Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 337 of 343
Found at i:107902542 original size:19 final size:19
Alignment explanation
Indices: 107902520--107902572 Score: 83
Period size: 17 Copynumber: 2.8 Consensus size: 19
107902510 AAGCCCATTA
107902520 AACCCCCAAAAAAAAACCT
1 AACCCCCAAAAAAAAACCT
107902539 AA--CCCAAAAAAAAACCT
1 AACCCCCAAAAAAAAACCT
107902556 AATCCCCCAAAAAAAAA
1 AA-CCCCCAAAAAAAAA
107902573 TCAAGAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.55
19 2 0.06
20 12 0.39
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (19 bp):
AACCCCCAAAAAAAAACCT
Found at i:107905137 original size:12 final size:12
Alignment explanation
Indices: 107905120--107905155 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
107905110 AACATTTTGA
107905120 CATTCATGCATT
1 CATTCATGCATT
107905132 CATTCATGCATT
1 CATTCATGCATT
*
107905144 CATTCATACATT
1 CATTCATGCATT
107905156 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:107913891 original size:140 final size:140
Alignment explanation
Indices: 107913724--107914254 Score: 999
Period size: 140 Copynumber: 3.8 Consensus size: 140
107913714 TTAATTTCAA
107913724 CTCATATATGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
1 CTCATAT-TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCA
*
107913789 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGATGTGAGTTGAACCTTTTAATTTCTACTTT
65 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTT
107913854 TTCAAAATCAG
130 TTCAAAATCAG
* * *
107913865 CTCATATTGCGAGAGGAGAGTTGAGCCTTAGGTCACGCTGAGGTATTTTCAATTTTTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
107913930 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
107913995 TCAAAATCAG
131 TCAAAATCAG
107914005 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
107914070 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
107914135 TCAAAATCAG
131 TCAAAATCAG
107914145 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
107914210 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
107914255 GCTTCAGATC
Statistics
Matches: 381, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
140 374 0.98
141 7 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:107914377 original size:14 final size:13
Alignment explanation
Indices: 107914358--107914393 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
107914348 TGTTGAAGTA
107914358 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
107914371 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
107914385 TTTTCAAAA
1 TTTTCAAAA
107914394 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:107914468 original size:168 final size:164
Alignment explanation
Indices: 107914137--107914503 Score: 436
Period size: 168 Copynumber: 2.2 Consensus size: 164
107914127 CTACTTTTTC
* * **
107914137 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAAGTATTTTCAAAATCT
* * *
107914202 GTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
66 GTTTTCAAATTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
107914267 ACACTGAGATAGTTTTTTCAATTTATATTTTTCAAA
131 ACACTGAGATA--TTTTTCAATTTATATTTTTCAAA
* * * *
107914303 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTTGAAGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GCTGAAGTATTTTCAAAAT
*
107914368 CTGTTTTTCAAATT-CTGTT-TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GG
64 CTG-TTTTCAAATTAC-GTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAG
* *** * * *
107914430 CTCACGTGCTGAGCTA-TTTTCAATTTCTTTTTTTTTTCAAA
126 ATCACACACTGAGATATTTTTCAA--T-TTATATTTTTCAAA
107914471 AAAATTCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
107914504 ACTTTTTAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
165 7 0.04
166 40 0.23
167 1 0.01
168 82 0.48
169 41 0.24
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (164 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAAGTATTTTCAAAATCT
GTTTTCAAATTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCAC
ACACTGAGATATTTTTCAATTTATATTTTTCAAA
Found at i:107914523 original size:30 final size:30
Alignment explanation
Indices: 107914487--107914548 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
107914477 CAACTCATAT
107914487 TGCGAGAGGTGAGTTGAACT-TTTTAATTTC
1 TGCGAGAGGTGAGTTG-ACTCTTTTAATTTC
* *
107914517 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGACTCTTTTAATTTC
107914547 TG
1 TG
107914549 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGACTCTTTTAATTTC
Found at i:107915701 original size:12 final size:12
Alignment explanation
Indices: 107915686--107915728 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
107915676 TTCTTTCGAA
107915686 TCTTTTTTTCTT
1 TCTTTTTTTCTT
*
107915698 TCTTTTTTTGTGT
1 TCTTTTTTTCT-T
*
107915711 TATTTTTTTTCTT
1 T-CTTTTTTTCTT
107915724 TCTTT
1 TCTTT
107915729 ATATATACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.52
13 4 0.16
14 8 0.32
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (12 bp):
TCTTTTTTTCTT
Found at i:107916013 original size:20 final size:20
Alignment explanation
Indices: 107915956--107916014 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
107915946 ATTTCTTATG
*
107915956 TATATATTCTTAAATACTAT-
1 TATATATT-TTAAATACCATA
** *
107915976 TATATA-TACATATA-CATA
1 TATATATTTTAAATACCATA
107915994 TATATATTTTAAATACCATA
1 TATATATTTTAAATACCATA
107916014 T
1 T
107916015 TGTGTATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
19 6 0.21
20 11 0.38
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATATTTTAAATACCATA
Found at i:107923337 original size:17 final size:17
Alignment explanation
Indices: 107923294--107923336 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
107923284 ATATTGTTTT
107923294 TAATTTT-TA-ATTTAA
1 TAATTTTATATATTTAA
107923309 TAATTTTATATATTTAA
1 TAATTTTATATATTTAA
107923326 -AA-TTTATATAT
1 TAATTTTATATAT
107923337 AGATAGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 16 0.62
16 4 0.15
17 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTTATATATTTAA
Found at i:107924499 original size:50 final size:50
Alignment explanation
Indices: 107924442--107924540 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
107924432 AACACTTGTG
107924442 AACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAAGTC
1 AACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAAGTC
107924492 AACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAAGT
1 AACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAAGT
107924541 GGAAGGAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (50 bp):
AACCTTATATCTAAAAATTTTATTGACAATTTCTCATATATGTCAAAGTC
Found at i:107934834 original size:12 final size:12
Alignment explanation
Indices: 107934817--107934849 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
107934807 CGGCCCGCCC
107934817 ATATTAATTTTT
1 ATATTAATTTTT
107934829 ATATT-ATTTTT
1 ATATTAATTTTT
107934840 ATA-TAATTTT
1 ATATTAATTTT
107934850 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:107941742 original size:18 final size:18
Alignment explanation
Indices: 107941705--107941744 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
107941695 GATTTTTTCC
*
107941705 TTTTAAATTTTAAATCTT
1 TTTTAAATTTTAAATATT
**
107941723 TTTTAAATTTTATTTATT
1 TTTTAAATTTTAAATATT
107941741 TTTT
1 TTTT
107941745 CTCTGTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAAATTTTAAATATT
Found at i:107943598 original size:2 final size:2
Alignment explanation
Indices: 107943591--107943622 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
107943581 TTTTGGTTTT
107943591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107943623 AAGAAGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107947780 original size:14 final size:14
Alignment explanation
Indices: 107947761--107947788 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107947751 ATCTTAAATG
107947761 TAATAATAATTTAT
1 TAATAATAATTTAT
107947775 TAATAATAATTTAT
1 TAATAATAATTTAT
107947789 ACTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATAATAATTTAT
Found at i:107952140 original size:16 final size:16
Alignment explanation
Indices: 107952119--107952179 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
107952109 AACCCGAATG
* *
107952119 ACTCAAATTCTAAATC
1 ACTCAAATTCAAAATA
107952135 ACTCAAATTCAAAATA
1 ACTCAAATTCAAAATA
*
107952151 ACCCAAATT-AAAATA
1 ACTCAAATTCAAAATA
* *
107952166 TC-CAAATTCGAAAT
1 ACTCAAATTCAAAAT
107952180 GAATCAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 6 0.15
15 11 0.28
16 22 0.56
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (16 bp):
ACTCAAATTCAAAATA
Found at i:107953558 original size:30 final size:31
Alignment explanation
Indices: 107953487--107953564 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
107953477 ATGGGTAAAT
** * *
107953487 TTTTATTTTGGTCATTGAATTATTTGAAACA
1 TTTTATTTAAGTCATTGAAATATTTCAAACA
*
107953518 TTTCATTTAAGTCATTGAAATA-TTCAAA-A
1 TTTTATTTAAGTCATTGAAATATTTCAAACA
107953547 GTTTTATTTAAGTCATTG
1 -TTTTATTTAAGTCATTG
107953565 GGCTGTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.03
30 21 0.52
