Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 212 of 253
Found at i:69934390 original size:13 final size:13
Alignment explanation
Indices: 69934372--69934396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69934362 CGGCTCCCAC
69934372 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
69934385 TTTTTGTTTTTT
1 TTTTTGTTTTTT
69934397 CAAGTGTGAC
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:69934518 original size:17 final size:18
Alignment explanation
Indices: 69934478--69934521 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
69934468 ACTTTTTTTT
* *
69934478 AAAATCTAAAATTAATAA
1 AAAATTTAAAAATAATAA
69934496 AAAATTTAAAAATAAT-A
1 AAAATTTAAAAATAATAA
69934513 AAAATTTAA
1 AAAATTTAA
69934522 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATTTAAAAATAATAA
Found at i:69937503 original size:19 final size:19
Alignment explanation
Indices: 69937479--69937518 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
69937469 AACAAACCTT
69937479 TCACTGTTTCTGGCTACTA
1 TCACTGTTTCTGGCTACTA
*
69937498 TCACTGTTTTTGGCTACTA
1 TCACTGTTTCTGGCTACTA
69937517 TC
1 TC
69937519 CCAGAGGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (19 bp):
TCACTGTTTCTGGCTACTA
Found at i:69939320 original size:30 final size:30
Alignment explanation
Indices: 69939284--69939340 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
69939274 CAATTTTAGG
69939284 AAAAATAAAATAAAAATAATAACAATATCC
1 AAAAATAAAATAAAAATAATAACAATATCC
69939314 AAAAATAAAATAAAAATAATAACAATA
1 AAAAATAAAATAAAAATAATAACAATA
69939341 ATATGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (30 bp):
AAAAATAAAATAAAAATAATAACAATATCC
Found at i:69939423 original size:33 final size:32
Alignment explanation
Indices: 69939379--69939441 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 32
69939369 AGGTAGGCAA
69939379 TTTTTTTTTTTGCGCTTTTTGCTTTTTTTTCC
1 TTTTTTTTTTTGCGCTTTTTGCTTTTTTTTCC
69939411 TTTTTTTCTTTTGCGCTTTTTGCTTTTTTTT
1 TTTTTTT-TTTTGCGCTTTTTGCTTTTTTTT
69939442 TGCTGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.00, C:0.14, G:0.10, T:0.76
Consensus pattern (32 bp):
TTTTTTTTTTTGCGCTTTTTGCTTTTTTTTCC
Found at i:69939471 original size:20 final size:20
Alignment explanation
Indices: 69939413--69939463 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
69939403 TTTTTTCCTT
69939413 TTTTTCTTTTGC-GCTTTTTGC
1 TTTTT-TTTTGCTG-TTTTTGC
69939434 TTTTTTTTTGCTGTTTTTGC
1 TTTTTTTTTGCTGTTTTTGC
69939454 TGTTTTTTTT
1 T-TTTTTTTT
69939464 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.00, C:0.12, G:0.14, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTGCTGTTTTTGC
Found at i:69946561 original size:21 final size:20
Alignment explanation
Indices: 69946505--69946564 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
69946495 GGTTAGGGGC
*
69946505 GTTACATGGTCGTGTGTGAGA
1 GTTACATAGTCGTGTG-GAGA
* * * *
69946526 GTCACACAGTTGTGTGGATA
1 GTTACATAGTCGTGTGGAGA
69946546 TGTTACATAGTCGTGTGGA
1 -GTTACATAGTCGTGTGGA
69946565 CAAACCGTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (20 bp):
GTTACATAGTCGTGTGGAGA
Found at i:69948069 original size:46 final size:46
Alignment explanation
Indices: 69948002--69948120 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 46
69947992 TCCGAGCTTA
* * *
69948002 TTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCC-AAGTTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTAAGCTCG
** *
69948048 TTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTAAGCTCG
*
69948094 TTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
69948121 GCGGGTTACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.03
46 63 0.97
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTAAGCTCG
Found at i:69949558 original size:36 final size:35
Alignment explanation
Indices: 69949518--69949622 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 35
69949508 CTACATTGGC
69949518 CAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGT
1 CAGTAAAATCGA-AAATGAGTGTGCCCAGCACTGGT
* * * * *
69949554 CAGTATAA-CTGAAAAATAAGTGCGCCCTGCGCTGGT
1 CAGTAAAATC-G-AAAATGAGTGTGCCCAGCACTGGT
* * *
69949590 CGGTAAAATCGAAAATTGAGTGTTCTCAGCACT
1 CAGTAAAATCGAAAA-TGAGTGTGCCCAGCACT
69949623 AGTCGATATA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
35 5 0.10
36 45 0.87
37 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (35 bp):
CAGTAAAATCGAAAATGAGTGTGCCCAGCACTGGT
Found at i:69949596 original size:72 final size:71
Alignment explanation
Indices: 69949520--69949677 Score: 214
Period size: 72 Copynumber: 2.2 Consensus size: 71
69949510 ACATTGGCCA
* *
69949520 GTAAAATCGACAAATGAGTGTGCCCAGCACTGGTC-AGTATAACTGAA-AAATAAGTGCGCCCTG
1 GTAAAATCGACAAATGAGTGTGCCCAGCACTAGTCGA-TATAACT-AACAAATAAGTACGCCCT-
69949583 CGCTGGTCG
63 CGCTGGTCG
* *
69949592 GTAAAATCGA-AAATTGAGTGTTCTCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCG
1 GTAAAATCGACAAA-TGAGTGTGCCCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCG
*
69949656 TTGGTCG
65 CTGGTCG
69949663 GTAAAATCGACAAAT
1 GTAAAATCGACAAAT
69949678 AAATGTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
71 24 0.31
72 52 0.68
73 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (71 bp):
GTAAAATCGACAAATGAGTGTGCCCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCGC
TGGTCG
Found at i:69950227 original size:23 final size:23
Alignment explanation
Indices: 69950187--69950294 Score: 76
Period size: 23 Copynumber: 4.8 Consensus size: 23
69950177 AAATGTCTAG
* *
69950187 CTTT-GACAACACTTAAAACATG
1 CTTTGGACAACATTTAAAACATA
**
69950209 CTTTGGATGACATTTAAAACATA
1 CTTTGGACAACATTTAAAACATA
* * *
69950232 TTTTGGACAACATTTAAATCTTA
1 CTTTGGACAACATTTAAAACATA
* * * *
69950255 CTTT-AATAGCATTTGAAACATA
1 CTTTGGACAACATTTAAAACATA
* * *
69950277 CTTTTGTCATCATTTAAA
1 CTTTGGACAACATTTAAA
69950295 TTATACCAAA
Statistics
Matches: 63, Mismatches: 21, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
22 20 0.32
23 43 0.68
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
CTTTGGACAACATTTAAAACATA
Found at i:69951571 original size:17 final size:16
Alignment explanation
Indices: 69951545--69951580 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
69951535 TTTATTATTA
69951545 TTTCTTCTTTTCTCTT
1 TTTCTTCTTTTCTCTT
*
69951561 TTTCTTTCTTTTTTCTT
1 TTTC-TTCTTTTCTCTT
69951578 TTT
1 TTT
69951581 ATAATACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTCTTTTCTCTT
Found at i:69956459 original size:3 final size:3
Alignment explanation
Indices: 69956453--69956483 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
69956443 TCATTATTGA
69956453 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
69956484 GTTACTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:69961128 original size:111 final size:110
Alignment explanation
Indices: 69960989--69961213 Score: 360
Period size: 111 Copynumber: 2.0 Consensus size: 110
69960979 ACATATATAA
* * * *
69960989 CCAAAATATCTTAAAAGCTTGAAGAAGAAAAAAGAACAACAATTATTTTTCATTACTGTAGGAGC
1 CCAAAATATCTAAAAAGCTTAAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
* * *
69961054 CATTATTAATATTCAATATAGAACCATCTAATTAAGCAATGAATAT
66 CATTATTAATATTCAATACAGAACCATCT-ATTAAGCAACGAACAT
* *
69961100 CCAAAATATCTAAAAAGCTTAAAGAAGAAAAAAGAACAATAGTCACTTTTCATTACTGTAGGAGC
1 CCAAAATATCTAAAAAGCTTAAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
69961165 CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
66 CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
69961210 CCAA
1 CCAA
69961214 TATAAACACC
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
110 18 0.17
111 87 0.83
