Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000732.1 Hibiscus syriacus cultivar Beakdansim tig00001420_pilon, whole genome shotgun sequence
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: 168431
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6909 original size:35 final size:35
Alignment explanation
Indices: 6862--6931 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
6852 AAAGTAATCC
* *
6862 TCAATTTCATTCTTAACCCCACATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
6897 TCAATTAT-ATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATT-TCATTCTAAACCCCAAATTCCAAAATAAT
6932 CAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:7520 original size:35 final size:35
Alignment explanation
Indices: 7448--7521 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
7438 CAATATTATT
**
7448 TTGAAGTATTTTAGAATTTGAGGTTTAGAATGTAA
1 TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
* * * *
7483 TTGAATTATTTTGGAATTTGGGGTTTATAATAAAA
1 TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
7518 TTGA
1 TTGA
7522 GGGACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.45
Consensus pattern (35 bp):
TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
Found at i:11205 original size:28 final size:28
Alignment explanation
Indices: 11174--11232 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
11164 CAAAAAAAAT
* *
11174 GATATAACTA-AATTTTTTAAAATTTTGA
1 GATATAA-TACAATTTATTAAAAATTTGA
11202 GATATAATACGAATTTATTAAAAATTTGA
1 GATATAATAC-AATTTATTAAAAATTTGA
11231 GA
1 GA
11233 AGAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 7 0.26
29 18 0.67
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (28 bp):
GATATAATACAATTTATTAAAAATTTGA
Found at i:11568 original size:18 final size:19
Alignment explanation
Indices: 11533--11583 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
11523 TTAACTCTTC
11533 TAAAATGAAATATATATTA
1 TAAAATGAAATATATATTA
* *
11552 TAAAAT-AAATTTGTATTA
1 TAAAATGAAATATATATTA
* *
11570 TTAGATGAAA-ATAT
1 TAAAATGAAATATAT
11584 GAATTGCCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAAATGAAATATATATTA
Found at i:11817 original size:4 final size:4
Alignment explanation
Indices: 11804--11833 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11794 CTCTCAAGAG
11804 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11834 AAGAGGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:12681 original size:584 final size:584
Alignment explanation
Indices: 11882--13051 Score: 1873
Period size: 581 Copynumber: 2.0 Consensus size: 584
11872 CATGGATCAA
* * *
11882 GGGCAGACCTATGAGTAGCTCGGATAACCCCTCAAATTTCTCCGAATAGTGTTAATTTTTTATGA
1 GGGCAGACCTATGAGTAGCTCGGACAACCCCTCAAATTTCTCCGAATAATATTAA----TTAT-A
* *
11947 TTTTTTATCTAATATGAGTGCTACCCCTAACGAAAACGGACCTGTGATCTTGTGTTACTCAGTGT
61 TTTTTTATCTAATACGAGTGCTACCCCTAACGAAAACGGACATGTGATCTTGTGTTACTCAGTGT
12012 TAATTTTTTCTAATTTTTTTAATTAATACAAGTGTCACCCCTAATATTGTGCGTAACTGTTGCTT
126 TAATTTTTTCTAATTTTTTTAATTAATACAAGTGTCACCCCTAATATTGTGCGTAACTGTTGCTT
*
12077 TTTATTATATGAAAAAATTAATATCATATTTAAAATTTTTTAAAAAAAAT-ATCAAGCCCAAAAA
191 TTTATTATAGGAAAAAATTAATATCATATTTAAAA---TTT-AAAAAAATGATCAAGCCCAAAAA
12141 ACAAACCTTAAGCCCATGAATCAAGCACCTATTTTCAGTTTTATGGGAATTGAGATACGACAATT
252 ACAAACCTTAAGCCCATGAATCAAGCACCTATTTTCAGTTTTATGGGAATTGAGATACGACAATT
* * **
12206 GAAGATTAGAAGGGTTGTGCCTCTGTGGAAGTTGAAAACCTCGATTGAAGATTAGAAGGGCAACC
317 GAAGATTAGAAGGGTTATGCCTCTGTGAAAACTGAAAACCTCGATTGAAGATTAGAAGGGCAACC
*
12271 GTGAACTGCC-AGCAAGGGTTGTGCCACTGTGGTCTTGTGGAAACTCAACCCATCTTGGAAAGGC
382 GTGAACCGCCGA-CAAGGGTTGTGCCACTGTGGTCTTGTGGAAACTCAACCCATCTTGGAAAGGC
* * * *
12335 AAGGTCGTAAGGGCTGCCTCACTGCCTTCCTCGTGCGATTGAACTTTGAAGGGGAAGCCGACAGT
446 AAGGCCGCAAGGCCTGCCTCACTGCATTCCTCGTGCGATTGAACTTTGAAGGGGAAGCCGACAGT
* * *
12400 AGTCGATTGAACTTTGAACTTTTGAAGGGCAATGTGCATAGTGGAAACCTCGAAGACAGCAAGTG
511 AGTCGATTGAACTTTGAACTTTTGAAGGGCAAGGTGCAGAGTGAAAACCTCGAAGACAGCAAGTG
12465 GAATTGCAG
576 GAATTGCAG
* *
12474 GGGCAGACCTATGAGTAGCTCGGGCAACCCTTCAAATTTCTCCGAATAATATTAA-T-T-TTTTT
1 GGGCAGACCTATGAGTAGCTCGGACAACCCCTCAAATTTCTCCGAATAATATTAATTATATTTTT
* * * * *
12536 TATCTAATACGAGTGCTACCCTTATCTAAAATGGACATGTGATCTTGTGTTACTTAGTGTTAATT
66 TATCTAATACGAGTGCTACCCCTAACGAAAACGGACATGTGATCTTGTGTTACTCAGTGTTAATT
*
12601 TTTTCTAATTTTTTTAATTAATACAAGTGTCACCCCTAATATTGTGTGTAACTGTTGCTTTTTAT
131 TTTTCTAATTTTTTTAATTAATACAAGTGTCACCCCTAATATTGTGCGTAACTGTTGCTTTTTAT
*
12666 TATAGGAAAAAATTAATATCCTATTTAAAATTTAAAAAAATGATCAAGCCCAAAAAACAAACCTT
196 TATAGGAAAAAATTAATATCATATTTAAAATTTAAAAAAATGATCAAGCCCAAAAAACAAACCTT
* * *
12731 AAGCCCATGAATCAAGCACCTATTTTCAGTTTTGTGGGAATTGGGATACGATAATTGAAGATTAG
261 AAGCCCATGAATCAAGCACCTATTTTCAGTTTTATGGGAATTGAGATACGACAATTGAAGATTAG
*
12796 AAGGGTTATGCCTCTGTGAAAACTGAAAATCTCGATTGAAGATTAGAAGGGCAACCGTGAACCGC
326 AAGGGTTATGCCTCTGTGAAAACTGAAAACCTCGATTGAAGATTAGAAGGGCAACCGTGAACCGC
*
12861 CGACAAGGGTTGTGCCTCTGTGGTCTTGTGGAAACTCAACCCATCTTGGAAAGGCAAGGCCGCAA
391 CGACAAGGGTTGTGCCACTGTGGTCTTGTGGAAACTCAACCCATCTTGGAAAGGCAAGGCCGCAA
** * * *
12926 GGCCTGCCTCGTTGCATTCTTGGTGCGATTGAACTTTGAAGGGGAAGCTGACAGTAGTCGATTGA
456 GGCCTGCCTCACTGCATTCCTCGTGCGATTGAACTTTGAAGGGGAAGCCGACAGTAGTCGATTGA
*
12991 ACTTTGAACTTTTGAAGGGCAAGGTGCAGAGTGAAAACCTCGAAGACATCAAGTGGAATTG
521 ACTTTGAACTTTTGAAGGGCAAGGTGCAGAGTGAAAACCTCGAAGACAGCAAGTGGAATTG
13052 TGGAAGGGGC
Statistics
Matches: 538, Mismatches: 38, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
580 8 0.01
581 322 0.60
582 1 0.00
584 155 0.29
586 1 0.00
587 1 0.00
592 50 0.09
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (584 bp):
GGGCAGACCTATGAGTAGCTCGGACAACCCCTCAAATTTCTCCGAATAATATTAATTATATTTTT
TATCTAATACGAGTGCTACCCCTAACGAAAACGGACATGTGATCTTGTGTTACTCAGTGTTAATT
TTTTCTAATTTTTTTAATTAATACAAGTGTCACCCCTAATATTGTGCGTAACTGTTGCTTTTTAT
TATAGGAAAAAATTAATATCATATTTAAAATTTAAAAAAATGATCAAGCCCAAAAAACAAACCTT
AAGCCCATGAATCAAGCACCTATTTTCAGTTTTATGGGAATTGAGATACGACAATTGAAGATTAG
AAGGGTTATGCCTCTGTGAAAACTGAAAACCTCGATTGAAGATTAGAAGGGCAACCGTGAACCGC
CGACAAGGGTTGTGCCACTGTGGTCTTGTGGAAACTCAACCCATCTTGGAAAGGCAAGGCCGCAA
GGCCTGCCTCACTGCATTCCTCGTGCGATTGAACTTTGAAGGGGAAGCCGACAGTAGTCGATTGA
ACTTTGAACTTTTGAAGGGCAAGGTGCAGAGTGAAAACCTCGAAGACAGCAAGTGGAATTGCAG
Found at i:16844 original size:15 final size:16
Alignment explanation
Indices: 16826--16859 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
16816 AAAATAATTG
16826 ATAAATAA-ATAAAAT
1 ATAAATAATATAAAAT
16841 ATAAATAATTATAAAAT
1 ATAAATAA-TATAAAAT
16858 AT
1 AT
16860 CTAAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAATAATATAAAAT
Found at i:18222 original size:5 final size:5
Alignment explanation
Indices: 18212--18242 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
18202 AATAGACTTT
*
18212 ATAAA ATAAA ATAAA ATAAA ATAAA ACAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
18243 AGCTCCCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:24191 original size:22 final size:22
Alignment explanation
Indices: 24166--24216 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
24156 TTTTTCTTGT
* *
24166 CTGCCTCTATAAAGCCTTTTGG
1 CTGCCTCTATAAAGCCTTCTAG
24188 CTGCCTCTATAAAGCCTTCTAG
1 CTGCCTCTATAAAGCCTTCTAG
24210 CTGCCTC
1 CTGCCTC
24217 ATGTAGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (22 bp):
CTGCCTCTATAAAGCCTTCTAG
Found at i:31502 original size:30 final size:30
Alignment explanation
Indices: 31468--31527 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
31458 TACAGTGACA
31468 CCATAAGTCTCCAGGAGCACACGACGACCT
1 CCATAAGTCTCCAGGAGCACACGACGACCT
* *
31498 CCATAGGTCTCCAGGAGCACACGGCGACCT
1 CCATAAGTCTCCAGGAGCACACGACGACCT
31528 ATGGAGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.37, G:0.23, T:0.13
Consensus pattern (30 bp):
CCATAAGTCTCCAGGAGCACACGACGACCT
Found at i:31535 original size:19 final size:19
Alignment explanation
Indices: 31521--31583 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
31511 GGAGCACACG
31521 GCGACCTATGGAGCACTTA
1 GCGACCTATGGAGCACTTA
*
31540 GCGACCTATGAAGCACTTA
1 GCGACCTATGGAGCACTTA
* *
31559 GCGACCTATGGAGGACTTG
1 GCGACCTATGGAGCACTTA
31578 GCGACC
1 GCGACC
31584 AATGAAGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.19
Consensus pattern (19 bp):
GCGACCTATGGAGCACTTA
Found at i:31564 original size:38 final size:40
Alignment explanation
Indices: 31521--31600 Score: 119
Period size: 38 Copynumber: 2.0 Consensus size: 40
31511 GGAGCACACG
*
31521 GCGACCTATGGAGCACTTAGCGACCTATGAAG-CACT-TA
1 GCGACCTATGGAGCACTTAGCGACCAATGAAGTCACTGTA
* *
31559 GCGACCTATGGAGGACTTGGCGACCAATGAAGTCACTGTA
1 GCGACCTATGGAGCACTTAGCGACCAATGAAGTCACTGTA
31599 GC
1 GC
31601 AAACACCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 29 0.78
39 4 0.11
40 4 0.11
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (40 bp):
GCGACCTATGGAGCACTTAGCGACCAATGAAGTCACTGTA
Found at i:33553 original size:22 final size:22
Alignment explanation
Indices: 33500--33554 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
33490 TTTCATAAAT
*
33500 ATTAT-ATTATATTTTAATTAA
1 ATTATAATTATATTTTAACTAA
* *
33521 ATTACATTTATATTTTAACTAA
1 ATTATAATTATATTTTAACTAA
*
33543 TTTATAATTATA
1 ATTATAATTATA
33555 CGTTTAGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATAATTATATTTTAACTAA
Found at i:41203 original size:3 final size:3
Alignment explanation
Indices: 41197--41291 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
41187 TTTTTATCCA
*
41197 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
41245 TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
41292 AATATATATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:41318 original size:14 final size:15
Alignment explanation
Indices: 41290--41324 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
41280 TTATTATTAT
41290 TAAATATATATTAAA
1 TAAATATATATTAAA
41305 TAAATATATA-TAAA
1 TAAATATATATTAAA
41319 TAAATA
1 TAAATA
41325 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:41695 original size:18 final size:18
Alignment explanation
Indices: 41661--41698 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41651 ACCTGAAAAA
*
41661 AAAAAAAAACGGGGACAG
1 AAAAAAAAACGGAGACAG
41679 AAAAAAAAA-GAGAGACAG
1 AAAAAAAAACG-GAGACAG
41697 AA
1 AA
41699 CCGAAGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACGGAGACAG
Found at i:50450 original size:10 final size:11
Alignment explanation
Indices: 50429--50458 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
50419 GCAATCATTC
50429 TTTACATTTTT
1 TTTACATTTTT
50440 TTTAC-TTTTT
1 TTTACATTTTT
