Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 105 of 172
Found at i:30280563 original size:23 final size:24
Alignment explanation
Indices: 30280537--30280582 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
30280527 CAAATTGATG
*
30280537 AATAA-AAAATAAAACATTTTCAA
1 AATAACAAAAAAAAACATTTTCAA
*
30280560 AATAAGCAAAAAAAAATATTTTC
1 AATAA-CAAAAAAAAACATTTTC
30280583 TTTTCCTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
25 14 0.74
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
AATAACAAAAAAAAACATTTTCAA
Found at i:30291885 original size:9 final size:9
Alignment explanation
Indices: 30291869--30291961 Score: 54
Period size: 9 Copynumber: 10.8 Consensus size: 9
30291859 TAGGTTTTTT
30291869 TATT-TTAA
1 TATTATTAA
30291877 TATTATTAA
1 TATTATTAA
* *
30291886 TACTGTT-A
1 TATTATTAA
* *
30291894 TATTGCATCAT
1 TATT--ATTAA
30291905 TATTATT-A
1 TATTATTAA
30291913 TATTA-T-A
1 TATTATTAA
*
30291920 T-TTATTAT
1 TATTATTAA
*
30291928 TATTATTAT
1 TATTATTAA
*
30291937 TATTATTAT
1 TATTATTAA
*
30291946 TATTATTAT
1 TATTATTAA
30291955 TATTATT
1 TATTATT
30291962 TCTATACATA
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
6 3 0.04
7 4 0.06
8 14 0.20
9 43 0.62
10 1 0.01
11 4 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TATTATTAA
Found at i:30291911 original size:3 final size:3
Alignment explanation
Indices: 30291903--30291961 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
30291893 ATATTGCATC
30291903 ATT ATT ATT A-T ATT A-T ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
30291947 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
30291962 TCTATACATA
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 47 0.89
4 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30292112 original size:5 final size:5
Alignment explanation
Indices: 30292102--30292127 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30292092 GAGATGGAAT
30292102 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
30292128 ATATTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:30292686 original size:16 final size:16
Alignment explanation
Indices: 30292635--30292686 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 16
30292625 GGGTGAGAAG
30292635 TAAAAGTTTAGAGGGAAAA
1 TAAAAGTTT-GAGGG--AA
30292654 TAAAAAGTTTTGA-GGAA
1 T-AAAAG-TTTGAGGGAA
30292671 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGAGGGAA
30292687 AGTAAATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.17
16 9 0.30
17 3 0.10
19 3 0.10
20 7 0.23
21 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTGAGGGAA
Found at i:30295431 original size:26 final size:26
Alignment explanation
Indices: 30295397--30295449 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30295387 AATAAAAAAG
30295397 ATAGTCTATTTTTAATAAAAAGTAAA
1 ATAGTCTATTTTTAATAAAAAGTAAA
30295423 ATAGTCTATTTTTAATAAAAAGTAAA
1 ATAGTCTATTTTTAATAAAAAGTAAA
30295449 A
1 A
30295450 AAAATATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (26 bp):
ATAGTCTATTTTTAATAAAAAGTAAA
Found at i:30295450 original size:27 final size:27
Alignment explanation
Indices: 30295392--30295450 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
30295382 ACAAAAATAA
30295392 AAAAGATAGTCTATTTTTAATAAAAAGT
1 AAAA-ATAGTCTATTTTTAATAAAAAGT
30295420 -AAAATAGTCTATTTTTAATAAAAAGT
1 AAAAATAGTCTATTTTTAATAAAAAGT
30295446 AAAAA
1 AAAAA
30295451 AAATATTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (27 bp):
AAAAATAGTCTATTTTTAATAAAAAGT
Found at i:30295457 original size:25 final size:26
Alignment explanation
Indices: 30295403--30295458 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
30295393 AAAGATAGTC
***
30295403 TATTTTTAATAAAAAGTAAAATAGTC
1 TATTTTTAATAAAAAGTAAAATAAAA
30295429 TATTTTTAATAAAAAGTAAAA-AAAA
1 TATTTTTAATAAAAAGTAAAATAAAA
30295454 TATTT
1 TATTT
30295459 ACAAATGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (26 bp):
TATTTTTAATAAAAAGTAAAATAAAA
Found at i:30295673 original size:120 final size:120
Alignment explanation
Indices: 30295548--30295774 Score: 330
Period size: 120 Copynumber: 1.9 Consensus size: 120
30295538 ATAAATTTTT
* *
30295548 AAAAATTATTTATAACAAATTTTAAAATAATTGTCTTTTAAATTAAA-AATTTTATCTATTAATT
1 AAAAATCATTTATAACAAATTTTAAAAGAATTGTCTTTTAAATTAAATAA-TTTATCTATTAATT
* * *
30295612 AAATTTTAATATTATTTTTAAATAACTTCACAATAACTATTATATATTTTTTCAAA
65 AAATTTTAATACTAATTTCAAATAACTTCACAATAACTATTATATATTTTTTCAAA
* ** *
30295668 AAAAATCATTTATTACAGTTTTTAAAAGAATTGTTTTTTAAATTAAATAATTTATCTATTAATTA
1 AAAAATCATTTATAACAAATTTTAAAAGAATTGTCTTTTAAATTAAATAATTTATCTATTAATTA
* * *
30295733 AATTTTAATACTAATTTCAAATCACTTCATAATAATTATTAT
66 AATTTTAATACTAATTTCAAATAACTTCACAATAACTATTAT
30295775 GTACTTAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 92 0.98
121 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (120 bp):
AAAAATCATTTATAACAAATTTTAAAAGAATTGTCTTTTAAATTAAATAATTTATCTATTAATTA
AATTTTAATACTAATTTCAAATAACTTCACAATAACTATTATATATTTTTTCAAA
Found at i:30303376 original size:46 final size:46
Alignment explanation
Indices: 30303320--30303887 Score: 385
Period size: 46 Copynumber: 12.4 Consensus size: 46
30303310 GATTTTTTAT
* * * * * *
30303320 TGCTGTAAATTGAGGTGTATAAACGTTGTTAACTGAGATGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
* * *
30303366 TGCTGCAAATTGAAGTGTTTAAATATTATAAATTGA-AGTGTTTAAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA-TGTTAAAG
* * ** * * ** *
30303412 TACTGCAAGTTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTAC
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
** * * ** * * *
30303458 TGCTTTAAATTGAGGTGTATAAACATTATTAATTGAGATGTTAAAA
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
* * *
30303504 TGTTGCAAAATGAAGTGCTTAAATGTTGTAAATTGA-AGTGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA-TGTTAAAG
** *
30303550 CACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGA-AGTGTTTAAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA-TGTTAAAG
* ** * ** *
30303596 TACTGCAAATTGAAGTG-TTAGTTGTTGGAAATTGAGATGTTTTAT
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
** * * * *
30303641 TGCTATAAATTGAGGTGTATAAACGTTGTTAATTGAGATGTTAAAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
* * * * *
30303687 TGTTGCGAATTGAAGTGTTTAAATGTTGTAAATT-AAAGTGTTTAAC
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA-TGTTAAAG
* * * * * * * * *
30303733 TACTAC-AATAGAACTGTTTAATTGCTGGAAATTGAGATGTTTAAT
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
* * * * * * *
30303778 TGTTGTAAATTAAAGTGTATAAACGTTGTTAATTGAGATGTTACAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
* * * **
30303824 TGCTGCAAAATAAAGTGTTTAAATATTGTAAATTGA-AGTGTTTGAG
1 TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA-TGTTAAAG
*
30303870 TGCTGCAAATTGAGGTGT
1 TGCTGCAAATTGAAGTGT
30303888 ACAAATGAGT
Statistics
Matches: 391, Mismatches: 122, Indels: 18
0.74 0.23 0.03
Matches are distributed among these distances:
45 70 0.18
46 320 0.82
47 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (46 bp):
TGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGATGTTAAAG
Found at i:30303518 original size:138 final size:138
Alignment explanation
Indices: 30303268--30303570 Score: 419
Period size: 138 Copynumber: 2.2 Consensus size: 138
30303258 TAATGCCCTA
* * * *
30303268 TTTAAATACTGCAAATTGAAGTGTTTAGTTGCTAAAAGTGGTGATTTTTTATTGCTGTAAATTGA
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTAAAAGTGGAGATGTTTTACTGCTGTAAATTGA
* * * * *
30303333 GGTGTATAAACGTTGTTAACTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATATTATAAA
66 GGTGTATAAACATTATTAACTGAGATGTTAAAATGCTGCAAAATGAAGTGCTTAAATATTATAAA
30303398 TTGAAGTG
131 TTGAAGTG
* * * *
30303406 TTTAAGTACTGCAAGTTGAAGTGTTTAGTTGCTGGAAA-TTGAGATGTTTTACTGCTTTAAATTG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT-AAAAGTGGAGATGTTTTACTGCTGTAAATTG
* * * *
30303470 AGGTGTATAAACATTATTAATTGAGATGTTAAAATGTTGCAAAATGAAGTGCTTAAATGTTGTAA
65 AGGTGTATAAACATTATTAACTGAGATGTTAAAATGCTGCAAAATGAAGTGCTTAAATATTATAA
30303535 ATTGAAGTG
130 ATTGAAGTG
* *
30303544 TTAAAGCACTGCAAATTGAAGTGTTTA
1 TTTAAGTACTGCAAATTGAAGTGTTTA
30303571 AATGTTGTAA
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 141 0.98
139 3 0.02
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (138 bp):
TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTAAAAGTGGAGATGTTTTACTGCTGTAAATTGA
GGTGTATAAACATTATTAACTGAGATGTTAAAATGCTGCAAAATGAAGTGCTTAAATATTATAAA
TTGAAGTG
Found at i:30303698 original size:137 final size:137
Alignment explanation
Indices: 30303523--30303887 Score: 473
Period size: 137 Copynumber: 2.7 Consensus size: 137
30303513 ATGAAGTGCT
* * **
30303523 TAAATGTTGTAAATTGA-AGTGTTAAAGCACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAA
1 TAAACGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAA
* * *
30303587 GTGTTTAAGTACTGCAAATTGAAGTGTTAGTTGTTGGAAATTGAGATGTTTTATTGCTATAAATT
65 GTGTTTAAGTACTGCAAATTGAAGTGTTAATTGCTGGAAATTGAGATGTTTAATTGCTATAAATT
* *
30303652 GAGGTGTA
130 AAAGTGTA
* * *
30303660 TAAACGTTGTTAATTGAGATGTTAAAGTGTTGCGAATTGAAGTGTTTAAATGTTGTAAATTAAAG
1 TAAACGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * * * * *
30303725 TGTTTAACTACTAC-AATAGAACTGTTTAATTGCTGGAAATTGAGATGTTTAATTGTTGTAAATT
66 TGTTTAAGTACTGCAAATTGAAGTG-TTAATTGCTGGAAATTGAGATGTTTAATTGCTATAAATT
30303789 AAAGTGTA
130 AAAGTGTA
* * * *
30303797 TAAACGTTGTTAATTGAGATGTTACAGTGCTGCAAAATAAAGTGTTTAAATATTGTAAATTGAAG
1 TAAACGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
* * *
30303862 TGTTTGAGTGCTGCAAATTGAGGTGT
66 TGTTTAAGTACTGCAAATTGAAGTGT
30303888 ACAAATGAGT
Statistics
Matches: 193, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
136 8 0.04
137 177 0.92
138 8 0.04
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (137 bp):
TAAACGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
TGTTTAAGTACTGCAAATTGAAGTGTTAATTGCTGGAAATTGAGATGTTTAATTGCTATAAATTA
AAGTGTA
Found at i:30303729 original size:23 final size:23
Alignment explanation
Indices: 30303323--30303866 Score: 229
Period size: 23 Copynumber: 23.7 Consensus size: 23
30303313 TTTTTATTGC
* * *
30303323 TGTAAATTGAGGTGTATAAACGT
1 TGTAAATTGAAGTGTTTAAATGT
