Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 283 of 318
Found at i:89532822 original size:26 final size:27
Alignment explanation
Indices: 89532785--89532843 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
89532775 AGTAGCTCTG
89532785 AAGAG-CTATTAATCAGGAAGCTCACA
1 AAGAGCCTATTAATCAGGAAGCTCACA
* *
89532811 AAGAGCCT-TTAATCGGGAAGCTCACG
1 AAGAGCCTATTAATCAGGAAGCTCACA
89532837 AAGAGCC
1 AAGAGCC
89532844 ATATATCGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
AAGAGCCTATTAATCAGGAAGCTCACA
Found at i:89532851 original size:26 final size:26
Alignment explanation
Indices: 89532785--89532854 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
89532775 AGTAGCTCTG
*
89532785 AAGAG-CTATTAATCAGGAAGCTCACA
1 AAGAGCCTA-TAATCGGGAAGCTCACA
* *
89532811 AAGAGCCTTTAATCGGGAAGCTCACG
1 AAGAGCCTATAATCGGGAAGCTCACA
89532837 AAGAGCC-ATATATCGGGA
1 AAGAGCCTATA-ATCGGGA
89532855 TGCCCATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 34 0.89
27 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AAGAGCCTATAATCGGGAAGCTCACA
Found at i:89535865 original size:2 final size:2
Alignment explanation
Indices: 89535854--89535894 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
89535844 AGTATAGTTG
89535854 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89535895 GTATGCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:89536477 original size:29 final size:29
Alignment explanation
Indices: 89536438--89536512 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
89536428 GGTTGAGAGA
* *
89536438 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
89536467 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
89536496 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
89536513 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:89538223 original size:25 final size:25
Alignment explanation
Indices: 89538195--89538278 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
89538185 ACATGTAAAT
* *
89538195 GGGAAGCTCTTTTGAGCCATATAAC
1 GGGAAGCTCTTATGAGCAATATAAC
* * * ***
89538220 GGGAAACTCGTGTGAGCTGCATAAC
1 GGGAAGCTCTTATGAGCAATATAAC
* * *
89538245 GGGAAGCTGTTATGAGCAATTTATC
1 GGGAAGCTCTTATGAGCAATATAAC
89538270 GGGAAGCTC
1 GGGAAGCTC
89538279 AAGAGAGCCA
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (25 bp):
GGGAAGCTCTTATGAGCAATATAAC
Found at i:89540284 original size:11 final size:10
Alignment explanation
Indices: 89540256--89540291 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
89540246 TTTCTTATTT
89540256 CTATTCTTTAG
1 CTATT-TTTAG
89540267 CTATTTTTAG
1 CTATTTTTAG
89540277 CTATTTTTAG
1 CTATTTTTAG
89540287 CTATT
1 CTATT
89540292 CTTCTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.19, C:0.14, G:0.08, T:0.58
Consensus pattern (10 bp):
CTATTTTTAG
Found at i:89545443 original size:17 final size:17
Alignment explanation
Indices: 89545421--89545455 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
89545411 TGTTCTGAGC
89545421 ATTATCTTTTTCAGCTA
1 ATTATCTTTTTCAGCTA
89545438 ATTATCTTTTTCAGCTA
1 ATTATCTTTTTCAGCTA
89545455 A
1 A
89545456 CTCCAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTATCTTTTTCAGCTA
Found at i:89546479 original size:12 final size:12
Alignment explanation
Indices: 89546462--89546497 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
89546452 TCCCTGACTA
89546462 CTAGATTTCGGC
1 CTAGATTTCGGC
*
89546474 CTAGATTCCGGC
1 CTAGATTTCGGC
89546486 CTAGA-TTCGGC
1 CTAGATTTCGGC
89546497 C
1 C
89546498 GGCACTGCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.28
Consensus pattern (12 bp):
CTAGATTTCGGC
Found at i:89549510 original size:13 final size:13
Alignment explanation
Indices: 89549492--89549516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89549482 ATTATTTATC
89549492 ATTTAAATATATA
1 ATTTAAATATATA
89549505 ATTTAAATATAT
1 ATTTAAATATAT
89549517 TAATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:89549524 original size:11 final size:11
Alignment explanation
Indices: 89549510--89549553 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
89549500 ATATAATTTA
89549510 AATATATTAAT
1 AATATATTAAT
89549521 AATATA-TAAT
1 AATATATTAAT
*
89549531 AATATATAAAT
1 AATATATTAAT
*
89549542 AATATAATAAT
1 AATATATTAAT
89549553 A
1 A
89549554 TACAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATATTAAT
Found at i:89549546 original size:19 final size:20
Alignment explanation
Indices: 89549510--89549567 Score: 82
Period size: 19 Copynumber: 2.9 Consensus size: 20
89549500 ATATAATTTA
*
89549510 AATATATTAATAATATATAAT
1 AATATATAAATAA-ATATAAT
89549531 AATATATAAAT-AATATAAT
1 AATATATAAATAAATATAAT
*
89549550 AATATACAAATAAATATA
1 AATATATAAATAAATATA
89549568 TAAAGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 17 0.50
20 7 0.21
21 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATATAAATAAATATAAT
Found at i:89549622 original size:14 final size:15
Alignment explanation
Indices: 89549599--89549635 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
89549589 ATAACTAATT
89549599 ATATACTTATACTTA
1 ATATACTTATACTTA
89549614 ATATA-TTATACTTA
1 ATATACTTATACTTA
89549628 ATAGTACT
1 ATA-TACT
89549636 AATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.60
15 7 0.35
16 1 0.05
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (15 bp):
ATATACTTATACTTA
Found at i:89562356 original size:2 final size:2
Alignment explanation
Indices: 89562349--89562381 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89562339 TCTTTTATTT
89562349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89562382 TAGTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89567109 original size:19 final size:20
Alignment explanation
Indices: 89567082--89567123 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
89567072 TTTTTTTGCA
* *
89567082 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
*
89567102 TTCA-TCATGTGTATTAAAT
1 TTCATTCATGTGCATTAAAT
89567121 TTC
1 TTC
89567124 GCGAAAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:89569177 original size:21 final size:22
Alignment explanation
Indices: 89569153--89569197 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
89569143 TCACAATTCA
89569153 AAAG-CCATTACTTTCCCTTAT
1 AAAGCCCATTACTTTCCCTTAT
89569174 AAAGCCCATTACTTTCCCTTAT
1 AAAGCCCATTACTTTCCCTTAT
89569196 AA
1 AA
89569198 GGATAGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAGCCCATTACTTTCCCTTAT
Found at i:89575282 original size:42 final size:42
Alignment explanation
Indices: 89575234--89575548 Score: 221
Period size: 42 Copynumber: 7.4 Consensus size: 42
89575224 GAACCTTAAA
89575234 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
** * * * * * *
89575276 TCCCTAAGCAGTAGTGG-AGTAGATCGAAGATGAAGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATC
89575321 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
** * * ** * * *
89575362 TCCCTAAGCAGTAGTGG-AGTAGATCGAAGACGAAGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATC
89575407 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
* * * ** * * *
89575448 TCCCTAAGCAGTA--GTAGAGTAGATCGAAGACGAAGAACCTTAAAC
1 TCCCTAAGCAGTAGGGTA-A-CAGGTTGAA-TTGCAG-ATCTT-ATC
* *
89575493 -CCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
89575534 TCCCTAAGCAGTAGG
1 TCCCTAAGCAGTAGG
89575549 AAAACAGATC
Statistics
Matches: 200, Mismatches: 53, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
40 3 0.01
41 7 0.04
42 84 0.42
43 27 0.14
44 69 0.34
45 7 0.04
46 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (42 bp):
TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
Found at i:89575355 original size:86 final size:86
Alignment explanation
Indices: 89575210--89575685 Score: 690
Period size: 86 Copynumber: 5.5 Consensus size: 86
89575200 ATGGTGTAAC
*
89575210 AGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
89575275 CTCCCTAAGCAGTAGTGGAGT
66 CTCCCTAAGCAGTAGTGGAGT
*
89575296 AGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
89575361 CTCCCTAAGCAGTAGTGGAGT
66 CTCCCTAAGCAGTAGTGGAGT
89575382 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
*
89575447 CTCCCTAAGCAGTAGTAGAGT
66 CTCCCTAAGCAGTAGTGGAGT
* *
89575468 AGATCGAAGACGAAGAACCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
* **
89575533 CTCCCTAAGCAGTAG-GAAAAC
66 CTCCCTAAGCAGTAGTG-GAGT
** * ** *
89575554 AGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CAAATTTACAGATCTTA
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATCTTA
* *
89575618 AC-CCCTTAAGCAGTAG-GGAAAT
65 TCTCCC-TAAGCAGTAGTGG-AGT
* ** * * *
89575640 AGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGTAAGGAAACAG
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAG
89575686 ATCGAAGGCG
Statistics
Matches: 364, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
85 5 0.01
86 359 0.99
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (86 bp):
AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
CTCCCTAAGCAGTAGTGGAGT
Found at i:89575499 original size:44 final size:44
Alignment explanation
Indices: 89575277--89575505 Score: 163
Period size: 44 Copynumber: 5.3 Consensus size: 44
89575267 GATCTTATCT
*
89575277 CCCTAAGCAGTAGTGGAGTAGATCGAAGATGAAGAACCTTAAAC
1 CCCTAAGCAGTAGTAGAGTAGATCGAAGATGAAGAACCTTAAAC
* * * * * * *
89575321 CCCTAAGCAGTAGGGTA-A-CAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTA--GTAGAGTAGATCGAAGATGAAGAACCTTAAAC
* *
89575362 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTAGAGTAGATCGAAGATGAAGAACCTTAAAC
* * * * * * *
89575407 CCCTAAGCAGTAGGGTA-A-CAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTA--GTAGAGTAGATCGAAGATGAAGAACCTTAAAC
*
89575448 TCCCTAAGCAGTAGTAGAGTAGATCGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTAGAGTAGATCGAAGATGAAGAACCTTAAAC
*
89575493 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
89575506 GGTAACAGGT
Statistics
Matches: 134, Mismatches: 35, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
40 5 0.04
41 6 0.04
42 44 0.33
43 13 0.10
44 56 0.42
45 6 0.04
46 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTAGAGTAGATCGAAGATGAAGAACCTTAAAC
Found at i:89575555 original size:42 final size:42
Alignment explanation
Indices: 89575234--89575635 Score: 200
Period size: 42 Copynumber: 9.4 Consensus size: 42
89575224 GAACCTTAAA
*
89575234 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * * *
89575276 TCCCTAAGCAGTAGTGG-AGTAGATCGAAGATGA-AGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTG-A-ATTACAG-ATCTT-ATC
*
89575321 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * * *
89575362 TCCCTAAGCAGTAGTGG-AGTAGATCGAA-GACGAAGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTGAATTAC--AG-ATCTT-ATC
*
89575407 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
* * * * * *
89575448 TCCCTAAGCAGTA--GTAGAGTAGATCGAA-GACGAAGAACCTTAAAC
1 TCCCTAAGCAGTAGGGTA-A-CAGGTTGAATTAC--AG-ATCTT-ATC
*
89575493 -CCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * ** *
89575534 TCCCTAAGCAGTAGGAAAACAGATCGAA-GACGAAGGGCCTTAAC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTAC--A-GATCTTATC
* ** *
89575578 CCCCTAAGCAGTAGGGTAACAGG-CAAATTTACAGATCTTAAC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATCTTATC
89575620 -CCCTTAAGCAGTAGGG
1 TCCC-TAAGCAGTAGGG
89575636 AAATAGATCG
Statistics
Matches: 265, Mismatches: 63, Indels: 64
0.68 0.16 0.16
Matches are distributed among these distances:
40 3 0.01
41 14 0.05
42 112 0.42
43 27 0.10
44 94 0.35
45 12 0.05
46 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (42 bp):
TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
Found at i:89575589 original size:44 final size:44
Alignment explanation
Indices: 89575535--89575729 Score: 227
Period size: 44 Copynumber: 4.5 Consensus size: 44
89575525 GATCTTATCT
*
89575535 CCCTAAGCAGTAGGAAAACAGATCGAAGACGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
* * ** **
89575579 CCCTAAGCAGTAGGGTAACAG-GC-AA-ATTTACA-GATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGCCTTAACC
* * *
89575621 CCTTAAGCAGTAGGGAAATAGATCGAAGGCGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
* *
89575665 CCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
*
89575709 CCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
89575730 GCTGAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.23
43 4 0.03
44 90 0.73
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.15
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
Found at i:89580676 original size:2 final size:2
Alignment explanation
Indices: 89580669--89580695 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89580659 CTTTTATTTT
89580669 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
89580696 TAGTTCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89582918 original size:13 final size:12
Alignment explanation
Indices: 89582894--89582930 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
89582884 AAACAGACCC
89582894 TTAATT-TCTAT
1 TTAATTGTCTAT
89582905 TTAAATTGTCTAT
1 TT-AATTGTCTAT
89582918 TT-ATTGTCTAT
1 TTAATTGTCTAT
89582929 TT
1 TT
89582931 TTATAAGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.54
12 4 0.17
13 7 0.29
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (12 bp):
TTAATTGTCTAT
Found at i:89589900 original size:19 final size:20
Alignment explanation
Indices: 89589873--89589914 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
89589863 TTTTTTTGCA
* *
89589873 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
*
89589893 TTCA-TCATGTGTATTAAAT
1 TTCATTCATGTGCATTAAAT
89589912 TTC
1 TTC
89589915 GCGAAAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:89598120 original size:86 final size:86
Alignment explanation
Indices: 89597975--89598449 Score: 681
Period size: 86 Copynumber: 5.5 Consensus size: 86
89597965 ATGGTGTAAC
*
89597975 AGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
89598040 CTCCCTAAGCAGTAGTGGAGT
66 CTCCCTAAGCAGTAGTGGAGT
*
89598061 AGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
89598126 CTCCCTAAGCAGTAGTGGAGT
66 CTCCCTAAGCAGTAGTGGAGT
89598147 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
*
89598212 CTCCCTAAGCAGTAGTAGAGT
66 CTCCCTAAGCAGTAGTGGAGT
* *
89598233 AGATCGAAGAC-AAGAACCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTAT
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
* **
89598297 CTCCCTAAGCAGTAG-GAAAAC
66 CTCCCTAAGCAGTAGTG-GAGT
** * ** *
89598318 AGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CAAATTTACAGATCTTA
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATCTTA
* *
89598382 AC-CCCTTAAGCAGTAG-GGAAAT
65 TCTCCC-TAAGCAGTAGTGG-AGT
* ** * * *
89598404 AGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGTAAGGAAACAG
1 AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAG
89598450 ATCGAAGGCG
Statistics
Matches: 362, Mismatches: 22, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
85 83 0.23
86 279 0.77
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (86 bp):
AGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTAT
CTCCCTAAGCAGTAGTGGAGT
Found at i:89598319 original size:42 final size:42
Alignment explanation
Indices: 89597999--89598399 Score: 207
Period size: 42 Copynumber: 9.4 Consensus size: 42
89597989 GAACCTTAAA
*
89597999 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * * *
89598041 TCCCTAAGCAGTAGTGG-AGTAGATCGAAGATGA-AGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTG-A-ATTACAG-ATCTT-ATC
*
89598086 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * * *
89598127 TCCCTAAGCAGTAGTGG-AGTAGATCGAA-GACGAAGAACCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGGTTGAATTAC--AG-ATCTT-ATC
*
89598172 -CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
* * * * * *
89598213 TCCCTAAGCAGTA--GTAGAGTAGATCGAA-GACAAGAACCTTAAAC
1 TCCCTAAGCAGTAGGGTA-A-CAGGTTGAATTAC-AG-ATCTT-ATC
*
89598257 -CCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
** * * * ** *
89598298 TCCCTAAGCAGTAGGAAAACAGATCGAA-GACGAAGGGCCTTAAC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTAC--A-GATCTTATC
* ** *
89598342 CCCCTAAGCAGTAGGGTAACAGG-CAAATTTACAGATCTTAAC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATCTTATC
89598384 -CCCTTAAGCAGTAGGG
1 TCCC-TAAGCAGTAGGG
89598400 AAATAGATCG
Statistics
Matches: 265, Mismatches: 63, Indels: 62
0.68 0.16 0.16
Matches are distributed among these distances:
40 3 0.01
41 14 0.05
42 114 0.43
43 46 0.17
44 78 0.29
45 10 0.04
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (42 bp):
TCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATC
Found at i:89598353 original size:44 final size:44
Alignment explanation
Indices: 89598299--89598493 Score: 227
Period size: 44 Copynumber: 4.5 Consensus size: 44
89598289 GATCTTATCT
*
89598299 CCCTAAGCAGTAGGAAAACAGATCGAAGACGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
* * ** **
89598343 CCCTAAGCAGTAGGGTAACAG-GC-AA-ATTTACA-GATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGCCTTAACC
* * *
89598385 CCTTAAGCAGTAGGGAAATAGATCGAAGGCGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
* *
89598429 CCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
*
89598473 CCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
89598494 GCTGAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.23
43 4 0.03
44 90 0.73
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.15
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAACC
Found at i:89598397 original size:171 final size:172
Alignment explanation
Indices: 89597972--89598364 Score: 664
Period size: 171 Copynumber: 2.3 Consensus size: 172
89597962 AGAATGGTGT
*
89597972 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
* *
89598037 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGGT
66 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATCAAGAACCTTAAACCCCTAAGCAGTAGGGT
* *
89598102 AACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
131 AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTGA
**
89598144 AGTAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
*
89598209 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGA-CAAGAACCTTAAACCCCTAAGTAGTAGGGT
66 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATCAAGAACCTTAAACCCCTAAGCAGTAGGGT
89598273 AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAG-GAA
131 AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTG-A
** *
89598315 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGG
89598365 CAAATTTACA
Statistics
Matches: 207, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
170 1 0.00
171 111 0.54
172 95 0.46
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (172 bp):
AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATCAAGAACCTTAAACCCCTAAGCAGTAGGGT
AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTGA
Found at i:89598409 original size:171 final size:171
Alignment explanation
Indices: 89597972--89598449 Score: 660
Period size: 171 Copynumber: 2.8 Consensus size: 171
89597962 AGAATGGTGT
*
89597972 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
*
89598037 TATCTCCCTAAGCAGTAGTGG-AGTAGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGG
66 TATCTCCCTAAGCAGTAG-GGAAGTAGATCGAAGA-CAAGAACCTTAAACCCCTAAGCAGTAGGG
* *
89598101 TAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
129 TAACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTGA
**
89598144 AGTAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
* *
89598209 TATCTCCCTAAGCAGTA-GTAGAGTAGATCGAAGACAAGAACCTTAAACCCCTAAGTAGTAGGGT
66 TATCTCCCTAAGCAGTAGGGA-AGTAGATCGAAGACAAGAACCTTAAACCCCTAAGCAGTAGGGT
89598273 AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAG-GAA
130 AACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTG-A
** * ** *
89598315 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CAAATTTACAGATC
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
* * * ** * *
89598379 TTAAC-CCCTTAAGCAGTAGGGAAATAGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGTAAG
65 TTATCTCCC-TAAGCAGTAGGGAAGTAGATCGAAGAC-AAGAACCTTAAACCCCTAAGCAGTAGG
*
89598443 GAAACAG
128 GTAACAG
89598450 ATCGAAGGCG
Statistics
Matches: 273, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
170 7 0.03
171 144 0.53
172 122 0.45
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (171 bp):
AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
TATCTCCCTAAGCAGTAGGGAAGTAGATCGAAGACAAGAACCTTAAACCCCTAAGCAGTAGGGTA
ACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGTGA
Found at i:89600086 original size:2 final size:2
Alignment explanation
Indices: 89600079--89600103 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89600069 CTTTTATTTT
89600079 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
89600104 TAGTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89602325 original size:13 final size:12
Alignment explanation
Indices: 89602301--89602337 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
89602291 AAACAGACCC
89602301 TTAATT-TCTAT
1 TTAATTGTCTAT
89602312 TTAAATTGTCTAT
1 TT-AATTGTCTAT
89602325 TT-ATTGTCTAT
1 TTAATTGTCTAT
89602336 TT
1 TT
89602338 TTATAAGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.54
12 4 0.17
13 7 0.29
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (12 bp):
TTAATTGTCTAT
Found at i:89606490 original size:94 final size:94
Alignment explanation
Indices: 89606372--89606576 Score: 315
Period size: 94 Copynumber: 2.2 Consensus size: 94
89606362 ACACAGAAAA
*
89606372 GAAAAAAAG--AGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGTCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
* *
89606435 AACAAACATTGGAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
* * * * *
89606464 GAAAAAAAGAAAGCAGGAATGGCATTGCAACATTAAAGAAGTAAAAACGAGGCAAAGCCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
*
89606529 AAGAAACATAGAAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
89606558 GAAAAAAAGAAAGCAAGAA
1 GAAAAAAAGAAAGCAAGAA
89606577 AATCTAAAAC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 9 0.09
94 92 0.91
ACGTcount: A:0.56, C:0.12, G:0.20, T:0.11
Consensus pattern (94 bp):
GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
AACAAACATAGAAAGCAAGGGAATAAGTT
Found at i:89607829 original size:6 final size:6
Alignment explanation
Indices: 89607820--89607856 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
89607810 AAAAAAAAAA
89607820 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
1 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
89607857 TTTATGCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAC
Found at i:89612609 original size:31 final size:31
Alignment explanation
Indices: 89612560--89612736 Score: 219
Period size: 31 Copynumber: 5.7 Consensus size: 31
89612550 TCACAAAAAC
* *
89612560 AAATCAGTTACACTACAAACAAGCTGTCGAT
1 AAATCAATTACACTACAAACAAGCTATCGAT
* * ** *
89612591 AAATTAATTAGACTACAAACAAATTATCGAC
1 AAATCAATTACACTACAAACAAGCTATCGAT
*
89612622 AAATCAGTTACACTACAAACAAGCTATCGAT
1 AAATCAATTACACTACAAACAAGCTATCGAT
* * **
89612653 AAATTAATTAGACTACAAACAAATTATCGAT
1 AAATCAATTACACTACAAACAAGCTATCGAT
* *
89612684 AAATCAATTACACTACAAACAAGTTGTCGAT
1 AAATCAATTACACTACAAACAAGCTATCGAT
*
89612715 AAATCAGTTACACTACAAACAA
1 AAATCAATTACACTACAAACAA
89612737 TCTGTCAATC
Statistics
Matches: 123, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 123 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.24
Consensus pattern (31 bp):
AAATCAATTACACTACAAACAAGCTATCGAT
Found at i:89612655 original size:62 final size:62
Alignment explanation
Indices: 89612558--89612736 Score: 295
Period size: 62 Copynumber: 2.9 Consensus size: 62
89612548 ACTCACAAAA
89612558 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG
1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG
*
89612620 ACAAATCAGTTACACTACAAACAAGCTATCGATAAATTAATTAGACTACAAACAAATTATCG
1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG
* * * * * *
89612682 ATAAATCAATTACACTACAAACAAGTTGTCGATAAATCAGTTACACTACAAACAA
1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAA
89612737 TCTGTCAATC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 109 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (62 bp):
ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG
Found at i:89614046 original size:26 final size:26
Alignment explanation
Indices: 89614010--89614064 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
89614000 TTCATGTAAG
89614010 CAAGAAGTGTGAAGTGATGGGATCGT
1 CAAGAAGTGTGAAGTGATGGGATCGT
89614036 CAAGAAGTGTGAAGTGATGGGATCGT
1 CAAGAAGTGTGAAGTGATGGGATCGT
89614062 CAA
1 CAA
89614065 CAAGCTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.22
Consensus pattern (26 bp):
CAAGAAGTGTGAAGTGATGGGATCGT
Found at i:89619079 original size:6 final size:6
Alignment explanation
Indices: 89619068--89619094 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
89619058 CTATTAACAC
89619068 GACTCG GACTCG GACTCG GACTCG GAC
1 GACTCG GACTCG GACTCG GACTCG GAC
89619095 GGATACATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.15
Consensus pattern (6 bp):
GACTCG
Found at i:89619794 original size:21 final size:21
Alignment explanation
Indices: 89619765--89619805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89619755 AGAACACGCC
89619765 AACAAAAGCTCATAAGAGCTT
1 AACAAAAGCTCATAAGAGCTT
* *
89619786 AACAGAAGCTCGTAAGAGCT
1 AACAAAAGCTCATAAGAGCT