50450 TTTACATTT
1 TTTACATTT
50459 ATTTCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTACATTTTT
Found at i:54006 original size:27 final size:27
Alignment explanation
Indices: 53968--54019 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 27
53958 TATGCTTGAA
53968 GAAAAGAAAGAAAAAGAAAAA-AAAAGG
1 GAAAAGAAAG-AAAAGAAAAAGAAAAGG
53995 GAAAA-AAGAGAAAAGAAAAAGAAAA
1 GAAAAGAA-AGAAAAGAAAAAGAAAA
54020 AGGAGGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (27 bp):
GAAAAGAAAGAAAAGAAAAAGAAAAGG
Found at i:54008 original size:7 final size:6
Alignment explanation
Indices: 53974--54021 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
53964 TGAAGAAAAG
*
53974 AAAGAA AAAGAA AAA-AA AAGGGAAA AAAGAGA AAAGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AA-AG-AA AAAGA-A AAAGAA AAAGAA AAAG
54022 GAGGGTCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 21 0.58
7 7 0.19
8 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:54013 original size:13 final size:12
Alignment explanation
Indices: 53974--54021 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
53964 TGAAGAAAAG
53974 AAAGAAAAAGAA
1 AAAGAAAAAGAA
*
53986 AAA-AAAAGGGAAA
1 AAAGAAAA-AG-AA
53999 AAAGAGAAAAGAA
1 AAAGA-AAAAGAA
54012 AAAGAAAAAG
1 AAAGAAAAAG
54022 GAGGGTCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.13
12 9 0.30
13 12 0.40
14 2 0.07
15 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAA
Found at i:54017 original size:11 final size:10
Alignment explanation
Indices: 53969--54020 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
53959 ATGCTTGAAG
*
53969 AAAAGAAAGA
1 AAAAGAAAAA
53979 AAAAGAAAAA
1 AAAAGAAAAA
*
53989 AAAAGGGAAAA
1 AAAA-GAAAAA
*
54000 AAGAGAAAAGA
1 AAAAGAAAA-A
54011 AAAAGAAAAA
1 AAAAGAAAAA
54021 GGAGGGTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:55283 original size:83 final size:83
Alignment explanation
Indices: 55135--55548 Score: 724
Period size: 83 Copynumber: 5.0 Consensus size: 83
55125 TATGATATCC
* * *
55135 CAGAA-CAAACATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
*
55199 TTATCAGATCTGGTTTGG
66 TTATCTGATCTGGTTTGG
* *
55217 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTAGAAGTGTTGTTTGAG
1 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
55282 TTATCTGATCTGGTTTGG
66 TTATCTGATCTGGTTTGG
55300 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
55365 TTATCTGATCTGGTTTGG
66 TTATCTGATCTGGTTTGG
55383 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
55448 TTATCTGATCTGG-TTGG
66 TTATCTGATCTGGTTTGG
* *
55465 ACAGAACCAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 -CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGA
*
55530 GTTATCTGATCTAGTTTGG
65 GTTATCTGATCTGGTTTGG
55549 TAGGAACTAC
Statistics
Matches: 320, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 9 0.03
83 307 0.96
84 4 0.01
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (83 bp):
CAGAACCAATCATTGAATTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTTGG
Found at i:56486 original size:113 final size:113
Alignment explanation
Indices: 56281--57287 Score: 1641
Period size: 113 Copynumber: 8.9 Consensus size: 113
56271 ATTCAAATCT
*
56281 ATCATTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
56346 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* * *
56394 ATCACTGGATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
56459 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTTGGTTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTT-ATCTGAATTC
* * * * * *
56509 ATCATTTGATGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
*
56573 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
*
56625 ATCACTTGATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
56690 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* *
56738 ATCACTAGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
56803 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
*
56851 ATCACTTGATGGATTAT-TTTTGCCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGA
1 ATCACTTGATGGATTATCTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
56915 AGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACCTTTTA-CTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
*
56962 ATCACTTGATGGATCATC-TTTCCAGAGAAAGTT-ATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
57025 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* *
57073 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
57138 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* *
57186 ATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
57250 GAAGAAGTTCATAATAAGAAGAATTTATTCAACCTTTT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
57288 GAATGACTCT
Statistics
Matches: 837, Mismatches: 44, Indels: 27
0.92 0.05 0.03
Matches are distributed among these distances:
109 52 0.06
110 27 0.03
111 52 0.06
112 105 0.13
113 446 0.53
114 8 0.01
115 45 0.05
116 47 0.06
117 8 0.01
118 47 0.06
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
ATCACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
Found at i:57093 original size:335 final size:338
Alignment explanation
Indices: 56281--57289 Score: 1643
Period size: 335 Copynumber: 3.0 Consensus size: 338
56271 ATTCAAATCT
*
56281 ATCATTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
56346 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTAT
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTAGATGGATCAT
* * *
56411 TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATAA
130 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * ***
56476 GAAGAATTTGTTCAACCTTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAGA
195 GAAGAATTTGTTCAACC-TTTT-ATCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAA-A
* *
56540 GTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
257 GTTCATAATGAGAAGAA---ATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
*
56605 TCAACCTTTTGTCTGAATTC
319 TCAACCTTTTGACTGAATTC
*
56625 ATCACTTGATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTA-TCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
56690 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCACTAGATGGATCAT
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTAGATGGATCAT
56755 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
130 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
56820 GAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTT
195 GAAGAATTTGTTCAACCTTTTATCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAAGTT
56885 CATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACC
260 CATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC
56949 TTTT-ACTGAATTC
325 TTTTGACTGAATTC
*
56962 ATCACTTGATGGATCATCTTTCCAGAGAAAGTT-ATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
57026 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCATC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTAGATGGATCATC
57091 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
131 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
*
57156 AAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATCTTTT-CCAGAG-AAGTT
196 AAGAATTTGTTCAACCTTTTATCTGAATTCATCAATTGATGGATTAT-TTTTGCCAGAGAAAGTT
* * * *
57219 CATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTATTCAACC
260 CATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC
57284 TTTTGA
325 TTTTGA
57290 ATGACTCTAT
Statistics
Matches: 630, Mismatches: 30, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
334 56 0.09
335 222 0.35
336 21 0.03
337 23 0.04
338 14 0.02
339 38 0.06
342 47 0.07
343 7 0.01
344 201 0.32
345 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (338 bp):
ATCACTTGATGGATTATCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTAGATGGATCATC
TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTATCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAAGTTC
ATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT
TTTGACTGAATTC
Found at i:57612 original size:3 final size:3
Alignment explanation
Indices: 57606--57718 Score: 208
Period size: 3 Copynumber: 37.7 Consensus size: 3
57596 TTTTTATCCA
57606 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
57654 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57702 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
57719 AATATATATT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 106 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:57745 original size:14 final size:15
Alignment explanation
Indices: 57717--57751 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
57707 TTATTATTAT
57717 TAAATATATATTAAA
1 TAAATATATATTAAA
57732 TAAATATATA-TAAA
1 TAAATATATATTAAA
57746 TAAATA
1 TAAATA
57752 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:66386 original size:23 final size:23
Alignment explanation
Indices: 66360--66406 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
66350 ATAAATTGAG
66360 TAAATTTTAAACTCATTGGACGA
1 TAAATTTTAAACTCATTGGACGA
* *
66383 TAAATTTTAAATTTATTGGACGA
1 TAAATTTTAAACTCATTGGACGA
66406 T
1 T
66407 TTTAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
TAAATTTTAAACTCATTGGACGA
Found at i:67255 original size:16 final size:16
Alignment explanation
Indices: 67214--67256 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
67204 CAGACTGCTA
* *
67214 AAATGAACTAAAATAT
1 AAATAAACTGAAATAT
67230 AAATAAACTGAAATAT
1 AAATAAACTGAAATAT
67246 AAATAAACTGA
1 AAATAAACTGA
67257 TTTTTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
AAATAAACTGAAATAT
Found at i:67310 original size:31 final size:31
Alignment explanation
Indices: 67274--67332 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
67264 AACTTAAAAG
* *
67274 AGTTTTACAATATTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
67305 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
67333 CTATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:67383 original size:22 final size:22
Alignment explanation
Indices: 67357--67399 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67347 TAATAAATTA
67357 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
67379 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67400 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:67408 original size:22 final size:22
Alignment explanation
Indices: 67359--67407 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
67349 ATAAATTATT
**
67359 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