* * *
30303346 TGTTAACTG-AGATG-TTAAAGTGC
1 TGTAAATTGAAG-TGTTTAAA-TGT
* *
30303369 TGCAAATTGAAGTGTTTAAATAT
1 TGTAAATTGAAGTGTTTAAATGT
* * **
30303392 TATAAATTGAAGTGTTTAAGTAC
1 TGTAAATTGAAGTGTTTAAATGT
* * ** *
30303415 TGCAAGTTGAAGTGTTTAGTTGC
1 TGTAAATTGAAGTGTTTAAATGT
* * *
30303438 TGGAAATTG-AGATGTTTTACTGCT
1 TGTAAATTGAAG-TGTTTAAATG-T
* * **
30303462 T-TAAATTGAGGTGTATAAACAT
1 TGTAAATTGAAGTGTTTAAATGT
* * *
30303484 TATTAATTG-AGATGTTAAAATGT
1 TGTAAATTGAAG-TGTTTAAATGT
* * *
30303507 TGCAAAATGAAGTGCTTAAATGT
1 TGTAAATTGAAGTGTTTAAATGT
*
30303530 TGTAAATTGAAGTG-TTAAA-GCAC
1 TGTAAATTGAAGTGTTTAAATG--T
*
30303553 TGCAAATTGAAGTGTTTAAATGT
1 TGTAAATTGAAGTGTTTAAATGT
* **
30303576 TGTAAATTGAAGTGTTTAAGTAC
1 TGTAAATTGAAGTGTTTAAATGT
* **
30303599 TGCAAATTGAAGTG-TTAGTTGT
1 TGTAAATTGAAGTGTTTAAATGT
* * * *
30303621 TGGAAATTG-AGATGTTTTATTGC
1 TGTAAATTGAAG-TGTTTAAATGT
* * * *
30303644 TATAAATTGAGGTGTATAAACGT
1 TGTAAATTGAAGTGTTTAAATGT
*
30303667 TGTTAATTG-AGATG-TTAAAGTGT
1 TGTAAATTGAAG-TGTTTAAA-TGT
**
30303690 TGCGAATTGAAGTGTTTAAATGT
1 TGTAAATTGAAGTGTTTAAATGT
* *
30303713 TGTAAATTAAAGTGTTT-AA-CT
1 TGTAAATTGAAGTGTTTAAATGT
** * * * *
30303734 ACTACAATAGAACTGTTTAATTGC
1 TGTA-AATTGAAGTGTTTAAATGT
* *
30303758 TGGAAATTG-AGATGTTTAATTGT
1 TGTAAATTGAAG-TGTTTAAATGT
* * *
30303781 TGTAAATTAAAGTGTATAAACGT
1 TGTAAATTGAAGTGTTTAAATGT
* * *
30303804 TGTTAATTG-AGATG-TTACAGTGC
1 TGTAAATTGAAG-TGTTTA-AATGT
* * * *
30303827 TGCAAAATAAAGTGTTTAAATAT
1 TGTAAATTGAAGTGTTTAAATGT
30303850 TGTAAATTGAAGTGTTT
1 TGTAAATTGAAGTGTTT
30303867 GAGTGCTGCA
Statistics
Matches: 373, Mismatches: 118, Indels: 60
0.68 0.21 0.11
Matches are distributed among these distances:
21 6 0.02
22 51 0.14
23 283 0.76
24 32 0.09
25 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
TGTAAATTGAAGTGTTTAAATGT
Found at i:30308685 original size:11 final size:11
Alignment explanation
Indices: 30308669--30308698 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30308659 TATATATACT
30308669 TAAAAATTATA
1 TAAAAATTATA
*
30308680 TAAAAATAATA
1 TAAAAATTATA
30308691 TAAAAATT
1 TAAAAATT
30308699 TAATATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:30319151 original size:41 final size:41
Alignment explanation
Indices: 30319106--30319189 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
30319096 ATAGTAATAA
30319106 TATCAATTGTAACGAGTGAATCAACAAATATTTATATATTT
1 TATCAATTGTAACGAGTGAATCAACAAATATTTATATATTT
30319147 TATCAATTGTAACGAGTGAATCAACAAATATTTATATATTT
1 TATCAATTGTAACGAGTGAATCAACAAATATTTATATATTT
30319188 TA
1 TA
30319190 CTTTCTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (41 bp):
TATCAATTGTAACGAGTGAATCAACAAATATTTATATATTT
Found at i:30319873 original size:3 final size:3
Alignment explanation
Indices: 30319865--30319895 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30319855 CAAATGGAAT
30319865 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30319896 GATGATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30321625 original size:15 final size:15
Alignment explanation
Indices: 30321601--30321644 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
30321591 AAGTAGCCTA
*
30321601 TCTTTTTTCCTTCTT
1 TCTTTCTTCCTTCTT
30321616 TCTTTCTTCCTTCCTT
1 TCTTTCTTCCTT-CTT
30321632 TC-TTCTT-CTTCTT
1 TCTTTCTTCCTTCTT
30321645 CTTGTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 3 0.11
15 16 0.59
16 5 0.19
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTTCTTCCTTCTT
Found at i:30341361 original size:232 final size:232
Alignment explanation
Indices: 30340992--30341437 Score: 616
Period size: 232 Copynumber: 1.9 Consensus size: 232
30340982 TAACCGTGAA
* *
30340992 TAAACCTCACAGCAGCTAGGAAGCTCACTCGAATTAAGTAATTCAATTGAACTTCAAAAAAAGAC
1 TAAACCTCACAG-AGCTAGGAAGCTCACTCAAATTAAGTAATTCAATTGAACTTCAAAAAAAGAA
* * * * *
30341057 TAAAACTTGCATAGTTTCTTGTACAGATACCCTAATTCAACCAAATTTCTAGAACCTCGCATCTA
65 TAAAACTTACAAAGTTTCTCGTACACATACCCTAATTCAACCAAATTTCTAGAAACTCGCATCTA
* * * *
30341122 ATTACGAACTAACTTCCTCTAAGAAAGCGATTTCA-AG-AAAGAGGTTTATGACGCCCAATTAAA
130 ATTACGAACTAACTTCCTCTAAGAAAGCAAATTCATAGAAAAGAGGTTCATGACACCCAATTAAA
*
30341185 ACCCAAAATCCTAAGGAAAGAAAAGGCTTAAGTGCAAG
195 ACCCAAAATACTAAGGAAAGAAAAGGCTTAAGTGCAAG
*
30341223 TAAACCTCACAG-GCTAGGAAGCTCGCTCAAATTAAGTAATTCAATTGAACTTTCAAAAAACA-A
1 TAAACCTCACAGAGCTAGGAAGCTCACTCAAATTAAGTAATTCAATTGAAC-TTCAAAAAA-AGA
30341286 ATACGGAAACTTACAAAG-TTCTCGTACACATACCCTAATTCAACCAAATTTC-AGGAAACTCGC
64 ATA---AAACTTACAAAGTTTCTCGTACACATACCCTAATTCAACCAAATTTCTA-GAAACTCGC
** * **
30341349 ATCTAATTACGAACTAACTTCCTCTGGGAAAGCAAATTCATAGAAAAGAGGTTCATGATACCCTT
125 ATCTAATTACGAACTAACTTCCTCTAAGAAAGCAAATTCATAGAAAAGAGGTTCATGACACCCAA
*
30341414 TTAAAACCTAAAATACTAAGGAAA
190 TTAAAACCCAAAATACTAAGGAAA
30341438 CACAAAAAAG
Statistics
Matches: 188, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
229 36 0.19
230 12 0.06
231 14 0.07
232 76 0.40
233 12 0.06
234 38 0.20
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (232 bp):
TAAACCTCACAGAGCTAGGAAGCTCACTCAAATTAAGTAATTCAATTGAACTTCAAAAAAAGAAT
AAAACTTACAAAGTTTCTCGTACACATACCCTAATTCAACCAAATTTCTAGAAACTCGCATCTAA
TTACGAACTAACTTCCTCTAAGAAAGCAAATTCATAGAAAAGAGGTTCATGACACCCAATTAAAA
CCCAAAATACTAAGGAAAGAAAAGGCTTAAGTGCAAG
Found at i:30343311 original size:17 final size:18
Alignment explanation
Indices: 30343291--30343326 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30343281 TTAGAAGTTA
30343291 AATC-TATTACTAAATTC
1 AATCATATTACTAAATTC
30343308 AATCATATTACTAAATTC
1 AATCATATTACTAAATTC
30343326 A
1 A
30343327 CATTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
AATCATATTACTAAATTC
Found at i:30343985 original size:14 final size:14
Alignment explanation
Indices: 30343968--30343994 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30343958 AATATTTTCC
30343968 GGAAAATGATTTAT
1 GGAAAATGATTTAT
30343982 GGAAAATGATTTA
1 GGAAAATGATTTA
30343995 CTTTTCTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (14 bp):
GGAAAATGATTTAT
Found at i:30346995 original size:8 final size:8
Alignment explanation
Indices: 30346982--30347007 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30346972 TGTTACAGGC
30346982 AACAAAGA
1 AACAAAGA
30346990 AACAAAGA
1 AACAAAGA
30346998 AACAAAGA
1 AACAAAGA
30347006 AA
1 AA
30347008 GGCAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (8 bp):
AACAAAGA
Found at i:30348014 original size:24 final size:24
Alignment explanation
Indices: 30347964--30348017 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
30347954 TTTGTAGGTC
* * **
30347964 AAATAAATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
30347988 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
30348012 AAATAT
1 AAATAT
30348018 TCTAGAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:30352013 original size:24 final size:24
Alignment explanation
Indices: 30351986--30352037 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30351976 AAATTATAAT
* *
30351986 GTATTTTTATTATAAGTTTATTAC
1 GTATTATTATTATAAATTTATTAC
* *
30352010 GTATTATTATTTTAAATTTATTAT
1 GTATTATTATTATAAATTTATTAC
30352034 GTAT
1 GTAT
30352038 CACTACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
GTATTATTATTATAAATTTATTAC
Found at i:30353543 original size:14 final size:14
Alignment explanation
Indices: 30353514--30353542 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30353504 TAAAGAATAT
30353514 AATAAATTATTAAA
1 AATAAATTATTAAA
30353528 AATAAA-TATTAAA
1 AATAAATTATTAAA
30353541 AA
1 AA
30353543 AAAGACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAATTATTAAA
Found at i:30355544 original size:2 final size:2
Alignment explanation
Indices: 30355537--30355617 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
30355527 GGTCATCATG
30355537 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30355579 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
30355618 TGTGTGTGTG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30357644 original size:22 final size:22
Alignment explanation
Indices: 30357601--30357643 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
30357591 AAGGACAAAA
30357601 AATGCTATTTTTTTGTTGTTTT
1 AATGCTATTTTTTTGTTGTTTT
30357623 AATGCT-TTTTCTTT-TTGTTTT
1 AATGCTATTTT-TTTGTTGTTTT
30357644 TTTCCCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.70
Consensus pattern (22 bp):
AATGCTATTTTTTTGTTGTTTT
Found at i:30361781 original size:20 final size:22
Alignment explanation
Indices: 30361739--30361783 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
30361729 GACCAAGGAT
*
30361739 TCCCTTTAGTGGTATCGCGATA
1 TCCCTTTAGTGGTATCGCAATA
*
30361761 TCCCTTT-G-GGTATGGCAATA
1 TCCCTTTAGTGGTATCGCAATA
30361781 TCC
1 TCC
30361784 ACCTCTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (22 bp):
TCCCTTTAGTGGTATCGCAATA
Found at i:30363775 original size:2 final size:2
Alignment explanation
Indices: 30363768--30363825 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
30363758 TGTTACACAA
30363768 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
30363810 AG AG AA AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
30363826 GGTTCTGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30365175 original size:65 final size:63
Alignment explanation
Indices: 30365087--30365223 Score: 188
Period size: 65 Copynumber: 2.2 Consensus size: 63
30365077 GTTCAACTAT
* * *
30365087 TATTAAATTTAATTACTTCAATATTAAATTAATATAATACATATCAGGATAAGTGATTAAATTTA
1 TATTAAATATAATTACTTCAATATTAAATTAATAAAATAC-TATCAAGATAAGT-ATTAAA-TTA
30365152 A
63 A
* *
30365153 TATTAAA-ATAATTACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTAA
1 TATTAAATATAATTACTTCAATATTAAATTAATAAAATACTATCAAGATAAGTATTAAATTAA
30365215 -ATTAAATAT
1 TATTAAATAT
30365224 TAAATTTATT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
61 6 0.09
62 6 0.09
63 6 0.09
64 11 0.17
65 29 0.45
66 7 0.11
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (63 bp):
TATTAAATATAATTACTTCAATATTAAATTAATAAAATACTATCAAGATAAGTATTAAATTAA
Found at i:30365239 original size:17 final size:17
Alignment explanation
Indices: 30365142--30365229 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
30365132 AGGATAAGTG
*