31 18 0.45
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (31 bp):
TTTTATTTAAGTCATTGAAATATTTCAAACA
Found at i:107953868 original size:22 final size:23
Alignment explanation
Indices: 107953832--107953884 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
107953822 AATTGCAGTT
107953832 TTTTTAATCGAATTTAAGTAACTA
1 TTTTT-ATCGAATTTAAGTAACTA
107953856 TTTTTAT-GAATTTAAGTAACTA
1 TTTTTATCGAATTTAAGTAACTA
107953878 TTTTTAT
1 TTTTTAT
107953885 ACATCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.76
23 2 0.07
24 5 0.17
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTTATCGAATTTAAGTAACTA
Found at i:107956620 original size:14 final size:14
Alignment explanation
Indices: 107956601--107956645 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
107956591 AATATGGAGC
107956601 TATGTTTTGTCTTT
1 TATGTTTTGTCTTT
*
107956615 TATG--TT-T-ATT
1 TATGTTTTGTCTTT
107956625 TATGTTTTGTCTTT
1 TATGTTTTGTCTTT
107956639 TATGTTT
1 TATGTTT
107956646 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 6 0.24
11 1 0.04
12 4 0.16
13 1 0.04
14 13 0.52
ACGTcount: A:0.11, C:0.04, G:0.13, T:0.71
Consensus pattern (14 bp):
TATGTTTTGTCTTT
Found at i:107956628 original size:24 final size:24
Alignment explanation
Indices: 107956601--107956651 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
107956591 AATATGGAGC
107956601 TATGTTTTGTCTTTTATGTTTATT
1 TATGTTTTGTCTTTTATGTTTATT
107956625 TATGTTTTGTCTTTTATGTTTATT
1 TATGTTTTGTCTTTTATGTTTATT
107956649 TAT
1 TAT
107956652 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.71
Consensus pattern (24 bp):
TATGTTTTGTCTTTTATGTTTATT
Found at i:107956718 original size:28 final size:25
Alignment explanation
Indices: 107956680--107956736 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
107956670 AAAATTTGAA
107956680 ATATATATTTGAAATATTTTATTAATAT
1 ATATATATTTGAAA-ATTTTA--AATAT
* *
107956708 ATATATTTTTGTAAATTTTAAATAT
1 ATATATATTTGAAAATTTTAAATAT
107956733 ATAT
1 ATAT
107956737 TTTGAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
27 6 0.22
28 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATATATATTTGAAAATTTTAAATAT
Found at i:107956759 original size:21 final size:21
Alignment explanation
Indices: 107956735--107956781 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
107956725 TTAAATATAT
*
107956735 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
107956756 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
107956777 ATTTT
1 ATTTT
107956782 CTTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:107956762 original size:34 final size:30
Alignment explanation
Indices: 107956712--107956803 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 30
107956702 TAATATATAT
*
107956712 ATTTTTGTAAATTTTAAATATATATTTTGAA
1 ATTTTTTTAAATTTTAAATAT-TATTTTGAA
*
107956743 ATTACTTTTTTAAATTTTAAATATTATTTTTTAA
1 A-T--TTTTTTAAATTTTAAATATTA-TTTTGAA
*
107956777 ATTTTCTTAAATTTTAAATATTATTTT
1 ATTTTTTTAAATTTTAAATATTATTTT
107956804 TTAAATATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
30 4 0.07
31 21 0.39
32 1 0.02
33 3 0.06
34 25 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTTTTAAATTTTAAATATTATTTTGAA
Found at i:107956776 original size:14 final size:14
Alignment explanation
Indices: 107956757--107956813 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
107956747 CTTTTTTAAA
107956757 TTTTAAATATTATT
1 TTTTAAATATTATT
* *
107956771 TTTTAAATTTTCTT
1 TTTTAAATATTATT
107956785 AAATTTTAAATATTATT
1 ---TTTTAAATATTATT
107956802 TTTTAAATATTA
1 TTTTAAATATTA
107956814 AATATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 24 0.67
17 12 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:107956790 original size:31 final size:32
Alignment explanation
Indices: 107956710--107956812 Score: 129
Period size: 31 Copynumber: 3.2 Consensus size: 32
107956700 ATTAATATAT
* *
107956710 ATATTTTTGTAAATTTTAAATA-TATATTTTGAA
1 ATATTTCT-TAAATTTTAAATATTAT-TTTTTAA
*
107956743 ATTACTTTTTTAAATTTTAAATATTATTTTTTAA
1 A-TA-TTTCTTAAATTTTAAATATTATTTTTTAA
107956777 AT-TTTCTTAAATTTTAAATATTATTTTTTAA
1 ATATTTCTTAAATTTTAAATATTATTTTTTAA
107956808 ATATT
1 ATATT
107956813 AAATATTTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
31 30 0.47
32 2 0.03
33 2 0.03
34 22 0.34
35 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (32 bp):
ATATTTCTTAAATTTTAAATATTATTTTTTAA
Found at i:107956809 original size:21 final size:21
Alignment explanation
Indices: 107956777--107956840 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
107956767 TATTTTTTAA
*
107956777 ATTTTCTTAAATTTTAAATATT
1 ATTTT-TTAAATATTAAATATT
107956799 ATTTTTTAAATATTAAATATT
1 ATTTTTTAAATATTAAATATT
* *
107956820 -TTTTTAATAATATAAAATATT
1 ATTTTTTA-AATATTAAATATT
107956841 TAAATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.16
21 27 0.71
22 5 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTAAATATTAAATATT
Found at i:107956885 original size:22 final size:22
Alignment explanation
Indices: 107956860--107956909 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
107956850 TAAACTTTCA
107956860 AATTTATTATTAGTTTTATAAT
1 AATTTATTATTAGTTTTATAAT
*
107956882 AATTTGTTATTAGTTTTATAAT
1 AATTTATTATTAGTTTTATAAT
*
107956904 ATTTTA
1 AATTTA
107956910 AATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (22 bp):
AATTTATTATTAGTTTTATAAT
Found at i:107956960 original size:29 final size:30
Alignment explanation
Indices: 107956897--107956960 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 30
107956887 GTTATTAGTT
* **
107956897 TTATAATATTTTAAATATTATTTAATTTATT
1 TTATAATATTTTAAATATGATTT-ATTTAAA
107956928 TTATAATATTTTAAATTATGA-TT-TTTAAA
1 TTATAATATTTTAAA-TATGATTTATTTAAA
107956957 TTAT
1 TTAT
107956961 TTTTAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.28
31 17 0.59
32 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTATAATATTTTAAATATGATTTATTTAAA
Found at i:107957123 original size:15 final size:13
Alignment explanation
Indices: 107957092--107957116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107957082 AATTTTAAAG
107957092 ATAATTTAAAATT
1 ATAATTTAAAATT
107957105 ATAATTTAAAAT
1 ATAATTTAAAAT
107957117 ATTATAAAAC
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTTAAAATT
Found at i:107957213 original size:20 final size:20
Alignment explanation
Indices: 107957203--107957251 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
107957193 TTTTATATTA
107957203 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAATAT
*
107957223 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAATA-T
107957245 TTAAAAA
1 TTAAAAA
107957252 GTAATTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATATATTTAATAT
Found at i:107957229 original size:21 final size:22
Alignment explanation
Indices: 107957189--107957256 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
107957179 AAAATATTTA
*
107957189 AATATTTTATATTATTAAAAAAT
1 AATATTTAATATT-TTAAAAAAT
107957212 -ATATTTAATA-TTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
* *
107957232 AATATTTAAAATTTTAAAAAGT
1 AATATTTAATATTTTAAAAAAT
107957254 AAT
1 AAT
107957257 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 9 0.22
21 10 0.25
22 21 0.52
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:107957258 original size:20 final size:21
Alignment explanation
Indices: 107957203--107957264 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
107957193 TTTTATATTA
*
107957203 TTAAAAAATATATTTAATA-T
1 TTAAAAAATATATTTAAAATT
107957223 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAAAATT
*
107957245 TTAAAAAGTA-ATTTCAAAAT
1 TTAAAAAATATATTT-AAAAT
107957265 ATATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.35
21 15 0.41
22 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:107957274 original size:26 final size:24
Alignment explanation
Indices: 107957244--107957325 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 24
107957234 TATTTAAAAT
107957244 TTTAAAAAGTAATTTCAAAATATATA
1 TTTAAAAA-T-ATTTCAAAATATATA
*
107957270 TTT-AAAAT-TTACAAAAATATATA
1 TTTAAAAATATTTC-AAAATATATA
*
107957293 TTAATAAAATATTTC-AAATATATA
1 TTTA-AAAATATTTCAAAATATATA
*
107957317 TTTCAAAAT
1 TTTAAAAAT
107957326 TTTTAAAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.06
23 17 0.36
24 12 0.26
25 9 0.19
26 6 0.13
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (24 bp):
TTTAAAAATATTTCAAAATATATA
Found at i:107957316 original size:24 final size:23
Alignment explanation
Indices: 107957255--107957325 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
107957245 TTAAAAAGTA
107957255 ATTTCAAAATATATATTTAAAAT
1 ATTTCAAAATATATATTTAAAAT
*
107957278 -TTACAAAAATATATATTAATAAAAT
1 ATTTC-AAAATATATATT--TAAAAT
107957303 ATTTC-AAATATATATTTCAAAAT
1 ATTTCAAAATATATATTT-AAAAT
107957326 TTTTAAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
22 4 0.10
23 17 0.41
24 11 0.27
25 6 0.15
26 3 0.07
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTCAAAATATATATTTAAAAT
Found at i:107963083 original size:41 final size:42
Alignment explanation
Indices: 107962964--107963102 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 42
