Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008975.1 Kokia drynarioides strain JFW-HI SEQ_123672, 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: 136794
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:381 original size:15 final size:15
Alignment explanation
Indices: 369--405 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
359 TTGTTTTATA
369 TTGCTTTGATTTACT
1 TTGCTTTGATTTACT
*
384 TTGCTTTGCTTTACT
1 TTGCTTTGATTTACT
399 TTGCTTT
1 TTGCTTT
406 ACTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.16, G:0.14, T:0.62
Consensus pattern (15 bp):
TTGCTTTGATTTACT
Found at i:395 original size:10 final size:10
Alignment explanation
Indices: 369--410 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
359 TTGTTTTATA
369 TTGCTTTGA-T
1 TTGCTTT-ACT
* *
379 TTACTTTGCT
1 TTGCTTTACT
389 TTGCTTTACT
1 TTGCTTTACT
399 TTGCTTTACT
1 TTGCTTTACT
409 TT
1 TT
411 ATTTATATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.62
Consensus pattern (10 bp):
TTGCTTTACT
Found at i:410 original size:15 final size:15
Alignment explanation
Indices: 369--411 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
359 TTGTTTTATA
369 TTGCTTTGA-TTTACT
1 TTGCTTT-ACTTTACT
*
384 TTGCTTTGCTTTACT
1 TTGCTTTACTTTACT
399 TTGCTTTACTTTA
1 TTGCTTTACTTTA
412 TTTATATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.60
Consensus pattern (15 bp):
TTGCTTTACTTTACT
Found at i:2670 original size:23 final size:23
Alignment explanation
Indices: 2640--2684 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2630 TATATATGTT
2640 GTGGCTTTAATTAATTCGGATTA
1 GTGGCTTTAATTAATTCGGATTA
*
2663 GTGGCTTTAATTCATTCGGATT
1 GTGGCTTTAATTAATTCGGATT
2685 GGTGCTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (23 bp):
GTGGCTTTAATTAATTCGGATTA
Found at i:3271 original size:29 final size:29
Alignment explanation
Indices: 3229--3290 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
3219 ACACGAAAAG
3229 AATGTCTAAGAAACAAGTCAAATGATTAA
1 AATGTCTAAGAAACAAGTCAAATGATTAA
3258 AATGTCTAAGAAACAAGTCAAATGATTAA
1 AATGTCTAAGAAACAAGTCAAATGATTAA
3287 AATG
1 AATG
3291 AAGTAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.24
Consensus pattern (29 bp):
AATGTCTAAGAAACAAGTCAAATGATTAA
Found at i:6217 original size:37 final size:37
Alignment explanation
Indices: 6168--6242 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6158 AAAAATTCAA
6168 TATATTTCTTTTTCATAATTAATCTTACTAACCTGTT
1 TATATTTCTTTTTCATAATTAATCTTACTAACCTGTT
6205 TATATTTCTTTTTCATAATTAATCTTACTAACCTGTT
1 TATATTTCTTTTTCATAATTAATCTTACTAACCTGTT
6242 T
1 T
6243 CTTTACCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.55
Consensus pattern (37 bp):
TATATTTCTTTTTCATAATTAATCTTACTAACCTGTT
Found at i:10049 original size:28 final size:27
Alignment explanation
Indices: 10018--10071 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
10008 AACATTCTAT
10018 AAATTTCAATATATATATATATATTTAA
1 AAATTTCAATATATATATAT-TATTTAA
* *
10046 AAATTTTAATATATTTATATTATTTA
1 AAATTTCAATATATATATATTATTTA
10072 TTTTTCGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
AAATTTCAATATATATATATTATTTAA
Found at i:13424 original size:26 final size:26
Alignment explanation
Indices: 13391--13681 Score: 311
Period size: 26 Copynumber: 11.3 Consensus size: 26
13381 GAAGCGAAGT
* * * * *
13391 GATATACTAAATTGACTTGTAAGAGT
1 GATATACTGAACTGGCTCGTAAGAGC
13417 GATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
13443 GATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
*
13469 GATATACTGAACTAGCTCGT-AGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
* *
13494 GATATACTGAACTGGCTCATAAGAGT
1 GATATACTGAACTGGCTCGTAAGAGC
* ** * * *
13520 AATATTTTG-GCTGACTCGTAAGAAC
1 GATATACTGAACTGGCTCGTAAGAGC
* * * *
13545 GATATATTGAATTGGCTTGTAAGAGT
1 GATATACTGAACTGGCTCGTAAGAGC
*
13571 GATATATTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
*
13597 GATATACTAAACTGGCTCGT-AGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
* *
13622 GATATATTGAACTGGCTCATAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
* ** * *
13648 AATATTTTG-GCTGACTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
13673 GATATACTG
1 GATATACTG
13682 TCTGGGCATG
Statistics
Matches: 221, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
25 82 0.37
26 139 0.63
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (26 bp):
GATATACTGAACTGGCTCGTAAGAGC
Found at i:13517 original size:51 final size:52
Alignment explanation
Indices: 13391--13681 Score: 311
Period size: 51 Copynumber: 5.7 Consensus size: 52
13381 GAAGCGAAGT
* * * * *
13391 GATATACTAAATTGACTTGTAAGAGTGATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
*
13443 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTAGCTCGT-AGAGC
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
* ** ** * * *
13494 GATATACTGAACTGGCTCATAAGAGTAATATTTTG-GCTGACTCGTAAGAAC
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
* * * * *
13545 GATATATTGAATTGGCTTGTAAGAGTGATATATTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
* * *
13597 GATATACTAAACTGGCTCGT-AGAGCGATATATTGAACTGGCTCATAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
* ** * *
13648 AATATTTTG-GCTGACTCGTAAGAGCGATATACTG
1 GATATACTGAACTGGCTCGTAAGAGCGATATACTG
13682 TCTGGGCATG
Statistics
Matches: 199, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
50 15 0.08
51 115 0.58
52 69 0.35
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (52 bp):
GATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGC
Found at i:13633 original size:128 final size:128
Alignment explanation
Indices: 13403--13681 Score: 450
Period size: 128 Copynumber: 2.2 Consensus size: 128
13393 TATACTAAAT
* *
13403 TGACTTGTAAGAGTGATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAG
1 TGACTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAG
* *
13468 CGATATACTGAACTAGCTCGTAGAGCGATATACTGAACTGGCTCATAAGAGTAATATTTTGGC
66 CGATATACTAAACTAGCTCGTAGAGCGATATACTGAACTGGCTCATAAGAGCAATATTTTGGC
* * * * * *
13531 TGACTCGTAAGAACGATATATTGAATTGGCTTGTAAGAGTGATATATTGAACTGGCTCGTAAGAG
1 TGACTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAG
* *
13596 CGATATACTAAACTGGCTCGTAGAGCGATATATTGAACTGGCTCATAAGAGCAATATTTTGGC
66 CGATATACTAAACTAGCTCGTAGAGCGATATACTGAACTGGCTCATAAGAGCAATATTTTGGC
13659 TGACTCGTAAGAGCGATATACTG
1 TGACTCGTAAGAGCGATATACTG
13682 TCTGGGCATG
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 137 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (128 bp):
TGACTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAGCGATATACTGAACTGGCTCGTAAGAG
CGATATACTAAACTAGCTCGTAGAGCGATATACTGAACTGGCTCATAAGAGCAATATTTTGGC
Found at i:18887 original size:79 final size:78
Alignment explanation
Indices: 18795--18951 Score: 208
Period size: 78 Copynumber: 2.0 Consensus size: 78
18785 CAACCTTGTA
*** ** *
18795 AACTCGGATTCAATGAAGAAATACCTCACCTAAAAAAAGAGAGGTCGAA-ATGAAAACCCGCAAA
1 AACTCGGATTCAATGAAGAAATA-AAAAAATAAAAAAAGAGAGGTC-AAGATGAAAACCAGCAAA
*
18859 GGGCATCTTGAAACC
64 AGGCATCTTGAAACC
* *
18874 AACTCGGATTCAATGAAGAAGTAAAAAAATAAAAAAAGAGAGGTCAAGATGAAAACCAGTAAAAG
1 AACTCGGATTCAATGAAGAAATAAAAAAATAAAAAAAGAGAGGTCAAGATGAAAACCAGCAAAAG
18939 GCATCTTGAAACC
66 GCATCTTGAAACC
18952 TAAGAAGTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 2 0.03
78 44 0.65
79 22 0.32
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.15
Consensus pattern (78 bp):
AACTCGGATTCAATGAAGAAATAAAAAAATAAAAAAAGAGAGGTCAAGATGAAAACCAGCAAAAG
GCATCTTGAAACC
Found at i:20005 original size:101 final size:100
Alignment explanation
Indices: 19717--20005 Score: 314
Period size: 101 Copynumber: 2.9 Consensus size: 100
19707 TCAACATCAA
* * * * *
19717 ATCTT-ATATCCTTGAAGTTGCAATGGAATAGAGTGAAGTTACAACACCAAATCCTATATCCCTG
1 ATCTTAATCTCCTTAAAGTTG-AATGGAATGGAGTGAAGTCACAACACCAAATCCTATATCCCTA
* * *
19781 AAGTTGTAG-GGATCAGATTAAAACTATTGTAGCAG
65 AAGTTGCAGTGGATCAAATTAAAACTATAGTAGCAG
* * * * * *
19816 ATCTCAATCTCCCTAAAGTTGCAGTGGAATGGAGCGAAGCCACAACACCAAATCTTATATCCCTA
1 ATCTTAATCTCCTTAAAGTTG-AATGGAATGGAGTGAAGTCACAACACCAAATCCTATATCCCTA
* * * * * *
19881 AAGTTACAATTGACCGGAA-TAAAACTATAGTAGTAG
65 AAGTTGCAGTGGATC-AAATTAAAACTATAGTAGCAG
* * *
19917 ATCTTAATCTCCTTAAAGTTGTTATGGAATGGAGTGAAGTCATAACACTAAATCCTATATCCCTA
1 ATCTTAATCTCCTTAAAGTTG-AATGGAATGGAGTGAAGTCACAACACCAAATCCTATATCCCTA
19982 AAGTTGCAGTGGATCAAATTAAAA
65 AAGTTGCAGTGGATCAAATTAAAA
20006 TAATGATAGC
Statistics
Matches: 151, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
99 4 0.03
100 57 0.38
101 89 0.59
102 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (100 bp):
ATCTTAATCTCCTTAAAGTTGAATGGAATGGAGTGAAGTCACAACACCAAATCCTATATCCCTAA
AGTTGCAGTGGATCAAATTAAAACTATAGTAGCAG
Found at i:20645 original size:13 final size:13
Alignment explanation
Indices: 20627--20666 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
20617 TTTGCATTTT
20627 AACCCAATACCCA
1 AACCCAATACCCA
20640 AACCCAACTA-CCA
1 AACCCAA-TACCCA
*
20653 AACCTAATACCCA
1 AACCCAATACCCA
20666 A
1 A
20667 TCAAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCCAATACCCA
Found at i:21280 original size:23 final size:23
Alignment explanation
Indices: 21254--21297 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
21244 AAAAGAATTT
21254 TTTTA-TTTATTTTAATTTTATCA
1 TTTTATTTTATTTT-ATTTTATCA
21277 TTTTATTTTATTTTATTTTAT
1 TTTTATTTTATTTTATTTTAT
21298 TTTCTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTTATTTTATTTTATCA
Found at i:21284 original size:5 final size:5
Alignment explanation
Indices: 21254--21300 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
21244 AAAAGAATTT
*
21254 TTTTA -TTTA TTTTAA TTTTA --TCA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
21301 CTTTGCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 2 0.06
4 4 0.11
5 25 0.69
6 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:21495 original size:18 final size:18
Alignment explanation
Indices: 21461--21499 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21451 TTGTTTAGGC
21461 TTTAATTTAGTCCTTTTTA
1 TTTAATTTAGTCC-TTTTA
21480 TTTAATTTAG-CCTTTTA
1 TTTAATTTAGTCCTTTTA
21497 TTT
1 TTT
21500 TCTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
19 10 0.50
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTAATTTAGTCCTTTTA
Found at i:21567 original size:4 final size:4
Alignment explanation
Indices: 21558--21610 Score: 72
Period size: 4 Copynumber: 13.2 Consensus size: 4
21548 TCCTTTCCTC
* *
21558 ATTT ATTT ATTT ATTT GTTT ATTAT ATTT ATTT ATTT ATTT ATAT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT
21607 -TTT A
1 ATTT A
21611 GCATTTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
5 4 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:21585 original size:21 final size:20
Alignment explanation
Indices: 21561--21610 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
21551 TTTCCTCATT
*
21561 TATTTATTTATTTGTTTATTA
1 TATTTATTTATTTATTTA-TA
21582 TATTTATTTATTTATTTATA
1 TATTTATTTATTTATTTATA
21602 TATTT-TTTA
1 TATTTATTTA
21611 GCATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 17 0.61
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTTATTTATTTATTTATA
Found at i:21605 original size:25 final size:25
Alignment explanation
Indices: 21558--21605 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21548 TCCTTTCCTC
* *
21558 ATTTATTTATTTATTTGTTTATTAT
1 ATTTATTTATTTATTTATATATTAT
21583 ATTTATTTATTTATTTATATATT
1 ATTTATTTATTTATTTATATATT