30365142 ATTAAATTTAATATTAA
1 ATTAAATTAAATATTAA
* *
30365159 AATAATTACTTTAATATTAA
1 ATTAA--A-TTAAATATTAA
* *
30365179 ATT-AATAAAATACT--
1 ATTAAATTAAATATTAA
*
30365193 ATTAAGA-TAAGTATTAA
1 ATTAA-ATTAAATATTAA
30365210 ATTAAATTAAATATTAA
1 ATTAAATTAAATATTAA
30365227 ATT
1 ATT
30365230 TATTAAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
14 3 0.06
15 6 0.11
16 8 0.15
17 22 0.41
19 2 0.04
20 13 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTAAATTAAATATTAA
Found at i:30365242 original size:68 final size:65
Alignment explanation
Indices: 30365106--30365245 Score: 149
Period size: 68 Copynumber: 2.1 Consensus size: 65
30365096 TAATTACTTC
* * ***
30365106 AATATTAAATTAATATAATACATATCAGGATAAGTGATTAAATTTAATATTAAAATAATTACTTT
1 AATATTAAATTAATAAAATACATATCAAGATAAGTGATTAAATTTAATATTAAAATAATTAAAAT
* * *
30365171 AATATTAAATTAATAAAATAC-TATTAAGATAAGT-ATTAAATTAAATTAAATATTAAATTTATT
1 AATATTAAATTAATAAAATACATATCAAGATAAGTGATTAAA-T---TT-AATATTAAAATAATT
30365234 AAAAT
61 AAAAT
30365239 AATATTA
1 AATATTA
30365246 TTTTTAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
63 6 0.10
64 12 0.19
65 20 0.32
67 2 0.03
68 22 0.35
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (65 bp):
AATATTAAATTAATAAAATACATATCAAGATAAGTGATTAAATTTAATATTAAAATAATTAAAAT
Found at i:30367942 original size:46 final size:46
Alignment explanation
Indices: 30367892--30368000 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 46
30367882 AATTTTAGAC
* * *
30367892 TCATTTGTA-CACCTTAATGTGCAGCACTTAAACACTTCAATTTACA
1 TCATTTG-AGCACCTCAATGTGCAGCAATAAAACACTTCAATTTACA
*
30367938 TCATTTGAGCACCTCAATTTGCAGCAATAAAACACTTCAATTTACA
1 TCATTTGAGCACCTCAATGTGCAGCAATAAAACACTTCAATTTACA
* * *
30367984 GCATTTAAACACCTCAA
1 TCATTTGAGCACCTCAA
30368001 CTGACAACAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.02
46 54 0.98
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (46 bp):
TCATTTGAGCACCTCAATGTGCAGCAATAAAACACTTCAATTTACA
Found at i:30368135 original size:23 final size:23
Alignment explanation
Indices: 30367919--30368606 Score: 272
Period size: 23 Copynumber: 29.8 Consensus size: 23
30367909 TGTGCAGCAC
*
30367919 TTAAACACTTCAATTTACATCAT
1 TTAAACACTTCAATTTACAACAT
* * * * * *
30367942 TTGAGCACCTCAATTTGCAGCAA
1 TTAAACACTTCAATTTACAACAT
* *
30367965 TAAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* * *
30367988 TTAAACACCTCAACTGACAACACT
1 TTAAACACTTCAATTTACAACA-T
* * *
30368012 TT-AACA-TCCCAATTAACAACAG
1 TTAAACACT-TCAATTTACAACAT
* * * *
30368034 TTATACACCT-AAATTACATAGA-
1 TTAAACACTTCAATTTACA-ACAT
* * * *
30368056 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTACAACAT
* * **
30368079 CTAAACAATTCAATTTGATGTA-AT
1 TTAAACACTTCAATTT-A-CAACAT
* *
30368103 TAAAACACTTCAATTCACAACAT
1 TTAAACACTTCAATTTACAACAT
* *
30368126 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
30368150 TTAAA-ACTTCAATTCT-CAACAT
1 TTAAACACTTCAATT-TACAACAT
* *
30368172 TTAAACACCTCAATTTGCAACACT
1 TTAAACACTTCAATTTACAACA-T
*
30368196 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
30368218 TTAAACACTTCAATTTGCAAAACT
1 TTAAACACTTCAATTTACAACA-T
*
30368242 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
** * * *
30368264 TTATGCACCTCAA-TTATAGCGA-
1 TTAAACACTTCAATTTACAAC-AT
* * * *
30368286 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTACAACAT
* * **
30368309 CTAAACAATTCAATTTTTAGTAC-T
1 TTAAACACTTCAA--TTTACAACAT
* * *
30368333 TAAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
30368356 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
* *
30368380 TT-AAGACTTCAATTCACAACAT
1 TTAAACACTTCAATTTACAACAT
* * *
30368402 TTAAATAGTACTTCAATGTGCAACACT
1 TT-AA-A-CACTTCAATTTACAACA-T
30368429 TT-AACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* * * *
30368451 TTAAGCACTTCAGTTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
*
30368475 TT-AACATCTT-AATTAACAACAT
1 TTAAACA-CTTCAATTTACAACAT
* * *
30368497 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAAC-AT
* * * *
30368519 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTACAACAT
* * *
30368542 CTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
* *
30368566 TT-AACA-TGTCAATTAACAACGT
1 TTAAACACT-TCAATTTACAACAT
*
30368588 TTATACACTTCAATTTACA
1 TTAAACACTTCAATTTACA
30368607 GAAATAAAAC
Statistics
Matches: 486, Mismatches: 129, Indels: 100
0.68 0.18 0.14
Matches are distributed among these distances:
22 77 0.16
23 332 0.68
24 55 0.11
25 6 0.01
26 13 0.03
27 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAACAT
Found at i:30368314 original size:230 final size:231
Alignment explanation
Indices: 30367911--30368558 Score: 910
Period size: 230 Copynumber: 2.8 Consensus size: 231
30367901 CACCTTAATG
* * * * * **
30367911 TGCAGCAC-TTAAACACTTCAATT-TACATCATTTGAGCACCTCAATTTGCAGCAATAAAACACT
1 TGCAGCACTTTAAA-ACTTCAATTCT-CAACATTTAAACACCTCAATTTGCAACACTTTAACACT
* * * *
30367974 TCAATTTACAGCATTTAAACACCTCAA-CTGACAACACTTTAACATCCCAATTAACAACAGTTAT
64 TCAATTTACAGCATTTAAACACTTCAATTTG-CAACACTTTAACATCTCAATTAACAACATTTAT
* **
30368038 ACACCTAAATTACATAGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGAT-GTAA
128 ACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGATAGTAA
30368102 TTAAAACACTTCAATTCACAACATTTAAACACTTCAATT
193 TTAAAACACTTCAATTCACAACATTTAAACACTTCAATT
30368141 TGCAGCACTTTAAAACTTCAATTCTCAACATTTAAACACCTCAATTTGCAACACTTTAACACTTC
1 TGCAGCACTTTAAAACTTCAATTCTCAACATTTAAACACCTCAATTTGCAACACTTTAACACTTC
* *
30368206 AATTTACAGCATTTAAACACTTCAATTTGCAAAACTTTAACATCTCAATTAACAACATTTATGCA
66 AATTTACAGCATTTAAACACTTCAATTTGCAACACTTTAACATCTCAATTAACAACATTTATACA
* * *
30368271 CCTCAATTATAGCGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTT-TTAGTACTTA
131 CCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGATAGTAATTA
** *
30368335 AAACACTTCAATTTGCAGCATTTAAACACTTCAATT
196 AAACACTTCAATTCACAACATTTAAACACTTCAATT
* * * * *
30368371 TGCAGCACTTTAAGACTTCAATTCACAACATTTAAATAGTACTTCAATGTGCAACACTTTAACAC
1 TGCAGCACTTTAAAACTTCAATTCTCAACATTT-AA-A-CACCTCAATTTGCAACACTTTAACAC
* * * * *
30368436 TTCAATTTACAACATTTAAGCACTTCAGTTTGCAGCACTTTAACATCTTAATTAACAACATTTAT
63 TTCAATTTACAGCATTTAAACACTTCAATTTGCAACACTTTAACATCTCAATTAACAACATTTAT
*
30368501 ACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTG
128 ACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
30368559 CAGCACTTTA
Statistics
Matches: 374, Mismatches: 36, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
229 1 0.00
230 226 0.60
231 10 0.03
232 1 0.00
233 136 0.36
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.31
Consensus pattern (231 bp):
TGCAGCACTTTAAAACTTCAATTCTCAACATTTAAACACCTCAATTTGCAACACTTTAACACTTC
AATTTACAGCATTTAAACACTTCAATTTGCAACACTTTAACATCTCAATTAACAACATTTATACA
CCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGATAGTAATTA
AAACACTTCAATTCACAACATTTAAACACTTCAATT
Found at i:30368344 original size:24 final size:23
Alignment explanation
Indices: 30368332--30368653 Score: 101
Period size: 23 Copynumber: 13.9 Consensus size: 23
30368322 TTTTTAGTAC
30368332 TTAAAACACTTCAATTTGCAGCA
1 TTAAAACACTTCAATTTGCAGCA
*
30368355 TTTAAACACTTCAATTTGCAGCA
1 TTAAAACACTTCAATTTGCAGCA
* * ** *
30368378 CTT-TAAGACTTCAATTCACAACA
1 -TTAAAACACTTCAATTTGCAGCA
* * *
30368401 TTTAAATAGTACTTCAATGTGCAACA
1 -TTAAA-A-CACTTCAATTTGCAGCA
* * *
30368427 CTT-TAACACTTCAATTTACAACA
1 -TTAAAACACTTCAATTTGCAGCA
* * *
30368450 TTTAAGCACTTCAGTTTGCAGCA
1 TTAAAACACTTCAATTTGCAGCA
* ** *
30368473 CTT-TAACATCTT-AATTAACAACA
1 -TTAAAACA-CTTCAATTTGCAGCA
* * * *
30368496 TTTATACACCTCAA-TTACAGCGA
1 TTAAAACACTTCAATTTGCAGC-A
*
30368519 -TAAAACA-TCTCAATTTCCAGCAA
1 TTAAAACACT-TCAATTTGCAGC-A
*
30368542 CT-AAACACTTCAATTTGCAGCA
1 TTAAAACACTTCAATTTGCAGCA
* ** * *
30368564 CTT-TAACA-TGTCAATTAACAACG
1 -TTAAAACACT-TCAATTTGCAGCA
* * * *
30368587 TTTATACACTTCAATTTACAGAA
1 TTAAAACACTTCAATTTGCAGCA
*
30368610 ATAAAACA-TCTCAATTTGCAGCAA
1 TTAAAACACT-TCAATTTGCAGC-A
* *
30368634 CT-AAACACTTCAAATTGCAG
1 TTAAAACACTTCAATTTGCAG
30368654 TACTTAAATA
Statistics
Matches: 220, Mismatches: 58, Indels: 42
0.69 0.18 0.13
Matches are distributed among these distances:
22 25 0.11
23 163 0.74
24 15 0.07
25 2 0.01
26 15 0.07
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACACTTCAATTTGCAGCA
Found at i:30368438 original size:49 final size:47
Alignment explanation
Indices: 30368106--30368603 Score: 343
Period size: 46 Copynumber: 10.8 Consensus size: 47
30368096 ATGTAATTAA
*
30368106 AACACTTCAATTCACAACATTTAAA-CACTTCAATTTGCAGCACTTT
1 AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* ** * *
30368152 AAAACTTCAATTCTCAACATTTAAA-CACCTCAATTTGCAACACTTT
1 AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* * **
30368198 AACACTTCAATTTACAGCATTTAAA-CACTTCAATTTGCAAAACTTT
1 AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* * **
30368244 AACA-TCTCAATTAACAACATTT-ATGCACCTCAATTAT--AGCGA-TAA
1 AACACT-TCAATTAACAACATTTAAAGCACTTCAATT-TGCAGC-ACTTT
** * ** * ** * *
30368289 AACA-TCTCAATTTCCAGCAACTAAA-CAATTCAATTTTTAGTACTTAA
1 AACACT-TCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTT-T
** *
30368336 AACACTTCAATTTGCAGCATTTAAA-CACTTCAATTTGCAGCACTTT
1 AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* * * * *
30368382 AAGACTTCAATTCACAACATTTAAATAGTACTTCAATGTGCAACACTTT
1 AACACTTCAATTAACAACATTT-AA-AGCACTTCAATTTGCAGCACTTT
* *
30368431 AACACTTCAATTTACAACATTT-AAGCACTTCAGTTTGCAGCACTTT
1 AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* * * **
30368477 AACATCTT-AATTAACAACATTTATA-CACCTCAA-TTACAGCGA-TAA
1 AACA-CTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGC-ACTTT
** * **
30368522 AACA-TCTCAATTTCCAGCAACTAAA-CACTTCAATTTGCAGCACTTT
1 AACACT-TCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
* *
30368568 AACA-TGTCAATTAACAACGTTTATA-CACTTCAATTT
1 AACACT-TCAATTAACAACATTTAAAGCACTTCAATTT
30368604 ACAGAAATAA
Statistics
Matches: 358, Mismatches: 74, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 60 0.17
46 210 0.59
47 45 0.13
48 2 0.01
49 38 0.11
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (47 bp):
AACACTTCAATTAACAACATTTAAAGCACTTCAATTTGCAGCACTTT
Found at i:30369167 original size:15 final size:15