67381 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
67404 TAAA
1 TAAA
67408 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:67411 original size:54 final size:54
Alignment explanation
Indices: 67347--68187 Score: 561
Period size: 54 Copynumber: 15.8 Consensus size: 54
67337 ACAACTACAA
67347 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
67401 TAATAAATTATTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
67458 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
67513 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * ** * ** * **
67561 AAATAAATTATTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
* *
67616 -AATACA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
67669 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
67723 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
67783 TAAAATAAATCAATTCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
67835 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
67889 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATTCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * ** **
67942 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** ** *
67996 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCACAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
68051 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * *
68099 TAATAAATTATTTAAAATAAATCAATTCATA--CT--AATAAAT-TAT--TTA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
68145 AAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
68188 TTTATTTTAA
Statistics
Matches: 636, Mismatches: 98, Indels: 109
0.75 0.12 0.13
Matches are distributed among these distances:
46 9 0.01
47 22 0.03
48 59 0.09
49 11 0.02
50 38 0.06
51 7 0.01
52 14 0.02
53 25 0.04
54 339 0.53
55 24 0.04
56 11 0.02
57 18 0.03
58 37 0.06
59 1 0.00
60 2 0.00
62 19 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:67452 original size:80 final size:80
Alignment explanation
Indices: 67362--67995 Score: 809
Period size: 80 Copynumber: 7.9 Consensus size: 80
67352 AATTATTTAA
67362 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
67427 CCATACAACTATAAT
66 CCATACAACTATAAT
67442 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
67507 CCATACAACTACAAT
66 CCATACAACTATAAT
*
67522 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
67587 CTAAACTAATA-AATTATTTAA-
66 C----C--ATACAACTA--TAAT
*
67608 AATAAATCAATACATATTTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
67663 CCATACTAA-TAAATTATTTAA
66 CCATAC-AACT--A-TA---AT
*
67684 AATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
67749 CCATACAACTACAAT
66 CCATACAACTATAAT
* *
67764 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
67829 CCATACTAA-TAAATTATTTAA
66 CCATAC-AACT--A-TA---AT
*
67850 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
67915 CCAT---ATTTTAA-
66 CCATACAACTATAAT
* *
67926 AATAAATAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
67991 CCATA
66 CCATA
67996 TTTTAAAATA
Statistics
Matches: 497, Mismatches: 21, Indels: 75
0.84 0.04 0.13
Matches are distributed among these distances:
70 3 0.01
71 1 0.00
72 6 0.01
73 1 0.00
75 1 0.00
76 115 0.23
77 2 0.00
78 1 0.00
79 1 0.00
80 218 0.44
81 2 0.00
82 5 0.01
83 4 0.01
84 3 0.01
85 7 0.01
86 125 0.25
87 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTATAAT
Found at i:67488 original size:22 final size:23
Alignment explanation
Indices: 67413--67487 Score: 89
Period size: 22 Copynumber: 3.2 Consensus size: 23
67403 ATAAATTATT
*
67413 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACTA--A
**
67438 TAATAATAAATCAATCCATA-TTT
1 TAA-AATAAATCAATCCATACTAA
67461 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
67484 TAAA
1 TAAA
67488 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:67568 original size:22 final size:22
Alignment explanation
Indices: 67495--67568 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
67485 AAATTATTTA
*
67495 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
67520 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
67542 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
67565 AAAT
1 AAAT
67569 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:67578 original size:14 final size:14
Alignment explanation
Indices: 67561--67614 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
67551 CAATCCATAC
67561 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
67575 AAATAAATCAATCTAA
1 AAATAAAT-TAT-TTA
67591 ACTAATAAATTATTTA
1 A--AATAAATTATTTA
67607 AAATAAAT
1 AAATAAAT
67615 CAATACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 2 0.06
16 6 0.19
17 2 0.06
18 7 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:67613 original size:22 final size:22
Alignment explanation
Indices: 67594--67662 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
67584 AATCTAAACT
67594 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
67616 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
**
67638 AATTCATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
67660 AAT
1 AAT
67663 CCATACTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 43 0.98
23 1 0.02
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:67727 original size:18 final size:20
Alignment explanation
Indices: 67601--68017 Score: 120
Period size: 22 Copynumber: 22.1 Consensus size: 20
67591 ACTAATAAAT
*
67601 TATTTAAAATAAATCAATACA
1 TATTT-AAATAAATCAATCCA
*
67622 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
67644 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
67666 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67679 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
67698 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
67720 TA-TT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67733 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
**
67752 TACAACTACAATAATAAATCAATCCA
1 T---A-T-TTA-AATAAATCAATCCA
*
67778 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
*
67800 TA--CAAATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67813 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
67832 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67845 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
67864 TATTTTAAAATAAATCAATCTA
1 TA-TTT-AAATAAATCAATCCA
*
67886 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67899 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
* *
67918 TATTTTAAAATAAATAAATTCA
1 TA-TTT-AAATAAATCAATCCA
67940 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
67962 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
67975 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
67994 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
68016 TA
1 TA
68018 CTAATAAATT
Statistics
Matches: 300, Mismatches: 32, Indels: 127
0.65 0.07 0.28
Matches are distributed among these distances:
13 13 0.04
14 43 0.14
15 6 0.02
17 6 0.02
18 43 0.14
19 12 0.04
20 5 0.02
21 10 0.03
22 141 0.47
23 3 0.01
24 1 0.00
25 2 0.01
26 15 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
TATTTAAATAAATCAATCCA
Found at i:67876 original size:166 final size:162
Alignment explanation
Indices: 67347--67995 Score: 855
Period size: 162 Copynumber: 4.0 Consensus size: 162
67337 ACAACTACAA
67347 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
67412 TTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCAT---ACTACAA-AATAAATAAATCCATATTTTAAAATAAATCAATCC
*
67477 ATACTAATAAATTATTTAAAATAAATCAATCCATAC
127 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
* *
67513 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
* * *
67571 TTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
65 TTTAAAATAAATCAATCCATACT-ACAAA--A--T-AAATAAATC----CATATTTTAAAATAAA
67636 TCAAT---T-C--AT--A-T-TTTAAAATAAATCAATCCATAC
120 TCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
67669 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
67734 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCAT---ACTACAA-AATAAATAAATCCATATTTTAAAATAAATCAATCC
67799 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
127 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
67835 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* ** *
67900 TTAAAATAAATCAATCCATATTTTAAAATAAATAAATTCATATTTTAAAATAAATCAATCCATAC
66 TTAAAATAAATCAATCCATACTACAAAATAAATAAATCCATATTTTAAAATAAATCAATCCATAC
*
67965 TAATAAATTATTTAAAATAAATCAATCCATA
131 AAATAAATTATTTAAAATAAATCAATCCATA
67996 TTTTAAAATA
Statistics
Matches: 430, Mismatches: 21, Indels: 68
0.83 0.04 0.13
Matches are distributed among these distances:
156 46 0.11
157 7 0.02
158 6 0.01
159 2 0.00
160 78 0.18
161 2 0.00
162 143 0.33
163 6 0.01
164 5 0.01
165 7 0.02
166 128 0.30
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (162 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACTACAAAATAAATAAATCCATATTTTAAAATAAATCAATCCATAC
AAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:67900 original size:296 final size:296
Alignment explanation
Indices: 67571--68152 Score: 1092
Period size: 296 Copynumber: 2.0 Consensus size: 296
67561 AAATAAATTA
67571 TTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
*
67636 TCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
66 TAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
67701 TTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
131 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAA
*
67766 TAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAATCC
196 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
67831 ATACTAATAAATTATTTAAAATAAATCAATCCATAT
261 ATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
67867 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
67932 TAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
66 TAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
67997 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAA
131 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAA
* *
68062 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTC
196 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
68127 ATACTAATAAATTATTTAAAATAAAT
261 ATACTAATAAATTATTTAAAATAAAT
68153 TATTTTAAAA
Statistics
Matches: 278, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
296 278 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (296 bp):
TTTAAAATAAATCAATCTAAACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
TAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
ATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:68008 original size:166 final size:164
Alignment explanation
Indices: 67647--67995 Score: 585
Period size: 166 Copynumber: 2.1 Consensus size: 164
67637 CAATTCATAT
67647 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
67712 TCAATCCATATTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AACTACAATAATAAATAAATCC
*
67777 ATATTTTAAAATAAATCAATTCATACAAATAAATTA
129 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
67813 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* * ** *
67878 TCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAA-AATAAATAAATTCAT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATAAATAAATCCAT
*
67941 ATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATTTTAAAATAAATCAATCCATACAAATAAATTA
67975 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67996 TTTTAAAATA
Statistics
Matches: 174, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
162 66 0.38
163 4 0.02
166 104 0.60
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (164 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATAAATAAATCCAT
ATTTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:68026 original size:22 final size:22
Alignment explanation
Indices: 67977--68025 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
67967 ATAAATTATT
**
67977 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
67999 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
68022 TAAA
1 TAAA
68026 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:68066 original size:242 final size:238
Alignment explanation
Indices: 67347--68187 Score: 962
Period size: 242 Copynumber: 3.5 Consensus size: 238
67337 ACAACTACAA
* *
67347 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTAT
*
67412 TTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCAT---A-TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCC
67477 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
126 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
* *
67542 AAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTAAAC
191 AAAATAAATCAATCCATACAAATAAA-TA-TT-AAATAAATCAATCCATAC
**
67593 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATTCATATTTTAAAATAAA
1 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAA-TC-TATACT--AATAAA
* ** * * *
67658 TCAATCCATACT-AATAAAT---TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
62 T-TATTTAAAATAAATCAATCCATATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
67719 ATATTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
126 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
*
67784 AAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAATCCATAC
191 AAAATAAATCAATCCATACAAATAAA-TA-TT-AAATAAATCAATCCATAC
*
67835 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTAT
* *
67900 TTAAAATAAATCAATCCATATTTTAAAATAAATAAATTCATATTTTAAAATAAATCAATCCATAC
66 TTAAAATAAATCAATCCATA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * * *
67965 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
130 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
* * *
68029 TTTAAAATAAATCAATCCACACAACTACA-A-T-AATAAATCAATCCATA-
188 TTTAAAATAAATCAATCCATACAAATAAATATTAAATAAATCAATCCATAC
** * ** * ** *
68076 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAAT-TCATACTAATAAA
1 TAATAAATTATTTAAAATAAAT-C-AATACATAT-TTTAAAATAAATCAATCT-ATACTAATAAA
*
68138 TTATTTAAAATAAAT---T--AT-TTTAAAATAAATCAATCCATATTTTATAATAA
62 TTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATCCATATTTTAAAATAA
68188 TTTATTTTAA
Statistics
Matches: 523, Mismatches: 51, Indels: 53
0.83 0.08 0.08
Matches are distributed among these distances:
235 29 0.06
237 7 0.01
238 13 0.02
239 1 0.00
240 9 0.02
241 20 0.04
242 337 0.64
243 5 0.01
244 4 0.01
246 48 0.09
247 4 0.01
248 28 0.05
250 13 0.02
251 5 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (238 bp):
TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCTATACTAATAAATTAT
TTAAAATAAATCAATCCATATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
AAATCAATCCATACAAATAAATATTAAATAAATCAATCCATAC
Found at i:68106 original size:22 final size:22
Alignment explanation
Indices: 68031--68105 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
68021 ATAAATTATT
* *
68031 TAAAATAAATCAATCCACACAA
1 TAAAATAAATCAATCCATATAA
**
68053 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
68079 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
68102 TAAA
1 TAAA
68106 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:68135 original size:18 final size:18
Alignment explanation
Indices: 68082--68138 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
68072 CATATTTTAA
*
68082 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
68100 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
68114 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
68132 AATAAAT
1 AATAAAT
68139 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
17 4 0.13
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:68161 original size:15 final size:15
Alignment explanation
Indices: 68100--68279 Score: 175
Period size: 15 Copynumber: 11.5 Consensus size: 15
68090 AATCCATACT
68100 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
68114 AATAAATCAATTCATACT
1 AATAAAT-TATT-TTA-A
68132 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
68146 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
68161 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
68183 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
68198 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
68213 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
68228 AATAAATTATTTTAT
1 AATAAATTATTTTAA
68243 AATAAATTATTTTAA
1 AATAAATTATTTTAA
68258 AATAAATTATTTTAA
1 AATAAATTATTTTAA
68273 AATAAAT
1 AATAAAT
68280 AACCTTATTA
Statistics
Matches: 140, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
14 16 0.11
15 95 0.68
16 2 0.01
17 4 0.03
18 9 0.06
19 3 0.02
20 1 0.01
22 10 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:69365 original size:11 final size:11
Alignment explanation
Indices: 69351--69406 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
69341 AATATATAGT
69351 TTTTGAAAATA
1 TTTTGAAAATA
69362 TTTTGAAAATA
1 TTTTGAAAATA
*
69373 TATAT-AATATATA
1 T-TTTGAA-A-ATA
69386 GTTTTTGAAAATA
1 --TTTTGAAAATA
69399 TTTTGAAA
1 TTTTGAAA
69407 GTATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
11 22 0.59
12 3 0.08
13 6 0.16
14 3 0.08
15 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:69461 original size:26 final size:26
Alignment explanation
Indices: 69432--69552 Score: 179
Period size: 28 Copynumber: 4.5 Consensus size: 26
69422 TTTTGAAATT
*
69432 TTTTTGAAAATATATATAATATATAA
1 TTTTTGAAAATATATATAATATATAG
* *
69458 TTTTTGAAAAAATATATAAAATATAG
1 TTTTTGAAAATATATATAATATATAG
69484 TTTTTGAAAACATATATATAATATATAG
1 TTTTTG-AAA-ATATATATAATATATAG
69512 TTTTTGAAAACATATATATAATATATAG
1 TTTTTG-AAA-ATATATATAATATATAG
69540 TTTTTGAAAATAT
1 TTTTTGAAAATAT
69553 TTTGAAAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
26 33 0.38
27 6 0.07
28 49 0.56
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTTTGAAAATATATATAATATATAG
Found at i:69482 original size:37 final size:37
Alignment explanation
Indices: 69322--69467 Score: 217
Period size: 37 Copynumber: 4.0 Consensus size: 37
69312 TATATATAAA
69322 ATTTTGAAAACATATATATAATATATAGTTTTTGAAAAT
1 ATTTTG-AAA-ATATATATAATATATAGTTTTTGAAAAT
69361 ATTTTGAAAATATATATAATATATAGTTTTTGAAAAT
1 ATTTTGAAAATATATATAATATATAGTTTTTGAAAAT
* *
69398 ATTTTG-AAA-GTATAT-ATATATAGTTTTTGAAATT
1 ATTTTGAAAATATATATAATATATAGTTTTTGAAAAT
* *
69432 TTTTTGAAAATATATATAATATATAATTTTTGAAAA
1 ATTTTGAAAATATATATAATATATAGTTTTTGAAAA
69468 AATATATAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
34 23 0.23
35 8 0.08
36 8 0.08
37 50 0.51
38 3 0.03
39 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.47
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTTGAAAAT
Found at i:69563 original size:26 final size:26
Alignment explanation
Indices: 69432--69596 Score: 162
Period size: 28 Copynumber: 6.4 Consensus size: 26
69422 TTTTGAAATT
* *
69432 TTTTTGAAAATATATATAATATATAA
1 TTTTTGAAAATATATATAAAATATAG
*
69458 TTTTTGAAAAAATATATAAAATATAG
1 TTTTTGAAAATATATATAAAATATAG
*
69484 TTTTTGAAAACATATATATAATATATAG
1 TTTTTG-AAA-ATATATATAAAATATAG
*
69512 TTTTTGAAAACATATATATAATATATAG
1 TTTTTG-AAA-ATATATATAAAATATAG
*
69540 TTTTTGAAAATAT-TTTGAAAATATA-
1 TTTTTGAAAATATATAT-AAAATATAG
* * *
69565 --TAT--ATATATATATATAATATAG
1 TTTTTGAAAATATATATAAAATATAG
69587 TTTTTGAAAA
1 TTTTTGAAAA
69597 CATTTTTGAA
Statistics
Matches: 117, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.10
22 2 0.02
23 2 0.02
24 2 0.02
25 2 0.02
26 42 0.36
27 6 0.05
28 49 0.42
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTTTGAAAATATATATAAAATATAG
Found at i:69585 original size:49 final size:47
Alignment explanation
Indices: 69523--69621 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
69513 TTTTGAAAAC
*
69523 ATATATATA-ATATATAGTTTTTGAAAATA-TTTTGAAAATATATATAT
1 ATATATATATA-ATATAGTTTTTGAAAACATTTTTGAAAATATATAT-T
69570 ATATATATATAATATAGTTTTTGAAAACATTTTTGAAAATATATATT
1 ATATATATATAATATAGTTTTTGAAAACATTTTTGAAAATATATATT
69617 ATATA
1 ATATA
69622 GTTTTTAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
47 32 0.65
48 17 0.35
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (47 bp):
ATATATATATAATATAGTTTTTGAAAACATTTTTGAAAATATATATT
Found at i:69592 original size:36 final size:36
Alignment explanation
Indices: 69495--69656 Score: 143
Period size: 36 Copynumber: 4.4 Consensus size: 36
69485 TTTTGAAAAC
*
69495 ATATATATAATATATAGTTTTTGAAAACATATATAT
1 ATATATATATTATATAGTTTTTGAAAACATATATAT
* * * *
69531 A-ATATATAGTTTTTGAAAATATTTTGAAAATATATATAT
1 ATATATATA--TTAT-ATAGT-TTTTGAAAACATATATAT
* * *
69570 ATATATATATAATATAGTTTTTGAAAACATTTTTGA-
1 ATATATATATTATATAGTTTTTGAAAACATATAT-AT
* *
69606 AAATATATATTATATAGTTTTT-AAAA-ATATTTAT
1 ATATATATATTATATAGTTTTTGAAAACATATATAT
69640 ATATTATAGTATTATAT
1 ATA-TATA-TATTATAT
69657 TTATTATATT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
33 1 0.01
34 7 0.07
35 15 0.15
36 42 0.42
37 6 0.06
38 5 0.05
39 18 0.18
40 7 0.07
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTTGAAAACATATATAT
Found at i:69631 original size:23 final size:22
