Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 316 of 362
Found at i:105606578 original size:36 final size:36
Alignment explanation
Indices: 105606536--105606818 Score: 187
Period size: 36 Copynumber: 7.6 Consensus size: 36
105606526 AAATAATTAT
* *
105606536 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * ** * *
105606572 TTATTCAATAATAACCAGTTATTTGGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
105606608 TTGATCGGCTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
105606652 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
105606687 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
105606724 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
105606761 -TATCCAGTAACAGTCAATTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
105606796 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
105606819 TTATACCTTA
Statistics
Matches: 185, Mismatches: 46, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 131 0.71
37 19 0.10
42 2 0.01
43 6 0.03
44 17 0.09
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:105606751 original size:72 final size:71
Alignment explanation
Indices: 105606617--105606818 Score: 237
Period size: 72 Copynumber: 2.8 Consensus size: 71
105606607 ATTGATCGGC
* * *
105606617 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
105606681 CAGTC-AT
64 CAGTCTAA
* * * *
105606688 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
105606753 CAGTCTAA
64 CAGTCTAA
* * * *
105606761 TATCCAGTAACAGTCAATTATCCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
105606819 TTATACCTTA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 93 0.85
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:105607047 original size:45 final size:45
Alignment explanation
Indices: 105606984--105607167 Score: 242
Period size: 45 Copynumber: 4.1 Consensus size: 45
105606974 AATCCGGAAT
* * * **
105606984 AGTAACAGTATTCAACACACAAAATGTTGAATCGGTAACGGTAAC
1 AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
* * *
105607029 AATAACAATATTTGACACACAAAGTACCGAATCGGTAACGGTAAC
1 AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
* ** *
105607074 AGTAACAATATTCGACACACACAGTGCCGAATCGGTAACAATAGC
1 AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
* *
105607119 AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGC
1 AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
105607164 AGTA
1 AGTA
105607168 GCGGTAACAA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
AGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
Found at i:105607587 original size:5 final size:5
Alignment explanation
Indices: 105607576--105607622 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
105607566 AATTAATCAT
* * *
105607576 AATTC CATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
105607623 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:105607813 original size:29 final size:30
Alignment explanation
Indices: 105607755--105607814 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
105607745 CATATTCATA
* *
105607755 ATTTATTTTATTTTTATTCAATTCATATTT
1 ATTTATTTTATTTTTATCCAATTCAAATTT
*
105607785 ATTTA-TTTATTTATTGTCCAA-TCAAATTT
1 ATTTATTTTATTT-TTATCCAATTCAAATTT
105607814 A
1 A
105607815 AAATCACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTATTTTATTTTTATCCAATTCAAATTT
Found at i:105608009 original size:21 final size:21
Alignment explanation
Indices: 105607984--105608044 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
105607974 TTCAATTTCA
105607984 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
105608005 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
105608026 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
105608045 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:105609269 original size:26 final size:26
Alignment explanation
Indices: 105609235--105609289 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
105609225 CTTTCCCCTG
*
105609235 TTTCGTCTCCTTCTCTGTTTCTTTTTC
1 TTTCGTCTCCTTCTCT-TTTCTTTTAC
* *
105609262 TTTC-TCTCTTTCTCTTTTGTTTTAC
1 TTTCGTCTCCTTCTCTTTTCTTTTAC
105609287 TTT
1 TTT
105609290 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 10 0.40
27 4 0.16
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTCGTCTCCTTCTCTTTTCTTTTAC
Found at i:105609308 original size:9 final size:9
Alignment explanation
Indices: 105609289--105609332 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
105609279 TGTTTTACTT
105609289 TATAT-ATA
1 TATATAATA
105609297 TATATAATA
1 TATATAATA
105609306 TATATAATA
1 TATATAATA
*
105609315 -ACAATAATA
1 TA-TATAATA
105609324 TATATAATA
1 TATATAATA
105609333 ACAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TATATAATA
Found at i:105609323 original size:18 final size:18
Alignment explanation
Indices: 105609300--105609341 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
105609290 ATATATATAT
105609300 ATAATATATATAATAACA
1 ATAATATATATAATAACA
105609318 ATAATATATATAATAACA
1 ATAATATATATAATAACA
105609336 ATAATA
1 ATAATA
105609342 ATAATGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATATATAATAACA
Found at i:105610737 original size:20 final size:18
Alignment explanation
Indices: 105610678--105610745 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 18
105610668 AGAGTTATAA
*
105610678 AAAATT-ATAAAA-AATT
1 AAAATTAATAAAATCATT
* *
105610694 AAAATTTATAAAATTATT
1 AAAATTAATAAAATCATT
105610712 AGAAATTAATTAAAATCATAT
1 A-AAATTAA-TAAAATCAT-T
*
105610733 AAAATTTATAAAA
1 AAAATTAATAAAA
105610746 AATTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 4 0.09
19 11 0.26
20 14 0.33
21 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTAATAAAATCATT
Found at i:105610780 original size:26 final size:25
Alignment explanation
Indices: 105610738--105610786 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
105610728 CATATAAAAT
* *
105610738 TTATAAAAAATTATTATTTTATATC
1 TTATAAAAAATAATTATATTATATC
*
105610763 TTATATAAAATAACTTATATTATA
1 TTATAAAAAATAA-TTATATTATA
105610787 ATATCAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATAAAAAATAATTATATTATATC
Found at i:105610929 original size:31 final size:28
Alignment explanation
Indices: 105610879--105610936 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 28
105610869 TCTGAATGAG
105610879 AAAAATAATTTTTTTATAAAATATTATC
1 AAAAATAATTTTTTTATAAAATATTATC
*
105610907 AAAAATAATTTAATATTTATAAAATTTTAT
1 AAAAATAATTT--T-TTTATAAAATATTAT
105610937 GATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
30 1 0.04
31 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAAATAATTTTTTTATAAAATATTATC
Found at i:105613926 original size:18 final size:17
Alignment explanation
Indices: 105613893--105613952 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 17
105613883 CATAATAAGT
105613893 AATAATCATATATAATTAA
1 AATAATC-T-TATAATTAA
105613912 AATAATACTTATAA-TAA
1 AATAAT-CTTATAATTAA
*
105613929 AATAATTTTATAATATATA
1 AATAATCTTATAAT-TA-A
105613948 AATAA
1 AATAA
105613953 AAGTAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 6 0.17
17 9 0.25
18 7 0.19
19 13 0.36
20 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATCTTATAATTAA
Found at i:105613941 original size:16 final size:17
Alignment explanation
Indices: 105613903--105613943 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
105613893 AATAATCATA
105613903 TATAATTAAAATAATACT
1 TATAA-TAAAATAATACT
*
105613921 TATAATAAAATAAT-TT
1 TATAATAAAATAATACT
105613937 TATAATA
1 TATAATA
105613944 TATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATAAAATAATACT
Found at i:105622640 original size:19 final size:20
Alignment explanation