Alignment explanation
Indices: 30369147--30369180 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30369137 AATGTTTTAA
30369147 TACAACATAAATACT
1 TACAACATAAATACT
*
30369162 TACAACATGAATACT
1 TACAACATAAATACT
30369177 TACA
1 TACA
30369181 TTTTAATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (15 bp):
TACAACATAAATACT
Found at i:30375059 original size:16 final size:16
Alignment explanation
Indices: 30375038--30375069 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30375028 ATCTGTACAT
30375038 AAAATGCGTATAAGAC
1 AAAATGCGTATAAGAC
30375054 AAAATGCGTATAAGAC
1 AAAATGCGTATAAGAC
30375070 TGTACATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAATGCGTATAAGAC
Found at i:30379468 original size:50 final size:50
Alignment explanation
Indices: 30379404--30379679 Score: 329
Period size: 50 Copynumber: 5.4 Consensus size: 50
30379394 TGTCATATCT
* ** * * * *
30379404 CAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
**
30379454 CAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
* * *
30379504 TAGACAAGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
* *
30379554 CAGACAAGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
* * * *
30379604 CAGACATGGTCTTACATGGTACCTCTCATAATCTCAATGATGCCAATGTCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATGTCC
30379660 CAGACATGGTCTTACA-GGGA
1 CAGACATGGTCTTACATGGGA
30379680 TCTTTTTACC
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
50 159 0.80
53 5 0.03
55 3 0.02
56 31 0.16
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
Found at i:30401600 original size:29 final size:29
Alignment explanation
Indices: 30401533--30401607 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
30401523 TGTTAATAGT
*
30401533 TGGATTAAATTTTAAAATATGAAAAGTAA
1 TGGATTAAATTCTAAAATATGAAAAGTAA
* *
30401562 AGTGACTAAATTCCTAAAA-AT-AAAAGTACA
1 TG-GATTAAATT-CTAAAATATGAAAAGTA-A
30401592 TGGATTAAATTCTAAA
1 TGGATTAAATTCTAAA
30401608 TTTTTGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.13
29 16 0.42
30 12 0.32
31 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.31
Consensus pattern (29 bp):
TGGATTAAATTCTAAAATATGAAAAGTAA
Found at i:30404244 original size:14 final size:14
Alignment explanation
Indices: 30404186--30404244 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
30404176 AATTCGACAA
* *
30404186 TCATATTGCAACGA
1 TCATATTGTAACGG
*
30404200 TTATATTGTAACGG
1 TCATATTGTAACGG
* **
30404214 TCAGATTCCAACGG
1 TCATATTGTAACGG
*
30404228 TCATATTGTAACAG
1 TCATATTGTAACGG
30404242 TCA
1 TCA
30404245 GATTTTTGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (14 bp):
TCATATTGTAACGG
Found at i:30405413 original size:67 final size:67
Alignment explanation
Indices: 30405305--30405436 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
30405295 TTTCCAATTC
**
30405305 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGAAGGATTACCAGTCCAGGCTAAATCCCCTG
30405370 CA
66 CA
* *
30405372 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGAAGGATTACCAGTCCTGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGAAGGATTACCAGTCCAGGCTAAATCCCCTG
30405437 TAATATAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGAAGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:30414178 original size:29 final size:29
Alignment explanation
Indices: 30414145--30414203 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
30414135 ATTAGACGTA
**
30414145 TATGACTAATTAGGTGAATGAAATTCGTT
1 TATGACTAATTAGGTGAAAAAAATTCGTT
30414174 TATGACTAATTAGGTGAAAAAAATTCGTT
1 TATGACTAATTAGGTGAAAAAAATTCGTT
30414203 T
1 T
30414204 TAGGTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (29 bp):
TATGACTAATTAGGTGAAAAAAATTCGTT
Found at i:30415119 original size:27 final size:27
Alignment explanation
Indices: 30415081--30415135 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
30415071 TCACTAGAAG
30415081 TAAGAATTATGTAATCGTACTTATAAA
1 TAAGAATTATGTAATCGTACTTATAAA
*
30415108 TAAGAATTATGTAATCGTATTTATAAA
1 TAAGAATTATGTAATCGTACTTATAAA
30415135 T
1 T
30415136 GGTTGTCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (27 bp):
TAAGAATTATGTAATCGTACTTATAAA
Found at i:30415321 original size:18 final size:18
Alignment explanation
Indices: 30415298--30415338 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
30415288 TAATTTTGTG
30415298 TTATTCTATAGGTGTTCT
1 TTATTCTATAGGTGTTCT
*
30415316 TTATTCTGTAGGTGTTCT
1 TTATTCTATAGGTGTTCT
30415334 TTATT
1 TTATT
30415339 TACGTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.59
Consensus pattern (18 bp):
TTATTCTATAGGTGTTCT
Found at i:30416780 original size:11 final size:11
Alignment explanation
Indices: 30416748--30416781 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
30416738 CGAAAAATAT
30416748 AATATAATTATA
1 AATATAATTA-A
30416760 AA-ATAATTAA
1 AATATAATTAA
30416770 AATATAATTAA
1 AATATAATTAA
30416781 A
1 A
30416782 TTATTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 16 0.76
12 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAATTAA
Found at i:30423334 original size:43 final size:42
Alignment explanation
Indices: 30423238--30423344 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
30423228 GATTTGAGAT
** * * *
30423238 TTACGTGTAAGACAATGTCTGGGACATTGGCCTCGTATATGA
1 TTACGTGTAAGACCCTGTCTGGAACAGTGGCATCGTATATGA
*
30423280 TTACGTGTAAGACCCTGTCTGGAACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGAACAGTGGCATCG-TATATGA
*
30423323 TTACATGTAAGACCAC-GTCTGG
1 TTACGTGTAAGACC-CTGTCTGG
30423345 GACGTTGGCA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 30 0.54
43 25 0.45
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGAACAGTGGCATCGTATATGA
Found at i:30423354 original size:43 final size:43
Alignment explanation
Indices: 30423197--30423355 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
30423187 AATGTGATAT
*
30423197 CGTGTAAGACAACGTCTGGGACGTTGGCAT--TGATTTGAGATTTA
1 CGTGTAAGACAACGTCTGGGACGTTGGCATCGTTATTT--GA-TTA
* * * *
30423241 CGTGTAAGACAATGTCTGGGACATTGGCCTCG-TATATGATTA
1 CGTGTAAGACAACGTCTGGGACGTTGGCATCGTTATTTGATTA
* *
30423283 CGTGTAAGAC-CCTGTCTGGAACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACAAC-GTCTGGGAC-GTTGGCATCGTTATTTGATTA
* *
30423326 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACAACGTCTGGGACGTTGGCAT
30423356 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 29 0.31
43 34 0.36
44 28 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACAACGTCTGGGACGTTGGCATCGTTATTTGATTA
Found at i:30425112 original size:13 final size:15
Alignment explanation
Indices: 30425080--30425116 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
30425070 AGTAATATTC
*
30425080 ATATATTTATGCTTT
1 ATATATATATGCTTT
30425095 ATATATATATGCTTT
1 ATATATATATGCTTT
30425110 ATATATA
1 ATATATA
30425117 ACATCAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (15 bp):
ATATATATATGCTTT
Found at i:30427748 original size:22 final size:19
Alignment explanation
Indices: 30427723--30427764 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
30427713 TGATAATAAC
30427723 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
30427745 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
30427764 T
1 T
30427765 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:30427755 original size:16 final size:15
Alignment explanation
Indices: 30427723--30427761 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30427713 TGATAATAAC
30427723 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
30427739 TTATTATAATATATAT
1 TAATTATAAT-TATAT
30427755 TAATTAT
1 TAATTAT
30427762 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:30428533 original size:25 final size:26
Alignment explanation
Indices: 30428479--30428534 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
30428469 TTTCTCCTAA
* *
30428479 ATTTTAAATTTATTTAGTTAATTAAT
1 ATTTTAAATTTATTAAATTAATTAAT
*
30428505 -TTTTCAATTTATTAAATT-ATTAAT
1 ATTTTAAATTTATTAAATTAATTAAT
30428529 ATTTTA
1 ATTTTA
30428535 TACAAATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTTAAATTTATTAAATTAATTAAT
Found at i:30431405 original size:20 final size:21
Alignment explanation
Indices: 30431357--30431397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30431347 TATCACATTT
*
30431357 AATTTTAATTAATTTTATAATA
1 AATTTTCA-TAATTTTATAATA
30431379 AATTTTCATAATTTT-TAAT
1 AATTTTCATAATTTTATAAT
30431398 TTATTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTCATAATTTTATAATA
Found at i:30435169 original size:56 final size:56
Alignment explanation
Indices: 30435095--30435227 Score: 216
Period size: 56 Copynumber: 2.4 Consensus size: 56
30435085 AATAATTAGA
30435095 TTCCAA-TAACTATATTGTAACGAAAAGATTCCAACGG-TCACATTATAATGATCAAG
1 TTCCAACT-ACTATATTGTAACGAAAAGATTCCAA-GGATCACATTATAATGATCAAG
* *
30435151 TTCCAACTACTATATTGTAACGAAGAGATTCCAAGGATCATATTATAATGATCAAG
1 TTCCAACTACTATATTGTAACGAAAAGATTCCAAGGATCACATTATAATGATCAAG
30435207 TTCCAACTACTATATTGTAAC
1 TTCCAACTACTATATTGTAAC
30435228 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
55 2 0.03
56 70 0.96
57 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (56 bp):
TTCCAACTACTATATTGTAACGAAAAGATTCCAAGGATCACATTATAATGATCAAG
Found at i:30435182 original size:28 final size:28
Alignment explanation
Indices: 30435092--30435227 Score: 88
Period size: 28 Copynumber: 4.9 Consensus size: 28
30435082 TGTAATAATT
*
30435092 AGATTCCAA-TAACTATATTGTAACGAAA
1 AGATTCCAACT-ACTATATTGTAACGACA
* * *
30435120 AGATTCCAACGGT-C-ACATTATAATGATCA
1 AGATTCCAAC--TACTATATTGTAACGA-CA
30435149 AG-TTCCAACTACTATATTGTAACGA-A
1 AGATTCCAACTACTATATTGTAACGACA
** * *
30435175 GAGATTCCAAGGA-TCATATTATAATGATCA
1 -AGATTCCAACTACT-ATATTGTAACGA-CA
30435205 AG-TTCCAACTACTATATTGTAAC
1 AGATTCCAACTACTATATTGTAAC
30435228 AGTCATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
26 2 0.02
27 4 0.05
28 66 0.81
29 7 0.09
30 1 0.01
31 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (28 bp):
AGATTCCAACTACTATATTGTAACGACA
Found at i:30445617 original size:24 final size:24
Alignment explanation
Indices: 30445585--30445631 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30445575 AAAGAAACAA
*
30445585 CAAAGATTTTATACTAATAAATAT
