACCATAGCTGGGCTATGACATTCT
1 TAAGACCATGGTTAGACCATGACAATAT-T-TAAATGTAAGACCATAGCTGAGCTATGACATTCT
* * *
4613755 GATGATAAGACCATAACTGGGTTATGGCAC
64 AATGAAAAGAACATAACTGGGTTATGGCAC
4613785 TACAATTGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 25 0.30
102 1 0.01
103 56 0.68
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTAGACCATGACAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTCTAA
TGAAAAGAACATAACTGGGTTATGGCACCTTGAACG
Found at i:4613796 original size:103 final size:101
Alignment explanation
Indices: 4613589--4613818 Score: 273
Period size: 103 Copynumber: 2.3 Consensus size: 101
4613579 AATAAGCGGA
* * * * * *
4613589 TAAGACCATGGTTAGACCATGACAATGTTTAAATGTAAGACCATGGCTTAGCTATGACATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTCTAA
**
4613654 TGAAAAGAACATAACTGGGTTATGGCACCTTGAACG
66 TGAAAAGAACATAACTGGGTTATGGCACCTACAACG
* *
4613690 TAAGACCATGGTTGGACCATGGCAATATATATATATGTAAGACCATAGCTGGGCTATGACATTCT
1 TAAGACCATGGTTGGACCATGGCAATAT-T-TAAATGTAAGACCATAGCTGAGCTATGACATTCT
* * * *
4613755 GATGATAAGACCATAACTGGGTTATGGCA-CTACAATTG
64 AATGAAAAGAACATAACTGGGTTATGGCACCTACAA-CG
** *
4613793 TAAGACCATGGCAGGGCCATGGCAAT
1 TAAGACCATGGTTGGACCATGGCAAT
4613819 GCATGTGTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
101 25 0.23
102 5 0.05
103 79 0.72
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTCTAA
TGAAAAGAACATAACTGGGTTATGGCACCTACAACG
Found at i:4629904 original size:33 final size:32
Alignment explanation
Indices: 4629844--4629916 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
4629834 TTATTGGGTT
4629844 TTAAATTTTAATAGGTTTGGGCTTTTAAGAGTA
1 TTAAATTTTAATAGGTTTGGGC-TTTAAGAGTA
*
4629877 TTAAGTTTTAATAGGTATCTGGG-TTTAAGA-T-
1 TTAAATTTTAATAGGT-T-TGGGCTTTAAGAGTA
4629908 TTAAATTTT
1 TTAAATTTT
4629917 GGTTTGGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 8 0.22
32 1 0.03
33 22 0.61
34 1 0.03
35 4 0.11
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (32 bp):
TTAAATTTTAATAGGTTTGGGCTTTAAGAGTA
Found at i:4636375 original size:1 final size:1
Alignment explanation
Indices: 4636371--4636405 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
4636361 AAAAAAAAAA
*
4636371 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCACCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4636406 GTCATCAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:4642488 original size:45 final size:45
Alignment explanation
Indices: 4642435--4642524 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
4642425 GGGTGGTTGG
4642435 GCCAAGAGTTGTTGTTGTCAATGGCATGGAATTAGTGGTTCAGGT
1 GCCAAGAGTTGTTGTTGTCAATGGCATGGAATTAGTGGTTCAGGT
4642480 GCCAAGAGTTGTTGTTGTCAATGGCATGGAATTAGTGGTTCAGGT
1 GCCAAGAGTTGTTGTTGTCAATGGCATGGAATTAGTGGTTCAGGT
4642525 TTTCTTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (45 bp):
GCCAAGAGTTGTTGTTGTCAATGGCATGGAATTAGTGGTTCAGGT
Found at i:4650803 original size:5 final size:5
Alignment explanation
Indices: 4650793--4650817 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4650783 GGAAGTAACC
4650793 ATCAA ATCAA ATCAA ATCAA ATCAA
1 ATCAA ATCAA ATCAA ATCAA ATCAA
4650818 TAATGTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
ATCAA
Found at i:4651582 original size:17 final size:17
Alignment explanation
Indices: 4651560--4651592 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4651550 GATTTGTTAA
4651560 AATAT-ATAAATATTTTT
1 AATATAATAAA-ATTTTT
4651577 AATATAATAAAATTTT
1 AATATAATAAAATTTT
4651593 AAAAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATAATAAAATTTTT
Found at i:4652014 original size:53 final size:54
Alignment explanation
Indices: 4651956--4652061 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