107962954 AATCGGTACT
* * *
107962964 TAGTACCTCATCA-AATTTAATCCGAAGCAATAATACAACATA
1 TAGTGCCTCATCAGAA-TTAATCCGAAGCAATAATACGACACA
* * *
107963006 TAGTGCCTCATCGGATTTAATCTGAAGCAATAATACGACACA
1 TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACACA
107963048 TAGTGCCTCATCAGAATT-ATCCGAAGCAATAATACGACACATA
1 TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACAC--A
107963091 TAGTGCCTCATC
1 TAGTGCCTCATC
107963103 GACTCGAGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 21 0.25
42 50 0.59
43 14 0.16
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (42 bp):
TAGTGCCTCATCAGAATTAATCCGAAGCAATAATACGACACA
Found at i:107964072 original size:5 final size:5
Alignment explanation
Indices: 107964064--107964112 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
107964054 TTCTTTTGTT
107964064 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
107964113 TTTTAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:107966622 original size:14 final size:14
Alignment explanation
Indices: 107966600--107966629 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107966590 ATAATAAGCG
*
107966600 AACTGTTATGAACA
1 AACTATTATGAACA
107966614 AACTATTATGAACA
1 AACTATTATGAACA
107966628 AA
1 AA
107966630 TTAAAACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (14 bp):
AACTATTATGAACA
Found at i:107974251 original size:24 final size:24
Alignment explanation
Indices: 107974197--107974244 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
107974187 ACAAAACTTT
107974197 AATAA-TGAGATTTTAAAATTTATA
1 AATAATTG-GATTTTAAAATTTATA
*
107974221 AATAATTGGATTTT-ATATTTATA
1 AATAATTGGATTTTAAAATTTATA
107974244 A
1 A
107974245 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 11 0.50
25 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
AATAATTGGATTTTAAAATTTATA
Found at i:107975890 original size:45 final size:45
Alignment explanation
Indices: 107975826--107975916 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
107975816 GGTGATTGTA
107975826 ATTGATCAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
1 ATTGATCAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
107975871 ATTGATCAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
1 ATTGATCAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
107975916 A
1 A
107975917 CTGCTATTCA
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:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (45 bp):
ATTGATCAAGATATTCAATCATGTAAGGATATTTTTAAAAGTTTT
Found at i:107977323 original size:15 final size:16
Alignment explanation
Indices: 107977290--107977320 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107977280 CTAATTATCC
*
107977290 TAAAGTGACCCAAAAA
1 TAAAATGACCCAAAAA
107977306 TAAAATGACCCAAAA
1 TAAAATGACCCAAAA
107977321 TAACTAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (16 bp):
TAAAATGACCCAAAAA
Found at i:107978525 original size:9 final size:9
Alignment explanation
Indices: 107978511--107978540 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
107978501 CTAATAATTT
107978511 AAAATTTTA
1 AAAATTTTA
107978520 AAAATTTTA
1 AAAATTTTA
107978529 AAAATTTTA
1 AAAATTTTA
107978538 AAA
1 AAA
107978541 GACCTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:107980617 original size:20 final size:20
Alignment explanation
Indices: 107980594--107980634 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
107980584 GTTTTCTGAA
107980594 GATATCTCATAACCCTTTTG
1 GATATCTCATAACCCTTTTG
107980614 GATATCTCATAACCCTTTTG
1 GATATCTCATAACCCTTTTG
107980634 G
1 G
107980635 CTACTATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (20 bp):
GATATCTCATAACCCTTTTG
Found at i:107984300 original size:16 final size:16
Alignment explanation
Indices: 107984279--107984312 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
107984269 GGTACTCTTG
107984279 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
107984295 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
107984311 TT
1 TT
107984313 AACAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (16 bp):
TTGTAGCAATCAAACA
Found at i:107985703 original size:14 final size:14
Alignment explanation
Indices: 107985684--107985712 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
107985674 TTAAAGTAAA
107985684 TTAAATGGGTGAGT
1 TTAAATGGGTGAGT
107985698 TTAAATGGGTGAGT
1 TTAAATGGGTGAGT
107985712 T
1 T
107985713 GGAAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (14 bp):
TTAAATGGGTGAGT
Found at i:107986590 original size:3 final size:3
Alignment explanation
Indices: 107986584--107986613 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
107986574 CCCTAATAAC
107986584 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
107986614 CACTGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:107991422 original size:21 final size:23
Alignment explanation
Indices: 107991396--107991437 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
107991386 CATGTCTGAA
*
107991396 ATTAAATTATAA-TTT-TTATAG
1 ATTAAAATATAACTTTATTATAG
107991417 ATTAAAATATAACTTTATTAT
1 ATTAAAATATAACTTTATTAT
107991438 TTTTAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTAAAATATAACTTTATTATAG
Found at i:108012426 original size:20 final size:20
Alignment explanation
Indices: 108012401--108012444 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
108012391 GCATAAGTGT
108012401 TTCTATTTTG-ATACTGAATG
1 TTCTATTTTGTATACT-AATG
*
108012421 TTCTATTTTGTATAGTAATG
1 TTCTATTTTGTATACTAATG
108012441 TTCT
1 TTCT
108012445 GTAACCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (20 bp):
TTCTATTTTGTATACTAATG
Found at i:108021562 original size:10 final size:10
Alignment explanation
Indices: 108021527--108021554 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
108021517 AACATTCGCC
108021527 GCCGCCGTGT
1 GCCGCCGTGT
108021537 GCCGCCGTGT
1 GCCGCCGTGT
108021547 GCCGCCGT
1 GCCGCCGT
108021555 CGTCCGCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.43, G:0.39, T:0.18
Consensus pattern (10 bp):
GCCGCCGTGT
Found at i:108022855 original size:46 final size:46
Alignment explanation
Indices: 108022795--108023228 Score: 522
Period size: 46 Copynumber: 10.0 Consensus size: 46
108022785 TTTGACGTGA
* * * * * *
108022795 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
108022841 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
108022887 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
108022933 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
108022979 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
108023017 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
108023063 TGCCATGGTATCTTTCAACCATGGTCTT----A---CATA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
108023101 TGCCATGGTATCTTTTAACCATGGTCTTACACATTACATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
108023147 TGCTATGGTATCTTTCAGCCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
108023185 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
108023229 AGAGCACACT
Statistics
Matches: 341, Mismatches: 22, Indels: 50
0.83 0.05 0.12
Matches are distributed among these distances:
38 94 0.28
39 6 0.02
40 6 0.02
41 2 0.01
42 2 0.01
43 2 0.01
44 6 0.02
45 10 0.03
46 213 0.62
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:108023025 original size:38 final size:38
Alignment explanation
Indices: 108022974--108023217 Score: 290
Period size: 38 Copynumber: 6.0 Consensus size: 38
108022964 CATTTCATAT
108022974 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
108023012 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
* *
108023057 TCAGATTGCCATGGTATCTTTCAACCATGGTCTTACATA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
108023096 CAGGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTACATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--AC---AC--A
* *
108023141 TCAGGTTGCTATGGTATCTTTCAGCCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
108023180 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
108023218 TTTCATATCA
Statistics
Matches: 179, Mismatches: 11, Indels: 32
0.81 0.05 0.14
Matches are distributed among these distances:
38 99 0.55
39 2 0.01
40 5 0.03
41 2 0.01
43 2 0.01
44 5 0.03
45 2 0.01
46 62 0.35
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:108023069 original size:84 final size:84
Alignment explanation
Indices: 108022928--108023229 Score: 532
Period size: 84 Copynumber: 3.6 Consensus size: 84
108022918 CATCTCATAT
*
108022928 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTT
108022993 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
108023012 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTT
*
108023077 TCAACCATGGTCTTACATA
66 TCAACCATGGTCTTACACA
* * * *
108023096 CAGGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTACATATCAGGTTGCTATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTT
*
108023161 TCAGCCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
108023180 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
108023230 GAGCACACTC