1 CAAAGATTTAATACTAATAAATAT
* *
30445609 CAAATATTTAATGCTAATAAATA
1 CAAAGATTTAATACTAATAAATA
30445632 CTAAATCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
CAAAGATTTAATACTAATAAATAT
Found at i:30450507 original size:10 final size:10
Alignment explanation
Indices: 30450494--30450529 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
30450484 ATATTGCATG
*
30450494 ATATAATGAT
1 ATATAATAAT
30450504 ATATAATAAT
1 ATATAATAAT
30450514 ATATAATAAT
1 ATATAATAAT
30450524 ATATAA
1 ATATAA
30450530 ATATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:30457748 original size:14 final size:14
Alignment explanation
Indices: 30457729--30457760 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30457719 CAACCTTCAT
30457729 CTCCACCAATCCAC
1 CTCCACCAATCCAC
*
30457743 CTCCACCGATCCAC
1 CTCCACCAATCCAC
30457757 CTCC
1 CTCC
30457761 GGTCCTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.59, G:0.03, T:0.16
Consensus pattern (14 bp):
CTCCACCAATCCAC
Found at i:30461007 original size:12 final size:12
Alignment explanation
Indices: 30460990--30461014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30460980 TCCTCAGAAT
30460990 TTTGATCTTAAA
1 TTTGATCTTAAA
30461002 TTTGATCTTAAA
1 TTTGATCTTAAA
30461014 T
1 T
30461015 GCCTTAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGATCTTAAA
Found at i:30463842 original size:14 final size:14
Alignment explanation
Indices: 30463823--30463849 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30463813 CAGCTTATTT
30463823 TAGGACCCCACTAC
1 TAGGACCCCACTAC
30463837 TAGGACCCCACTA
1 TAGGACCCCACTA
30463850 TTTTGTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (14 bp):
TAGGACCCCACTAC
Found at i:30467401 original size:142 final size:142
Alignment explanation
Indices: 30467144--30467522 Score: 413
Period size: 142 Copynumber: 2.7 Consensus size: 142
30467134 GTGTTAATTC
*
30467144 GCGAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGT--GGTT
1 GCGAGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGGGTT
* * ** * * * * *
30467207 TTTCATGCACGAGCCTTAATATGATAGTAAGGAGTTTGTAACTCTCACTAACTATGTTGGAGGCT
66 TTACTTGCA--AGCCTTAATATGATAGTTGGGAATTTGTAACTCCCAATAACTATATTAGAGGCT
30467272 GCAG-TTTTTCACCT
129 G-AGATTTTTCACCT
** * * * * * *
30467286 GCGAGCCTTAATACAACAGCTGGGAGTTTGTAACTCTCACCAATTATATTAGAGGCTGTGGGGTT
1 GCGAGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGGGTT
* * * *
30467351 TTACTTGTAAGCCTTAATATGACAGTTGGGAATTTGTAACTCCCAATAACTGTATTAGAGGCTGT
66 TTACTTGCAAGCCTTAATATGATAGTTGGGAATTTGTAACTCCCAATAACTATATTAGAGGCTGA
**
30467416 GATTTTTCATTT
131 GATTTTTCACCT
* * * * * * **
30467428 ACAAGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGTGTTGGAGGCTGTGGTCTT
1 GCGAGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGGGTT
*
30467493 TCACTTGCAAGCCTTAATATGATAGTTGGG
66 TTACTTGCAAGCCTTAATATGATAGTTGGG
30467523 TGACTAGGGG
Statistics
Matches: 191, Mismatches: 43, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
141 1 0.01
142 180 0.94
144 10 0.05
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (142 bp):
GCGAGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGGGTT
TTACTTGCAAGCCTTAATATGATAGTTGGGAATTTGTAACTCCCAATAACTATATTAGAGGCTGA
GATTTTTCACCT
Found at i:30467517 original size:71 final size:71
Alignment explanation
Indices: 30467147--30467514 Score: 357
Period size: 71 Copynumber: 5.2 Consensus size: 71
30467137 TTAATTCGCG
* * *
30467147 AGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGTTTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
30467212 --TGCA
66 CTTGCA
* * * **
30467216 CGAGCCTTAATATGATAG-TAAGGAGTTTGTAACTCTCACTAACTATGTTGGAGGCTGCAGTTTT
1 --AGCCTTAATATGACAGCTGA-GAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTT
* *
30467280 TCACCTGCG
63 TCACTTGCA
** * * * * * * *
30467289 AGCCTTAATACAACAGCTGGGAGTTTGTAACTCTCACCAATTATATTAGAGGCTGTGGGGTTTT-
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGT-GGTTTTTC
*
30467353 ACTTGTA
65 ACTTGCA
* * * * * * * *
30467360 AGCCTTAATATGACAGTTGGGAATTTGTAACTCCCAATAACTGTATTAGAGGCTGTGATTTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
* *
30467425 TTTACA
66 CTTGCA
* * ** *
30467431 AGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGTGTTGGAGGCTGTGGTCTTTCA
1 AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
30467496 CTTGCA
66 CTTGCA
30467502 AGCCTTAATATGA
1 AGCCTTAATATGA
30467515 TAGTTGGGTG
Statistics
Matches: 239, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
70 7 0.03
71 223 0.93
72 6 0.03
73 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (71 bp):
AGCCTTAATATGACAGCTGAGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTGTGGTTTTTCA
CTTGCA
Found at i:30476373 original size:24 final size:24
Alignment explanation
Indices: 30476346--30476415 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
30476336 AAAAATCTGG
30476346 TGGCTATTCTGTGAGAGGCTGGAA
1 TGGCTATTCTGTGAGAGGCTGGAA
* * *
30476370 TGGCTATTCTTTGATGGTAGTCTTGAA
1 TGGCTATTCTGTGA--G-AGGCTGGAA
30476397 TGGCTATT-TCGTGAGAGGC
1 TGGCTATTCT-GTGAGAGGC
30476416 CGTAATGAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 2 0.05
27 18 0.49
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.36
Consensus pattern (24 bp):
TGGCTATTCTGTGAGAGGCTGGAA
Found at i:30477210 original size:3 final size:3
Alignment explanation
Indices: 30477202--30477291 Score: 153
Period size: 3 Copynumber: 30.0 Consensus size: 3
30477192 GCATGCATGA
*
30477202 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
30477250 TTC TTC TTC ATC TTC TTC TTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
30477292 ATTTTGGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:30477839 original size:43 final size:43
Alignment explanation
Indices: 30477579--30477831 Score: 391
Period size: 43 Copynumber: 5.9 Consensus size: 43
30477569 TTTACAAAAA
*
30477579 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
30477622 AAACGCCGCTAAAGACCAAGACCTTTAACGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
30477665 AAACGCTGCTAAAGACCAAGACCTTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
30477708 AAACGCCGCTAAAGATCAAAACCTTTAGCGGCGCTTCTCCCA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
30477750 AAATCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCTCAC
1 AAA-CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * * *
30477794 AAACGCCGTTAAAAACTAGGACCTTTAGCGGCGCTTCT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCT
30477832 ATTACAAATG
Statistics
Matches: 192, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
42 3 0.02
43 186 0.97
44 3 0.02
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:30483980 original size:14 final size:15
Alignment explanation
Indices: 30483963--30483995 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
30483953 CTTAAATCAG
30483963 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
30483977 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
30483992 AATC
1 AATC
30483996 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:30484459 original size:41 final size:41
Alignment explanation
Indices: 30484402--30484512 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
30484392 AAATGTTTTT
* * *
30484402 GCGGCGCTTTTTCAAAAACACCGCTAAAGAACTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTAAGCATTA
* *
30484443 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTAAGTATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTAAGCATTA
30484484 GCGGCGC-TTTCCTAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCC-AAAAACGCCGCTAAAG
30484513 CCCCTAAAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 5 0.08
41 59 0.92
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGAACTAAGCATTA
Found at i:30487230 original size:27 final size:27
Alignment explanation
Indices: 30487200--30487258 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
30487190 GATGGAACGA
*
30487200 AAACAGACAGCGTTGAAAATGAAGCTG
1 AAACAGACAGCGTTGAAAACGAAGCTG
* * *
30487227 AAACAGACGGCGTTGAAGACGGAGCTG
1 AAACAGACAGCGTTGAAAACGAAGCTG
30487254 AAACA
1 AAACA
30487259 TTTAGTGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (27 bp):
AAACAGACAGCGTTGAAAACGAAGCTG
Found at i:30490228 original size:39 final size:39
Alignment explanation
Indices: 30490185--30490259 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
30490175 AAGTTGGGAA
*
30490185 AACAAATATAATATATGAACTAAATCATTATATAAGTTT
1 AACAAATATAATATATGAACTAAATCATGATATAAGTTT
30490224 AACAAATATAATATATGAACTAAATCATGATATAAG
1 AACAAATATAATATATGAACTAAATCATGATATAAG
30490260 GATTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (39 bp):
AACAAATATAATATATGAACTAAATCATGATATAAGTTT
Found at i:30491778 original size:323 final size:323
Alignment explanation
Indices: 30491190--30491845 Score: 943
Period size: 323 Copynumber: 2.0 Consensus size: 323
30491180 AACTAGATGA
* * *
30491190 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTTCAAATATTAGCATGCCCTATT
1 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
** * * *
30491255 CCCGGTGATACATATTTCTAAACCTTTTCGCTGTGGAAAAAACATCTTTCTTCATCCATTTTCAA
66 CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
* *
30491320 GCTAACCAATCCTAACTTACATCACTAGAAAAATGCACAATAGATGCTATTTATATAACAATATT
131 GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
* * * * ** * *
30491385 AATCGATAATAGCGAGAATAGATGAGGCCAGTCTTAACAACCATTTTCGTCTACCAAATCACATA
196 AACCGATAATAGCGAGAATAGACGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
* * * * *
30491450 CTCTTAAAGCATCATCTAGCTGACCGCGACCTGTATAAAACCCTTGAAGAGGACCAATCTACC
261 CTCTTAAAACATCATCCAGCTGACCGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
* * *
30491513 AAACCCAAACTCTTTGAGGTGTTTTCACCTTCCAAATCAGCCTCCAAATATTAGTAGGCCCAATT
1 AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
* * *
30491578 CCCCCTGATACATATTTTTAAACCTTTTCGCTATGGAAAAATCGTCTTTCTTCATCCATCTCCAA
66 CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
* * * ** * *
30491643 GCTAACCAGTCCTGACCTACATCACTGGAAAGGGGCACAATAGATGCTATTTGTGTAACAATATT
131 GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
*
30491708 AACCGATAATAGCGAGAATAGACGAGACCAATCCCAACAAACATTTCCGTTTACCAAATCACATA
196 AACCGATAATAGCGAGAATAGACGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
* * * *
30491773 CTCTTAAAATATCATCCGGTTGACTGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
261 CTCTTAAAACATCATCCAGCTGACCGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
30491836 AAACCCAAAC
1 AAACCCAAAC
30491846 GTTATTCCAA
Statistics
Matches: 292, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
323 292 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (323 bp):
AAACCCAAACTCTTTGAGGCGTTTTCACCTTCCAAACCAGCCTCCAAATATTAGCAGGCCCAATT
CCCCCTGATACATATTTCTAAACCTTTTCGCTATGGAAAAAACATCTTTCTTCATCCATCTCCAA
GCTAACCAATCCTAACCTACATCACTAGAAAAAGGCACAATAGATGCTATTTATATAACAATATT
AACCGATAATAGCGAGAATAGACGAGACCAATCCCAACAAACATTTCCGTCTACCAAATCACATA
CTCTTAAAACATCATCCAGCTGACCGCGACCTATATAAAACCCTCGAAGAGAACCAATCTACC
Found at i:30501626 original size:93 final size:93
Alignment explanation
Indices: 30501462--30501647 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
30501452 CTTGCTTGTT
*
30501462 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTTCTTCAGCTACATACGTATTC
1 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
*
30501527 TTCTCATTGTCACCCTTATGCAAATTTC
66 TCCTCATTGTCACCCTTATGCAAATTTC
30501555 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
1 TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
30501620 TCCTCATTGTCACCCTTATGCAAATTTC
66 TCCTCATTGTCACCCTTATGCAAATTTC
30501648 CAAACCGAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.42
Consensus pattern (93 bp):
TCACTCAATATAATATTTGGAGGTTTTTTTGGTGAAGCATTTCTCCTTCAGCTACATACGTATTC
TCCTCATTGTCACCCTTATGCAAATTTC
Found at i:30513543 original size:14 final size:14
Alignment explanation
Indices: 30513508--30513554 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
30513498 CTGCACAATT
* *
30513508 AATAACATGATTAT
1 AATAACATGAATAA
*
30513522 AATGACATGAATAA
1 AATAACATGAATAA
30513536 AATAACAT-AACTAA
1 AATAACATGAA-TAA
30513550 AATAA
1 AATAA
30513555 TTACATGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAACATGAATAA
Found at i:30515009 original size:19 final size:19
Alignment explanation
Indices: 30514985--30515025 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30514975 CAAGCTGGCG
30514985 TAAACACTAACA-AATAATA
1 TAAACA-TAACATAATAATA
*
30515004 TAAACATAATATAATAATA
1 TAAACATAACATAATAATA
30515023 TAA
1 TAA
30515026 TTTTAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAACATAACATAATAATA
Found at i:30515060 original size:20 final size:20
Alignment explanation
Indices: 30515014--30515065 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
30515004 TAAACATAAT
* *
30515014 ATAATAATAT-AATTTTAAAC
1 ATAA-AATATAAATATTAAAA
*
30515034 ATTAAATATAAATATTAAAA
1 ATAAAATATAAATATTAAAA
30515054 ATAAAATATAAA
1 ATAAAATATAAA
30515066 CGTATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAATATAAATATTAAAA
Found at i:30520212 original size:30 final size:30
Alignment explanation
Indices: 30520166--30520257 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
30520156 ATTTCTTATG
*
30520166 CCAATATCTCGATACCCATATCTTTGATTTT
1 CCAATAT-TTGATACCCATATCTTTGATTTT
*
30520197 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGATTTT
* * *
30520227 CCATTATTTGATAACCATATATTTGAATTTT
1 CCAATATTTGATACCCATATCTTTG-ATTTT
30520258 TATAAATATG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 43 0.80
31 11 0.20
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGATTTT
Found at i:30520221 original size:15 final size:15
Alignment explanation
Indices: 30520176--30520222 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
30520166 CCAATATCTC
30520176 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
30520191 GATTTTCCA-ATATTT
1 GA-TACCCATATCTTT
30520206 GATACCCATATCTTT
1 GATACCCATATCTTT
30520221 GA
1 GA
30520223 CTTTCCATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:30520249 original size:15 final size:15
Alignment explanation
Indices: 30520200--30520252 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
30520190 TGATTTTCCA
*
30520200 ATATTTGATACCCAT
1 ATATTTGATAACCAT
* **
30520215 ATCTTTGACTTTCCAT
1 ATATTTGA-TAACCAT
30520231 -TATTTGATAACCAT
1 ATATTTGATAACCAT
30520245 ATATTTGA
1 ATATTTGA
30520253 ATTTTTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 5 0.17
15 20 0.67
16 5 0.17
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (15 bp):
ATATTTGATAACCAT
Found at i:30530230 original size:22 final size:22
Alignment explanation
Indices: 30530170--30530213 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
30530160 AATCTTCAAG
30530170 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
30530189 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
30530211 GAT
1 GAT
30530214 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:30536881 original size:24 final size:24
Alignment explanation
Indices: 30536849--30536906 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
30536839 ATGTCCCAAA
*
30536849 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTAAACCTTGAAG
30536873 ATTACAGTGGATTAAACCTTGAAG
1 ATTACAGTGGATTAAACCTTGAAG
30536897 ATTACAGTGG
1 ATTACAGTGG
30536907 GGGCAATCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGATTAAACCTTGAAG
Found at i:30538089 original size:170 final size:171
Alignment explanation
Indices: 30537709--30538159 Score: 622
Period size: 170 Copynumber: 2.6 Consensus size: 171
30537699 AAAGATGACG
* * **
30537709 AATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTAAAGCCAAT--AATCCTATCTCTTTAAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG--AATCCAATCCTATCTCCCTAAAGT
* * * * * * *
30537772 TACAATGGAGCGGGTTAAAATCACAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCC
64 TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCAT-C
*
30537837 AGTCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAATAAACC
128 AGTCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
* *
30537881 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
* * *
30537946 TAGTGGAGCGGATTAAAATCATAGATCTTATCTCTTTGAAGTTGCAAAGAGTAGATCGCAT-AGT
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCATCAGT
*
30538010 CTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAATAAACC
131 CTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
* * * * *
30538051 AATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAAGAAACCAACCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
*
30538116 CAGTGGAGTGGATTAAAATCACAGATCTTATCT-TTCTGAAGTTG
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTT-TGAAGTTG
30538160 TAGTAGAGCA
Statistics
Matches: 248, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
169 2 0.01
170 141 0.57
172 105 0.42
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (171 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTG
CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAAAGAGCAGATCGCATCAGT
CTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAATAAACC
Found at i:30538104 original size:126 final size:126
Alignment explanation
Indices: 30537883--30538117 Score: 276
Period size: 126 Copynumber: 1.9 Consensus size: 126
30537873 AATAAACCAA
* * * * * *
30537883 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAATCCAATCCTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAAGAAACCAATCCTATCTCCCTAAAGTTATA
* * * * * **
30537948 GTGGAGCGGATTAAAATCATAGATCTTATCTCTTTGAAGTTGCAAAGAGTAGATCGCATAG
66 GTGGAGCAGATTAAAAACACAGACCCTATCTCCCTGAAGTTGCAAAGAGTAGATCGCATAG
* * * *
30538009 TCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAATAAACCAATCTTATCTCCCTGAAGTTATA
1 TCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAAGAAACCAATCCTATCTCCCTAAAGTTATA
*
30538074 GTGGAGCATATTAAAGAA-ACCA-ACCCTATCTCCCTGAAGTTGCA
66 GTGGAGCAGATTAAA-AACA-CAGACCCTATCTCCCTGAAGTTGCA
30538118 GTGGAGTGGA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
126 87 0.98
127 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (126 bp):
TCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAAGAAACCAATCCTATCTCCCTAAAGTTATA
GTGGAGCAGATTAAAAACACAGACCCTATCTCCCTGAAGTTGCAAAGAGTAGATCGCATAG
Found at i:30538148 original size:44 final size:43
Alignment explanation
Indices: 30537709--30538169 Score: 230
Period size: 44 Copynumber: 10.7 Consensus size: 43
30537699 AAAGATGACG
* * * ** *
30537709 AATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* ** * * * * *
30537753 AATCCTATCTCTTTAAAGTTACAATGGAGCGGGTTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * ***
30537796 AAATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATC-C
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * * *
30537837 AGTCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAATAAAC-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCAC
*
30537881 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAATC-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AATCAC
* * * * *
30537925 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
** * * *
30537968 AGATCTTATCTCTTTGAAGTTGCA----A--AGAGT-AGATCGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * *
30538005 ATAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAATAAAC-C
1 A-A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCAC
** * *
30538051 AATCTTATCTCCCTGAAGTTATAGTGGAGCATATTAAAGA-AACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-C
* * **
30538095 AACCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
** * *
30538138 AGATCTTATCTTTCTGAAGTTGTAGTAGAGCA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCA
30538170 ATCGTATCCA
Statistics
Matches: 308, Mismatches: 86, Indels: 46
0.70 0.20 0.10
Matches are distributed among these distances:
37 6 0.02
38 21 0.07
40 22 0.07
41 7 0.02
42 10 0.03
43 17 0.06
44 219 0.71
45 1 0.00
46 3 0.01
47 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
Found at i:30538347 original size:89 final size:89
Alignment explanation
Indices: 30538185--30538405 Score: 289
Period size: 89 Copynumber: 2.5 Consensus size: 89
30538175 ATCCAACCTA
* * * * * * * *
30538185 GCCTTCCTGAGTATGCAGCGGAGTAGACTGACGATAGCAGATCTTGTCTTTCTATATTGGCAGCG