4651946 AAGTAAGAAT
* *
4651956 AAAG-AATATAATTTATAGTCA-CTTCTTTTATATATACATTAGAAACTCTATCA
1 AAAGAAATATAATTTACAGTCATC-ACTTTTATATATACATTAGAAACTCTATCA
* *
4652009 AAAGAAAATATATTTTACATTCATCACTTTTATATATACATTAGAAACTCTAT
1 AAAG-AAATATAATTTACAGTCATCACTTTTATATATACATTAGAAACTCTAT
4652062 TGTAGTAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 4 0.09
55 41 0.89
56 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (54 bp):
AAAGAAATATAATTTACAGTCATCACTTTTATATATACATTAGAAACTCTATCA
Found at i:4659001 original size:18 final size:18
Alignment explanation
Indices: 4658978--4659026 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
4658968 GTAGTGATTC
**
4658978 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTAAGTT
4658996 AATTCGGGTAATTAAGTT
1 AATTCGGGTAATTAAGTT
*
4659014 AATTCGGTTAATT
1 AATTCGGGTAATT
4659027 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (18 bp):
AATTCGGGTAATTAAGTT
Found at i:4659023 original size:9 final size:9
Alignment explanation
Indices: 4658978--4659026 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
4658968 GTAGTGATTC
*
4658978 AATTCGGGT
1 AATTCGGTT
4658987 AATTCGGTT
1 AATTCGGTT
*
4658996 AATTCGGGT
1 AATTCGGTT
**
4659005 AATTAAGTT
1 AATTCGGTT
4659014 AATTCGGTT
1 AATTCGGTT
4659023 AATT
1 AATT
4659027 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4659204 original size:12 final size:12
Alignment explanation
Indices: 4659187--4659211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4659177 TGTTATTTCG
4659187 GGTCGGTTAACC
1 GGTCGGTTAACC
4659199 GGTCGGTTAACC
1 GGTCGGTTAACC
4659211 G
1 G
4659212 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:4659324 original size:18 final size:19
Alignment explanation
Indices: 4659281--4659326 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
4659271 ATTTTAACAT
* * *
4659281 TTTATTTAATTTTTTTTAC
1 TTTATTAAATTTATATTAC
4659300 TTT-TTAAATTTATATTA-
1 TTTATTAAATTTATATTAC
4659317 TTTATTAAAT
1 TTTATTAAAT
4659327 CATTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTAAATTTATATTAC
Found at i:4659433 original size:19 final size:20
Alignment explanation
Indices: 4659404--4659441 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4659394 ATATTAGCAA
*
4659404 TTAATATATTTTTTTAAAAT
1 TTAATATATTTTTATAAAAT
4659424 TTAATA-ATTTTTATAAAA
1 TTAATATATTTTTATAAAA
4659442 AAATTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATATATTTTTATAAAAT
Found at i:4659442 original size:20 final size:20
Alignment explanation
Indices: 4659404--4659442 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4659394 ATATTAGCAA
*
4659404 TTAATATATTTTTTTAAAAT
1 TTAATATATTTTTTAAAAAT
4659424 TTAATA-ATTTTTATAAAAA
1 TTAATATATTTTT-TAAAAA
4659443 AATTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATATATTTTTTAAAAAT
Found at i:4677677 original size:19 final size:19
Alignment explanation
Indices: 4677653--4677748 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
4677643 TCTAATTAAG
*
4677653 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
4677672 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
*
4677690 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
4677709 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
4677727 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
4677746 TAA
1 TAA
4677749 AATATAAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:4677694 original size:37 final size:37
Alignment explanation
Indices: 4677653--4677748 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
4677643 TCTAATTAAG
4677653 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
4677690 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