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 206 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:108023161 original size:168 final size:171
Alignment explanation
Indices: 108022839--108023229 Score: 619
Period size: 168 Copynumber: 2.3 Consensus size: 171
108022829 TTTCTGTCAT
** * *
108022839 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACG-TTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GATTGCCATGGTATCTTTC
108022903 AACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
65 AACCATGGTCTT--A-A--TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
*
108022968 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
125 ACATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
108023015 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCA
*
108023080 ACCATGGTCTT-A-CATA-CAGGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTACATAT
66 ACCATGGTCTTAATCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTACATAT
* *
108023142 CAGGTTGCTATGGTATCTTTCAGCCATGGTCTTACACACAG
131 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
*
108023183 GTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
108023230 GAGCACACTC
Statistics
Matches: 205, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
168 129 0.63
169 4 0.02
172 1 0.00
175 1 0.00
176 70 0.34
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (171 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCA
ACCATGGTCTTAATCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTACATAT
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:108028038 original size:17 final size:16
Alignment explanation
Indices: 108027989--108028044 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
108027979 ATAGGAAATT
*
108027989 TTATTTTAAGTTTAT-
1 TTATTTTAATTTTATA
*
108028004 TTATTTTTAATTAT-TA
1 TTA-TTTTAATTTTATA
108028020 TTATTTTAGATTTTATA
1 TTATTTTA-ATTTTATA
108028037 TTAATTTT
1 TT-ATTTT
108028045 CTTAAGCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.27
16 15 0.45
17 4 0.12
18 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTATTTTAATTTTATA
Found at i:108037357 original size:118 final size:118
Alignment explanation
Indices: 108037197--108037427 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
108037187 TATTTCTGGT
108037197 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
108037262 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCGTACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCGTACTCATAACCTCGGC
**** *
108037315 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGGAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
108037380 CCTACCCTGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCGTACTCATAACC
108037428 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCGTACTCATAACCTCGGC
Found at i:108038164 original size:42 final size:42
Alignment explanation
Indices: 108038105--108038203 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
108038095 GGGATTCTAA
* * *
108038105 GGCTGAAATAGGACTGTTTGGCTGCAGAGATATAGCATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
* * *
108038147 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
*
108038189 GGTTGGAATAGAACT
1 GGCTGGAATAGAACT
108038204 CTTCGTATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.28
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
Found at i:108038265 original size:6 final size:6
Alignment explanation
Indices: 108038254--108038318 Score: 64
Period size: 6 Copynumber: 10.5 Consensus size: 6
108038244 AAATTTATTT
108038254 AAATAA AAATAA AAAT-A AAATAA TAAATAA TAAATAA TAAA-AGA AAA-AA
1 AAATAA AAATAA AAATAA AAATAA -AAATAA -AAATAA -AAATA-A AAATAA
108038303 TAAATAA AAATAA AAA
1 -AAATAA AAATAA AAA
108038319 GAAAGATTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
5 6 0.11
6 28 0.52
7 20 0.37
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:108038318 original size:7 final size:7
Alignment explanation
Indices: 108038254--108038318 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
108038244 AAATTTATTT
108038254 AAAT-AA
1 AAATAAA
108038260 AAAT-AA
1 AAATAAA
108038266 AAATAAA
1 AAATAAA
108038273 ATAATAAA
1 A-AATAAA
*
108038281 TAATAAA
1 AAATAAA
*
108038288 TAATAAA
1 AAATAAA
*
108038295 AGAAAAAA
1 A-AATAAA
108038303 TAAAT-AA
1 -AAATAAA
108038310 AAATAAA
1 AAATAAA
108038317 AA
1 AA
108038319 GAAAGATTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
6 14 0.28
7 22 0.44
8 13 0.26
9 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:108044730 original size:30 final size:30
Alignment explanation
Indices: 108044674--108044731 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
108044664 AATTAAAACT
*
108044674 ATTTTTAATTACATCTGAATTCATTCAACC
1 ATTTTTAATTACATCTGAATTAATTCAACC
* *
108044704 ATTTTTAAATTAGAT-TTAATTAATTCAA
1 ATTTTT-AATTACATCTGAATTAATTCAA
108044732 TCAACTTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTTTAATTACATCTGAATTAATTCAACC
Found at i:108047224 original size:17 final size:18
Alignment explanation
Indices: 108047191--108047227 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
108047181 ATGGTTGACA
108047191 AGGAGAGAATAGAGCAAT
1 AGGAGAGAATAGAGCAAT
108047209 AGGAG-GAATA-ATGCAAT
1 AGGAGAGAATAGA-GCAAT
108047226 AG
1 AG
108047228 AGCAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 12 0.67
18 5 0.28
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.14
Consensus pattern (18 bp):
AGGAGAGAATAGAGCAAT
Found at i:108048666 original size:32 final size:28
Alignment explanation
Indices: 108048627--108048692 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
108048617 AGTAGCTTGT
108048627 AAATAATATATAATTATTAAATATTAAATTAA
1 AAATAATATA-AATTATTAAA-A--AAATTAA
* *
108048659 AAATAATATAAATTTTTTAAAAAATTAA
1 AAATAATATAAATTATTAAAAAAATTAA
108048687 AAATAA
1 AAATAA
108048693 GATGAGTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 13 0.41
30 1 0.03
31 8 0.25
32 10 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATAATATAAATTATTAAAAAAATTAA
Found at i:108053391 original size:27 final size:25
Alignment explanation
Indices: 108053360--108053409 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
108053350 ACTTGAAATG
108053360 TATATTTGAAATATTTTATAATATACA
1 TATATTTGAAA-ATTTTA-AATATACA
**
108053387 TATATTTTTAAATTTTAAATATA
1 TATATTTGAAAATTTTAAATATA
108053410 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 6 0.29
27 9 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATTTGAAAATTTTAAATATACA
Found at i:108053450 original size:13 final size:12
Alignment explanation
Indices: 108053399--108053491 Score: 56
Period size: 12 Copynumber: 7.9 Consensus size: 12
108053389 TATTTTTAAA
108053399 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
108053413 TTTTAAAATCAT
1 TTTTAAAATTAT
*
108053425 TTTTTAAA--A-
1 TTTTAAAATTAT
108053434 TTTTAAATATTAT
1 TTTTAAA-ATTAT
108053447 TTTT-AAATTATT
1 TTTTAAAATTA-T
108053459 TTTTAAAA--AT
1 TTTTAAAATTAT
* *
108053469 TTAT-ATATTAT
1 TTTTAAAATTAT
108053480 TTTTAAATATTA
1 TTTTAAA-ATTA
108053492 AATATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
9 8 0.13
10 6 0.10
11 10 0.16
12 18 0.29
13 13 0.21
14 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:108053471 original size:20 final size:20
Alignment explanation
Indices: 108053448--108053502 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
108053438 AAATATTATT
108053448 TTTAAATTATTTTTTAAAAA
1 TTTAAATTATTTTTTAAAAA
*
108053468 TTTATATATTA-TTTTTAAATA
1 TTTA-A-ATTATTTTTTAAAAA
108053489 -TTAAATATATTTTT
1 TTTAAAT-TATTTTT
108053503 AATAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 11 0.37
21 10 0.33
22 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAATTATTTTTTAAAAA
Found at i:108053487 original size:33 final size:33
Alignment explanation
Indices: 108053391--108053487 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
108053381 TATACATATA
108053391 TTTTT-AAATTTTAAATATATATTTTTAAAATCAT
1 TTTTTAAAATTTTAAATAT-TATTTTT-AAATCAT
*
108053425 TTTTTAAAATTTTAAATATTATTTTTAAATTAT
1 TTTTTAAAATTTTAAATATTATTTTTAAATCAT
* *
108053458 TTTTTAAAAATTTATATATTATTTTTAAAT
1 TTTTTAAAATTTTAAATATTATTTTTAAAT
108053488 ATTAAATATA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
33 34 0.58
34 12 0.20
35 13 0.22
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (33 bp):
TTTTTAAAATTTTAAATATTATTTTTAAATCAT
Found at i:108053496 original size:22 final size:22
Alignment explanation
Indices: 108053453--108053502 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
108053443 TTATTTTTAA
*
108053453 ATTATTTTTTAAAAATTTATAT
1 ATTATTTTTTAAAAATTAATAT
*
108053475 ATTA-TTTTTAAATATTAA-AT
1 ATTATTTTTTAAAAATTAATAT
108053495 A-TATTTTT
1 ATTATTTTT
108053503 AATAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.28
21 12 0.48
22 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTTTTTAAAAATTAATAT
Found at i:108053513 original size:20 final size:20
Alignment explanation
Indices: 108053453--108053513 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
108053443 TTATTTTTAA
* *
108053453 ATTATTTTTTAAAAATTTATAT
