Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011680.1 Kokia drynarioides strain JFW-HI SEQ_126672, 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: 152090
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 234 characters in sequence are not A, C, G, or T
Found at i:5942 original size:13 final size:13
Alignment explanation
Indices: 5924--5949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5914 CATGTCAAAT
5924 TAAAACCTTGTTA
1 TAAAACCTTGTTA
5937 TAAAACCTTGTTA
1 TAAAACCTTGTTA
5950 CAATATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TAAAACCTTGTTA
Found at i:6585 original size:19 final size:19
Alignment explanation
Indices: 6561--6598 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6551 AAAGTTTAAA
6561 AAAAATGAATTCAAAACAT
1 AAAAATGAATTCAAAACAT
*
6580 AAAAATGAGTTCAAAACAT
1 AAAAATGAATTCAAAACAT
6599 TCTGTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.21
Consensus pattern (19 bp):
AAAAATGAATTCAAAACAT
Found at i:7100 original size:81 final size:81
Alignment explanation
Indices: 6965--7129 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 81
6955 CTCTTACAAT
6965 TGAATCTGTGCAATCCACAATGGATTTCTTCAAATTTGTGTTCTCCGACGATGTACAACCCCAAA
1 TGAATCTGTGCAATCCACAATGGATTTCTTCAAATTTGTGTTCTCCGACGATGTACAACCCCAAA
7030 GCCCCCATCCACCTAC
66 GCCCCCATCCACCTAC
*
7046 TGAATCTGTGCAATCCACAATGGATTTCTTCAAATTTGTGTTCTCCGACGATGTACAATCCCAAA
1 TGAATCTGTGCAATCCACAATGGATTTCTTCAAATTTGTGTTCTCCGACGATGTACAACCCCAAA
7111 GCCCCCATCCACCTAC
66 GCCCCCATCCACCTAC
7127 TGA
1 TGA
7130 CCCGTCTCCG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (81 bp):
TGAATCTGTGCAATCCACAATGGATTTCTTCAAATTTGTGTTCTCCGACGATGTACAACCCCAAA
GCCCCCATCCACCTAC
Found at i:11069 original size:18 final size:18
Alignment explanation
Indices: 11046--11087 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
11036 GCATGTGGAG
11046 GGTTCGTATCTCTGTATA
1 GGTTCGTATCTCTGTATA
11064 GGTTCGTATCTCTGTATA
1 GGTTCGTATCTCTGTATA
11082 GGTTCG
1 GGTTCG
11088 CACATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43
Consensus pattern (18 bp):
GGTTCGTATCTCTGTATA
Found at i:15226 original size:19 final size:19
Alignment explanation
Indices: 15204--15253 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
15194 TTTTATAAGT
*
15204 TTTTTATATATTTTTTTAA
1 TTTTTATATATATTTTTAA
15223 TTTTTAT-T-TATTTTTAA
1 TTTTTATATATATTTTTAA
*
15240 TTTTT-TATAAATTT
1 TTTTTATATATATTT
15254 CAAATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 14 0.52
18 5 0.19
19 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATATATATTTTTAA
Found at i:15253 original size:11 final size:10
Alignment explanation
Indices: 15194--15249 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 10
15184 TTTTTTGAAC
15194 TTTTATAAGTT
1 TTTTATAA-TT
15205 TTTTATATATT
1 TTTTATA-ATT
15216 TTTT-TAA-T
1 TTTTATAATT
15224 TTTTAT--TT
1 TTTTATAATT
15232 ATTTT-TAATT
1 -TTTTATAATT
15242 TTTTATAA
1 TTTTATAA
15250 ATTTCAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 7 0.18
11 13 0.34
12 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:15455 original size:22 final size:23
Alignment explanation
Indices: 15412--15458 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
15402 TTTGAAACGT
*
15412 TAATGATTAAATTTAATTAAAAA
1 TAATGATTAAATTTAATAAAAAA
*
15435 TAATTATTAAA-TTAATAAAAAA
1 TAATGATTAAATTTAATAAAAAA
15457 TA
1 TA
15459 TAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TAATGATTAAATTTAATAAAAAA
Found at i:15466 original size:24 final size:23
Alignment explanation
Indices: 15417--15469 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
15407 AACGTTAATG
* *
15417 ATTAAATTTAATTAAAAATAATT
1 ATTAAATTTAATAAAAAATAAAT
15440 ATTAAA-TTAATAAAAAATATAAAT
1 ATTAAATTTAAT-AAAAA-ATAAAT
15464 ATTAAA
1 ATTAAA
15470 GAATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAAATTTAATAAAAAATAAAT
Found at i:19445 original size:12 final size:12
Alignment explanation
Indices: 19411--19445 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
19401 AAAGTTTCTT
19411 AAATAATATTTA
1 AAATAATATTTA
*
19423 AAAT-ATCTTTA
1 AAATAATATTTA
19434 AAATAATATTTA
1 AAATAATATTTA
19446 TTTTAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATAATATTTA
Found at i:23266 original size:58 final size:59
Alignment explanation
Indices: 23203--23391 Score: 183
Period size: 58 Copynumber: 3.2 Consensus size: 59
23193 TTCGGGGTTT
* * *
23203 AAAATGGAATTTTTAGACATTCAGGGGTAAAAGGGTAA-TTTTGAGAGTTTCGAGGTCG
1 AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGAGAGTTTCGAGGTCA
* * *
23261 AAAAT-GAAGTTTTTGGACATATGA-GGGCAAAATGGTAATTTTTGAAAGTTTCG-GGTCA
1 AAAATGGAA-TTTTTGGACAT-TCAGGGGTAAAATGGTAATTTTTGAGAGTTTCGAGGTCA
* * ** * * *
23319 AAAATGAAAATTTTGGAGGTTTAGGGGTAAAAATGG-AATTTTTG-GAAATCTCGAGGTCA
1 AAAATGGAATTTTTGGACATTCAGGGGT-AAAATGGTAATTTTTGAG-AGTTTCGAGGTCA
23378 AAAATGGAATTTTT
1 AAAATGGAATTTTT
23392 TAAAATTTTG
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
57 5 0.05
58 60 0.57
59 41 0.39
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (59 bp):
AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGAGAGTTTCGAGGTCA
Found at i:23320 original size:29 final size:28
Alignment explanation
Indices: 23288--23683 Score: 175
Period size: 29 Copynumber: 13.5 Consensus size: 28
23278 CATATGAGGG
23288 CAAAATGGTAATTTTTGAAAGTTTCGGGT
1 CAAAATGG-AATTTTTGAAAGTTTCGGGT
* * * * *
23317 CAAAAATGAAAATTTTGGAGGTTTAGGGGT
1 C-AAAATGGAATTTTTGAAAGTTT-CGGGT
* *
23347 AAAAATGGAATTTTTGGAAA-TCTCGAGGT
1 CAAAATGGAATTTTT-GAAAGTTTCG-GGT
* * *
23376 CAAAAATGGAATTTTTTAAAATTTTGGGGT
1 C-AAAATGGAA-TTTTTGAAAGTTTCGGGT
* *
23406 CAAAAAT-GAATTTTTTGGAAGTTTGGGGT
1 C-AAAATGGAA-TTTTTGAAAGTTTCGGGT
* * *
23435 AAAAATAGATTTTTTGGAAA-TTTCGAGGT
1 CAAAATGGAATTTTT-GAAAGTTTCG-GGT
* *
23464 CAAAAATGGAATTTTCGGAAG-TTCGATGGT
1 C-AAAATGGAATTTTTGAAAGTTTCG--GGT
* * *
23494 AAAAATGGAATTTTTTGAAAATTT-GCGAT
1 CAAAATGGAA-TTTTTGAAAGTTTCG-GGT
*
23523 CAAGAATGGAATTTTAGAAAG-TTCGGGGGT
1 CAA-AATGGAATTTTTGAAAGTTTC--GGGT
*
23553 AAAAACT-GAATTTTTGGAAA-TTTCGAGGTT
1 CAAAA-TGGAATTTTT-GAAAGTTTCG-GG-T
* * *
23583 AAAAATTG-ATTTTTGGAAG-TTCGGGGGGT
1 CAAAATGGAATTTTTGAAAGTTTC---GGGT
* * *
23612 AAAAATGGAATTTTTGGAAATTTTAGGGT
1 CAAAATGGAATTTTT-GAAAGTTTCGGGT
* *
23641 CAAAAAT-GAATTTTTGGAAGTTTCGAGTT
1 C-AAAATGGAATTTTTGAAAGTTTCG-GGT
*
23670 CAAAATGTAATTTT
1 CAAAATGGAATTTT
23684 CGGATAGTTT
Statistics
Matches: 280, Mismatches: 52, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
28 36 0.13
29 132 0.47
30 95 0.34
31 15 0.05
32 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (28 bp):
CAAAATGGAATTTTTGAAAGTTTCGGGT
Found at i:23390 original size:88 final size:87
Alignment explanation
Indices: 23289--23693 Score: 346
Period size: 88 Copynumber: 4.6 Consensus size: 87
23279 ATATGAGGGC
* *
23289 AAAATGGTAATTTTTGAAAGTTTCG-GGTCAAAAATGAAAATTTTGGAGGTTTAGGGGTAAAAAT
1 AAAATGG-AATTTTTGAAAGTTTCGAGGTCAAAAATGAAATTTTTGGAAGTTT-GGGGTAAAAAT
23353 GGAATTTTTGGAAATCTCGAGGTCA
64 GGAATTTTTGGAAAT-TCGAGGTCA
* * * * * *