4677727 TAATAACTCTATTTTCATTTAA
1 TAATAACTCTATTTTAATTTAA
4677749 AATATAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:4678003 original size:19 final size:19
Alignment explanation
Indices: 4677949--4678010 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
4677939 AATTCAGAGG
*
4677949 ATTAAAATAAAGTTATTAA
1 ATTAAAATAGAGTTATTAA
* * * *
4677968 ATGAGAATAG-TTTATTAC
1 ATTAAAATAGAGTTATTAA
4677986 ATTAAAATAGAGTTATTAA
1 ATTAAAATAGAGTTATTAA
*
4678005 GTTAAA
1 ATTAAA
4678011 CTATTTTAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (19 bp):
ATTAAAATAGAGTTATTAA
Found at i:4678480 original size:26 final size:27
Alignment explanation
Indices: 4678427--4678489 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
4678417 TTTTTTTGGT
4678427 ATATTTTGGTAAATAAAAAAATTAATA
1 ATATTTTGGTAAATAAAAAAATTAATA
*
4678454 ATATTTTTGTAAATAAAAAAATT-ATA
1 ATATTTTGGTAAATAAAAAAATTAATA
4678480 ATATTTTGGT
1 ATATTTTGGT
4678490 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATTAATA
Found at i:4680394 original size:3 final size:3
Alignment explanation
Indices: 4680386--4680421 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4680376 TATAATCTAG
*
4680386 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
4680422 GTCGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:4682912 original size:24 final size:25
Alignment explanation
Indices: 4682866--4682912 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4682856 GAAAGGTGTT
* **
4682866 GAAAAATCATAACAAAACTGAAAAA
1 GAAAAATCAAAACAAAAAGGAAAAA
4682891 GAAAAA-CAAAACAAAAAGGAAA
1 GAAAAATCAAAACAAAAAGGAAA
4682913 CCTAAACCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (25 bp):
GAAAAATCAAAACAAAAAGGAAAAA
Found at i:4705969 original size:61 final size:61
Alignment explanation
Indices: 4705851--4706005 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 61
4705841 AAAATTAAAC
** * * ***
4705851 CTAAAAAAAGGCTAGGTATCAAATTAGGAAAAAAATGTCAAGTACGGGTCCTAAATTGGGT
1 CTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTACAAATCCTAAATTGGGT
* * *
4705912 CTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTTAAGTTCAAATACC-GAATTGGGT
1 CTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTACAAAT-CCTAAATTGGGT
* *
4705973 C-AAAAAAATGTTTAGATACCAAAATAA-AAAAAA
1 CTAAAAAAA-GTTTAGGTACCAAATTAAGAAAAAA
4706006 GCGTCAATTT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
60 13 0.16
61 65 0.81
62 2 0.03
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (61 bp):
CTAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTACAAATCCTAAATTGGGT
Found at i:4710879 original size:31 final size:29
Alignment explanation
Indices: 4710810--4710888 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
4710800 TTATGAGAAT
* * *
4710810 TATATTAAATTAAAATTTTATATATAAAAT
1 TATATTAAATCAAAA-TTTATATAAAAAAA
*
4710840 TACA-TAAATCAAAATTTATGCATAAAAAAA
1 TATATTAAATCAAAATTTAT--ATAAAAAAA
4710870 TATATTAAATCAAAATTTA
1 TATATTAAATCAAAATTTA
4710889 AATATAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.12
29 9 0.22
30 13 0.32
31 14 0.34
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (29 bp):
TATATTAAATCAAAATTTATATAAAAAAA
Found at i:4712860 original size:27 final size:27
Alignment explanation
Indices: 4712828--4712890 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
4712818 TCTTATGAAA
* * * *
4712828 ATATATTTGTATGCTTATAATATATAT
1 ATATATATATATGCATATAACATATAT
4712855 ATATATATATATGCATATAACATATAT
1 ATATATATATATGCATATAACATATAT
* *
4712882 CTACATATA
1 ATATATATA
4712891 CATATAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (27 bp):
ATATATATATATGCATATAACATATAT
