Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011523.1 Kokia drynarioides strain JFW-HI SEQ_126509, 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: 90894
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:1080 original size:59 final size:61
Alignment explanation
Indices: 1017--1130 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
1007 CGTCTTCTTG
* *
1017 TATTGACAACAATATTAATACCAA-T-AAAAAAATTCAATCGATATTTATAATATTTTTTA
1 TATTGACAACAATACTAACACCAATTAAAAAAAATTCAATCGATATTTATAATATTTTTTA
* * * **
1076 TATTGATAATAATACTAACATCAATTAAAAAAAATTCAATTTATATTTATAATAT
1 TATTGACAACAATACTAACACCAATTAAAAAAAATTCAATCGATATTTATAATAT
1131 GTTTAAGCGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 19 0.41
60 1 0.02
61 26 0.57
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (61 bp):
TATTGACAACAATACTAACACCAATTAAAAAAAATTCAATCGATATTTATAATATTTTTTA
Found at i:13555 original size:18 final size:18
Alignment explanation
Indices: 13528--13563 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13518 CAAAGGTAAA
13528 CAAAAACGTGCCATAAGG
1 CAAAAACGTGCCATAAGG
*
13546 CAAAAGCGTGCCATAAGG
1 CAAAAACGTGCCATAAGG
13564 TAGAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (18 bp):
CAAAAACGTGCCATAAGG
Found at i:19626 original size:24 final size:24
Alignment explanation
Indices: 19594--19662 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
19584 AATCTTTTAG
19594 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
*
19618 TTAAACTCTATTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
*
19642 TTAAATTCTGTTTATTTGTTT
1 TTAAACTCTGTTTATTTGTTT
19663 GAGTAAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:22098 original size:23 final size:23
Alignment explanation
Indices: 22072--22121 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
22062 AGCACGTTTC
22072 GTGCCCTCTGTTCAACACTATGT
1 GTGCCCTCTGTTCAACACTATGT
* *
22095 GTGCCCTCTGTTCAGCACTGTGT
1 GTGCCCTCTGTTCAACACTATGT
22118 GTGC
1 GTGC
22122 TTCTGTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.30, G:0.24, T:0.34
Consensus pattern (23 bp):
GTGCCCTCTGTTCAACACTATGT
Found at i:31558 original size:2 final size:2
Alignment explanation
Indices: 31551--31581 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31541 GGTATAACAT
31551 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
31582 TATATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:39682 original size:29 final size:28
Alignment explanation
Indices: 39616--39683 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
39606 CAAATTTTGT
* *
39616 ATTTTAAAAAAATTATAAAAATTCTAAA
1 ATTTTAAAAAAATTAAAAAAAGTCTAAA
*
39644 ATTTTCAAAAAATATATAAAAAAAGT-TACA
1 ATTTT-AAAAAA-AT-TAAAAAAAGTCTAAA
39674 ATTTTAAAAA
1 ATTTTAAAAA
39684 TGTTCTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.15
29 11 0.32
30 10 0.29
31 8 0.24
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTTTAAAAAAATTAAAAAAAGTCTAAA
Found at i:65603 original size:13 final size:13
Alignment explanation
Indices: 65575--65610 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
65565 TGGAAATAGA
*
65575 TATATGAAATGGT
1 TATATGAAGTGGT
*
65588 TATATGAAGTGTT
1 TATATGAAGTGGT
65601 TATATGAAGT
1 TATATGAAGT
65611 ATTAGTAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (13 bp):
TATATGAAGTGGT
Found at i:68928 original size:30 final size:30
Alignment explanation
Indices: 68855--69078 Score: 148
Period size: 30 Copynumber: 7.7 Consensus size: 30
68845 ACAGCGGAGT
* *
68855 TGAAAAT-GAAATTTTTGGATA--CCGGGG
1 TGAAAATGGTAATTTTTGGACACTCCGGGG
**
68882 -GCAAAATGGTAA-TTTTGGATGCTTCCGGGG
1 TG-AAAATGGTAATTTTTGGACAC-TCCGGGG