1 GCCTCCCTGAGTTTGTAGCAGAGCAGAATGAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCG
* * *
30538250 AAGCAGATCGAAGACACTATCCTT
66 AAACAGATCGAAGACACCAGCCTT
* *
30538274 GCCTCCCTGAGTTTGTAGCAGAGCAGAATGAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 GCCTCCCTGAGTTTGTAGCAGAGCAGAATGAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCG
*
30538339 AAATAGATCGAAGACACCAGCCTT
66 AAACAGATCGAAGACACCAGCCTT
* * *
30538363 GCCTCCCTGATTTTGTAGCGGAGCAGACTGAAGATAGCAGATC
1 GCCTCCCTGAGTTTGTAGCAGAGCAGAATGAAGATAGCAGATC
30538406 GAAAACACCA
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 114 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (89 bp):
GCCTCCCTGAGTTTGTAGCAGAGCAGAATGAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCG
AAACAGATCGAAGACACCAGCCTT
Found at i:30538463 original size:58 final size:58
Alignment explanation
Indices: 30538342--30538463 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
30538332 GGCAGCGAAA
* * * *
30538342 TAGATCGAAGACACCAGCCTTGCCTCCCTGATTTTGTAGCGGAGCAGACTGAAGATAG
1 TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
* * * * ** *
30538400 CAGATCGAAAACACCAACCTTGCCTCTCTGAGTTTGCAGTGGAGTAGGTTGAAGATTG
1 TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
30538458 TAGATC
1 TAGATC
30538464 TTGTCTTCCT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (58 bp):
TAGATCGAAAACACCAACCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAG
Found at i:30539144 original size:22 final size:22
Alignment explanation
Indices: 30539084--30539141 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
30539074 AATCTTCAAG
30539084 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
30539103 GATATGCAATTTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
30539125 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
30539142 GATTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.39
22 8 0.26
23 11 0.35
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:30543416 original size:50 final size:47
Alignment explanation
Indices: 30543357--30543517 Score: 157
Period size: 47 Copynumber: 3.3 Consensus size: 47
30543347 TAGTGAGTGT
* *
30543357 GCCAGTGTAAGACTATGTCTGGGGCATGGCATCGGCACG-GACTAAGGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGA-T---GAGA
* * *
30543407 GCCAGTGTAAAACCATGT-TCGGGACATGGCATCGGCTCGAGATGAGC
1 GCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCACGAGATGAGA
* * *
30543454 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGAGA
*
30543502 TCCCA-TGTAAGACCAT
1 -GCCAGTGTAAGACCAT
30543518 ATATAGGATA
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
47 35 0.37
48 19 0.20
49 4 0.04
50 34 0.36
51 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.20
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGA
Found at i:30543469 original size:47 final size:48
Alignment explanation
Indices: 30543357--30543491 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 48
30543347 TAGTGAGTGT
* *
30543357 GCCAGTGTAAGACTATGTCTGGGGCATGGCATCGGCACGGACTAAGGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACT-A-GAGA
* * *
30543407 GCCAGTGTAAAACCATGT-TCGGGACATGGCATCGGCTCGAGA-T-GAGC
1 GCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCACG-GACTAGAGA
*
30543454 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
30543492 CGATATGTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
47 36 0.49
48 1 0.01
49 1 0.01
50 34 0.46
51 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACTAGAGA
Found at i:30546348 original size:20 final size:19
Alignment explanation
Indices: 30546325--30546367 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
30546315 AATTTAGTCT
*
30546325 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAA-A
*
30546345 TTTTTGTTTTTAATTTAAA
1 TTTTTATTTTTAATTTAAA
30546364 TTTT
1 TTTT
30546368 ACATTCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTTAATTTAAA
Found at i:30551646 original size:42 final size:42
Alignment explanation
Indices: 30551566--30551647 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
30551556 CATTTTCTCT
* **
30551566 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
30551608 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
30551648 CACACCAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:30557978 original size:11 final size:11
Alignment explanation
Indices: 30557962--30557986 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30557952 GTCAAAAAAT
30557962 TTATTTTAATA
1 TTATTTTAATA
30557973 TTATTTTAATA
1 TTATTTTAATA
30557984 TTA
1 TTA
30557987 AAGCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:30560647 original size:22 final size:22
Alignment explanation
Indices: 30560622--30560663 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
30560612 TGATGTTGGT
30560622 GATATTTTTAATTAATTAATTA
1 GATATTTTTAATTAATTAATTA
30560644 GATATTTTTAATTAATTAAT
1 GATATTTTTAATTAATTAAT
30560664 ATTTTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
GATATTTTTAATTAATTAATTA
Found at i:30560656 original size:18 final size:17
Alignment explanation
Indices: 30560633--30560668 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
30560623 ATATTTTTAA
30560633 TTAATTAATTAGATATTT
1 TTAATTAATTA-ATATTT
30560651 TTAATTAATTAATATTT
1 TTAATTAATTAATATTT
30560668 T
1 T
30560669 ACTAAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAATTAATTAATATTT
Found at i:30561891 original size:21 final size:22
Alignment explanation
Indices: 30561864--30561928 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
30561854 ATGTTTTAGG
30561864 TTCAGGCACTATATGTGTCGTA
1 TTCAGGCACTATATGTGTCGTA
* **
30561886 TT-AGGCACCACGTGTGTCGT-
1 TTCAGGCACTATATGTGTCGTA
*
30561906 TTCAGGCACTTTATGTGTCGTA
1 TTCAGGCACTATATGTGTCGTA
30561928 T
1 T
30561929 ACTGCTTCTG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (22 bp):
TTCAGGCACTATATGTGTCGTA
Found at i:30562185 original size:23 final size:23
Alignment explanation
Indices: 30562158--30562235 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
30562148 GGCTTTGCCG
*
30562158 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
30562181 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
30562204 ATCATGCGCTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
30562227 TTCAGGCAC
1 ATCAGGCAC
30562236 CTCGTGCGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:30562246 original size:23 final size:22
Alignment explanation
Indices: 30562220--30562270 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
30562210 CGCTTTATGT
30562220 GTCGTATTTCAGGCACCTCGTGC
1 GTCGTA-TTCAGGCACCTCGTGC
*
30562243 GTCGTA-TCAGGCACCTCGTGT
1 GTCGTATTCAGGCACCTCGTGC
30562264 GTCGTAT
1 GTCGTAT
30562271 ATTGATCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 20 0.77
23 6 0.23
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.31
Consensus pattern (22 bp):
GTCGTATTCAGGCACCTCGTGC
Found at i:30571808 original size:224 final size:225
Alignment explanation
Indices: 30571371--30571808 Score: 512
Period size: 224 Copynumber: 2.0 Consensus size: 225
30571361 CAATACAACC
* *
30571371 CTAAAAAGCTAATATACTAAAAAAGACTTAAACTAGTACACTTGGTTCAAATAGGCTCTTATGTT
1 CTAAAAAGCTAATATACTAAAAAAGACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGTT
* * * * * **
30571436 TTTTTTGGTAACTAAATAACTCCTAAACTTTTATTTTTATTCATGTAAACCCTTAGTTTTAACTA
66 TTTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACTA
* *
30571501 AAAATACTTTCGGAGAAACTCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGTTATCAA
131 AAAATACTTTCGGAGAAACCCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGCTATCAA
* *
30571566 TATTCGATTTTTGTTTTTTCTATTATAGAG
196 TATTCGATCTTGGTTTTTTCTATTATAGAG
* * * * * *
30571596 CTAAAAGGCTAATGTACTAAAGAAGGCCTTAAACTAGTACACTTTGTTTAAATAAGCCCTTATG-
1 CTAAAAAGCTAATATACTAAA-AAAGACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGT
* * * *
30571660 TTTTTGT-ATAACTAAATAAGTCCTATACTTTGATATTTATTCATGTAAGCCCTTA-CTAAAAGT
65 TTTTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACT
* * * * *
30571723 AAAACT-CTTTTTGGAGAAACCCAAATACCAAGTTACAA-CTACTGTTC-ATGAGATATTCAGCT
130 AAAAATAC-TTTCGGAGAAACCC-AATACCAAGTTACAATC-AATATTCTA-GAGATATTAAGCT
*
30571785 GTCAATATT-GAATCTTGGTTTTTT
191 ATCAATATTCG-ATCTTGGTTTTTT
30571809 TTTTTAATTT
Statistics
Matches: 178, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
222 1 0.01
223 24 0.13
224 92 0.52
225 25 0.14
226 36 0.20
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (225 bp):
CTAAAAAGCTAATATACTAAAAAAGACTTAAACTAGTACACTTGGTTCAAATAAGCCCTTATGTT
TTTTGTGATAACTAAATAACTCCTAAACTTTGATATTTATTCATGTAAACCCTTAGCTAAAACTA
AAAATACTTTCGGAGAAACCCAATACCAAGTTACAATCAATATTCTAGAGATATTAAGCTATCAA
TATTCGATCTTGGTTTTTTCTATTATAGAG
Found at i:30573591 original size:13 final size:13
Alignment explanation
Indices: 30573575--30573600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30573565 TTTTTAATTT
30573575 TCTATAATTTATA
1 TCTATAATTTATA
30573588 TCTATAATTTATA
1 TCTATAATTTATA
30573601 ACATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TCTATAATTTATA
Found at i:30573919 original size:5 final size:5
Alignment explanation
Indices: 30573871--30573903 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
30573861 AAATAAATAA
30573871 TAATT TAATT TAATT TAATT TAATT TAATT TAA
1 TAATT TAATT TAATT TAATT TAATT TAATT TAA
30573904 AAAACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TAATT
Found at i:30574564 original size:21 final size:20
Alignment explanation
Indices: 30574526--30574565 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30574516 TTTTGTCTTA
*
30574526 TATAGTTTTAATATATTAAT
1 TATAGTTTTAACATATTAAT
30574546 TATAGTTTTAAACATATTAA
1 TATAGTTTT-AACATATTAA
30574566 GCATATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATAGTTTTAACATATTAAT
Found at i:30582151 original size:15 final size:16
Alignment explanation
Indices: 30582116--30582154 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
30582106 TAAAGGACTT
*
30582116 AAGGATTAGTGCATGAA
1 AAGG-TTAGTGCATAAA
30582133 AAGGTTAGT-CATAAA
1 AAGGTTAGTGCATAAA
30582148 AAGGTTA
1 AAGGTTA
30582155 TGTTGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (16 bp):
AAGGTTAGTGCATAAA