1 ATTA-TTTTT-AAAATATAAAT
108053475 ATTATTTTT-AAATATTAAAT
1 ATTATTTTTAAAATA-TAAAT
108053495 A-TATTTTTAATAATATAAA
1 ATTATTTTTAA-AATATAAA
108053514 ACATTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 11 0.32
20 10 0.29
21 9 0.26
22 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTTTTAAAATATAAAT
Found at i:108053629 original size:24 final size:21
Alignment explanation
Indices: 108053569--108053632 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 21
108053559 TTTTATAATA
108053569 TTTTAAATATATATTTTAATTTG
1 TTTTAAAT-TAT-TTTTAATTTG
108053592 TTTTATAATT-TTTTTAATTATGAG
1 TTTTA-AATTATTTTTAATT-T--G
108053616 TTTTAAATTATTTTTAA
1 TTTTAAATTATTTTTAA
108053633 AGATATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.22
22 2 0.06
23 10 0.28
24 16 0.44
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTAAATTATTTTTAATTTG
Found at i:108053720 original size:12 final size:13
Alignment explanation
Indices: 108053666--108053720 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
108053656 AAATGTTTGA
108053666 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
108053680 A-ATTTTAAAATT
1 ATATTTTAAAATT
108053692 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
108053709 ATA-TTTAAAATT
1 ATATTTTAAAATT
108053721 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:108053813 original size:24 final size:25
Alignment explanation
Indices: 108053774--108053820 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
108053764 AGGTCATATC
*
108053774 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAATAA
*
108053799 TTTAAAAATTA-ATATTTAAAAT
1 TTTAAAAATAATATATTTAAAAT
108053821 TTAGAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAAAAATAATATATTTAAAATAA
Found at i:108053934 original size:13 final size:14
Alignment explanation
Indices: 108053916--108053944 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
108053906 AATTGATAAT
108053916 AATAAATAAA-ATA
1 AATAAATAAAGATA
108053929 AATAAATAAAGATA
1 AATAAATAAAGATA
108053943 AA
1 AA
108053945 GACAAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAATAAAGATA
Found at i:108053998 original size:40 final size:40
Alignment explanation
Indices: 108053919--108054011 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
108053909 TGATAATAAT
* *
108053919 AAATAAAATAAATAAATAAAGATAAAGACAAAACTTAAAAA
1 AAATAAAA-AAATAAATAAAAATAAAGACAAAACGTAAAAA
*
108053960 AAATAAAAAAATAAATAAACAAT-ATGACCAAAA-GTAAAAA
1 AAATAAAAAAATAAATAAA-AATAAAGA-CAAAACGTAAAAA
*
108054000 AAGAAAAAAAAA
1 AA-ATAAAAAAA
108054012 AACAAAGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 22 0.49
41 23 0.51
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (40 bp):
AAATAAAAAAATAAATAAAAATAAAGACAAAACGTAAAAA
Found at i:108054482 original size:19 final size:18
Alignment explanation
Indices: 108054439--108054498 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
108054429 TTATATTTTT
*
108054439 AAAAA-ATTATAAAATTTA
1 AAAAATATTA-AAAAATTA
*
108054457 AAAAATATTAGAAAATCTA
1 AAAAATATTAAAAAAT-TA
*
108054476 AAGAATATATAAAAAATTA
1 AAAAATAT-TAAAAAATTA
108054495 AAAA
1 AAAA
108054499 GACTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 18 0.53
20 7 0.21
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAATATTAAAAAATTA
Found at i:108055447 original size:70 final size:70
Alignment explanation
Indices: 108055360--108055499 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
108055350 TTAGATAGTT
*
108055360 TTCTGTCACTTTTACTAAACCATGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATA
1 TTCTGTCACTTTTACTAAACCAAGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATA
108055425 CACTA
66 CACTA
108055430 TTCTGTCACTTTTACTAAACCAAGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATA
1 TTCTGTCACTTTTACTAAACCAAGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATA
108055495 CACTA
66 CACTA
108055500 ACTTAGAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (70 bp):
TTCTGTCACTTTTACTAAACCAAGTGACAAATTTGCAAAGATATCATTCTTAAAAAACAATTATA
CACTA
Found at i:108056463 original size:26 final size:25
Alignment explanation
Indices: 108056424--108056509 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
108056414 CCTAGTGAGA
*
108056424 TTGAG-TTGAGTGGGTTGAAGGTCCC
1 TTGAGTTTGAGTGGGTCG-AGGTCCC
* *
108056449 TTGAGTTTGAATGGGTCCGAGGACCC
1 TTGAGTTTGAGTGGGT-CGAGGTCCC
**
108056475 TTGAGTTTGAGTTAGTCGGAGGTCCC
1 TTGAGTTTGAGTGGGTC-GAGGTCCC
108056501 TTGAGTTTG
1 TTGAGTTTG
108056510 GGTTGGTTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.12
26 44 0.86
27 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.36, T:0.34
Consensus pattern (25 bp):
TTGAGTTTGAGTGGGTCGAGGTCCC
Found at i:108059008 original size:13 final size:13
Alignment explanation
Indices: 108058990--108059014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108058980 GTTAAAAAAT
108058990 TAAATAATATTAA
1 TAAATAATATTAA
108059003 TAAATAATATTA
1 TAAATAATATTA
108059015 GTATAGCAGG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATAATATTAA
Found at i:108060618 original size:17 final size:18
Alignment explanation
Indices: 108060582--108060619 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
108060572 ATCTATACTA
**
108060582 AATATATAATATTATTAT
1 AATATATAATATTAACAT
108060600 AATATA-AATATTAACAT
1 AATATATAATATTAACAT
108060617 AAT
1 AAT
108060620 GTTAAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATATAATATTAACAT
Found at i:108064620 original size:131 final size:131
Alignment explanation
Indices: 108064455--108064704 Score: 410
Period size: 131 Copynumber: 1.9 Consensus size: 131
108064445 TTAGAAGATA
* *
108064455 TGAAATTTTGATGGGATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
* * *
108064520 CACGATTCCACGAATTGCTAAATATCGAATCTCGTCTTCGTTTTGAAGAATTTTAAAAGACATGA
66 CACGATTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTTAAAAGACATGA
108064585 G
131 G
* * **
108064586 TGAAATTTTGAAGTAATATTCGATTATTTTGAGCAAACGTGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
*
108064651 CACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTT
66 CACGATTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTT
108064705 TGAATGAATG
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 109 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (131 bp):
TGAAATTTTGAAGGAATACTCGATTATTTTGAGCAAACACGAAATTGCAACCCAACACGTTAGGG
CACGATTCCACGAATTGCCAAACATCGAATCTCGTCTTCATTTTGAAGAATTTTAAAAGACATGA
G
Found at i:108069155 original size:18 final size:18
Alignment explanation
Indices: 108069128--108069186 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
108069118 AATTATGACG
*
108069128 AGAAGCACCACACGTAGC
1 AGAAGAACCACACGTAGC
108069146 AGAAGAA-C-CA---AG-
1 AGAAGAACCACACGTAGC
*
108069158 AGAAGCACCACACGTAGC
1 AGAAGAACCACACGTAGC
108069176 AGAAGAACCAC
1 AGAAGAACCAC
108069187 TCAGATCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
12 6 0.19
13 3 0.09
14 2 0.06
16 2 0.06
17 3 0.09
18 16 0.50
ACGTcount: A:0.46, C:0.29, G:0.22, T:0.03
Consensus pattern (18 bp):
AGAAGAACCACACGTAGC
Found at i:108069161 original size:30 final size:30
Alignment explanation
Indices: 108069127--108069185 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
108069117 GAATTATGAC
108069127 GAGAAGCACCACACGTAGCAGAAGAACCAA
1 GAGAAGCACCACACGTAGCAGAAGAACCAA
108069157 GAGAAGCACCACACGTAGCAGAAGAACCA
1 GAGAAGCACCACACGTAGCAGAAGAACCA
108069186 CTCAGATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.27, G:0.24, T:0.03
Consensus pattern (30 bp):
GAGAAGCACCACACGTAGCAGAAGAACCAA
Found at i:108075769 original size:16 final size:17
Alignment explanation
Indices: 108075731--108075771 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
108075721 AAGTTTATAA
108075731 AATTT-TATATTATGTT
1 AATTTATATATTATGTT
*
108075747 ATTTTTATATATTATG-T
1 A-ATTTATATATTATGTT
108075764 AATTTATA
1 AATTTATA
108075772 ACAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
AATTTATATATTATGTT
Found at i:108076512 original size:12 final size:12
Alignment explanation
Indices: 108076495--108076536 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
108076485 ATAAAAAAAA
108076495 TTTAATTATTTT
1 TTTAATTATTTT
108076507 TTTAATTATTTT
1 TTTAATTATTTT
* *
108076519 ATTTCATTTTTTT
1 -TTTAATTATTTT
108076532 TTTAA
1 TTTAA
108076537 CATTCTCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTAATTATTTT
Found at i:108080044 original size:18 final size:18
Alignment explanation
Indices: 108080021--108080055 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108080011 TTATTTTTAC
*
108080021 TTTTTACTTTTACTATAA
1 TTTTTACATTTACTATAA
108080039 TTTTTACATTTACTATA
1 TTTTTACATTTACTATA
108080056 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTACATTTACTATAA
Found at i:108088047 original size:22 final size:22
Alignment explanation
Indices: 108088020--108088065 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
108088010 AAAAACTTTG
108088020 TTGTCACCACTTGCACCGCCCT
1 TTGTCACCACTTGCACCGCCCT
*
108088042 TTGTCACCACTTGCATCGCCCT
1 TTGTCACCACTTGCACCGCCCT
108088064 TT
1 TT