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (110 bp):
CCAAAATATCTAAAAAGCTTAAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
Found at i:69961924 original size:5 final size:5
Alignment explanation
Indices: 69961903--69961939 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
69961893 TAGCAATAGC
*
69961903 AATAA CAATAA ATTAA AATAA AATAA AATAA AATAA A
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA A
69961940 TCTTTTGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:69966123 original size:12 final size:12
Alignment explanation
Indices: 69966090--69966133 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
69966080 AAACAAAATT
69966090 AGAAAGAAAAGAA
1 AGAAAGAAAA-AA
* *
69966103 AGGAAGAAAAAG
1 AGAAAGAAAAAA
69966115 AGAAAGAAAAAA
1 AGAAAGAAAAAA
69966127 AGAAAGA
1 AGAAAGA
69966134 GAACCCACGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAA
Found at i:69966129 original size:20 final size:19
Alignment explanation
Indices: 69966092--69966136 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
69966082 ACAAAATTAG
**
69966092 AAAGAAAAGAAAGGAAGAA
1 AAAGAAAAGAAAAAAAGAA
69966111 AAAGAGAAAGAAAAAAAGAA
1 AAAGA-AAAGAAAAAAAGAA
*
69966131 AGAGAA
1 AAAGAA
69966137 CCCACGGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAAAAAGAA
Found at i:69966880 original size:16 final size:15
Alignment explanation
Indices: 69966859--69966914 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
69966849 AGTAGATACA
69966859 TATTGAATGTATCGAT
1 TATTGAATGTAT-GAT
69966875 TATTGAATTGATAT-AT
1 TATTGAA-TG-TATGAT
69966891 TA-TGAATGTATTGAT
1 TATTGAATGTA-TGAT
69966906 TATTTGAAT
1 TA-TTGAAT
69966915 TGAAATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 8 0.24
16 11 0.32
17 7 0.21
18 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (15 bp):
TATTGAATGTATGAT
Found at i:69969637 original size:24 final size:24
Alignment explanation
Indices: 69969610--69969655 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
69969600 AACCAGTGTC
69969610 ACAAAAATATAAATATATCAGAAT
1 ACAAAAATATAAATATATCAGAAT
69969634 ACAAAAATATAAATATATCAGA
1 ACAAAAATATAAATATATCAGA
69969656 CTCAATAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (24 bp):
ACAAAAATATAAATATATCAGAAT
Found at i:69970307 original size:8 final size:8
Alignment explanation
Indices: 69970265--69970289 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
69970255 ATATAGACTA
69970265 AATAAAAT
1 AATAAAAT
69970273 AATAAAAT
1 AATAAAAT
69970281 AATAAAAT
1 AATAAAAT
69970289 A
1 A
69970290 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:69974755 original size:47 final size:47
Alignment explanation
Indices: 69974703--69974912 Score: 201
Period size: 47 Copynumber: 4.4 Consensus size: 47
69974693 TGATTAGACC
* * *
69974703 ATGGCAAC-GTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGAT
* ** *
69974750 ATGGCATC-GATGTGATATGAGCTTCCGTATAAGACCATATTTGAGAT
1 ATGGCATCAG-TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
69974797 ATGACATCTGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * *
69974844 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* *
69974890 ATGGCTTCGGTGTGTGATATGTG
1 ATGGCATC--AGTGTGATATGTG
69974913 ACTATGTGTA
Statistics
Matches: 137, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
46 27 0.20
47 87 0.64
48 23 0.17
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
Found at i:69979383 original size:5 final size:5
Alignment explanation
Indices: 69979373--69979398 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
69979363 AATCTGTGTG
69979373 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
69979399 TCACAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:69985420 original size:48 final size:48
Alignment explanation
Indices: 69985346--69985464 Score: 141
Period size: 48 Copynumber: 2.5 Consensus size: 48
69985336 TCCTAGTATT
* * *
69985346 ATTAGGATTA-CAAAGTTATATTTTATAAATATATATTAGTTAGAACTGA
1 ATTAGGATTATCAAAATTATA--TTATAAATATACATTAGTTAGAACTAA
* * *
69985395 ATTAGGATTATGAAAATTATATTATATATATACCTTAGTTAGAACTAA
1 ATTAGGATTATCAAAATTATATTATAAATATACATTAGTTAGAACTAA
* *
69985443 ATTAGTATCATCAAAATTATAT
1 ATTAGGATTATCAAAATTATAT
69985465 GTAGAGTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
48 42 0.70
49 10 0.17
50 8 0.13
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (48 bp):
ATTAGGATTATCAAAATTATATTATAAATATACATTAGTTAGAACTAA
Found at i:69988558 original size:16 final size:16
Alignment explanation
Indices: 69988537--69988575 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
69988527 TTAAATTTAG
69988537 TTTTTAAT-ATTTATAT
1 TTTTTAATAATTTA-AT
*
69988553 TTTTTATTAATTTAAT
1 TTTTTAATAATTTAAT
69988569 TTTTTAA
1 TTTTTAA
69988576 ATTAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTAATAATTTAAT
Found at i:69991330 original size:25 final size:25
Alignment explanation
Indices: 69991302--69991350 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
69991292 AAAGGGAAAG
69991302 TCCTAATAGAATTCCGAATTTAAAC
1 TCCTAATAGAATTCCGAATTTAAAC
*
69991327 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCGAATTTAAA
69991351 GTTTATAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (25 bp):
TCCTAATAGAATTCCGAATTTAAAC
Found at i:69995998 original size:25 final size:25
Alignment explanation
Indices: 69995970--69996023 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
69995960 TACAAAGGGG
69995970 AAGTCATAATAGAATTCCTAATTTA
1 AAGTCATAATAGAATTCCTAATTTA
*
69995995 AAGTCCTAATAGAATTCCTAATTTA
1 AAGTCATAATAGAATTCCTAATTTA
69996020 AAGT
1 AAGT
69996024 TTATAAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (25 bp):
AAGTCATAATAGAATTCCTAATTTA
Found at i:69999251 original size:24 final size:24
Alignment explanation
Indices: 69999208--69999256 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
69999198 CTTTGAACAA
* ** *
69999208 TTTAATTTTTTTTCTTTTATGTTT
1 TTTAACTTTTTTTCCATTATCTTT
69999232 TTTAACTTTTTTTCCATTATCTTT
1 TTTAACTTTTTTTCCATTATCTTT
69999256 T
1 T
69999257 GCTTATCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTAACTTTTTTTCCATTATCTTT
Found at i:69999512 original size:21 final size:22
Alignment explanation
Indices: 69999486--69999526 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
69999476 GAATGAAAAA
69999486 TAAAAATAA-ATAAAA-AAAAGT
1 TAAAAA-AACATAAAAGAAAAGT
69999507 TAAAAAAACATAAAAGAAAA
1 TAAAAAAACATAAAAGAAAA
69999527 AAATTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (22 bp):
TAAAAAAACATAAAAGAAAAGT
Found at i:69999520 original size:25 final size:23
Alignment explanation
Indices: 69999487--69999533 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
69999477 AATGAAAAAT
69999487 AAAAATAAATA-AAAAAAAGTTAAA
1 AAAAATAAA-AGAAAAAAA-TTAAA
69999511 AAAACATAAAAGAAAAAAATTAA
1 AAAA-ATAAAAGAAAAAAATTAA
69999534 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAAATAAAAGAAAAAAATTAAA
Found at i:70000900 original size:20 final size:22
Alignment explanation
Indices: 70000875--70000915 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
70000865 TATATTTTTT
70000875 ATTTT-AC-TATTTTAAAAATG
1 ATTTTAACATATTTTAAAAATG
*
70000895 ATTTTAACATTTTTTAAAAAT
1 ATTTTAACATATTTTAAAAAT
70000916 AGTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAACATATTTTAAAAATG
Found at i:70001539 original size:2 final size:2
Alignment explanation
Indices: 70001534--70001564 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70001524 TAAAAAATTT
70001534 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
70001565 CTTAGCTTTT
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:70005586 original size:9 final size:9