21606 TTTTAGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTATTTATTTATTTATATATTAT
Found at i:28331 original size:21 final size:21
Alignment explanation
Indices: 28286--28332 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
28276 GGTTGGTTTG
* * * *
28286 AAGGACAAGAAGAGGAAGCAC
1 AAGGACAAAAAGAAGAAACAA
28307 AAGGACAAAAAGAAGAAACAA
1 AAGGACAAAAAGAAGAAACAA
28328 AAGGA
1 AAGGA
28333 GGAAAGAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.11, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAACAA
Found at i:41565 original size:21 final size:20
Alignment explanation
Indices: 41539--41620 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 20
41529 TATGTAATAG
41539 TCGATTTAAACATATAAACAA
1 TCGATTTAAACA-ATAAACAA
* *
41560 TCGA-TTCAA-AATAAACAG
1 TCGATTTAAACAATAAACAA
41578 T--ATTCT-AAC-AT-AACAA
1 TCGATT-TAAACAATAAACAA
*
41594 TCGATTTAAATATATAAACAA
1 TCGATTTAAACA-ATAAACAA
41615 TCGATT
1 TCGATT
41621 CAAAAGAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
16 6 0.12
17 6 0.12
18 14 0.29
19 1 0.02
20 6 0.12
21 15 0.31
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (20 bp):
TCGATTTAAACAATAAACAA
Found at i:41575 original size:18 final size:18
Alignment explanation
Indices: 41552--41631 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
41542 ATTTAAACAT
41552 ATAAACAATCGATTCAAA
1 ATAAACAATCGATTCAAA
* *
41570 ATAAACAGT--ATTCTAAC
1 ATAAACAATCGATTC-AAA
*
41587 AT-AACAATCGATTTAAATA
1 ATAAACAATCGA-TTCAA-A
41606 TATAAACAATCGATTCAAA
1 -ATAAACAATCGATTCAAA
*
41625 AGAAACA
1 ATAAACA
41632 GTATTCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
16 9 0.19
17 4 0.08
18 17 0.35
19 3 0.06
20 6 0.12
21 9 0.19
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAACAATCGATTCAAA
Found at i:41600 original size:55 final size:55
Alignment explanation
Indices: 41539--41687 Score: 228
Period size: 55 Copynumber: 2.7 Consensus size: 55
41529 TATGTAATAG
* *
41539 TCGATTTAAACATATAAACAATCGATTCAAAATAAACAGTATTCTAACATAACAA
1 TCGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATTCCAACATAACAA
* *
41594 TCGATTTAAATATATAAACAATCGATTCAAAAGAAACAGTATTCCAACATGACAA
1 TCGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATTCCAACATAACAA
* * *
41649 TCAATTTAAACATTTAAA-AATCGATTCAAAAGAAGCAGT
1 TCGATTTAAACATATAAACAATCGATTCAAAAGAAACAGT
41688 GTTTAAACAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 20 0.23
55 66 0.77
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (55 bp):
TCGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATTCCAACATAACAA
Found at i:42066 original size:23 final size:23
Alignment explanation
Indices: 42040--42086 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42030 AATTCATGCT
42040 TGTGCTTGTCCAACCATTCGAAA
1 TGTGCTTGTCCAACCATTCGAAA
42063 TGTGCTTGTCCAACCATTCGAAA
1 TGTGCTTGTCCAACCATTCGAAA
42086 T
1 T
42087 CATAATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (23 bp):
TGTGCTTGTCCAACCATTCGAAA
Found at i:46805 original size:40 final size:40
Alignment explanation
Indices: 46758--46854 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
46748 ATGGCTAGTA
* * *
46758 CAGTAATAACATTACAGCGTTTACAGTTTCACTGCCAGTT
1 CAGTAATAACATTACAGCGTTTACAATGTCACTACCAGTT
* ** *
46798 C-GATAATAGCATTGTAGTGTTTACAATGTCACTACCAGTT
1 CAG-TAATAACATTACAGCGTTTACAATGTCACTACCAGTT
*
46838 CAGTAATAATATTACAG
1 CAGTAATAACATTACAG
46855 TCATTCCAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (40 bp):
CAGTAATAACATTACAGCGTTTACAATGTCACTACCAGTT
Found at i:53304 original size:21 final size:21
Alignment explanation
Indices: 53278--53319 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53268 CATTATAGTG
*
53278 TTAAACA-TCGAATGGCAACCA
1 TTAAACACT-GAATGACAACCA
53299 TTAAACACTGAATGACAACCA
1 TTAAACACTGAATGACAACCA
53320 CATATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (21 bp):
TTAAACACTGAATGACAACCA
Found at i:61308 original size:56 final size:56
Alignment explanation
Indices: 61235--61363 Score: 177
Period size: 56 Copynumber: 2.3 Consensus size: 56
61225 TTAGTTCCCA
* * *
61235 AAACAATATGCACACACGGTCTAACACACGCCCCTGTGTTCAACCCGTGTGTCACT
1 AAACAGTATGCACACACGGTCTAACACACGCCCATGTGTTCAACCCGTGTATCACT
* * * * * *
61291 AAATAGTATGTACACACGGTCTAGCACATGCCTATGTGTTCAACCCTTGTATCACT
1 AAACAGTATGCACACACGGTCTAACACACGCCCATGTGTTCAACCCGTGTATCACT
61347 AAACAGTATGCACACAC
1 AAACAGTATGCACACAC
61364 AGCCGTGGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (56 bp):
AAACAGTATGCACACACGGTCTAACACACGCCCATGTGTTCAACCCGTGTATCACT
Found at i:63838 original size:13 final size:13
Alignment explanation
Indices: 63816--63859 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
63806 GGTTGGTTTG
63816 ATTAACTGATTTT
1 ATTAACTGATTTT
* *
63829 ATTAATTGATTTG
1 ATTAACTGATTTT
**
63842 ACCAACTGATTTT
1 ATTAACTGATTTT
63855 ATTAA
1 ATTAA
63860 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (13 bp):
ATTAACTGATTTT
Found at i:68165 original size:8 final size:8
Alignment explanation
Indices: 68123--68164 Score: 75
Period size: 8 Copynumber: 5.2 Consensus size: 8
68113 TAAGTGGTGT
68123 TGGAGTCA
1 TGGAGTCA
68131 TGGAGTCA
1 TGGAGTCA
68139 TGGAGTCA
1 TGGAGTCA
68147 TGGAGTCA
1 TGGAGTCA
*
68155 TGTAGTCA
1 TGGAGTCA
68163 TG
1 TG
68165 TTAGGGTGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.29
Consensus pattern (8 bp):
TGGAGTCA
Found at i:68668 original size:15 final size:15
Alignment explanation
Indices: 68648--68677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68638 TGTTGTTTAA
68648 TCCTAAAATCAGATT
1 TCCTAAAATCAGATT
68663 TCCTAAAATCAGATT
1 TCCTAAAATCAGATT
68678 ATTCAGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
TCCTAAAATCAGATT
Found at i:68992 original size:47 final size:47
Alignment explanation
Indices: 68932--69064 Score: 137