68912 -GAAAATGGTAATTTTTGGACACT-CGAGGG
1 TGAAAATGGTAATTTTTGGACACTCCG-GGG
* *
68941 TGAAAATGGTAATTTTTGAACACTCGGGGG
1 TGAAAATGGTAATTTTTGGACACTCCGGGG
** *
68971 TGAAAAT-GTAATTTTTGGACA-TTTGAGG
1 TGAAAATGGTAATTTTTGGACACTCCGGGG
* ** * * *
68999 AGCAAAACAGTGATTTTTGGACACTCAGAGG
1 TG-AAAATGGTAATTTTTGGACACTCCGGGG
* * * *
69030 TAAAAATGGTAACTTTTGAATACT-CGAGGG
1 TGAAAATGGTAATTTTTGGACACTCCG-GGG
69060 T-AAAAT-GTAATTTTTGGAC
1 TGAAAATGGTAATTTTTGGAC
69079 TTATAGGGTC
Statistics
Matches: 156, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 13 0.08
28 20 0.13
29 37 0.24
30 79 0.51
31 6 0.04
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (30 bp):
TGAAAATGGTAATTTTTGGACACTCCGGGG
Found at i:68952 original size:59 final size:57
Alignment explanation
Indices: 68855--68991 Score: 154
Period size: 59 Copynumber: 2.4 Consensus size: 57
68845 ACAGCGGAGT
* * * *
68855 TGAAAATGAAATTTTTGGATACCGGGGGCAAAATGGTAATTTTGGATGC-TTCCGGGG
1 TGAAAATGTAATTTTTGGACACCGGGGGCAAAATGGTAATTTTGGA-ACACTCCGGGG
* *
68912 -GAAAATGGTAATTTTTGGACACTCGAGGGTG-AAAATGGTAATTTTTGAACACTCGGGGG
1 TGAAAAT-GTAATTTTTGGACAC-CG-GGG-GCAAAATGGTAATTTTGGAACACTCCGGGG
68971 TGAAAATGTAATTTTTGGACA
1 TGAAAATGTAATTTTTGGACA
68992 TTTGAGGAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
56 6 0.09
57 13 0.19
58 3 0.04
59 39 0.57
60 7 0.10
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAAAATGTAATTTTTGGACACCGGGGGCAAAATGGTAATTTTGGAACACTCCGGGG
Found at i:69015 original size:59 final size:60
Alignment explanation
Indices: 68908--69075 Score: 166
Period size: 59 Copynumber: 2.9 Consensus size: 60
68898 GGATGCTTCC
* ** *
68908 GGGG-GAAAATGGTAATTTTTGGACACTCGAGGGTGAAAATGGTAATTTTTGAACACTCG
1 GGGGTGAAAATGGTAATTTTTGGACACTCGAGGGTCAAAACAGTAATTTTTGAACACTCA
* * * *
68967 GGGGTGAAAAT-GTAATTTTTGGACATTTGAGGAG-CAAAACAGTGATTTTTGGACACTCA
1 GGGGTGAAAATGGTAATTTTTGGACACTCGAGG-GTCAAAACAGTAATTTTTGAACACTCA
* * * * * *
69026 GAGGTAAAAATGGTAACTTTTGAATACTCGAGGGT-AAAA-TGTAATTTTTG
1 GGGGTGAAAATGGTAATTTTTGGACACTCGAGGGTCAAAACAGTAATTTTTG
69076 GACTTATAGG
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
58 9 0.10
59 56 0.64
60 23 0.26
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (60 bp):
GGGGTGAAAATGGTAATTTTTGGACACTCGAGGGTCAAAACAGTAATTTTTGAACACTCA
Found at i:69190 original size:30 final size:29
Alignment explanation
Indices: 69057--69475 Score: 220
Period size: 30 Copynumber: 14.3 Consensus size: 29
69047 GAATACTCGA
* *
69057 GGGT-AAAATGTAATTTTTGG-ACTTATA-
1 GGGTAAAAATATAATTTTTGGAAGTT-TAG
* *
69084 GGGTCAAAAAATAGAATTTTTGGAAGCTT-G
1 GGGT--AAAAATATAATTTTTGGAAGTTTAG
* * *
69114 GGGCAAAAATGA-AATTTTTGTGAAGTTCAA
1 GGGTAAAAAT-ATAATTTTTG-GAAGTTTAG
* *
69144 GGG-AAAAATGA-ATTTTTTGGAAGTTTGG
1 GGGTAAAAAT-ATAATTTTTGGAAGTTTAG
*
69172 GGGTAAAAATATAATTTTTGTGAAGTTTAA
1 GGGTAAAAATATAATTTTTG-GAAGTTTAG
* * *
69202 GGGTAAAAATGTATTTTTTGTAAAGTTTAG
1 GGGTAAAAATATAATTTTTG-GAAGTTTAG
* * *
69232 GGGTAATAATGTAATTTTTGTAAAGTTTAG
1 GGGTAAAAATATAATTTTTG-GAAGTTTAG
* * *
69262 GGTTAAAAA-AGGAA-TTTTGGAAAATTTAG
1 GGGTAAAAATA-TAATTTTTGG-AAGTTTAG
* * *
69291 GAGTAAAAATGTAATTTTTGGAAGCTTCA-
1 GGGTAAAAATATAATTTTTGGAAG-TTTAG
** *
69320 GGGTAAAAA-ATGAAAATTTGGAATGTTTCG
1 GGGTAAAAATAT-AATTTTTGGAA-GTTTAG
* * *** *
69350 GGGTAAAAATGTAATTTTTTGAAAAATCG
1 GGGTAAAAATATAATTTTTGGAAGTTTAG
*
69379 AGGTAAAAATGA-AA-TTTTGGAAGTTTAGG
1 GGGTAAAAAT-ATAATTTTTGGAAGTTTA-G
* * * *
69408 GGGTAAAAATGTAATTTTTGGAAAATTCAA
1 GGGTAAAAATATAATTTTTGG-AAGTTTAG
** *
69438 GGG-AAAAATGGAA-TTTTGGAAAGTTTAA
1 GGGTAAAAATATAATTTTTGG-AAGTTTAG
69466 GGGTAAAAAT
1 GGGTAAAAAT
69476 GGAATTTTAG
Statistics
Matches: 305, Mismatches: 61, Indels: 50
