Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 35 of 325
Found at i:13118295 original size:12 final size:12
Alignment explanation
Indices: 13118250--13118305 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
13118240 TGTGTTAAAA
*
13118250 TATATATTAAAT
1 TATATATTATAT
13118262 TAT-TATTATATT
1 TATATATTATA-T
13118274 ATAGTATATTATAT
1 -TA-TATATTATAT
13118288 TATATATTATAT
1 TATATATTATAT
13118300 TATATA
1 TATATA
13118306 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:13119660 original size:7 final size:7
Alignment explanation
Indices: 13119624--13119648 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13119614 ATAGATATAT
13119624 ATATTGA
1 ATATTGA
13119631 ATATTGA
1 ATATTGA
13119638 ATATTGA
1 ATATTGA
13119645 ATAT
1 ATAT
13119649 ATATTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATATTGA
Found at i:13120015 original size:39 final size:40
Alignment explanation
Indices: 13119905--13120015 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
13119895 GACCTCGAGT
* * **
13119905 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
13119946 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
13119984 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
13120016 AACTATCCGA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.34
39 18 0.34
40 1 0.02
41 16 0.30
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:13121345 original size:23 final size:23
Alignment explanation
Indices: 13121319--13121394 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
13121309 ATAAGTGCCA
13121319 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13121342 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13121365 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13121388 CACTGAT
1 CACTGAT
13121395 CAATCACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:13121494 original size:8 final size:8
Alignment explanation
Indices: 13121481--13121509 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13121471 ACCCGGGACT
13121481 CACTGTAA
1 CACTGTAA
13121489 CACTGTAA
1 CACTGTAA
13121497 CACTGTAA
1 CACTGTAA
13121505 CACTG
1 CACTG
13121510 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:13122752 original size:18 final size:19
Alignment explanation
Indices: 13122731--13122771 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13122721 AATGAAATGA
13122731 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
13122749 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
13122768 GAAA
1 GAAA
13122772 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:13124081 original size:15 final size:15
Alignment explanation
Indices: 13124061--13124105 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13124051 TAATATATAT
13124061 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
13124076 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
*
13124091 TTCAATCTATATAAA
1 TTCAATCAATATAAA
13124106 ATTGATAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:13125336 original size:20 final size:21
Alignment explanation
Indices: 13125307--13125362 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
13125297 ACTTTTCTCC
13125307 CTTTCTTTCTTTCTTTCCTTT-
1 CTTTC-TTCTTTCTTTCCTTTG
* *
13125328 CTTTCTTCTCTCTTTCGTTTG
1 CTTTCTTCTTTCTTTCCTTTG
*
13125349 CTTTGTT-TTTCTTT
1 CTTTCTTCTTTCTTT
13125363 TTCATTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (21 bp):
CTTTCTTCTTTCTTTCCTTTG
Found at i:13125341 original size:24 final size:24
Alignment explanation
Indices: 13125308--13125360 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13125298 CTTTTCTCCC
*
13125308 TTTCTTTCTTTC-TTTCCTTTCTT
1 TTTCTCTCTTTCGTTTCCTTTCTT
* *
13125331 TCTTCTCTCTTTCGTTTGCTTTGTT
1 T-TTCTCTCTTTCGTTTCCTTTCTT
13125356 TTTCT
1 TTTCT
13125361 TTTTCATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 14 0.56
25 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTCTCTCTTTCGTTTCCTTTCTT
Found at i:13125392 original size:17 final size:17
Alignment explanation
Indices: 13125372--13125408 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13125362 TTTCATTTCT
13125372 TTTATTTCATTTATTTA
1 TTTATTTCATTTATTTA
* *
13125389 TTTATTTTATTTCTTTA
1 TTTATTTCATTTATTTA
13125406 TTT
1 TTT
13125409 TATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTCATTTATTTA
Found at i:13125405 original size:13 final size:13
Alignment explanation
Indices: 13125372--13125412 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13125362 TTTCATTTCT
13125372 TTTATTTCA-TTTA
1 TTTATTT-ATTTTA
13125385 TTTATTTATTTTA
1 TTTATTTATTTTA
*
13125398 TTTCTTTATTTTA
1 TTTATTTATTTTA
13125411 TT
1 TT
13125413 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 1 0.04
13 25 0.96
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:13125437 original size:23 final size:23
Alignment explanation
Indices: 13125407--13125459 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
13125397 ATTTCTTTAT
13125407 TTTATTA-TTAAACTAT-TATAATA
1 TTTATTATTTAAAC-ATGTAT-ATA
*
13125430 TTTATTATTTATACATGTATATA
1 TTTATTATTTAAACATGTATATA
13125453 TTTATTA
1 TTTATTA
13125460 ATACACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATTATTTAAACATGTATATA
Found at i:13130159 original size:7 final size:7
Alignment explanation
Indices: 13130147--13130171 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13130137 CTTATATTTA
13130147 TATTTTT
1 TATTTTT
13130154 TATTTTT
1 TATTTTT
13130161 TATTTTT
1 TATTTTT
13130168 TATT
1 TATT
13130172 ACACCCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:13133003 original size:8 final size:8
Alignment explanation
Indices: 13132985--13133026 Score: 75
Period size: 8 Copynumber: 5.1 Consensus size: 8
13132975 TTAATTTGAA
13132985 TGAGAAATT
1 TGAG-AATT
13132994 TGAGAATT
1 TGAGAATT
13133002 TGAGAATT
1 TGAGAATT
13133010 TGAGAATT
1 TGAGAATT
13133018 TGAGAATT
1 TGAGAATT
13133026 T
1 T
13133027 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 29 0.88
9 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
TGAGAATT
Found at i:13133512 original size:16 final size:17
Alignment explanation
Indices: 13133491--13133524 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13133481 TTATTTTGAG
*
13133491 ATATTT-ATATATTTTT
1 ATATTTGATAAATTTTT
13133507 ATATTTGATAAATTTTT
1 ATATTTGATAAATTTTT
13133524 A
1 A
13133525 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATATTTGATAAATTTTT
Found at i:13135395 original size:19 final size:19
Alignment explanation
Indices: 13135367--13135419 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
13135357 ATAGGAAGGG
13135367 ATAT-ATTTTAAAATT-AT
1 ATATAATTTTAAAATTAAT
*
13135384 ATATAAATTTT-AATTTAAT
1 ATAT-AATTTTAAAATTAAT
13135403 ATATAA-TTTAAAATTAA
1 ATATAATTTTAAAATTAA
13135420 ATCAATTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATAATTTTAAAATTAAT
Found at i:13141733 original size:2 final size:2
Alignment explanation
Indices: 13141726--13141756 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13141716 TTAGTCGGTT
13141726 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13141757 TTAAACCCTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13160540 original size:5 final size:5
Alignment explanation
Indices: 13160530--13160567 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
13160520 CATAATTTCC
*
13160530 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT- TTTTA TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
13160568 TGCTGTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:13167267 original size:21 final size:22
Alignment explanation
Indices: 13167225--13167268 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13167215 ATAATAATTT
*
13167225 TATTTATATTTTAAATTGTAAA
1 TATTTATATTTTAAAGTGTAAA
13167247 TATTTA-ATTTTTAAAGT-TAAA
1 TATTTATA-TTTTAAAGTGTAAA
13167268 T
1 T
13167269 TTATGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTATATTTTAAAGTGTAAA
Found at i:13183670 original size:21 final size:21
Alignment explanation
Indices: 13183644--13183684 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13183634 ATCTGCTCAA