89619806 GATCCACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTT
Found at i:89624395 original size:18 final size:19
Alignment explanation
Indices: 89624372--89624407 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89624362 AAAAAAAAAC
89624372 TGTTGTT-CTTTCTTGTTT
1 TGTTGTTACTTTCTTGTTT
*
89624390 TGTTGTTATTTTCTTGTT
1 TGTTGTTACTTTCTTGTT
89624408 GTTTTCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.03, C:0.08, G:0.17, T:0.72
Consensus pattern (19 bp):
TGTTGTTACTTTCTTGTTT
Found at i:89624635 original size:19 final size:20
Alignment explanation
Indices: 89624603--89624648 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
89624593 GTTGGGAAAC
*
89624603 ATTTGTTTTAATGT-TTTTAGT
1 ATTT-TTTTAATGTATTATA-T
89624624 ATTTTTTT-ATGTATTATAT
1 ATTTTTTTAATGTATTATAT
89624643 ATTTTT
1 ATTTTT
89624649 AAACAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 11 0.48
20 8 0.35
21 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (20 bp):
ATTTTTTTAATGTATTATAT
Found at i:89627577 original size:20 final size:20
Alignment explanation
Indices: 89627552--89627597 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
89627542 TTAATTAGTG
89627552 AATTAGCTTAAATTGAGGCT
1 AATTAGCTTAAATTGAGGCT
89627572 AATTAGCTTAAATTGAGGCT
1 AATTAGCTTAAATTGAGGCT
89627592 AATTAG
1 AATTAG
89627598 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.35
Consensus pattern (20 bp):
AATTAGCTTAAATTGAGGCT
Found at i:89629140 original size:15 final size:17
Alignment explanation
Indices: 89629120--89629154 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
89629110 TAATATAAAG
89629120 TGAATTGA-AATAT-AT
1 TGAATTGAGAATATAAT
89629135 TGAATTGAGAATATAAT
1 TGAATTGAGAATATAAT
89629152 TGA
1 TGA
89629155 TTAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 5 0.28
17 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
TGAATTGAGAATATAAT
Found at i:89629534 original size:18 final size:18
Alignment explanation
Indices: 89629511--89629556 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
89629501 TAAATAGAGG
89629511 TACTGAATAACTAACTGC
1 TACTGAATAACTAACTGC
* *
89629529 TACTGAATAATTAACTGG
1 TACTGAATAACTAACTGC
89629547 TACTGAATAA
1 TACTGAATAA
89629557 ATGACTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (18 bp):
TACTGAATAACTAACTGC
Found at i:89629571 original size:18 final size:18
Alignment explanation
Indices: 89629550--89629646 Score: 95
Period size: 18 Copynumber: 5.4 Consensus size: 18
89629540 TAACTGGTAC
*
89629550 TGAATAAATGACTATTAT
1 TGAATAAATGATTATTAT
* * *
89629568 TGAATAACTGATTCTTAC
1 TGAATAAATGATTATTAT
* *
89629586 TGAATAATTGATTATTAC
1 TGAATAAATGATTATTAT
* * *
89629604 TGAATAAACGACTGTTAT
1 TGAATAAATGATTATTAT
* *
89629622 TGAATAAATTATTACTAT
1 TGAATAAATGATTATTAT
89629640 TGAATAA
1 TGAATAA
89629647 CTAATTAATA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
TGAATAAATGATTATTAT
Found at i:89629572 original size:36 final size:36
Alignment explanation
Indices: 89629509--89629646 Score: 96
Period size: 36 Copynumber: 3.8 Consensus size: 36
89629499 GGTAAATAGA
* * * * *
89629509 GGTACTGAATAACTAACTGCTACTGAATAATTAACT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
* * * *
89629545 GGTACTGAATAAATGACTATTATTGAATAACTGATT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
** * * * *
89629581 CTTACTGAATAATTGATTATTACTGAATAAACGACT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
* * * * *
89629617 GTTATTGAATAAATTATTACTATTGAATAA
1 GGTACTGAATAAATGACTACTACTGAATAA
89629647 CTAATTAATA
Statistics
Matches: 80, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 80 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (36 bp):
GGTACTGAATAAATGACTACTACTGAATAAATGACT
Found at i:89629644 original size:54 final size:54
Alignment explanation
Indices: 89629529--89629660 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
89629519 AACTAACTGC
* * ** * *
89629529 TACTGAATAATTAACTGGTACTGAATAAATGACTATTATTGAATAACTGATTCT
1 TACTGAATAACTAATTAATACTGAATAAACGACTATTATTGAATAAATGATTCT
* * * * *
89629583 TACTGAATAATTGATTATTACTGAATAAACGACTGTTATTGAATAAATTATTAC-
1 TACTGAATAACTAATTAATACTGAATAAACGACTATTATTGAATAAATGATT-CT
*
89629637 TATTGAATAACTAATTAATACTGA
1 TACTGAATAACTAATTAATACTGA
89629661 TGACTGACTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (54 bp):
TACTGAATAACTAATTAATACTGAATAAACGACTATTATTGAATAAATGATTCT
Found at i:89629653 original size:18 final size:18
Alignment explanation
Indices: 89629619--89629653 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89629609 AAACGACTGT
*
89629619 TATTGAATAAATTATTAC
1 TATTGAATAAATAATTAC
*
89629637 TATTGAATAACTAATTA
1 TATTGAATAAATAATTA
89629654 ATACTGATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TATTGAATAAATAATTAC
Found at i:89632690 original size:46 final size:46
Alignment explanation
Indices: 89632623--89632884 Score: 366
Period size: 46 Copynumber: 5.7 Consensus size: 46
89632613 TGGCAACCTG
* *
89632623 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGTATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
*
89632669 TGTGTAAGACCATGGTTGAAAG-TACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
* * *
89632714 TGTGTAAGACTATGGTTGAAAGATACCATGGCAACTTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
*
89632760 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
* ** *
89632806 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAA
* * * *
89632852 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
89632885 TCACGTCAAA
Statistics
Matches: 198, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 44 0.22
46 154 0.78
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
Found at i:89633189 original size:23 final size:25
Alignment explanation
Indices: 89633144--89633190 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
89633134 AATAAATATA
*
89633144 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
89633169 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
89633191 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:89634584 original size:16 final size:16
Alignment explanation
Indices: 89634563--89634596 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
89634553 ATAATGAGAT
89634563 ATATTTTATGAACTGA
1 ATATTTTATGAACTGA
89634579 ATATTTTATGAACTGA
1 ATATTTTATGAACTGA
89634595 AT
1 AT
89634597 TATATTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATTTTATGAACTGA
Found at i:89636109 original size:15 final size:15
Alignment explanation
Indices: 89636089--89636132 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
89636079 TATACTAAAA
89636089 TATATTTATTATTAG
1 TATATTTATTATTAG
*
89636104 TATATTTATAATT-G
1 TATATTTATTATTAG
*
89636118 TAATATATATTATTA
1 T-ATATTTATTATTA
89636133 AAATATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATTTATTATTAG
Found at i:89636138 original size:11 final size:11
Alignment explanation
Indices: 89636124--89636176 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
89636114 ATTGTAATAT
89636124 ATATTATTAAA
1 ATATTATTAAA
*
89636135 ATATTAATATAA
1 ATATTATTA-AA
* *
89636147 ATATTTTTCAA
1 ATATTATTAAA
*
89636158 ATATTATTTAA
1 ATATTATTAAA
89636169 A-ATTATTA
1 ATATTATTA
89636177 CTTTTAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
10 6 0.18
11 20 0.59
12 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTATTAAA
Found at i:89636144 original size:21 final size:22
Alignment explanation
Indices: 89636118--89636176 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
89636108 TTTATAATTG
89636118 TAATAT-ATATTATTAAAATAT
1 TAATATAATATTATTAAAATAT
* *
89636139 TAATATAAATATTTTTCAAATAT
1 TAATAT-AATATTATTAAAATAT
* *
89636162 T-ATTTAAAATTATTA
1 TAATATAATATTATTA
89636177 CTTTTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATAATATTATTAAAATAT
Found at i:89645556 original size:42 final size:43
Alignment explanation
Indices: 89645491--89645608 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
89645481 GACTTATGAT
*
89645491 TTACGTGTAAGACTATGTCTGGGACA-TCGGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGA
** * *
89645533 TTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
*
89645576 TTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
89645609 TATACTAGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
Found at i:89647799 original size:22 final size:22
Alignment explanation
Indices: 89647769--89647819 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
89647759 TGAGTTGACA
89647769 TCGTCGCGACTTCAGGAGTTCC