Alignment explanation
Indices: 70005574--70005642 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
70005564 TTAAAAAAAA
70005574 TTTAAAATT
1 TTTAAAATT
70005583 TTTAAAATT
1 TTTAAAATT
* *
70005592 TTT-GAATA
1 TTTAAAATT
*
70005600 TATAAAATT
1 TTTAAAATT
70005609 TTT--AATT
1 TTTAAAATT
70005616 TTTATAAATAT
1 TTTA-AAAT-T
70005627 TTT-AAA-T
1 TTTAAAATT
70005634 TTTAAAATT
1 TTTAAAATT
70005643 ATTTGTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
7 11 0.23
8 8 0.17
9 21 0.45
10 3 0.06
11 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (9 bp):
TTTAAAATT
Found at i:70005612 original size:26 final size:26
Alignment explanation
Indices: 70005576--70005647 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
70005566 AAAAAAAATT
70005576 TAAAATTTTTAAAATTTTTGAATATA
1 TAAAATTTTTAAAATTTTTGAATATA
* * *
70005602 TAAAATTTTT-AATTTTTATAAATATT
1 TAAAATTTTTAAAATTTT-TGAATATA
*
70005628 TTAAA-TTTTAAAATTATTTG
1 TAAAATTTTTAAAATT-TTTG
70005648 TATTATTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 10 0.27
26 25 0.68
27 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
TAAAATTTTTAAAATTTTTGAATATA
Found at i:70005624 original size:17 final size:16
Alignment explanation
Indices: 70005579--70005642 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
70005569 AAAAATTTAA
70005579 AATTTTTAAAATTTTT
1 AATTTTTAAAATTTTT
* *
70005595 GAATATATAAAATTTTT
1 -AATTTTTAAAATTTTT
70005612 AATTTTTATAAATATTTT
1 AATTTTTA-AAAT-TTTT
*
70005630 AAATTTTAAAATT
1 AATTTTTAAAATT
70005643 ATTTGTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.17
17 22 0.55
18 11 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
AATTTTTAAAATTTTT
Found at i:70005634 original size:19 final size:18
Alignment explanation
Indices: 70005570--70005636 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
70005560 TTCTTTAAAA
*
70005570 AAAATTTAAAATTTTTA-
1 AAAATTTTAAATTTTTAT
* * *
70005587 AAATTTTTGAA--TATAT
1 AAAATTTTAAATTTTTAT
*
70005603 AAAATTTTTAATTTTTAT
1 AAAATTTTAAATTTTTAT
70005621 AAATATTTTAAATTTT
1 AAA-ATTTTAAATTTT
70005637 AAAATTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.08
16 9 0.24
17 8 0.21
18 7 0.18
19 11 0.29
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
AAAATTTTAAATTTTTAT
Found at i:70005637 original size:18 final size:17
Alignment explanation
Indices: 70005568--70005646 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
70005558 TGTTCTTTAA
* *
70005568 AAAAAATTTAAAATTTTT
1 AAAATATTTTAAA-TTTT
* *
70005586 AAAAT-TTTTGAATATAT
1 AAAATATTTTAAAT-TTT
*
70005603 AAAAT-TTTTAATTTTT
1 AAAATATTTTAAATTTT
70005619 ATAAATATTTTAAATTTT
1 A-AAATATTTTAAATTTT
70005637 AAAATTATTT
1 AAAA-TATTT
70005647 GTATTATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.08
17 25 0.51
18 20 0.41
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (17 bp):
AAAATATTTTAAATTTT
Found at i:70006113 original size:62 final size:62
Alignment explanation
Indices: 70006036--70006156 Score: 206
Period size: 62 Copynumber: 2.0 Consensus size: 62
70006026 AAATTTCAAG
* * * *
70006036 TTAATCGAATCGAGTTATTCAATTTTTACGAGTCAACTCAAATAAGTAATTCGAGTTTCGAA
1 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTCGAA
70006098 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTC
1 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTC
70006157 AAGTTCGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (62 bp):
TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTCGAA
Found at i:70006150 original size:32 final size:32
Alignment explanation
Indices: 70006052--70006151 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 32
70006042 GAATCGAGTT
*
70006052 ATTCAATTTTTACGAGTCAACTCAAATAAGTA
1 ATTCAATTTTTACGAATCAACTCAAATAAGTA
* * * * *
70006084 ATTCGA-GTTT-CGAATTAA-TCGAATAGAGTT
1 ATTCAATTTTTACGAATCAACTCAAATA-AGTA
*
70006114 ATTCAATTTTTACAAATCAACTCAAATAAGTA
1 ATTCAATTTTTACGAATCAACTCAAATAAGTA
70006146 ATTCAA
1 ATTCAA
70006152 GTTTCAAGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 6 0.12
30 14 0.27
31 6 0.12
32 20 0.38
33 6 0.12
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (32 bp):
ATTCAATTTTTACGAATCAACTCAAATAAGTA
Found at i:70006569 original size:14 final size:14
Alignment explanation
Indices: 70006552--70006590 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
70006542 TTAATATTTT
*
70006552 TAATTTAATTCAAA
1 TAATTTAACTCAAA
70006566 TAATTTAACTCAAA
1 TAATTTAACTCAAA
*
70006580 TAATTTCACTC
1 TAATTTAACTC
70006591 GGTTCGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTTAACTCAAA
Found at i:70006728 original size:23 final size:23
Alignment explanation
Indices: 70006682--70006728 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
70006672 GGACTTGGCA
**
70006682 ACTCGATTAACTCAAATTTTTTC
1 ACTCGATTAACTCAAATTAGTTC
70006705 ACTCGATTCAACTC-AATTAGTTC
1 ACTCGATT-AACTCAAATTAGTTC
70006728 A
1 A
70006729 AACACTCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (23 bp):
ACTCGATTAACTCAAATTAGTTC
Found at i:70007289 original size:12 final size:12
Alignment explanation
Indices: 70007254--70007300 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
70007244 TGTTTTACGC
*
70007254 TCTCTTCATTTTCA
1 TCTCTTC-TTTT-T
70007268 TCTCTT-TTTTT
1 TCTCTTCTTTTT
*
70007279 TCTTTTCTTTTT
1 TCTCTTCTTTTT
70007291 TCTCTTCTTT
1 TCTCTTCTTT
70007301 CATGCAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 18 0.62
14 6 0.21
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTCTTCTTTTT
Found at i:70007587 original size:16 final size:19
Alignment explanation
Indices: 70007558--70007605 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
70007548 AATTAAAAGG
70007558 AAAAAATCTCAAATTT-C-
1 AAAAAATCTCAAATTTACT
*
70007575 AAAAAAT-TGAAATTTACT
1 AAAAAATCTCAAATTTACT
70007593 AAAAAATC-CAAAT
1 AAAAAATCTCAAAT
70007606 AGTATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATCTCAAATTTACT
Found at i:70009643 original size:41 final size:41
Alignment explanation
Indices: 70009598--70009677 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
70009588 AAGAATATCC
* **
70009598 AAAATTAAAATGTGGTATATATAATTGTTTAAAATTAAAGT
1 AAAATTAAAATGTGATATATATAATTGCATAAAATTAAAGT
*
70009639 AAAATTAAAATGTTATATATATAATTGCATAAAATTAAA
1 AAAATTAAAATGTGATATATATAATTGCATAAAATTAAA
70009678 ATTTATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.38
Consensus pattern (41 bp):
AAAATTAAAATGTGATATATATAATTGCATAAAATTAAAGT
Found at i:70011418 original size:23 final size:23
Alignment explanation
Indices: 70011386--70011472 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
70011376 AATTTACACT
*
70011386 GAAGTGCCACTATCACTTTCA-C
1 GAAGTGCCACTATCACTTGCATC
* *
70011408 GGGAGTGCCACTATCGCTTGCATC
1 -GAAGTGCCACTATCACTTGCATC
* *
70011432 GAAGTGCCACTATCA-TTAGGACC
1 GAAGTGCCACTATCACTT-GCATC
*
70011455 GAAGTGCCACTATTACTT
1 GAAGTGCCACTATCACTT
70011473 TTGCCCATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.04
23 48 0.91
24 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (23 bp):
GAAGTGCCACTATCACTTGCATC
Found at i:70012927 original size:16 final size:17
Alignment explanation
Indices: 70012895--70012928 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70012885 TAAAGCTTTA
*
70012895 TTTTAATTTTTTATATG
1 TTTTAATTTTATATATG
70012912 TTTTAATTTTAT-TATG
1 TTTTAATTTTATATATG
70012928 T
1 T
70012929 ACACTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTATATATG
Found at i:70013573 original size:12 final size:12
Alignment explanation
Indices: 70013543--70013575 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
70013533 TATTTATTTT
70013543 AAAATT-ATATA
1 AAAATTAATATA
70013554 AAAA-TAATATA