Indices: 105622601--105622640 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
105622591 AAAAATCTAA
*
105622601 TTTAATATTTTTATAGGTTT
1 TTTAATATTTTTATAAGTTT
105622621 TTTAA-ATTTTTATAA-TTT
1 TTTAATATTTTTATAAGTTT
105622639 TT
1 TT
105622641 AGAGAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAATATTTTTATAAGTTT
Found at i:105624504 original size:3 final size:3
Alignment explanation
Indices: 105624496--105624520 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
105624486 AACTTAAACC
105624496 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
105624521 ATTATCCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:105625283 original size:20 final size:21
Alignment explanation
Indices: 105625260--105625300 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
105625250 AAATATATTT
*
105625260 TTAA-TTTAAAATTTTAAAAA
1 TTAATTTTAAAAATTTAAAAA
105625280 TTAATTTTAAAAATTTAAAAA
1 TTAATTTTAAAAATTTAAAAA
105625301 CATTGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAATTTTAAAAATTTAAAAA
Found at i:105625297 original size:14 final size:13
Alignment explanation
Indices: 105625269--105625294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105625259 TTTAATTTAA
105625269 AATTTTAAAAATT
1 AATTTTAAAAATT
105625282 AATTTTAAAAATT
1 AATTTTAAAAATT
105625295 TAAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTTAAAAATT
Found at i:105635343 original size:15 final size:15
Alignment explanation
Indices: 105635323--105635352 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
105635313 ACTAAGAGAC
105635323 GTGACTATCTAAATA
1 GTGACTATCTAAATA
105635338 GTGACTATCTAAATA
1 GTGACTATCTAAATA
105635353 AACGTATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
GTGACTATCTAAATA
Found at i:105635617 original size:15 final size:15
Alignment explanation
Indices: 105635583--105635618 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
105635573 TGTTTGATCA
*
105635583 ATTGAAAAATTAATT
1 ATTGAAAAATTAAGT
*
105635598 GTTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
105635613 ATTGAA
1 ATTGAA
105635619 TTTATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:105638671 original size:13 final size:13
Alignment explanation
Indices: 105638638--105638662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105638628 TAATTAAATA
105638638 AAATAAAAGAAAC
1 AAATAAAAGAAAC
105638651 AAATAAAAGAAA
1 AAATAAAAGAAA
105638663 GAATGAAAAA
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAATAAAAGAAAC
Found at i:105653788 original size:28 final size:28
Alignment explanation
Indices: 105653756--105653852 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 28
105653746 TGTGAATCTT
*** *
105653756 GCACTAAGTGTGCGAATGTGGTTATTGA
1 GCACTAAGTGTGCGAATGTAAATATTAA
* *
105653784 GCACTAAGTGTGCGAGTTTAAATATTAA
1 GCACTAAGTGTGCGAATGTAAATATTAA
* *
105653812 GCACTAAGTGTGCGAGTTTAAATATTAA
1 GCACTAAGTGTGCGAATGTAAATATTAA
105653840 GCACTAAGTGTGC
1 GCACTAAGTGTGC
105653853 AAATTGTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATGTAAATATTAA
Found at i:105664268 original size:40 final size:40
Alignment explanation
Indices: 105664195--105664345 Score: 168
Period size: 40 Copynumber: 3.8 Consensus size: 40
105664185 TTTAGTGGCT
* * *
105664195 TTAGTGGCGCTTTTT-AAAAATGCTGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
*
105664234 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
* * * *
105664274 TTAGCGGCGTTTTTTTAAAAACGCCGCTATATG-TAC-ACCT-
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTA-AAGAT-CGA-GTA
105664314 TTAGCGGCGCTTTTTGAAAAACGCCGC-AAAGA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGA
105664346 ATTTTGCAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 15 0.16
40 74 0.78
41 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGATCGAGTA
Found at i:105664803 original size:22 final size:22
Alignment explanation
Indices: 105664773--105664836 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
105664763 TTAATGGCTA
*
105664773 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
105664796 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
*
105664818 GGGATA-GGGTTAAGGGTTA
1 GGGATAGGGGTTAAGCGTTA
105664837 GAGGTTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.47, T:0.27
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:105664831 original size:14 final size:15
Alignment explanation
Indices: 105664801--105664833 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
105664791 TTAAGGGGAT
*
105664801 AGGGGTTAGGCGTTA
1 AGGGGATAGGCGTTA
105664816 AGGGGATAGG-GTTA
1 AGGGGATAGGCGTTA
105664830 AGGG
1 AGGG
105664834 TTAGAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.52, T:0.21
Consensus pattern (15 bp):
AGGGGATAGGCGTTA
Found at i:105664842 original size:14 final size:14
Alignment explanation
Indices: 105664801--105664842 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
105664791 TTAAGGGGAT
105664801 AGGGGTTAGGCGTTA
1 AGGGGTTAGG-GTTA
*
105664816 AGGGGATAGGGTTA
1 AGGGGTTAGGGTTA
105664830 A-GGGTTAGAGGTT
1 AGGGGTTAG-GGTT
105664843 TATGGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.48, T:0.26
Consensus pattern (14 bp):
AGGGGTTAGGGTTA
Found at i:105664887 original size:14 final size:14
Alignment explanation
Indices: 105664868--105664944 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
105664858 AATATTTTAA
*
105664868 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
105664882 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
* * *
105664896 -G-TGACGGGGTTTAA
1 GGTTTA--GGGATTAT
105664910 GGTTTAGGGATTA-
1 GGTTTAGGGATTAT
*
105664923 GGTGTTAAGGGTTTAT
1 GGT-TT-AGGGATTAT
105664939 GGTTTA
1 GGTTTA
105664945 AGGGTTAAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.04
13 4 0.08
14 28 0.57
15 10 0.20
16 5 0.10
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:105664937 original size:22 final size:22
Alignment explanation
Indices: 105664906--105664955 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
105664896 GTGACGGGGT
105664906 TTAA-GGTTTAGGGATT-AGGTG
1 TTAAGGGTTTAGGGATTAAGG-G
* *
105664927 TTAAGGGTTTATGGTTTAAGGG
1 TTAAGGGTTTAGGGATTAAGGG
105664949 TTAAGGG
1 TTAAGGG
105664956 ATATGGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 18 0.72
23 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
TTAAGGGTTTAGGGATTAAGGG
Found at i:105664945 original size:15 final size:14
Alignment explanation
Indices: 105664902--105664950 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
105664892 TTATGTGACG
105664902 GGGTTTAAGGTTT-A
1 GGGTTT-AGGTTTAA
*
105664916 GGGATTAGGTGTTAA
1 GGGTTTAGGT-TTAA
105664931 GGGTTTATGGTTTAA
1 GGGTTTA-GGTTTAA
105664946 GGGTT
1 GGGTT
105664951 AAGGGATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 4 0.13
14 7 0.23
15 16 0.53
16 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (14 bp):
GGGTTTAGGTTTAA
Found at i:105665472 original size:18 final size:18
Alignment explanation
Indices: 105665449--105665492 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
105665439 CCCAAAATAG
* *
105665449 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
105665467 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
105665485 ATTTCCCC
1 ATTTCCCC
105665493 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:105669475 original size:21 final size:21
Alignment explanation
Indices: 105669447--105669532 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
105669437 CCTGATTAGT
* *
105669447 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTG
* * *
105669468 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