23378 AAAATGGAATTTTTTAAAATTTTGGGGTCAAAAATGAATTTTTTGGAAGTTTGGGGTAAAAATAG
1 AAAATGGAATTTTTGAAAGTTTCGAGGTCAAAAATGAAATTTTTGGAAGTTTGGGGTAAAAATGG
*
23443 ATTTTTTGGAAATTTCGAGGTCA
66 AATTTTTGGAAA-TTCGAGGTCA
* * * * * * * *
23466 AAAATGGAATTTTCGGAAG-TTCGATGGT-AAAAATGGAATTTTTTGAAAATTTGCGATCAAGAA
1 AAAATGGAATTTTTGAAAGTTTCGA-GGTCAAAAAT-GAAATTTTTGGAAGTTTGGGGT-AAAAA
* *
23529 TGGAA-TTTTAGAAAGTTCGGGGGT-A
63 TGGAATTTTTGGAAA-TTC-GAGGTCA
* *
23554 AAAACT-GAATTTTTGGAAA-TTTCGAGGTTAAAAATTG--ATTTTTGGAAGTTCGGGGGGTAAA
1 AAAA-TGGAATTTTT-GAAAGTTTCGAGGTCAAAAA-TGAAATTTTTGGAAGTT--TGGGGTAAA
**
23615 AATGGAATTTTTGGAAATTTTAGGGTCA
61 AATGGAATTTTTGGAAATTCGA-GGTCA
* * * *
23643 AAAAT-GAATTTTTGGAAGTTTCGAGTTC-AAAATGTAATTTTCGGATAGTTT
1 AAAATGGAATTTTTGAAAGTTTCGAGGTCAAAAATGAAATTTTTGGA-AGTTT
23694 AGGGACCTCC
Statistics
Matches: 254, Mismatches: 42, Indels: 42
0.75 0.12 0.12
Matches are distributed among these distances:
86 2 0.01
87 26 0.10
88 147 0.58
89 78 0.31
90 1 0.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (87 bp):
AAAATGGAATTTTTGAAAGTTTCGAGGTCAAAAATGAAATTTTTGGAAGTTTGGGGTAAAAATGG
AATTTTTGGAAATTCGAGGTCA
Found at i:23405 original size:59 final size:58
Alignment explanation
Indices: 23289--23683 Score: 343
Period size: 59 Copynumber: 6.7 Consensus size: 58
23279 ATATGAGGGC
* * * ** *
23289 AAAATGGTAATTTTTGAAAGTTTCG-GGTCAAAAATGAAAATTTTGGAGGTTTAGGGGT-A
1 AAAATGG-AATTTTTGGAAG-TTCGAGGT-AAAAATGGAATTTTTGGAAATTTTGGGGTCA
* **
23348 AAAATGGAATTTTTGGAAATCTCGAGGTCAAAAATGGAATTTTTTAAAATTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGT-TCGAGGT-AAAAATGGAATTTTTGGAAATTTTGGGGTCA
* * * * * *
23408 AAAAT-GAATTTTTTGGAAGTTTGGGGTAAAAATAGATTTTTTGGAAATTTCGAGGTCA
1 AAAATGGAA-TTTTTGGAAGTTCGAGGTAAAAATGGAATTTTTGGAAATTTTGGGGTCA
* * * * *
23466 AAAATGGAATTTTCGGAAGTTCGATGGTAAAAATGGAATTTTTTGAAAATTTGCGATCA
1 AAAATGGAATTTTTGGAAGTTCGA-GGTAAAAATGGAATTTTTGGAAATTTTGGGGTCA
* * * * * * *
23525 AGAATGGAATTTTAGAAAGTTCGGGGGTAAAAACT-GAATTTTTGGAAATTTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTC-GAGGTAAAAA-TGGAATTTTTGGAAATTTTGGGGTCA
* * *
23584 AAAATTG-ATTTTTGGAAGTTCGGGGGGTAAAAATGGAATTTTTGGAAATTTTAGGGTCA
1 AAAATGGAATTTTTGGAAGTTC--GAGGTAAAAATGGAATTTTTGGAAATTTTGGGGTCA
* * *
23643 AAAAT-GAATTTTTGGAAGTTTCGAGTTCAAAATGTAATTTT
1 AAAATGGAATTTTTGGAAG-TTCGAGGTAAAAATGGAATTTT
23684 CGGATAGTTT
Statistics
Matches: 274, Mismatches: 50, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
57 1 0.00
58 84 0.31
59 168 0.61
60 21 0.08
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAAGTTCGAGGTAAAAATGGAATTTTTGGAAATTTTGGGGTCA
Found at i:24465 original size:12 final size:12
Alignment explanation
Indices: 24450--24519 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
24440 TCCTTTTTAT
24450 TTATTATTAATA
1 TTATTATTAATA
24462 TTATTAATGTCACAT-
1 TTATT-AT-T-A-ATA
* *
24477 TTATTATTACTG
1 TTATTATTAATA
*
24489 TTATTAATAATA
1 TTATTATTAATA
*
24501 TTATTAATAATA
1 TTATTATTAATA
24513 TTCATTA
1 TT-ATTA
24520 GGTTGTAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
11 1 0.02
12 29 0.60
13 7 0.15
14 3 0.06
15 6 0.12
16 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:25162 original size:17 final size:17
Alignment explanation
Indices: 25140--25198 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
25130 GACTTTTTTT
25140 AATAAATTTAAATTTAA
1 AATAAATTTAAATTTAA
* * *
25157 AATAAATTCAAACTCAA
1 AATAAATTTAAATTTAA
*
25174 AATAAATTTAAATTTAG
1 AATAAATTTAAATTTAA
25191 AATAAATT
1 AATAAATT
25199 CAAACTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:25222 original size:34 final size:34
Alignment explanation
Indices: 25140--25204 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
25130 GACTTTTTTT
25140 AATAAATTTAAATTTAAAATAAATTCAAACTCAA
1 AATAAATTTAAATTTAAAATAAATTCAAACTCAA
*
25174 AATAAATTTAAATTTAGAATAAATTCAAACT
1 AATAAATTTAAATTTAAAATAAATTCAAACT
25205 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (34 bp):
AATAAATTTAAATTTAAAATAAATTCAAACTCAA
Found at i:25857 original size:115 final size:115
Alignment explanation
Indices: 25669--25876 Score: 355
Period size: 115 Copynumber: 1.8 Consensus size: 115
25659 CACTTCTTCG
*
25669 TATCTTATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
1 TATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
* *
25734 GGGGTTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATACTTCTCTA
66 GGGATTCGAAGATTTGCTCACACCGAGCCCTGAGTTGGTATACTTCTCTA
* *
25784 TATCTCATCAGGAAGCTAACCATTTTATTGCTTCG-CCTTGCTTCTCAGTATCTCATCAGGAAGT
1 TATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACC-TGCTTCTCAGTATCTCATCAGGAAGC
25848 TGGGATTCGAAGATTTGCTCACACCGAGC
65 TGGGATTCGAAGATTTGCTCACACCGAGC
25877 ATGGGTTTGA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 2 0.02
115 85 0.98
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (115 bp):
TATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
GGGATTCGAAGATTTGCTCACACCGAGCCCTGAGTTGGTATACTTCTCTA
Found at i:26174 original size:206 final size:206
Alignment explanation
Indices: 25775--26281 Score: 715
Period size: 206 Copynumber: 2.5 Consensus size: 206
25765 GAGTTGGTAT
**
25775 ACTTCTCTA-TATCTCATCAGGAAGCTAACCATTTTATTGCTTCG-CCTTGCTTCTCAGTATCTC
1 ACTTCT-TAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC-CACTTCTCAGTATCTC
*
25838 ATCAGGAAGTTGGGATTCGAAGATTTGCTCACACCGAGCATGGGTTTGATTTGGTCTTATTCTCA
64 ATCAGGAAGTTGGAATTCGAAGATTTGCTCACACCGAGCATGGGTTTGATTTGGTCTTATTCTCA
* *
25903 GTATCTCATCAGGAAGATGATCGCATCGTTTGTTTCAATCCGCTTCTCTGTATCTTATCAGGAAG
129 GTATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATCCACTTCTCTGTATCTTATCAGGAAG
25968 ACGAATTTGGTTC
194 ACGAATTTGGTTC
* * *
25981 GCTTCTTAGTATCTTATCAGGAAGCTAACCATTTTATTGCTTCGACCCACTTCTTAGTATCTCAT
1 ACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCAT
*
26046 CAGGAAGTTGGAATTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTC-TACTTCTCAG
66 CAGGAAGTTGGAATTCGAAGATTTGCTCACACCGAGCATGGGTTTGATTTGGTCTTA-TTCTCAG
* * * * *
26110 TATCTTATCAGGAAGATGA-C-CATGTCGCTTGTTTTAATCCACTTTTCTGTGT-TTCATTAGGA
130 TATCTCATCAGGAAGATGATCGCA--TCGCTTGTTTCAATCCACTTCTCTGTATCTT-ATCAGGA
26172 AGACGAATTTGGTTC
192 AGACGAATTTGGTTC
** *
26187 ACTTCTCCGTATCTCATCAAGG-AGCTAACCACTTTATTGCTTCGACCCACTTCTCAGTATCTCA
1 ACTTCTTAGTATCTCATC-AGGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCA
* *
26251 TCAAGAAGCT-GAGATTCGAAGATTTGCTCAC
65 TCAGGAAGTTGGA-ATTCGAAGATTTGCTCAC
26282 CTTTGAGTTG
Statistics
Matches: 271, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
204 2 0.01
205 9 0.03
206 255 0.94
207 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (206 bp):
ACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCCACTTCTCAGTATCTCAT
CAGGAAGTTGGAATTCGAAGATTTGCTCACACCGAGCATGGGTTTGATTTGGTCTTATTCTCAGT
ATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATCCACTTCTCTGTATCTTATCAGGAAGAC
GAATTTGGTTC
Found at i:26648 original size:101 final size:101
Alignment explanation
Indices: 26522--26717 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 101
26512 GATACTGTAG
* * * * *