1 AAAATTAATATA
70013565 AAAATTAATAT
1 AAAATTAATAT
70013576 GGGCGGACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:70015382 original size:30 final size:29
Alignment explanation
Indices: 70015346--70015411 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
70015336 AACATGCCAG
70015346 TGACCAACTTGTAACTTTTGAATAGTTCAA
1 TGACCAACTTGTAACTTTTGAA-AGTTCAA
* * *
70015376 TGACCAATTTGTAACTTTTTAAAGTTGAA
1 TGACCAACTTGTAACTTTTGAAAGTTCAA
*
70015405 TAACCAA
1 TGACCAA
70015412 AATATAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (29 bp):
TGACCAACTTGTAACTTTTGAAAGTTCAA
Found at i:70020293 original size:3 final size:3
Alignment explanation
Indices: 70020285--70020311 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
70020275 TATATGTATA
70020285 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
70020312 AAATGATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:70022912 original size:24 final size:24
Alignment explanation
Indices: 70022867--70022912 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
70022857 ATTTAAATAT
* *
70022867 AAAATTTATTCCACAACTTAACCG
1 AAAATTTAATCCACAACATAACCG
70022891 AAAATTTAATCC-CTAACATAAC
1 AAAATTTAATCCAC-AACATAAC
70022913 TTCCCCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATTTAATCCACAACATAACCG
Found at i:70023477 original size:21 final size:20
Alignment explanation
Indices: 70023450--70023489 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
70023440 ATAACAGTTC
* *
70023450 CAAAAAATTATTTAAAATTA
1 CAAAAAAATAATTAAAATTA
70023470 CAAAAAAATAATTAAAATTA
1 CAAAAAAATAATTAAAATTA
70023490 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAAAATAATTAAAATTA
Found at i:70023736 original size:26 final size:26
Alignment explanation
Indices: 70023707--70023758 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
70023697 ATTATTTAAA
*
70023707 TAATAAAAATAATATTATTTATTATT
1 TAATAAAAATAACATTATTTATTATT
** *
70023733 TAATTGAAATAACATTATTTTTTATT
1 TAATAAAAATAACATTATTTATTATT
70023759 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATAAAAATAACATTATTTATTATT
Found at i:70027730 original size:27 final size:27
Alignment explanation
Indices: 70027700--70027751 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
70027690 TCTGTAGTGA
70027700 ACTCTGAATAAATCA-CCTTTGTGGCAT
1 ACTCTGAATAAAT-AGCCTTTGTGGCAT
* *
70027727 ACTCTGTATATATAGCCTTTGTGGC
1 ACTCTGAATAAATAGCCTTTGTGGC
70027752 GTACATACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
ACTCTGAATAAATAGCCTTTGTGGCAT
Found at i:70031512 original size:20 final size:19
Alignment explanation
Indices: 70031472--70031524 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
70031462 TTTACATCTC
70031472 AAAAAAT-TATAAAAAGCT
1 AAAAAATATATAAAAAGCT
70031490 AAAAAATATATAATAAA-CT
1 AAAAAATATATAA-AAAGCT
*
70031509 TAAAAA-ATATAAAAAG
1 AAAAAATATATAAAAAG
70031525 TTTAAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 13 0.42
19 12 0.39
20 3 0.10
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAAATATATAAAAAGCT
Found at i:70031529 original size:18 final size:17
Alignment explanation
Indices: 70031472--70031531 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
70031462 TTTACATCTC
*
70031472 AAAAAATTATAAAAAGCTA
1 AAAAAA-TATAAAAAG-TT
*
70031491 AAAAATATATAATAAACTT
1 AAAAA-ATATAA-AAAGTT
70031510 AAAAAATATAAAAAGTTT
1 AAAAAATATAAAAAG-TT
70031528 AAAA
1 AAAA
70031532 CCTTAAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 12 0.34
19 16 0.46
20 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAAATATAAAAAGTT
Found at i:70037313 original size:13 final size:13
Alignment explanation
Indices: 70037295--70037322 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70037285 ACTGAAATTT
70037295 TCCAAGAATTTCA
1 TCCAAGAATTTCA
70037308 TCCAAGAATTTCA
1 TCCAAGAATTTCA
70037321 TC
1 TC
70037323 ACTATTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (13 bp):
TCCAAGAATTTCA
Found at i:70047516 original size:15 final size:15
Alignment explanation
Indices: 70047496--70047531 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
70047486 AATAAGTATT
70047496 ATACATACATTTGTA
1 ATACATACATTTGTA
*
70047511 ATACATATATTTGTA
1 ATACATACATTTGTA
70047526 ATACAT
1 ATACAT
70047532 GTATGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (15 bp):
ATACATACATTTGTA
Found at i:70050070 original size:46 final size:46
Alignment explanation
Indices: 70050018--70050189 Score: 265
Period size: 46 Copynumber: 3.7 Consensus size: 46
70050008 AGTGTGCTTT
*
70050018 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
70050064 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
70050110 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
70050156 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGA
70050190 CACTACGGCA
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 116 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:70058723 original size:6 final size:6
Alignment explanation
Indices: 70058712--70058826 Score: 230
Period size: 6 Copynumber: 19.2 Consensus size: 6
70058702 AAATGAATTA
70058712 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
70058760 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
70058808 ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC A
70058827 ATTGTCGAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 109 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:70061133 original size:14 final size:15
Alignment explanation
Indices: 70061116--70061144 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70061106 TCACAAAAAT
70061116 TTCACACAT-ATAAA
1 TTCACACATAATAAA
70061130 TTCACACATAATAAA
1 TTCACACATAATAAA
70061145 CAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:70064589 original size:28 final size:24
Alignment explanation
Indices: 70064558--70064621 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 24
70064548 AACTCTTTCA
*
70064558 AAAAACCCTAACCCTAATCCATAAATCT
1 AAAAACCCTAACCCTAA---AAAAAT-T
70064586 AAAAACCCTAACCCTAAAAAAATT
1 AAAAACCCTAACCCTAAAAAAATT
70064610 AAAAACCCTAAC
1 AAAAACCCTAAC
70064622 ATTGGGAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 13 0.37
25 5 0.14
28 17 0.49
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAACCCTAACCCTAAAAAAATT
Found at i:70066687 original size:24 final size:23
Alignment explanation
Indices: 70066651--70066705 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
70066641 TATATACTAA
* *
70066651 ATATATATTTTTTAATTTTTAATT
1 ATATATATATTTT-ATTTTCAATT
*
70066675 ATATTTATATTTTATTTTCAATT
1 ATATATATATTTTATTTTCAATT
*
70066698 TTA-ATATA
1 ATATATATA
70066706 ATCACTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 4 0.15
23 11 0.42
24 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTATTTTCAATT
Found at i:70079094 original size:5 final size:5
Alignment explanation
Indices: 70079084--70079111 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70079074 CTGTGTGTTC
70079084 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
70079112 CACATATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:70082693 original size:8 final size:8
Alignment explanation
Indices: 70082680--70082788 Score: 74
Period size: 8 Copynumber: 14.0 Consensus size: 8
70082670 TTATGTTTAA
70082680 TATATTAT
1 TATATTAT
70082688 TATATTAT
1 TATATTAT
70082696 TATATTAT
1 TATATTAT
*
70082704 TATATAATAAA
1 TATAT--T-AT
*
70082715 GATATT-T
1 TATATTAT
*
70082722 TATGTT-T
1 TATATTAT
70082729 TA-ATTAT
1 TATATTAT
70082736 TATATTA-
1 TATATTAT
70082743 TAT-TATAT
1 TATAT-TAT
70082751 TATATTA-
1 TATATTAT
70082758 TAT-TATAT
1 TATAT-TAT
70082766 TATATTA-