105669489 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
105669510 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
105669531 AT
1 AT
105669533 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:105669927 original size:15 final size:15
Alignment explanation
Indices: 105669902--105669959 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
105669892 TCATATATAT
105669902 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
105669918 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
105669933 AATAATTTCAATCAA
1 TATAAATTCAATCAA
105669948 TATAAATTCAAT
1 TATAAATTCAAT
105669960 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:105671243 original size:5 final size:5
Alignment explanation
Indices: 105671235--105671269 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
105671225 GTTTATATAC
105671235 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
105671270 TAAAACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:105671305 original size:8 final size:8
Alignment explanation
Indices: 105671292--105671320 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
105671282 TATCTTTATT
105671292 ATATAATA
1 ATATAATA
105671300 ATATAATA
1 ATATAATA
105671308 ATATAATA
1 ATATAATA
105671316 ATATA
1 ATATA
105671321 CTAAAAAAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:105672399 original size:15 final size:15
Alignment explanation
Indices: 105672379--105672412 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
105672369 TAATTTGATG
*
105672379 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
105672394 TTTGGATGTACCATT
1 TTTGGATGTACCATT
105672409 TTTG
1 TTTG
105672413 TTCATCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:105676659 original size:90 final size:90
Alignment explanation
Indices: 105676457--105676660 Score: 232
Period size: 90 Copynumber: 2.3 Consensus size: 90
105676447 CCTACTAAGT
* * * * *
105676457 GGACTTGATGAATTCACCGATTTTATAGGATGAACTACTAGATGCTCTTAATGAGTTCATATCCT
1 GGACTTGATGAATTCACCGAATTTATAGGATGAACCACTAAATACTCTTAATGAATTCATATCCT
* * *
105676522 AAGGTTTGGATGGTTATATTGAGAT
66 AAGGTTTGGATGGTTATAGTAAGAC
* * * * *
105676547 AGACTTGATGAA-CCTACTGAATTTATAGGATGAGCCACTAAATATTCTTAATGAATTCATATCC
1 GGACTTGATGAATTC-ACCGAATTTATAGGATGAACCACTAAATACTCTTAATGAATTCATATCC
* * *
105676611 -CAGGCTTTGGGTGGTTCTAGTAAGAC
65 TAAGG-TTTGGATGGTTATAGTAAGAC
105676637 GGACTTGATGAATTCACCGAATTT
1 GGACTTGATGAATTCACCGAATTT
105676661 TTAAACTGGG
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
89 4 0.04
90 87 0.95
91 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (90 bp):
GGACTTGATGAATTCACCGAATTTATAGGATGAACCACTAAATACTCTTAATGAATTCATATCCT
AAGGTTTGGATGGTTATAGTAAGAC
Found at i:105678450 original size:10 final size:10
Alignment explanation
Indices: 105678406--105678464 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
105678396 AATTTTAGCT
105678406 TTTATCTTTA
1 TTTATCTTTA
* *
105678416 TTTGTCCTTA
1 TTTATCTTTA
*
105678426 TTTATCTATA
1 TTTATCTTTA
*
105678436 ATTATCTTTA
1 TTTATCTTTA
105678446 TTTAT-TTGTA
1 TTTATCTT-TA
105678456 TTTATCTTT
1 TTTATCTTT
105678465 TAGAAATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:105680230 original size:40 final size:39
Alignment explanation
Indices: 105680153--105680371 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 39
105680143 AAACCAAGTA
* *
105680153 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTCGCACAAATG
105680192 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
105680232 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * *
105680272 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
* * * *
105680312 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
105680352 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
105680372 TATCATCCGA
Statistics
Matches: 167, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:105685550 original size:17 final size:17
Alignment explanation
Indices: 105685528--105685561 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105685518 ATCCACTAAT
*
105685528 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105685545 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105685562 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105690189 original size:17 final size:17
Alignment explanation
Indices: 105690167--105690200 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105690157 ATCCACTAAT
*
105690167 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105690184 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105690201 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105691051 original size:3 final size:3
Alignment explanation
Indices: 105691037--105691090 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
105691027 GACAATAAAG
*
105691037 AAT AAT AGT AAT AAT AAT AAT -AT AGAT AAT AAT -AT ATAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT
105691081 AAT AAT AAT A
1 AAT AAT AAT A
105691091 GTTAGAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 32 0.73
4 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:105691311 original size:3 final size:3
Alignment explanation
Indices: 105691303--105691355 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
105691293 TATAAATATG
* * *
105691303 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA AT- ATA GT- ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105691349 ATA ATA A
1 ATA ATA A
105691356 AAGTAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:105691762 original size:17 final size:17
Alignment explanation
Indices: 105691704--105691766 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
105691694 AAAATAATAT
105691704 TAAAATATATATACGAGTAA
1 TAAAA-ATATATAC-A-TAA
* * * *
105691724 TAAAAAATGTATCCGTAT
1 T-AAAAATATATACATAA
105691742 TAAAAATATATACATAA
1 TAAAAATATATACATAA
105691759 TAAAAATA
1 TAAAAATA
105691767 CAATATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 20 0.59
18 3 0.09
20 7 0.21
21 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
TAAAAATATATACATAA
Found at i:105691936 original size:22 final size:22
Alignment explanation
Indices: 105691894--105691936 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
105691884 GTACATAACA
*
105691894 TAAATATCATACATATAATATC
1 TAAATATCATACATACAATATC
105691916 TAAATAT-ATACATACATATAT
1 TAAATATCATACATACA-ATAT
105691937 ATAGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATCATACATACAATATC
Found at i:105692105 original size:15 final size:14
Alignment explanation
Indices: 105692080--105692115 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
105692070 TAATAATACT
105692080 ATATAATATATATA
1 ATATAATATATATA
105692094 ATATACATATATATA
1 ATATA-ATATATATA
105692109 AGTATAA
1 A-TATAA
105692116 CAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:105692838 original size:18 final size:21
Alignment explanation
Indices: 105692814--105692866 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
105692804 AAGCAAATTC
105692814 GAAAATAA-AATAAAAAG-AA
1 GAAAATAATAATAAAAAGAAA
*
105692833 -AAAATAATAATAAATAGAAA
1 GAAAATAATAATAAAAAGAAA
105692853 GAAAATAATAATAA
1 GAAAATAATAATAA
105692867 TGTAATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 2 0.07
21 13 0.43
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
GAAAATAATAATAAAAAGAAA
Found at i:105692845 original size:24 final size:24
Alignment explanation
Indices: 105692821--105692867 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
105692811 TTCGAAAATA
105692821 AAATAAAAAGAAAA-AATAATAAT
1 AAATAAAAAGAAAATAATAATAAT
*
105692844 AAATAGAAAGAAAATAATAATAAT
1 AAATAAAAAGAAAATAATAATAAT