0.73 0.15 0.12
Matches are distributed among these distances:
27 4 0.01
28 49 0.16
29 117 0.38
30 127 0.42
31 8 0.03
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATATAATTTTTGGAAGTTTAG
Found at i:69264 original size:59 final size:57
Alignment explanation
Indices: 69057--69491 Score: 327
Period size: 58 Copynumber: 7.5 Consensus size: 57
69047 GAATACTCGA
* * *
69057 GGGT-AAAATGTAATTTTTG--GACTTATAGGGTCAAAAAATAGAATTTTTGG-AAGCTT-G
1 GGGTAAAAATGTAATTTTTGTAAAGTTA-AGGGT--AAAAAT-GAA-TTTTGGAAAGTTTAG
* * * *
69114 GGGCAAAAATGAAATTTTTGTGAAGTTCAAGGG-AAAAATGAATTTTTTGG-AAGTTTGG
1 GGGTAAAAATGTAATTTTTGTAAAGTT-AAGGGTAAAAATGAA--TTTTGGAAAGTTTAG
* * * *
69172 GGGTAAAAATATAATTTTTGTGAAGTTTAAGGGTAAAAATGTATTTTTTGTAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGTAAAG-TTAAGGGTAAAAATG-A-ATTTTGGAAAGTTTAG
* * * *
69232 GGGTAATAATGTAATTTTTGTAAAGTTTAGGGTTAAAAAAGGAATTTTGGAAAATTTAG
1 GGGTAAAAATGTAATTTTTGTAAAGTTAAGGG-T-AAAAATGAATTTTGGAAAGTTTAG
* * * * * *
69291 GAGTAAAAATGTAATTTTTG-GAAGCTTCAGGGTAAAAAATGAAAATTTGGAATGTTTCG
1 GGGTAAAAATGTAATTTTTGTAAAG-TTAAGGGT-AAAAATG-AATTTTGGAAAGTTTAG
* * **
69350 GGGTAAAAATGTAATTTTTTGAAAAATCGA-GGTAAAAATGAAATTTTGG-AAGTTTAGG
1 GGGTAAAAATGTAA-TTTTTGTAAAGTTAAGGGTAAAAATG-AATTTTGGAAAGTTTA-G
* * *
69408 GGGTAAAAATGTAATTTTTGGAAAATTCAAGGG-AAAAATGGAATTTTGGAAAGTTTAA
1 GGGTAAAAATGTAATTTTTGTAAAGTT-AAGGGTAAAAAT-GAATTTTGGAAAGTTTAG
* *
69466 GGGTAAAAATGGAATTTTAG-AAAGTT
1 GGGTAAAAATGTAATTTTTGTAAAGTT
69492 CGAGGATAAA
Statistics
Matches: 313, Mismatches: 43, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
56 3 0.01
57 42 0.13
58 116 0.37
59 96 0.31
60 47 0.15
61 9 0.03
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (57 bp):
GGGTAAAAATGTAATTTTTGTAAAGTTAAGGGTAAAAATGAATTTTGGAAAGTTTAG
Found at i:69280 original size:29 final size:28
Alignment explanation
Indices: 69118--69491 Score: 195
Period size: 29 Copynumber: 12.8 Consensus size: 28
69108 AGCTTGGGGC
* * *
69118 AAAAATGAAATTTTTGTGAAGTTCAAGGG-
1 AAAAATGTAA-TTTTGTAAAGTT-TAGGGT
* * *
69147 AAAAATG-AATTTTTTGGAAGTTTGGGGGT
1 AAAAATGTAATTTTGT-AAAGTTT-AGGGT
* *
69176 AAAAATATAATTTTTGTGAAGTTTAAGGGT
1 AAAAATGTAA-TTTTGTAAAGTTT-AGGGT
*
69206 AAAAATGTATTTTTTGTAAAGTTTAGGGGT
1 AAAAATGTA-ATTTTGTAAAGTTTA-GGGT
*
69236 AATAATGTAATTTTTGTAAAGTTTAGGGTT
1 AAAAATGTAA-TTTTGTAAAGTTTAGGG-T
* * * *
69266 AAAAAAGGAATTTTGGAAAATTTAGGAGT
1 AAAAATGTAATTTTGTAAAGTTTAGG-GT
* *
69295 AAAAATGTAATTTT-TGGAAGCTTCAGGGT
1 AAAAATGTAATTTTGT-AAAG-TTTAGGGT
* * * * *
69324 AAAAAATGAAAATTTGGAATGTTTCGGGGT
1 -AAAAATGTAATTTTGTAAAGTTT-AGGGT
* ** *
69354 AAAAATGTAATTTTTTGAAA-AATCGAGGT
1 AAAAATGTAATTTTGT-AAAGTTTAG-GGT
* *
69383 AAAAATGAAATTTTG-GAAGTTTAGGGGGT
1 AAAAATGTAATTTTGTAAAGTTTA--GGGT
* * *
69412 AAAAATGTAATTTTTGGAAAATTCAAGGG-
1 AAAAATGTAA-TTTTGTAAAGTT-TAGGGT
* *
69441 AAAAATGGAATTTTGGAAAGTTTAAGGGT
1 AAAAATGTAATTTTGTAAAGTTT-AGGGT
*
69470 AAAAATGGAATTTTAG-AAAGTT
1 AAAAATGTAATTTT-GTAAAGTT
69492 CGAGGATAAA
Statistics
Matches: 268, Mismatches: 51, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
27 7 0.03
28 28 0.10
29 120 0.45
30 103 0.38
31 9 0.03
32 1 0.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.35
Consensus pattern (28 bp):
AAAAATGTAATTTTGTAAAGTTTAGGGT
Found at i:71284 original size:17 final size:17
Alignment explanation
Indices: 71257--71353 Score: 82
Period size: 17 Copynumber: 5.9 Consensus size: 17
71247 ACATTTAAAA
* *
71257 TTAAGTTTAAAAC-CAT
1 TTAAATTTAAAACAAAT
71273 TTCAAATTT-AAACTAAAT
1 TT-AAATTTAAAAC-AAAT
71291 TTAAATTTAAAACAAAT
1 TTAAATTTAAAACAAAT
71308 TTAAATTT--AA-AAA-
1 TTAAATTTAAAACAAAT
*