1 TCGTCGCGACTTCAGGAGTTCC
* * *
89647791 TCGTTGCGACTTTAGGAGTTCT
1 TCGTCGCGACTTCAGGAGTTCC
89647813 TCGTCGC
1 TCGTCGC
89647820 AATGCAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.27, T:0.33
Consensus pattern (22 bp):
TCGTCGCGACTTCAGGAGTTCC
Found at i:89649306 original size:22 final size:22
Alignment explanation
Indices: 89649281--89649337 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
89649271 TCACAATTTT
89649281 TAGGGATTTGTTGGCTA-AATTG
1 TAGGGATTTGTT-GCTACAATTG
* * * *
89649303 TAGGCAATTGTCTTCTACAATTT
1 TAGGGATTTGT-TGCTACAATTG
89649326 TAGGGATTTGTT
1 TAGGGATTTGTT
89649338 TCTCTTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.44
Consensus pattern (22 bp):
TAGGGATTTGTTGCTACAATTG
Found at i:89650085 original size:19 final size:19
Alignment explanation
Indices: 89650047--89650137 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
89650037 AGGGAAACTT
* * *
89650047 GCACACATAGTACATATTG
1 GCACACAAAGTGCATCTTG
*
89650066 GCGCACAAAGTGCATCTTG
1 GCACACAAAGTGCATCTTG
*
89650085 GCACACGAAGTGCATCTTG
1 GCACACAAAGTGCATCTTG
* * * **
89650104 ACGCATAAAGCACAT-TCTG
1 GCACACAAAGTGCATCT-TG
89650123 GCACACAAAGTGCAT
1 GCACACAAAGTGCAT
89650138 AAATCCGTAC
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
18 1 0.02
19 53 0.98
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (19 bp):
GCACACAAAGTGCATCTTG
Found at i:89657757 original size:17 final size:17
Alignment explanation
Indices: 89657737--89657770 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89657727 ATTCTTTCCT
89657737 CCTTACCT-TTCTTCTTC
1 CCTTACCTCTT-TTCTTC
89657754 CCTTACCTCTTTTCTTC
1 CCTTACCTCTTTTCTTC
89657771 TTTTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.06, C:0.41, G:0.00, T:0.53
Consensus pattern (17 bp):
CCTTACCTCTTTTCTTC
Found at i:89664151 original size:26 final size:26
Alignment explanation
Indices: 89664064--89664158 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
89664054 CAAAAATAAT
*
89664064 TTTATTTTAATAAATTTAATATTAAA
1 TTTAATTTAATAAATTTAATATTAAA
* * **
89664090 ATTAATTTAATACTTATATTGATAGTATTTTA
1 TTTAATTTAATA---A-ATT--TAATATTAAA
*
89664122 -TTAATTTAATAGATTTAATATTAAA
1 TTTAATTTAATAAATTTAATATTAAA
*
89664147 TTTAATCTAATA
1 TTTAATTTAATA
89664159 TTTGTCTTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
25 7 0.13
26 20 0.38
27 3 0.06
29 1 0.02
30 3 0.06
31 11 0.21
32 7 0.13
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTAATTTAATAAATTTAATATTAAA
Found at i:89664152 original size:57 final size:58
Alignment explanation
Indices: 89664069--89664190 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 58
89664059 ATAATTTTAT
* ** *
89664069 TTTAATAAATTTAATATTAAAATTAATTTAATACTTATATTGAT-AGTATTTTATTAA
1 TTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGATAAACATTATATTAA
* * * * *
89664126 TTTAATAGATTTAATATTAAATTTAATCTAATATTTGTCTTGATAAACATTATATTAA
1 TTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGATAAACATTATATTAA
89664184 TTTAATA
1 TTTAATA
89664191 TTAAAGTGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
57 38 0.69
58 17 0.31
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
TTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGATAAACATTATATTAA
Found at i:89666020 original size:42 final size:42
Alignment explanation
Indices: 89665862--89666010 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
89665852 CAAAGCAATT
* *
89665862 ATACTGGCACACAAAATGCATCATCGAATGAACCG-AATGATC
1 ATACTGGCACA-TAAATGCATCATCGAATAAACCGAAATGATC
* * * ** * * *
89665904 ATACTGGTACATAAGTGTATCATCGAATAAATTGAAGTAACC
1 ATACTGGCACATAAATGCATCATCGAATAAACCGAAATGATC
* * * *
89665946 ATACTAGTACATAAGTTCATCATCGAATAAACCGAAATGATC
1 ATACTGGCACATAAATGCATCATCGAATAAACCGAAATGATC
89665988 ATACTGGCACATAAATGCATCAT
1 ATACTGGCACATAAATGCATCAT
89666011 TAGATAAACC
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 17 0.20
42 67 0.80
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (42 bp):
ATACTGGCACATAAATGCATCATCGAATAAACCGAAATGATC
Found at i:89666802 original size:11 final size:11
Alignment explanation
Indices: 89666786--89666810 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89666776 CGTAATTCTT
89666786 CCACTACTCAA
1 CCACTACTCAA
89666797 CCACTACTCAA
1 CCACTACTCAA
89666808 CCA
1 CCA
89666811 TTAGCTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (11 bp):
CCACTACTCAA
Found at i:89668205 original size:26 final size:26
Alignment explanation
Indices: 89668176--89668226 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
89668166 TCTCCAATTT
89668176 AGAAAGATGAAGAAGATAACACAATA
1 AGAAAGATGAAGAAGATAACACAATA
89668202 AGAAAGATGAAGAAGATAACACAAT
1 AGAAAGATGAAGAAGATAACACAAT
89668227 CTCTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.61, C:0.08, G:0.20, T:0.12
Consensus pattern (26 bp):
AGAAAGATGAAGAAGATAACACAATA
Found at i:89670549 original size:19 final size:20
Alignment explanation
Indices: 89670527--89670575 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
89670517 ATGGACGTGG
89670527 TTTTTTAAATAATA-ATTAA
1 TTTTTTAAATAATATATTAA
* *
89670546 TTTTTTAAAAAATATTTTAA
1 TTTTTTAAATAATATATTAA
89670566 -TTTTTAAATA
1 TTTTTTAAATA
89670576 GACATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTTAAATAATATATTAA
Found at i:89680656 original size:25 final size:26
Alignment explanation
Indices: 89680614--89680671 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
89680604 ATATATATAT
*
89680614 ATATATATATATACATAGTGTTAGAA
1 ATATATATATATACATAGCGTTAGAA
* *
89680640 ATATAT-TATATATATAGCGTTTGAA
1 ATATATATATATACATAGCGTTAGAA
*
89680665 GTATATA
1 ATATATA
89680672 CACGAGATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (26 bp):
ATATATATATATACATAGCGTTAGAA
Found at i:89685445 original size:15 final size:15
Alignment explanation
Indices: 89685427--89685483 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
89685417 TATCTGTTTT
89685427 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
89685442 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
89685457 ATTGAATTTATATTG
1 ATTGAATTTATATTG
89685472 ATTGAA-TTATAT
1 ATTGAATTTATAT
89685484 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:89685462 original size:30 final size:28
Alignment explanation
Indices: 89685423--89685481 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
89685413 TGAATATCTG
89685423 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
89685452 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
89685481 T
1 T
89685482 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:89685904 original size:21 final size:21
Alignment explanation
Indices: 89685857--89685941 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
89685847 TTTACCGATT
* *
89685857 AGGCACTTTATGTGTCGTATTTC
1 AGGCACCTCATGTGTCGTA--TC
89685880 AGGCACCTCATGTGTCGTATC
1 AGGCACCTCATGTGTCGTATC
* * *
89685901 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTATC
* *
89685922 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCATGTGTCGTAT
89685942 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 36 0.68
23 17 0.32
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTATC
Found at i:89686124 original size:18 final size:19
Alignment explanation
Indices: 89686103--89686143 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
89686093 AATGAAATGA
89686103 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
89686121 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
89686140 GAAA
1 GAAA
89686144 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:89694139 original size:26 final size:25
Alignment explanation
Indices: 89694107--89694195 Score: 108
Period size: 26 Copynumber: 3.4 Consensus size: 25
89694097 ATTAAAAAGG
* *
89694107 TGAAAAAGCGGGGAAATTAAAAATAT
1 TGAAAAAG-GGGAAAATTAAAAATAA
*
89694133 TGCAAAAGGGGAAAAATTAAAAATAA
1 TGAAAAAGGGG-AAAATTAAAAATAA
89694159 TGGAAAAA-GGGAAAATTAAAAATAA
1 T-GAAAAAGGGGAAAATTAAAAATAA
89694184 TGAAAAAAGGGG
1 TG-AAAAAGGGG
89694196 GGAAATTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 23 0.42
26 26 0.47
27 5 0.09
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (25 bp):
TGAAAAAGGGGAAAATTAAAAATAA
Found at i:89694173 original size:25 final size:26
Alignment explanation
Indices: 89694120--89694194 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 26
89694110 AAAAGCGGGG
* * *
89694120 AAATTAAAAATATTGCAAAAGGGGAA
1 AAATTAAAAATAATGAAAAAAGGGAA
*
89694146 AAATTAAAAATAATGGAAAAAGGG-A
