Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1807
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: 73562
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:5350 original size:21 final size:22
Alignment explanation
Indices: 5321--5385 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
5311 AGAGAGAGGA
*
5321 GGGATGATAGGAGGAGAGACAG
1 GGGATGATAGAAGGAGAGACAG
* * *
5343 GGGA-GATAGTA-GAGATA-GG
1 GGGATGATAGAAGGAGAGACAG
5362 AGGGATGATAGAAGGAGAGACAG
1 -GGGATGATAGAAGGAGAGACAG
5385 G
1 G
5386 AGAGATAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.27
21 12 0.36
22 10 0.30
23 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.48, T:0.11
Consensus pattern (22 bp):
GGGATGATAGAAGGAGAGACAG
Found at i:5370 original size:42 final size:42
Alignment explanation
Indices: 5311--5420 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
5301 AAGAGAAAGA
* *
5311 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGGGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
* *
5353 AGAGATAGGAGGGATGATAGAAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
5395 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
5421 GAGAGAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:5386 original size:24 final size:24
Alignment explanation
Indices: 5311--5397 Score: 78
Period size: 24 Copynumber: 3.9 Consensus size: 24
5301 AAGAGAAAGA
* *
5311 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGAAGG
*
5335 AGAGACA-G-GGGA-GAT---AGT
1 AGAGACAGGAGGGATGATAGAAGG
*
5353 AGAGATAGGAGGGATGATAGAAGG
1 AGAGACAGGAGGGATGATAGAAGG
* *
5377 AGAGACAGGAGAGATAATAGA
1 AGAGACAGGAGGGATGATAGA
5398 GAGAGGAGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
18 8 0.16
19 1 0.02
20 4 0.08
21 6 0.12
22 4 0.08
23 1 0.02
24 26 0.52
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGAAGG
Found at i:5392 original size:21 final size:20
Alignment explanation
Indices: 5320--5392 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
5310 AAGAGAGAGG
*
5320 AGGGATGATAGGAGGAGAGAC
1 AGGGA-GATAGAAGGAGAGAC
* * *
5341 AGGGGAGATAGTA-GAGATAGG
1 A-GGGAGATAGAAGGAGAGA-C
5362 AGGGATGATAGAAGGAGAGAC
1 AGGGA-GATAGAAGGAGAGAC
5383 AGGAGAGATA
1 AGG-GAGATA
5393 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 9 0.22
21 21 0.51
22 11 0.27
ACGTcount: A:0.41, C:0.03, G:0.45, T:0.11
Consensus pattern (20 bp):
AGGGAGATAGAAGGAGAGAC
Found at i:12257 original size:9 final size:9
Alignment explanation
Indices: 12243--12303 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
12233 CTCTCTTTAT
12243 TATCTCTCC
1 TATCTCTCC
12252 TATCTCTTCTCC
1 TA--TC-TCTCC
*
12264 TATCATCCCTCA
1 TATC-T--CTCC
*
12276 TATCTCTAC
1 TATCTCTCC
12285 TATCTCTCC
1 TATCTCTCC
12294 TATCTCTCC
1 TATCTCTCC
12303 T
1 T
12304 CCTTTCATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 22 0.52
10 3 0.07
11 3 0.07
12 14 0.33
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:12270 original size:42 final size:42
Alignment explanation
Indices: 12215--12333 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
12205 TTCTTCTCTC
* * * *
12215 CTCCTCCTGTCATCCCTCCTCTCTTTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* *
12257 CTTCTCCTATCATCCCTCATATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* * *
12299 CTCCTCCTTTCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
12334 TTGAGGGCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.11, C:0.43, G:0.01, T:0.45
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:14617 original size:32 final size:32
Alignment explanation
Indices: 14572--14641 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
14562 AATTTTTCTA
14572 GATC-TTATCAAGAGGCCAAGACTCTTGTGGC
1 GATCATTATCAAGAGGCCAAGACTCTTGTGGC
14603 GATCATTATCAAGAGGCCAAGACTCTTGTGGC
1 GATCATTATCAAGAGGCCAAGACTCTTGTGGC
14635 GATCATT
1 GATCATT
14642 CATTTTGGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (32 bp):
GATCATTATCAAGAGGCCAAGACTCTTGTGGC
Found at i:15513 original size:28 final size:28
Alignment explanation
Indices: 15479--15550 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
15469 TTCTTCTTTA
* *
15479 TTGATTTCTTTTCCTTTGAAATTTCTTG
1 TTGATTTCATTTCCTTTCAAATTTCTTG
*
15507 CTT-ATTTCATTTCCTTTCATATTTCTTG
1 -TTGATTTCATTTCCTTTCAAATTTCTTG
*
15535 TTGATTTCACTTCCTT
1 TTGATTTCATTTCCTT
15551 GATCTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 34 0.89
29 2 0.05
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (28 bp):
TTGATTTCATTTCCTTTCAAATTTCTTG
Found at i:18780 original size:51 final size:51
Alignment explanation
Indices: 18677--18788 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
18667 ACAACGGGGC
* * * * *
18677 TGGAGTATCCCCGATTATGGAAAATCGATGTTTTGGAAAAAAAATCGGGGT