1 TATATTAT
70082773 TAT-TATAT
1 TATAT-TAT
70082781 TATATTAT
1 TATATTAT
70082789 ATAAACTAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 28
0.70 0.05 0.24
Matches are distributed among these distances:
6 5 0.06
7 25 0.31
8 41 0.51
9 4 0.05
10 1 0.01
11 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:70082709 original size:10 final size:9
Alignment explanation
Indices: 70082679--70082791 Score: 90
Period size: 10 Copynumber: 12.3 Consensus size: 9
70082669 TTTATGTTTA
70082679 ATATATTAT
1 ATATATTAT
70082688 -TATATTAT
1 ATATATTAT
70082696 -TATATTATT
1 ATATATTA-T
* *
70082705 ATATAATAA
1 ATATATTAT
* *
70082714 AGATATTTT
1 ATATATTAT
* *
70082723 ATGTTTTA-
1 ATATATTAT
70082731 AT-TATTAT
1 ATATATTAT
70082739 ATTATATTAT
1 A-TATATTAT
70082749 ATTATATTAT
1 A-TATATTAT
70082759 ATTATATTAT
1 A-TATATTAT
70082769 ATTATATTAT
1 A-TATATTAT
70082779 ATTATATTAT
1 A-TATATTAT
70082789 ATA
1 ATA
70082792 AACTAAAGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
7 4 0.05
8 18 0.20
9 13 0.15
10 53 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
ATATATTAT
Found at i:70082743 original size:5 final size:5
Alignment explanation
Indices: 70082733--70082790 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
70082723 ATGTTTTAAT
70082733 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
70082783 TATTA TAT
1 TATTA TAT
70082791 AAACTAAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:70082867 original size:14 final size:15
Alignment explanation
Indices: 70082848--70082876 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70082838 CAGAGAGCAG
70082848 GGGAGAAAA-AGAAA
1 GGGAGAAAAGAGAAA
70082862 GGGAGAAAAGAGAAA
1 GGGAGAAAAGAGAAA
70082877 ATTGAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
GGGAGAAAAGAGAAA
Found at i:70084472 original size:6 final size:6
Alignment explanation
Indices: 70084461--70084492 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
70084451 TGTGCCAACC
*
70084461 ACTGTT ACTGTT ATTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
70084493 CGATTCTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:70084536 original size:6 final size:6
Alignment explanation
Indices: 70084517--70084547 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
70084507 GTGTGTCGAA
*
70084517 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
70084548 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:70092586 original size:26 final size:26
Alignment explanation
Indices: 70092557--70092626 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
70092547 CATAATATTT
70092557 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
70092583 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
70092612 AATTATTTAATATTT
1 AATTATTT-ATATTT
70092627 CAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:70092596 original size:16 final size:16
Alignment explanation
Indices: 70092575--70092624 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
70092565 ATATTTAGTC
70092575 ATATAATAAATTATTA
1 ATATAATAAATTATTA
70092591 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
70092604 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
70092621 ATAT
1 ATAT
70092625 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:70092599 original size:29 final size:30
Alignment explanation
Indices: 70092567--70092624 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
70092557 AATTATTTAT
70092567 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
70092596 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
70092625 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:70092650 original size:13 final size:14
Alignment explanation
Indices: 70092634--70092675 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
70092624 TTTCAATTTT
70092634 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
70092647 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
70092662 ATTTTAAATAATAT
1 ATTTT-AATAATAT
70092676 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:70092660 original size:16 final size:16
Alignment explanation
Indices: 70092638--70092674 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
70092628 AATTTTATTT
70092638 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
70092655 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
70092670 TAATA
1 TAATA
70092675 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:70092725 original size:15 final size:15
Alignment explanation
Indices: 70092707--70092758 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
70092697 ATTCAATATT
70092707 AATATATTAATAATA
1 AATATATTAATAATA
*
70092722 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
70092741 AATATATTAATAATA
1 AATATATTAATAATA
70092756 AAT
1 AAT
70092759 GTTGTGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 13 0.42
17 8 0.26
19 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:70101250 original size:21 final size:20
Alignment explanation
Indices: 70101204--70101256 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
70101194 CAAAAAGATA
70101204 TAAAATAATTAAATATTAAAT
1 TAAAATAATTAAATATT-AAT
*
70101225 TAAAATAATATAAATATT-TT
1 TAAAATAAT-TAAATATTAAT
70101245 TAAAA-AATTAAA
1 TAAAATAATTAAA
70101257 AAATAATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 6 0.20
21 9 0.30
22 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATAATTAAATATTAAT
Found at i:70110944 original size:21 final size:21
Alignment explanation
Indices: 70110918--70110957 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
70110908 CATTAACTTT
70110918 ATATATAATATTAA-CATATTC
1 ATATATAA-ATTAATCATATTC
70110939 ATATATAAATTAATCATAT
1 ATATATAAATTAATCATAT
70110958 AACCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAATTAATCATATTC
Found at i:70115477 original size:29 final size:29
Alignment explanation
Indices: 70115435--70115493 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
70115425 TTGTCGATGA
* *
70115435 GGTGGAGAAATTGTTCGTTGAGAGTTCGT
1 GGTGAAGAAATTGTTCGTTGAGAATTCGT
*
70115464 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAAATTGTTCGTTGAGAATTCGT
70115493 G
1 G
70115494 TCAAGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.36, T:0.34
Consensus pattern (29 bp):
GGTGAAGAAATTGTTCGTTGAGAATTCGT
Found at i:70139046 original size:36 final size:38
Alignment explanation
Indices: 70138982--70139055 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 38
70138972 ATTTTATATA
*
70138982 TTTATATGATTTAAAATTTTAAAGTTTTTTAGTTTTTT
1 TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTTTT
* * *
70139020 TTTATAT-ATTT-ATATTTTTAATTTTTTTAATTTTTT
1 TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTTTT
70139056 ATAACTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 21 0.66
37 4 0.12
38 7 0.22
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (38 bp):
TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTTTT
Found at i:70141053 original size:17 final size:17
Alignment explanation
Indices: 70141015--70141079 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
70141005 ATTGTTTATA
*
70141015 AAAAATATTTTTGAGACA-
1 AAAAATATTTTT-A-AAAT
70141033 AAAAATATTTTTAAAAT
1 AAAAATATTTTTAAAAT
*
70141050 AAAAATATTGTT-AAAT
1 AAAAATATTTTTAAAAT
70141066 -AAAATATTTTTAAA
1 AAAAATATTTTTAAA
70141080 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.24
16 8 0.19
17 12 0.29
18 12 0.29
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (17 bp):
AAAAATATTTTTAAAAT
Found at i:70141071 original size:15 final size:16
Alignment explanation