26522 TTTTATTCCAACTTTGCTGTAACTTCAAAAAGATAGGATTTGATGTTGAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTTACTGTAACTTCAAAAAGATAGGAATTGATGTTAAAGCTTCATCTCGCTCT
26587 CACTACAACTTCAGAGAAATAAAAACTTGCTATTGT
66 CACTACAACTTCAGAGAAATAAAAACTTGCTATTGT
* * * *
26623 TTTTAATCCGACTTTACTGTGACTTCAAGAGGATAGGAATTGATGTTAAAGCTTCATCTCGCTCT
1 TTTTAATCCAACTTTACTGTAACTTCAAAAAGATAGGAATTGATGTTAAAGCTTCATCTCGCTCT
** * * *
26688 TGCTGCAACTTCAGAGAGATAAAGACTTGC
66 CACTACAACTTCAGAGAAATAAAAACTTGC
26718 CATTATAGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (101 bp):
TTTTAATCCAACTTTACTGTAACTTCAAAAAGATAGGAATTGATGTTAAAGCTTCATCTCGCTCT
CACTACAACTTCAGAGAAATAAAAACTTGCTATTGT
Found at i:26928 original size:50 final size:50
Alignment explanation
Indices: 26806--27043 Score: 170
Period size: 50 Copynumber: 4.8 Consensus size: 50
26796 TTCCAAGGTA
** * * *
26806 TCGTGGTACTGGATTTGCCGTTGC-AGCTTAAATATTTCTCTTCT-TATCT
1 TCGTGGTACTGGATCCGCCGTTGCGA-CTTAAATCTTTCCCTTTTGTATCT
* * ** * *
26855 TCTGAGGTTCACGATCCGTCGTTGCGACTTAAACCTTTCCCTTTTGTATCT
1 TC-GTGGTACTGGATCCGCCGTTGCGACTTAAATCTTTCCCTTTTGTATCT
* * * *
26906 TTGTGGTACTGGATCTGCCGTTGCG-GTCTAGATCTTTCCCTTTATG--TCT
1 TCGTGGTACTGGATCCGCCGTTGCGACT-TAAATCTTTCCCTTT-TGTATCT
* * * *
26955 TCGAGGTACTAGG-TCCACCATTGCGACTTAAATCTTT-CC--TTGTGTCT
1 TCGTGGTACT-GGATCCGCCGTTGCGACTTAAATCTTTCCCTTTTGTATCT
* * *
27002 TCGTGGTACTAGATCCGCCGTTGTGACTTAGATCTTTCCCTT
1 TCGTGGTACTGGATCCGCCGTTGCGACTTAAATCTTTCCCTT
27044 CATGTCTTCG
Statistics
Matches: 142, Mismatches: 34, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 32 0.23
48 4 0.03
49 31 0.22
50 62 0.44
51 9 0.06
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.40
Consensus pattern (50 bp):
TCGTGGTACTGGATCCGCCGTTGCGACTTAAATCTTTCCCTTTTGTATCT
Found at i:27013 original size:47 final size:47
Alignment explanation
Indices: 26950--27040 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
26940 TTTCCCTTTA
*
26950 TGTCTTCGAGGTACTAGGTCCACCATTGCGACTTAAATCTTTCCTTG
1 TGTCTTCGAGGTACTAGATCCACCATTGCGACTTAAATCTTTCCTTG
* * * * *
26997 TGTCTTCGTGGTACTAGATCCGCCGTTGTGACTTAGATCTTTCC
1 TGTCTTCGAGGTACTAGATCCACCATTGCGACTTAAATCTTTCC
27041 CTTCATGTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (47 bp):
TGTCTTCGAGGTACTAGATCCACCATTGCGACTTAAATCTTTCCTTG
Found at i:27037 original size:96 final size:98
Alignment explanation
Indices: 26876--27053 Score: 245
Period size: 96 Copynumber: 1.8 Consensus size: 98
26866 CGATCCGTCG
* * * *
26876 TTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGGATCTGCCGTTGCGGTCTAGATCT
1 TTGCGACTTAAACCTTTCCC-TTTGTATCTTCGTGGTACTAGATCCGCCGTTGCGCTCTAGATCT
*
26941 TTCCCTTTATGTCTTCGAGGTACTAGGTCCACCA
65 TTCCCTTCATGTCTTCGAGGTACTAGGTCCACCA
* * *
26975 TTGCGACTTAAATCTTT-CC-TTGTGTCTTCGTGGTACTAGATCCGCCGTTGTGACT-TAGATCT
1 TTGCGACTTAAACCTTTCCCTTTGTATCTTCGTGGTACTAGATCCGCCGTTGCG-CTCTAGATCT
27037 TTCCCTTCATGTCTTCG
65 TTCCCTTCATGTCTTCG
27054 CGACACTAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
96 51 0.73
97 1 0.01
98 2 0.03
99 16 0.23
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (98 bp):
TTGCGACTTAAACCTTTCCCTTTGTATCTTCGTGGTACTAGATCCGCCGTTGCGCTCTAGATCTT
TCCCTTCATGTCTTCGAGGTACTAGGTCCACCA
Found at i:27063 original size:49 final size:48
Alignment explanation
Indices: 26867--27088 Score: 169
Period size: 49 Copynumber: 4.6 Consensus size: 48
26857 TGAGGTTCAC
* * * * * * * *
26867 GATCCGTCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTG
1 GATCCGCCATTGCGACTTAGATCTTTCCCTTATG--TCTTCGAGGTACTA
* * *
26917 GATCTGCCGTTGCG-GTCTAGATCTTTCCCTTTATGTCTTCGAGGTACTA
1 GATCCGCCATTGCGACT-TAGATCTTTCCC-TTATGTCTTCGAGGTACTA
* * * * *
26966 GGTCCACCATTGCGACTTAAATCTTT-CCTTGTGTCTTCGTGGTACTA
1 GATCCGCCATTGCGACTTAGATCTTTCCCTTATGTCTTCGAGGTACTA
* * * **
27013 GATCCGCCGTTGTGACTTAGATCTTTCCCTTCATGTCTTCGCGACACTA
1 GATCCGCCATTGCGACTTAGATCTTTCCCTT-ATGTCTTCGAGGTACTA
** *
27062 GATTTGCCATTGCGGCTTAGATCTTTC
1 GATCCGCCATTGCGACTTAGATCTTTC
27089 TAGTCATGTC
Statistics
Matches: 136, Mismatches: 31, Indels: 11
0.76 0.17 0.06
Matches are distributed among these distances:
47 38 0.28
48 6 0.04
49 65 0.48
50 23 0.17
51 4 0.03
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (48 bp):
GATCCGCCATTGCGACTTAGATCTTTCCCTTATGTCTTCGAGGTACTA
Found at i:27072 original size:96 final size:97
Alignment explanation
Indices: 26876--27088 Score: 232
Period size: 96 Copynumber: 2.2 Consensus size: 97
26866 CGATCCGTCG
* * * * *
26876 TTGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGGTACTGGATCTGCCGTTGCGGTCTAGATCT
1 TTGCGACTTAAATCTTT-CC-TTTGTATCTTCGTGGTACTAGATCCGCCGTTGCGCTCTAGATCT
* ** *
26941 TTCCCTTTATGTCTTCGAGGTACTAGGTCCACCA
64 TTCCCTTCATGTCTTCGAGACACTAGATCCACCA
* *
26975 TTGCGACTTAAATCTTTCC-TTGTGTCTTCGTGGTACTAGATCCGCCGTTGTGACT-TAGATCTT
1 TTGCGACTTAAATCTTTCCTTTGTATCTTCGTGGTACTAGATCCGCCGTTGCG-CTCTAGATCTT
* ***
27038 TCCCTTCATGTCTTCGCGACACTAGATTTGCCA
65 TCCCTTCATGTCTTCGAGACACTAGATCCACCA
* *
27071 TTGCGGCTTAGATCTTTC
1 TTGCGACTTAAATCTTTC
27089 TAGTCATGTC
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
96 77 0.80
97 1 0.01
98 2 0.02
99 16 0.17
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.39
Consensus pattern (97 bp):
TTGCGACTTAAATCTTTCCTTTGTATCTTCGTGGTACTAGATCCGCCGTTGCGCTCTAGATCTTT
CCCTTCATGTCTTCGAGACACTAGATCCACCA
Found at i:28431 original size:28 final size:31
Alignment explanation
Indices: 28399--28479 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
28389 GACCTCTCCC
*
28399 TTTTT-CTATT-TTTTTTATTTTTCTTCTTG
1 TTTTTGCTATTCTTTTTTATTTCTCTTCTTG
* *
28428 TTTTTGCTTTTCTTTTTTATTTCTCTTCTTC
1 TTTTTGCTATTCTTTTTTATTTCTCTTCTTG
* *
28459 TTCTT-CTTCTTCTTTTTTATT
1 TTTTTGC-TATTCTTTTTTATT
28480 GTATTTGAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 5 0.11
30 5 0.11
31 34 0.77
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (31 bp):
TTTTTGCTATTCTTTTTTATTTCTCTTCTTG
Found at i:28447 original size:31 final size:31
Alignment explanation
Indices: 28409--28479 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
28399 TTTTTCTATT
* * *
28409 TTTTTTATTTTTCTTCTTGTTTTTGCTT-TTC
1 TTTTTTATTTCTCTTCTTCTTCTT-CTTCTTC
28440 TTTTTTATTTCTCTTCTTCTTCTTCTTCTTC
1 TTTTTTATTTCTCTTCTTCTTCTTCTTCTTC
28471 TTTTTTATT
1 TTTTTTATT
28480 GTATTTGAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (31 bp):
TTTTTTATTTCTCTTCTTCTTCTTCTTCTTC
Found at i:34154 original size:29 final size:28
Alignment explanation
Indices: 34114--34371 Score: 166
Period size: 29 Copynumber: 8.8 Consensus size: 28
34104 ATCCGAGGGA
34114 AAAATGGTAATTTTTGAAAGTCTTTGGGTC
1 AAAATGG-AATTTTTGAAAGT-TTTGGGTC
* * *
34144 AAAATGGAATTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGAAAGTTT-TGGGTC
34173 AAAATGGAATTTTTGGAAA-TTTTGGGGTC
1 AAAATGGAATTTTT-GAAAGTTTT-GGGTC
* * *
34202 AAAATTGTAATTTTCGAAAGTTTGTGGGTA
1 AAAA-TGGAATTTTTGAAAGTTT-TGGGTC
*
34232 AAAATGGAAATTTTGGAAA-TTTTAGGGTC
1 AAAATGG-AATTTTTGAAAGTTTT-GGGTC
**
34261 AAGAATGGAATTTTTTG-AAGTTCGAGGGT-
1 AA-AATGGAA-TTTTTGAAAGTT-TTGGGTC
* * * *
34290 AAAATTGGATTTTTTGAAA-TTTCAAGGTTA
1 AAAA-TGGAATTTTTGAAAGTTT--TGGGTC
* **
34320 AAAATGGAATTTTTGGAAGTTTCAAGGTC