1 TGGAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAAAAAAACCGAGGT
* * **
18728 TGGAGTATCCCTGATTATGGAAAATCGAAGCTTTAGAAATAAGGCCGAGGT
1 TGGAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAAAAAAACCGAGGT
18779 TGGAGTATCC
1 TGGAGTATCC
18789 TGCCAAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (51 bp):
TGGAGTATCCCCGATTATGGAAAATCGAAGCTTTAGAAAAAAAACCGAGGT
Found at i:18924 original size:79 final size:78
Alignment explanation
Indices: 18727--18927 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 78
18717 AAAATCGGGG
* * * * *
18727 TTGGAGTATCCCTGATTATGGAAAATCGAAGCTTTAGAAATAAGGCCGAGGTTGGAGTATCCTGC
1 TTGGAGTATCCCCGATTATGAAAAATCGAAGTTTTAGAAATAAAGCCGAGGTGGGAGTATCCTGC
* * *
18792 CAAAATAATGGGG
66 CAAAATAACGAGA
* * * * * *
18805 TTGGAGTATTCCCAATTGTGAGAAATC-AATATTTTAGAAATAAAGCCGGGGTGGGAGTATCCT-
1 TTGGAGTATCCCCGATTATGAAAAATCGAA-GTTTTAGAAATAAAGCCGAGGTGGGAGTATCCTG
*
18868 CTTGAAAATAACGAGA
65 C--CAAAATAACGAGA
* * *
18884 TTGGAGTATCCCCGATTATGAAAAATTGACGTTTTGGAAATAAA
1 TTGGAGTATCCCCGATTATGAAAAATCGAAGTTTTAGAAATAAA
18928 ACTGGGGTTA
Statistics
Matches: 96, Mismatches: 23, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
77 3 0.03
78 49 0.51
79 43 0.45
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCCCCGATTATGAAAAATCGAAGTTTTAGAAATAAAGCCGAGGTGGGAGTATCCTGC
CAAAATAACGAGA
Found at i:21924 original size:41 final size:38
Alignment explanation
Indices: 21879--21969 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 38
21869 GCTTTGGAAG
* *
21879 AGGAAAAAAAAGAAATGGGGCATCCTGCTCTTTGAGGATTA
1 AGGAAAAAAAAGAAAT-GGG--TCCTGCTCCTTGAGGACTA
* *
21920 AGGAAAAAGAGAAAGAAATTGGTCCTGCTCCTTGGGGACTA
1 AGG-AAAA-A-AAAGAAATGGGTCCTGCTCCTTGAGGACTA
21961 AGGAAAAAA
1 AGGAAAAAA
21970 GGAAATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
40 4 0.09
41 22 0.51
42 4 0.09
43 3 0.07
44 8 0.19
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (38 bp):
AGGAAAAAAAAGAAATGGGTCCTGCTCCTTGAGGACTA
Found at i:21988 original size:42 final size:41
Alignment explanation
Indices: 21898--22021 Score: 126
Period size: 41 Copynumber: 3.0 Consensus size: 41
21888 AAGAAATGGG
* * * *
21898 GCATCCTGCTCTTTGAGGATTAAGGAAAAAGAGAAAGAAATT
1 GCATCCTGCTCCTTGAGGACTAAGGAAAAAG-GAAATAAAAT
* *
21940 G-GTCCTGCTCCTTGGGGACTAAGGAAAAAAGGAAATAAAAT
1 GCATCCTGCTCCTTGAGGACTAAGG-AAAAAGGAAATAAAAT
* *
21981 GCATCCTGC-CCTTTGAAGACAAAGGAAAAAGGAAATTAAAA
1 GCATCCTGCTCC-TTGAGGACTAAGGAAAAAGGAAA-TAAAA
22022 GTGTCTTCTT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 40 0.59
42 28 0.41
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (41 bp):
GCATCCTGCTCCTTGAGGACTAAGGAAAAAGGAAATAAAAT
Found at i:22168 original size:89 final size:90
Alignment explanation
Indices: 22054--22279 Score: 300
Period size: 89 Copynumber: 2.6 Consensus size: 90
22044 AAGGGAAAAG
*
22054 AAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAAGAAGA-GAATGGAACATGT
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAAGAAGAGGAATGGAACATGT
*
22117 CCTGCTCTTTG-AGTACAAAGAAGAA
66 CCTGCTCGTTGAAG-ACAAAGAAGAA
* * * **
22142 AAGGAAAATAAAGTGCGTCCTACTCTTTAAGGACAAAAGGAGAAAAGAA-AGGAATGGAATGTGT
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAAGAAGAGGAATGGAACATGT
* **
22206 CCTGCTCGTTGAAGACAAGGGGGAA
66 CCTGCTCGTTGAAGACAAAGAAGAA
* *
22231 AAAGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGG-AAAAAGAAG
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAAGAAG
22280 GAAATGAAGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
88 12 0.10
89 105 0.88
90 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (90 bp):
AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAAAAAAGAAGAGGAATGGAACATGT
CCTGCTCGTTGAAGACAAAGAAGAA
Found at i:22178 original size:43 final size:44
Alignment explanation
Indices: 22054--22309 Score: 179
Period size: 45 Copynumber: 5.8 Consensus size: 44
22044 AAGGGAAAAG
*
22054 AAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAA-AA
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA-GAAGAA
* *
22097 AAGAAGAGAATGGAACA-T--GTCCTGCTCTTTGAGTAC-AAAGAAGAA
1 AAG--GAAAAT--AA-AGTGCGTCCTGCTCTTTGAGGACAAAAGAAGAA
* * *
22142 AAGGAAAATAAAGTGCGTCCTACTCTTTAAGGACAAAAGGAGAA
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAGAA
* * * * * * **
22186 AAGAAAGGAATGGAA-TGTGTCCTGCTCGTTGAAGAC-AAGGGGGAA
1 AAGGAA--AAT-AAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAGAA
* * *
22231 AAAGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGGAAAAA
1 AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA-GAAGAA
* *
22276 GAAGG-AAATGAAGTGCGTCTTGCTCTTTGAGGAC
1 -AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
22310 TCAGAGGTGC
Statistics
Matches: 165, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 2 0.01
43 43 0.26
44 18 0.11
45 51 0.31
46 42 0.25