Indices: 70141015--70141080 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 16
70141005 ATTGTTTATA
70141015 AAAAATATTTTTGAGACA-
1 AAAAATATTTTT-A-A-AT
70141033 AAAAATATTTTTAAAAT
1 AAAAATATTTTT-AAAT
*
70141050 AAAAATATTGTTAAAT
1 AAAAATATTTTTAAAT
70141066 -AAAATATTTTTAAAT
1 AAAAATATTTTTAAAT
70141081 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
15 14 0.32
16 5 0.11
17 12 0.27
18 13 0.30
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:70145101 original size:20 final size:20
Alignment explanation
Indices: 70145076--70145113 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
70145066 TTATTATTTT
70145076 TTAAAAGTTA-AGTGACTGAA
1 TTAAAA-TTAGAGTGACTGAA
70145096 TTAAAATTAGAGTGACTG
1 TTAAAATTAGAGTGACTG
70145114 TTTTGTCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (20 bp):
TTAAAATTAGAGTGACTGAA
Found at i:70151271 original size:47 final size:46
Alignment explanation
Indices: 70151162--70151272 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 46
70151152 CCGGGATAAG
*
70151162 CACATAGTGCTCCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCT-CATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
70151209 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGC-TCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
70151256 CACATAGTGTCTCATCG
1 CACATAGTG-CTCATCG
70151273 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (46 bp):
CACATAGTGCTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:70152092 original size:4 final size:4
Alignment explanation
Indices: 70152075--70152107 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
70152065 TCTCTGTAAC
*
70152075 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
70152108 TAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:70153199 original size:13 final size:14
Alignment explanation
Indices: 70153170--70153202 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
70153160 AAATGAAACA
*
70153170 GAGAAGGAAAAAGG
1 GAGAAAGAAAAAGG
70153184 GAGAAAGAAAAA-G
1 GAGAAAGAAAAAGG
70153197 GAGAAA
1 GAGAAA
70153203 AACTTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
GAGAAAGAAAAAGG
Found at i:70155223 original size:19 final size:20
Alignment explanation
Indices: 70155186--70155223 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
70155176 AAAGGGACAA
*
70155186 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
70155206 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
70155224 AATGTTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:70157534 original size:43 final size:43
Alignment explanation
Indices: 70157444--70157554 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
70157434 CGGGCTTCGG
* **
70157444 GCCTAGCAGGCTATAATGCCGGTGAGATAATATCGAGCCTCGG
1 GCCTAGCAGGCTATAATGCCGGTGAAATAATATCGAGCCTCAA
* * *
70157487 GCCTAGCAAGCTATAATGCCGGTGAAATGATATC-AGGCTTCAA
1 GCCTAGCAGGCTATAATGCCGGTGAAATAATATCGA-GCCTCAA
*
70157530 GCCTAGCAGGCGA-AATGCCGGTGAA
1 GCCTAGCAGGCTATAATGCCGGTGAA
70157555 TGAATTCAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
42 13 0.22
43 46 0.78
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATAATATCGAGCCTCAA
Found at i:70157602 original size:13 final size:13
Alignment explanation
Indices: 70157584--70157649 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
70157574 AGTTTGGCAA
*
70157584 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
70157597 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
70157610 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
70157623 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
70157636 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
70157649 T
1 T
70157650 TTAATTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:70157613 original size:26 final size:26
Alignment explanation
Indices: 70157584--70157649 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
70157574 AGTTTGGCAA
*
70157584 TGCTTTTAAAAAGTGCTTTTGAAAAG
1 TGCTTTTAAAAAGTACTTTTGAAAAG
* ** *
70157610 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTAAAAAGTACTTTTGAAAAG
70157636 TGCTTTTAAAAAGT
1 TGCTTTTAAAAAGT
70157650 TTAATTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCTTTTAAAAAGTACTTTTGAAAAG
Found at i:70164332 original size:14 final size:13
Alignment explanation
Indices: 70164306--70164330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70164296 CAGAGGAGGA
70164306 AAAAAGGAGAAAG
1 AAAAAGGAGAAAG
70164319 AAAAAGGAGAAA
1 AAAAAGGAGAAA
70164331 AGCGTAGGGT
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAAAGGAGAAAG
Found at i:70164984 original size:24 final size:24
Alignment explanation
Indices: 70164957--70165003 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
70164947 ATTTAAACGG
70164957 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
70164981 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
70165004 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:70166311 original size:19 final size:20
Alignment explanation
Indices: 70166274--70166311 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
70166264 TTTGGGACAA
*
70166274 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
70166294 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
70166312 AATGTTCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:70168238 original size:41 final size:41
Alignment explanation
Indices: 70168191--70168283 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
70168181 ATATAAACAC
*
70168191 CGCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAATGT
1 CGCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGT
* *
70168232 CGCAAAAGGTCAAGCAGTAGTGGTGTTTATGATAAAAAAGT
1 CGCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGT
70168273 CGCAAAAGGTC
1 CGCAAAAGGTC
70168284 TGGTAGTGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (41 bp):
CGCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGT
Found at i:70169090 original size:20 final size:20
Alignment explanation
Indices: 70169065--70169108 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
70169055 TGATATATGA
*
70169065 TTTAGGGTTAGGGTTTATAG
1 TTTAGGGTTAGGGTTTAGAG
*
70169085 TTTAGGGTTATGGTTTAGAG
1 TTTAGGGTTAGGGTTTAGAG
70169105 TTTA
1 TTTA
70169109 TGATTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (20 bp):
TTTAGGGTTAGGGTTTAGAG
Found at i:70169095 original size:13 final size:14
Alignment explanation
Indices: 70169072--70169109 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
70169062 TGATTTAGGG
70169072 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
*
70169086 TTAGGG-TTATGGT
1 TTAGGGTTTATAGT
*
70169099 TTAGAGTTTAT
1 TTAGGGTTTAT
70169110 GATTTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:70169180 original size:21 final size:21
Alignment explanation
Indices: 70169141--70169185 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
70169131 GGTTTAGAAT
* *
70169141 TTTATGGTTTATGAGTTAATG
1 TTTATGGTATATGAGTTAAGG
70169162 TTTATGGTATA-GAGTTTAAGG
1 TTTATGGTATATGAG-TTAAGG
70169183 TTT
1 TTT
70169186 GGGGTTTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
TTTATGGTATATGAGTTAAGG
Found at i:70169975 original size:28 final size:25
Alignment explanation
Indices: 70169921--70169978 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 25
70169911 ATTCCCCAAA
* *
70169921 TCGGCAGCCCTCTGCTGCTTCTTCG
1 TCGGCAGCCCTCTGCTGCATCTCCG
70169946 TCGGCAGCCCGCTGCTGCTGCATCTCCG
1 TCGGCAG-CC-CT-CTGCTGCATCTCCG
70169974 TCGGC
1 TCGGC
70169979 GGCCTCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.25
26 2 0.07
27 2 0.07
28 17 0.61
ACGTcount: A:0.05, C:0.41, G:0.28, T:0.26