71321 -TAAATTTAAAACCAAT
1 TTAAATTTAAAACAAAT
*
71337 TTAAACTTAAAATCAAA
1 TTAAATTTAAAA-CAAA
71354 AGTTTGGTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
12 7 0.11
14 5 0.08
15 4 0.06
16 6 0.09
17 33 0.50
18 11 0.17
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (17 bp):
TTAAATTTAAAACAAAT
Found at i:71297 original size:6 final size:6
Alignment explanation
Indices: 71271--71330 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
71261 GTTTAAAACC
* **
71271 ATTTCAA ATTTAA A-CTAA ATTTAA ATTTAA A-ACAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
**
71318 AAATAA ATTTAA A
1 ATTTAA ATTTAA A
71331 ACCAATTTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
5 7 0.17
6 30 0.73
7 4 0.10
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTTAA
Found at i:71300 original size:34 final size:35
Alignment explanation
Indices: 71252--71330 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
71242 AAATTACATT
* * * *
71252 TAAAATTAAGTTTAAAAC-CATTTCAAATTT-AAAC
1 TAAATTTAAATTTAAAACAAATTT-AAATTTAAAAA
71286 TAAATTTAAATTTAAAACAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAAACAAATTTAAATTTAAAAA
71321 TAAATTTAAA
1 TAAATTTAAA
71331 ACCAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (35 bp):
TAAATTTAAATTTAAAACAAATTTAAATTTAAAAA
Found at i:71303 original size:18 final size:18
Alignment explanation
Indices: 71271--71330 Score: 88
Period size: 17 Copynumber: 3.4 Consensus size: 18
71261 GTTTAAAACC
71271 ATTTCAAATTT-AAACTAA
1 ATTT-AAATTTAAAACTAA
71289 ATTTAAATTTAAAAC-AA
1 ATTTAAATTTAAAACTAA
*
71306 ATTTAAATTTAAAAATAA
1 ATTTAAATTTAAAACTAA
71324 ATTTAAA
1 ATTTAAA
71331 ACCAATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 22 0.56
18 17 0.44
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTAAATTTAAAACTAA
Found at i:71326 original size:29 final size:28
Alignment explanation
Indices: 71275--71348 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
71265 AAAACCATTT
* **
71275 CAAATTTAAACTAAATTTAAATTTAAAA
1 CAAATTTAAATTAAAAATAAATTTAAAA
71303 CAAATTTAAATTTAAAAATAAATTTAAAA
1 CAAATTTAAA-TTAAAAATAAATTTAAAA
*
71332 CCAATTTAAACTTAAAA
1 CAAATTTAAA-TTAAAA
71349 TCAAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 10 0.25
29 30 0.75
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (28 bp):
CAAATTTAAATTAAAAATAAATTTAAAA
Found at i:71840 original size:49 final size:48
Alignment explanation
Indices: 71765--72203 Score: 379
Period size: 49 Copynumber: 9.0 Consensus size: 48
71755 ATGGTACTAA
* * * *
71765 ATTCGCCGTTGTGGCTTAAATTTTTCCTTTCATGCTTCTGAGGTA-TAAGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTC-GAGGTACT--GG
* * * * *
71815 -TTCGCCATTGCGACTTAAACCTTTCCCCTCGTGTCTTCGCGGTACTGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCGAGGTACTGG
* * *
71863 ATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATG-TCTCTGAGGTAATAGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TC-GAGGTACT-GG
* * ** *
71913 -TTCGCCATTGCGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCGAGGTACTGG
* * * * *
71961 ATTCGCCGTTGCGGCCTAAATCTTTCACTTCATATCTTCGTGGTACTGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCAT-GCTTCGAGGTACTGG
* *
72010 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCGAGGTACTGG
* *
72059 ATTCGCTATTGCGGCTTAAATCTTTCCCTTCATG-TCTCTAAGGTA-TAAGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCT-TC-GAGGTACT--GG
* * * ** *
72109 -TTCGCCATTACGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTTCGAGGTACTGG
* * *
72157 ATTCGCCGTTGCGGCTTAAATCTTTCCCATCATGCTTCGTGGTACTG
1 ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCGAGGTACTG
72204 AGACCTATAG