* *
13183644 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
13183665 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
13183685 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:13189498 original size:21 final size:22
Alignment explanation
Indices: 13189455--13189496 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13189445 CCACATGGCA
*
13189455 ATTAGATTTAAATTAAAAAAAT
1 ATTACATTTAAATTAAAAAAAT
13189477 ATTACATTTAAATTAAAAAA
1 ATTACATTTAAATTAAAAAA
13189497 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTACATTTAAATTAAAAAAAT
Found at i:13191082 original size:19 final size:20
Alignment explanation
Indices: 13191042--13191083 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13191032 AATTATATTT
*
13191042 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATAAA
*
13191062 ATTTAAATTAAAAA-ATAAA
1 ATTTAAAATAAAAATATAAA
13191081 ATT
1 ATT
13191084 ACAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTAAAATAAAAATATAAA
Found at i:13191090 original size:32 final size:36
Alignment explanation
Indices: 13191045--13191114 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 36
13191035 TATATTTATT
13191045 TAAAATAAAAATATT-AA-ATTT-AA-ATTAAAAAA
1 TAAAATAAAAATATTAAATATTTAAATATTAAAAAA
* *
13191077 TAAAATTACAATATTAAATATTTAAATATTAAAAAA
1 TAAAATAAAAATATTAAATATTTAAATATTAAAAAA
13191113 TA
1 TA
13191115 TTGTTTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.41
33 2 0.06
34 4 0.12
35 2 0.06
36 11 0.34
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (36 bp):
TAAAATAAAAATATTAAATATTTAAATATTAAAAAA
Found at i:13191096 original size:7 final size:7
Alignment explanation
Indices: 13191053--13191109 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
13191043 TTTAAAATAA
13191053 AAATATT
1 AAATATT
13191060 AAAT-TT
1 AAATATT
13191066 -AA-ATT
1 AAATATT
* *
13191071 AAAAAAT
1 AAATATT
13191078 AAA-ATT
1 AAATATT
13191084 ACAATATT
1 A-AATATT
13191092 AAATATTT
1 AAATA-TT
13191100 AAATATT
1 AAATATT
13191107 AAA
1 AAA
13191110 AAATATTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 4 0.10
6 7 0.17
7 20 0.48
8 11 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATATT
Found at i:13191157 original size:21 final size:20
Alignment explanation
Indices: 13191133--13191177 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13191123 TTTGATCGGC
*
13191133 CATTAATCGACGTTGACCAA
1 CATTAATCGACATTGACCAA
* *
13191153 TCATTAATTGGCATTGACCAA
1 -CATTAATCGACATTGACCAA
13191174 CATT
1 CATT
13191178 GACTGTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
CATTAATCGACATTGACCAA
Found at i:13194733 original size:28 final size:29
Alignment explanation
Indices: 13194693--13194761 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
13194683 TCTTTACATT
*
13194693 TTTTATACTTTTCTTACG-CCTTTATAAAA
1 TTTTATA-ATTTCTTACGACCTTTATAAAA
**
13194722 TTTTATAATTTCTTACGATTTTTATAAAA
1 TTTTATAATTTCTTACGACCTTTATAAAA
*
13194751 TTTTACAATTT
1 TTTTATAATTT
13194762 TTATAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.26
29 26 0.74
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (29 bp):
TTTTATAATTTCTTACGACCTTTATAAAA
Found at i:13194746 original size:19 final size:18
Alignment explanation
Indices: 13194722--13194774 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
13194712 CTTTATAAAA
* *
13194722 TTTTATAATTTCTTACGAT
1 TTTTATAAATT-TTACAAT
13194741 TTTTATAAAATTTTACAAT
1 TTTTAT-AAATTTTACAAT
13194760 TTTTATAAAATTTTA
1 TTTTAT-AAATTTTA
13194775 TGATTTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 27 0.87
20 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATAAATTTTACAAT
Found at i:13194773 original size:29 final size:29
Alignment explanation
Indices: 13194713--13194775 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
13194703 TTCTTACGCC
* ** *
13194713 TTTATAAAATTTTATAATTTCTTACGATT
1 TTTATAAAATTTTACAATTTCTTAAAAAT
13194742 TTTATAAAATTTTACAATTT-TTATAAAAT
1 TTTATAAAATTTTACAATTTCTTA-AAAAT
13194771 TTTAT
1 TTTAT
13194776 GATTTTTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTCTTAAAAAT
Found at i:13194780 original size:19 final size:19
Alignment explanation
Indices: 13194734--13194782 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
13194724 TTATAATTTC
13194734 TTACGATTTTTATAAAATT
1 TTACGATTTTTATAAAATT
*
13194753 TTACAATTTTTATAAAATT
1 TTACGATTTTTATAAAATT
*
13194772 TTATGATTTTT
1 TTACGATTTTT
13194783 GTATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TTACGATTTTTATAAAATT
Found at i:13194797 original size:29 final size:28
Alignment explanation
Indices: 13194751--13194845 Score: 90
Period size: 29 Copynumber: 3.5 Consensus size: 28
13194741 TTTTATAAAA
* *
13194751 TTTTACAATTTTTA-TAAAATTTTATGAT
1 TTTTATAATTTTTATTAAAATTTAAT-AT
*
13194779 TTTTGT-ATTTTTAATTAAAATTTAATAT
1 TTTTATAATTTTT-ATTAAAATTTAATAT
* *
13194807 TTTTATAATTTTTATT-AATTTTTAT-T
1 TTTTATAATTTTTATTAAAATTTAATAT
*
13194833 TTTTATTATTTTT
1 TTTTATAATTTTT
13194846 GCCACATGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 13 0.23
27 13 0.23
28 15 0.26
29 16 0.28
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTATAATTTTTATTAAAATTTAATAT
Found at i:13194802 original size:28 final size:29
Alignment explanation
Indices: 13194777--13194845 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 29
13194767 AAATTTTATG
*
13194777 ATTTTTGT-ATTTTTAATTAAAA-TTTAAT
1 ATTTTTATAATTTTT-ATTAAAATTTTAAT
*
13194805 ATTTTTATAATTTTTATT--AATTTTTAT
1 ATTTTTATAATTTTTATTAAAATTTTAAT
*
13194832 -TTTTTATTATTTTT
1 ATTTTTATAATTTTT
13194846 GCCACATGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 15 0.42
27 5 0.14
28 10 0.28
29 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (29 bp):
ATTTTTATAATTTTTATTAAAATTTTAAT
Found at i:13194827 original size:19 final size:18
Alignment explanation
Indices: 13194799--13194845 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
13194789 TTAATTAAAA
*
13194799 TTTAATATTTTTATAATT
1 TTTATTATTTTTATAATT
13194817 TTTATTAATTTTTAT--TT
1 TTTATT-ATTTTTATAATT
13194834 TTTATTATTTTT
1 TTTATTATTTTT
13194846 GCCACATGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 5 0.19
19 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATTTTTATAATT
Found at i:13197598 original size:53 final size:53
Alignment explanation
Indices: 13197517--13197667 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
13197507 CTTACACGGT
* *
13197517 TCACATATCATACTGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACTGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
13197572 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
13197625 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGG
13197668 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:13205012 original size:53 final size:53
Alignment explanation
Indices: 13204931--13205076 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
13204921 CTTACACGGT
* *
13204931 TCACATATCATACTGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACTGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
13204986 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
13205039 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTA
13205077 AACGAGCGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (53 bp):
TCACATTATACTGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:13208498 original size:3 final size:3
Alignment explanation
Indices: 13208484--13208534 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
13208474 GACAATAAAG
*
13208484 AAT AAT AGT AAT AAT AAT -AT AGAT AAT AAT -AT ATAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT
13208528 AAT AAT A
1 AAT AAT A
13208535 GTTAGAGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 29 0.71
4 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13208745 original size:3 final size:3
Alignment explanation
Indices: 13208737--13208848 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
13208727 TATAAATATG
* * * *
13208737 ATA ATA ATA ATA ATG ATA ATG ATA ATA ATA ATA AT- ATA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