Consensus pattern (25 bp):
TCGGCAGCCCTCTGCTGCATCTCCG
Found at i:70170684 original size:203 final size:209
Alignment explanation
Indices: 70170337--70170824 Score: 645
Period size: 203 Copynumber: 2.3 Consensus size: 209
70170327 TTGGCATTTC
*
70170337 ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAGAATGTATGTTTCTGAAG
1 ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAGAATATATGTTTCTGAAG
*
70170402 TCTTATTGTCATATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCATGGAG
66 TCTTATTG----ATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCACGGAG
* *
70170467 TGGCTGCATATTGTTAAGTGTGCTTATT-A-T-CTATGCAATGTGATGATCCTGTTGATTATTGG
127 TGACTGCATATTGTTAAGTGTGCTTATTGATTCCT-TGCAAGGTGATGATCCTGTTGATTATTGG
*
70170529 CATTTTATGTCTTCTCTAA
191 CATTTCATGTCTTCTCTAA
* * * *
70170548 ATGG-ATTTAGATGTTGGCTTACATAGTTTGTTCATTAAAAACCACAGTACATATA-GTTT-TGA
1 ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAG-A-ATATATGTTTCTGA
* *
70170610 AGTCTTATTG-TTTGGTC-T-TGTTATGGTGTTAAAGG-CGTTTGATTAGTATGGTCCACGGAGT
64 AGTCTTATTGATTTGGTCATAGGCTATGGTGTTAAAGGAC-TTTGATTAGTATGGTCCACGGAGT
* *
70170671 GACTGCATATTGTTAAGTGTGCTTATTGATTGTCCTTGCAAGGTGCTGATCTTGTTGATTATTGG
128 GACTGCATATTGTTAAGTGTGCTTATTGA-T-TCCTTGCAAGGTGATGATCCTGTTGATTATTGG
*
70170736 CATTTCATGTGTTCTCTAA
191 CATTTCATGTCTTCTCTAA
* * * * *
70170755 ATGGAATTAAGATGCTGGCTTAAATTGTTTATTCATTAAAACCCACAGAATGTATGGTTCTGCAG
1 ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAGAATATATGTTTCTGAAG
70170820 TCTTA
66 TCTTA
70170825 CTGTCACATT
Statistics
Matches: 243, Mismatches: 23, Indels: 25
0.84 0.08 0.09
Matches are distributed among these distances:
202 1 0.00
203 64 0.26
204 2 0.01
205 7 0.03
206 4 0.02
207 52 0.21
208 48 0.20
210 52 0.21
211 9 0.04
212 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (209 bp):
ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAGAATATATGTTTCTGAAG
TCTTATTGATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCACGGAGTGAC
TGCATATTGTTAAGTGTGCTTATTGATTCCTTGCAAGGTGATGATCCTGTTGATTATTGGCATTT
CATGTCTTCTCTAA
Found at i:70171374 original size:20 final size:20
Alignment explanation
Indices: 70171349--70171396 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
70171339 CATTATTATT
70171349 ATTTTAATTACTTAAATATC
1 ATTTTAATTACTTAAATATC
*
70171369 ATTTTAATTACTTAAATATT
1 ATTTTAATTACTTAAATATC
70171389 ATTTTAAT
1 ATTTTAAT
70171397 ATTTTGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTAATTACTTAAATATC
Found at i:70175007 original size:15 final size:15
Alignment explanation
Indices: 70174987--70175025 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
70174977 CTTCATTCCT
*
70174987 TTTAGTCATGGTAAC
1 TTTAGTCATGATAAC
*
70175002 TTTAGTAATGATAAC
1 TTTAGTCATGATAAC
70175017 TTTAGTCAT
1 TTTAGTCAT
70175026 ACATGTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (15 bp):
TTTAGTCATGATAAC
Found at i:70175824 original size:16 final size:17
Alignment explanation
Indices: 70175803--70175842 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
70175793 ACAAGAGGAT
*
70175803 TAAGAATTTC-GGAAGG
1 TAAGAATTTCTGAAAGG
70175819 TAAGAA-TTCTGAAAGG
1 TAAGAATTTCTGAAAGG
70175835 TAAGAATT
1 TAAGAATT
70175843 ATAAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (17 bp):
TAAGAATTTCTGAAAGG
Found at i:70177684 original size:56 final size:57
Alignment explanation
Indices: 70177608--70177828 Score: 199
Period size: 56 Copynumber: 3.9 Consensus size: 57
70177598 AAAAAAATTG
* *
70177608 AAATTTTTTTGGTGCTGGCTTGCTACTGGCCGGCACCAAAATACGAGTTTTCAAAAA
1 AAATTTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAA
* * * * ***
70177665 AAATTTTTTT-GTGCTGGCTTGTTAATGGCCGGCATC--AGT---A-TTAAAAAAAA
1 AAATTTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAA
*
70177715 TTTGAAATTTTTTTGGTGCTGGCCTGCTATTGGCCGGCACCAAAATACGAGTTTTCAAAAA
1 ----AAATTTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAA
*** * *
70177776 AAAAAGTTTT-GTGCTAGCCTG-TCAATGGCCGGTACCAAAATACGAGTTTTCAA
1 AAATTTTTTTGGTGCTGGCCTGCT-AATGGCCGGCACCAAAATACGAGTTTTCAA
70177829 TTTTTTTTTA
Statistics
Matches: 131, Mismatches: 21, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
50 7 0.05
51 1 0.01
54 12 0.09
55 23 0.18
56 61 0.47
57 19 0.15
60 1 0.01
61 7 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (57 bp):
AAATTTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAA
Found at i:70177729 original size:111 final size:110
Alignment explanation
Indices: 70177593--70177807 Score: 349
Period size: 111 Copynumber: 1.9 Consensus size: 110
70177583 TTAAAAAAAT
*
70177593 TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCTTGCTACTGGCCGGCACCAAAATACGAGTTT
1 TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTTT
*** * * *
70177658 TCAAAAAAAATTTTTTTGTGCTGGCTTGTTAATGGCCGGCATCAG
66 TCAAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGGCATCAG
*
70177703 TATTAAAAAAAATTTGAAATTTTTTTGGTGCTGGCCTGCTATTGGCCGGCACCAAAATACGAGTT
1 TATTAAAAAAAA-TTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTT
70177768 TTCAAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGG
65 TTCAAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGG
70177808 TACCAAAATA
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
110 12 0.12
111 84 0.88
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (110 bp):
TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTTT
TCAAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGGCATCAG
Found at i:70177959 original size:110 final size:108
Alignment explanation
Indices: 70177826--70178068 Score: 366
Period size: 110 Copynumber: 2.2 Consensus size: 108
70177816 TACGAGTTTT
*
70177826 CAATTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCA-TTGATAGGCCAGCACCAAAAAAATTTC
1 CAATTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCAGTAG-TAGGCCAGCACCAAAAAAATTTC
** * *
70177890 AACTTTTTTTTTAATACTGGT-CCGGCCATTGACAGGCCAGCAC
65 AAAATTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCAC
*
70177933 CAAATTTTTTTTTTGAAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACTAAAAAAATT
1 C-AA-TTTTTTTTT-AAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACCAAAAAAATT
*
70177998 TCAAAATTTTTTTTAATACTGGTGATGGCCATTGACAAGCCAGCAC
63 TCAAAATTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCAC
70178044 CAA-TTTTTTTTAAAACTCGTATTTT
1 CAATTTTTTTTTAAAACTCGTATTTT
70178069 TTATATACCA
Statistics
Matches: 124, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
107 15 0.12
108 10 0.08
109 9 0.07
110 68 0.55
111 22 0.18
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (108 bp):
CAATTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACCAAAAAAATTTCA
AAATTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCAC
Found at i:70178738 original size:19 final size:20
Alignment explanation
Indices: 70178714--70178755 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
70178704 TAAACACAAG
70178714 AAAAGTAAATTATTTTC-AA
1 AAAAGTAAATTATTTTCTAA
70178733 AAAAGTAAATTATTTTCTAA
1 AAAAGTAAATTATTTTCTAA
70178753 AAA
1 AAA
70178756 TTATCTCCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAGTAAATTATTTTCTAA
Found at i:70179739 original size:23 final size:24
Alignment explanation
Indices: 70179699--70179744 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
70179689 TATACTAAAT
70179699 ATATATATATTTTTATTTTTAATC
1 ATATATATATTTTTATTTTTAATC
*
70179723 ATATTTATA-TTTTATTTTTAAT
1 ATATATATATTTTTATTTTTAAT
70179745 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATATATTTTTATTTTTAATC
Found at i:70195407 original size:40 final size:41
Alignment explanation
Indices: 70195352--70195448 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