Found at i:4712879 original size:17 final size:16
Alignment explanation
Indices: 4712847--4712896 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
4712837 TATGCTTATA
* *
4712847 ATATATATATATATAT
1 ATATACATATACATAT
*
4712863 ATATGCATATAACATAT
1 ATATACATAT-ACATAT
*
4712880 ATCTACATATACATAT
1 ATATACATATACATAT
4712896 A
1 A
4712897 AATAATGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATACATATACATAT
Found at i:4712889 original size:23 final size:23
Alignment explanation
Indices: 4712853--4712897 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4712843 TATAATATAT
* *
4712853 ATATATATATATATGCATATAAC
1 ATATATATACATATACATATAAC
*
4712876 ATATATCTACATATACATATAA
1 ATATATATACATATACATATAA
4712898 ATAATGCAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATATATACATATACATATAAC
Found at i:4723989 original size:8 final size:8
Alignment explanation
Indices: 4723976--4724000 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4723966 GATAAGATTT
4723976 GCATTTAG
1 GCATTTAG
4723984 GCATTTAG
1 GCATTTAG
4723992 GCATTTAG
1 GCATTTAG
4724000 G
1 G
4724001 AATATCCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (8 bp):
GCATTTAG
Found at i:4736260 original size:12 final size:12
Alignment explanation
Indices: 4736243--4736277 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
4736233 GAAAGATGAA
4736243 GGTGGCGGCGGT
1 GGTGGCGGCGGT
4736255 GGTGGCGGCGGT
1 GGTGGCGGCGGT
4736267 GGTGGCGGCGG
1 GGTGGCGGCGG
4736278 CGGCGGTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.69, T:0.14
Consensus pattern (12 bp):
GGTGGCGGCGGT
Found at i:4736261 original size:9 final size:9
Alignment explanation
Indices: 4736249--4736287 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
4736239 TGAAGGTGGC
*
4736249 GGCGGTGGT
1 GGCGGCGGT
4736258 GGCGGCGGT
1 GGCGGCGGT
* *
4736267 GGTGGCGGC
1 GGCGGCGGT
4736276 GGCGGCGGT
1 GGCGGCGGT
4736285 GGC
1 GGC
4736288 AAGAAGGAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.21, G:0.67, T:0.13
Consensus pattern (9 bp):
GGCGGCGGT
Found at i:4736270 original size:15 final size:15
Alignment explanation
Indices: 4736246--4736287 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
4736236 AGATGAAGGT
*
4736246 GGCGGCGGTGGTGGC
1 GGCGGCGGTGGCGGC
*
4736261 GGCGGTGGTGGCGGC
1 GGCGGCGGTGGCGGC
4736276 GGCGGCGGTGGC
1 GGCGGCGGTGGC
4736288 AAGAAGGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.67, T:0.12
Consensus pattern (15 bp):
GGCGGCGGTGGCGGC
Found at i:4738463 original size:19 final size:19
Alignment explanation
Indices: 4738436--4738480 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4738426 AAAACTTATT
4738436 AAATAATATTTATATTAAA
1 AAATAATATTTATATTAAA
* *
4738455 AAATCATATTTATTTTAAA
1 AAATAATATTTATATTAAA
*
4738474 TAATAAT
1 AAATAAT
4738481 CATTAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATAATATTTATATTAAA
Found at i:4738464 original size:56 final size:56
Alignment explanation
Indices: 4738398--4738545 Score: 138
Period size: 56 Copynumber: 2.6 Consensus size: 56
4738388 TATATATATC
* *
4738398 AAAATTATATTTATGTTACATAGTCATTAAAACTTA-TTAAATAATATTTATATTA
1 AAAAATATATTTATATTACATAGTCATTAAAACTTATTTAAATAATATTTATATTA
* * * * * *
4738453 AAAAATCATATTTATTTTAAATAATAATCATTAAAAGTTATTTACATAATTTTTATATTA
1 AAAAAT-ATATTTATATT--A-CATAGTCATTAAAACTTATTTAAATAATATTTATATTA
* * *
4738513 AAATAA-ATATTAAAAATACATAGTCATTAAAAC
1 AAA-AATATATTTATATTACATAGTCATTAAAAC
4738546 AAATGCAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
55 5 0.07
56 22 0.30
57 1 0.01
58 1 0.01
59 22 0.30
60 20 0.27
61 2 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (56 bp):
AAAAATATATTTATATTACATAGTCATTAAAACTTATTTAAATAATATTTATATTA
Done.