Statistics
Matches: 315, Mismatches: 55, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
47 2 0.01
48 24 0.08
49 273 0.87
50 14 0.04
51 2 0.01
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (48 bp):
ATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTTCGAGGTACTGG
Found at i:71926 original size:98 final size:98
Alignment explanation
Indices: 71756--72190 Score: 583
Period size: 98 Copynumber: 4.4 Consensus size: 98
71746 TTAATCTACA
** * * *
71756 TGGTACTAAATTCGCCGTTGTGGCTTAAATTTTTCCTTTCATG-CTTCTGAGGTATAAGGTTCGC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTATAAGGTTCGC
*
71820 CATTGCGACTTAAACCTTTCCCCTCGTGTCTTCG
65 CATTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
* *
71854 CGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTA-ATAGGTTCGC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATA-AGGTTCGC
*
71918 CATTGCGACTTAAACCTTTCCCTTTGTGTCTTCG
65 CATTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
* * * *
71952 TGGTACTGGATTCGCCGTTGCGGCCTAAATCTTTCACTTCATATCT-TCGTGGTACT--GGATTC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCT-GAGGTA-TAAGG-TTC
* * * *
72014 GCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCG
63 GCCATTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
** *
72050 TGGTACTGGATTCGCTATTGCGGCTTAAATCTTTCCCTTCATGTCTCTAAGGTATAAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
* *
72115 ATTACGACTTAAACCTTTCCCTTTGTGTCTTCG
66 ATTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
*
72148 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCATG
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
72191 CTTCGTGGTA
Statistics
Matches: 294, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
97 5 0.02
98 285 0.97
99 4 0.01
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.38
Consensus pattern (98 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
ATTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
Found at i:72033 original size:147 final size:145
Alignment explanation
Indices: 71787--72200 Score: 444
Period size: 147 Copynumber: 2.8 Consensus size: 145
71777 GGCTTAAATT
* * * * * * *
71787 TTTCCTTTCATG-CTTCTGAGGTATAAGGTTCGCCATTGCGACTTAAACCTTTCCCCTCGTGTCT
1 TTTCCCTTCATGTC-TCT-AGGTAT-AGGTTCGCCATTACGACCTAAACCTTTCACTTCATATCT
* *
71851 TCGCGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTAATAGG-T
63 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GAGGTAAT-GGAT
71914 TCGCCATTGCGACTTAAACC
126 TCGCCATTGCGACTTAAACC
** * * * *
71934 TTTCCCTTTGTGTCTTCGT-GGTACT-GGATTCGCCGTTGCGGCCTAAATCTTTCACTTCATATC
1 TTTCCCTTCATGTC-TC-TAGGTA-TAGG-TTCGCCATTACGACCTAAACCTTTCACTTCATATC
* *
71997 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATT
62 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTAATGGATT
* * *
72062 CGCTATTGCGGCTTAAATC
127 CGCCATTGCGACTTAAACC
* * ** *
72081 TTTCCCTTCATGTCTCTAAGGTATAAGGTTCGCCATTACGACTTAAACCTTTCCCTTTGTGTCTT
1 TTTCCCTTCATGTCTCT-AGGTAT-AGGTTCGCCATTACGACCTAAACCTTTCACTTCATATCTT
* *
72146 CGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCATG-CTTCGTGGTA
64 CGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTA
72201 CTGAGACCTA
Statistics
Matches: 227, Mismatches: 30, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
145 1 0.00
146 17 0.07
147 199 0.88
148 9 0.04
149 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (145 bp):
TTTCCCTTCATGTCTCTAGGTATAGGTTCGCCATTACGACCTAAACCTTTCACTTCATATCTTCG
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTAATGGATTCGCC
ATTGCGACTTAAACC
Found at i:83276 original size:30 final size:30
Alignment explanation