108088066 AGGGTCACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.41, G:0.13, T:0.33
Consensus pattern (22 bp):
TTGTCACCACTTGCACCGCCCT
Found at i:108096449 original size:22 final size:22
Alignment explanation
Indices: 108096424--108096468 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108096414 ATAGAAATTG
108096424 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
108096446 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
108096468 T
1 T
108096469 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:108100197 original size:22 final size:22
Alignment explanation
Indices: 108100169--108100213 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108100159 AGGGGGAGTG
108100169 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
108100191 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
108100213 T
1 T
108100214 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:108104518 original size:17 final size:18
Alignment explanation
Indices: 108104493--108104540 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
108104483 GAAAAAATAA
* *
108104493 TAAAATAAATAATACAT-
1 TAAATTAAATAATAAATC
*
108104510 TAAATTAAAAAATAAATC
1 TAAATTAAATAATAAATC
108104528 TAAATTTAAATAA
1 TAAA-TTAAATAA
108104541 AATAAACGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTAAATAATAAATC
Found at i:108106245 original size:31 final size:31
Alignment explanation
Indices: 108106207--108106268 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
108106197 ATGGTCCTTA
*
108106207 AACTATTC-TAAAGTTTTCATTTAAGTTATTG
1 AACTATTCAT-AAGTTTTCATTTAAGTCATTG
*
108106238 AACTATTCATAAGTTTTTATTTAAGTCATTG
1 AACTATTCATAAGTTTTCATTTAAGTCATTG
108106269 GATTGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (31 bp):
AACTATTCATAAGTTTTCATTTAAGTCATTG
Found at i:108107858 original size:2 final size:2
Alignment explanation
Indices: 108107846--108107879 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
108107836 AGTTAGGCAC
*
108107846 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
108107880 GGGGCTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:108111676 original size:18 final size:18
Alignment explanation
Indices: 108111644--108111689 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
108111634 AAAAGAATAC
108111644 AAAACAAATTAAAAATTAT
1 AAAA-AAATTAAAAATTAT
* * *
108111663 AAAGAAATTTAAAATTTT
1 AAAAAAATTAAAAATTAT
108111681 AAAAAAATT
1 AAAAAAATT
108111690 CAAGTGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAAATTAAAAATTAT
Found at i:108115998 original size:21 final size:22
Alignment explanation
Indices: 108115933--108115998 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
108115923 ATATTAGTTT
108115933 TATTTTT-TTAAAAATATTTTA
1 TATTTTTATTAAAAATATTTTA
** *
108115954 T-TATTTTATT-TTAATATTTAA
1 TAT-TTTTATTAAAAATATTTTA
108115975 TATTTTTATTAAAAAT-TTTTA
1 TATTTTTATTAAAAATATTTTA
108115996 TAT
1 TAT
108115999 AGGCATCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 1 0.03
21 28 0.80
22 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTATTAAAAATATTTTA
Found at i:108116207 original size:13 final size:13
Alignment explanation
Indices: 108116189--108116227 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
108116179 TTTTAAATAG
108116189 GCCTATGCCCTTT
1 GCCTATGCCCTTT
*
108116202 GCCTATGCCTTTT
1 GCCTATGCCCTTT
108116215 GCCTATGCCCTTT
1 GCCTATGCCCTTT
108116228 TTTAAGCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.36, G:0.15, T:0.41
Consensus pattern (13 bp):
GCCTATGCCCTTT
Found at i:108120057 original size:31 final size:31
Alignment explanation
Indices: 108120019--108120079 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
108120009 ACATCTTGTG
108120019 AGAAATTTTGTCTATTTGGAAACTTTTTATA
1 AGAAATTTTGTCTATTTGGAAACTTTTTATA
108120050 AGAAATTTTGTCTATTTGGAAACTTTTTAT
1 AGAAATTTTGTCTATTTGGAAACTTTTTAT
108120080 GTTATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (31 bp):
AGAAATTTTGTCTATTTGGAAACTTTTTATA
Found at i:108124141 original size:19 final size:19
Alignment explanation
Indices: 108124105--108124140 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
108124095 CATATAATTA
108124105 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCATAAAAT
*
108124124 TTTAATATTTTC-TAAAA
1 TTTAAAATTTTCATAAAA
108124141 AAAACCTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAATTTTCATAAAAT
Found at i:108124617 original size:20 final size:21
Alignment explanation
Indices: 108124594--108124641 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
108124584 TTGACTCTTT
* *
108124594 TTTAAATATATTA-AATTTAA
1 TTTAAATAAATAATAATTTAA
108124614 TTTAAA-AAATAATAATTTAA
1 TTTAAATAAATAATAATTTAA
108124634 TTTCAAAT
1 TTT-AAAT
108124642 TAACAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAATAAATAATAATTTAA
Found at i:108124644 original size:26 final size:26
Alignment explanation
Indices: 108124598--108124649 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
108124588 CTCTTTTTTA
*
108124598 AATATATTAAATTTAATTTAAAAAAT
1 AATATATTAAATTTAAATTAAAAAAT
* *
108124624 AATA-ATTTAATTTCAAATTAACAAAT
1 AATATATTAAATTT-AAATTAAAAAAT
108124650 GATGCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATATTAAATTTAAATTAAAAAAT
Found at i:108126745 original size:203 final size:207
Alignment explanation
Indices: 108126302--108126771 Score: 607
Period size: 203 Copynumber: 2.3 Consensus size: 207
108126292 ATTCGAGTTG
* * *
108126302 AATCTTTATATGGTTCTTC-GATATCAGAGAT-A---ATGCAGAGCCTTGTGTGTGTTCGTGATG
1 AATCTTTATATGGTTCTTCGGAT-TGA-AGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATG
* * * ** * *
108126362 CTGTTTTTATATGAGGCAATTCTAGTTAGTAGGTATATGGTATTCCCGGTCGAGTGTCGAGCAAG
64 CTGTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAG
*** * * * *
108126427 TCCTGCAGATTTCAGGTACGAGAAAGGCAATGTATGTTGTTTTTGTTGTGCATTTGTTTTGTATG
129 TCCCAAAGATTTCAGGTACGAGAAAGGCAATGTA-GTTGTTGTCGTTGCGCATTTGTTTTCTATG
*
108126492 TATAGCCTGCGATGC
193 TATAGCCTGCAATGC
108126507 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
1 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
* * *
108126572 GTTTATGTA-G-GGCAATTCTAGTTAGTAGGCACACAGTGTTCACGGTTGAGTGTCGAACAAGTC
66 GTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAGTC
*
108126635 CCAAAGATTTCAGGTTCGAGAAAGGCAATGTA-TT-TTGTCGTTGCGCATTTGTTTTCTATGTAT
131 CCAAAGATTTCAGGTACGAGAAAGGCAATGTAGTTGTTGTCGTTGCGCATTTGTTTTCTATGTAT
108126698 AGCCTGCAATGC
196 AGCCTGCAATGC
* * * * *
108126710 AATCTTTATATGGTTCTTTGGATTGAGGATAATCTATTCCGAGCCTTGTTCGTGTTTGTGAT
1 AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGAT
108126772 ACATATACTT
Statistics
Matches: 233, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
203 93 0.40
204 6 0.03
205 22 0.09
206 76 0.33
207 1 0.00
208 35 0.15
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.38
Consensus pattern (207 bp):
AATCTTTATATGGTTCTTCGGATTGAAGATAATCTATGCAGAGCCTTGTTTGTGTTTGTGATGCT
GTTTATATATGAGGCAATTCTAGTTAGTAGGCACACAGTATTCACGGTCGAGTGTCGAACAAGTC
CCAAAGATTTCAGGTACGAGAAAGGCAATGTAGTTGTTGTCGTTGCGCATTTGTTTTCTATGTAT
AGCCTGCAATGC
Found at i:108128678 original size:17 final size:18
Alignment explanation
Indices: 108128656--108128689 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
108128646 AAAAATCTTT
108128656 TTCATTTTTAG-TTTTAC
1 TTCATTTTTAGATTTTAC
108128673 TTCATTTTTAGATTTTA
1 TTCATTTTTAGATTTTA
108128690 TTTTCAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (18 bp):
TTCATTTTTAGATTTTAC
Found at i:108130037 original size:326 final size:326
Alignment explanation
Indices: 108129444--108130098 Score: 1301
Period size: 326 Copynumber: 2.0 Consensus size: 326
108129434 TGAGGTATCG
108129444 AGACCTCAAATTCATTACCGAGCCATAAATATTTTTAGAAATATTTATGGAGTATTAGTAAGTCA
1 AGACCTCAAATTCATTACCGAGCCATAAATATTTTTAGAAATATTTATGGAGTATTAGTAAGTCA
108129509 GTATTAAAGTTTCGCCAAGAAATTTTAAGGTTTCGGTAGTCAATTAGGTAAAAAGAACTAAATTG
66 GTATTAAAGTTTCGCCAAGAAATTTTAAGGTTTCGGTAGTCAATTAGGTAAAAAGAACTAAATTG
108129574 AATTAAGTGCAAAATTATGAAATGTGATTAAATAGCTCTAGTAATAATTAAAGGAGGACTAAATA
131 AATTAAGTGCAAAATTATGAAATGTGATTAAATAGCTCTAGTAATAATTAAAGGAGGACTAAATA
*
108129639 GGCAATTAAACACCTATTATTGGGCTGGACGGCATGTGTGTGCAGGAAAAATAAAAATCAAGTGT
196 GGAAATTAAACACCTATTATTGGGCTGGACGGCATGTGTGTGCAGGAAAAATAAAAATCAAGTGT
108129704 GAACAAGGGGCAAAATTGGAAATTTCGCAAATTAAGCATATAAAACAACACAAAATTGAAAAATC
261 GAACAAGGGGCAAAATTGGAAATTTCGCAAATTAAGCATATAAAACAACACAAAATTGAAAAATC
108129769 T
326 T
108129770 AGACCTCAAATTCATTACCGAGCCATAAATATTTTTAGAAATATTTATGGAGTATTAGTAAGTCA
1 AGACCTCAAATTCATTACCGAGCCATAAATATTTTTAGAAATATTTATGGAGTATTAGTAAGTCA
108129835 GTATTAAAGTTTCGCCAAGAAATTTTAAGGTTTCGGTAGTCAATTAGGTAAAAAGAACTAAATTG
66 GTATTAAAGTTTCGCCAAGAAATTTTAAGGTTTCGGTAGTCAATTAGGTAAAAAGAACTAAATTG
108129900 AATTAAGTGCAAAATTATGAAATGTGATTAAATAGCTCTAGTAATAATTAAAGGAGGACTAAATA
131 AATTAAGTGCAAAATTATGAAATGTGATTAAATAGCTCTAGTAATAATTAAAGGAGGACTAAATA
108129965 GGAAATTAAACACCTATTATTGGGCTGGACGGCATGTGTGTGCAGGAAAAATAAAAATCAAGTGT
196 GGAAATTAAACACCTATTATTGGGCTGGACGGCATGTGTGTGCAGGAAAAATAAAAATCAAGTGT
108130030 GAACAAGGGGCAAAATTGGAAATTTCGCAAATTAAGCATATAAAACAACACAAAATTGAAAAATC