13208784 ATA AAA ATA A-A ATTA ATA GTA A-A TTG ATA ATA ATA AT- GTA CATTA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA
*
13208829 ATA ACA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA -ATA A
13208849 AGGATAGGAA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 6 0.07
3 69 0.83
4 6 0.07
5 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13208785 original size:29 final size:28
Alignment explanation
Indices: 13208737--13208820 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 28
13208727 TATAAATATG
* *
13208737 ATAATAA-TAATAATGATAATGATAATA
1 ATAATAATTAATAGTAATAATGATAATA
*
13208764 ATAATAATATAGTAGTAATAAT-A-AA-A
1 ATAATAAT-TAATAGTAATAATGATAATA
*
13208790 ATAA-AATTAATAGTAA-ATTGATAATA
1 ATAATAATTAATAGTAATAATGATAATA
13208816 ATAAT
1 ATAAT
13208821 GTACATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 2 0.04
24 9 0.20
25 5 0.11
26 10 0.22
27 9 0.20
28 1 0.02
29 10 0.22
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
ATAATAATTAATAGTAATAATGATAATA
Found at i:13209158 original size:35 final size:32
Alignment explanation
Indices: 13209116--13209209 Score: 82
Period size: 35 Copynumber: 2.8 Consensus size: 32
13209106 TATGCATAAC
*
13209116 AATAAAAATACAATATTAAAATATATATATGAGT
1 AATAAAAATACAATATTAAAATATATATA-CA-T
**
13209150 AATAAAAAATGTATCCGTATTAAAA-ATATATACAT
1 AAT-AAAAA--TA-CAATATTAAAATATATATACAT
*
13209185 AATAAAAATATAATATTTAAAATAT
1 AATAAAAATACAATA-TTAAAATAT
13209210 TTACACAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.04
32 8 0.17
33 2 0.04
34 8 0.17
35 9 0.19
36 1 0.02
37 9 0.19
38 9 0.19
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (32 bp):
AATAAAAATACAATATTAAAATATATATACAT
Found at i:13209357 original size:23 final size:23
Alignment explanation
Indices: 13209321--13209365 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13209311 GTACATAACA
13209321 TAAATATCATACATATA-ATATC
1 TAAATATCATACATATATATATC
13209343 TAAATATACATACATATATATAT
1 TAAATAT-CATACATATATATAT
13209366 AGTACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 10 0.48
24 4 0.19
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATCATACATATATATATC
Found at i:13209519 original size:9 final size:9
Alignment explanation
Indices: 13209498--13209532 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
13209488 AAAACTATTA
13209498 ATAATACTAT
1 ATAATA-TAT
13209508 ATAATATAT
1 ATAATATAT
13209517 ATAATATAT
1 ATAATATAT
13209526 AT-ATATA
1 ATAATATA
13209533 AGTATGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.20
9 14 0.56
10 6 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAATATAT
Found at i:13210834 original size:44 final size:44
Alignment explanation
Indices: 13210771--13211365 Score: 383
Period size: 44 Copynumber: 13.6 Consensus size: 44
13210761 AATTTTCAGC
*
13210771 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * * * *
13210815 CTGTTTCCCTACTGCTTAGGGG-TTAAGAT-C-TTGTAAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCG--ACTTCGA-T
* * *
13210858 CTGTTACCCTACTGCTTAGGGTTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * * * * *
13210902 CTGTTTCCCTACTGCTTAAGGGG-TGAAGAT-C-TTGTAAATTC-AGC
1 CTGTTACCCTACTGCTT-AGGGGTTTAAGGTCCATCG--ACTTCGA-T
*
13210946 CTGTTACCCTACTGCTTAGGGTTTTAAGG-CCTATC-ACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCC-ATCGA-CTTCGAT
* * ** ** * * * * *
13210990 CTGTTTCCCTACTGCTTAGGGGGTTAATATCTGT-AAATCCAAC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* **
13211033 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCTCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * * ** * * ** *
13211077 CTGTTTA-TCTACTGCTTAGGGGGTTAAGATCTGT-AAATTTAAC
1 CTG-TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * *
13211120 CTGTTACCTTACTGCTTAAGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * * ** * * * *
13211164 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
*
13211207 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * * ** * * * *
13211251 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * *
13211294 CTGTTACCCTACTGCCTAGGGGTTTAAGGTCCATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
* * *
13211338 CTGTTTCACTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
13211366 ATCTGTAAAT
Statistics
Matches: 399, Mismatches: 127, Indels: 50
0.69 0.22 0.09
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 157 0.39
44 219 0.55
45 11 0.03
46 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGACTTCGAT
Found at i:13210911 original size:87 final size:87
Alignment explanation
Indices: 13210765--13211409 Score: 1024
Period size: 87 Copynumber: 7.4 Consensus size: 87
13210755 ATCTATAATT
*
13210765 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
13210830 TTA-GGGGTTAAGATCTTGTAAA
66 TTAGGGGGTTAAGATC-TGTAAA
* * *
13210852 TTCAGCCTGTTACCCTACTGCTTAGGGTTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
* *
13210917 TTAAGGGGTGAAGATCTTGTAAA
66 TTAGGGGGTTAAGATC-TGTAAA
* * *
13210940 TTCAGCCTGTTACCCTACTGCTTAGGGTTTTAAGG-CCTATCACCTTCGATCTGTTTCCCTACTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCC-ATCGCCTTCGATCTGTTTCCCTACTG
*
13211004 CTTAGGGGGTTAATATCTGTAAA
65 CTTAGGGGGTTAAGATCTGTAAA
* * * **
13211027 TCCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCTCCTTCGATCTGTTTATCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
13211092 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * *
13211114 TTTAACCTGTTACCTTACTGCTTAAGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
13211179 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
13211201 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
13211266 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * * *
13211288 TTCAACCTGTTACCCTACTGCCTAGGGGTTTAAGGTCCATCGTCTTTGATCTGTTTCACTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
13211353 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * *
13211375 TTCAGCCCGTTACCCTACTCCTTAGGGGTTTAAGG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
13211410 CTTGTGAATT
Statistics
Matches: 521, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
87 428 0.82
88 93 0.18
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (87 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAA
Found at i:13217045 original size:39 final size:39
Alignment explanation
Indices: 13216974--13217113 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 39
13216964 ATCGTGATTT
* * * *
13216974 GAAGCTCGAAGTCTAATTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* * *
13217013 GAAGACTGAAGGCTAACTGAAGCACATAAGTGCTAGACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* **
13217052 GGAGCCCGAACACTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
13217091 GAAGCCCGAAGGCAAACTAAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
13217114 TCACCAGAGC
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:13219916 original size:25 final size:25
Alignment explanation
Indices: 13219863--13219916 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
13219853 AAAATTTATA
* *
13219863 TGATAGGAAAATCTTATGAAAATAT
1 TGATAGGAAAATCTTATCAAAATAG
* **
13219888 TGATAGGAAAATTTTATCAATTTAG
1 TGATAGGAAAATCTTATCAAAATAG
13219913 TGAT
1 TGAT
13219917 TAGTTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
TGATAGGAAAATCTTATCAAAATAG
Found at i:13227867 original size:50 final size:50
Alignment explanation
Indices: 13227792--13227989 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
13227782 GATAATAACA
* *
13227792 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
13227842 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
13227892 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
13227947 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
13227990 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
50 86 0.66
53 2 0.02
54 1 0.01
55 2 0.02
56 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:13227978 original size:106 final size:100
Alignment explanation
Indices: 13227799--13227989 Score: 292
Period size: 106 Copynumber: 1.9 Consensus size: 100
13227789 ACATGCCAAA
* *