105692868 GTAATATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
AAATAAAAAGAAAATAATAATAAT
Found at i:105694575 original size:39 final size:40
Alignment explanation
Indices: 105694505--105694598 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
105694495 AAAATGGTGC
* * *
105694505 TTTAGCAGCGTTTTTTACAGAAAACGCCGCAAAGAGTATGA-
1 TTTAGCGGCG-TTTGTACAGAAAACGCCGCAAAAAGT-TGAG
*
105694546 TTTAGCGGCGTTTGTA-AGAAAACGTCGCAAAAAGTTGAG
1 TTTAGCGGCGTTTGTACAGAAAACGCCGCAAAAAGTTGAG
*
105694585 TAGTAGCGGCGTTT
1 T-TTAGCGGCGTTT
105694599 TTAGACCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.07
39 18 0.39
40 16 0.35
41 9 0.20
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (40 bp):
TTTAGCGGCGTTTGTACAGAAAACGCCGCAAAAAGTTGAG
Found at i:105695304 original size:21 final size:21
Alignment explanation
Indices: 105695280--105695327 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
105695270 TAAGTTTATA
105695280 GTTTAAGATTTGTTAATTTGG
1 GTTTAAGATTTGTTAATTTGG
** * *
105695301 GTTTGGGGTTTGTTATTTTGG
1 GTTTAAGATTTGTTAATTTGG
105695322 GTTTAA
1 GTTTAA
105695328 AGTTTAGGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (21 bp):
GTTTAAGATTTGTTAATTTGG
Found at i:105695337 original size:14 final size:14
Alignment explanation
Indices: 105695320--105695377 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
105695310 TTGTTATTTT
105695320 GGGTTTAAAGTTTA
1 GGGTTTAAAGTTTA
* * *
105695334 GGGTATATGATTTTA
1 GGGTTTA-AAGTTTA
* *
105695349 GGCTTTAGAGTTTA
1 GGGTTTAAAGTTTA
*
105695363 GGGTTTAATGTTTA
1 GGGTTTAAAGTTTA
105695377 G
1 G
105695378 TATTTTAGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (14 bp):
GGGTTTAAAGTTTA
Found at i:105695404 original size:28 final size:29
Alignment explanation
Indices: 105695352--105695417 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
105695342 GATTTTAGGC
* **
105695352 TTTAGAGTTTAGGGTTTAATGTTTAGTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAGTAT
*
105695381 TTTAG-GTTTAGGGGTTAAAATTTATTAT
1 TTTAGAGTTTAGGGGTTAAAATTTAGTAT
105695409 TTT-GAGTTT
1 TTTAGAGTTT
105695418 GGAGTTTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 26 0.81
29 5 0.16
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.53
Consensus pattern (29 bp):
TTTAGAGTTTAGGGGTTAAAATTTAGTAT
Found at i:105695449 original size:15 final size:14
Alignment explanation
Indices: 105695420--105695457 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
105695410 TTGAGTTTGG
105695420 AGTTTAGGGTTTAT
1 AGTTTAGGGTTTAT
*
105695434 AGTTTAGTGTTTTAT
1 AGTTTAG-GGTTTAT
105695449 AG-TTAGGGT
1 AGTTTAGGGT
105695458 CTTAGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
AGTTTAGGGTTTAT
Found at i:105695950 original size:40 final size:40
Alignment explanation
Indices: 105695894--105695982 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
105695884 GCACTAGCAC
*
105695894 AAAAACGCCGCAATAGATCGAGAATAAGCAGCTCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
* * * *
105695934 AAAAACGCCGCTATAGATTGAGAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
105695974 AAAAACGCC
1 AAAAACGCC
105695983 ACAAAAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATAAGCAGCGCTTTTTG
Found at i:105699619 original size:29 final size:27
Alignment explanation
Indices: 105699551--105699620 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 27
105699541 ATATTAGATG
*
105699551 GTTATGCCAGTTGTTCAATTGTCTTCT
1 GTTATGCCAGTTGTTCTATTGTCTTCT
* *
105699578 TTTTTG---GTTGTTCTATTGTTCATTCT
1 GTTATGCCAGTTGTTCTATTG-TC-TTCT
105699604 GTTATGCCAGTTGTTCT
1 GTTATGCCAGTTGTTCT
105699621 TGTAGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 11 0.33
25 2 0.06
26 8 0.24
27 4 0.12
29 8 0.24
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.54
Consensus pattern (27 bp):
GTTATGCCAGTTGTTCTATTGTCTTCT
Found at i:105701286 original size:9 final size:9
Alignment explanation
Indices: 105701237--105701330 Score: 93
Period size: 9 Copynumber: 10.3 Consensus size: 9
105701227 CTTTGGATCT
105701237 TAACTTA-A
1 TAACTTACA
*
105701245 TAACTTATA
1 TAACTTACA
*
105701254 TATATCATATCA
1 TA-A-CTTA-CA
*
105701266 TGACTTACA
1 TAACTTACA
*
105701275 TAACTCACA
1 TAACTTACA
*
105701284 TAACATACA
1 TAACTTACA
105701293 TAACTTA-A
1 TAACTTACA
*
105701301 TAACTCACA
1 TAACTTACA
105701310 TAACTTACA
1 TAACTTACA
105701319 TAACTTACA
1 TAACTTACA
105701328 TAA
1 TAA
105701331 TAAATAAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.20
9 46 0.66
10 4 0.06
11 4 0.06
12 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:105701304 original size:26 final size:27
Alignment explanation
Indices: 105701237--105701330 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 27
105701227 CTTTGGATCT
* *
105701237 TAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATA-A-CATA-CA
*
105701266 TGACTTACATAACTCACATAACATACA
1 TAACTTACATAACTCACATAACATACA
*
105701293 TAACTTA-ATAACTCACATAACTTACA
1 TAACTTACATAACTCACATAACATACA
105701319 TAACTTACATAA
1 TAACTTACATAA
105701331 TAAATAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 25 0.43
27 12 0.21
28 4 0.07
29 7 0.12
30 10 0.17
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (27 bp):
TAACTTACATAACTCACATAACATACA
Found at i:105706403 original size:13 final size:14
Alignment explanation
Indices: 105706387--105706415 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105706377 TTTTAAATAT
105706387 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
105706400 TTATAATGGTTTAA
1 TTATAATGGTTTAA
105706414 TT
1 TT
105706416 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:105707357 original size:43 final size:42
Alignment explanation
Indices: 105707190--105707412 Score: 177
Period size: 43 Copynumber: 5.2 Consensus size: 42
105707180 AACGGTACTT
* *
105707190 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTACTATTTTT
1 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGT-C-ATGTTC
* * * * *
105707234 TTAGTGGTGTTTGTGA-AAAAACGCCACTAAAAGTCATGCTC
1 TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
105707275 TATAGCGGAGTTTGTTTG-TAAAA-CTCTGGTAATGGTCATGTTC
1 T-TAGCGGTGTTTG--TGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
105707318 GTTAGCGGTGTTTGTGATAAAAGCACCGCTAAAGATCATGTTC
1 -TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
105707361 TATAGCGGCGATTATG-GA-AAAAGCGTCGCTAAAGGTCATGTTC
1 T-TAGCGGTG-TT-TGTGATAAAAGCGCCGCTAAAGGTCATGTTC
105707404 TTTAGCGGT
1 -TTAGCGGT
105707413 ATTTTTTCAC
Statistics
Matches: 141, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
41 6 0.04
42 17 0.12
43 89 0.63
44 27 0.19
45 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
TTAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:105708754 original size:7 final size:7
Alignment explanation
Indices: 105708742--105708776 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
105708732 AATTATTTAA
105708742 AAAATAT
1 AAAATAT
105708749 AAAATAT
1 AAAATAT
105708756 AAAATAAT
1 AAAAT-AT
105708764 AAAATAGT
1 AAAATA-T
105708772 AAAAT
1 AAAAT
105708777 TATATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:105708765 original size:15 final size:15
Alignment explanation
Indices: 105708742--105708776 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
105708732 AATTATTTAA
105708742 AAAATATAAAATA-T
1 AAAATATAAAATAGT
105708756 AAAATAATAAAATAGT
1 AAAAT-ATAAAATAGT
105708772 AAAAT
1 AAAAT
105708777 TATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 8 0.42
16 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATATAAAATAGT
Found at i:105712446 original size:140 final size:140
Alignment explanation
Indices: 105712193--105712577 Score: 533