Period size: 47 Copynumber: 2.9 Consensus size: 47
68922 TTATTTAGGG
* * * *
68932 TTATTTTGTGTTTATTCGAATTTGATGTCGA-TATTGATTGTGATTTT
1 TTATTTAGGGTTTATTCGATTTTGATGTCGATTATT-ATTGTCATTTT
* * * *
68979 TTATTTAGGGTTTATTCGATTTTAATTTGGATTATTATTTTCATTTT
1 TTATTTAGGGTTTATTCGATTTTGATGTCGATTATTATTGTCATTTT
* *
69026 TTATTTAGGG-TTATTTCGATTTTGAT-TGGATTATGATTG
1 TTATTTAGGGTTTA-TTCGATTTTGATGTCGATTATTATTG
69065 CTACTGTTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 14 0.19
47 55 0.75
48 4 0.05
ACGTcount: A:0.20, C:0.04, G:0.18, T:0.58
Consensus pattern (47 bp):
TTATTTAGGGTTTATTCGATTTTGATGTCGATTATTATTGTCATTTT
Found at i:68999 original size:23 final size:24
Alignment explanation
Indices: 68973--69048 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 24
68963 TATTGATTGT
68973 GATTTTTTATTTAGGGTTTA-TTC
1 GATTTTTTATTTAGGGTTTATTTC
* *
68996 GA-TTTTAATTT-GGATTATTATTTTC
1 GATTTTTTATTTAGG-GT-TTA-TTTC
69021 -ATTTTTTATTTAGGG-TTATTTC
1 GATTTTTTATTTAGGGTTTATTTC
69043 GATTTT
1 GATTTT
69049 GATTGGATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
21 2 0.05
22 13 0.31
23 13 0.31
24 1 0.02
25 11 0.26
26 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.14, T:0.62
Consensus pattern (24 bp):
GATTTTTTATTTAGGGTTTATTTC
Found at i:69133 original size:14 final size:14
Alignment explanation
Indices: 69114--69140 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69104 TTTGTTATTC
69114 ACATATTTTGGTTA
1 ACATATTTTGGTTA
69128 ACATATTTTGGTT
1 ACATATTTTGGTT
69141 TAGGGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (14 bp):
ACATATTTTGGTTA
Found at i:69485 original size:3 final size:3
Alignment explanation
Indices: 69477--69528 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
69467 TAATTTACAC
69477 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
69525 TTA T
1 TTA T
69529 ATGTTAAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:77048 original size:56 final size:56
Alignment explanation
Indices: 76962--77068 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
76952 AAAAGACACA
* *
76962 TAATGTCAGGGATATACTGCAGATTAAATTCTCGAAAAGTATGGAGGAATTGCGAG
1 TAATGTCAGGGATATACTACAAATTAAATTCTCGAAAAGTATGGAGGAATTGCGAG
77018 TAATGTCAGGGATATACTACAAATTAAATTCTCGAAAAGTATGGAGGAATT
1 TAATGTCAGGGATATACTACAAATTAAATTCTCGAAAAGTATGGAGGAATT
77069 TACTACTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (56 bp):
TAATGTCAGGGATATACTACAAATTAAATTCTCGAAAAGTATGGAGGAATTGCGAG
Found at i:79768 original size:32 final size:33
Alignment explanation
Indices: 79727--79804 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
79717 TTAATATAAC
*
79727 ATTTGGTACCTAAACTTGACTC-TTTTTTCCTA
1 ATTTGGTACCTAAACTTGACCCTTTTTTTCCTA
79759 ATTTGGTACCTAAACTTGACCCTTTTTTTCCTA
1 ATTTGGTACCTAAACTTGACCCTTTTTTTCCTA
79792 ATTTGGTACCTAA
1 ATTTGGTACCTAA
79805 TTTTTTTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 21 0.48
33 23 0.52
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (33 bp):
ATTTGGTACCTAAACTTGACCCTTTTTTTCCTA
Found at i:88850 original size:15 final size:15
Alignment explanation
Indices: 88832--88867 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
88822 TTTTTCTCAA
88832 ATTTTCTCTCTCATG
1 ATTTTCTCTCTCATG
88847 ATTTTCTCTCTCATG
1 ATTTTCTCTCTCATG
*
88862 ACTTTC
1 ATTTTC
88868 AAAAGAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTTTCTCTCTCATG
Found at i:89404 original size:66 final size:67
Alignment explanation
Indices: 89332--89465 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 67
89322 TCTATTGATA
*
89332 AATAAAATACGTGATAATGCTTAAATATGACATAC-TTTGGATATTAAATATATATATTTTTAGA
1 AATAAAATACGTGATAATGCTTAAATATGACATACTTTTGGATATTAAATAGATATATTTTTAGA
89396 GT
66 GT
89398 AATAAAATACGTGATAATGCTTAAATATGACATACTTTTGGATATTAAATAGATATATTTTTAGA
1 AATAAAATACGTGATAATGCTTAAATATGACATACTTTTGGATATTAAATAGATATATTTTTAGA
89463 GT
66 GT
89465 A
1 A
89466 TAATCCTATT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 35 0.53
67 31 0.47
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (67 bp):
AATAAAATACGTGATAATGCTTAAATATGACATACTTTTGGATATTAAATAGATATATTTTTAGA
GT
Found at i:90513 original size:22 final size:21
Alignment explanation
Indices: 90488--90547 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
90478 TCGACTTGCT
90488 TATTTTTTATTTCTTTTAATTA
1 TATTTTTTATTT-TTTTAATTA
*
90510 TATTTTCTT-TTATTTTTAATTC
1 TATTTT-TTATT-TTTTTAATTA
90532 TATTTCTTCTATTTTT
1 TATTT-TT-TATTTTT
90548 CCTCAGATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 22 0.69
23 8 0.25
24 2 0.06
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (21 bp):
TATTTTTTATTTTTTTAATTA
Found at i:90525 original size:21 final size:21
Alignment explanation
Indices: 90501--90547 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
90491 TTTTTATTTC
*
90501 TTTTAATTATATTTTCTTTTAT
1 TTTTAATTATA-TTTCTTCTAT
*
90523 TTTTAATTCTATTTCTTCTAT
1 TTTTAATTATATTTCTTCTAT
90544 TTTT
1 TTTT
90548 CCTCAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTAATTATATTTCTTCTAT
Found at i:98082 original size:3 final size:3
Alignment explanation
Indices: 98074--98105 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
98064 TATAAATTAG
98074 ATA ATA ATA ATA ATA ATA ATA ATA ATA CATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
98106 ATGCAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:98409 original size:15 final size:15
Alignment explanation
Indices: 98381--98415 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
98371 AATTCCTAAC
98381 ATAAT-TAATGCAAA
1 ATAATATAATGCAAA
*
98395 ATAATATAATTCAAA
1 ATAATATAATGCAAA
98410 ATAATA
1 ATAATA
98416 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAATATAATGCAAA
Found at i:98584 original size:37 final size:36