47 2 0.01
48 2 0.01
49 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (44 bp):
AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAGAA
Found at i:22295 original size:45 final size:45
Alignment explanation
Indices: 21901--22309 Score: 245
Period size: 46 Copynumber: 9.4 Consensus size: 45
21891 AAATGGGGCA
** *
21901 TCCTGCTCTTTGAGGA-TTAAGGAAAAAG-A-GAAA-GAAATTG-G
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATG-AAGTGCG
* * * * * *
21942 TCCTGCTCCTTGGGGAC-TAAGG-AAAA-AAGGAAATAAAATGCA
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCG
* * * ** *
21984 TCCTGCCCTTTGAAGAC-AAAGG--AAA-AAGGAAATTAAAAGTG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCG
* * * * *
22025 T-CTTCTTTTTGAGAACTAGAAGGGAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGAC-AAAAGGAAAAAGAAGGAAATGAAGTGCG
*
22070 TCCTGCTCTTTGAGGACAAAAGGAAAAAAGAA-GAGAATGGAACAT--G
1 TCCTGCTCTTTGAGGACAAAAGG-AAAAAGAAGGA-AAT-GAA-GTGCG
* * *
22116 TCCTGCTCTTTGAGTAC-AAA-GAAGAA-AAGGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGG-AAATGAAGTGCG
* * *
22159 TCCTACTCTTTAAGGACAAAAGGAGAAAAGAAAGG-AATGGAA-TGTG
1 TCCTGCTCTTTGAGGACAAAAGGA-AAAAG-AAGGAAAT-GAAGTGCG
* * ** *
22205 TCCTGCTCGTTGAAGACAAGGGGGAAAAAG-A--AAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAA-AAGGAAAAAGAAGGAAATGAAGTGCG
*
22248 TCTTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCG
*
22293 TCTTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
22310 TCAGAGGTGC
Statistics
Matches: 283, Mismatches: 54, Indels: 58
0.72 0.14 0.15
Matches are distributed among these distances:
40 15 0.05
41 44 0.16
42 35 0.12
43 46 0.16
44 9 0.03
45 53 0.19
46 68 0.24
47 8 0.03
48 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (45 bp):
TCCTGCTCTTTGAGGACAAAAGGAAAAAGAAGGAAATGAAGTGCG
Found at i:22383 original size:60 final size:61
Alignment explanation
Indices: 22290--23100 Score: 1059
Period size: 60 Copynumber: 13.3 Consensus size: 61
22280 GAAATGAAGT
* *
22290 GCGTCTTGCTCTTTGAGGACTCAG-AGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
22350 GCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
22411 GCATCCTGCTCTTTGATGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
* * * *
22473 GTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
22533 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
22593 GCGTTCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * ** * *
22654 GCATCATGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAA
1 GCGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
* * * * * * *
22716 GTGTCCTACTTTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
22776 GCATCCT-CGTCTTTGAGGACTAGAAGGTGCCACCAACTAGTGTGGGCTAT-GAAGGAGAAG
1 GCGTCCTGC-TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
** *
22836 GCGTTTTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
22897 GCATCCTGCTATTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
* * * *
22959 GTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
23019 GCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
23080 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
23101 GTGAGCTCAA
Statistics
Matches: 658, Mismatches: 77, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
59 2 0.00
60 317 0.48
61 179 0.27
62 154 0.23
63 6 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:22733 original size:183 final size:179
Alignment explanation
Indices: 22290--23100 Score: 1045
Period size: 183 Copynumber: 4.5 Consensus size: 179
22280 GAAATGAAGT
* * *
22290 GCGTCTTGCTCTTTGAGGACTCAGAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
22354 CCTACTCTTTGAGGACTACAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
65 CCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAAAAGGCATCCTG
* * *
22419 CTCTTTGATGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
128 CTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT--AAAGGAAAAG
* * *
22473 GTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * *
22537 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTTCTGC
65 CCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCATCCTGC
*
22602 TCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
129 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
* * ** * * *
22654 GCATCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAAGTG
1 GCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * *
22719 TCCTACTTTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCATCCT-
64 TCCTGCTCTTTGAGGA-CTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCATCCTG
* * * *
22783 CGTCTTTGAGGACTAGAAGGTGCCACCAACTAGTGTGGGCTATGAAGGAGAAG
128 C-TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
** * *
22836 GCGTTTTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * * **
22901 CCTGCTATTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCT
65 CCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTG--AAGGAAAAGGCATCCT
* * *
22966 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAG
127 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
*
23019 GCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
23084 CCTGCTCTTTGAGGACT
65 CCTGCTCTTTGAGGACT
23101 GTGAGCTCAA
Statistics
Matches: 558, Mismatches: 59, Indels: 22
0.87 0.09 0.03
Matches are distributed among these distances:
180 7 0.01
181 100 0.18
182 101 0.18
183 347 0.62
184 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (179 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAAAAGGCATCCTGCTC
TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
Found at i:22733 original size:243 final size:243
Alignment explanation
Indices: 22285--23100 Score: 1375
Period size: 243 Copynumber: 3.3 Consensus size: 243
22275 AGAAGGAAAT
*
22285 GAAGTGCGTCTTGCTCTTTGAGGACTCAG-AGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAA
1 GAAG-GCGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAA
* * *
22349 GGCGTCCTACTCTTTGAGGACTACAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
64 GGCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
22414 TCCTGCTCTTTGATGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCC
129 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCC
22479 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
194 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
*
22529 GAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGG
1 GAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGG
*
22594 CGTTCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
66 CGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
22659 ATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAAGTGTCCTA
131 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTG
* *
22724 CTTTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
196 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
* * * *
22772 GAAGGCATCCT-CGTCTTTGAGGACTAGAAGGTGCCACCAACTAGTGTGGGCTATGAAGGAGAAG
1 GAAGGCGTCCTGC-TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAG
**
22836 GCGTTTTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
65 GCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
*
22901 CCTGCTATTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCT
130 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCT
22966 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
195 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
* *
23015 GAAGGCGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAG
*
23080 GCGTCCTGCTCTTTGAGGACT
65 GCGTCCTGCTCTTTGAAGACT
23101 GTGAGCTCAA
Statistics
Matches: 535, Mismatches: 33, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
242 3 0.01
243 501 0.94
244 31 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (243 bp):
GAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAGG
CGTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTG
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGA
Found at i:23908 original size:13 final size:13
Alignment explanation
Indices: 23889--23953 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
23879 ACTATTTATG
23889 ATGTATCGATACA
1 ATGTATCGATACA
*
23902 CTGTATCGATACA
1 ATGTATCGATACA
23915 ATGTATCGATACA
1 ATGTATCGATACA
*
23928 CTGTATCGATACA
1 ATGTATCGATACA
23941 ATGTATCGATACA
1 ATGTATCGATACA
23954 TGAATAGTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:23925 original size:26 final size:26
Alignment explanation
Indices: 23889--23953 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
23879 ACTATTTATG
23889 ATGTATCGATACACTGTATCGATACA
1 ATGTATCGATACACTGTATCGATACA
23915 ATGTATCGATACACTGTATCGATACA
1 ATGTATCGATACACTGTATCGATACA
23941 ATGTATCGATACA
1 ATGTATCGATACA
23954 TGAATAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (26 bp):
ATGTATCGATACACTGTATCGATACA
Found at i:24042 original size:21 final size:22
Alignment explanation
Indices: 24011--24065 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
24001 GTGAACAGTG
24011 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
*
24033 TGAA-AGTGATGTATCGATGCA
1 TGAACAGTGATGTATCGATACA
*
24054 TGAATAGTGATG
1 TGAACAGTGATG
24066 AACAGTGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:24072 original size:10 final size:10
Alignment explanation
Indices: 24053--24083 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24043 GTATCGATGC
*
24053 ATGAATAGTG
1 ATGAACAGTG
24063 ATGAACAGTG
1 ATGAACAGTG
24073 ATGAACAGTG
1 ATGAACAGTG
24083 A
1 A
24084 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:24171 original size:53 final size:53