13227799 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
13227864 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
66 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
13227899 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATGCCATGTCC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-AGG-TGCCAACGCCATGTCC
*
13227964 CAGACATGGTCTTACATGGGATCTCT
60 CAGACATGGTCTTACATGGGACCTCT
13227990 TTACCCAAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
100 35 0.43
103 3 0.04
104 1 0.01
105 2 0.02
106 40 0.49
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:13228105 original size:13 final size:13
Alignment explanation
Indices: 13228084--13228115 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13228074 GCTTGGATCA
*
13228084 TCATCAAATAAAT
1 TCATAAAATAAAT
13228097 TCATAAAATAAAT
1 TCATAAAATAAAT
13228110 TCATAA
1 TCATAA
13228116 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:13228362 original size:30 final size:30
Alignment explanation
Indices: 13228326--13228383 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13228316 CCTCGACTCT
*
13228326 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
13228356 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
13228384 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:13234049 original size:5 final size:5
Alignment explanation
Indices: 13234039--13234066 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13234029 TGCACTACCT
13234039 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
13234067 TTTATTTATC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:13238986 original size:24 final size:24
Alignment explanation
Indices: 13238932--13238986 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
13238922 TTAATCTTTA
13238932 TACTATTAAAAAAATTAAACAAAGT
1 TACTATTAAAAAAATTAAAC-AAGT
* *
13238957 TA-TATTAAAATAAATTTAAC-ATT
1 TACTATTAAAA-AAATTAAACAAGT
13238980 TACTATT
1 TACTATT
13238987 TTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 12 0.46
25 10 0.38
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (24 bp):
TACTATTAAAAAAATTAAACAAGT
Found at i:13246621 original size:18 final size:17
Alignment explanation
Indices: 13246594--13246627 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13246584 ATTTTTCAAG
13246594 TTTTAAAATTTTGAATT
1 TTTTAAAATTTTGAATT
13246611 TTTTGAAAATTTTGAAT
1 TTTT-AAAATTTTGAAT
13246628 ATGGACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTAAAATTTTGAATT
Found at i:13250978 original size:17 final size:18
Alignment explanation
Indices: 13250948--13250990 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
13250938 GTGAGATTAT
* *
13250948 AAAATATAACAATAATTA
1 AAAAAATAACAATAATAA
*
13250966 AAAGAATAA-AATAATAA
1 AAAAAATAACAATAATAA
13250983 AAAAAATA
1 AAAAAATA
13250991 TAAAAAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAATAACAATAATAA
Found at i:13258247 original size:22 final size:21
Alignment explanation
Indices: 13258222--13258280 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
13258212 ACATAATAGT
13258222 AAAATAACGAGAAAATAGAAAG
1 AAAATAAC-AGAAAATAGAAAG
* * *
13258244 AAAACAACAGCAAAATAGTAGG
1 AAAATAACAG-AAAATAGAAAG
13258266 AAAATAACAAGAAAA
1 AAAATAAC-AGAAAA
13258281 CAACTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.68, C:0.08, G:0.15, T:0.08
Consensus pattern (21 bp):
AAAATAACAGAAAATAGAAAG
Found at i:13262980 original size:30 final size:30
Alignment explanation
Indices: 13262934--13263057 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
13262924 TTTTATTATG
*
13262934 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13262965 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13262995 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
13263025 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13263055 CCA
1 CCA
13263058 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13262989 original size:15 final size:15
Alignment explanation
Indices: 13262944--13263051 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
13262934 CCAATATCTC
13262944 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13262959 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13262974 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13262989 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13263004 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
13263019 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
13263034 GATACCCATATCTTT
1 GATACCCATATCTTT
13263049 GAT
1 GAT
13263052 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13267671 original size:30 final size:30
Alignment explanation
Indices: 13267627--13267747 Score: 174
Period size: 30 Copynumber: 4.0 Consensus size: 30
13267617 TTTATTATGC
*
13267627 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATAT-TTGATACCCATATCTTTGACTTTT
*
13267658 CAATATTTGATACCCATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTT
*
13267688 CAATATTTGATACACATATCTTTGAC-TTT
1 CAATATTTGATACCCATATCTTTGACTTTT
*
13267717 CTATTATTTGATACCCATATCTTTGA-TTTT
1 C-AATATTTGATACCCATATCTTTGACTTTT
13267747 C
1 C
13267748 CATAAATATG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
29 3 0.04
30 73 0.89
31 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTT
Found at i:13267681 original size:15 final size:15
Alignment explanation
Indices: 13267636--13267743 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
13267626 CCAATATCTC
13267636 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
13267651 GACTTTTCA-ATATTT
1 GA-TACCCATATCTTT
13267666 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13267681 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
*
13267696 GATACACATATCTTT
1 GATACCCATATCTTT
** * *
13267711 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
13267726 GATACCCATATCTTT
1 GATACCCATATCTTT
13267741 GAT
1 GAT
13267744 TTTCCATAAA
Statistics
Matches: 63, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
14 10 0.16
15 43 0.68
16 10 0.16
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13272173 original size:32 final size:32
Alignment explanation
Indices: 13272134--13272201 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
13272124 TCTGAAAAGT
13272134 AAAACAAAAATGAAAAGACATAAAATAAAATA
1 AAAACAAAAATGAAAAGACATAAAATAAAATA
13272166 AAAACAAAAATGAAAAGACATAAAATAAAATA
1 AAAACAAAAATGAAAAGACATAAAATAAAATA
13272198 AAAA
1 AAAA
13272202 AAGGAGGCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (32 bp):
AAAACAAAAATGAAAAGACATAAAATAAAATA
Found at i:13280056 original size:11 final size:11
Alignment explanation
Indices: 13280040--13280087 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
13280030 CTAAATAAAA
13280040 TAATAAAATAT
1 TAATAAAATAT
13280051 TAAT-AAATAT
1 TAATAAAATAT
* *
13280061 CTTATTAAATAT
1 -TAATAAAATAT
*
13280073 TAATAAAATAA
1 TAATAAAATAT
13280084 TAAT
1 TAAT
13280088 TTTCTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 6 0.19
11 19 0.61
12 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:13280071 original size:30 final size:30
Alignment explanation
Indices: 13280037--13280112 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
13280027 ATACTAAATA
* *
13280037 AAATAATAA-AATATTAATAAATATCTTATT
1 AAATAATAATAA-AATAATAAATATCTAATT
* * *
13280067 AAATATTAATAAAATAATAATTTTCTAATT
1 AAATAATAATAAAATAATAAATATCTAATT
*
13280097 AAATAATTATAAAATA
1 AAATAATAATAAAATA
13280113 TCATCAACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATAATAATAAAATAATAAATATCTAATT
Found at i:13281054 original size:15 final size:15
Alignment explanation
Indices: 13281034--13281101 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 15
13281024 ATACTATAAA
13281034 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
13281049 ATATTTATAACTGTAAT
1 ATATTTATTA-T-TAAT
* *
13281066 AAACATTTATTATTAAA
1 --ATATTTATTATTAAT
*
13281083 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
13281096 ATATTT
1 ATATTT
13281102 TCAATAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 11 0.26
16 1 0.02
17 7 0.17
18 1 0.02
19 8 0.19