Indices: 83206--83427 Score: 137
Period size: 30 Copynumber: 7.6 Consensus size: 30
83196 TACCCAGGGC
**
83206 AAAATGGTAA-TTTTGGATGCTTC-AGGG-G
1 AAAATGGTAATTTTTGGACAC-TCGAGGGTG
* *
83234 TAAAATGATAATTTTTAGACACTCGAGGGTG
1 -AAAATGGTAATTTTTGGACACTCGAGGGTG
*
83265 AAAATGGTAATTTTTGGACACTCAAGGGTG
1 AAAATGGTAATTTTTGGACACTCGAGGGTG
* * * * *
83295 AAAAT-ATAA-TTTCGGACA-TCCAAGGAG
1 AAAATGGTAATTTTTGGACACTCGAGGGTG
* * **
83322 CAAAACGGTGATTTTTGGACACTCGAGGGAA
1 -AAAATGGTAATTTTTGGACACTCGAGGGTG
**
83353 AAAATGGTAATTTTTAAACACTC-AGGG-G
1 AAAATGGTAATTTTTGGACACTCGAGGGTG
*
83381 CAAAAAT-GTAA-TTTTGGACA-TACG-GGGTCA
1 --AAAATGGTAATTTTTGGACACT-CGAGGGT-G
83411 AAAATGG-AATTTTTGGA
1 AAAATGGTAATTTTTGGA
83428 AGTTCCAGGG
Statistics
Matches: 151, Mismatches: 27, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
27 7 0.05
28 30 0.20
29 32 0.21
30 75 0.50
31 7 0.05
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGACACTCGAGGGTG
Found at i:83304 original size:59 final size:57
Alignment explanation
Indices: 83202--83400 Score: 165
Period size: 58 Copynumber: 3.4 Consensus size: 57
83192 TGGATACCCA
** *
83202 GGGCAAAATGGTAATTTTGGATGCTTCAGGGGTAAAATGATAATTTTTAGACACTCGAG
1 GGGCAAAATGGTAATTTTGGACAC-TCAAGGGTAAAATGATAATTTTTAGACACTC-AG
**
83261 GGTG-AAAATGGTAATTTTTGGACACTCAAGGGTGAAAAT-ATAA-TTTCGGACA-TCCAAG
1 GG-GCAAAATGGTAA-TTTTGGACACTCAAGGGT-AAAATGATAATTTTTAGACACT-C-AG
* * * * * * *
83319 GAGCAAAACGGTGATTTTTGGACACTCGAGGGAAAAAATGGTAATTTTTAAACACTCAG
1 GGGCAAAATGGT-AATTTTGGACACTCAAGGG-TAAAATGATAATTTTTAGACACTCAG
83378 GGGCAAAAAT-GTAATTTTGGACA
1 GGGC-AAAATGGTAATTTTGGACA
83401 TACGGGGTCA
Statistics
Matches: 111, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
57 2 0.02
58 49 0.44
59 34 0.31
60 25 0.23
61 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (57 bp):
GGGCAAAATGGTAATTTTGGACACTCAAGGGTAAAATGATAATTTTTAGACACTCAG
Found at i:83569 original size:59 final size:57
Alignment explanation
Indices: 83405--83823 Score: 292
Period size: 59 Copynumber: 7.1 Consensus size: 57
83395 TGGACATACG
* * * * ** *
83405 GGGTCAAAAATGGAATTTTTGGAAGTTCCAGGGCAAAAATATAATTTTTGTGAAG-TTCA
1 GGGT-AAAAATGTAATTTTTGGAAATTCGA-GTCAAAAATGGAATTTTTG-GAAGTTTAA
** * *** *
83464 GGG-AAAAATAAAATTTTTGGAAGTTCGAGGGTAAAATGTAATTTTTTGTGAAGTTTAA
1 GGGTAAAAATGTAATTTTTGGAAATTCGAGTCAAAAATGGAA-TTTTTG-GAAGTTTAA
* * * * *
83522 GGGCAAAAATGTAATTTTTGTGAATTTCGAGTCAAAAATGGAATTTTTGAAAATTTAG
1 GGGTAAAAATGTAATTTTTG-GAAATTCGAGTCAAAAATGGAATTTTTGGAAGTTTAA
*
83580 GGGTAAAAATGTAATTTTTGGAAGCTTCGAGGTCAAAAATGGAA-TTTTGGAAAGTTTAA
1 GGGTAAAAATGTAATTTTTGGAA-ATTCGA-GTCAAAAATGGAATTTTTGG-AAGTTTAA
* * * * * * ***
83639 AGGTAAAAATGTAATTTTTGGAAAAATCAGGGTCAAAAATGAAATTTTAGAAAGTTCGGG
1 GGGTAAAAATGTAATTTTTGG-AAATTC-GAGTCAAAAATGGAATTTTTGGAAGTT-TAA
** * * * *
83699 GGGTAAAAATGTAATTTTTTCAAAATTTTGGGGTTAAAAATGGAA-TTTTGGAAGTTTAG
1 GGGTAAAAATGTAA-TTTTTGGAAA--TTCGAGTCAAAAATGGAATTTTTGGAAGTTTAA
* * *
83758 GGGTAAAAATAG-AATTCTTGGAAATTCGAGGTTAAAAATGGAA-TTTTGGAAAGTTTAG
1 GGGTAAAAAT-GTAATTTTTGGAAATTCGA-GTCAAAAATGGAATTTTTGG-AAGTTTAA
83816 GGGTAAAA
1 GGGTAAAA
83824 TTATGATTTT
Statistics
Matches: 295, Mismatches: 48, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
56 13 0.04
57 55 0.19
58 64 0.22
59 94 0.32
60 50 0.17
61 18 0.06
62 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (57 bp):
GGGTAAAAATGTAATTTTTGGAAATTCGAGTCAAAAATGGAATTTTTGGAAGTTTAA
Found at i:83660 original size:30 final size:30
Alignment explanation
Indices: 83376--83847 Score: 242
Period size: 29 Copynumber: 16.1 Consensus size: 30
83366 TTAAACACTC
* *
83376 AGGGGCAAAAATGTAA-TTTTGGACA---T