Alignment explanation
Indices: 24107--24243 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
24097 CTACTACCAA
*
24107 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
24160 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
24213 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
24244 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:24328 original size:21 final size:21
Alignment explanation
Indices: 24302--24342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24292 GTCAACCTTG
24302 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
24323 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
24343 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:24743 original size:62 final size:61
Alignment explanation
Indices: 24546--24920 Score: 558
Period size: 62 Copynumber: 6.1 Consensus size: 61
24536 AATCCTAACA
*
24546 AGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTG
* *
24606 AGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTG
* *
24666 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTTCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGAAAAAGGCGTCCTGCTCTTTG
* * * *
24728 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAGAAGGCATCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * *
24788 AGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGTCCCGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGAAAAAGGCGTCCTGCTCTTTG
*
24850 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGAAAAAGGCGTCCTGCTCTTTG
*
24912 GGGACTAAA
1 AGGACTAAA
24921 GGGCTAAAAG
Statistics
Matches: 284, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
60 117 0.41
61 28 0.10
62 139 0.49
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (61 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAGGCGTCCTGCTCTTTG
Found at i:24780 original size:122 final size:123
Alignment explanation
Indices: 24546--24920 Score: 596
Period size: 122 Copynumber: 3.1 Consensus size: 123
24536 AATCCTAACA
* *
24546 AGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGGAAAAGGCGTCCTGCTCTTTGAGG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGG
24609 ACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
66 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
*
24666 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTTCTGCTCTTTGAGG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGG
* *
24731 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAGAAGGCATCCTGCTCTTTG
66 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
* * * *
24788 AGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGTCCCGCTCTTTGAGG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGG
* * *
24853 ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTG
66 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCGTCCTGCTCTTTG
*
24912 GGGACTAAA
1 AGGACTAAA
24921 GGGCTAAAAG
Statistics
Matches: 234, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
120 6 0.03
121 29 0.12
122 142 0.61
123 29 0.12
124 28 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (123 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGG
ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTG
Found at i:31118 original size:79 final size:79
Alignment explanation
Indices: 31023--31242 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 79
31013 ACAACGGGAC
*** * * * *
31023 TGGAGTATCCCCGATTATGGAAAATCGGTGTTTTGGAAATAAAATCGGGGTTTGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGGAAAATCAAAGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGC
**
31088 GGAAATAACAGGGT
66 CAAAATAACAGGGT
* **
31102 TGGAGTATCCCTGATTATGGAAAATCAAAGCTTTAGAAATAAGGTCGGGGTTGGAGTATCCCCGC
1 TGGAGTATCCCCGATTATGGAAAATCAAAGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGC
*
31167 CAAAATAACGGGGT
66 CAAAATAACAGGGT
* * *** ** *
31181 TGGAGTATCCCCAATTGT-GAGAAATCAATTTTTTAGAAATAAAGCCGGGCTTGGAG-ATCCCC
1 TGGAGTATCCCCGATTATGGA-AAATCAAAGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
31243 TTGAAAATAA
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 8 0.07
79 110 0.93
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGGAAAATCAAAGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGC
CAAAATAACAGGGT
Found at i:32859 original size:13 final size:13
Alignment explanation
Indices: 32841--32870 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32831 GTAAACCCAG
32841 AATGTATCGATAC
1 AATGTATCGATAC
32854 AATGTATCGATAC
1 AATGTATCGATAC
32867 AATG
1 AATG
32871 AATAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:34300 original size:24 final size:25
Alignment explanation
Indices: 34254--34305 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
34244 AAGAGAAAGA