1 AAATTAAAAATAATGAAAAAAGGGAA
89694171 AAATTAAAAATAATGAAAAAAGGG
1 AAATTAAAAATAATGAAAAAAGGG
89694195 GGGAAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 24 0.53
26 21 0.47
ACGTcount: A:0.63, C:0.01, G:0.19, T:0.17
Consensus pattern (26 bp):
AAATTAAAAATAATGAAAAAAGGGAA
Found at i:89694330 original size:18 final size:18
Alignment explanation
Indices: 89694309--89694356 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
89694299 AAGAGAGGGG
*
89694309 AAAAATAAAAACAGTTAA
1 AAAAATAAAAACAGGTAA
* *
89694327 AAAAATTAAAAGAGGTAA
1 AAAAATAAAAACAGGTAA
89694345 AAAAAGTAAAAA
1 AAAAA-TAAAAA
89694357 AAAACGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAACAGGTAA
Found at i:89694386 original size:20 final size:20
Alignment explanation
Indices: 89694345--89694387 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
89694335 AAAGAGGTAA
*
89694345 AAAAAGTAAAAAAAAACGTG
1 AAAAAGTAAAAAAAAAAGTG
*
89694365 AAAAAG-AAGAAAAAAAATTG
1 AAAAAGTAA-AAAAAAAAGTG
89694385 AAA
1 AAA
89694388 TTGATGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAAAGTAAAAAAAAAAGTG
Found at i:89694434 original size:29 final size:29
Alignment explanation
Indices: 89694401--89694468 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
89694391 ATGATTGGTG
*
89694401 AAAATAAGGAAGGTGAAAAAA-AAAGAACA
1 AAAATAAGGAAGGTCAAAAAAGAAA-AACA
* *
89694430 AAAATAAGGGAGGTCAAAAAAGAAAAAGA
1 AAAATAAGGAAGGTCAAAAAAGAAAAACA
89694459 AAAAT-AGGAA
1 AAAATAAGGAA
89694469 TATGGTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.12
29 27 0.79
30 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.07
Consensus pattern (29 bp):
AAAATAAGGAAGGTCAAAAAAGAAAAACA
Found at i:89694482 original size:25 final size:24
Alignment explanation
Indices: 89694452--89694594 Score: 73
Period size: 25 Copynumber: 5.8 Consensus size: 24
89694442 GTCAAAAAAG
* * *
89694452 AAAAAGAAAAATAGGAATATGGTGA
1 AAAAAGAAAAATA-AAAAATAGTGA
89694477 AAAAAGGAAAAATAAAAAATAGTGA
1 AAAAA-GAAAAATAAAAAATAGTGA
89694502 AAAGAAGAAAAATTATTAAAAATA--GA
1 AAA-AAGAAAAA-TA--AAAAATAGTGA
* * * *
89694528 AAGTAAAAAAAGAATGAAATATGGT-A
1 AA--AAAGAAA-AATAAAAAATAGTGA
*
89694554 AAGAAAG-AAAA-AAAAAATACTGA
1 AA-AAAGAAAAATAAAAAATAGTGA
89694577 AAAGAAG-AAAATAAAAAA
1 AAA-AAGAAAAATAAAAAA
89694595 ATGAAGAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
22 7 0.08
23 12 0.13
24 8 0.09
25 30 0.33
26 19 0.21
27 6 0.07
28 10 0.11
ACGTcount: A:0.69, C:0.01, G:0.16, T:0.14
Consensus pattern (24 bp):
AAAAAGAAAAATAAAAAATAGTGA
Found at i:89694589 original size:17 final size:19
Alignment explanation
Indices: 89694566--89694618 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
89694556 GAAAGAAAAA
89694566 AAAAATACTGAAAA-GAAG
1 AAAAATACTGAAAATGAAG
**
89694584 -AAAATA-AAAAAATGAAG
1 AAAAATACTGAAAATGAAG
*
89694601 AAAAATACTGAAGATGAA
1 AAAAATACTGAAAATGAA
89694619 AAATGTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 4 0.15
17 10 0.37
18 6 0.22
19 7 0.26
ACGTcount: A:0.68, C:0.04, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAAATACTGAAAATGAAG
Found at i:89705532 original size:26 final size:26
Alignment explanation
Indices: 89705496--89705605 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
89705486 TGATACAAAT
*
89705496 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89705522 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89705548 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89705574 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89705600 TGATAA
1 TGATAA
89705606 GAATATCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89707644 original size:137 final size:137
Alignment explanation
Indices: 89707398--89707684 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 137
89707388 GAGTAGTCTC
*
89707398 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGACCATAC
*
89707463 TATTATCTGAATAAGGGGTTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACT
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACT
89707528 ACTGTTA
131 ACTGTTA
*
89707535 CCCAAATGGGCTTGTATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGACCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGACCATAC
* *
89707600 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTGATCTGAAAAGGGCTCTGGCCTAGTACT
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACT
89707665 ACTGTTA
131 ACTGTTA
**
89707672 CCTGAATGGGCTT
1 CCCAAATGGGCTT
89707685 AGGCCAATGG
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGACCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACT
ACTGTTA
Found at i:89713823 original size:17 final size:18
Alignment explanation
Indices: 89713801--89713834 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
89713791 CAAGGGCTTT
89713801 TTTGACAAA-TTGGAACA
1 TTTGACAAATTTGGAACA
89713818 TTTGACAAATTTGGAAC
1 TTTGACAAATTTGGAAC
89713835 TGTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
TTTGACAAATTTGGAACA
Found at i:89716926 original size:18 final size:17
Alignment explanation
Indices: 89716903--89716936 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89716893 TCAATGTTTA
89716903 TATAGCACAAACTATAAG
1 TATAGCA-AAACTATAAG
*
89716921 TATAGCAAAAGTATAA
1 TATAGCAAAACTATAA
89716937 ATATTTGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
TATAGCAAAACTATAAG
Found at i:89717210 original size:49 final size:49
Alignment explanation
Indices: 89717137--89717244 Score: 180
Period size: 49 Copynumber: 2.2 Consensus size: 49
89717127 ATTTAACAGT
* *
89717137 TTTAATAAGAAAAAATTTTATTAATATAATATCAATAACTTAAAGATGTA
1 TTTAA-AATAAAAAATCTTATTAATATAATATCAATAACTTAAAGATGTA
*
89717187 TTTAAAATAAAAAATCTTATTAATATAATATTAATAACTTAAAGATGTA
1 TTTAAAATAAAAAATCTTATTAATATAATATCAATAACTTAAAGATGTA
89717236 TTTAAAATA
1 TTTAAAATA
89717245 TTTTAAAGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 50 0.91
50 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (49 bp):
TTTAAAATAAAAAATCTTATTAATATAATATCAATAACTTAAAGATGTA
Found at i:89717551 original size:16 final size:16
Alignment explanation
Indices: 89717530--89717561 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89717520 TTATAGATAG
89717530 ATAGCCAAATGATTGT
1 ATAGCCAAATGATTGT
89717546 ATAGCCAAATGATTGT
1 ATAGCCAAATGATTGT
89717562 TTCATGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
ATAGCCAAATGATTGT
Found at i:89721012 original size:20 final size:20
Alignment explanation
Indices: 89720973--89721012 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89720963 GTTTAAGTTC
* *
89720973 TGAAAGACTATGGTATGTTG
1 TGAAAGACTATGATAGGTTG
*
89720993 TGAAAGATTATGATAGGTTG
1 TGAAAGACTATGATAGGTTG
89721013 CAAGTTGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (20 bp):
TGAAAGACTATGATAGGTTG
Found at i:89721182 original size:15 final size:15
Alignment explanation
Indices: 89721157--89721189 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
89721147 TTTACAATGA
89721157 TATTTATGTT-AATT
1 TATTTATGTTAAATT
89721171 TATTTCATGTTAAATT
1 TATTT-ATGTTAAATT
89721187 TAT
1 TAT
89721190 GCTAAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 5 0.29
16 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (15 bp):
TATTTATGTTAAATT
Found at i:89725519 original size:12 final size:12
Alignment explanation
Indices: 89725502--89725534 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
89725492 CGGCCCGCCC
89725502 ATATTAATTTTT
1 ATATTAATTTTT
89725514 ATATT-ATTTTT
1 ATATTAATTTTT
89725525 ATA-TAATTTT
1 ATATTAATTTT
89725535 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:89725717 original size:22 final size:22
Alignment explanation
Indices: 89725692--89725734 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
89725682 TATCCAAACA
89725692 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
89725714 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
89725735 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:89725967 original size:2 final size:2
Alignment explanation
Indices: 89725951--89725989 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
89725941 ATCATTCACC
* *
89725951 AT AT -T AT AT AA AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89725990 TTTTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:89728310 original size:2 final size:2
Alignment explanation
Indices: 89728303--89728333 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89728293 CAACCAAACC
89728303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89728334 GATGTCGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89737555 original size:26 final size:25