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:13281055 original size:31 final size:34
Alignment explanation
Indices: 13281020--13281087 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
13281010 ATATTTTAAC
* *
13281020 ATTTAT-ACTAT-A-AAATATTTATTATTAATAT
1 ATTTATAACTATAATAAACATTTATTATTAAAAT
*
13281051 ATTTATAACTGTAATAAACATTTATTATTAAAAT
1 ATTTATAACTATAATAAACATTTATTATTAAAAT
13281085 ATT
1 ATT
13281088 AATATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.19
32 4 0.13
33 1 0.03
34 20 0.65
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (34 bp):
ATTTATAACTATAATAAACATTTATTATTAAAAT
Found at i:13281401 original size:42 final size:43
Alignment explanation
Indices: 13281355--13281442 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 43
13281345 ATTTTAAATA
** * * *
13281355 AAAAATAATTTATTTTATTTTTACCTATAAGTTA-TTTATAAG
1 AAAAATAATTTATTTTACATTAACCTATAAATTATTTTACAAG
13281397 AAAAATAATTTATTTTACATTAACCTATAAATTATTTTACAAG
1 AAAAATAATTTATTTTACATTAACCTATAAATTATTTTACAAG
13281440 AAA
1 AAA
13281443 TAAACACTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (43 bp):
AAAAATAATTTATTTTACATTAACCTATAAATTATTTTACAAG
Found at i:13286734 original size:24 final size:24
Alignment explanation
Indices: 13286692--13286738 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13286682 ATATAAGATA
* *
13286692 AAATTAATTTATTTAATAATAGAG
1 AAATTAATTTAATCAATAATAGAG
*
13286716 AAATTAATTTAATCCATAATAGA
1 AAATTAATTTAATCAATAATAGA
13286739 ATCATCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATTAATTTAATCAATAATAGAG
Found at i:13286834 original size:24 final size:24
Alignment explanation
Indices: 13286796--13286850 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
13286786 TTTAGAATCC
* * *
13286796 AATAAAAAAACATTA-TTTTTAGA
1 AATAAAAAAAAATTACCTTTAAGA
13286819 AATAAAAATAAAATTACCTTTAAGA
1 AATAAAAA-AAAATTACCTTTAAGA
13286844 AATAAAA
1 AATAAAA
13286851 TATCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 6 0.22
25 13 0.48
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (24 bp):
AATAAAAAAAAATTACCTTTAAGA
Found at i:13289321 original size:24 final size:24
Alignment explanation
Indices: 13289270--13289322 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
13289260 AACTTTTTTT
*
13289270 TAAAAATATTTATCTATCATTTAA
1 TAAAAATATTTATCTATCATATAA
13289294 -AAAAA-ATGTTAT-TATCATATAA
1 TAAAAATAT-TTATCTATCATATAA
13289316 CTAAAAA
1 -TAAAAA
13289323 GGGTATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAATATTTATCTATCATATAA
Found at i:13312982 original size:46 final size:46
Alignment explanation
Indices: 13312929--13313023 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
13312919 AAATCCATTT
13312929 ACTTTTACCCAAATCATGATTTCGAAACAGGCTATAACATAAATCA
1 ACTTTTACCCAAATCATGATTTCGAAACAGGCTATAACATAAATCA
*
13312975 ACTTTTACCCAAATCATGATTTCTAAACAGGCTATAACATAAATCA
1 ACTTTTACCCAAATCATGATTTCGAAACAGGCTATAACATAAATCA
13313021 ACT
1 ACT
13313024 GTGAAATCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (46 bp):
ACTTTTACCCAAATCATGATTTCGAAACAGGCTATAACATAAATCA
Found at i:13330263 original size:27 final size:29
Alignment explanation
Indices: 13330226--13330279 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
13330216 TGAATGCAAT
*
13330226 TAAAATAGTATATTTTTATA-TTAAAATA
1 TAAAATAGTATATTTTTAAAGTTAAAATA
*
13330254 TAAAA-AGTATTTTTTTAAAGTTAAAA
1 TAAAATAGTATATTTTTAAAGTTAAAA
13330280 GTAAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (29 bp):
TAAAATAGTATATTTTTAAAGTTAAAATA
Found at i:13333322 original size:27 final size:27
Alignment explanation
Indices: 13333284--13333336 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13333274 ACCAAACCGC
*
13333284 TAAACTTAGAACCTCAAATTACCCAAT
1 TAAACTTAGAACATCAAATTACCCAAT
13333311 TAAACTTAGAACATCAAATTACCCAA
1 TAAACTTAGAACATCAAATTACCCAA
13333337 ATTTTCAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAACTTAGAACATCAAATTACCCAAT
Found at i:13334703 original size:52 final size:52
Alignment explanation
Indices: 13334641--13334749 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
13334631 CAAAAATTAC
13334641 TTAATAGTCATTAATATTATTGAATAGTTACATTGAAGTTAATGGATGAACA
1 TTAATAGTCATTAATATTATTGAATAGTTACATTGAAGTTAATGGATGAACA
13334693 TTAATAGTCATTAATATTATTGAATAGTTACATTGAAGTTAATGGATGAACA
1 TTAATAGTCATTAATATTATTGAATAGTTACATTGAAGTTAATGGATGAACA
13334745 TTAAT
1 TTAAT
13334750 TCAAACCGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (52 bp):
TTAATAGTCATTAATATTATTGAATAGTTACATTGAAGTTAATGGATGAACA
Found at i:13337999 original size:46 final size:45
Alignment explanation
Indices: 13337947--13338226 Score: 290
Period size: 46 Copynumber: 6.6 Consensus size: 45
13337937 TTTGAGTACT
13337947 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
13337993 TCTGATCAAGAAACAAAGTGATAAGT-G--G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
**
13338030 TCTGATCAAGAAACAAAGTGATAA---GT-G----GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
* *
13338067 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
* *
13338113 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
** * **
13338159 TCTGATCAAGTGGTAAAGTGATAAGAGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
13338204 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
13338227 AGGTCATATG
Statistics
Matches: 210, Mismatches: 12, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 61 0.29
40 3 0.01
41 1 0.00
43 11 0.05
44 1 0.00
45 22 0.10
46 109 0.52
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:13338026 original size:37 final size:37
Alignment explanation
Indices: 13337985--13338095 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
13337975 TAGTTTTAGC
13337985 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
13338022 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
13338059 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
13338096 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:13339554 original size:44 final size:45
Alignment explanation
Indices: 13339504--13339592 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
13339494 GTTACATTAT
*
13339504 TCCTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
*
13339548 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
13339593 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (45 bp):
TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
Found at i:13346935 original size:46 final size:44
Alignment explanation
Indices: 13346831--13346938 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13346821 TGTCTTTGAC
** * * *
13346831 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13346875 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13346921 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13346939 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13353622 original size:34 final size:34
Alignment explanation
Indices: 13353579--13353647 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
13353569 GGTGTAGAAG
*
13353579 TTAGCATTTGACCCATGTTTTCACTGTTATGGTC
1 TTAGCATTTGACCCATGTTTTCACTCTTATGGTC
13353613 TTAGCATTTGACCCATGTTTTCACTCTTATGGTC
1 TTAGCATTTGACCCATGTTTTCACTCTTATGGTC
13353647 T
1 T
13353648 AGAATAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (34 bp):
TTAGCATTTGACCCATGTTTTCACTCTTATGGTC
Found at i:13359985 original size:13 final size:13
Alignment explanation
Indices: 13359967--13359993 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13359957 AGATTTATAC
13359967 ACCAACATTTTGA
1 ACCAACATTTTGA
13359980 ACCAACATTTTGA
1 ACCAACATTTTGA
13359993 A
1 A
13359994 GAAAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACCAACATTTTGA
Found at i:13361909 original size:30 final size:30
Alignment explanation
Indices: 13361873--13361931 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
13361863 AATTAGTAAA
*
13361873 GATAAAATTATACTTTAATCCCTTAAAAAT
1 GATAAAATTATAATTTAATCCCTTAAAAAT
* *
13361903 GATAAAATTCTAATTTAATCCTTTAAAAA
1 GATAAAATTATAATTTAATCCCTTAAAAA
13361932 ATACATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.37
Consensus pattern (30 bp):