Found at i:30586626 original size:43 final size:43
Alignment explanation
Indices: 30586570--30586692 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
30586560 ATTTCATGTC
*
30586570 AGACCAT-GCCTGGGCTATTGGCATTGATTTGAGATTTCGTATA
1 AGACCATAG-CTGGGCTATTGGCATCGATTTGAGATTTCGTATA
*
30586613 AGACCATAGCTGGGCTATTGGCATCGATTTGAGATTTCGTGTA
1 AGACCATAGCTGGGCTATTGGCATCGATTTGAGATTTCGTATA
**
30586656 AGACCATAGCTGGGCTATTGGCATCGATACGAGATTT
1 AGACCATAGCTGGGCTATTGGCATCGATTTGAGATTT
30586693 TCATGTCTGG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 74 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
AGACCATAGCTGGGCTATTGGCATCGATTTGAGATTTCGTATA
Found at i:30587423 original size:21 final size:22
Alignment explanation
Indices: 30587397--30587443 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
30587387 TTCTCTTTTC
30587397 CATTTT-GTTCTTTTTCTGATT
1 CATTTTCGTTCTTTTTCTGATT
* *
30587418 CATTTTCTTTCTTTTTCTGTTT
1 CATTTTCGTTCTTTTTCTGATT
30587440 CATT
1 CATT
30587444 ATTAATCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.68
Consensus pattern (22 bp):
CATTTTCGTTCTTTTTCTGATT
Found at i:30588040 original size:3 final size:3
Alignment explanation
Indices: 30588034--30588100 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
30588024 ATTAATCAAT
30588034 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30588082 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
30588101 CATTGTATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30591616 original size:18 final size:18
Alignment explanation
Indices: 30591580--30591617 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30591570 CCTTTAACAT
*
30591580 TTTTTTTCCTTCTTTTTC
1 TTTTTTTCCTCCTTTTTC
30591598 TTTTTTTCC-CCTTTCTTC
1 TTTTTTTCCTCCTTT-TTC
30591616 TT
1 TT
30591618 CCTTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTCCTCCTTTTTC
Found at i:30593650 original size:27 final size:27
Alignment explanation
Indices: 30593600--30593652 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30593590 TTTTTATATC
* *
30593600 ATAAAATTAAAATTAATTATAAATTAA
1 ATAAAAATAAAATTAATTAGAAATTAA
30593627 ATAAAAATAAAATTTAATT-GAAATTA
1 ATAAAAATAAAA-TTAATTAGAAATTA
30593653 TACTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATAAAAATAAAATTAATTAGAAATTAA
Found at i:30594379 original size:8 final size:8
Alignment explanation
Indices: 30594368--30594394 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30594358 CCTTTATTAA
30594368 TTTAAAAT
1 TTTAAAAT
30594376 TTTAAAAT
1 TTTAAAAT
30594384 TTTAAAAT
1 TTTAAAAT
30594392 TTT
1 TTT
30594395 TTAAAGAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:30595785 original size:15 final size:15
Alignment explanation
Indices: 30595765--30595793 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30595755 ATCAAAAATG
30595765 TTATTAAATTATATA
1 TTATTAAATTATATA
30595780 TTATTAAATTATAT
1 TTATTAAATTATAT
30595794 TTAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTAAATTATATA
Found at i:30595836 original size:26 final size:25
Alignment explanation
Indices: 30595766--30595836 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
30595756 TCAAAAATGT
* *
30595766 TATTAAATTATATATTATTAAATTA
1 TATTAAATTATTTATTATTAAAATA
* *
30595791 TATTTAATAATAATTA-TATTAAAATA
1 TA-TTAA-ATTATTTATTATTAAAATA
30595817 TGATTAAATTATTTATTATT
1 T-ATTAAATTATTTATTATT
30595837 TATTTATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
25 8 0.22
26 22 0.61
27 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
TATTAAATTATTTATTATTAAAATA
Found at i:30596041 original size:16 final size:16
Alignment explanation
Indices: 30596017--30596051 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30596007 TGAATTACTG
* *
30596017 ATTATAGCTCTATTTC
1 ATTACAGCTCTATTCC
30596033 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
30596049 ATT
1 ATT
30596052 TCAATCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:30596752 original size:19 final size:18
Alignment explanation
Indices: 30596706--30596755 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
30596696 TGAGATTCTA
*
30596706 ATATTTAAATTTACTAAT
1 ATATTTAAATTTAGTAAT
*
30596724 ATA--GAAATTTAGTAAT
1 ATATTTAAATTTAGTAAT
30596740 ATAATTTAAATTTAGT
1 AT-ATTTAAATTTAGT
30596756 GAACCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 3 0.12
19 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (18 bp):
ATATTTAAATTTAGTAAT
Found at i:30604115 original size:16 final size:16
Alignment explanation
Indices: 30604094--30604129 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
30604084 TTTGGTTCGC
30604094 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30604110 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30604126 TGTA
1 TGTA
30604130 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:30604386 original size:18 final size:17
Alignment explanation
Indices: 30604365--30604399 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30604355 TTATTATTAA
*
30604365 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30604383 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30604400 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30604548 original size:14 final size:15
Alignment explanation
Indices: 30604501--30604550 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
30604491 TTAATCATAT
* * *
30604501 TTAAACATATTTTTA
1 TTAAATATATTATAA
30604516 TTAAATATATTATAA
1 TTAAATATATTATAA
30604531 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
30604544 TTTAATA
1 TTAAATA
30604551 AAATTCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 9 0.30
14 4 0.13
15 17 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:30604564 original size:156 final size:156
Alignment explanation
Indices: 30604252--30604566 Score: 533
Period size: 156 Copynumber: 2.0 Consensus size: 156
30604242 TAGAATACCC
*
30604252 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * ** *
30604317 TTATCAGTAATAATTTTTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
30604382 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
30604408 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
30604473 ATATCAATAATAAATAATTTAATCATATTTAAACAT-ATTTTTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
30604537 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
30604564 TTA
1 TTA
30604567 ATATTCTTAT
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 48 0.32
156 101 0.68
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:30604645 original size:120 final size:121
Alignment explanation
Indices: 30604499--30604788 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 121
30604489 ATTTAATCAT
* *
30604499 ATTTAAACAT-ATTTTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
30604563 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
*
30604620 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATGTATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
30604683 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * *
30604739 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
30604789 AATAATTTAA
Statistics
Matches: 159, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
119 12 0.08
120 144 0.91
121 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:30604882 original size:24 final size:25
Alignment explanation
Indices: 30604836--30604883 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30604826 TATGAATTTG
30604836 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
30604862 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
30604884 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:30604888 original size:92 final size:92
Alignment explanation
Indices: 30604792--30605019 Score: 234
Period size: 92 Copynumber: 2.5 Consensus size: 92
30604782 GATTTAAAAT
* * *
30604792 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
*
30604854 TTATTACATATAATTTAATAATTAATATTA
64 -TATTAAATATAATTTAATAATTAATATTA
* * * * *
30604884 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
30604949 TTAAATATAATTTAAT-AGTGATA-TA
66 TTAAATATAATTTAATAATTAATATTA
* * *
30604974 TAATTTCATAAAATTCTTAATAATAAAATGT-TTTTATATGAATTTA
1 -AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
30605020 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 79 0.68
93 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTA
Found at i:30617882 original size:18 final size:18
Alignment explanation
Indices: 30617855--30617904 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
30617845 GACCATATCT
*
30617855 CCATCCTCATACACCAT-A
1 CCATCATCAT-CACCATCA
*
30617873 CCATCATCATCATCATCA
1 CCATCATCATCACCATCA
30617891 CCATCATCATCACC
1 CCATCATCATCACC
30617905 TGTATTAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (18 bp):
CCATCATCATCACCATCA
Found at i:30620817 original size:72 final size:72
Alignment explanation
Indices: 30620724--30620871 Score: 174
Period size: 72 Copynumber: 2.1 Consensus size: 72
30620714 CAACGACGCT
** * *
30620724 GTTTCCGAGCTTTTGGGGATTTAGC-GACGTTTTTAATTAAGCGCCACTAATAATCCTAAGCCAA
1 GTTTCCGAGCTTTTGGGGATTTAGCAG-CGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAA
30620788 ACGGTGCC
65 ACGGTGCC
* ** * *
30620796 GTTTCCGTAG-TTTTTGGGATTTAGCAGCGTTTTTGGGGAAGCGTCGCTAAAAACCCTAAGCCAA
1 GTTTCCG-AGCTTTTGGGGATTTAGCAGCGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAA
*
30620860 ACGGTGTC
65 ACGGTGCC
30620868 GTTT
1 GTTT
30620872 TCTCAGCTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
72 61 0.95
73 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (72 bp):
GTTTCCGAGCTTTTGGGGATTTAGCAGCGTTTTTAAGGAAGCGCCACTAAAAACCCTAAGCCAAA
CGGTGCC
Found at i:30621518 original size:22 final size:21
Alignment explanation
Indices: 30621469--30621522 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
30621459 GAATTTAAAG
* *
30621469 TTTAGGGGTTAGGTGTTATGC
1 TTTAGGGGTTAGGTGTTAGGA
30621490 TTTAGGGGTTAGG-GTTAAGGGA
1 TTTAGGGGTTAGGTGTT-A-GGA
30621512 TTTAGGGGTTA
1 TTTAGGGGTTA
30621523 CAGTTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 12 0.41
ACGTcount: A:0.19, C:0.02, G:0.41, T:0.39
Consensus pattern (21 bp):
TTTAGGGGTTAGGTGTTAGGA
Done.