Alignment explanation
Indices: 89737526--89737575 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
89737516 AATAAATGGT
* *
89737526 TTTTGAGGTTATTTCTGAAATATGTA
1 TTTTGAGATTATTT-TCAAATATGTA
89737552 TTTTGAGATTATTTTCAAATATGT
1 TTTTGAGATTATTTTCAAATATGT
89737576 GTTCTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (25 bp):
TTTTGAGATTATTTTCAAATATGTA
Found at i:89740303 original size:25 final size:27
Alignment explanation
Indices: 89740266--89740318 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
89740256 TCAAACATGC
89740266 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
89740292 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
89740318 A
1 A
89740319 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:89741836 original size:26 final size:26
Alignment explanation
Indices: 89741800--89741883 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
89741790 CATGATATTC
89741800 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89741826 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89741852 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89741878 TTATCA
1 TTATCA
89741884 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89749082 original size:13 final size:14
Alignment explanation
Indices: 89749061--89749089 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
89749051 TAAAAAATGG
89749061 ATTAGAAAATATTT
1 ATTAGAAAATATTT
89749075 ATTA-AAAATATTT
1 ATTAGAAAATATTT
89749088 AT
1 AT
89749090 GAAGTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:89749714 original size:2 final size:2
Alignment explanation
Indices: 89749707--89749734 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89749697 TTATTGTCAT
89749707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89749735 AGAAACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89749767 original size:23 final size:23
Alignment explanation
Indices: 89749741--89749786 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
89749731 TATAAGAAAC
89749741 AAAAGAAAGAAACAAAAAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
* * *
89749764 AAAAGAAGGAAAGAAACAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
89749787 GCAGGGACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAACAAAAAGAATA
Found at i:89750724 original size:15 final size:15
Alignment explanation
Indices: 89750698--89750745 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
89750688 TATCAAATTT
*
89750698 ATATTGAATGAAATC
1 ATATTGATTGAAATC
* * *
89750713 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
89750728 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
89750742 ATAT
1 ATAT
89750746 AATAATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:89751171 original size:21 final size:21
Alignment explanation
Indices: 89751145--89751192 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
89751135 ATCGTATTTT
89751145 AGGCACCTCGTGTGTCGTGTC
1 AGGCACCTCGTGTGTCGTGTC
* *
89751166 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTGTGTCGTGTC
89751187 AGGCAC
1 AGGCAC
89751193 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.29
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTGTC
Found at i:89751200 original size:21 final size:21
Alignment explanation
Indices: 89751141--89751204 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
89751131 ATGCATCGTA
*
89751141 TTTTAGGCACCTCGTGTGTCG
1 TTTTAGGCACCTCATGTGTCG
* * *
89751162 TGTCAGGCACCTCGTGTGTCG
1 TTTTAGGCACCTCATGTGTCG
* *
89751183 TTTTAGGCACTTTATGTGTCG
1 TTTTAGGCACCTCATGTGTCG
89751204 T
1 T
89751205 ATACTGATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.11, C:0.22, G:0.28, T:0.39
Consensus pattern (21 bp):
TTTTAGGCACCTCATGTGTCG
Found at i:89758445 original size:3 final size:3
Alignment explanation
Indices: 89758439--89758503 Score: 112
Period size: 3 Copynumber: 21.0 Consensus size: 3
89758429 TATATAAGTA
89758439 TAT TAT TAAGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89758486 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
89758504 ATAAAACAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 56 0.93
4 2 0.03
5 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:89758527 original size:6 final size:6
Alignment explanation
Indices: 89758516--89758545 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
89758506 AAAACAAAAC
89758516 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
89758546 TAGAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:89758947 original size:18 final size:18
Alignment explanation
Indices: 89758924--89758962 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
89758914 CCCAATTACC
* *
89758924 TAATTTAATTAATACAAA
1 TAATTTAATAAATAAAAA
89758942 TAATTTAATAAATAAAAA
1 TAATTTAATAAATAAAAA
89758960 TAA
1 TAA
89758963 AAATCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATTTAATAAATAAAAA
Found at i:89758977 original size:14 final size:14
Alignment explanation
Indices: 89758954--89758983 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89758944 ATTTAATAAA
89758954 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
89758968 TAAAAGTAAAAATC
1 TAAAAATAAAAATC
89758982 TA
1 TA
89758984 CTAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:89760290 original size:12 final size:11
Alignment explanation
Indices: 89760261--89760294 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
89760251 TTGTACCAAT
89760261 ATTTTATTTAA
1 ATTTTATTTAA
*
89760272 TTTTTATTATAA
1 ATTTTATT-TAA
89760284 ATTTTATTTAA
1 ATTTTATTTAA
89760295 CAAGTATTCT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTTAA
Found at i:89760381 original size:19 final size:21
Alignment explanation
Indices: 89760342--89760391 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
89760332 ATGAAAATTG
89760342 TTTAATATTATAAATATGTAT
1 TTTAATATTATAAATATGTAT
89760363 TTTAATATTAT-AA-ATGTAT
1 TTTAATATTATAAATATGTAT
89760382 TTTAAT-TTAT
1 TTTAATATTAT
89760392 TATATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 12 0.41
20 2 0.07
21 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAATATTATAAATATGTAT
Found at i:89762798 original size:37 final size:37
Alignment explanation
Indices: 89762757--89762903 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
89762747 TGTTAATTTC
89762757 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
89762794 AAGAC-T-TGTAATGTTTTAAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
89762829 TAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
89762866 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
89762903 A
1 A
89762904 TTCGGGTATT
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
35 32 0.31
36 2 0.02
37 68 0.67
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:89762838 original size:72 final size:73
Alignment explanation
Indices: 89762754--89762903 Score: 259
Period size: 72 Copynumber: 2.1 Consensus size: 73
89762744 ATGTGTTAAT
*
89762754 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAGAC-T-TGTAATGTTTTAAATTA
1 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATTA
89762817 TGTAGTGA
66 TGTAGTGA
*
89762825 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTTAATT
1 TTCA-AGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATT
89762890 ATGTAGTGA
65 ATGTAGTGA
89762899 TTCAA
1 TTCAA
89762904 TTCGGGTATT
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
71 4 0.05
72 40 0.54
73 2 0.03
74 28 0.38
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (73 bp):
TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATTA
TGTAGTGA
Found at i:89762839 original size:20 final size:18
Alignment explanation
Indices: 89762776--89762902 Score: 73
Period size: 17 Copynumber: 7.0 Consensus size: 18
89762766 GTAATGTTTT
89762776 TAATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
* * * * *
89762794 AAGACT-TGTAATGTTTTA
1 TA-ATTATGTAGTGATTCA
89762812 -AATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
* **
89762829 TAGACTTATGTAAT-ATTTT
1 TA-A-TTATGTAGTGATTCA
89762848 TAATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
* * **
89762866 AAGACTTATGTAATG-TTTT
1 TA-A-TTATGTAGTGATTCA
89762885 TAATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
89762903 ATTCGGGTAT
Statistics
Matches: 77, Mismatches: 23, Indels: 18
0.65 0.19 0.15
Matches are distributed among these distances:
16 2 0.03
17 27 0.35
18 19 0.25