GATAAAATTATAATTTAATCCCTTAAAAAT
Found at i:13361971 original size:22 final size:22
Alignment explanation
Indices: 13361906--13361971 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
13361896 TAAAAATGAT
13361906 AAAATT-CTAATTTAATCCTTTAA-
1 AAAATTAC-AATTTAAT--TTTAAC
* * *
13361929 AAAA-TACATTTTTATTATAAC
1 AAAATTACAATTTAATTTTAAC
13361950 AAAATTACAATTTAATTTTAAC
1 AAAATTACAATTTAATTTTAAC
13361972 CCCTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 21 0.62
23 5 0.15
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTACAATTTAATTTTAAC
Found at i:13362316 original size:6 final size:6
Alignment explanation
Indices: 13362305--13362339 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
13362295 TTTGAATTGC
13362305 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
13362340 GCACGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:13362680 original size:26 final size:26
Alignment explanation
Indices: 13362658--13362712 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
13362648 TTTTTATGTG
13362658 TTAAAATATA-TATATTAAATTATTA
1 TTAAAATATAGTATATTAAATTATTA
* * *
13362683 TTATATTATAGTATATTATATTATATA
1 TTAAAATATAGTATATTAAATTAT-TA
13362710 TTA
1 TTA
13362713 TATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 12 0.48
27 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAAATATAGTATATTAAATTATTA
Found at i:13362689 original size:5 final size:5
Alignment explanation
Indices: 13362663--13362720 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
13362653 ATGTGTTAAA
* *
13362663 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
13362712 ATATT ATAT
1 ATATT ATAT
13362721 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:13362699 original size:10 final size:9
Alignment explanation
Indices: 13362664--13362721 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
13362654 TGTGTTAAAA
13362664 TATATATAT
1 TATATATAT
*
13362673 TAAAT-TAT
1 TATATATAT
13362681 TAT-TATAT
1 TATATATAT
13362689 TATAGTATAT
1 TATA-TATAT
13362699 TATAT-TA-
1 TATATATAT
13362706 TATATTATAT
1 TATA-TATAT
13362716 TATATA
1 TATATA
13362722 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:13362711 original size:12 final size:12
Alignment explanation
Indices: 13362666--13362721 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
13362656 TGTTAAAATA
*
13362666 TATATATTAAAT
1 TATATATTATAT
13362678 TAT-TATTATATT
1 TATATATTATA-T
13362690 ATAGTATATTATAT
1 -TA-TATATTATAT
13362704 TATATATTATAT
1 TATATATTATAT
13362716 TATATA
1 TATATA
13362722 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:13364058 original size:18 final size:19
Alignment explanation
Indices: 13364035--13364073 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13364025 ATATATAGAT
13364035 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
13364053 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
13364072 AT
1 AT
13364074 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:13364588 original size:18 final size:19
Alignment explanation
Indices: 13364567--13364607 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13364557 AATGAAATGA
13364567 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
13364585 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
13364604 GAAA
1 GAAA
13364608 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:13369127 original size:5 final size:5
Alignment explanation
Indices: 13369101--13369158 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
13369091 ATGTGTTAAA
* *
13369101 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
13369150 ATATT ATAT
1 ATATT ATAT
13369159 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:13369137 original size:10 final size:9
Alignment explanation
Indices: 13369102--13369159 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
13369092 TGTGTTAAAA
13369102 TATATATAT
1 TATATATAT
*
13369111 TAAAT-TAT
1 TATATATAT
13369119 TAT-TATAT
1 TATATATAT
13369127 TATAGTATAT
1 TATA-TATAT
13369137 TATAT-TA-
1 TATATATAT
13369144 TATATTATAT
1 TATA-TATAT
13369154 TATATA
1 TATATA
13369160 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:13369149 original size:12 final size:12
Alignment explanation
Indices: 13369104--13369159 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
13369094 TGTTAAAATA
*
13369104 TATATATTAAAT
1 TATATATTATAT
13369116 TAT-TATTATATT
1 TATATATTATA-T
13369128 ATAGTATATTATAT
1 -TA-TATATTATAT
13369142 TATATATTATAT
1 TATATATTATAT
13369154 TATATA
1 TATATA
13369160 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:13370497 original size:18 final size:19
Alignment explanation
Indices: 13370474--13370512 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13370464 ATATATAGAT
13370474 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
13370492 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
13370511 AT
1 AT
13370513 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:13371029 original size:18 final size:19
Alignment explanation
Indices: 13371008--13371048 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13370998 AATGAAATGA
13371008 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
13371026 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
13371045 GAAA
1 GAAA
13371049 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:13378940 original size:10 final size:11
Alignment explanation
Indices: 13378924--13378953 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
13378914 TAATTCTCAA
13378924 AAAAAGAAAAG
1 AAAAAGAAAAG
13378935 -AAAAGAAAAG
1 AAAAAGAAAAG
13378945 AAAAAGAAA
1 AAAAAGAAA
13378954 GTGGTTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:13400359 original size:31 final size:31
Alignment explanation
Indices: 13400313--13400393 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 31
13400303 ACAAACCCAT
*
13400313 TTTAACGTTAGAGTGACTAAAATTAAGAACTTA
1 TTTAACG--AGAGTGACTAAAATTAACAACTTA
* *
13400346 TTTAACGAGAGTGACTAAAATTGACAATTTA
1 TTTAACGAGAGTGACTAAAATTAACAACTTA
*
13400377 TCTAAC-ATGAGTGACTA
1 TTTAACGA-GAGTGACTA
13400394 CAATAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 1 0.02
31 35 0.81
33 7 0.16
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (31 bp):
TTTAACGAGAGTGACTAAAATTAACAACTTA
Found at i:13404793 original size:23 final size:23
Alignment explanation
Indices: 13404763--13404809 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13404753 TTAAAACTAC
13404763 TTCTTGTTTAGATTAAATTAGAG
1 TTCTTGTTTAGATTAAATTAGAG
13404786 TTCTTGTTTAGATTAAATTAGAG
1 TTCTTGTTTAGATTAAATTAGAG
13404809 T
1 T
13404810 CCTAGTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (23 bp):
TTCTTGTTTAGATTAAATTAGAG
Found at i:13406066 original size:24 final size:24
Alignment explanation
Indices: 13406036--13406226 Score: 93
Period size: 25 Copynumber: 7.7 Consensus size: 24
13406026 CTGTATAACA
13406036 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
* ** *
13406060 GGAAGCTCTTGCGAGCCAATAA-CA
1 GGAAGCTCATAAGAGCC-ATAATCG
* *
13406084 GGTAGCTCCA-AAGAGCCATTAATCA
1 GGAAGCT-CATAAGAGCCA-TAATCG
*** *
13406109 GGAAGCTCCGGATAGCCATATATCG
1 GGAAGCTCATAAGAGCCATA-ATCG
* * **
13406134 GGAAGTTCA-AGCGAGCCATTAATTA
1 GGAAGCTCATA-AGAGCCA-TAATCG
* *
13406159 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCA-TAAGAGCC-ATAATCG
* *
13406185 GGAAGCTCACAAAGAGCCCTATATCG
1 GGAAGCTCA-TAAGAGCCATA-ATCG
13406211 GGACA-CTCATAAGAGC
1 GGA-AGCTCATAAGAGC
13406227 TTTAGTGTGT
Statistics
Matches: 127, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 32 0.25
25 52 0.41
26 40 0.31
27 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:13406115 original size:25 final size:25
Alignment explanation
Indices: 13406034--13406202 Score: 114
Period size: 25 Copynumber: 6.8 Consensus size: 25
13406024 GGCTGTATAA
13406034 CAGGAAGCT-CATAAGAGCCA-TAAT
1 CAGGAAGCTCCA-AAGAGCCATTAAT
* **** *
13406058 CGGGAAGCTCTTGCGAGCCAATAA-
1 CAGGAAGCTCCAAAGAGCCATTAAT
*
13406082 CAGGTAGCTCCAAAGAGCCATTAAT
1 CAGGAAGCTCCAAAGAGCCATTAAT
** *
13406107 CAGGAAGCTCCGGATAGCCA-TATAT
1 CAGGAAGCTCCAAAGAGCCATTA-AT
* * *