Alignment explanation
Indices: 98473--98585 Score: 92
Period size: 37 Copynumber: 3.1 Consensus size: 36
98463 TTTAACTAAT
* *
98473 AATTTTAATTTAAA-ATTTAATTATTTTTAAATGTGT
1 AATTTTAAATTAAATATTTAATTATTTTTAAATGT-A
* ** *
98509 AATTATCATAATT-TCTATTTTAA-T-TTTTTAAAT-AA
1 AATT-TTA-AATTAAATA-TTTAATTATTTTTAAATGTA
98544 AATTTTAAATTAAATATTATAATTATTTTTAAATGTA
1 AATTTTAAATTAAATATT-TAATTATTTTTAAATGTA
98581 AATTT
1 AATTT
98586 ACTAATACGA
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
33 6 0.10
34 7 0.12
35 5 0.09
36 13 0.22
37 17 0.29
38 5 0.09
39 5 0.09
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (36 bp):
AATTTTAAATTAAATATTTAATTATTTTTAAATGTA
Found at i:98961 original size:5 final size:5
Alignment explanation
Indices: 98953--99014 Score: 63
Period size: 5 Copynumber: 12.2 Consensus size: 5
98943 CAATTCAAAC
** * *
98953 ATTAA ATTAA ATTAA ATTAA ATTCAA ATCGA ATTATG A-TAA TTTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATT-AA ATTAA ATTA-A ATTAA ATTAA ATTAA
99004 ATTAA ATTAA A
1 ATTAA ATTAA A
99015 GTAAGGGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 41 0.89
6 5 0.11
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (5 bp):
ATTAA
Found at i:102841 original size:37 final size:37
Alignment explanation
Indices: 102791--102866 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
102781 AATTAATTAA
102791 TTTTTATATAAATTTTAATAAATACATTTATTATATC
1 TTTTTATATAAATTTTAATAAATACATTTATTATATC
*
102828 TTTTTATATAAATTTTAATAAATATATTTATTATATC
1 TTTTTATATAAATTTTAATAAATACATTTATTATATC
102865 TT
1 TT
102867 CTTTTCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTTTATATAAATTTTAATAAATACATTTATTATATC
Found at i:105216 original size:96 final size:96
Alignment explanation
Indices: 105050--105223 Score: 230
Period size: 96 Copynumber: 1.8 Consensus size: 96
105040 TTGATTATCA
* * * *
105050 CGATTTGAAGAAAGGTCGCACCTAGTAAGTTAAGGCGCAATATTTCGGAATCGAAGATAAGGAAA
1 CGATTTGAAGAAAGATCGCACCTAGTAAGTTAAGGCGCAATATTTCGAAATCGAAAATAAAGAAA
105115 CATTGCCTCGATTAAGGGTATTCGATTATTT
66 CATTGCCTCGATTAAGGGTATTCGATTATTT
*
105146 CGATTTGAAGAGAA-ATTGCACCTAGTAAGTTAAGGCGCAA-ATTTTCGAAACTC-AAAATGAAA
1 CGATTTGAAGA-AAGATCGCACCTAGTAAGTTAAGGCGCAATA-TTTCGAAA-TCGAAAAT-AAA
*
105208 G-AATATTGCCTCGATT
62 GAAACATTGCCTCGATT
105224 TTAAAGTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
95 1 0.01
96 60 0.88
97 7 0.10
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (96 bp):
CGATTTGAAGAAAGATCGCACCTAGTAAGTTAAGGCGCAATATTTCGAAATCGAAAATAAAGAAA
CATTGCCTCGATTAAGGGTATTCGATTATTT
Found at i:105464 original size:30 final size:30
Alignment explanation
Indices: 105429--105491 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
105419 ATCGGAGTTC
* *
105429 AAAATGAGACTTTTCGGATTCTCG-GGGGTA
1 AAAATGAGAATTTT-GGATTCTCGAGGGGCA
*
105459 AAAATGATAATTTTGGATTCTCGAGGGGCA
1 AAAATGAGAATTTTGGATTCTCGAGGGGCA
105489 AAA
1 AAA
105492 CGATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (30 bp):
AAAATGAGAATTTTGGATTCTCGAGGGGCA
Found at i:105476 original size:29 final size:29
Alignment explanation
Indices: 105429--105503 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
105419 ATCGGAGTTC
* *
105429 AAAATGAGACTTTTCGGATTCTCG-GGGGTA
1 AAAATGATAATTTT-GGATTCTCGAGGGG-A
*
105459 AAAATGATAATTTTGGATTCTCGAGGGGC
1 AAAATGATAATTTTGGATTCTCGAGGGGA
*
105488 AAAACGATAATTTTGG
1 AAAATGATAATTTTGG
105504 GAAAATTCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAATGATAATTTTGGATTCTCGAGGGGA
Found at i:105603 original size:59 final size:59
Alignment explanation
Indices: 105547--105686 Score: 144
Period size: 59 Copynumber: 2.4 Consensus size: 59
105537 ATCCGGGGGT
*
105547 AAAACGGTAA-TTTTAGAAAGTTTC-GGAGTCAAAAATGGAATTTTGGGAAGTTCGGGGCTA
1 AAAACGG-AATTTTTAG-AAGTTTCAAG-GTCAAAAATGGAATTTTGGGAAGTTCGGGGCTA
* * * *
105607 AAAATGGAATTTTTAGAAGTTTCAAGGTTAAAAATGGAATTTT-GGAAATTCTAGGG-TCA
1 AAAACGGAATTTTTAGAAGTTTCAAGGTCAAAAATGGAATTTTGGGAAGTTC-GGGGCT-A
* *
105666 AAAATGGGATTTTTAGAAGTT
1 AAAACGGAATTTTTAGAAGTT
105687 AAGGGGTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
58 8 0.11
59 49 0.70
60 13 0.19
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (59 bp):
AAAACGGAATTTTTAGAAGTTTCAAGGTCAAAAATGGAATTTTGGGAAGTTCGGGGCTA
Found at i:105669 original size:29 final size:29
Alignment explanation
Indices: 105574--105678 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
105564 AAGTTTCGGA
105574 GTCAAAAATGGAATTTTGGGAAGTTC--GG
1 GTCAAAAATGGAATTTT-GGAAGTTCTAGG
* * *
105602 GGCTAAAAATGGAATTTTTAGAAGTT-TCAAG
1 GTC-AAAAATGGAA-TTTTGGAAGTTCT-AGG
* *
105633 GTTAAAAATGGAATTTTGGAAATTCTAGG
1 GTCAAAAATGGAATTTTGGAAGTTCTAGG
*
105662 GTCAAAAATGGGATTTT
1 GTCAAAAATGGAATTTT
105679 TAGAAGTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
28 2 0.03
29 42 0.69
30 15 0.25
31 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (29 bp):
GTCAAAAATGGAATTTTGGAAGTTCTAGG
Found at i:105691 original size:29 final size:29
Alignment explanation
Indices: 105605--106065 Score: 187
Period size: 30 Copynumber: 15.8 Consensus size: 29
105595 AGTTCGGGGC
* * *
105605 TAAAAATGGAATTTTTAGAAGTTTCAAGGT
1 TAAAAATGGGATTTTTAGAAGTTT-TAGGG
* * * *
105635 TAAAAAT-GGAATTTTGGAAATTCTAGGG
1 TAAAAATGGGATTTTTAGAAGTTTTAGGG
*
105663 TCAAAAATGGGATTTTTAGAAG-TTAAGGGG
1 T-AAAAATGGGATTTTTAGAAGTTTTA-GGG
* * * *
105693 TAAAAA-AGGATTTTTTTGGAAG-CTTCGGG
1 TAAAAATGGGA--TTTTTAGAAGTTTTAGGG
*
105722 ATAATAAATGGGATTTTTTAGAAG-TTTGGGG
1 -TAA-AAATGGGA-TTTTTAGAAGTTTTAGGG
* * *
105753 T-AAAAT----TTCTTGGAAGTTTTGGGG
1 TAAAAATGGGATTTTTAGAAGTTTTAGGG
*
105777 TTAAAAATGGGATTTTTAGAAGTTTAAGGG
1 -TAAAAATGGGATTTTTAGAAGTTTTAGGG
* *
105807 T-AAAATGGTAATTTTTAGAAGTTTTGGGG
1 TAAAAATGG-GATTTTTAGAAGTTTTAGGG
* **
105836 TTAAAAATGGGACTTTTAGAAGTTTGGGGG