1 AAAATGGAATTTTTGAAAGTTT-TGGGTC
* *
34349 AAAATGTAATTTTCGAACAGTTT
1 AAAATGGAATTTTTGAA-AGTTT
34372 AGGGACCTTC
Statistics
Matches: 182, Mismatches: 27, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
28 13 0.07
29 101 0.55
30 67 0.37
31 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (28 bp):
AAAATGGAATTTTTGAAAGTTTTGGGTC
Found at i:34223 original size:59 final size:56
Alignment explanation
Indices: 34108--34361 Score: 244
Period size: 59 Copynumber: 4.4 Consensus size: 56
34098 TTGTACATCC
34108 GAGGG-AAAAATGGTAATTTTT-GAAAGTCTTTGGGTCAAAATGGAATTTTTGGAAGTTT
1 GAGGGTAAAAATGG-AATTTTTGGAAA-T-TTTGGGTCAAAATGGAATTTTT-GAAGTTT
* *
34166 GAGGGTAAAAATGGAATTTTTGGAAATTTTGGGGTCAAAATTGTAATTTTCGAAAGTTT
1 GAGGGTAAAAATGGAATTTTTGGAAATTTT-GGGTCAAAA-TGGAATTTTTG-AAGTTT
* * *
34225 GTGGGTAAAAATGGAAATTTTGGAAATTTTAGGGTCAAGAATGGAATTTTTTGAAGTTC
1 GAGGGTAAAAATGGAATTTTTGGAAATTTT-GGGTCAA-AATGGAA-TTTTTGAAGTTT
* * * * *
34284 GAGGGTAAAATTGG-ATTTTTTGAAATTTCAAGGTTAAAAATGGAATTTTTGGAAGTTT
1 GAGGGTAAAAATGGAATTTTTGGAAATTT--TGGGTCAAAATGGAATTTTT-GAAGTTT
* * * *
34342 CAAGGTCAAAATGTAATTTT
1 GAGGGTAAAAATGGAATTTT
34362 CGAACAGTTT
Statistics
Matches: 164, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
57 8 0.05
58 57 0.35
59 92 0.56
60 7 0.04
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (56 bp):
GAGGGTAAAAATGGAATTTTTGGAAATTTTGGGTCAAAATGGAATTTTTGAAGTTT
Found at i:38489 original size:11 final size:12
Alignment explanation
Indices: 38469--38493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38459 ACACATATAC
38469 TTTTATTTTTTT
1 TTTTATTTTTTT
38481 TTTTATTTTTTT
1 TTTTATTTTTTT
38493 T
1 T
38494 AGTTCGAAAA
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:39456 original size:30 final size:29
Alignment explanation
Indices: 39420--39696 Score: 281
Period size: 30 Copynumber: 9.3 Consensus size: 29
39410 TTTAACCCCC
*
39420 AAACTTTTCAAAAATTACATTTTGACTCCT
1 AAACTTTTCCAAAATTACATTTTGAC-CCT
39450 AAACTTTTCCAAAATTACATTTTGACACCT
1 AAACTTTTCCAAAATTACATTTTGAC-CCT
* *
39480 AAAC--TTCCAAAATTATATTTTAACCCTT
1 AAACTTTTCCAAAATTACATTTTGACCC-T
* * * * *
39508 ATAA-TTTTTCAAATTTATATTGTAACCCCT
1 A-AACTTTTCCAAAATTACATTTTGA-CCCT
* * * *
39538 AAGCTTTTCCAAAATTTCATTTTAAACCCC
1 AAACTTTTCCAAAATTACATTTT-GACCCT
* * *
39568 AAACTTTTACAAAGTTACATTTTAATCCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
* *
39598 AAACTTTTCAAAAATTACATTTTGACCACC
1 AAACTTTTCCAAAATTACATTTTGACC-CT
39628 AAACTTTTCCAAAATTACATTTTGATCCCT
1 AAACTTTTCCAAAATTACATTTTGA-CCCT
39658 AAACTTTTCCAAAATTACATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTGACCC-T
*
39688 AAATTTTTC
1 AAACTTTTC
39697 TAATAACATA
Statistics
Matches: 209, Mismatches: 27, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.01
28 20 0.10
29 10 0.05
30 170 0.81
31 7 0.03
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.40
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTGACCCT
Found at i:39696 original size:90 final size:88
Alignment explanation
Indices: 39409--39696 Score: 323
Period size: 90 Copynumber: 3.2 Consensus size: 88
39399 CTAAAACATG
** * *
39409 TTTTAACCCCCAAACTTTTCAAAAATTACATTTTGACTCCTAAACTTTTCCAAAATTACATTTTG
1 TTTTAACCCTTAAATTTTTCAAAAATTACATTTTGAC-CCCAAACTTTTCCAAAATTACATTTTG
*
39474 ACACCTAAAC--TTCCAAAATTATA
65 AC-CCTAAACTTTTCCAAAATTACA
* * * * * *
39497 TTTTAACCCTTATAATTTTTC-AAATTTATATTGTAACCCCTAAGCTTTTCCAAAATTTCATTTT
1 TTTTAACCCTTA-AATTTTTCAAAAATTACATTTTGACCCC-AAACTTTTCCAAAATTACATTTT
* * * *
39561 AAACCCCAAACTTTTACAAAGTTACA
64 -GACCCTAAACTTTTCCAAAATTACA
*
39587 TTTTAATCCC-TAAACTTTTCAAAAATTACATTTTGACCACCAAACTTTTCCAAAATTACATTTT
1 TTTTAA-CCCTTAAATTTTTCAAAAATTACATTTTGACC-CCAAACTTTTCCAAAATTACATTTT
39651 GATCCCTAAACTTTTCCAAAATTACA
64 GA-CCCTAAACTTTTCCAAAATTACA
*
39677 TTTTGACCCTTAAATTTTTC
1 TTTTAACCCTTAAATTTTTC
39697 TAATAACATA
Statistics
Matches: 162, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
87 2 0.01
88 49 0.30
89 20 0.12
90 86 0.53
91 5 0.03
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (88 bp):
TTTTAACCCTTAAATTTTTCAAAAATTACATTTTGACCCCAAACTTTTCCAAAATTACATTTTGA
CCCTAAACTTTTCCAAAATTACA
Found at i:39723 original size:60 final size:57
Alignment explanation
Indices: 39396--39716 Score: 198
Period size: 60 Copynumber: 5.4 Consensus size: 57
39386 TCTCTAAACC
* * * *
39396 TTTCTAAAACATGTTTTAACCCCCAAACTTTTCAAAAATTACATTTTGACTCCTAAACTT
1 TTTCAAAAACATATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTGAC-CCTAAA-TT
* ** * * * *
39456 TTCCAAAATTACATTTTGACACCTAAAC--TTCCAAAATTATATTTTAACCCTTATAATT
1 TTTCAAAAACATATTTTAAC-CCTAAACTTTTCCAAAATTACATTTTGACCC-TA-AATT
*** * * * * *
39514 TTTCAAATTTATATTGTAACCCCTAAGCTTTTCCAAAATTTCATTTTAAACCCCAAACTT
1 TTTCAAAAACATATTTTAA-CCCTAAACTTTTCCAAAATTACATTTT-GACCCTAAA-TT
* *** * * *
39574 TTACAAAGTTACATTTTAATCCCTAAACTTTTCAAAAATTACATTTTGACCACCAAACTT
1 TTTCAAAAACATATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTGACC-CTAAA-TT
* * *
39634 TTCCAAAATTACAT-TTTGATCCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAATT
1 TTTCAAAA--ACATATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCC-TAAATT
* *
39693 TTTCTAATAACATATTTTGACCCT
1 TTTC-AAAAACATATTTTAACCCT
39717 CGAACTTCTT
Statistics
Matches: 204, Mismatches: 43, Indels: 29
0.74 0.16 0.11
Matches are distributed among these distances:
57 2 0.01
58 45 0.22
59 22 0.11
60 125 0.61
61 9 0.04
62 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (57 bp):
TTTCAAAAACATATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCCTAAATT
Found at i:43014 original size:49 final size:50
Alignment explanation
Indices: 42942--43421 Score: 307
Period size: 49 Copynumber: 9.8 Consensus size: 50
42932 TAATTACCAC
* *
42942 GAAGACATGAAGGGAAAGGTTTAAGTCGCAACGGAGAA-CTTGTACCTCA
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGAGAATCTTGTACCTCA
** *
42991 GAAGACATGAAGGGAAAGATTTAAGCCGCAAC-GACGAATCTAATACCAC-
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGA-GAATCTTGTACCTCA
** * ** * *
43040 GAAGTTAT-AGAGGGAAA-AGTTTAAGTCTTAACGGCA-AACCTTATACCTCA
1 GAAGACATGA-AGGGAAAGA-TTTAAGCCGCAACGG-AGAATCTTGTACCTCA
* * * *
43090 GAA-A-ATTAAGGGAAATATTTAAGCCACAAC-GATGAATCTAGTA-C-CA
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGA-GAATCTTGTACCTCA
* * * * *
43136 TGAGGACATGGAGGGAAAGGTTTAAGTCGCAACGGCA-AACCTTGTACCTCA
1 -GAAGACATGAAGGGAAAGATTTAAGCCGCAACGG-AGAATCTTGTACCTCA
* ** *
43187 GAA-ACATGAAGGAAAAGATTTAAGCCGCAACGGTA-AATCCAGTACCACA
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGG-AGAATCTTGTACCTCA
* * * * * *
43236 -AAGATATGGAGGGAAAGGTTTAAGTCGTAACGGTA-AACCTTGTACCTCA
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGG-AGAATCTTGTACCTCA
* ** * ** *
43285 AAAG-CAAAAAGGGAAAGATTTAAGCCGCAGC-GACGAATCCAGTACCAC-
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGA-GAATCTTGTACCTCA
* * * * * * *
43333 GAAGATATGAAGGGAAAGGTTTAAGTCGTAATGGCGAATCTTGTACCTCG
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGAGAATCTTGTACCTCA
* *
43383 GAAG-CATGAAGGGAAAGATTTAAGCCGCATCGGTGAATC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGAGAATC
43422 CAATACCATG
Statistics
Matches: 325, Mismatches: 81, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
46 3 0.01
47 5 0.02
48 36 0.11
49 254 0.78
50 23 0.07
51 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (50 bp):
GAAGACATGAAGGGAAAGATTTAAGCCGCAACGGAGAATCTTGTACCTCA
Found at i:43257 original size:98 final size:98
Alignment explanation
Indices: 42936--43499 Score: 634
Period size: 98 Copynumber: 5.8 Consensus size: 98
42926 CAAGTTTAAT
* *
42936 TACCACGAAGACATGAAGGGAAAGGTTTAAGTCGCAACGG-AGAA-CTTGTACCTCAGAAGACAT
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCA-AACCTTGTACCTCAGAA-ACAT
* * *
42999 GAAGGGAAAGATTTAAGCCGCAACGACGAATCTAA
64 GAAGGGAAAGATTTAAGCCGCAACGATGAATCCAG
* * * ** * *
43034 TACCACGAAGTTATAGAGGGAAAAGTTTAAGTCTTAACGGCAAACCTTATACCTCAGAAA-ATTA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGA
* * *
43098 AGGGAAATATTTAAGCCACAACGATGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGATGAATCCAG
* * *
43131 TACCATGAGGACATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGA
* * *
43196 AGGAAAAGATTTAAGCCGCAACGGTAAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGATGAATCCAG
* * * **
43229 TACCACAAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGTAAACCTTGTACCTCA-AAAGCAAA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAA-CATG
* *
43293 AAGGGAAAGATTTAAGCCGCAGCGACGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAACGATGAATCCAG
* * * * * * *
43327 TACCACGAAGATATGAAGGGAAAGGTTTAAGTCGTAATGGCGAATCTTGTACCTCGGAAGCATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGA
* * *
43392 AGGGAAAGATTTAAGCCGCATCGGTGAATCCAA
66 AGGGAAAGATTTAAGCCGCAACGATGAATCCAG
* * * * * * *
43425 TACCATGAAGATATAGAGGGAAAGG-TTACGATCGCAACGGCGAACCTGGTACCTTAGAATCATG
1 TACCACGAAGATATGGAGGGAAAGGTTTAAG-TCGCAACGGCAAACCTTGTACCTCAGAAACATG
* *
43489 ACGAGAAAGAT
65 AAGGGAAAGAT
43500 CGAACCCACA
Statistics
Matches: 391, Mismatches: 69, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
97 90 0.23
98 285 0.73
99 16 0.04
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (98 bp):
TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGA
AGGGAAAGATTTAAGCCGCAACGATGAATCCAG
Found at i:45433 original size:23 final size:23
Alignment explanation
Indices: 45403--45487 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
45393 ACAAAGGATT
*
45403 GAGCACACAAAGTTCTAATTAGA
1 GAGCACACAAAGTGCTAATTAGA
*
45426 GAGCACACGAAGTGCTAATTAGA
1 GAGCACACAAAGTGCTAATTAGA
* * **
45449 AAGCACA-AGACGTGCTAAACAGA
1 GAGCACACA-AAGTGCTAATTAGA
* *
45472 TAGCACACACAGTGCT
1 GAGCACACAAAGTGCT
45488 GAATAGTAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 49 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATTAGA
Found at i:46129 original size:11 final size:11
Alignment explanation
Indices: 46102--46132 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
46092 TCAGTCTCTA
46102 ATGATTTTTCT
1 ATGATTTTTCT
46113 AT-ATTTTTCT
1 ATGATTTTTCT
46123 ATGATTTTTC
1 ATGATTTTTC
46133 AAAGTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (11 bp):
ATGATTTTTCT
Found at i:47984 original size:11 final size:11
Alignment explanation
Indices: 47957--47987 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
47947 TCAGTCTCTA
47957 ATGATTTTTCT
1 ATGATTTTTCT
47968 AT-ATTTTTCT
1 ATGATTTTTCT
47978 ATGATTTTTC
1 ATGATTTTTC
47988 AAAGTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (11 bp):
ATGATTTTTCT
Found at i:54431 original size:22 final size:22
Alignment explanation
Indices: 54401--54551 Score: 158
Period size: 22 Copynumber: 6.5 Consensus size: 22
54391 ACGCTAACGC
54401 GCTTACTGTTTAGCACTGTGTGT
1 GCTT-CTGTTTAGCACTGTGTGT
* *
54424 GCTTCTGTTTAGCACTGGGTAT
1 GCTTCTGTTTAGCACTGTGTGT
*
54446 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTTAGCACTGTGTGT
* *
54468 GCTTCTGTTTCCTCAACATTGTGTGT
1 GCTTCTG-TT--T-AGCACTGTGTGT
54494 GCTTCTGTTTCCCCAGCACTGTGTGT
1 GCTTCTGTTT----AGCACTGTGTGT
*
54520 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTTAGCACTGTGTGT
*
54542 GCTTTTGTTT
1 GCTTCTGTTT
54552 CCTAGCAGTT
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
22 62 0.57
23 7 0.06
25 2 0.02
26 37 0.34
ACGTcount: A:0.10, C:0.22, G:0.25, T:0.44
Consensus pattern (22 bp):
GCTTCTGTTTAGCACTGTGTGT
Found at i:54497 original size:26 final size:26
Alignment explanation
Indices: 54458--54553 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
54448 TTCTGTTCAG
*
54458 CACTGTGTGTGCTTCTGTTTCCTCAA
1 CACTGTGTGTGCTTCTGTTTCCCCAA
* *
54484 CATTGTGTGTGCTTCTGTTTCCCCAG
1 CACTGTGTGTGCTTCTGTTTCCCCAA
*
54510 CACTGTGTGTGCTTCTG-TT---CAG
1 CACTGTGTGTGCTTCTGTTTCCCCAA
*
54532 CACTGTGTGTGCTTTTGTTTCC
1 CACTGTGTGTGCTTCTGTTTCC
54554 TAGCAGTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
22 19 0.31
23 2 0.03
25 2 0.03
26 39 0.63
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (26 bp):
CACTGTGTGTGCTTCTGTTTCCCCAA
Found at i:54534 original size:74 final size:70
Alignment explanation
Indices: 54417--54554 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 70
54407 TGTTTAGCAC
54417 TGTGTGTGCTTCTGTTTAGCACTGGGTATGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTTCCTC
1 TGTGTGTGCTTCTGTTTAGCACTGGGTATGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTTCCTC
54482 AACAT
66 AACAT
* * *
54487 TGTGTGTGCTTCTGTTTCCCCAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTTTGTTT
1 TGTGTGTGCTTCTGTTT----AGCACTGGGTATGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTT
54552 CCT
62 CCT
54555 AGCAGTTATG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
70 17 0.28
74 44 0.72
ACGTcount: A:0.09, C:0.22, G:0.25, T:0.44
Consensus pattern (70 bp):
TGTGTGTGCTTCTGTTTAGCACTGGGTATGCTTCTGTTCAGCACTGTGTGTGCTTCTGTTTCCTC
AACAT
Found at i:59424 original size:22 final size:22
Alignment explanation
Indices: 59392--59516 Score: 169
Period size: 22 Copynumber: 5.5 Consensus size: 22
59382 AACGCTAGCA
*
59392 TGCTTACTGTTCAGCACTGTGTG
1 TGCTT-CTGTTCAGCACTGGGTG
* *
59415 TGCTTCTGTTCAGCATTGAGTG
1 TGCTTCTGTTCAGCACTGGGTG
59437 TGCTTCTGTTCAGCACTGGGTG
1 TGCTTCTGTTCAGCACTGGGTG
59459 TGCTTCTGTTCAGCACTGGGTG
1 TGCTTCTGTTCAGCACTGGGTG
*
59481 TGCTTCTGTTTCCCTAGCACTGTGTG
1 TGCTTCTG-TT--C-AGCACTGGGTG
59507 TGCTTCTGTT
1 TGCTTCTGTT
59517 TCCCAGCAGT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
22 65 0.70
23 7 0.08
25 3 0.03
26 18 0.19
ACGTcount: A:0.10, C:0.22, G:0.27, T:0.41
Consensus pattern (22 bp):
TGCTTCTGTTCAGCACTGGGTG
Found at i:62374 original size:51 final size:53
Alignment explanation
Indices: 62306--62437 Score: 180
Period size: 55 Copynumber: 2.5 Consensus size: 53
62296 ACAACCCCCT
*
62306 CCCC-CCTTGGAGGATTCATTATAG-C-AAAAAGAAATTAAAAGGATTGACAA
1 CCCCACCTTGGAGGATTCATTAGAGCCTAAAAAGAAATTAAAAGGATTGACAA
** **
62356 CCCCACCTTGGAGGATTCATTAGAGCCCCTTCATGGAAATTAAAAGGATTGACAA
1 CCCCACCTTGGAGGATTCATTAGAG--CCTAAAAAGAAATTAAAAGGATTGACAA
62411 CCCCACCTTGGAGGATTCATTAGAGCC
1 CCCCACCTTGGAGGATTCATTAGAGCC
62438 CCTTCATGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
50 4 0.06