13406132 CGGGAAG-TTCAAGCGAGCCATTAAT
1 CAGGAAGCTCCAA-AGAGCCATTAAT
* *
13406157 TAGGAAGCTCACAAAGAGCCTTTAAT
1 CAGGAAGCTC-CAAAGAGCCATTAAT
*
13406183 CGGGAAGCTCACAAAGAGCC
1 CAGGAAGCTC-CAAAGAGCC
13406203 CTATATCGGG
Statistics
Matches: 108, Mismatches: 29, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
24 35 0.32
25 39 0.36
26 31 0.29
27 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
CAGGAAGCTCCAAAGAGCCATTAAT
Found at i:13406189 original size:76 final size:73
Alignment explanation
Indices: 13406049--13406192 Score: 189
Period size: 76 Copynumber: 1.9 Consensus size: 73
13406039 AGCTCATAAG
** *
13406049 AGCCATAATCGGGAAGCTCTTGCGAGCCAATAACAGGTAGCTCCAAAGAGCCATTAATCAGGAAG
1 AGCCATAATCGGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
13406114 CTCCGGAT
66 CTCCGGAT
* * * * *
13406122 AGCCATATATCGGGAAGTTCAAGCGAGCCATTAATTAGGAAGCTCACAAAGAGCCTTTAATCGGG
1 AGCCATA-ATCGGGAAGCTCAAGCGAGCCAATAA-CAGGAAGCTC-CAAAGAGCCATTAATCAGG
13406187 AAGCTC
63 AAGCTC
13406193 ACAAAGAGCC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
73 7 0.12
74 22 0.37
75 8 0.13
76 23 0.38
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (73 bp):
AGCCATAATCGGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
CTCCGGAT
Found at i:13406219 original size:26 final size:26
Alignment explanation
Indices: 13406159--13406213 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
13406149 CCATTAATTA
*
13406159 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
13406185 GGAAGCTCACAAAGAGCCCTAT-ATCG
1 GGAAGCTCACAAAGAG-CCTATAATCG
13406211 GGA
1 GGA
13406214 CACTCATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:13408941 original size:93 final size:93
Alignment explanation
Indices: 13408812--13408984 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
13408802 CGCCCATAAG
* * *
13408812 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13408877 ACGAGCTCGGATGCCTAGTTATATCTCT
66 ACGAGCTCGGATGCCTAGTTATATCTCT
*
13408905 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13408970 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
13408985 CAAATATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTATATCTCT
Found at i:13408980 original size:46 final size:46
Alignment explanation
Indices: 13408805--13408980 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
13408795 TGTAACCCGC
* * * *
13408805 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13408851 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A-T
* ** *
13408896 -TATATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATA--AGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13408944 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13408981 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 1 0.01
46 64 0.59
47 28 0.26
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:13408999 original size:46 final size:45
Alignment explanation
Indices: 13408856--13408999 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
13408846 CGCATCCATA
* *
13408856 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATC-CT
* * *
13408905 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC---ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAATATCC-T
13408948 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCT
13408995 AGTGA
1 AGTGA
13409000 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCT
Found at i:13411630 original size:45 final size:45
Alignment explanation
Indices: 13411577--13411667 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
13411567 CAATTCTCCA
13411577 GAATGAAAAATTTCAAAACTTTAATAGTTTTACAAATTAGTACAT
1 GAATGAAAAATTTCAAAACTTTAATAGTTTTACAAATTAGTACAT
13411622 GAATGAAAAATTTCAAAACTTTAATAGTTTTACAAATTAGTACAT
1 GAATGAAAAATTTCAAAACTTTAATAGTTTTACAAATTAGTACAT
13411667 G
1 G
13411668 GGCTAACTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (45 bp):
GAATGAAAAATTTCAAAACTTTAATAGTTTTACAAATTAGTACAT
Found at i:13415329 original size:14 final size:15
Alignment explanation
Indices: 13415312--13415340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13415302 GAGTATGGTA
13415312 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
13415326 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
13415341 TAGTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:13420907 original size:103 final size:103
Alignment explanation
Indices: 13420721--13420923 Score: 343
Period size: 103 Copynumber: 2.0 Consensus size: 103
13420711 AGTGTTCTTT
* * * *
13420721 GATATTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTCTGTGTTCTAACCTATCTG
1 GATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTATCAG
13420786 AATTAAAACTGAACTATAATGCAACTATGCACACCTTC
66 AATTAAAACTGAACTATAATGCAACTATGCACACCTTC
13420824 GATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTATCAG
1 GATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTATCAG
* * *
13420889 AATTAAAACTGAAGTATAATGCAATTATGCCCACC
66 AATTAAAACTGAACTATAATGCAACTATGCACACC
13420924 AACGGACCTA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (103 bp):
GATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTATCAG
AATTAAAACTGAACTATAATGCAACTATGCACACCTTC
Found at i:13420941 original size:49 final size:50
Alignment explanation
Indices: 13420880--13420975 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
13420870 ATGAGTTCTA
* *
13420880 ACCTATCAGAATTAAAA-CTGAAGTATAATGCAATTATGCCCACCAACGG
1 ACCTATCAGAATTAAAACCTGAACTATAATGCAACTATGCCCACCAACGG
* *
13420929 ACCTATCTGAATTAAAACCTGAACTATCATGCAACTATGCCCACCAA
1 ACCTATCAGAATTAAAACCTGAACTATAATGCAACTATGCCCACCAA
13420976 TGGTACACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 16 0.38
50 26 0.62
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (50 bp):
ACCTATCAGAATTAAAACCTGAACTATAATGCAACTATGCCCACCAACGG
Found at i:13421162 original size:80 final size:79
Alignment explanation
Indices: 13421078--13421236 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 79
13421068 AATCGAACTG
** *
13421078 GATAGAGTAAATGAGGGAT-TTGTTCTGCAAAAAACACTGACACGGATGTGAATGAATTATTTAT
1 GATAGAGTAAATGAGGG-TCTTGTTCTGCAAAAAACACTGACACAAATGTGAATGAATGA-TTAT
13421142 AAGACAAGTTCAATCT
64 AAGACAAGTTCAATCT
* * *
13421158 GATAGAGTAAATGAGGGTCTTGTTCTGCAAAAAGCATTGACACAAATGTGAATGAATGATTGTAA
1 GATAGAGTAAATGAGGGTCTTGTTCTGCAAAAAACACTGACACAAATGTGAATGAATGATTATAA
*
13421223 GCCAAGTTCAATCT
66 GACAAGTTCAATCT
13421237 TCAGTACAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
79 19 0.27
80 52 0.73
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (79 bp):
GATAGAGTAAATGAGGGTCTTGTTCTGCAAAAAACACTGACACAAATGTGAATGAATGATTATAA
GACAAGTTCAATCT
Found at i:13432932 original size:21 final size:21
Alignment explanation
Indices: 13432908--13432949 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13432898 CAGGATTTGG
13432908 GTTAATTACACCATCTATACT
1 GTTAATTACACCATCTATACT
13432929 GTTAATTACACCATCTATACT
1 GTTAATTACACCATCTATACT
13432950 CGCACTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (21 bp):
GTTAATTACACCATCTATACT
Found at i:13440405 original size:27 final size:27
Alignment explanation
Indices: 13440367--13440430 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
13440357 TTTAATTATT
*
13440367 AAAATATTAAA-TATGTAAAAATTACA
1 AAAATATAAAATTATGTAAAAATTACA
* *
13440393 AATAATATAAAATTATTTAAAATTTACA
1 AA-AATATAAAATTATGTAAAAATTACA
*
13440421 CAAATATAAA
1 AAAATATAAA
13440431 TAAATCCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.06
27 16 0.50
28 14 0.44
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAATATAAAATTATGTAAAAATTACA
Found at i:13444564 original size:30 final size:30
Alignment explanation
Indices: 13444530--13444592 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13444520 ACTTATTTTA
*
13444530 TTGTTAATTTTGTTATTATTTGATAGACAT
1 TTGTTAATTTTGTTATTATTTGAGAGACAT
*
13444560 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTGAGAGACAT
13444590 TTG
1 TTG
13444593 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTGAGAGACAT
Found at i:13453303 original size:14 final size:15
Alignment explanation