1 -TAAAAATGGGATTTTTAGAAGTTTTAGGG
* * *
105866 T-AAAATGGTAATTTTTGGAAGTTTTTGGG
1 TAAAAATGG-GATTTTTAGAAGTTTTAGGG
* * * * **
105895 TCAAAAATGGGACTTTTGGATGATTGGGGG
1 T-AAAAATGGGATTTTTAGAAGTTTTAGGG
* * * **
105925 TAAAAATAGAATTTTTTTGAAG-TTCGGGAG
1 TAAAAATGGGA-TTTTTAGAAGTTTTAGG-G
* *** *
105955 TAAAAATGGAATTTGCGGAAGTTTT-GAGA
1 TAAAAATGGGATTTTTAGAAGTTTTAG-GG
** * *
105984 TCGAAATGGGATTTTTGGAAG-TTCAGGGG
1 TAAAAATGGGATTTTTAGAAGTTTTA-GGG
* * * * *
106013 TAAAAATGGAAATTTTGGAAATTTTGGGG
1 TAAAAATGGGATTTTTAGAAGTTTTAGGG
* *
106042 TCGAAAATGGGATTTTTGGAAGTT
1 T-AAAAATGGGATTTTTAGAAGTT
106066 CGGAGGTAGA
Statistics
Matches: 328, Mismatches: 74, Indels: 58
0.71 0.16 0.13
Matches are distributed among these distances:
23 8 0.02
24 7 0.02
25 1 0.00
26 5 0.02
28 27 0.08
29 121 0.37
30 124 0.38
31 32 0.10
32 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.36
Consensus pattern (29 bp):
TAAAAATGGGATTTTTAGAAGTTTTAGGG
Found at i:105699 original size:59 final size:56
Alignment explanation
Indices: 105578--105911 Score: 247
Period size: 59 Copynumber: 5.8 Consensus size: 56
105568 TTCGGAGTCA
* * *
105578 AAAATGGAATTTTGGGAAGTTC-GGGGCTAAAAATGGAATTTTTAGAAGTTTCAA-GGTT
1 AAAATGGAATTTT-GGAAGTTCTGGGTC-AAAAATGGGATTTTTAGAAG-TT-AAGGGGT
*
105636 AAAAATGGAATTTTGGAAATTCTAGGGTCAAAAATGGGATTTTTAGAAGTTAAGGGGT
1 -AAAATGGAATTTTGGAAGTTCT-GGGTCAAAAATGGGATTTTTAGAAGTTAAGGGGT
* * *
105694 AAAAAAGGATTTTTTTGGAAGCTTC-GGGAT-AATAAATGGGATTTTTTAGAAGTT-TGGGGT
1 -AAAATGGA--ATTTTGGAAG-TTCTGGG-TCAA-AAATGGGA-TTTTTAGAAGTTAAGGGGT
* *
105754 AAAAT----TTCTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTAGAAGTTTAA-GGGT
1 AAAATGGAATT-TTGGAAGTTCT-GGGTCAAAAATGGGATTTTTAGAAG-TTAAGGGGT
* * * * **
105808 AAAATGGTAATTTTTAGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGT
1 AAAATGG-AA-TTTTGGAAGTTCT-GGGTCAAAAATGGGATTTTTAGAAGTTAAGGGGT
* *
105867 AAAATGGTAATTTTTGGAAGTTTTTGGGTCAAAAATGGGACTTTT
1 AAAATGG-AA-TTTTGGAAG-TTCTGGGTCAAAAATGGGATTTTT
105912 GGATGATTGG
Statistics
Matches: 235, Mismatches: 17, Indels: 46
0.79 0.06 0.15
Matches are distributed among these distances:
53 14 0.06
54 27 0.11
55 5 0.02
57 2 0.01
58 22 0.09
59 118 0.50
60 32 0.14
61 15 0.06
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (56 bp):
AAAATGGAATTTTGGAAGTTCTGGGTCAAAAATGGGATTTTTAGAAGTTAAGGGGT
Found at i:105940 original size:59 final size:59
Alignment explanation
Indices: 105756--105929 Score: 258
Period size: 59 Copynumber: 2.9 Consensus size: 59
105746 TTTGGGGTAA
* **
105756 AATTTCTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTAGAAGTTTAAGGGTAAAATGGT
1 AATTT-TTGGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAATGGT
*
105816 AATTTTTAGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAATGGT
1 AATTTTTGGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAATGGT
* * * * *
105875 AATTTTTGGAAGTTTTTGGGTCAAAAATGGGACTTTTGGATGATTGGGGGTAAAA
1 AATTTTTGGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAA
105930 ATAGAATTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 99 0.95
60 5 0.05
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (59 bp):
AATTTTTGGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAATGGT
Found at i:105960 original size:59 final size:58
Alignment explanation
Indices: 105756--105963 Score: 204
Period size: 59 Copynumber: 3.5 Consensus size: 58
105746 TTTGGGGTAA
* * * ** *
105756 AATTTCTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTAGAAGTTTAAGGGTAAAATGGT
1 AATTT-TTGGAAGTTTCGGGG-TAAAAATGGGACTTTTAGAAGATTGGGGGTAAAATAGT
* * * *
105816 AATTTTTAGAAGTTTTGGGGTTAAAAATGGGACTTTTAGAAGTTTGGGGGTAAAATGGT
1 AATTTTTGGAAGTTTCGGGG-TAAAAATGGGACTTTTAGAAGATTGGGGGTAAAATAGT
** * *
105875 AATTTTTGGAAGTTTTTGGGTCAAAAATGGGACTTTTGGATGATTGGGGGTAAAAATAG-
1 AATTTTTGGAAGTTTCGGGGT-AAAAATGGGACTTTTAGAAGATTGGGGGT-AAAATAGT
*
105934 AATTTTTTTGAAG-TTCGGGAGTAAAAATGG
1 AA-TTTTTGGAAGTTTCGGG-GTAAAAATGG
105964 AATTTGCGGA
Statistics
Matches: 131, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
58 1 0.01
59 108 0.82
60 22 0.17
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.37
Consensus pattern (58 bp):
AATTTTTGGAAGTTTCGGGGTAAAAATGGGACTTTTAGAAGATTGGGGGTAAAATAGT
Found at i:106016 original size:58 final size:59
Alignment explanation
Indices: 105937--106068 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 59
105927 AAAATAGAAT
* *
105937 TTTTTTGAAGTTCGGGAGTAAAAATGG-AATTTGCGGAAGTTTTGAGATCG-AAATGGGA
1 TTTTTGGAAGTTCGGGAGTAAAAATGGAAATTT-CGGAAATTTTGAGATCGAAAATGGGA
* * *
105995 TTTTTGGAAGTTCAGGG-GTAAAAATGGAAATTTTGGAAATTTTGGGGTCGAAAATGGGA
1 TTTTTGGAAGTTC-GGGAGTAAAAATGGAAATTTCGGAAATTTTGAGATCGAAAATGGGA
106054 TTTTTGGAAGTTCGG
1 TTTTTGGAAGTTCGG
106069 AGGTAGAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
58 37 0.56
59 29 0.44
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.34
Consensus pattern (59 bp):
TTTTTGGAAGTTCGGGAGTAAAAATGGAAATTTCGGAAATTTTGAGATCGAAAATGGGA
Found at i:107186 original size:19 final size:20
Alignment explanation
Indices: 107161--107209 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
107151 TTTTCGTTTT
107161 TTTATTATTATTCATT-AATA
1 TTTATTATTATT-ATTAAATA
*
107181 -TTATTAATATTATTAAATA
1 TTTATTATTATTATTAAATA
107200 TTTATTATTA
1 TTTATTATTA
107210 ATAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATTATTATTATTAAATA
Found at i:107214 original size:17 final size:17
Alignment explanation
Indices: 107165--107218 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
107155 CGTTTTTTTA
* *
107165 TTATTATTCATTAATATT
1 TTATTATTAATAAATA-T
* *
107183 ATTAATATTATTAAATAT
1 -TTATTATTAATAAATAT
107201 TTATTATTAATAAATAT
1 TTATTATTAATAAATAT
107218 T
1 T
107219 ATGAAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 16 0.55