* *
34254 AGAAGAGATAGGAAGGATGATAG-G
1 AGAAGAGATAGAAAGGATAATAGAG
34278 AGAAGAGATA-AAAGAGATAATAGAG
1 AGAAGAGATAGAAAG-GATAATAGAG
34303 AGA
1 AGA
34306 GAAGGGATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 17 0.71
25 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (25 bp):
AGAAGAGATAGAAAGGATAATAGAG
Found at i:43257 original size:54 final size:54
Alignment explanation
Indices: 43199--43333 Score: 135
Period size: 54 Copynumber: 2.5 Consensus size: 54
43189 GTGTCACTCA
** * * *
43199 AGTGAAGTCAACTTATAGTTGGTTAAGCCCAACATAGCTAGCAAGTTAGGCGCT
1 AGTGAAGTCAACCCATAATTGGTAAAGCACAACATAGCTAGCAAGTTAGGCGCT
* * * * * *
43253 AGTGAAATTAGCCCATAATTGGTAAAGCACAACATAGCTGGCAAGTTTGGCTCT
1 AGTGAAGTCAACCCATAATTGGTAAAGCACAACATAGCTAGCAAGTTAGGCGCT
* * *
43307 AGTGAAGTTAGCCCTTAATTGGCTAAA
1 AGTGAAGTCAACCCATAATTGG-TAAA
43334 TCCAATATAG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 63 0.94
55 4 0.06
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (54 bp):
AGTGAAGTCAACCCATAATTGGTAAAGCACAACATAGCTAGCAAGTTAGGCGCT
Found at i:43468 original size:99 final size:99
Alignment explanation
Indices: 43294--43478 Score: 212
Period size: 99 Copynumber: 1.9 Consensus size: 99
43284 ACATAGCTGG
** * * *
43294 CAAGTTTGGCTCTAGTGAAGTTAGCCCTTAATTGGCTAAATCCAATATAGGTGATAGGTTTAGCT
1 CAAGTTTAACTCTAGTGAAGTTAGCCCTTAATTGGCTAAACCCAATATAGCTGATAGGTTTAACT
**
43359 CCAATGAAGTTGG-CCTATAGTTGATTAAGCTTTA
66 CCAACAAAGTTGGACC-ATAGTTGATTAAGCTTTA
* * * *
43393 CAAGTTTAACTCTAGTGAAGTTAGCCCTTAGTTGGTTACACCCAATGTAGCT-AGTAGGTTTAAC
1 CAAGTTTAACTCTAGTGAAGTTAGCCCTTAATTGGCTAAACCCAATATAGCTGA-TAGGTTTAAC
** *
43457 TTTAGCAAAGTTGGACCATAGT
65 TCCAACAAAGTTGGACCATAGT
43479 GTTAAAGCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
98 1 0.01
99 67 0.96
100 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (99 bp):
CAAGTTTAACTCTAGTGAAGTTAGCCCTTAATTGGCTAAACCCAATATAGCTGATAGGTTTAACT
CCAACAAAGTTGGACCATAGTTGATTAAGCTTTA
Found at i:43591 original size:54 final size:52
Alignment explanation
Indices: 43503--43706 Score: 151
Period size: 54 Copynumber: 3.8 Consensus size: 52
43493 AGTTAGTAGA
* ** *
43503 TTTAGCTTTAGTGAGGTTGGCTCATAACTAGTTAAGCCTAACATAGCTGGCAAG
1 TTTAGCTTTAGT-AAGTTGGCT-ATAGTTGGTTAAGCCTAACATAGCTGGCAAG
* * *
43557 TTTAGCTTTAGTAATGTTGGTTAATAGTTGGTTAAGACC--ACTGTAGCTGGTAAG
1 TTTAGCTTTAGTAA-GTTGGCT-ATAGTTGGTTAAG-CCTAAC-ATAGCTGGCAAG
* * * * ** *
43611 TTTGGCTTTAATAAGAGTTCGCCTATAGTTGGTTAAGCCTAACATGGCTAACAGG
1 TTTAGCTTTAGT-A-AGTT-GGCTATAGTTGGTTAAGCCTAACATAGCTGGCAAG
* *
43666 TTTAGCTCTAGTCAAGTTGGCCTGTAGTTGGTTAAGCCTAA
1 TTTAGCTTTAGT-AAGTTGG-CTATAGTTGGTTAAGCCTAA
43707 GGTTCAGCTA
Statistics
Matches: 117, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
53 4 0.03
54 73 0.62
55 35 0.30
56 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (52 bp):
TTTAGCTTTAGTAAGTTGGCTATAGTTGGTTAAGCCTAACATAGCTGGCAAG
Found at i:45510 original size:22 final size:22
Alignment explanation
Indices: 45485--45533 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
45475 TTCATCACTA
45485 TTCATGTAACGATACATCACCG
1 TTCATGTAACGATACATCACCG
* *
45507 TTCATGTATCGATACATCACTG
1 TTCATGTAACGATACATCACCG
45529 TTCAT
1 TTCAT
45534 CACTACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (22 bp):
TTCATGTAACGATACATCACCG
Found at i:45597 original size:95 final size:95
Alignment explanation
Indices: 45469--45661 Score: 278
Period size: 95 Copynumber: 2.0 Consensus size: 95
45459 TCACTGTTTA
*
45469 TCACTGTTCATCACTATTCATGTAACGATACATCACCGTTCATGTATCGATACATCACTGTTCAT
1 TCACTATTCATCACTATTCATGTAACGATACATCACCGTTCATGTATCGATACATCACTGTTCAT
*
45534 CACTACACATTGAGCCCAATGGCTACAATT
66 CACTACACATTAAGCCCAATGGCTACAATT
* * * * * * *
45564 TCACTATTTATCACTGTTTATGTATCGATACATCTCTGTTCATGTATCGATACATCACTTTTCAT
1 TCACTATTCATCACTATTCATGTAACGATACATCACCGTTCATGTATCGATACATCACTGTTCAT
* * *
45629 CACTATACATTAAGCCTAATGGCTATAATT
66 CACTACACATTAAGCCCAATGGCTACAATT
45659 TCA
1 TCA
45662 AATGCATGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (95 bp):
TCACTATTCATCACTATTCATGTAACGATACATCACCGTTCATGTATCGATACATCACTGTTCAT
CACTACACATTAAGCCCAATGGCTACAATT
Found at i:45608 original size:22 final size:22
Alignment explanation
Indices: 45573--45628 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
45563 TTCACTATTT
*
45573 ATCACTGTTTATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
*
45595 ATCTCTGTTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
*
45617 ATCACTTTTCAT
1 ATCACTGTTCAT
45629 CACTATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (22 bp):
ATCACTGTTCATGTATCGATAC
Found at i:47747 original size:21 final size:21
Alignment explanation
Indices: 47723--47782 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
47713 GAACTAGAGG