Period size: 140 Copynumber: 2.8 Consensus size: 140
105712183 ATGCTTAATG
* * ** * *
105712193 CGACACTTTTGGGGCAACACTTTTTTAAGTGTTGGAATAGACTT-ATCGACATACGCTTTGGCCA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGA-CGACATACACTTTGGCCA
* *
105712257 ACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAAAGTCGGCTTT-AT
65 ACTCTTTGTATAAGAGTTGGGATATGCATACCTAAGGCAACGCTTAAATAAAAGTCGACTTTGAT
105712321 CAAACACTATACT
130 C-AACACTAT-CT
* *
105712334 -GACACTTTCGGGCCGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
* * *
105712398 CTCTTTATATAAGAGTTGGGATATGCATACCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTC
66 CTCTTTGTATAAGAGTTGGGATATGCATACCTAAGGCAACGCTTAAATAAAAGTCGACTTTGATC
*
105712463 AACACTATGT
131 AACACTATCT
* * **
105712473 CGACACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
* * *
105712538 CCCTTTGTATAAGAGTTGGGATATGCATCCCTAAGACAAC
66 CTCTTTGTATAAGAGTTGGGATATGCATACCTAAGGCAAC
105712578 ACTTGTTCAA
Statistics
Matches: 217, Mismatches: 24, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
139 1 0.00
140 213 0.98
141 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATACACTTTGGCCAA
CTCTTTGTATAAGAGTTGGGATATGCATACCTAAGGCAACGCTTAAATAAAAGTCGACTTTGATC
AACACTATCT
Found at i:105712680 original size:109 final size:109
Alignment explanation
Indices: 105712487--105712690 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 109
105712477 ACTTTTGGAC
* **
105712487 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
*
105712552 GTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
66 GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * *** * ** *
105712596 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
* * *
105712661 GTAGGTATATGCATGCCTAAGGCAACACTT
66 GTAGGGATATGCATCCCTAAGACAACACTT
105712691 AAATAAGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (109 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:105712785 original size:249 final size:249
Alignment explanation
Indices: 105712347--105712814 Score: 614
Period size: 249 Copynumber: 1.9 Consensus size: 249
105712337 ACTTTCGGGC
* *
105712347 CGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
105712412 GTTGGGATATGCATACCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGAC
66 GTAGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
* * ***
105712477 ACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCT
131 ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
* *
105712542 TTGTATAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
196 TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * * * *** * * * *
105712596 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
105712661 GTAGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATG-CGGA
66 GTAGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTC-GA
** * * ** *
105712725 CACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAGATTTGCCAACATATGCTTTGGCCAACTC
130 CACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCC
*
105712790 TTTGGACAAGGGTTGGGATATGCAT
195 TTTGGACAAGAGTTGGGATATGCAT
105712815 GTCTAAGGCA
Statistics
Matches: 184, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
248 1 0.01
249 183 0.99
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (249 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
GTAGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:105715768 original size:40 final size:40
Alignment explanation
Indices: 105715708--105715934 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
105715698 CAATTGAGGA
*
105715708 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
105715748 CTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
105715788 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
105715828 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * * *
105715868 CTATTTCTGGGTTAAGCCCCAAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
105715908 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
105715935 ATTGGGTTGG
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:105719858 original size:30 final size:30
Alignment explanation
Indices: 105719822--105719882 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
105719812 TGTTACGAGC
105719822 TTGATTGGTATTAGAGCTAATTAGGTTTAG
1 TTGATTGGTATTAGAGCTAATTAGGTTTAG
105719852 TTGATTGGTATTAGAGCTAATTAGGTTTAG
1 TTGATTGGTATTAGAGCTAATTAGGTTTAG
105719882 T
1 T
105719883 CGGTTCTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (30 bp):
TTGATTGGTATTAGAGCTAATTAGGTTTAG
Found at i:105725033 original size:14 final size:14
Alignment explanation
Indices: 105725014--105725045 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
105725004 GAGCAAACGT
*
105725014 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAA
105725028 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
105725042 AAAG
1 AAAG
105725046 GGAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:105727149 original size:21 final size:21
Alignment explanation
Indices: 105727125--105727164 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
105727115 TTTTTTAGTT
105727125 TTTAGAGTTTA-GGGTTTTGTG
1 TTTAG-GTTTAGGGGTTTTGTG
105727146 TTTAGGTTTAGGGGTTTTG
1 TTTAGGTTTAGGGGTTTTG
105727165 ATAAAAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (21 bp):
TTTAGGTTTAGGGGTTTTGTG
Found at i:105727966 original size:9 final size:9
Alignment explanation
Indices: 105727955--105727995 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
105727945 GGATGAGGAT
*
105727955 GAAGAAGAT
1 GAAGAAGAC
105727964 GAAGAAGAC
1 GAAGAAGAC
*
105727973 GAAGAAGAA
1 GAAGAAGAC
105727982 GAAGAAGAC
1 GAAGAAGAC
105727991 GAAGA
1 GAAGA
105727996 CGAAGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02
Consensus pattern (9 bp):
GAAGAAGAC
Found at i:105727967 original size:6 final size:6
Alignment explanation
Indices: 105727955--105728006 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
105727945 GGATGAGGAT
* * * * *
105727955 GAAGAA GATGAA GAAGAC GAAGAA GAAGAA GAAGAC GAAGAC GAAGAT
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
105728003 GAAG
1 GAAG
105728007 CCGACGCCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.56, C:0.06, G:0.35, T:0.04
Consensus pattern (6 bp):
GAAGAA
Found at i:105728000 original size:18 final size:18
Alignment explanation
Indices: 105727964--105728059 Score: 74
Period size: 18 Copynumber: 5.4 Consensus size: 18
105727954 TGAAGAAGAT
*
105727964 GAAGAAGACGAAGAAGAA
1 GAAGAAGACGAAGACGAA
105727982 GAAGAAGACGAAGACGAA
1 GAAGAAGACGAAGACGAA
* * * *
105728000 GATGAAGCCGACGCCGACA
1 GAAGAAGACGAAGACGA-A
*
105728019 -ATGAGAA-A-G-AGAAGAA
1 GA--AGAAGACGAAGACGAA
105728035 GAAGAAGACGAAGACGAA
1 GAAGAAGACGAAGACGAA
*
105728053 GATGAAG
1 GAAGAAG
105728060 CCGACGCCGA
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
15 4 0.07
16 2 0.03
17 5 0.08
18 44 0.75
19 1 0.02
20 3 0.05
ACGTcount: A:0.52, C:0.11, G:0.33, T:0.03
Consensus pattern (18 bp):
GAAGAAGACGAAGACGAA
Found at i:105728034 original size:53 final size:53
Alignment explanation
Indices: 105727975--105728086 Score: 224
Period size: 53 Copynumber: 2.1 Consensus size: 53
105727965 AAGAAGACGA
105727975 AGAAGAAGAAGAAGACGAAGACGAAGATGAAGCCGACGCCGACAATGAGAAAG
1 AGAAGAAGAAGAAGACGAAGACGAAGATGAAGCCGACGCCGACAATGAGAAAG
105728028 AGAAGAAGAAGAAGACGAAGACGAAGATGAAGCCGACGCCGACAATGAGAAAG
1 AGAAGAAGAAGAAGACGAAGACGAAGATGAAGCCGACGCCGACAATGAGAAAG
105728081 AGAAGA
1 AGAAGA
105728087 TTGCTCAGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.50, C:0.14, G:0.32, T:0.04
Consensus pattern (53 bp):
AGAAGAAGAAGAAGACGAAGACGAAGATGAAGCCGACGCCGACAATGAGAAAG
Found at i:105732034 original size:21 final size:21