51 19 0.26
53 2 0.03
54 1 0.01
55 46 0.64
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (53 bp):
CCCCACCTTGGAGGATTCATTAGAGCCTAAAAAGAAATTAAAAGGATTGACAA
Found at i:62407 original size:55 final size:55
Alignment explanation
Indices: 62336--62445 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
62326 ATAGCAAAAA
62336 GAAATTAAAAGGATTGACAACCCCACCTTGGAGGATTCATTAGAGCCCCTTCATG
1 GAAATTAAAAGGATTGACAACCCCACCTTGGAGGATTCATTAGAGCCCCTTCATG
62391 GAAATTAAAAGGATTGACAACCCCACCTTGGAGGATTCATTAGAGCCCCTTCATG
1 GAAATTAAAAGGATTGACAACCCCACCTTGGAGGATTCATTAGAGCCCCTTCATG
62446 ATTAAAAGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (55 bp):
GAAATTAAAAGGATTGACAACCCCACCTTGGAGGATTCATTAGAGCCCCTTCATG
Found at i:67110 original size:58 final size:58
Alignment explanation
Indices: 67035--67182 Score: 172
Period size: 58 Copynumber: 2.6 Consensus size: 58
67025 TAGTATAGAA
* * * *
67035 ATAATACAGTTACAGTTACAGATACAGACATGTCAGAGATACAGTTACAAATACAGTC
1 ATAATACAGATACAGTTACAGATGCAGACATGTCACAGATACAGTTACAAATACAGAC
* * * * ** *
67093 A-AATCATAGATACAGTTACAGATGCAGTCATGTCACCGATATAGTTACGGATGCAGAC
1 ATAAT-ACAGATACAGTTACAGATGCAGACATGTCACAGATACAGTTACAAATACAGAC
*
67151 ATGATACAGATACAGTTACAGATGCAGACATG
1 ATAATACAGATACAGTTACAGATGCAGACATG
67183 ATACCCCCAT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
57 3 0.04
58 69 0.93
59 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (58 bp):
ATAATACAGATACAGTTACAGATGCAGACATGTCACAGATACAGTTACAAATACAGAC
Found at i:67186 original size:29 final size:30
Alignment explanation
Indices: 67040--67184 Score: 154
Period size: 29 Copynumber: 5.0 Consensus size: 30
67030 TAGAAATAAT
* *
67040 ACAGTTACAGTTACAGATACAGACATG-TC
1 ACAGATACAGTTACAGATGCAGACATGATC
* * * * *
67069 AGAGATACAGTTACAAATACAGTCA-AATC
1 ACAGATACAGTTACAGATGCAGACATGATC
* *
67098 ATAGATACAGTTACAGATGCAGTCATG-TC
1 ACAGATACAGTTACAGATGCAGACATGATC
* * *
67127 ACCGATATAGTTACGGATGCAGACATGAT-
1 ACAGATACAGTTACAGATGCAGACATGATC
67156 ACAGATACAGTTACAGATGCAGACATGAT
1 ACAGATACAGTTACAGATGCAGACATGAT
67185 ACCCCCATAT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
29 95 0.99
30 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (30 bp):
ACAGATACAGTTACAGATGCAGACATGATC
Found at i:67293 original size:40 final size:40
Alignment explanation
Indices: 67249--67393 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
67239 GTATGACACG
67249 TTGCAGTGTTTACAGTGTCACTACCGGTTCAGTTATAATA
1 TTGCAGTGTTTACAGTGTCACTACCGGTTCAGTTATAATA
* * * * **
67289 TTGCAGT-TATTACAGTGTCATTGCCAGTTCA-TTGGTAACC
1 TTGCAGTGT-TTACAGTGTCACTACCGGTTCAGTT-ATAATA
* * * ** * *
67329 TTGCAATGTTGACAGTATCACTATTGATTCAGTTATAATG
1 TTGCAGTGTTTACAGTGTCACTACCGGTTCAGTTATAATA
*
67369 TTGCAGTGTTTACAGTGTCATTACC
1 TTGCAGTGTTTACAGTGTCACTACC
67394 AACTCAGTAA
Statistics
Matches: 77, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
39 3 0.04
40 71 0.92
41 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (40 bp):
TTGCAGTGTTTACAGTGTCACTACCGGTTCAGTTATAATA
Found at i:67951 original size:53 final size:53
Alignment explanation
Indices: 67842--67952 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 53
67832 TGTACCTACA
* * * * *
67842 CCCATGTGTCAGCCCATGTTCCCCAAAACAATATACACACACCTTGACATATG
1 CCCATGTGTAAGCCCATGTGCCCCAAAACAATATACACACACCTAGACACACG
* * * *
67895 CCCATGTGTAAGCTCATGTGCCTCAGAACAGTATACACACACCCTAG-CACACG
1 CCCATGTGTAAGCCCATGTGCCCCAAAACAATATACACACA-CCTAGACACACG
67948 CCCAT
1 CCCAT
67953 ATGCCAGCCC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
53 44 0.92
54 4 0.08
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.21
Consensus pattern (53 bp):
CCCATGTGTAAGCCCATGTGCCCCAAAACAATATACACACACCTAGACACACG
Found at i:74364 original size:21 final size:21
Alignment explanation
Indices: 74338--74382 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
74328 GATAAAAATT
74338 AAAATAA-AATAAAAATATAAA
1 AAAATAAGAAT-AAAATATAAA
**
74359 AAAATAAGAATTGAATATAAA
1 AAAATAAGAATAAAATATAAA
74380 AAA
1 AAA
74383 TCAAGGCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAATAAGAATAAAATATAAA
Found at i:75250 original size:24 final size:24
Alignment explanation
Indices: 75206--75251 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
75196 GAATTTTTTA
* *
75206 TTTAAAAATTATATTATAAATAAT
1 TTTAAAAATTATATGAAAAATAAT
*
75230 TTTAAATATTATATGAAAAATA
1 TTTAAAAATTATATGAAAAATA
75252 TAGATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTAAAAATTATATGAAAAATAAT
Found at i:77763 original size:22 final size:23
Alignment explanation
Indices: 77729--77772 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
77719 TTAAGTTTTG
* * *
77729 AAAGTAAACAAATTTATTTTTAA
1 AAAGTAAAAAAATATAATTTTAA
77752 AAAG-AAAAAAATATAATTTTA
1 AAAGTAAAAAAATATAATTTTA
77773 CCTTATATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
AAAGTAAAAAAATATAATTTTAA
Found at i:79281 original size:58 final size:57
Alignment explanation
Indices: 79092--79486 Score: 325
Period size: 58 Copynumber: 6.7 Consensus size: 57
79082 AATCGAGATA
* * ** *
79092 AAAAACGGAATTTTTGGACA-TTTAGGGGTAAAATGGTAAATTTTTAAGGGTTTTGAGGTC
1 AAAAATGGAATTTTTGGA-AGTTCAGGGGTAAAAT-GT-AA-TTTTAAAAGTTTCGAGGTC
* * * * *
79152 AAAAATTGAGTTTTTGGACA-TTCAGGGGTAAAATGGTAATTTTTGAAAGCTTCGAGGTT
1 AAAAATGGAATTTTTGGA-AGTTCAGGGGTAAAAT-GTAA-TTTTAAAAGTTTCGAGGTC
* ** * *
79211 ATAAATATAATTTTTGGAGGTTCAGGGGTAAAATGTAATTCTTGAAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGAAGTTCAGGGGTAAAATGTAATT-TTAAAAGTTTCGAGGTC
* * * *
79269 AAAAATGGAATTTTTGGTAGTCCAAGGGTAAAAATGTAATTTTCAAAAGTTTCAAGGTC
1 AAAAATGGAATTTTTGGAAGTTCAGGGGT-AAAATGTAATTTT-AAAAGTTTCGAGGTC
* *
79328 -AAAATGGAATTTTTGGAAGTTC-GAGGGTAAAAATGTAATTTTCAAAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAGTTCAG-GGGT-AAAATGTAATTTT-AAAAGTTTCGAGGTC
* ** * *
79386 -AAAATAGAATTTTTGGAAGTTCAGTGGCAAAAATGTAATTTTCAAAAGTTTCAAGGTT
1 AAAAATGGAATTTTTGGAAGTTCAG-GGGTAAAATGTAATTTT-AAAAGTTTCGAGGTC
* * * *
79444 AAAAAAGGTAA-TTTTGGAAATCCAGAGGTAAAAATGTAATTTT
1 AAAAATGG-AATTTTTGGAAGTTCAGGGGT-AAAATGTAATTTT
79487 TGAACAATGT
Statistics
Matches: 279, Mismatches: 47, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 141 0.51
59 101 0.36
60 35 0.13
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (57 bp):
AAAAATGGAATTTTTGGAAGTTCAGGGGTAAAATGTAATTTTAAAAGTTTCGAGGTC
Found at i:79303 original size:29 final size:29
Alignment explanation
Indices: 79152--79488 Score: 150
Period size: 29 Copynumber: 11.6 Consensus size: 29
79142 TTTTGAGGTC
* * *
79152 AAAAATTGAGTTTTTGGACA-TTCAGGGGT
1 AAAAATGGAATTTTTGGA-AGTTCAAGGGT
* * *
79181 -AAAATGGTAATTTTTGAAAGCTTCGAGGTT
1 AAAAATGG-AATTTTTGGAAG-TTCAAGGGT
* ** * *
79211 ATAAATATAATTTTTGGAGGTTCAGGGGT
1 AAAAATGGAATTTTTGGAAGTTCAAGGGT
* * * *
79240 -AAAATGTAATTCTTGAAAGTTTCGA-GGT
1 AAAAATGGAATTTTTGGAAG-TTCAAGGGT
* *
79268 CAAAAATGGAATTTTTGGTAGTCCAAGGGT
1 -AAAAATGGAATTTTTGGAAGTTCAAGGGT
* ***
79298 AAAAATGTAATTTTCAAAAGTTTCAA-GGT
1 AAAAATGGAATTTTTGGAAG-TTCAAGGGT
* *
79327 CAAAATGGAATTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTCAAGGGT
* *** ***
79356 AAAAATGTAATTTTCAAAAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTCAAGGGT
* * *
79385 CAAAATAGAATTTTTGGAAGTTC-AGTGGC
1 AAAAATGGAATTTTTGGAAGTTCAAG-GGT
* *** *
79414 AAAAATGTAATTTTCAAAAGTTTCAAGGTT
1 AAAAATGGAATTTTTGGAAG-TTCAAGGGT
* * *
79444 AAAAAAGGTAA-TTTTGGAA-ATCCAGAGGT
1 AAAAATGG-AATTTTTGGAAGTTCAAG-GGT
*
79473 AAAAATGTAATTTTTG
1 AAAAATGGAATTTTTG
79489 AACAATGTAG
Statistics
Matches: 218, Mismatches: 74, Indels: 32
0.67 0.23 0.10
Matches are distributed among these distances:
28 35 0.16
29 122 0.56
30 53 0.24
31 8 0.04
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCAAGGGT
Found at i:79418 original size:116 final size:117
Alignment explanation
Indices: 79090--79486 Score: 334
Period size: 117 Copynumber: 3.4 Consensus size: 117
79080 AAAATCGAGA
* ** *
79090 TAAAAAACGG-AATTTTTGGACA-TTTAGGGGT-AAAATGGTAAATTTTTAAGGGTTTTGAGGTC
1 TAAAAAA-GGTAATTTTTGGA-AGTTCA-GGGTAAAAAT-GT-AA-TTTTAAAAGTTTCGAGGTC
* * * ** ** * *
79152 AAAAATTGAGTTTTTGGACA-TTC-AGGGGTAAAATGGTAATTTTTGAAAGCTTCGAGGT
60 AAAAATAGAATTTTTGGA-AGTCCAAGGGCAAAAAT-GTAATTTTCAAAAGTTTCAAGGT
* * *
79210 TATAAATA--TAATTTTTGGAGGTTCAGGGGT-AAAATGTAATTCTTGAAAGTTTCGAGGTCAAA
1 TA-AAAAAGGTAATTTTTGGAAGTTCA-GGGTAAAAATGTAATT-TTAAAAGTTTCGAGGTCAAA
* * *
79272 AATGGAATTTTTGGTAGTCCAAGGGTAAAAATGTAATTTTCAAAAGTTTCAAGG-
63 AATAGAATTTTTGGAAGTCCAAGGGCAAAAATGTAATTTTCAAAAGTTTCAAGGT
* * * *
79326 TCAAAATGG-AATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTCAAAAGTTTTGGGGTC-AAA
1 TAAAAAAGGTAATTTTTGGAAGTTC-AGGGTAAAAATGTAATTTT-AAAAGTTTCGAGGTCAAAA
*
79389 ATAGAATTTTTGGAAGTTC-AGTGGCAAAAATGTAATTTTCAAAAGTTTCAAGGT
64 ATAGAATTTTTGGAAGTCCAAG-GGCAAAAATGTAATTTTCAAAAGTTTCAAGGT
* *
79443 TAAAAAAGGTAA-TTTTGGAAATCCAGAGGTAAAAATGTAATTTT
1 TAAAAAAGGTAATTTTTGGAAGTTCAG-GGTAAAAATGTAATTTT
79487 TGAACAATGT
Statistics
Matches: 230, Mismatches: 32, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
115 5 0.02
116 75 0.33
117 108 0.47
118 13 0.06
119 23 0.10
120 2 0.01
121 4 0.02
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (117 bp):
TAAAAAAGGTAATTTTTGGAAGTTCAGGGTAAAAATGTAATTTTAAAAGTTTCGAGGTCAAAAAT
AGAATTTTTGGAAGTCCAAGGGCAAAAATGTAATTTTCAAAAGTTTCAAGGT
Found at i:81333 original size:14 final size:15
Alignment explanation
Indices: 81310--81338 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81300 AATTTGGACA
81310 TGTAATTTGGACTTT
1 TGTAATTTGGACTTT
81325 TGTAA-TTGGACTTT
1 TGTAATTTGGACTTT
81339 ATAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (15 bp):
TGTAATTTGGACTTT
Found at i:81391 original size:17 final size:17
Alignment explanation
Indices: 81371--81414 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
81361 AAAATAAATT
81371 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
81388 TAAATCTAAATTTAAAA
1 TAAATTTAAATTTAAAA
81405 TAAATTTAAA
1 TAAATTTAAA
81415 AGGGATCCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:81403 original size:23 final size:24
Alignment explanation
Indices: 81355--81403 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
81345 ATTTTTTTTT
*
81355 AATTTGAAAATAAATTTAAATTTA
1 AATTTGAAAATAAATCTAAATTTA
81379 AATTT-AAAATAAATCTAAATTTA
1 AATTTGAAAATAAATCTAAATTTA
81402 AA
1 AA
81404 ATAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTTGAAAATAAATCTAAATTTA
Found at i:81405 original size:7 final size:6
Alignment explanation
Indices: 81365--81414 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
81355 AATTTGAAAA
* * *
81365 TAAATT TAAATT TAAATT TAAA-A TAAATC TAAATT TAAA-A TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
81411 TAAA
1 TAAA
81415 AGGGATCCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 8 0.22
6 29 0.78
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:82617 original size:6 final size:6
Alignment explanation
Indices: 82601--82678 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
82591 AAGCTTTGAT
* * ** *
82601 TTTAAA ATTAAG TTTAAA TTTATT TTTAAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
82648 TTTAAA TTTATCTT TTTAAA TTTAAA TTTAA
1 TTTAAA TTTA--AA TTTAAA TTTAAA TTTAA
82679 TCAAATTTGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
5 4 0.07
6 47 0.85
8 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:82629 original size:18 final size:18
Alignment explanation
Indices: 82608--82677 Score: 106
Period size: 17 Copynumber: 3.8 Consensus size: 18
82598 GATTTTAAAA
*
82608 TTAAGTTTAAATTTATTT
1 TTAAATTTAAATTTATTT
82626 TTAAATTTAAATTTA-TT
1 TTAAATTTAAATTTATTT
82643 TTAAATTTAAATTTATCTTT
1 TTAAATTTAAATTTA--TTT
82663 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
82678 ATCAAATTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
17 17 0.35
18 14 0.29
20 17 0.35
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TTAAATTTAAATTTATTT
Found at i:83475 original size:24 final size:24
Alignment explanation
Indices: 83448--83496 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
83438 CAAAACATTA
* *
83448 AATAAAGGTATTAATAATATTAAT
1 AATAAACGTATTAATAATAATAAT
* *
83472 AATAACCGTTTTAATAATAATAAT
1 AATAAACGTATTAATAATAATAAT
83496 A
1 A
83497 TTTTTAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (24 bp):
AATAAACGTATTAATAATAATAAT
Found at i:84732 original size:29 final size:29
Alignment explanation
Indices: 84633--84859 Score: 150
Period size: 30 Copynumber: 7.7 Consensus size: 29
84623 GGAGGTCCCT
* * *
84633 AAACTATCCAGAAATTATATTTTGACTCTC-
1 AAACT-TCCA-AAATTACATTTTTACCCTCG
*
84663 AAACTTCTCCAAATTACA-TTTTACCCTCG
1 AAACTTC-CAAAATTACATTTTTACCCTCG
* *
84692 -AACTTACAAAAATTCCATTTTTGA-CCTCG
1 AAACTT-CCAAAATTACATTTTT-ACCCTCG
84721 AAACTTCCAAAAATTACATTTTTACCCTCG
1 AAACTTCC-AAAATTACATTTTTACCCTCG
* *
84751 -AACCTCAAAAAAATT-CATTTTTTACCC-C-
1 AAACTTC--CAAAATTACA-TTTTTACCCTCG
* *
84779 AAAATTCCAAAAATTACATTCTTACCCTCG
1 AAACTTCC-AAAATTACATTTTTACCCTCG
* *
84809 -AACTTCCAAAATTCCATTTTTAATCC-CG
1 AAACTTCCAAAATTACATTTTT-ACCCTCG
*
84837 AAACTTTCGAAAATTATCATTTT
1 AAAC-TTCCAAAATTA-CATTTT
84860 ATCCTTGGAT
Statistics
Matches: 156, Mismatches: 21, Indels: 39
0.72 0.10 0.18
Matches are distributed among these distances:
28 48 0.31
29 48 0.31
30 54 0.35
31 6 0.04
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAACTTCCAAAATTACATTTTTACCCTCG
Found at i:84732 original size:30 final size:29
Alignment explanation
Indices: 84673--84830 Score: 173
Period size: 30 Copynumber: 5.5 Consensus size: 29
84663 AAACTTCTCC
*
84673 AAATTACA-TTTTACCCTCGAACTTACAA
1 AAATTACATTTTTACCCTCGAACTTCCAA
*
84701 AAATTCCATTTTTGA-CCTCGAAACTTCCAA
1 AAATTACATTTTT-ACCCTCG-AACTTCCAA
* *
84731 AAATTACATTTTTACCCTCGAACCTCAAAA
1 AAATTACATTTTTACCCTCGAACTTC-CAA
* *
84761 AAATT-CATTTTTTACCC-CAAAATTCCAA
1 AAATTACA-TTTTTACCCTCGAACTTCCAA
*
84789 AAATTACATTCTTACCCTCGAACTTCC-A
1 AAATTACATTTTTACCCTCGAACTTCCAA
*
84817 AAATTCCATTTTTA
1 AAATTACATTTTTA
84831 ATCCCGAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
28 35 0.32
29 31 0.29
30 42 0.39
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATTACATTTTTACCCTCGAACTTCCAA
Found at i:84735 original size:58 final size:59