261 GAACAAGGGGCAAAATTGGAAATTTCGCAAATTAAGCATATAAAACAACACAAAATTGAAAAATC
108130095 T
326 T
108130096 AGA
1 AGA
108130099 GATATTATCA
Statistics
Matches: 328, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 328 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (326 bp):
AGACCTCAAATTCATTACCGAGCCATAAATATTTTTAGAAATATTTATGGAGTATTAGTAAGTCA
GTATTAAAGTTTCGCCAAGAAATTTTAAGGTTTCGGTAGTCAATTAGGTAAAAAGAACTAAATTG
AATTAAGTGCAAAATTATGAAATGTGATTAAATAGCTCTAGTAATAATTAAAGGAGGACTAAATA
GGAAATTAAACACCTATTATTGGGCTGGACGGCATGTGTGTGCAGGAAAAATAAAAATCAAGTGT
GAACAAGGGGCAAAATTGGAAATTTCGCAAATTAAGCATATAAAACAACACAAAATTGAAAAATC
T
Found at i:108133195 original size:47 final size:47
Alignment explanation
Indices: 108133093--108133215 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
108133083 TTTTACTAAA
* * * **
108133093 ATGCCATAGCCCAGCTATAGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAATACACATATCACACCG
* *
108133141 ATGCCATATCCCAGATATGGTCTTACACAAATGCACATATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACACAAATACACATATCACACCG
*
108133188 ATGCCATATCCCAGATATGATCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
108133216 GGAAATCACT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 43 0.64
48 24 0.36
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (47 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATACACATATCACACCG
Found at i:108134689 original size:21 final size:23
Alignment explanation
Indices: 108134637--108134689 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
108134627 TGGAGTGTTA
108134637 ATAAGTT-ATTATTAAAGTTTCG
1 ATAAGTTAATTATTAAAGTTTCG
* *
108134659 TTAAG-AAATT-TTAAAGTTTCG
1 ATAAGTTAATTATTAAAGTTTCG
108134680 AT-AGTTAATT
1 ATAAGTTAATT
108134690 GAATAAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (23 bp):
ATAAGTTAATTATTAAAGTTTCG
Found at i:108136454 original size:51 final size:51
Alignment explanation
Indices: 108136388--108136491 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
108136378 GACAAGCAAC
108136388 AAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGATCAGTGACAAGTGAT
* * *
108136439 AAGTGATAAGTGGTAGTTTTAGCTACATTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGATCAGTGACAAGTGAT
108136490 AA
1 AA
108136492 ATGTGATCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGATCAGTGACAAGTGAT
Found at i:108141270 original size:25 final size:26
Alignment explanation
Indices: 108141217--108141276 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
108141207 TATGAGTAAA
*
108141217 AAATATATGTAACAAATTAAAAAA-TT
1 AAATATA-ATAACAAATTAAAAAACTT
* *
108141243 TAATATAATAACAAATTAAAACACTT
1 AAATATAATAACAAATTAAAAAACTT
108141269 AAATATAA
1 AAATATAA
108141277 CAGACGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATATAATAACAAATTAAAAAACTT
Found at i:108142999 original size:103 final size:102
Alignment explanation
Indices: 108142810--108143118 Score: 453
Period size: 103 Copynumber: 3.0 Consensus size: 102
108142800 CTTTATTTTT
* * * * *
108142810 TTATAAATCGCAATTCACCATATCAAGTGTGATCTACGTCCAAATCATACTAATCTTATTACTGT
1 TTATAAATCGCAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTACTGT
* *
108142875 TAGGACTTTGCCCTCCTCTTTTAATTCACAAATAAAA
66 TAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
*
108142912 TTATAAATCGACAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTGCTG
1 TTATAAATCG-CAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTACTG
*
108142977 TTAGGACTTTATCCTCCTCTTTTAATTCACAAACAAAA
65 TTAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
* * *
108143015 TTATAAACCGGCAATTCACCGTACTAAATGTGGTCTAGGTCCGAAT--TA-TAATCTTATTACTG
1 TTATAAATC-GCAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTACTG
* *
108143077 TTAAGACTTTGTCCTCCTTTTTTAATTCACAAACAAAA
65 TTAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
108143115 TTAT
1 TTAT
108143119 TTTATAAATT
Statistics
Matches: 189, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
100 52 0.28
101 2 0.01
102 10 0.05
103 124 0.66
104 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (102 bp):
TTATAAATCGCAATTCACCGTACCAAGTGTGGTCTAGGTCCGAATCATACTAATCTTATTACTGT
TAGGACTTTGTCCTCCTCTTTTAATTCACAAACAAAA
Found at i:108157593 original size:120 final size:120
Alignment explanation
Indices: 108157437--108157675 Score: 433
Period size: 120 Copynumber: 2.0 Consensus size: 120
108157427 TTGAGTAACA
*
108157437 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGACTTGCTAGGATTTGCTTTG
1 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
*
108157502 TTGGACAGGAAGTAGTTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
66 TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
* *
108157557 TTAGCCGGTTTACTGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGGTTTGCTTTG
1 TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
*
108157622 TTGGACAGGAAGTAATTGGTCAATGTACAATAGAGGTCACTTTATTATAGGGAC
66 TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGAC
108157676 TTCATCAATT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.37
Consensus pattern (120 bp):
TTAGCCGGTTTAATGTGTTAGGGTTTAGGGTTAATTGTGTGATTGAATTGCTAGGATTTGCTTTG
TTGGACAGGAAGTAATTGGTCAACGTACAATAGAGGTCACTTTATTATAGGGACG
Found at i:108157967 original size:29 final size:29
Alignment explanation
Indices: 108157933--108157989 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
108157923 TTTCATTCTT
* * *
108157933 TTTAATAGTATAGGGACTAAATTGATCCC
1 TTTAATAATAGAGGCACTAAATTGATCCC
*
108157962 TTTAATAATAGAGGCACTAATTTGATCC
1 TTTAATAATAGAGGCACTAAATTGATCC
108157990 GGTCCCAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (29 bp):
TTTAATAATAGAGGCACTAAATTGATCCC
Found at i:108161644 original size:16 final size:16
Alignment explanation
Indices: 108161623--108161653 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
108161613 ACTATAAAGT
108161623 TAGTACTTTTTATTAA
1 TAGTACTTTTTATTAA
108161639 TAGTACTTTTTATTA
1 TAGTACTTTTTATTA
108161654 TTTCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TAGTACTTTTTATTAA
Found at i:108166072 original size:148 final size:150
Alignment explanation
Indices: 108165902--108166190 Score: 467
Period size: 148 Copynumber: 1.9 Consensus size: 150
108165892 CACATGCATA
* *
108165902 CATACATAGATCCATACATATACATGAAAATGAAGATTAGAGGAACTTTAAAGCAAGGCAAACAT
1 CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
* *
108165967 CTAAAGTACATCAACACG-ATGTATCATGCAAGC-AAGCAAGGG-ATGTTTTACAAATTCTAATT
66 CAAAAGTACATCAACACGTA-GTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATT
108166029 TGGAGAATGCATGCATACATG
130 TGGAGAATGCATGCATACATG
*
108166050 CATACATAGATACATTCATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
1 CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
* * *
108166115 CAAAAGTACATCAACATGTAGTATCATGCAAACAAAGCAAGGGTTTTTTTTACAAATTCTAATTT
66 CAAAAGTACATCAACACGTAGTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATTT
*
108166180 GGAGATTGCAT
131 GGAGAATGCAT
108166191 ATCCATCCAT
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
148 90 0.70
149 10 0.08
150 29 0.22
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (150 bp):
CATACATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACAT
CAAAAGTACATCAACACGTAGTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATTT
GGAGAATGCATGCATACATG
Found at i:108167942 original size:145 final size:145
Alignment explanation
Indices: 108167542--108168134 Score: 576
Period size: 145 Copynumber: 4.1 Consensus size: 145
108167532 GTTACATTAG
* *
108167542 AACCCGAAAAACTTCATTACATACA--AGAA-AAAGTTCATCAACCAAATCTATCATGTGAAA-A
1 AACCCG-AAAACTTCATTACATACACCA-AACAAAGTTCATCAACCAAATCTATCACG-CAAACA
* * *
108167603 ACTCGTGTTCACAGAGCCTAGAACAATCGTGTTTGGGTTAAAGCAACATTTGATTACACAGTCT-
63 ACTCTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTA
108167667 ---AAGAGCTA-TTGAACT
128 ACCAAGAGCTACTT-AACT
* * * *
108167682 AACCCAAAAACTTCATTACATAAACCAAACAGAGTTCAT-AACCAAATCTATCACGCGAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
* ** * * *
108167746 CTTGTTCAAAGAACCTAGAATGACCATGTTTGAGTTAAAGAAACATTTGATTACACAGTCTAACC
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
*
108167811 AAAAGCTACTTAACT
131 AAGAGCTACTTAACT
*** *
108167826 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGGATGTATCACGCAAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
* * * * * **
108167891 CTTTTTCATACAGCCTAGAACAATTGTGTTCGAGTTAAAGCAACATTTGATTTTACAGTCTAACC
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
* *
108167956 AAGAGCTACTGAGCT
131 AAGAGCTACTTAACT
* * * *** * * *
108167971 AACCCGGAAACTTCATTACATACACCAAACGAAGTTCATTAATTGAATATATCACGTAAACAAGT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
** * * ** * * *
108168036 CACGTTCGAAGAACCTAGAATGATCGTGTTTGAGTTACTGCTTTGAGAAACATTTGATTACAGAG
66 CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTA-------AAGCAACATTTGATTACACAG
* *
108168101 TCTAACCAAGAGCTAATGAACT
124 TCTAACCAAGAGCTACTTAACT
108168123 AACCCGAAAACT
1 AACCCGAAAACT
108168135 ATTAACTAAA
Statistics
Matches: 369, Mismatches: 67, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
139 19 0.05
140 78 0.21