Alignment explanation
Indices: 105732008--105732048 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105731998 AGACGAGCAA
* *
105732008 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
105732029 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
105732049 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105735928 original size:35 final size:35
Alignment explanation
Indices: 105735854--105736038 Score: 162
Period size: 35 Copynumber: 5.2 Consensus size: 35
105735844 AAATAAATGC
* *
105735854 CTTAGACGTGTTTAT-TCCAACCTTTTT-AAGATTGT
1 CTTAGACGGGTTTATCT-CAA-CTTTTTAAAGGTTGT
*
105735889 CTTA-ACTGGGTTTATCTCAACTTTTTAAAGGTTGC
1 CTTAGAC-GGGTTTATCTCAACTTTTTAAAGGTTGT
* * *
105735924 CTTAAACGGGTTTATTTTAACTTTTTTAAAGGTTGT
1 CTTAGACGGGTTTATCTCAAC-TTTTTAAAGGTTGT
* * *
105735960 CTTAGACAAGGTATATCTTAACCTTTTT-AAGGTTGT
1 CTTAGAC-GGGTTTATCTCAA-CTTTTTAAAGGTTGT
* * * *
105735996 ATTAGACGGTTTTATCTCAGCCTTTTTAAAGGTTGC
1 CTTAGACGGGTTTATCTCA-ACTTTTTAAAGGTTGT
105736032 CTTAGAC
1 CTTAGAC
105736039 AAGGTCTATT
Statistics
Matches: 123, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
34 8 0.07
35 50 0.41
36 49 0.40
37 15 0.12
38 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (35 bp):
CTTAGACGGGTTTATCTCAACTTTTTAAAGGTTGT
Found at i:105735957 original size:36 final size:36
Alignment explanation
Indices: 105735851--105736101 Score: 183
Period size: 36 Copynumber: 7.0 Consensus size: 36
105735841 AGAAAATAAA
* *
105735851 TGCCTTAGACGTGTTTAT-TCCAACCTTTTT-AAGAT
1 TGCCTTAGACGGGTTTATCT-CAACCTTTTTAAAGGT
*
105735886 TGTCTTA-ACTGGGTTTATCTCAA-CTTTTTAAAGGT
1 TGCCTTAGAC-GGGTTTATCTCAACCTTTTTAAAGGT
* * * *
105735921 TGCCTTAAACGGGTTTATTTTAACTTTTTTAAAGGT
1 TGCCTTAGACGGGTTTATCTCAACCTTTTTAAAGGT
* * * *
105735957 TGTCTTAGACAAGGTATATCTTAACCTTTTT-AAGGT
1 TGCCTTAGAC-GGGTTTATCTCAACCTTTTTAAAGGT
** * *
105735993 TGTATTAGACGGTTTTATCTCAGCCTTTTTAAAGGT
1 TGCCTTAGACGGGTTTATCTCAACCTTTTTAAAGGT
* * * *
105736029 TGCCTTAGACAAGGTCTAT-TCCAGCCTTTTT-AGGGT
1 TGCCTTAGAC-GGGTTTATCT-CAACCTTTTTAAAGGT
* * * * *
105736065 TGCTTTAAATGGGTCTATCCCAACCTTTTTTAAAGGT
1 TGCCTTAGACGGGTTTATCTCAACC-TTTTTAAAGGT
105736102 CAGCATTGAC
Statistics
Matches: 172, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
34 8 0.05
35 63 0.37
36 66 0.38
37 35 0.20
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (36 bp):
TGCCTTAGACGGGTTTATCTCAACCTTTTTAAAGGT
Found at i:105736010 original size:72 final size:72
Alignment explanation
Indices: 105735863--105736101 Score: 202
Period size: 72 Copynumber: 3.3 Consensus size: 72
105735853 CCTTAGACGT
* ** * *
105735863 GTTTAT-TCCAACCTTTTT-AAGATTGTCTTA-ACTGGGTTTATCTCAACTTTTTAAAGGTTGCC
1 GTTTATCT-CAACCTTTTTAAAGGTTGTCTTAGACAAGGTATATCTCAACTTTTTAAAGGTTGCA
105735925 TTAAACGG
65 TTAAACGG
* * * * *
105735933 GTTTATTTTAACTTTTTTAAAGGTTGTCTTAGACAAGGTATATCTTAACCTTTTT-AAGGTTGTA
1 GTTTATCTCAACCTTTTTAAAGGTTGTCTTAGACAAGGTATATCTCAA-CTTTTTAAAGGTTGCA
*
105735997 TTAGACGG
65 TTAAACGG
* * * * * *
105736005 TTTTATCTCAGCCTTTTTAAAGGTTGCCTTAGACAAGGTCTAT-TCCAGCCTTTTT-AGGGTTGC
1 GTTTATCTCAACCTTTTTAAAGGTTGTCTTAGACAAGGTATATCT-CA-ACTTTTTAAAGGTTGC
* *
105736068 TTTAAATGG
64 ATTAAACGG
* *
105736077 GTCTATCCCAACCTTTTTTAAAGGT
1 GTTTATCTCAACC-TTTTTAAAGGT
105736102 CAGCATTGAC
Statistics
Matches: 134, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
70 14 0.10
71 13 0.10
72 90 0.67
73 17 0.13
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (72 bp):
GTTTATCTCAACCTTTTTAAAGGTTGTCTTAGACAAGGTATATCTCAACTTTTTAAAGGTTGCAT
TAAACGG
Found at i:105739600 original size:19 final size:20
Alignment explanation
Indices: 105739568--105739606 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
105739558 AACATTTATC
* *
105739568 TTGTATTTTTATTAT-TTTA
1 TTGTATTGTAATTATGTTTA
105739587 TTGTATTGTAATTATGTTTA
1 TTGTATTGTAATTATGTTTA
105739607 AAGAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTGTATTGTAATTATGTTTA
Found at i:105739966 original size:9 final size:9
Alignment explanation
Indices: 105739952--105740087 Score: 75
Period size: 9 Copynumber: 14.4 Consensus size: 9
105739942 TTTTGATACA
105739952 TTTTATAAT
1 TTTTATAAT
*
105739961 TTTTATAAA
1 TTTTATAAT
* *
105739970 ATTTACAATTT
1 TTTTATAA--T
105739981 TTTATATAAT
1 TTT-TATAAT
105739991 TTTTATAAATT
1 TTTTAT-AA-T
*
105740002 TTTTATAGT
1 TTTTATAAT
105740011 TTTTA-ATAT
1 TTTTATA-AT
*
105740020 TTTTATATTT
1 TTTTATA-AT
105740030 TTTTATTAAAT
1 TTTTA-T-AAT
*
105740041 TTTAATAA-
1 TTTTATAAT
*
105740049 TTTTATAAC
1 TTTTATAAT
105740058 TTTTAT--T
1 TTTTATAAT
105740065 TATTTAT-AT
1 T-TTTATAAT
105740074 TATTTATAAT
1 T-TTTATAAT
105740084 TTTT
1 TTTT
105740088 TTGCCACATG
Statistics
Matches: 101, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
7 1 0.01
8 13 0.13
9 48 0.48
10 19 0.19
11 15 0.15
12 5 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:105739973 original size:19 final size:20
Alignment explanation
Indices: 105739951--105740063 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 20
105739941 TTTTTGATAC
105739951 ATTTTATAATTTTTATA-AA
1 ATTTTATAATTTTTATATAA
*
105739970 A-TTTACAATTTTTTATATAA
1 ATTTTATAA-TTTTTATATAA
* *
105739990 TTTTTATAAATTTTT-TATAG
1 ATTTTAT-AATTTTTATATAA
* *
105740010 TTTTTA-ATATTTTTATAT-T
1 ATTTTATA-ATTTTTATATAA
* *
105740029 TTTTTATTAAATTTTA-AT-A
1 ATTTTA-TAATTTTTATATAA
*
105740048 ATTTTATAACTTTTAT
1 ATTTTATAATTTTTAT
105740064 TTATTTATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
18 15 0.20
19 28 0.37
20 21 0.28
21 10 0.13
22 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
ATTTTATAATTTTTATATAA
Found at i:105739993 original size:10 final size:10
Alignment explanation
Indices: 105739980--105740055 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
105739970 ATTTACAATT
105739980 TTTTATATAA
1 TTTTATATAA
105739990 TTTT-TATAAA
1 TTTTATAT-AA
* *
105740000 TTTTTTATAG
1 TTTTATATAA
*
105740010 TTTT-TAATAT
1 TTTTAT-ATAA
**
105740020 TTTTATATTT
1 TTTTATATAA
105740030 TTTTAT-TAAA
1 TTTTATAT-AA
105740040 TTTTA-ATAA
1 TTTTATATAA
105740049 TTTTATA
1 TTTTATA
105740056 ACTTTTATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 12 0.22
10 38 0.70
11 4 0.07
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAA
Found at i:105740014 original size:11 final size:11
Alignment explanation
Indices: 105739976--105740008 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
105739966 TAAAATTTAC
105739976 AATTTTTTATA
1 AATTTTTTATA
105739987 TAA-TTTTTATA
1 -AATTTTTTATA
105739998 AATTTTTTATA
1 AATTTTTTATA
105740009 GTTTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTTTATA
Found at i:105740033 original size:11 final size:11
Alignment explanation
Indices: 105739977--105740035 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 11
105739967 AAAATTTACA
105739977 ATTTTTTATAT
1 ATTTTTTATAT
*
105739988 AATTTTTATA-
1 ATTTTTTATAT
*
105739998 AATTTTT-TAT
1 ATTTTTTATAT
*
105740008 AGTTTTTA-AT
1 ATTTTTTATAT
105740018 A-TTTTTATAT
1 ATTTTTTATAT
105740028 -TTTTTTAT
1 ATTTTTTAT
105740036 TAAATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 8 0.19
10 25 0.60
11 9 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:105740033 original size:29 final size:29
Alignment explanation
Indices: 105739979--105740088 Score: 95
Period size: 29 Copynumber: 3.8 Consensus size: 29
105739969 AATTTACAAT
*
105739979 TTTTTATATAATTTTTATAAATTTTTTA-TAG
1 TTTTTA-AT-ATTTTTATAA-TTTTTTATTAA
*
105740010 TTTTTAATATTTTTATATTTTTTTATTAA
1 TTTTTAATATTTTTATAATTTTTTATTAA
* * *
105740039 ATTTTAATAATTTTATAA-CTTTTATT--
1 TTTTTAATATTTTTATAATTTTTTATTAA
*
105740065 TATTT-ATATTATTTATAATTTTTT