Indices: 13453261--13453311 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
13453251 GATCATCATC
13453261 TAATTAATAAAAATAT
1 TAATT-ATAAAAATAT
**
13453277 TAATTATCTAAAT-T
1 TAATTATAAAAATAT
13453291 TAATTATAGAAATATAT
1 TAATTATA-AAA-ATAT
13453308 TAAT
1 TAAT
13453312 ATTCTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 8 0.29
15 8 0.29
16 7 0.25
17 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
TAATTATAAAAATAT
Found at i:13453309 original size:31 final size:30
Alignment explanation
Indices: 13453261--13453319 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
13453251 GATCATCATC
13453261 TAATTAATAAAAATATTAAT-TATCTAAATT
1 TAATTAATAAAAATATTAATAT-TCTAAATT
13453291 TAATT-ATAGAAATATATTAATATTCTAAA
1 TAATTAATA-AAA-ATATTAATATTCTAAA
13453320 ATATGCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 3 0.12
30 8 0.31
31 14 0.54
32 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (30 bp):
TAATTAATAAAAATATTAATATTCTAAATT
Found at i:13461588 original size:35 final size:34
Alignment explanation
Indices: 13461503--13461594 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 34
13461493 CTCAATTAAC
*
13461503 AAGATGACCAAATAGTTTTTCAAACCAATCCATT
1 AAGATGACCAAATAATTTTTCAAACCAATCCATT
*
13461537 ATATAATGACTC-AATAATTTTTCAAACCAATCCAATT
1 A-A-GATGAC-CAAATAATTTTTCAAACCAATCC-ATT
*
13461574 AAGATGACCAAATAATCTTTC
1 AAGATGACCAAATAATTTTTC
13461595 CATCGTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
34 2 0.04
35 16 0.33
36 26 0.53
37 5 0.10
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (34 bp):
AAGATGACCAAATAATTTTTCAAACCAATCCATT
Found at i:13465505 original size:45 final size:45
Alignment explanation
Indices: 13465455--13465561 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
13465445 GTAACGGTAG
13465455 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTG-TAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATC-GATAA
* *
13465500 CAGTAACAGTAACAGTATTCGACACACAAAGTGTTGAATCGATAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAA
* *
13465545 CTGTAACGGTAACAGTA
1 CAGTAACAGTAACAGTA
13465562 ACAGTAACAG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAA
Found at i:13465510 original size:51 final size:49
Alignment explanation
Indices: 13465440--13465567 Score: 156
Period size: 45 Copynumber: 2.6 Consensus size: 49
13465430 CCTCAACAGT
*
13465440 AATCAGTAACGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATC-GTAAC-GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
* *
13465491 AATC-T---GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTTG
1 AATCGTAACGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
*
13465536 AATCGATAACTGTAACGGTAACAGTAACAGTA
1 AATCG-TAAC-GTAACAGTAACAGTAACAGTA
13465568 ACAGTAGTCG
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
45 41 0.61
47 1 0.01
49 1 0.01
51 24 0.36
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (49 bp):
AATCGTAACGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
Found at i:13469077 original size:17 final size:17
Alignment explanation
Indices: 13469055--13469087 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13469045 ATTAGTTTGA
13469055 GAAAAA-TAATTTAATAG
1 GAAAAATTAA-TTAATAG
13469072 GAAAAATTAATTAATA
1 GAAAAATTAATTAATA
13469088 AATAAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
GAAAAATTAATTAATAG
Found at i:13486962 original size:19 final size:19
Alignment explanation
Indices: 13486938--13486975 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13486928 CTCCTTTGAT
13486938 AAAGGAACACATTGAATCA
1 AAAGGAACACATTGAATCA
13486957 AAAGGAACACATTGAATCA
1 AAAGGAACACATTGAATCA
13486976 GTTTTTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAGGAACACATTGAATCA
Found at i:13493519 original size:21 final size:21
Alignment explanation
Indices: 13493463--13493542 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
13493453 TTGATAGGAT
13493463 TATTATTAGATATAATTTAATAAA
1 TATT-TTA-ATATAATTTAAT-AA
* ** *
13493487 AATAATAA-ATAATTTAATCA
1 TATTTTAATATAATTTAATAA
13493507 TATTTTAATATAATTTAATAA
1 TATTTTAATATAATTTAATAA
*
13493528 TTTTTTAATATAATT
1 TATTTTAATATAATT
13493543 ATTTTTATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.13
21 35 0.76
22 1 0.02
23 2 0.04
24 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
TATTTTAATATAATTTAATAA
Found at i:13493536 original size:16 final size:17
Alignment explanation
Indices: 13493515--13493559 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
13493505 CATATTTTAA
*
13493515 TATAATTTAATAATTTT
1 TATAATATAATAATTTT
*
13493532 T-TAATATAATTATTTT
1 TATAATATAATAATTTT
*
13493548 TATAATAAAATA
1 TATAATATAATA
13493560 TTTCAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAATATAATAATTTT
Found at i:13506221 original size:297 final size:297
Alignment explanation
Indices: 13505687--13506287 Score: 1166
Period size: 297 Copynumber: 2.0 Consensus size: 297
13505677 GTGTATTGCT
13505687 ATACATGCCATACTTAAGTTTTACAAGCCATTTACCAAAAAAAGTCCTTCGGATAGTGTGATCGA
1 ATACATGCCATACTTAAGTTTTACAAGCCATTTACCAAAAAAAGTCCTTCGGATAGTGTGATCGA
*
13505752 ACCTTCGACCTGTCCCGATTCCTAAGCTGGCTTGTTCAAAACTACAATGAATGAAAAGGAGGGAG
66 ACCTTCGACCTGTCCCGATTCCTAAGCCGGCTTGTTCAAAACTACAATGAATGAAAAGGAGGGAG
*
13505817 TAAGCATAAATGCTTAGTAAGTCATATGTAAATAACAAGTAACATAACAATACAATTATACCAAA
131 TAAGCATAAATGCTTAGTAAGTCATATGCAAATAACAAGTAACATAACAATACAATTATACCAAA
13505882 CAACCTTAGCATGGTATCACCAAAACATATATCACATTTCTAAACATCATTAATCATCTTACCAC
196 CAACCTTAGCATGGTATCACCAAAACATATATCACATTTCTAAACATCATTAATCATCTTACCAC
13505947 CTTATCGTTGTTGTATCTATTTTCAACACGAAGGTTA
261 CTTATCGTTGTTGTATCTATTTTCAACACGAAGGTTA
13505984 ATACATGCCATACTTAAGTTTTACAAGCCATTTACCAAAAAAAGTCCTTCGGATAGTGTGATCGA
1 ATACATGCCATACTTAAGTTTTACAAGCCATTTACCAAAAAAAGTCCTTCGGATAGTGTGATCGA
13506049 ACCTTCGACCTGTCCCGATTCCTAAGCCGGCTTGTTCAAAACTACAATGAATGAAAAGGAGGGAG
66 ACCTTCGACCTGTCCCGATTCCTAAGCCGGCTTGTTCAAAACTACAATGAATGAAAAGGAGGGAG
13506114 TAAGCATAAATGCTTAGTAAGTCATATGCAAATAACAAGTAACATAACAATACAATTATACCAAA
131 TAAGCATAAATGCTTAGTAAGTCATATGCAAATAACAAGTAACATAACAATACAATTATACCAAA
13506179 CAACCTTAGCATGGTATCACCAAAACATATATCACATTTCTAAACATCATTAATCATCTTACCAC
196 CAACCTTAGCATGGTATCACCAAAACATATATCACATTTCTAAACATCATTAATCATCTTACCAC
*
13506244 CTTATCGTTGTTGTATCTATTTTCAACCCGAAGGTTA
261 CTTATCGTTGTTGTATCTATTTTCAACACGAAGGTTA
13506281 AGTACAT
1 A-TACAT
13506288 ACCTGTCCAA
Statistics
Matches: 300, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
297 295 0.98
298 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (297 bp):
ATACATGCCATACTTAAGTTTTACAAGCCATTTACCAAAAAAAGTCCTTCGGATAGTGTGATCGA
ACCTTCGACCTGTCCCGATTCCTAAGCCGGCTTGTTCAAAACTACAATGAATGAAAAGGAGGGAG
TAAGCATAAATGCTTAGTAAGTCATATGCAAATAACAAGTAACATAACAATACAATTATACCAAA
CAACCTTAGCATGGTATCACCAAAACATATATCACATTTCTAAACATCATTAATCATCTTACCAC
CTTATCGTTGTTGTATCTATTTTCAACACGAAGGTTA
Found at i:13506611 original size:47 final size:47
Alignment explanation
Indices: 13506459--13506635 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
13506449 TGTAACCCGC
* * *
13506459 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
13506505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C-AGTTCACAT
* * * * * *
13506555 -C-TCA-CGAACTCAGACTCAACTTAACGAGTTCTGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
13506599 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13506636 TGTTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 2 0.02
46 37 0.34
47 51 0.47
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:13506627 original size:94 final size:93
Alignment explanation
Indices: 13506467--13506636 Score: 268
Period size: 94 Copynumber: 1.8 Consensus size: 93
13506457 GCCCATAAGT
* * *
13506467 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
13506532 CGAGTTCGGATACCTAGTTACATCTCAC
66 CGAGTTCGGATACCTAGTTACATCTCAC
* * * *
13506560 GAACTCAGACTCAACTTAACGAGTTCTGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
13506625 ACGAGTTCGGAT
65 ACGAGTTCGGAT
13506637 GTTCAACCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 25 0.36
94 44 0.64
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATCTCAC
Done.