Alignment explanation
Indices: 69599--69642 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
69589 TTTGAAAACA
69599 TTTTTGAAAATATATATTATATAG
1 TTTTTGAAAA-ATAT-TTATATAG
69623 TTTTT-AAAAATATTTATATA
1 TTTTTGAAAAATATTTATATA
69643 TTATAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 4 0.20
24 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTTGAAAAATATTTATATAG
Found at i:69632 original size:24 final size:26
Alignment explanation
Indices: 69599--69649 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
69589 TTTGAAAACA
*
69599 TTTTTGAAAATATATAT-TA-TATAG
1 TTTTTAAAAATATATATATATTATAG
*
69623 TTTTTAAAAATATTTATATATTATAG
1 TTTTTAAAAATATATATATATTATAG
69649 T
1 T
69650 ATTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 2 0.09
26 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTTAAAAATATATATATATTATAG
Found at i:69663 original size:17 final size:18
Alignment explanation
Indices: 69641--69681 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
69631 AATATTTATA
69641 TATTATAGTATTAT-ATT
1 TATTATAGTATTATAATT
* *
69658 TATTATATTATTGTAATT
1 TATTATAGTATTATAATT
69676 TATTAT
1 TATTAT
69682 TTATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TATTATAGTATTATAATT
Found at i:69667 original size:22 final size:24
Alignment explanation
Indices: 69632--69692 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 24
69622 GTTTTTAAAA
69632 ATATTTA-TATATTATAGT-A-TT
1 ATATTTATTATATTATAGTAATTT
*
69653 ATATTTATTATATTATTGTAATTT
1 ATATTTATTATATTATAGTAATTT
69677 ATTATTTATTAT-TTAT
1 A-TATTTATTATATTAT
69693 TTCTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 7 0.20
22 10 0.29
23 1 0.03
24 7 0.20
25 10 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
ATATTTATTATATTATAGTAATTT
Found at i:69702 original size:9 final size:9
Alignment explanation
Indices: 69688--69715 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
69678 TTATTTATTA
69688 TTTATTTCT
1 TTTATTTCT
69697 TTTATTTCT
1 TTTATTTCT
69706 TTTATTTCT
1 TTTATTTCT
69715 T
1 T
69716 GTTGTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTCT
Found at i:70947 original size:16 final size:17
Alignment explanation
Indices: 70916--70948 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70906 GTCCTTTCTT
70916 TATTTAATTCATGTTTA
1 TATTTAATTCATGTTTA
70933 TATTTAATT-ATGTTTA
1 TATTTAATTCATGTTTA
70949 AAGAGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TATTTAATTCATGTTTA
Found at i:71004 original size:12 final size:12
Alignment explanation
Indices: 70987--71019 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
70977 TTCTATATTT
70987 TTATTTATTTTA
1 TTATTTATTTTA
70999 TTATTTATTTTA
1 TTATTTATTTTA
71011 TT-TTTATTT
1 TTATTTATTT
71020 AACTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:71015 original size:18 final size:15
Alignment explanation
Indices: 70982--71020 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 15
70972 CTTGATTCTA
70982 TATTTTTATTTATTT
1 TATTTTTATTTATTT
70997 TA---TTATTTATTT
1 TATTTTTATTTATTT
71009 TATTTTTATTTA
1 TATTTTTATTTA
71021 ACTGATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.57
15 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:72687 original size:64 final size:64
Alignment explanation
Indices: 72619--72839 Score: 216
Period size: 64 Copynumber: 3.5 Consensus size: 64
72609 TTGAAGGTGT
** ** * *
72619 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
72682 C
64 C
*
72683 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * * * * * * *
72747 ATTGATGCATAAGGCA-TGCATTGATGCATCCCAGTAATAATACAACATCGAATACATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATTAGTG
72810 C
64 C
* * *
72811 ACCAATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
72840 ACCTTCATTA
Statistics
Matches: 130, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 118 0.91
65 10 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:73754 original size:104 final size:103
Alignment explanation
Indices: 73589--73910 Score: 583
Period size: 103 Copynumber: 3.1 Consensus size: 103
73579 GTCGAGGGTC
* *
73589 TATGTGGTCTTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
73654 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
73692 TATGTGGTCCTTCGAGATATATATGTATTCTTTGGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGAGATATATATGTATTCTTT-GGAACATGTGTGAAGTCTGGTGAGACACATA
*
73757 CTTGATCTCTAGTATATGTATATGATTCTTAAGGAGTGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
73796 TATGTGGTCCTTC-AGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGA-GATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
73860 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
73899 TATGTGGTCCTT
1 TATGTGGTCCTT
73911 ATGGACATTA
Statistics
Matches: 212, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
103 112 0.53
104 100 0.47
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGAGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:73960 original size:23 final size:23
Alignment explanation
Indices: 73927--73989 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
73917 ATTATTATAT
73927 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
73950 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
73973 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
73990 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:75096 original size:242 final size:242
Alignment explanation
Indices: 74671--75159 Score: 960
Period size: 242 Copynumber: 2.0 Consensus size: 242
74661 CTATTGTTTA
74671 AGCTATGAACCGTTTTATAAATGTTTCGAATAGTTATATGGAAATAATAAGTGAAAGATACATGC
1 AGCTATGAACCGTTTTATAAATGTTTCGAATAGTTATATGGAAATAATAAGTGAAAGATACATGC
74736 TCTGATTGGTTTTGTAATAATGAAAATGTCTTTTATGTAAACGAGTCATTTATATGTTATAAAAG
66 TCTGATTGGTTTTGTAATAATGAAAATGTCTTTTATGTAAACGAGTCATTTATATGTTATAAAAG
*
74801 TTTTAAATTTCTCAATATTTTATATGAATAAAGGTTTGAAAAGTCAATGTGACACTTCGGACTCG
131 TTTTAAATTACTCAATATTTTATATGAATAAAGGTTTGAAAAGTCAATGTGACACTTCGGACTCG
*
74866 TATCCGGGTCGGATACGGGTTGAGGGTGTTTCATTTAATGGTATCAG
196 TATCCGGGTCGGATACGGGTTGAGGGTGTTACATTTAATGGTATCAG
74913 AGCTATGAACCGTTTTATAAATGTTTCGAATAGTTATATGGAAATAATAAGTGAAAGATACATGC
1 AGCTATGAACCGTTTTATAAATGTTTCGAATAGTTATATGGAAATAATAAGTGAAAGATACATGC
74978 TCTGATTGGTTTTGTAATAATGAAAATGTCTTTTATGTAAACGAGTCATTTATATGTTATAAAAG
66 TCTGATTGGTTTTGTAATAATGAAAATGTCTTTTATGTAAACGAGTCATTTATATGTTATAAAAG
75043 TTTTAAATTACTCAATATTTTATATGAATAAAGGTTTGAAAAGTCAATGTGACACTTCGGACTCG
131 TTTTAAATTACTCAATATTTTATATGAATAAAGGTTTGAAAAGTCAATGTGACACTTCGGACTCG
75108 TATCCGGGTCGGATACGGGTTGAGGGTGTTACATTTAATGGTATCAG
196 TATCCGGGTCGGATACGGGTTGAGGGTGTTACATTTAATGGTATCAG
75155 AGCTA
1 AGCTA
75160 CGGTTTAGCC
Statistics
Matches: 245, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
242 245 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (242 bp):
AGCTATGAACCGTTTTATAAATGTTTCGAATAGTTATATGGAAATAATAAGTGAAAGATACATGC
TCTGATTGGTTTTGTAATAATGAAAATGTCTTTTATGTAAACGAGTCATTTATATGTTATAAAAG
TTTTAAATTACTCAATATTTTATATGAATAAAGGTTTGAAAAGTCAATGTGACACTTCGGACTCG
TATCCGGGTCGGATACGGGTTGAGGGTGTTACATTTAATGGTATCAG
Found at i:77919 original size:64 final size:64
Alignment explanation
Indices: 77851--78071 Score: 259
Period size: 64 Copynumber: 3.5 Consensus size: 64
77841 TTGAAGGTGT
** **
77851 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTGTG
77914 C
64 C
** *
77915 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* * * * * *
77979 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* *
78043 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
78072 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.01
64 125 0.93
65 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
Found at i:78998 original size:104 final size:103
Alignment explanation
Indices: 78819--79140 Score: 626
Period size: 103 Copynumber: 3.1 Consensus size: 103
78809 GTCGAGGGTC
78819 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
78884 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
78922 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGGGATATATATGTATTCTTT-GGAACATGTGTGAAGTCTGGTGAGACACATA
78987 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
79026 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
79091 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
79129 TATGTGGTCCTT
1 TATGTGGTCCTT
79141 ATGGACATTA
Statistics
Matches: 217, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
103 114 0.53
104 103 0.47
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:79190 original size:23 final size:23
Alignment explanation
Indices: 79160--79219 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
79150 ATTATATGGT
79160 ACTCCGGTGCAATTCTACGCGGC
1 ACTCCGGTGCAATTCTACGCGGC
*
79183 ACTCCGGTGCAATTCTACGTGGC
1 ACTCCGGTGCAATTCTACGCGGC
*
79206 ACTTCGGTGCAATT
1 ACTCCGGTGCAATT
79220 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (23 bp):
ACTCCGGTGCAATTCTACGCGGC
Found at i:81274 original size:24 final size:24
Alignment explanation
Indices: 81242--81314 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
81232 AGTCTTCCTG
*
81242 ATGATATATAAAACATCTATGTAC
1 ATGACATATAAAACATCTATGTAC
*
81266 ATGACATATAAAACATCTATGTAA
1 ATGACATATAAAACATCTATGTAC
* *
81290 ATGACGTATAAAACATATATGTAC
1 ATGACATATAAAACATCTATGTAC
81314 A
1 A
81315 ATGTCATGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (24 bp):
ATGACATATAAAACATCTATGTAC
Found at i:85610 original size:20 final size:20
Alignment explanation
Indices: 85581--85618 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85571 CCCCTTCAAA
*
85581 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
85601 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
85619 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:89442 original size:22 final size:21
Alignment explanation
Indices: 89400--89439 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89390 GAGTTTATTT
*
89400 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
89421 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
89440 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:91694 original size:17 final size:18
Alignment explanation
Indices: 91672--91705 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91662 AAAACATGCA
91672 TTTTATCATT-TTTTTAC
1 TTTTATCATTATTTTTAC
*
91689 TTTTATTATTATTTTTA
1 TTTTATCATTATTTTTA
91706 TATTACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATCATTATTTTTAC
Found at i:101507 original size:51 final size:49
Alignment explanation