1 TTTTTAATATT-TTTATAATTTTTT
105740089 TGCCACATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
25 4 0.06
26 10 0.15
27 4 0.06
28 14 0.21
29 26 0.39
30 2 0.03
31 6 0.09
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (29 bp):
TTTTTAATATTTTTATAATTTTTTATTAA
Found at i:105740044 original size:20 final size:20
Alignment explanation
Indices: 105739980--105740063 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 20
105739970 ATTTACAATT
105739980 TTTTATATAATTTTTATAAA
1 TTTTATATAATTTTTATAAA
* * *
105740000 TTTTTTATAGTTTTTA-ATA
1 TTTTATATAATTTTTATAAA
*
105740019 TTTT-TATATTTTTTTATTAAA
1 TTTTATATA-ATTTTTA-TAAA
*
105740040 TTTTA-ATAA-TTTTATAAC
1 TTTTATATAATTTTTATAAA
105740058 TTTTAT
1 TTTTAT
105740064 TTATTTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 12 0.23
19 17 0.33
20 14 0.27
21 9 0.17
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (20 bp):
TTTTATATAATTTTTATAAA
Found at i:105748104 original size:23 final size:23
Alignment explanation
Indices: 105748061--105748105 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
105748051 GCTATATTTG
*
105748061 TTTAAAATTCATGTAATAAATTA
1 TTTAAAATTCATGTAAGAAATTA
105748084 TTTAAAATTCAT-TAAAGAAATT
1 TTTAAAATTCATGT-AAGAAATT
105748106 TACAGTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTAAAATTCATGTAAGAAATTA
Found at i:105751919 original size:14 final size:14
Alignment explanation
Indices: 105751902--105751932 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
105751892 AATTACATAA
105751902 ATGATATTAGAAGT
1 ATGATATTAGAAGT
105751916 ATGATATTAGAAGT
1 ATGATATTAGAAGT
105751930 ATG
1 ATG
105751933 CTTGACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
ATGATATTAGAAGT
Found at i:105754869 original size:27 final size:27
Alignment explanation
Indices: 105754838--105754894 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
105754828 CCCTCTTTTC
*
105754838 AAAGCTTCAAGGATAAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
*
105754865 AAAGCTTAAAGGATCAGATGAAAAGGA
1 AAAGCTTAAAGGATAAGATGAAAAGGA
105754892 AAA
1 AAA
105754895 TAGACAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.25, T:0.14
Consensus pattern (27 bp):
AAAGCTTAAAGGATAAGATGAAAAGGA
Found at i:105757469 original size:29 final size:31
Alignment explanation
Indices: 105757431--105757499 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
105757421 AAATAATATT
105757431 TCAGTCACTAA-ACTTT-C-AAAAGTGACAAA
1 TCAGTCACTAACA-TTTACAAAAAGTGACAAA
*
105757460 TCAGTTACTAACATTTACAAAAAGTGACAAA
1 TCAGTCACTAACATTTACAAAAAGTGACAAA
105757491 TCAGTCACT
1 TCAGTCACT
105757500 CGAGCCCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 13 0.37
30 2 0.06
31 20 0.57
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.26
Consensus pattern (31 bp):
TCAGTCACTAACATTTACAAAAAGTGACAAA
Found at i:105762900 original size:189 final size:189
Alignment explanation
Indices: 105762580--105762961 Score: 633
Period size: 189 Copynumber: 2.0 Consensus size: 189
105762570 TTCACAAATA
105762580 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* *
105762645 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
*
105762710 GGTTTTCAGACTCAGATACTGCCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
131 GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
* * *
105762769 GCAGCATTCTCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACTGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
* * *
105762834 T-TCAGATTCTCCTGAAACCTTCGTTTCACACTGAA-CTCTCTCTACAGAATCAGGCAATGATGC
66 TCT-AGATTCTCCTGAAAACTTCGTTTCACACTGAACCT-TATCTACACAATCAGGCAATGATGC
* *
105762897 TGGGTTTTCAGACTCGGATACTACCTGTCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
129 TGGGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
105762958 GCAG
1 GCAG
105762962 TCACCCTGCC
Statistics
Matches: 180, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 3 0.02
189 177 0.98
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (189 bp):
GCAGCATTCTCCTCAGGCAAATCCCTCTCCGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
TCTAGATTCTCCTGAAAACTTCGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
GGTTTTCAGACTCAGATACTACCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
Found at i:105771662 original size:16 final size:16
Alignment explanation
Indices: 105771641--105771710 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
105771631 TTTGGTTCGC
*
105771641 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
105771657 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
105771673 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
105771689 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
105771705 TGTAAT
1 TGTAAT
105771711 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:105771745 original size:45 final size:41
Alignment explanation
Indices: 105771689--105771798 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
105771679 GGATTAGAGG
*
105771689 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
105771731 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
105771774 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
105771799 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:105771965 original size:18 final size:17
Alignment explanation
Indices: 105771944--105771978 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105771934 TTATTATTAA
*
105771944 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
105771962 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
105771979 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:105772032 original size:157 final size:157
Alignment explanation
Indices: 105771831--105772147 Score: 607
Period size: 157 Copynumber: 2.0 Consensus size: 157
105771821 TAGAATACCC
*
105771831 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
105771896 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
105771961 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
105771988 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
105772053 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
105772118 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
105772145 TTA
1 TTA
105772148 ATATTCTTAT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:105772122 original size:18 final size:17
Alignment explanation
Indices: 105772101--105772135 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105772091 TTATTATTAA
*
105772101 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
105772119 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
105772136 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:105772239 original size:157 final size:153
Alignment explanation
Indices: 105771905--105772213 Score: 361
Period size: 157 Copynumber: 2.0 Consensus size: 153
105771895 ATTATCAATA
105771905 ATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATT
1 ATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATT
* * * * * * * *
105771970 TAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAA
66 TAATAAAATTCTTAATAATTAACACAAATATGATTTGCTAAATTAATATTGATACTGTTA--TAA
* * * *
105772035 ATTTTAATAAGATTATTAATATCAAT
129 ATATAAATAACATAATTAATAT-AAT
105772061 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAAT
1 -ATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAAT
* **
105772126 TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTGCTCAAATCATAATATATGATACTG
65 TTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTGCT-AAAT--TAATAT-TGATACTG
105772191 -TA-AAATATAAATTAACATAATTA
123 TTATAAATATAAA-TAACATAATTA
105772214 TTATTAAATA
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