47723 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGGAAA
*
47744 AGAAAA-GAAATGAGTTGCAAA
1 AGAAAATG-AATGAGTTGGAAA
*
47765 ATGAAAATG-ATAAGTTGG
1 A-GAAAATGAATGAGTTGG
47783 CTAATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 26 0.79
22 5 0.15
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGGAAA
Found at i:56024 original size:20 final size:20
Alignment explanation
Indices: 56001--56062 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
55991 AAGTACCCAG
56001 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
56021 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
56041 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
56061 AT
1 AT
56063 AAATTTATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:69789 original size:1 final size:1
Alignment explanation
Indices: 69783--69876 Score: 71
Period size: 1 Copynumber: 94.0 Consensus size: 1
69773 CTTCATACCC
* * ** * * * *
69783 AAAAAAAACAAAAAAAAACAAAAAAAACCAAAAAAATAAAAAAATAAAAAAATAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
69848 AAAAAACCAAGAAAAAAATAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
69877 TAGAAAGGGG
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:69815 original size:16 final size:16
Alignment explanation
Indices: 69782--69874 Score: 86
Period size: 16 Copynumber: 6.0 Consensus size: 16
69772 CCTTCATACC
*
69782 CAAAAAAA-ACAAAAA
1 CAAAAAAATAAAAAAA
* *
69797 -AAAACAA-AAAAAAC
1 CAAAAAAATAAAAAAA
69811 CAAAAAAATAAAAAAA
1 CAAAAAAATAAAAAAA
*
69827 TAAAAAAATAAAAAAA
1 CAAAAAAATAAAAAAA
**
69843 CAAAAAAA-AAACCAA
1 CAAAAAAATAAAAAAA
*
69858 GAAAAAAATAACAAAAA
1 CAAAAAAATAA-AAAAA
69875 AATAGAAAGG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.18
15 18 0.29
16 30 0.48
17 3 0.05
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.04
Consensus pattern (16 bp):
CAAAAAAATAAAAAAA
Found at i:69878 original size:11 final size:10
Alignment explanation
Indices: 69783--69876 Score: 91
Period size: 10 Copynumber: 8.8 Consensus size: 10
69773 CTTCATACCC
69783 AAAAAAAACA
1 AAAAAAAACA
69793 AAAAAAAACA
1 AAAAAAAACA
*
69803 AAAAAAACCA
1 AAAAAAAACA
69813 AAAAAATAA-A
1 AAAAAA-AACA
*
69823 AAAATAAAAAA
1 AAAA-AAAACA
69834 ATAAAAAAACAA
1 A-AAAAAAAC-A
69846 AAAAAAAACCA
1 AAAAAAAA-CA
*
69857 AGAAAAAAATA
1 A-AAAAAAACA
69868 ACAAAAAAA
1 A-AAAAAAA
69877 TAGAAAGGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
10 32 0.44
11 27 0.38
12 13 0.18
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.04
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:71196 original size:28 final size:28
Alignment explanation
Indices: 71095--71518 Score: 429
Period size: 28 Copynumber: 14.6 Consensus size: 28
71085 AACGTTCATT
*
71095 CTTTTAAAGCCCACAAGTCAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* ** *
71124 TTTTCAAAGCCCACACGAGTTGGTGGTAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGG-CAC-C
* *
71156 TTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
71184 CTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
71212 CTTTCAAAGCCCACAACTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
71240 CTTTCAAAGCCCATAAGTTAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * * * *
71269 TTTTTAAAGCCCACACGTGTCTGTGGCAACT
1 CTTTCAAAGCCCACA--AGTCAGTGGC-ACC
* * *
71300 CTTATCAAAGCCCACACGAGTCGGTGACATC
1 CTT-TCAAAGCCCACA--AGTCAGTGGCACC
* *
71331 ATTTCAAAGCCCACAAGTCAGTGGTAACAC
1 CTTTCAAAGCCCACAAGTCAGTGG-CAC-C
*
71361 TTTTCAAAGCCCACAAGTCAGTGGCAACAC
1 CTTTCAAAGCCCACAAGTCAGTGGC-AC-C
* * *
71391 TTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
71419 CTTTCAAAGCCCACAAGTC-GTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
71446 CTTTCAAAGCCCACAAGCCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
71474 CTTTCAAAGCCCAC-AGCCATTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
71501 CTTTTCAAAGCCCACAAG
1 C-TTTCAAAGCCCACAAG
71519 CCAATGGTAA
Statistics
Matches: 338, Mismatches: 43, Indels: 28
0.83 0.11 0.07
Matches are distributed among these distances:
27 38 0.11
28 136 0.40
29 32 0.09
30 72 0.21
31 19 0.06
32 41 0.12
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:71340 original size:30 final size:28
Alignment explanation
Indices: 71095--71578 Score: 416
Period size: 28 Copynumber: 16.5 Consensus size: 28
71085 AACGTTCATT
*
71095 CTTTTAAAGCCCACAAGTCAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-TC
* ** *
71124 TTTTCAAAGCCCACACGAGTTGGTGGTAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGG-CA-TC
* * *
71156 TTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
71184 CTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
* *
71212 CTTTCAAAGCCCACAACTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
* *
71240 CTTTCAAAGCCCATAAGTTAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-TC