Indices: 101447--101545 Score: 153
Period size: 51 Copynumber: 2.0 Consensus size: 49
101437 ATGTATTGAC
* * *
101447 TTTCCAGAATGTTTGTCATATACTTTGTTCCTTTTTTTCCTTATAAATAAT
1 TTTCCAGAATGTTTGTCATATACTCTG-TCC-CTTTTTCCTCATAAATAAT
101498 TTTCCAGAATGTTTGTCATATACTCTGTCCCTTTTTCCTCATAAATAA
1 TTTCCAGAATGTTTGTCATATACTCTGTCCCTTTTTCCTCATAAATAA
101546 ATATGGTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 16 0.36
50 3 0.07
51 26 0.58
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (49 bp):
TTTCCAGAATGTTTGTCATATACTCTGTCCCTTTTTCCTCATAAATAAT
Found at i:102188 original size:83 final size:83
Alignment explanation
Indices: 102049--102202 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 83
102039 ACAATGAAGG
*
102049 ACATCCAATTCAAATCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCAC-AATGAA
1 ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAA-GAA
102113 AGATATTAAACTCGAAGCA
65 AGATATTAAACTCGAAGCA
* * ** ** *
102132 ACATCCAATTCTAAGCTCAACTTCACATCGAATGAGTTATCCATGATTTCAACTTCACGAAGAAT
1 ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAAGAAA
102197 GATATT
66 GATATT
102203 GTATGGATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 60 0.97
84 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (83 bp):
ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAAGAAA
GATATTAAACTCGAAGCA
Found at i:102766 original size:37 final size:37
Alignment explanation
Indices: 102757--102979 Score: 253
Period size: 39 Copynumber: 6.1 Consensus size: 37
102747 AATATATAGC
* *
102757 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
102794 TTTTG-AAA-GTATAT-ATATAT--TTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* * * *
102826 TTTTTAATATATATATTTATAATATAGTTTTTGAAAATA
1 TTTTGAAAATATATA-TAAT-ATATAGTTTTTGAAAACA
*
102865 TTTTGAAAATATATATAATATATAGTTTGTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
102902 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
* *
102941 TTTTTGAAAATATATAT--TATATAGTTTTTAAAAATA
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
102977 TTT
1 TTT
102980 GTATATTATA
Statistics
Matches: 164, Mismatches: 12, Indels: 22
0.83 0.06 0.11
Matches are distributed among these distances:
32 16 0.10
33 2 0.01
34 10 0.06
35 9 0.05
36 22 0.13
37 30 0.18
38 14 0.09
39 56 0.34
40 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:102797 original size:11 final size:11
Alignment explanation
Indices: 102783--102876 Score: 50
Period size: 11 Copynumber: 8.1 Consensus size: 11
102773 AATATATAAT
102783 TTTTGAAAATA
1 TTTTGAAAATA
*
102794 TTTTGAAAGTA
1 TTTTGAAAATA
* * *
102805 -TAT-ATATATT
1 TTTTGA-AAATA
102815 TTTTGAAAATA
1 TTTTGAAAATA
*
102826 TTTTTAATATATA
1 TTTTGAA-A-ATA
102839 TATTT-ATAATATA
1 T-TTTGA-AA-ATA
102852 GTTTTTGAAAATA
1 --TTTTGAAAATA
102865 TTTTGAAAATA
1 TTTTGAAAATA
102876 T
1 T
102877 ATATAATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
9 1 0.02
10 4 0.06
11 33 0.52
12 2 0.03
13 13 0.20
14 9 0.14
15 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:102818 original size:32 final size:30
Alignment explanation
Indices: 102716--102841 Score: 104
Period size: 26 Copynumber: 4.4 Consensus size: 30
102706 GGTGCTATTT
* * *
102716 AATATATATA-AAATTTTGAAAACA-TATA
1 AATATATATATAATTTTTGAAAATATTTTA
* **
102744 TATA-ATATATAGCTTTTGAAAATA---TA
1 AATATATATATAATTTTTGAAAATATTTTA
*
102770 TATA-ATATATAATTTTTGAAAATATTTTGA
1 AATATATATATAATTTTTGAAAATATTTT-A
* *
102800 AAGTATATATATATTTTTTGAAAATATTTTT
1 AA-TATATATATAATTTTTGAAAATATTTTA
102831 AATATATATAT
1 AATATATATAT
102842 TTATAATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
26 24 0.29
27 5 0.06
28 14 0.17
29 1 0.01
30 11 0.13
31 4 0.05
32 23 0.28
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.46
Consensus pattern (30 bp):
AATATATATATAATTTTTGAAAATATTTTA
Found at i:102835 original size:28 final size:28
Alignment explanation
Indices: 102711--102843 Score: 103
Period size: 28 Copynumber: 4.6 Consensus size: 28
102701 CCCGGGGTGC
** *
102711 TATTTAATATATATAAAATTTTGAAAACA
1 TATTTAATATATAT-ATTTTTTGAAAATA
* **
102740 TATAT-ATAATATATAGCTTTTGAAAATA
1 TATTTAAT-ATATATATTTTTTGAAAATA
*
102768 TATATAATATATA-A-TTTTTGAAAATA
1 TATTTAATATATATATTTTTTGAAAATA
102794 T-TTTGAAAGTATATATATATTTTTTGAAAATA
1 TATTT---A--ATATATATATTTTTTGAAAATA
*
102826 TTTTTAATATATATATTT
1 TATTTAATATATATATTT
102844 ATAATATAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.02
26 12 0.14
27 1 0.01
28 36 0.41
29 12 0.14
30 8 0.09
31 1 0.01
32 13 0.15
33 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (28 bp):
TATTTAATATATATATTTTTTGAAAATA
Found at i:102837 original size:30 final size:31
Alignment explanation
Indices: 102769--102841 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
102759 TTGAAAATAT
102769 ATATAATATATAATTTTTGAAAATATTTTGAA
1 ATAT-ATATATAATTTTTGAAAATATTTTGAA
* *
102801 AGTATATATATATTTTTTGAAAATATTTT-TA
1 A-TATATATATAATTTTTGAAAATATTTTGAA
102832 ATATATATAT
1 ATATATATAT
102842 TTATAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 9 0.24
31 2 0.05
32 24 0.63
33 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
ATATATATATAATTTTTGAAAATATTTTGAA
Found at i:102856 original size:26 final size:28
Alignment explanation
Indices: 102804--102856 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
102794 TTTTGAAAGT
* *
102804 ATATATATATTTTTTGAAAATATTTTTA
1 ATATATATATTTTATGAAAATAGTTTTA
*
102832 ATATATATA-TTTAT-AATATAGTTTT
1 ATATATATATTTTATGAAAATAGTTTT
102857 TGAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 4 0.18
28 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (28 bp):
ATATATATATTTTATGAAAATAGTTTTA
Found at i:103015 original size:22 final size:22
Alignment explanation
Indices: 102981--103023 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
102971 AAAATATTTG
*
102981 TATATTATATATTATAGTATTA
1 TATATCATATATTATAGTATTA
* *
103003 TATATCATTTATTATATTATT
1 TATATCATATATTATAGTATT
103024 GTAATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATCATATATTATAGTATTA
Found at i:103039 original size:7 final size:7
Alignment explanation
Indices: 102983--103051 Score: 57
Period size: 7 Copynumber: 9.1 Consensus size: 7
102973 AATATTTGTA
*
102983 TATTATA
1 TATTATT
*
102990 TATTATAG
1 TATTAT-T
*
102998 TATTATA
1 TATTATT
*
103005 TATCATT
1 TATTATT
103012 TATTATAT
1 TATTAT-T
103020 TATTGTAATT
1 TA-T-T-ATT
103030 TATTATT
1 TATTATT
103037 TATTATT
1 TATTATT
103044 TATTATT
1 TATTATT
103051 T
1 T
103052 TCATTTTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
7 34 0.65
8 10 0.19
9 2 0.04
10 4 0.08
11 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (7 bp):
TATTATT
Found at i:104296 original size:16 final size:17
Alignment explanation
Indices: 104265--104297 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104255 GTTTTTTCAT
104265 TATTTAATTCATGTTTA
1 TATTTAATTCATGTTTA
104282 TATTTAATT-ATGTTTA
1 TATTTAATTCATGTTTA
104298 AAGAGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TATTTAATTCATGTTTA
Found at i:104347 original size:11 final size:12
Alignment explanation
Indices: 104331--104372 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
104321 CTTGATTCTA
104331 TATTTT-TTATT
1 TATTTTATTATT
104342 TATTTTTATTATT
1 TA-TTTTATTATT
*
104355 TATTTTGTT-TT
1 TATTTTATTATT
104366 TATTTTA
1 TATTTTA
104373 ATTTAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
12 10 0.37
13 7 0.26
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:104355 original size:13 final size:12
Alignment explanation
Indices: 104333--104371 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
104323 TGATTCTATA
104333 TTTTTTATTTAT
1 TTTTTTATTTAT
104345 TTTTATTATTTAT
1 TTTT-TTATTTAT
*
104358 TTTGTT-TTTAT
1 TTTTTTATTTAT
104369 TTT
1 TTT
104372 AATTTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 11 0.44
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:104356 original size:17 final size:18
Alignment explanation
Indices: 104331--104369 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104321 CTTGATTCTA
*
104331 TATTTTTTA-TTTATTTT
1 TATTATTTATTTTATTTT
*
104348 TATTATTTATTTTGTTTT
1 TATTATTTATTTTATTTT
104366 TATT
1 TATT
104370 TTAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TATTATTTATTTTATTTT
Found at i:104419 original size:18 final size:18
Alignment explanation
Indices: 104391--104425 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
104381 GATTTTTTCT
104391 ATCTTCATTTG-TATTTG
1 ATCTTCATTTGATATTTG
104408 ATCTTGCATTTGATATTT
1 ATCTT-CATTTGATATTT
104426 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
ATCTTCATTTGATATTTG
Found at i:105102 original size:75 final size:75
Alignment explanation
Indices: 105019--105200 Score: 231
Period size: 75 Copynumber: 2.4 Consensus size: 75
105009 TAACCGGTTA
* * * *
105019 AAAATAAAATAGGTGTTATCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTAATAATAA
1 AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTAATAATAA
105084 TGTAAACAGT
66 TGTAAACAGT
* * * * *
105094 AAAATAAAATAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAA
1 AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTAATAATAA
* **
105159 TGTATATGGT
66 TGTAAACAGT
*
105169 AAAATAAAATA-TTGTCTATCTATTATGTTAAA
1 AAAATAAAATAGGTGT-TATCTATTATGTTAAA
105201 TAGGCGCCAC
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 1 0.01
75 88 0.99
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (75 bp):
AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTAATAATAA
TGTAAACAGT
Found at i:105214 original size:23 final size:23
Alignment explanation
Indices: 105188--105246 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
105178 TATTGTCTAT
*
105188 CTATTATGTTAAATAGGCGCCAC
1 CTATTATGTTAAATAAGCGCCAC
* *
105211 CTATTACT-TTGAATAAGCGCTAC
1 CTATTA-TGTTAAATAAGCGCCAC
*
105234 TTATTATGTTAAA
1 CTATTATGTTAAA
105247 CTACCTACTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (23 bp):
CTATTATGTTAAATAAGCGCCAC
Found at i:105320 original size:121 final size:121
Alignment explanation
Indices: 105101--105321 Score: 282
Period size: 121 Copynumber: 1.8 Consensus size: 121
105091 AGTAAAATAA
* * *
105101 AATAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTATAT
1 AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
* * * *
105166 GGTAAAATAAAATATTGTCTATCTATTATGTTAAATAGGCGCCACCTATTACTTTG
66 GGTAAAATAAAATAGTGTATACCTATTACGTTAAATAGGCGCCACCTATTACTTTG
* * * * ** * **
105222 AATAAGCGCTACTTATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAAC
1 AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
105287 GGTAAAATAAAATAG-GTGATACCTATTACGTTAAA
66 GGTAAAATAAAATAGTGT-ATACCTATTACGTTAAA
105322 ATACATACTG
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
120 2 0.02
121 81 0.98
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (121 bp):
AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
GGTAAAATAAAATAGTGTATACCTATTACGTTAAATAGGCGCCACCTATTACTTTG
Found at i:105358 original size:75 final size:75
Alignment explanation
Indices: 105235--105396 Score: 261
Period size: 75 Copynumber: 2.2 Consensus size: 75
105225 AAGCGCTACT
* * *
105235 TATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
1 TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
*
105300 AGGTGATACC
66 AGGCGATACC
*
105310 TATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
1 TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
* *
105375 AGGCGCTACT
66 AGGCGATACC
105385 TATTATGTTAAA
1 TATTATGTTAAA
105397 TAGGCGCTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (75 bp):
TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
AGGCGATACC
Found at i:105373 original size:196 final size:196
Alignment explanation
Indices: 105038--105442 Score: 575
Period size: 196 Copynumber: 2.1 Consensus size: 196
105028 TAGGTGTTAT
105038 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTAATAATAATGTAAACAGTAAAATAAAA
1 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTAATAATAATGTAAACAGTAAAATAAAA
* * *
105103 TAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTATATGG
66 TAGGCGATACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAACGG
* * *
105168 TAAAATAAAATATTG-TCTA-TCTATTATGTTAAATAGGCGCCACCTATTACT-TTGAATAAGCG
131 TAAAATAAAATA-GGCGCTACT-TATTATGTTAAATAGGCGCCACCTATTA-TGTTAAATAAGCG
105230 CTAC
193 CTAC
* * * * * *
105234 TTATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATAAAA
1 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTAATAATAATGTAAACAGTAAAATAAAA
* ** **
105299 TAGGTGATACCTATTACGTTAAAAT-ACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACG
66 TAGGCGATACCTATTACGTTAAAATAAC-TACCAGTTTGTTTAAAAATTACTAATAATGTAAACG
* *
105363 GTAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCTACCTATTATGTTAAATAGGCGCT
130 GTAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCCACCTATTATGTTAAATAAGCGCT
105428 AC
195 AC
105430 CTATTATGTTAAA
1 CTATTATGTTAAA
105443 TAAATGCTAC
Statistics
Matches: 185, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
195 4 0.02
196 180 0.97
197 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (196 bp):
CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTAATAATAATGTAAACAGTAAAATAAAA
TAGGCGATACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAACGG
TAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCCACCTATTATGTTAAATAAGCGCTA
C
Found at i:105400 original size:23 final size:23
Alignment explanation
Indices: 105371--105465 Score: 145
Period size: 23 Copynumber: 4.1 Consensus size: 23
105361 CGGTAAAATA
*
105371 AAATAGGCGCTACTTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
105394 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
105417 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
*** *
105440 AAATAAATGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTATGTT
105463 AAA
1 AAA
105466 CTAGCTATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTATGTT
Found at i:105620 original size:103 final size:103
Alignment explanation
Indices: 105494--105684 Score: 337
Period size: 103 Copynumber: 1.9 Consensus size: 103
105484 AAAGGTTAAT
**
105494 AATAATGTAAATGGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
1 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
*
105559 ATGGATACTTACTCTAAAAGTATGGATATTGTTTCGAC
66 ATGAATACTTACTCTAAAAGTATGGATATTGTTTCGAC
*
105597 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAGAATTCGAAAGT
1 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
*
105662 ATGAATACTTACTCTAAACGTAT
66 ATGAATACTTACTCTAAAAGTAT
105685 AAATACTCTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (103 bp):
AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
ATGAATACTTACTCTAAAAGTATGGATATTGTTTCGAC
Found at i:105722 original size:17 final size:17
Alignment explanation
Indices: 105700--105735 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
105690 CTCTAAAGGT
105700 TAATAATAATATATCCA
1 TAATAATAATATATCCA
*
105717 TAATAATAATGTATCCA
1 TAATAATAATATATCCA
105734 TA
1 TA
105736 CTTACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAATAATATATCCA
Found at i:106118 original size:108 final size:108
Alignment explanation
Indices: 106006--106210 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 108
105996 GCCCTATCTA
* *
106006 CTTAAACTTTGGTAATATTTTAGGCGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
1 CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
*
106071 ATTAATACATTTTGTTA-TCGTCAGATTTCTAATGTCACATCAG
66 ATTAACACATTTTGTTACT-GTCAGATTTCTAATGTCACATCAG
* * * *
106114 CTTAAGCTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTGATAACAAATTAAGTA
1 CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
* *
106179 ATTAACATATTTTGTTACTGTCTGATTTCTAA
66 ATTAACACATTTTGTTACTGTCAGATTTCTAA
106211 GGTTCCATTA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 86 0.99
109 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (108 bp):
CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
ATTAACACATTTTGTTACTGTCAGATTTCTAATGTCACATCAG
Found at i:106362 original size:226 final size:226
Alignment explanation
Indices: 106115--106528 Score: 582
Period size: 226 Copynumber: 1.8 Consensus size: 226
106105 TCACATCAGC
* * * *
106115 TTAAGCTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTGATAACAAATTAAGTAA
1 TTAAACTTTGATAACATTTTAGACACTACCTAATATGTTGATAATATTGATAACAAATCAAGTAA
* *
106180 TTAACATATTTTGTTA-CTGTCTG-ATTTCTAAGGTTCCATTAACTTTAAAAATG-CGCTACGTA
66 TTAACATATTTTGTTATC-GT-TGAATTTCTAAGGCTCCATCAACTTTAAAAA-GACGCTACGTA
* * * * * * *
106242 TTATATTAAATAAGCACTAATTGTTATGTTATTTTGGTTGATAATGTTTCCAATAATTAACCTAT
128 TTACATTAAATAAACACTAACTGTTATGTTATTATGGTTAATAATATTTACAATAATTAACCTAT
106307 TTTGTTATCGTTGTATTTCTAAGGCTCTATCAAT
193 TTTGTTATCGTTGTATTTCTAAGGCTCTATCAAT
* *
106341 TTAAACTTTGGTAACATTTTAGTCACTACCTAATATGTTGATAATATTGATAACAAATCAAGTAA
1 TTAAACTTTGATAACATTTTAGACACTACCTAATATGTTGATAATATTGATAACAAATCAAGTAA
* * *
106406 TTAACCTATTTTGTTATCGTTGAATTTCTAAGGCTCCATCAGCTTTAAAAAGACGCTACTTATTA
66 TTAACATATTTTGTTATCGTTGAATTTCTAAGGCTCCATCAACTTTAAAAAGACGCTACGTATTA
* * * *
106471 CGTTACATAAACACTACCTGTTATGTTATTATGGTTAATAATATTTATAATAATTAAC
131 CATTAAATAAACACTAACTGTTATGTTATTATGGTTAATAATATTTACAATAATTAAC
106529 TGGTTATGTT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
225 3 0.02
226 159 0.98
227 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (226 bp):
TTAAACTTTGATAACATTTTAGACACTACCTAATATGTTGATAATATTGATAACAAATCAAGTAA
TTAACATATTTTGTTATCGTTGAATTTCTAAGGCTCCATCAACTTTAAAAAGACGCTACGTATTA
CATTAAATAAACACTAACTGTTATGTTATTATGGTTAATAATATTTACAATAATTAACCTATTTT
GTTATCGTTGTATTTCTAAGGCTCTATCAAT
Found at i:106952 original size:21 final size:20
Alignment explanation
Indices: 106925--107023 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
106915 AATCAGTTTC
106925 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
106946 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
106967 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
106987 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
107008 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
107024 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:107052 original size:20 final size:20
Alignment explanation
Indices: 106990--107182 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
106980 CGATTTTCCA
* ** *
106990 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
107010 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
107030 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107050 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
107070 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
107090 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107110 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107130 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
107150 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
107170 AAATCGCAACGCG
1 AAATCGCAACGCG
107183 ATATTTAAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:107706 original size:20 final size:20
Alignment explanation
Indices: 107680--107737 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
107670 TTTGCAGAAG
*
107680 AGTCGCAACGAGAGAATGAC
1 AGTCGCAACGAGAGAATGAA
*
107700 TGTCGCAACGAGAGAAATGAA
1 AGTCGCAACGAGAG-AATGAA
*
107721 AATCGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
107738 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.12
Consensus pattern (20 bp):
AGTCGCAACGAGAGAATGAA
Found at i:107740 original size:14 final size:14
Alignment explanation
Indices: 107721--107777 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
107711 GAGAAATGAA
107721 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
107735 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
107754 AATCGCAACGAGAG
1 AATCGCAACGAGAG
107768 AATCGCAACG
1 AATCGCAACG
107778 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:107753 original size:33 final size:33
Alignment explanation
Indices: 107713--107793 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
107703 CGCAACGAGA
107713 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
107746 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
107779 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
107794 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:107811 original size:19 final size:19
Alignment explanation
Indices: 107789--107886 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
107779 GAAACCAAAA
*
107789 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
107808 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
107822 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
107841 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
107855 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
107874 TCGCGTTGCGATT
1 TCGCGTTGCGATT
107887 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:107830 original size:14 final size:14
Alignment explanation
Indices: 107811--107900 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