70195342 CGACTATGCT
* *
70195352 TGGCACTAAGTGTGCG-GTTTAATATAACTTCGGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTGAA-ATAACTTCGGATACATAA
* * *
70195392 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGGATATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAACTTCGGATACATAA
70195433 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
70195449 TACCAACTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAACTTCGGATACATAA
Found at i:70198581 original size:13 final size:13
Alignment explanation
Indices: 70198563--70198593 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
70198553 CCAATCCAAC
70198563 CATACCATTTGGA
1 CATACCATTTGGA
70198576 CATACCATTTGGA
1 CATACCATTTGGA
70198589 CATAC
1 CATAC
70198594 ATTCAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (13 bp):
CATACCATTTGGA
Found at i:70199265 original size:76 final size:76
Alignment explanation
Indices: 70199139--70199281 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
70199129 ATCATTTACT
* * * *
70199139 ACACCGGTATCAAGCCTTCTAGGCATTAAGCTTAAATAACAATGGCACTAAGCTTGCTAGGCACT
1 ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAATGGCACTAAGCTTGCTAGGCACT
70199204 AAACCTGATTA
66 AAACCTGATTA
* * *
70199215 ACACCGGCATTAAGCCTACTAGGCACTAAGCCTGAATAA-AATCGGCACTAAGTTTGCTAGGCAC
1 ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAAT-GGCACTAAGCTTGCTAGGCAC
70199279 TAA
65 TAA
70199282 GCTTGAATCT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 3 0.05
76 56 0.95
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (76 bp):
ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAATGGCACTAAGCTTGCTAGGCACT
AAACCTGATTA
Found at i:70199282 original size:38 final size:38
Alignment explanation
Indices: 70199157--70199289 Score: 142
Period size: 38 Copynumber: 3.5 Consensus size: 38
70199147 ATCAAGCCTT
* * *
70199157 CTAGGCATTAAGCTTAAATAACAAT-GGCACTAAGCTTG
1 CTAGGCACTAAGCCTGAATAA-AATCGGCACTAAGCTTG
* * * * * * *
70199195 CTAGGCACTAAACCTGATTAACACCGGCATTAAGCCTA
1 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
*
70199233 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGTTTG
1 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
*
70199271 CTAGGCACTAAGCTTGAAT
1 CTAGGCACTAAGCCTGAAT
70199290 CTAAACCTGC
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
37 1 0.01
38 74 0.99
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (38 bp):
CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
Found at i:70199389 original size:22 final size:22
Alignment explanation
Indices: 70199302--70199387 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
70199292 AAACCTGCTA
70199302 AACACTAAGCCTGAATAACACC
1 AACACTAAGCCTGAATAACACC
**
70199324 GGCACTAAGCCTGAATAACACC
1 AACACTAAGCCTGAATAACACC
* * * *
70199346 TACACTAAACTTGAATAACATC
1 AACACTAAGCCTGAATAACACC
70199368 AACACTAAGCCTGAATAACA
1 AACACTAAGCCTGAATAACA
70199388 TCGCATTTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.17
Consensus pattern (22 bp):
AACACTAAGCCTGAATAACACC
Found at i:70200169 original size:16 final size:15
Alignment explanation
Indices: 70200145--70200174 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
70200135 AGATGATGAT
70200145 TTTTAGCTTATTTAA
1 TTTTAGCTTATTTAA
70200160 TTTTATGCTTATTTA
1 TTTTA-GCTTATTTA
70200175 CTATTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTTAGCTTATTTAA
Found at i:70207486 original size:22 final size:22
Alignment explanation
Indices: 70207461--70207506 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
70207451 CTAATTTCAA
*
70207461 ATTTAAATTTGTAT-TAACTATT
1 ATTT-AATTTATATCTAACTATT
*
70207483 ATTTATTTTATATCTAACTATT
1 ATTTAATTTATATCTAACTATT
70207505 AT
1 AT
70207507 ATTATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTAATTTATATCTAACTATT
Found at i:70210824 original size:15 final size:15
Alignment explanation
Indices: 70210804--70210833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
70210794 AAGTTACTTT
70210804 TTTTTATTCAGTTGA
1 TTTTTATTCAGTTGA
70210819 TTTTTATTCAGTTGA
1 TTTTTATTCAGTTGA
70210834 AGTGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTTATTCAGTTGA
Found at i:70222411 original size:18 final size:18
Alignment explanation
Indices: 70222388--70222441 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
70222378 AAAATATAAG
70222388 AGAAAAATAAACATAAAA
1 AGAAAAATAAACATAAAA
**
70222406 AGAAAAAGGAACATAAAA
1 AGAAAAATAAACATAAAA
* *
70222424 ATAAAAATAAAAATAAAA
1 AGAAAAATAAACATAAAA
70222442 CAAGTGGACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (18 bp):
AGAAAAATAAACATAAAA
Found at i:70222429 original size:5 final size:6
Alignment explanation
Indices: 70222390--70222441 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
70222380 AATATAAGAG
* * * * *
70222390 AAAAAT AAACAT AAAAAG AAAAAG GAACAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
70222438 AAAA
1 AAAA
70222442 CAAGTGGACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:70224593 original size:20 final size:20
Alignment explanation
Indices: 70224560--70224598 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
70224550 TTGTTGTTCA
*
70224560 TTTCTCCCACGCCCATGTGG
1 TTTCTCACACGCCCATGTGG
* *
70224580 TTTCTCACATGCCCGTGTG
1 TTTCTCACACGCCCATGTG
70224599 TCTGAACACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.36, G:0.21, T:0.33
Consensus pattern (20 bp):
TTTCTCACACGCCCATGTGG
Found at i:70242482 original size:24 final size:24
Alignment explanation
Indices: 70242454--70242502 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
70242444 CAAAATGAGT
70242454 TAGAAATCACTTTAAAATTGAATC
1 TAGAAATCACTTTAAAATTGAATC
70242478 TAGAAATCACTTTAAAATTGAATC
1 TAGAAATCACTTTAAAATTGAATC
70242502 T
1 T
70242503 TATCTAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (24 bp):
TAGAAATCACTTTAAAATTGAATC
Found at i:70243674 original size:30 final size:30
Alignment explanation
Indices: 70243636--70243704 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
70243626 CAAAATGTGG
*
70243636 TATC-CCAATTTAACATTGTATGCCTTATC
1 TATCTCCAATTTAACATTGTATACCTTATC
70243665 TATCTCCAATTTAACATTGTATACCTTATC
1 TATCTCCAATTTAACATTGTATACCTTATC
70243695 TATCT-CAATT
1 TATCTCCAATT
70243705 CGTTGTAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.43
Consensus pattern (30 bp):
TATCTCCAATTTAACATTGTATACCTTATC
Found at i:70249003 original size:21 final size:23
Alignment explanation
Indices: 70248977--70249019 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
70248967 AAGTAGCTAA
70248977 AAAAAT-ACTC-CAAAAGCAACT
1 AAAAATAACTCACAAAAGCAACT
*
70248998 AAAAATAAGTCACAAAAGCAAC
1 AAAAATAACTCACAAAAGCAAC
70249020 ATATAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (23 bp):
AAAAATAACTCACAAAAGCAACT
Found at i:70257318 original size:39 final size:39
Alignment explanation
Indices: 70257232--70257398 Score: 137
Period size: 39 Copynumber: 4.3 Consensus size: 39
70257222 ACTTGAAACC
* *
70257232 AATTACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTGCGGGACTTT-AGCCCGGATAT
* * *
70257271 AATACCAGCTCGAAGCCTGCGGGACTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
* * * *
70257310 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGATAT
* * * *
70257349 AATTCCAGCAC-ATAGCTTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACGA-AGCCTGCGGGA-CTTTAGCCCGGATAT
70257388 AATTCCAGCAC
1 AATTCCAGCAC
70257399 ATAGCCTACG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
38 15 0.14
39 93 0.86
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
AATTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAT
Done.