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
83402 ACGGGGTCAAAAATGGAATTTTTGG-AAGTTCC
1 A-GGGGT-AAAAATGTAATTTTTGGAAAGTT-T
* * *
83434 A-GGGCAAAAATATAATTTTTGTG-AAGTTC
1 AGGGGTAAAAATGTAATTTTTG-GAAAGTTT
**
83463 A-GGG-AAAAATAAAATTTTTGG-AAG-TT
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
*
83489 CGAGGGT-AAAATGTAATTTTTTGTG-AAGTTT
1 AG-GGGTAAAAATGTAA-TTTTTG-GAAAGTTT
* *
83520 AAGGGCAAAAATGTAATTTTTGTG-AA-TTT
1 AGGGGTAAAAATGTAATTTTTG-GAAAGTTT
* * * *
83549 -CGAGTCAAAAATGGAATTTTT-GAAAATTT
1 AGGGGT-AAAAATGTAATTTTTGGAAAGTTT
*
83578 AGGGGTAAAAATGTAATTTTTGG-AAGCTT
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
* * *
83607 CGAGGTCAAAAATGGAA-TTTTGGAAAGTTT
1 AGGGGT-AAAAATGTAATTTTTGGAAAGTTT
** ** *
83637 AAAGGTAAAAATGTAATTTTTGGAAAAATC
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
* * *
83667 A-GGGTCAAAAATG-AAATTTTAGAAAGTTCG
1 AGGGGT-AAAAATGTAATTTTTGGAAAGTT-T
* ** *
83697 GGGGGTAAAAATGTAATTTTTTCAAAATTT
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
83727 TGGGGTTAAAAATGGAA-TTTTGG-AAGTTT
1 AGGGG-TAAAAATGTAATTTTTGGAAAGTTT
*
83756 AGGGGTAAAAATAG-AATTCTTGGAAA--TT
1 AGGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* * *
83784 CGAGGTTAAAAATGGAA-TTTTGGAAAGTTT
1 AG-GGGTAAAAATGTAATTTTTGGAAAGTTT
* * * *
83814 AGGGGTAAAATTATGATTTTTGAAAAGTTT
1 AGGGGTAAAAATGTAATTTTTGGAAAGTTT
83844 AGGG
1 AGGG
83848 ACATCCAGGG
Statistics
Matches: 347, Mismatches: 63, Indels: 68
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.01
27 9 0.03
28 60 0.17
29 137 0.39
30 102 0.29
31 36 0.10
32 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
AGGGGTAAAAATGTAATTTTTGGAAAGTTT
Found at i:83832 original size:29 final size:29
Alignment explanation
Indices: 83562--83847 Score: 130
Period size: 30 Copynumber: 9.7 Consensus size: 29
83552 GTCAAAAATG
* *
83562 GAATTTTTGAAAATTTAGGGGTAAAA-AT
1 GAATTTTGGAAAGTTTAGGGGTAAAATAT
* * *
83590 GTAATTTTTGG-AAGCTTCGAGGTCAAAA-AT
1 G-AA-TTTTGGAAAGTTTAGGGGT-AAAATAT
**
83620 GGAATTTTGGAAAGTTTAAAGGTAAAA-AT
1 -GAATTTTGGAAAGTTTAGGGGTAAAATAT
** *
83649 GTAATTTTTGGAAAAATCA-GGGTCAAAA-AT
1 G-AA-TTTTGGAAAGTTTAGGGGT-AAAATAT
* **
83679 GAAATTTTAGAAAGTTCGGGGGGTAAAA-AT
1 G-AATTTTGGAAAGTT-TAGGGGTAAAATAT
** * *
83709 GTAATTTTTTCAAAATTTTGGGGTTAAAA-AT
1 G-AA-TTTTGGAAAGTTTAGGGG-TAAAATAT
83740 GGAATTTTGG-AAGTTTAGGGGTAAAA-AT
1 -GAATTTTGGAAAGTTTAGGGGTAAAATAT
* *
83768 AGAATTCTTGGAAA--TTCGAGGTTAAAA-AT
1 -GAATT-TTGGAAAGTTTAG-GGGTAAAATAT
83797 GGAATTTTGGAAAGTTTAGGGGTAAAATTAT
1 -GAATTTTGGAAAGTTTAGGGGTAAAA-TAT
* *
83828 GATTTTTGAAAAGTTTAGGG
1 GAATTTTGGAAAGTTTAGGG
83848 ACATCCAGGG
Statistics
Matches: 202, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
28 24 0.12
29 70 0.35
30 82 0.41
31 25 0.12
32 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
GAATTTTGGAAAGTTTAGGGGTAAAATAT
Found at i:85309 original size:34 final size:33
Alignment explanation
Indices: 85267--85353 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
85257 GTATTTGAAC
* * *
85267 TTTAAAATTACATTTAAAATTAAGTTTAAACCCA
1 TTTAAAATTA-ATTTAAAATTAAATTTAAAACAA
* * *
85301 TTTCAAATTTAAATTAAATTTAAATTTAAAACAA
1 TTT-AAAATTAATTTAAAATTAAATTTAAAACAA
*
85335 TTTAAAAATAAATTTAAAA
1 TTT-AAAATTAATTTAAAA
85354 CCAATTTAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
34 35 0.85
35 6 0.15
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTAAAATTAATTTAAAATTAAATTTAAAACAA
Found at i:85339 original size:22 final size:23
Alignment explanation
Indices: 85314--85369 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
85304 CAAATTTAAA
*
85314 TTAAATTTAAATTTAAAA-CAAT
1 TTAAAATTAAATTTAAAACCAAT
*
85336 TTAAAAATAAATTTAAAACCAAT