107801 TTTCATTTCG
107811 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
107825 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
107844 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
107858 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
107877 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
107891 CGTTGCGATT
1 CGTTGCGATT
107901 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:107836 original size:33 final size:33
Alignment explanation
Indices: 107794--107908 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
107784 CAAAATCGCA
107794 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
107827 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
107860 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
107893 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
107909 AACCCAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:110232 original size:14 final size:14
Alignment explanation
Indices: 110213--110248 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
110203 ATTGTTTAAT
110213 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
110227 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
110241 TGATTTGT
1 TGATTTGT
110249 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:110367 original size:19 final size:19
Alignment explanation
Indices: 110351--110448 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
110341 AAAAATGACT
110351 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
110370 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
110389 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
110403 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
110422 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
110442 ATCGCAA
1 ATCGCAA
110449 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:110480 original size:53 final size:53
Alignment explanation
Indices: 110351--110467 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
110341 AAAAATGACT
110351 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
110403 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
110456 ATCGCAATGCGA
1 ATCGCAATGCGA
110468 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:110485 original size:19 final size:19
Alignment explanation
Indices: 110457--110678 Score: 250
Period size: 19 Copynumber: 12.7 Consensus size: 19
110447 AACGAGAGAA
*
110457 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
110476 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
110495 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
110511 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
110528 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
110547 TCGCATTGCGATTCTCA--
1 TCGCATTGCGATTTTCATT
110564 -CG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
110580 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
110599 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
110615 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
110632 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
110650 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
110666 TCGCATTGCGATT
1 TCGCATTGCGATT
110679 CTCTCGTTGC
Statistics
Matches: 173, Mismatches: 9, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 38 0.22
16 14 0.08
17 11 0.06
18 3 0.02
19 96 0.55
20 11 0.06
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:110520 original size:52 final size:52
Alignment explanation
Indices: 110463--110650 Score: 331
Period size: 52 Copynumber: 3.6 Consensus size: 52
110453 AGAATCGCAA
110463 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
* *
110515 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCACGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
110567 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
110619 TGCGATTTTTATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
110651 GTTGGGATTT
Statistics
Matches: 130, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
52 113 0.87
53 17 0.13
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
Found at i:110700 original size:33 final size:33
Alignment explanation
Indices: 110481--110692 Score: 207
Period size: 33 Copynumber: 6.2 Consensus size: 33
110471 TCATTTCGCA
*
110481 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
110514 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
110550 CATTGCGATTCTCACGTT-GCGATTTTC-ATT-TCGCA
1 --TTGCGATTTTCA-TTTCGC-A-TTGCGATTCTCTCG
*
110585 TTGCGATTTTCATTTCGCATTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
110618 TTGCGATTTTTATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
110652 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
110685 TTGCGATT
1 TTGCGATT
110693 GTAATTTCCG
Statistics
Matches: 147, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 3 0.02
32 7 0.05
33 77 0.52
34 29 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 13 0.09
39 4 0.03
40 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:113016 original size:12 final size:12
Alignment explanation
Indices: 112999--113023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112989 TCTTCGGGGA
112999 CTTTTTCTTCTT
1 CTTTTTCTTCTT
113011 CTTTTTCTTCTT
1 CTTTTTCTTCTT
113023 C
1 C
113024 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:113232 original size:24 final size:24
Alignment explanation
Indices: 113198--113244 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
113188 CTGAAACATC
113198 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
113222 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
113245 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:113981 original size:20 final size:20
Alignment explanation
Indices: 113956--114200 Score: 249
Period size: 20 Copynumber: 12.2 Consensus size: 20
113946 TGCCCTACCG
* *
113956 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
113976 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
**
113996 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
114016 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
* **
114036 GATTTACAGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
114056 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
114076 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
** *
114096 GATTTACCCATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
114116 GATTTACGGATACACGTTGC
1 GATTTACGGATTCGCGTTGC
*
114136 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
114156 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
114176 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
114196 GATTT
1 GATTT
114201 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:114217 original size:21 final size:21
Alignment explanation
Indices: 114187--114269 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
114177 ATTTTCATAT
*
114187 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
114208 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
**
114229 TCGCATTGCGA-TTTCCAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
114250 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
114270 CTGATTTGCG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 4 0.09
21 37 0.80
22 5 0.11
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:115019 original size:21 final size:21
Alignment explanation
Indices: 114997--115071 Score: 141
Period size: 21 Copynumber: 3.6 Consensus size: 21
114987 AAAAATATTG
*
114997 ATGTTTTAGGTAGAAATAATG
1 ATGTTTTAGGTAGAAATAATA
115018 ATGTTTTAGGTAGAAATAATA
1 ATGTTTTAGGTAGAAATAATA
115039 ATGTTTTAGGTAGAAATAATA
1 ATGTTTTAGGTAGAAATAATA
115060 ATGTTTTAGGTA
1 ATGTTTTAGGTA
115072 ATTTTTTATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTTTTAGGTAGAAATAATA
Found at i:115087 original size:42 final size:41
Alignment explanation
Indices: 114988--115072 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 41
114978 GAAATGTTAA
* * *
114988 AAAATATTGATGTTTTAGGTAGAAATAATGATGTTTTAGGT
1 AAAATAATAATGTTTTAGGTAGAAATAATAATGTTTTAGGT
115029 AGAAATAATAATGTTTTAGGTAGAAATAATAATGTTTTAGGT
1 A-AAATAATAATGTTTTAGGTAGAAATAATAATGTTTTAGGT
115071 AA
1 AA
115073 TTTTTTATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (41 bp):
AAAATAATAATGTTTTAGGTAGAAATAATAATGTTTTAGGT
Found at i:115917 original size:20 final size:20
Alignment explanation
Indices: 115892--115981 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
115882 TTGGAAATCA
115892 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
115912 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
115932 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
115953 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
*
115973 CATTGCGAT
1 CGTTGCGAT
115982 AGTCTACAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 43 0.74
21 15 0.26
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:115931 original size:61 final size:61
Alignment explanation
Indices: 115864--115981 Score: 209
Period size: 61 Copynumber: 1.9 Consensus size: 61
115854 ATTCGCATTG
* *
115864 CATTTCGCGTTGCGATAGTTGGAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCATTGCGATTTTC
*
115925 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCATTGCGAT
115982 AGTCTACAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (61 bp):
CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCATTGCGATTTTC
Found at i:116003 original size:41 final size:40
Alignment explanation
Indices: 115909--116029 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
115899 ATTTTCCATT
*
115909 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
1 TCGCGTTGCGATTTTCCATTTCGC-TTGCGATAGTCT-ACAA
115950 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAA
1 TCGCGTTGCGATTTTCCATTTCGC-TTGCGATAGTCTACAA
* *
115991 T-GTCGTTACGATTTTCCAAATTCG-TTGCGATAGTCTACA
1 TCG-CGTTGCGATTTTCC-ATTTCGCTTGCGATAGTCTACA
116030 GTTGTTGTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
40 16 0.22
41 51 0.70
42 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTTCCATTTCGCTTGCGATAGTCTACAA
Found at i:116041 original size:22 final size:22
Alignment explanation
Indices: 116012--116068 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
116002 TTTTCCAAAT
116012 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* *
116034 TTGTTGCGAAAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
116056 TCGTTGCGATAGT
1 TCGTTGCGATAGT
116069 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Done.