141 9 0.02
144 47 0.13
145 169 0.46
152 47 0.13
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (145 bp):
AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACCAAATCTATCACGCAAACAACT
CTTGTTCAAAGAGCCTAGAACAATCGTGTTTGAGTTAAAGCAACATTTGATTACACAGTCTAACC
AAGAGCTACTTAACT
Found at i:108176390 original size:10 final size:11
Alignment explanation
Indices: 108176367--108176399 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
108176357 TTATATCTTT
*
108176367 AATATATTATA
1 AATATATTAAA
108176378 AATA-ATTAAA
1 AATATATTAAA
108176388 AATATATTAAA
1 AATATATTAAA
108176399 A
1 A
108176400 TTAAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATATTAAA
Found at i:108176408 original size:21 final size:21
Alignment explanation
Indices: 108176367--108176408 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108176357 TTATATCTTT
*
108176367 AATATATTATAAATAATTAAA
1 AATATATTATAAATAAGTAAA
108176388 AATATATTA-AAATTAAGTAAA
1 AATATATTATAAA-TAAGTAAA
108176409 TTTTTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATATATTATAAATAAGTAAA
Found at i:108177752 original size:30 final size:30
Alignment explanation
Indices: 108177717--108177795 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
108177707 TTTGTATTTC
108177717 TTTTATAAATTTAAAATTTAGTCATTAAAT
1 TTTTATAAATTTAAAATTTAGTCATTAAAT
* * **
108177747 TTTTAT--TTTTAAAAATTTAGTTATTCTAT
1 TTTTATAAATTT-AAAATTTAGTCATTAAAT
108177776 TTTT-TAAATTATAAAATTTA
1 TTTTATAAATT-TAAAATTTA
108177796 AGTTTAACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 4 0.10
29 19 0.47
30 16 0.40
31 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTATAAATTTAAAATTTAGTCATTAAAT
Found at i:108179621 original size:4 final size:4
Alignment explanation
Indices: 108179614--108179659 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
108179604 CTAAGGTAGG
* * *
108179614 TACA TACA TACA TACA TACA TGCA TGCA TGCA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
108179660 TACATGTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:108182092 original size:60 final size:59
Alignment explanation
Indices: 108181967--108182092 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 59
108181957 GATAGTTTGG
* * * * *
108181967 GGATGTATTTAGAACATTTTGAAGTTTGAGGATCAATTTAGAATGATAATATTAGTTTA
1 GGATATATTTAAAACATTTTAAAGTTTGAGAATCAATTTAGAATGATAATATTAGTTAA
*
108182026 GAGATATATTTAAAACATTTTAAAGTTTG-GAAATCAATTTA-AACTGATGATATTAGTTCAA
1 G-GATATATTTAAAACATTTTAAAGTTTGAG-AATCAATTTAGAA-TGATAATATTAGTT-AA
108182087 GGATAT
1 GGATAT
108182093 CTAGTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
59 4 0.07
60 51 0.89
61 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (59 bp):
GGATATATTTAAAACATTTTAAAGTTTGAGAATCAATTTAGAATGATAATATTAGTTAA
Found at i:108186159 original size:50 final size:52
Alignment explanation
Indices: 108186064--108186164 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
108186054 AGGATAATAC
*
108186064 AATAATATAATAGTAATAATAACAATATAAAAATAGCAATGATAGTAATAAAA
1 AATAATATAATAG-AATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
* * ***
108186117 AATAATATATTA-AATAATAGCAA-ATAAAAATAGTGCTAATAGTAATAA
1 AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAA
108186165 TAGTGGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 21 0.50
51 10 0.24
53 11 0.26
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (52 bp):
AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
Found at i:108186168 original size:18 final size:18
Alignment explanation
Indices: 108186139--108186181 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
108186129 AATAATAGCA
*
108186139 AATAAAAATAGTGCTAAT
1 AATAATAATAGTGCTAAT
* *
108186157 AGTAATAATAGTGGTAAT
1 AATAATAATAGTGCTAAT
108186175 AATAATA
1 AATAATA
108186182 GTAGGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.30
Consensus pattern (18 bp):
AATAATAATAGTGCTAAT
Found at i:108186288 original size:23 final size:24
Alignment explanation
Indices: 108186262--108186308 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
108186252 AATATAATAA
108186262 TAAT-GAAAATATAA-ATAGATGAG
1 TAATAGAAAATA-AACATAGATGAG
108186285 TAATAGGAAAATAAACATAGATGA
1 TAATA-GAAAATAAACATAGATGA
108186309 AAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 2 0.10
25 15 0.71
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.23
Consensus pattern (24 bp):
TAATAGAAAATAAACATAGATGAG
Found at i:108186372 original size:3 final size:3
Alignment explanation
Indices: 108186364--108186488 Score: 55
Period size: 3 Copynumber: 43.3 Consensus size: 3
108186354 ATAAAATAAG
* * * * * * *
108186364 ATA ATA ATA ATA ATA ATA GTC GTA GTA GTA GTA AAA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
108186411 ATA ATA ATA AT- ATA TTAA ATA A-A A-A ATA AT- ATA ATA GTA ACA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
108186453 ATA AT- TTA AAA AAA ATG ATA ATA GTA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108186489 AAATGATGTT
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
2 11 0.12
3 81 0.86
4 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:108186842 original size:3 final size:3
Alignment explanation
Indices: 108186836--108186867 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
108186826 AAAAGAAGAT
108186836 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
108186868 GTGAGTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:108197328 original size:7 final size:7
Alignment explanation
Indices: 108197307--108197368 Score: 83
Period size: 7 Copynumber: 9.1 Consensus size: 7
108197297 AAAATAAAAT
108197307 AAATC-A
1 AAATCAA
*
108197313 AAACCAA
1 AAATCAA
*
108197320 AAAT-TA
1 AAATCAA
*
108197326 AAATGAA
1 AAATCAA
108197333 AAATCAA
1 AAATCAA
108197340 AAATCAA
1 AAATCAA
108197347 AAATCAA
1 AAATCAA
108197354 AAATCAA
1 AAATCAA
108197361 AAATCAA
1 AAATCAA
108197368 A
1 A
108197369 TTTAAGGACG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
6 9 0.18
7 40 0.82
ACGTcount: A:0.71, C:0.13, G:0.02, T:0.15
Consensus pattern (7 bp):
AAATCAA
Found at i:108200604 original size:122 final size:122
Alignment explanation
Indices: 108200383--108200750 Score: 398
Period size: 122 Copynumber: 3.0 Consensus size: 122
108200373 GTAGCTGAAT
* * * * * *
108200383 CCCAATGTTTAGCCTACTGTTGATTGGTGCTATCCTCGTAATTCACGTCGTAAATTTGAGTTATG
1 CCCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTCGAGTTATG
* * ** * *
108200448 ATATGAGTGTGATTGTGATTTATTTCTATTAAGGGTATGTGAATTGTACCATATATA
66 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATA
* * * * * **
108200505 CCCAAAGTTTAGCTTACTGGTCATAGGTGCTATCCTCATAATTCATGTTGTAGATTCGAGCCATG
1 CCCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTCGAGTTATG
* * **
108200570 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTACGT-ACATATATATATATATATA
66 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGA-AT-TGTA-CCATATATA
* * * * * *
108200629 TCCAACA-TTTAGCCTATTGATCATAGGTGCAACCCTCATAATTCACGCCGTAAATTCAAGTTAT
1 CCCAA-AGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTCGAGTTAT
* * *
108200693 GATGTGTGTGTGACAGTGATTTGTTTCTATCAAAGATTTGTGAATTGTACCATATATA
65 GATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATA
108200751 TATATGACTA
Statistics
Matches: 199, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
121 1 0.01
122 95 0.48
123 6 0.03
124 95 0.48
125 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (122 bp):
CCCAAAGTTTAGCCTACTGATCATAGGTGCTATCCTCATAATTCACGTCGTAAATTCGAGTTATG
ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATA
Found at i:108200748 original size:124 final size:124
Alignment explanation
Indices: 108200384--108200753 Score: 381
Period size: 124 Copynumber: 3.0 Consensus size: 124
108200374 TAGCTGAATC
* * * * * * * *
108200384 CCAATGTTTAGCCTACTGTTGATTGGTGCTATCCTCGTAATTCACGTCGTAAATTTGAGTTATGA
1 CCAAAGTTTAGCCTACTGATCATAGGTGCAACCCTCATAATTCACGTCGTAAATTCGAGTTATGA
* * ** * * *
108200449 TATGAGTGTGATTGTGATTTATTTCTATTAAGGGTATGTGAATTGTACC--ATATATAC
66 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATATAT
* * * * * * * **
108200506 CCAAAGTTTAGCTTACTGGTCATAGGTGCTATCCTCATAATTCATGTTGTAGATTCGAGCCATGA
1 CCAAAGTTTAGCCTACTGATCATAGGTGCAACCCTCATAATTCACGTCGTAAATTCGAGTTATGA
* * *
108200571 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTACGT-ACATATATA-TATATATATAT
66 TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGA-AT-TGTACCATATATATAT
* * *
108200630 CCAACA-TTTAGCCTATTGATCATAGGTGCAACCCTCATAATTCACGCCGTAAATTCAAGTTATG
1 CCAA-AGTTTAGCCTACTGATCATAGGTGCAACCCTCATAATTCACGTCGTAAATTCGAGTTATG
* * *
108200694 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAAGATTTGTGAATTGTACCATATATATAT
65 ATGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATATAT
108200754 ATGACTATTA
Statistics
Matches: 201, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
121 1 0.00
122 87 0.43
123 6 0.03
124 105 0.52
125 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (124 bp):
CCAAAGTTTAGCCTACTGATCATAGGTGCAACCCTCATAATTCACGTCGTAAATTCGAGTTATGA
TGTGTGTGTGACAGTGATTTGTTTCTATCAAGGGTATGTGAATTGTACCATATATATAT
Done.