1 TTAAAATTAAATTTAAAACCAAT
*
85359 TTAAACTTAAA
1 TTAAAATTAAA
85370 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAAAATTAAATTTAAAACCAAT
Found at i:89886 original size:97 final size:98
Alignment explanation
Indices: 89702--89891 Score: 256
Period size: 97 Copynumber: 1.9 Consensus size: 98
89692 TGGAAAATGA
* ** *
89702 TATTTGATTATCTTGATTTGAAGAAAAGTCACACCTAGTAAGTTAAGGCACAAATTTTCAAAACC
1 TATTCGATTATCCCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCAAAACC
* * *
89767 AGAGATAAAGAAACATTGCCTCG-TTTTAAGGG
66 AGAAATAAAAAAACATTACCTCGATTTTAAGGG
*** *
89799 TATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAATGCACAAATTTTCAAAACC
1 TATTCGATTATCCCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCAAAACC
* *
89864 CGAAATAAAAAAATATTACCTCGATTTT
66 AGAAATAAAAAAACATTACCTCGATTTT
89892 TAAATGTTTA
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
97 75 0.95
98 4 0.05
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (98 bp):
TATTCGATTATCCCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCAAAACC
AGAAATAAAAAAACATTACCTCGATTTTAAGGG
Found at i:90268 original size:30 final size:30
Alignment explanation
Indices: 90186--90370 Score: 182
Period size: 29 Copynumber: 6.3 Consensus size: 30
90176 AAAGTTTTAG
* *
90186 GGGTAAAAATGTCA-TTTTGAGAAATTCG-
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
* * *
90214 GGGTAGAAATATGATTTTTG-GAAGTTCGA
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
* *
90243 GGGTGAAAATGTAATTTTTTAGAAGTTC-A
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
* *
90272 GGGCAAAAATGGAATTTTTGAGAAGTTCGA
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
* * *
90302 GGGTGAAAATGTAA-TTTTGAAAAGTTTGA
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
* * * *
90331 GGGAAAAAATGCAATTTTTGAAAAGTTTGA
1 GGGTAAAAATGTAATTTTTGAGAAGTTCGA
*
90361 GGGTCAAAAT
1 GGGTAAAAAT
90371 ATGAGTTTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 18 0.14
29 69 0.53
30 42 0.33
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (30 bp):
GGGTAAAAATGTAATTTTTGAGAAGTTCGA
Found at i:90304 original size:59 final size:59
Alignment explanation
Indices: 90227--90370 Score: 193
Period size: 59 Copynumber: 2.5 Consensus size: 59
90217 TAGAAATATG
* * * *
90227 ATTTTTG-GAAGTTCGAGGGTGAAAATGTAATTTTTTAGAAG-TTCAGGGCAAAAATGGA
1 ATTTTTGAGAAGTTCGAGGGTGAAAATGTAA-TTTTGAAAAGTTTCAGGGAAAAAATGCA
*
90285 ATTTTTGAGAAGTTCGAGGGTGAAAATGTAATTTTGAAAAGTTTGAGGGAAAAAATGCA
1 ATTTTTGAGAAGTTCGAGGGTGAAAATGTAATTTTGAAAAGTTTCAGGGAAAAAATGCA
* * *
90344 ATTTTTGAAAAGTTTGAGGGTCAAAAT
1 ATTTTTGAGAAGTTCGAGGGTGAAAAT
90371 ATGAGTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
58 15 0.20
59 61 0.80
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (59 bp):
ATTTTTGAGAAGTTCGAGGGTGAAAATGTAATTTTGAAAAGTTTCAGGGAAAAAATGCA
Found at i:90387 original size:59 final size:58
Alignment explanation
Indices: 90227--90392 Score: 156
Period size: 59 Copynumber: 2.8 Consensus size: 58
90217 TAGAAATATG
* * * * * * * * *
90227 ATTTTTG-GAAGTTCGAGGGTGAAAATGTAATTTTTTAGAAGTTCAGGGCAAAAATGGA
1 ATTTTTGAAAAGTTCGAGGGTCAAAATATAA-GTTTGAAAAGTTTAGGGAAAAAATGCA
* * * *
90285 ATTTTTGAGAAGTTCGAGGGTGAAAATGTAATTTTGAAAAGTTTGAGGGAAAAAATGCA
1 ATTTTTGAAAAGTTCGAGGGTCAAAATATAAGTTTGAAAAGTTT-AGGGAAAAAATGCA
* *
90344 ATTTTTGAAAAGTTTGAGGGTCAAAATATGAGTTT-AAAGAGTTTAGGGA
1 ATTTTTGAAAAGTTCGAGGGTCAAAATATAAGTTTGAAA-AGTTTAGGGA
90393 CCTTCTAGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
58 25 0.27
59 69 0.73
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (58 bp):
ATTTTTGAAAAGTTCGAGGGTCAAAATATAAGTTTGAAAAGTTTAGGGAAAAAATGCA
Done.