18 1 0.03
19 12 0.41
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTATTAATAAATAT
Found at i:108025 original size:18 final size:17
Alignment explanation
Indices: 107984--108112 Score: 159
Period size: 17 Copynumber: 7.4 Consensus size: 17
107974 TTTTAACTTT
* *
107984 ATTTAAATTTATAGTAA
1 ATTTAAATTTAAAATAA
*
108001 TTTTAAATTTGAAAATAA
1 ATTTAAATTT-AAAATAA
*
108019 ATTTAAACTTAAAATAA
1 ATTTAAATTTAAAATAA
*
108036 ATTTAAATTCAAAATAA
1 ATTTAAATTTAAAATAA
108053 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
108070 ATTTAAATTTTTAAACAA
1 ATTTAAA-TTTAAAATAA
*
108088 ATTTAATTTCTAAAATAA
1 ATTTAAATT-TAAAATAA
108106 ATTTAAA
1 ATTTAAA
108113 GGGAGTTCGA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
17 56 0.59
18 39 0.41
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:108067 original size:7 final size:6
Alignment explanation
Indices: 107984--108079 Score: 67
Period size: 6 Copynumber: 16.7 Consensus size: 6
107974 TTTTAACTTT
* * * * *
107984 ATTTAA ATTTAT A-GTAA TTTTAA ATTTGAA A-ATAA ATTTAA ACTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA
* * * *
108031 A-ATAA ATTTAA ATTCAA A-ATAA ATTTAA ATTTAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
108076 ATTT
1 ATTT
108080 TTAAACAAAT
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
5 16 0.24
6 48 0.72
7 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:108090 original size:52 final size:52
Alignment explanation
Indices: 107984--108112 Score: 161
Period size: 52 Copynumber: 2.5 Consensus size: 52
107974 TTTTAACTTT
* * * * *
107984 ATTTAAATTTATAGTAATTTTAAATTTGAAAATAAATTTAAACTTAAAATAA
1 ATTTAAATTCAAAATAAATTTAAATTTGAAAATAAATTTAAACTTAAAACAA
* *
108036 ATTTAAATTCAAAATAAATTTAAATTT-AAAATAAATTTAAATTTTTAAACAA
1 ATTTAAATTCAAAATAAATTTAAATTTGAAAATAAATTTAAA-CTTAAAACAA
*
108088 ATTTAATTTCTAAAATAAATTTAAA
1 ATTTAAATTC-AAAATAAATTTAAA
108113 GGGAGTTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 14 0.21
52 39 0.58
53 14 0.21
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (52 bp):
ATTTAAATTCAAAATAAATTTAAATTTGAAAATAAATTTAAACTTAAAACAA
Found at i:110871 original size:6 final size:6
Alignment explanation
Indices: 110860--110895 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
110850 TTTTCCTCCT
*
110860 TGTGGA TGTGGA TGTGGA TGTGGA TGTGGA GGTGGA
1 TGTGGA TGTGGA TGTGGA TGTGGA TGTGGA TGTGGA
110896 ATGTTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.31
Consensus pattern (6 bp):
TGTGGA
Found at i:116688 original size:51 final size:54
Alignment explanation
Indices: 116581--116688 Score: 177
Period size: 51 Copynumber: 2.1 Consensus size: 54
116571 GATTGCCACC
116581 TAACTATAAAAACATATAAATATATTTCTCTTTTATTGAATTATAAAAAAAGGG
1 TAACTATAAAAACATATAAATATATTTCTCTTTTATTGAATTATAAAAAAAGGG
* *
116635 TAACTATAAAAACATATAAATATA-TT-T-TTTTATTGAATTATAAAAGAATGG
1 TAACTATAAAAACATATAAATATATTTCTCTTTTATTGAATTATAAAAAAAGGG
116686 TAA
1 TAA
116689 AACTTTAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
51 25 0.48
52 1 0.02
53 2 0.04
54 24 0.46
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (54 bp):
TAACTATAAAAACATATAAATATATTTCTCTTTTATTGAATTATAAAAAAAGGG
Found at i:119407 original size:31 final size:27
Alignment explanation
Indices: 119372--119434 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
119362 CTATTTTGTC
*
119372 AAAGACTAAATTAACCCTATTTGATTACTGA
1 AAAGAC-AAACTAACCCTATTT-ATT-CT-A
*
119403 AAAGACAAGCTAACCCTATTTATTCTA
1 AAAGACAAACTAACCCTATTTATTCTA
119430 AAAGA
1 AAAGA
119435 TTCGTGAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.20
28 2 0.07
29 3 0.10
30 13 0.43
31 6 0.20
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAGACAAACTAACCCTATTTATTCTA
Found at i:128609 original size:31 final size:30
Alignment explanation
Indices: 128555--128629 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 30
128545 CTAAAAAGGT
* *
128555 ATTTTTTTAATATTTTAATATTTAATATTATA
1 ATTTTTTTTATTTTTTAATATTTAA-ATT-TA
*
128587 GTTTTTTTTATTTTTTAA-ATTTAAATTTA
1 ATTTTTTTTATTTTTTAATATTTAAATTTA
*
128616 AATTTTTTTATTTT
1 ATTTTTTTTATTTT
128630 AATTGCCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 14 0.37
30 3 0.08
31 6 0.16
32 15 0.39
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (30 bp):
ATTTTTTTTATTTTTTAATATTTAAATTTA
Found at i:131709 original size:30 final size:30
Alignment explanation
Indices: 131666--131758 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
131656 TATTTTATTT
*
131666 AAAACTTCAATTTTAACCCCCAAACTTTCC
1 AAAACATCAATTTTAACCCCCAAACTTTCC
* * * **
131696 AAAACATCGATTTTGACCCTCAAACTTTTT
1 AAAACATCAATTTTAACCCCCAAACTTTCC
* * *
131726 AAAA-ATCATTTTTTAA-ACCCAAACTCTCC
1 AAAACATCA-ATTTTAACCCCCAAACTTTCC
131755 AAAA
1 AAAA
131759 ATTGCATTTT
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
29 15 0.31
30 33 0.69
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAACATCAATTTTAACCCCCAAACTTTCC
Found at i:134183 original size:49 final size:49
Alignment explanation
Indices: 134121--134662 Score: 231
Period size: 50 Copynumber: 11.0 Consensus size: 49
134111 GAAGATGTTG
* * * *
134121 TGGGAATGATTGAGGCCGCAACAACGAATCTAGCACCATGAAGATATGA
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGA
* * * * * * *
134170 TGGGAAAGGTTGAGGCCGCAATGGCGAACCCAATACC-TGAGAAGATGTTA
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCTAGTACCAT--GAAGATATGA
* *
134220 TGGG-AAGGATTGAGGCCGCAACAACAAATCTAGTACCATGAAGATATGA
1 TGGGAAAGG-TTGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGA
* * * * *
134269 AGGGAAAGGTTGAGGCCACAACGACGAACCTAGTACCTTAGAAGATGCT-A
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCTAGTACCAT-GAAGAT-ATGA
* * * * * *
134319 TGGG-AAGAATTGAGGTCGCAACGGCGAATCTGGTACCATTAAGATATAA