Alignment explanation
Indices: 84652--85041 Score: 265
Period size: 58 Copynumber: 6.6 Consensus size: 59
84642 AGAAATTATA
*
84652 TTTTGACTCTC-AAACTTCTC-CAAATTA-CATTTTACCCTCGAACT-TACAAAAATTCCAT
1 TTTTGAC-CTCGAAACTTC-CAAAAATTACCATTTTACCCTCGAACTGT-CAAAAATTCCAT
*
84710 TTTTGACCTCGAAACTTCCAAAAATTA-CATTTTTACCCTCGAAC-CTCAAAAAAATT-CAT
1 TTTTGACCTCGAAACTTCCAAAAATTACCA-TTTTACCCTCGAACTGTC--AAAAATTCCAT
* * * *
84769 TTTTTACC-CCAAAATTCCAAAAATTA-CATTCTTACCCTCGAACT-TCCAAAATTCCAT
1 TTTTGACCTCGAAACTTCCAAAAATTACCATT-TTACCCTCGAACTGTCAAAAATTCCAT
* * * * * * * *
84826 TTTTAATCC-CGAAACTTTCGAAAATTATCATTTTATCCTTGGA-TGTCTAAAAACTCCATTT
1 TTTTGA-CCTCGAAACTTCCAAAAATTACCATTTTACCCTCGAACTGTC-AAAAATTCCA--T
* * * * * * *
84887 TTTTTATCTCGAACCTTTCAAAATTTACCATTTTACCC-CCAGA-TGTCTAAAAACTCCAT
1 TTTTGACCTCGAAACTTCCAAAAATTACCATTTTACCCTCGA-ACTGTC-AAAAATTCCAT
* * * *
84946 TTTTGATC-CAAAACCTTCCAAAAATTACCATTTTACCC-CAAAATGTCCAAAAATTCCAT
1 TTTTGACCTCGAAA-CTTCCAAAAATTACCATTTTACCCTCGAACTGT-CAAAAATTCCAT
** * *
85005 TTTTGACCTCGAGCCTTTC-AAAATTACCATTTCACCC
1 TTTTGACCTCGAAACTTCCAAAAATTACCATTTTACCC
85042 CCGAGCGTCC
Statistics
Matches: 273, Mismatches: 38, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
56 6 0.02
57 15 0.05
58 102 0.37
59 93 0.34
60 11 0.04
61 46 0.17
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (59 bp):
TTTTGACCTCGAAACTTCCAAAAATTACCATTTTACCCTCGAACTGTCAAAAATTCCAT
Found at i:84905 original size:61 final size:61
Alignment explanation
Indices: 84825--85008 Score: 178
Period size: 61 Copynumber: 3.0 Consensus size: 61
84815 CAAAATTCCA
* * ***
84825 TTTTTAATCCCGAAACTTTCGAAAA-TTATCATTTTATCCTTGGATGTCTAAAAACTCCATT
1 TTTTTAATCCCGAAACTTTC-AAAATTTACCATTTTACCCCCAGATGTCTAAAAACTCCATT
* * *
84886 TTTTTTATCTCGAACCTTTCAAAATTTACCATTTTACCCCCAGATGTCTAAAAACTCCA--
1 TTTTTAATCCCGAAACTTTCAAAATTTACCATTTTACCCCCAGATGTCTAAAAACTCCATT
* * * * * * * *
84945 TTTTTGAT-CCAAAACCTTCCAAAAATTACCATTTTACCCCAAAATGTCCAAAAATTCCATT
1 TTTTTAATCCCGAAA-CTTTCAAAATTTACCATTTTACCCCCAGATGTCTAAAAACTCCATT
85006 TTT
1 TTT
85009 GACCTCGAGC
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
58 3 0.03
59 45 0.45
60 4 0.04
61 49 0.49
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (61 bp):
TTTTTAATCCCGAAACTTTCAAAATTTACCATTTTACCCCCAGATGTCTAAAAACTCCATT
Found at i:84995 original size:29 final size:28
Alignment explanation
Indices: 84905--85007 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 28
84895 TCGAACCTTT
* * *
84905 CAAAATTTACCATTTTACCCCCAGATGTC
1 CAAAAATT-CCATTTTACCCCAAAATGTC
* * *
84934 TAAAAACTCCATTTTTGA-TCCAAAACCT-TC
1 CAAAAATTCCA-TTTT-ACCCCAAAA--TGTC
84964 CAAAAATTACCATTTTACCCCAAAATGTC
1 CAAAAATT-CCATTTTACCCCAAAATGTC
84993 CAAAAATTCCATTTT
1 CAAAAATTCCATTTT
85008 TGACCTCGAG
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
28 11 0.19
29 24 0.41
30 19 0.33
31 4 0.07
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (28 bp):
CAAAAATTCCATTTTACCCCAAAATGTC
Found at i:85042 original size:58 final size:59
Alignment explanation
Indices: 84816--85042 Score: 201
Period size: 59 Copynumber: 3.8 Consensus size: 59
84806 TCGAACTTCC
* * * * * **** *
84816 AAAATTCCATTTTTAATCC-CGAAACTTTCGAAAATTATCATTTTATCCTTGGATGTCTA
1 AAAACTCCATTTTTGATCCTCGAACCTTTC-AAAATTACCATTTTACCCCAAAATGTCCA
* * * *
84875 AAAACTCCATTTTTTTTAT-CTCGAACCTTTCAAAATTTACCATTTTACCCCCAGATGTCTA
1 AAAACTCCA--TTTTTGATCCTCGAACCTTTCAAAA-TTACCATTTTACCCCAAAATGTCCA
** *
84936 AAAACTCCATTTTTGATCC-AAAACCTTCCAAAAATTACCATTTTACCCCAAAATGTCCA
1 AAAACTCCATTTTTGATCCTCGAACCTTTC-AAAATTACCATTTTACCCCAAAATGTCCA
* * *
84995 AAAATTCCATTTTTGA-CCTCGAGCCTTTCAAAATTACCATTTCACCCC
1 AAAACTCCATTTTTGATCCTCGAACCTTTCAAAATTACCATTTTACCCC
85043 CGAGCGTCCA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
58 20 0.14
59 65 0.46
60 10 0.07
61 45 0.32
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.36
Consensus pattern (59 bp):
AAAACTCCATTTTTGATCCTCGAACCTTTCAAAATTACCATTTTACCCCAAAATGTCCA
Found at i:105918 original size:18 final size:18
Alignment explanation
Indices: 105897--105943 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
105887 ATGTTGCTCT
*
105897 TGTTGTTGTTGAAGTTGC
1 TGTTGCTGTTGAAGTTGC
**
105915 TGTTGCTGTTGCTGTTGC
1 TGTTGCTGTTGAAGTTGC
105933 TGTTGCTGTTG
1 TGTTGCTGTTG
105944 GAGGAGCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.04, C:0.11, G:0.34, T:0.51
Consensus pattern (18 bp):
TGTTGCTGTTGAAGTTGC
Found at i:105960 original size:6 final size:6
Alignment explanation
Indices: 105910--105943 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
105900 TGTTGTTGAA
105910 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTG
1 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTG
105944 GAGGAGCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.35, T:0.50
Consensus pattern (6 bp):
GTTGCT
Found at i:113896 original size:27 final size:30
Alignment explanation
Indices: 113834--113898 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
113824 TTTCCAAAAC
*
113834 TAAAGTTTTGTGTATATATTTGAACCAGAAT
1 TAAAGTTTTGTGTATATATAT-AACCAGAAT
* *
113865 AAAAGTTTTGTGTATA-ATAT-ACTA-AAT
1 TAAAGTTTTGTGTATATATATAACCAGAAT
113892 TAAAGTT
1 TAAAGTT
113899 CAGGTATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 9 0.30
28 3 0.10
30 3 0.10
31 15 0.50
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (30 bp):
TAAAGTTTTGTGTATATATATAACCAGAAT
Found at i:126874 original size:27 final size:27
Alignment explanation
Indices: 126816--126878 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
126806 TTGAAAATGA
*
126816 CGGCACAAAAGGAGGGTAGTAGAATAG
1 CGGCACCAAAGGAGGGTAGTAGAATAG
* * *
126843 TGGCACCAAAGGAGGGTAGTAGCATGG
1 CGGCACCAAAGGAGGGTAGTAGAATAG
126870 CGGCACCAA
1 CGGCACCAA
126879 GGGGAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.37, T:0.11
Consensus pattern (27 bp):
CGGCACCAAAGGAGGGTAGTAGAATAG
Found at i:127432 original size:3 final size:3
Alignment explanation
Indices: 127426--127457 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
127416 ATATTTTATT
127426 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
127458 GTATAATTAA
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:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:146288 original size:22 final size:22
Alignment explanation
Indices: 146250--146291 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
146240 TAGTTTCCTA
146250 TTTTTATTTTCTAGAATTTAGT
1 TTTTTATTTTCTAGAATTTAGT
146272 TTTTCTATTTTCT-GAATTTA
1 TTTT-TATTTTCTAGAATTTA
146292 AAAATTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTATTTTCTAGAATTTAGT
Found at i:151372 original size:25 final size:25
Alignment explanation
Indices: 151335--151382 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
151325 TCTGATAAGG
* *
151335 TTTTTAATTAGGCAACATGTTATGA
1 TTTTTAATGAGGCAACAGGTTATGA
151360 TTTTTAATGAGGCAACAGGTTAT
1 TTTTTAATGAGGCAACAGGTTAT
151383 AAGAGCTTCA
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:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
TTTTTAATGAGGCAACAGGTTATGA
Done.