19 12 0.16
20 17 0.22
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.46
Consensus pattern (18 bp):
TAATTATGTAGTGATTCA
Found at i:89762925 original size:9 final size:9
Alignment explanation
Indices: 89762902--89762958 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
89762892 GTAGTGATTC
*
89762902 AATTCGGGT
1 AATTCGGTT
89762911 -ATTCGGTT
1 AATTCGGTT
89762919 AATTCGGTT
1 AATTCGGTT
89762928 AATTCGGTT
1 AATTCGGTT
* *
89762937 AAATCGTTT
1 AATTCGGTT
89762946 AATTCGGTT
1 AATTCGGTT
89762955 AATT
1 AATT
89762959 TTTAACCACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
8 7 0.17
9 35 0.83
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:89763757 original size:3 final size:3
Alignment explanation
Indices: 89763749--89763817 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
89763739 GAATGGTAAG
89763749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89763797 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
89763818 GGTATTGAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89764153 original size:48 final size:48
Alignment explanation
Indices: 89764101--89764208 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
89764091 GTGTCGCCAT
* *
89764101 ACTGTGACTGTTTCAGATTCGTTCCGATGAGGTACTTAGTGTACCGTG
1 ACTGTGACTGTTCCAGATTCATTCCGATGAGGTACTTAGTGTACCGTG
* * *
89764149 ACTGTGACTGTTCCAGATTCATTCTGATGAGGTACTTTGTGTACTGTG
1 ACTGTGACTGTTCCAGATTCATTCCGATGAGGTACTTAGTGTACCGTG
* *
89764197 ATTGAGACTGTT
1 ACTGTGACTGTT
89764209 ACCGTTACGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (48 bp):
ACTGTGACTGTTCCAGATTCATTCCGATGAGGTACTTAGTGTACCGTG
Found at i:89765730 original size:42 final size:43
Alignment explanation
Indices: 89765631--89765786 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
89765621 TGTGTTATCG
* * * *
89765631 TGTAAGACCACGTCT-GGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATC-AATATTTGA-TTACA
* * *
89765674 TGTAAGACCATGTCTGGGACGTTAGCATC-CTACTTT-ATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCAATA-TTTGATTACA
89765716 TGTAAGACTC-TGTCTGGGACAG-TGGCATCAATATTTGATTACA
1 TGTAAGAC-CATGTCTGGGAC-GTTGGCATCAATATTTGATTACA
*
89765759 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
89765787 TATACGAGCT
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
42 34 0.36
43 47 0.49
44 14 0.15
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCAATATTTGATTACA
Found at i:89769501 original size:2 final size:2
Alignment explanation
Indices: 89769494--89769540 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
89769484 ATGCCGATTT
89769494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89769536 TA TA T
1 TA TA T
89769541 TATCTCACTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89769974 original size:31 final size:31
Alignment explanation
Indices: 89769936--89770008 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
89769926 TAATCTCATC
*
89769936 AATTTTAGTCTCTATACTTTCCAAATTG-GTA
1 AATTTTAGTCTCTATACTTTCCAAAATGTG-A
*
89769967 AATTTTAGTCTCTATACTTTTCAAAATGTGA
1 AATTTTAGTCTCTATACTTTCCAAAATGTGA
*
89769998 AATTTTTGTCT
1 AATTTTAGTCT
89770009 TGAAACAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (31 bp):
AATTTTAGTCTCTATACTTTCCAAAATGTGA
Found at i:89786212 original size:24 final size:23
Alignment explanation
Indices: 89786185--89786229 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
89786175 ATATTTAATT
89786185 TTATATAATAAAAAATAAAATTAA
1 TTATATAATAAAAAA-AAAATTAA
* *
89786209 TTATATATTAAATAAAAAATT
1 TTATATAATAAAAAAAAAATT
89786230 TCAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TTATATAATAAAAAAAAAATTAA
Found at i:89791528 original size:26 final size:26
Alignment explanation
Indices: 89791499--89791606 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89791489 TGGTACAAAT
89791499 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89791525 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89791551 TGACAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89791577 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89791603 TGAT
1 TGAT
89791607 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89793628 original size:137 final size:137
Alignment explanation
Indices: 89793382--89793668 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
89793372 GAGTAGTCTC
89793382 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
89793447 TGTTATCTGAATAAGGGGCTAGGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
89793512 ACTGTTA
131 ACTGTTA
* *
89793519 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
89793584 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
89793649 ACTGTTA
131 ACTGTTA
**
89793656 CCTGAATGGGCTT
1 CCCAAATGGGCTT
89793669 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:89795774 original size:30 final size:30
Alignment explanation
Indices: 89795729--89795807 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 30
89795719 TTTTTACTAA
*
89795729 AAAAAATTATAATTTAATTATTAAATTATTT
1 AAAAAATT-TTATTTAATTATTAAATTATTT
89795760 AAAAAATTTTATTTAAATTATTAAATTATTT
1 AAAAAATTTTATTT-AATTATTAAATTATTT
89795791 -AAAAATTTTATTTAATT
1 AAAAAATTTTATTTAATT
89795808 CAATCTATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 4 0.09
30 18 0.39
31 24 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AAAAAATTTTATTTAATTATTAAATTATTT
Found at i:89800647 original size:48 final size:48
Alignment explanation
Indices: 89800576--89800667 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
89800566 AAGATGTTTG
*
89800576 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTTTGAAAATTTA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
89800624 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
89800668 AACTAAACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (48 bp):
GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
Found at i:89806676 original size:20 final size:19
Alignment explanation
Indices: 89806632--89806669 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
89806622 TGTAGTGAAT
89806632 AAAATGAGAAGAGAGAAAA
1 AAAATGAGAAGAGAGAAAA
*
89806651 ATAAATGGGAAGA-AGAAAA
1 A-AAATGAGAAGAGAGAAAA
89806670 GGAAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (19 bp):
AAAATGAGAAGAGAGAAAA
Found at i:89813999 original size:55 final size:53
Alignment explanation
Indices: 89813884--89814036 Score: 137
Period size: 55 Copynumber: 2.8 Consensus size: 53
89813874 TGCCGGTCAA
* * * *
89813884 CAGTGTCCCAAAATAAAAAAATTTCGGGACTCAAAAAAGGTGGTACCAGCCAT
1 CAGTGTCCCAAAAAAAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAGCCAC
* * * **
89813937 CAATGTCCCAGAACAAAAAAAAATTTCGAGACCCGAAAATGGTGGTGTC-GACCAC
1 CAGTGTCCCA-AA-AAAAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAG-CCAC
* * *
89813992 CAGTGTCCTAAAGAAAAAAAATTGTCTTGAGACGCAAAAAAGGTG
1 CAGTGTCCCAAAAAAAAAAAATT-TC--GAGACCCAAAAAAGGTG
89814037 AATTTTTTTC
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
53 19 0.24
54 7 0.09
55 39 0.49
56 14 0.18
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (53 bp):
CAGTGTCCCAAAAAAAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAGCCAC
Found at i:89815595 original size:46 final size:44
Alignment explanation
Indices: 89815507--89815595 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
89815497 CATGAATTAT
* *
89815507 TCCTGTCTCCAATGCCATATATAATATGCACTTACACGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATAAGCACTTACACGGCTCAA
* * *
89815551 TCCTGTCTCCAAAGCCATATTTCTAATAAGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATAAGCACTTACACGGCTCA
89815596 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 18 0.47
46 20 0.53
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATAAGCACTTACACGGCTCAA
Found at i:89821069 original size:35 final size:35
Alignment explanation
Indices: 89820979--89821108 Score: 104
Period size: 35 Copynumber: 3.7 Consensus size: 35
89820969 ACCTATAGTT
* ** **
89820979 CAAATTCAATA-GAACATCACATATAGCCGAATATG
1 CAAATTCAATATAAAC-TCACATATAATCGAATACA
* *
89821014 CACATTCAAGT-T-AACTTCACATATGATCGAATACA
1 CAAATTCAA-TATAAAC-TCACATATAATCGAATACA
* **
89821049 CAAATTCAATATAAACTCACATGTAATCGAATATT
1 CAAATTCAATATAAACTCACATATAATCGAATACA
* *
89821084 CAAGTTCAATATAAGCTCACATATA
1 CAAATTCAATATAAACTCACATATA
89821109 CTTACCTACG
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
34 1 0.01
35 71 0.93
36 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (35 bp):
CAAATTCAATATAAACTCACATATAATCGAATACA
Done.