1 TGGGAAAG-GTTGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGA
* * ** * * * *
134368 AGGGAAAGGTTGAGGCCACAACGGTGAA-CTCGGTACCTTAGAAGATGTTA
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCT-AGTACCAT-GAAGATATGA
* ** * * * * * * * *
134418 TAGG-AAGGATTGAGGCCATAATGGCAAATATGGTACCATAAATATATTAA
1 TGGGAAAGG-TTGAGGCCGCAACGACGAATCTAGTACCATGAAGATA-TGA
*** * ** * * *
134468 T-GGAAAGGTTGAGATTGCAACGGA-GAACCCGGTACCTTAGAAGATGTTA
1 TGGGAAAGGTTGAGGCCGCAAC-GACGAATCTAGTACCAT-GAAGATATGA
* * * * * *
134517 TGGG-AAGGATTGAGGTCGTAACGGCGAATTTGGTACCATGAAAATATGA
1 TGGGAAAGG-TTGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGA
* * * ** * *
134566 AGGGAAAGGTTGAGGCTGCAACGGCGAA-CCCGATACCTTAGAAGATGTGA
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCTAG-TACCAT-GAAGATATGA
* * * * * * *
134616 TGGAAAAGATCGAGACCGCAACGGCGGATCTAGTACCATGAAAATAT
1 TGGGAAAGGTTGAGGCCGCAACGACGAATCTAGTACCATGAAGATAT
134663 AAAGAGGAGC
Statistics
Matches: 361, Mismatches: 107, Indels: 50
0.70 0.21 0.10
Matches are distributed among these distances:
48 5 0.01
49 174 0.48
50 177 0.49
51 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (49 bp):
TGGGAAAGGTTGAGGCCGCAACGACGAATCTAGTACCATGAAGATATGA
Found at i:134200 original size:99 final size:99
Alignment explanation
Indices: 134073--134662 Score: 649
Period size: 99 Copynumber: 6.0 Consensus size: 99
134063 GGAGATAAAA
** * *
134073 GGAAAGGTTGAGGCCGCAACGGTTAACCCAATACCTTAGAAGATGTTGTGGGAATGATTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
** * *
134138 GCAACAACGAATCTAGCACCATGAAGATATGATG
66 GCAACGGCGAATCTAGTACCATGAAGATATGAAG
* *
134172 GGAAAGGTTGAGGCCGCAATGGCGAACCCAATACCTGAGAAGATGTTATGGGAAGGATTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
** *
134237 GCAACAACAAATCTAGTACCATGAAGATATGAAG
66 GCAACGGCGAATCTAGTACCATGAAGATATGAAG
* * * * * * *
134271 GGAAAGGTTGAGGCCACAACGACGAACCTAGTACCTTAGAAGATGCTATGGGAAGAATTGAGGTC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
* * *
134336 GCAACGGCGAATCTGGTACCATTAAGATATAAAG
66 GCAACGGCGAATCTAGTACCATGAAGATATGAAG
* * * ** *
134370 GGAAAGGTTGAGGCCACAACGGTGAACTCGGTACCTTAGAAGATGTTATAGGAAGGATTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
** * * * * * * * *
134435 ATAATGGCAAATATGGTACCATAAATATATTAAT
66 GCAACGGCGAATCTAGTACCATGAAGATATGAAG
*** * ** *
134469 GGAAAGGTTGAGATTGCAACGGAGAACCCGGTACCTTAGAAGATGTTATGGGAAGGATTGAGGTC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
* * * *
134534 GTAACGGCGAATTTGGTACCATGAAAATATGAAG
66 GCAACGGCGAATCTAGTACCATGAAGATATGAAG
* * * * * * *
134568 GGAAAGGTTGAGGCTGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGAAAAGATCGAGACC
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
* *
134633 GCAACGGCGGATCTAGTACCATGAAAATAT
66 GCAACGGCGAATCTAGTACCATGAAGATAT
134663 AAAGAGGAGC
Statistics
Matches: 419, Mismatches: 72, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
99 419 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (99 bp):
GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTTAGAAGATGTTATGGGAAGGATTGAGGCC
GCAACGGCGAATCTAGTACCATGAAGATATGAAG
Found at i:136387 original size:30 final size:30
Alignment explanation
Indices: 136344--136401 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
136334 TATTTTATTT
* *
136344 AAAACTTCGATTTTGACCCCCAAACTTTCC
1 AAAACATCAATTTTGACCCCCAAACTTTCC
* *
136374 AAAACATCAATTTTGACCTCCGAACTTT
1 AAAACATCAATTTTGACCCCCAAACTTT
136402 TTTAAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (30 bp):
AAAACATCAATTTTGACCCCCAAACTTTCC
Found at i:136427 original size:28 final size:30
Alignment explanation
Indices: 136383--136606 Score: 142
Period size: 29 Copynumber: 7.6 Consensus size: 30
136373 CAAAACATCA
* *
136383 ATTTTGACCTCC-GAACTTTTTTAAAA-TAC
1 ATTTTGACC-CCTAAACTTTTTGAAAATTAC
* * *
136412 TTTTTGA-CCCTAAACTCTTTGAAAATTGC
1 ATTTTGACCCCTAAACTTTTTGAAAATTAC
** *
136441 ATTTTGACCCCTAAA-TTTTCCAAAATTTAT
1 ATTTTGACCCCTAAACTTTTTGAAAA-TTAC
* * * *
136471 ATTTTAACTCCTAAACTTTTTGAAAATCAT
1 ATTTTGACCCCTAAACTTTTTGAAAATTAC
* * **
136501 ATTTTGACCCC-AAAATTTTCT-ATAACTTTG
1 ATTTTGACCCCTAAACTTTT-TGA-AAATTAC
* * * *
136531 ATTTTGACCTC-AAACTTTCTAAAAATCAC
1 ATTTTGACCCCTAAACTTTTTGAAAATTAC
* *
136560 ATTTT-ATCCCTGAACTTTTTGAAAATTAC
1 ATTTTGACCCCTAAACTTTTTGAAAATTAC
*
136589 ATTTTAACCCC-AAACTTT
1 ATTTTGACCCCTAAACTTT
136607 CCAAATTTAT
Statistics
Matches: 147, Mismatches: 38, Indels: 20
0.72 0.19 0.10
Matches are distributed among these distances:
27 2 0.01
28 15 0.10
29 63 0.43
30 59 0.40
31 8 0.05
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTTTTGAAAATTAC
Found at i:136563 original size:29 final size:30
Alignment explanation
Indices: 136353--136607 Score: 139
Period size: 30 Copynumber: 8.7 Consensus size: 30
136343 TAAAACTTCG
* * *
136353 ATTTTGACCCCCAAACTTTCCAAAACATCA-
1 ATTTTGACCCCTAAACTTTCTAAAA-ATTAC
* * *
136383 ATTTTGACCTCC-GAACTTTTTTAAAA-TAC
1 ATTTTGACC-CCTAAACTTTCTAAAAATTAC
* * *
136412 TTTTTGA-CCCTAAACTCTT-TGAAAATTGC
1 ATTTTGACCCCTAAACT-TTCTAAAAATTAC
* * * *
136441 ATTTTGACCCCTAAATTTTCCAAAATTTAT
1 ATTTTGACCCCTAAACTTTCTAAAAATTAC
* * * * * *
136471 ATTTTAACTCCTAAACTTTTTGAAAATCAT
1 ATTTTGACCCCTAAACTTTCTAAAAATTAC
* * * * **
136501 ATTTTGACCCCAAAATTTTCTATAACTTTG
1 ATTTTGACCCCTAAACTTTCTAAAAATTAC
* *
136531 ATTTTGACCTC-AAACTTTCTAAAAATCAC
1 ATTTTGACCCCTAAACTTTCTAAAAATTAC
* * * *
136560 ATTTT-ATCCCTGAACTTTTTGAAAATTAC
1 ATTTTGACCCCTAAACTTTCTAAAAATTAC
*
136589 ATTTTAACCCC-AAACTTTC
1 ATTTTGACCCCTAAACTTTC
136608 CAAATTTATT
Statistics
Matches: 165, Mismatches: 51, Indels: 19
0.70 0.22 0.08
Matches are distributed among these distances:
27 2 0.01
28 14 0.08
29 61 0.37
30 86 0.52
31 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTTCTAAAAATTAC
Done.