* * * * *
71269 TTTTTAAAGCCCACACGTGTCTGTGGCAAC
1 CTTTCAAAGCCCACA--AGTCAGTGGCATC
* *
71299 TCTTATCAAAGCCCACACGAGTCGGTGACATC
1 -CTT-TCAAAGCCCACA--AGTCAGTGGCATC
* * *
71331 ATTTCAAAGCCCACAAGTCAGTGGTAAC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
*
71359 ACTTTTCAAAGCCCACAAGTCAGTGGCAAC
1 -C-TTTCAAAGCCCACAAGTCAGTGGCATC
*
71389 ACTTTTCAAAGCCCACAAGTTAGTGGCATC
1 -C-TTTCAAAGCCCACAAGTCAGTGGCATC
*
71419 CTTTCAAAGCCCACAAGTC-GTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
* *
71446 CTTTCAAAGCCCACAAGCCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
71474 CTTTCAAAGCCCAC-AGCCATTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATC
* *
71501 CTTTTCAAAGCCCACAAGCCAATGGTAACATC
1 C-TTTCAAAGCCCACAAGTCAGTGG---CATC
* *
71533 TTTTCAAAGCCCACACGAGT-TGTGGCAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGGC-A-TC
*
71564 TTTTCAAAGCCCACA
1 CTTTCAAAGCCCACA
71579 TAAATTAGTG
Statistics
Matches: 386, Mismatches: 49, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
27 38 0.10
28 136 0.35
29 37 0.10
30 76 0.20
31 50 0.13
32 47 0.12
33 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:71572 original size:145 final size:144
Alignment explanation
Indices: 71094--71578 Score: 531
Period size: 145 Copynumber: 3.3 Consensus size: 144
71084 GAACGTTCAT
* * * *
71094 TCTTTT-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGTAACTCTT
1 TCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAC-AG-TCGTGG-CAC-CCT
* *
71158 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGC
62 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGC
71222 CCACAA-CTCAGTGG--CA
127 CCACAAGC-CAGTGGAACA
* * * * * *
71238 CCCTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTTAAAGCCCACACGTGTCTGTGGCAACTCTT
1 TCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAC-AGTC-GTGGC-ACCCTT
* * * * * *
71303 ATCAAAGCCCACACGAGTCGGTGACATCATTTCAAAGCCCACAAGTCAGTGGTAACACTTTTCAA
63 -TCAAAGCCCACA--AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-CACCCTTTTCAA
*
71368 AGCCCACAAGTCAGTGGCAACA
124 AGCCCACAAGCCAGTGG-AACA
*
71390 -CTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA-AGTCGTGGCACCCTTTCA
1 TCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAGTCGTGGCACCCTTTCA
* * *
71452 AAGCCCACAAGCCAGTGGCACCCTTTCAAAGCCCAC-AGCCATTGGCACCCTTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAC
*
71516 AAGCCAATGGTAACA
131 AAGCCAGTGG-AACA
71531 TCTTTTCAAAGCCCACACGAGTT-GTGGCAACTCTTTTCAAAGCCCACA
1 TCTTTTCAAAGCCCACA--AGTTAGTGGC-ACTCTTTTCAAAGCCCACA
71579 TAAATTAGTG
Statistics
Matches: 286, Mismatches: 38, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
141 29 0.10
142 23 0.08
143 27 0.09
144 12 0.04
145 85 0.30
146 5 0.02
147 37 0.13
148 5 0.02
149 21 0.07
150 15 0.05
151 25 0.09
152 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (144 bp):
TCTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAGTCGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAC
AAGCCAGTGGAACA
Found at i:71598 original size:31 final size:31
Alignment explanation
Indices: 71501--71598 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
71491 CATTGGCACC
* * *
71501 CTTTTCAAAGCCCACAAGCCAATGGTAAC-A-T
1 CTTTTCAAAGCCCAC-A-CAAATTGTGACAACT
* * *
71532 CTTTTCAAAGCCCACACGAGTTGTGGCAACT
1 CTTTTCAAAGCCCACACAAATTGTGACAACT
*
71563 CTTTTCAAAGCCCACATAAATTAGTGACAAC-
1 CTTTTCAAAGCCCACACAAATT-GTGACAACT
71594 CTTTT
1 CTTTT
71599 TTAAAAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
29 6 0.11
30 2 0.04
31 40 0.73
32 7 0.13
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (31 bp):
CTTTTCAAAGCCCACACAAATTGTGACAACT
Found at i:72449 original size:20 final size:20
Alignment explanation
Indices: 72426--72550 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
72416 AAGTACCCAG
*
72426 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
72446 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
72466 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
72486 ATATATCGATACATTCTATCTTTTTACCTA
1 ATGTATCGAT--A--C-A--TTTTT--C-A
72516 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
72537 ATGTATCGATACAT
1 ATGTATCGATACAT
72551 CTAGTTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 55 0.66
21 1 0.01
22 2 0.02
24 6 0.07
25 1 0.01
26 1 0.01
27 5 0.06
29 2 0.02
30 1 0.01
31 9 0.11
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:73433 original size:20 final size:21
Alignment explanation
Indices: 73401--73439 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
73391 AACCTTTGGC
*
73401 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
73422 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
73440 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Done.