157 87 0.67
159 4 0.03
160 12 0.09
161 13 0.10
163 7 0.05
164 6 0.05
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (153 bp):
ATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATT
TAATAAAATTCTTAATAATTAACACAAATATGATTTGCTAAATTAATATTGATACTGTTATAAAT
ATAAATAACATAATTAATATAAT
Found at i:105779388 original size:3 final size:3
Alignment explanation
Indices: 105779360--105779426 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
105779350 TATATATATA
* * **
105779360 TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT TAT GGT T-T TA-
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
*
105779404 TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
105779427 AATAAATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
2 6 0.12
3 38 0.76
4 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:105780702 original size:21 final size:21
Alignment explanation
Indices: 105780676--105780743 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
105780666 TTGTTTTGAG
105780676 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
105780697 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
105780715 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
105780737 TACTGAA
1 TACTGAA
105780744 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:105780709 original size:40 final size:40
Alignment explanation
Indices: 105780657--105780743 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
105780647 AATTATGGAA
* * *
105780657 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
* *
105780697 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
105780737 TACTGAA
1 TACTGAA
105780744 GTAATGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAAT
Found at i:105783362 original size:30 final size:30
Alignment explanation
Indices: 105783328--105783388 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
105783318 TCCTTAACTC
105783328 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
105783358 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
105783388 A
1 A
105783389 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:105784483 original size:45 final size:45
Alignment explanation
Indices: 105784377--105784483 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
105784367 TGACTACTGT
* *
105784377 TACTGTTATCGTTACTATTACCAATTCGACACTTTGTGTCTCGAA
1 TACTGTTATCGTTACTGTTACAAATTCGACACTTTGTGTCTCGAA
* * * *
105784422 TACTGTTACCGTTACTGTTACAAATTC-AGTACTTTGTGTGTTGAA
1 TACTGTTATCGTTACTGTTACAAATTCGA-CACTTTGTGTCTCGAA
*
105784467 TACTGTTATTGTTACTG
1 TACTGTTATCGTTACTG
105784484 CTATCGTTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (45 bp):
TACTGTTATCGTTACTGTTACAAATTCGACACTTTGTGTCTCGAA
Found at i:105790534 original size:3 final size:3
Alignment explanation
Indices: 105790491--105790572 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
105790481 TTTTATTTAG
* *
105790491 ATT ATAT ATAT ATT A-T ATT A-T ATA ATT GATT ATT ATA ATT ATT AATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT
* * *
105790538 ATT ATG GTT -TT A-T ATT ATT ATT AGT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
105790573 AATAAATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
2 8 0.13
3 42 0.67
4 13 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:105791093 original size:17 final size:18
Alignment explanation
Indices: 105791064--105791102 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
105791054 ACAGAGGAGA
*
105791064 AAAAGAGAAAGAAAAGGG
1 AAAAGAGAAAGAAAAAGG
105791082 AAAAGA-AAAGAAAAAGG
1 AAAAGAGAAAGAAAAAGG
105791099 AAAA
1 AAAA
105791103 ACTAGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAGAAAAAGG
Found at i:105791103 original size:18 final size:18
Alignment explanation
Indices: 105791062--105791103 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
105791052 AAACAGAGGA
105791062 GAAAAAGAGAAAGAAAAG
1 GAAAAAGAGAAAGAAAAG
*
105791080 GGAAAAGA-AAAGAAAAAG
1 GAAAAAGAGAAAG-AAAAG
105791098 GAAAAA
1 GAAAAA
105791104 CTAGAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
GAAAAAGAGAAAGAAAAG
Found at i:105792163 original size:45 final size:45
Alignment explanation
Indices: 105792091--105792203 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
105792081 TGACTACTGC
*
105792091 TACTATTACCGTTACTGTTACCA-ATTCAACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAGATTCAACACTTTGTGTGTCGAA
** *
105792136 TACTGTTACCGTTACTGTTACAGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
** *
105792181 TACTGTTATTGTTACTGCTACAG
1 TACTGTTACCGTTACTGTTACAG
105792204 TTACTGATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 2 0.03
45 58 0.97
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:105803986 original size:50 final size:50
Alignment explanation
Indices: 105803862--105804110 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
105803852 GATAATAACA
* * ** * *
105803862 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
105803913 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
105803963 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
105804013 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
105804068 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
105804111 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:105804040 original size:100 final size:104
Alignment explanation
Indices: 105803861--105804110 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
105803851 TGATAATAAC
**
105803861 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
105803926 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
105803963 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
105804026 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
105804068 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
105804111 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:105804226 original size:13 final size:13
Alignment explanation
Indices: 105804205--105804236 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
105804195 GCTTGGATCA
*
105804205 TCATCAAATAAAT
1 TCATAAAATAAAT
105804218 TCATAAAATAAAT
1 TCATAAAATAAAT
105804231 TCATAA
1 TCATAA
105804237 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:105804483 original size:30 final size:29
Alignment explanation
Indices: 105804448--105804504 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
105804438 CCTCGACTCT
*
105804448 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
105804478 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
105804505 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:105809436 original size:36 final size:36
Alignment explanation
Indices: 105809369--105809449 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
105809359 TATTCTAACC
* * *
105809369 GAAACACATCAGATGCTCATAATAACTAATCCATTT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
* * *
105809405 GAAACACATCAGATGCTTATACGAGCCAATCCATCT
1 GAAACACATCAGATGCTCATAAGAACCAATCCATCT
105809441 GATAACACA
1 GA-AACACA
105809450 CCAATGTCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 32 0.84
37 6 0.16
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (36 bp):
GAAACACATCAGATGCTCATAAGAACCAATCCATCT
Found at i:105813684 original size:16 final size:16
Alignment explanation
Indices: 105813663--105813695 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
105813653 CACCTAAAGA
105813663 ATAAAAACAACTCAAC
1 ATAAAAACAACTCAAC
105813679 ATAAAAACAACTCAAC
1 ATAAAAACAACTCAAC
105813695 A
1 A
105813696 CTCAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (16 bp):
ATAAAAACAACTCAAC
Found at i:105816089 original size:24 final size:25
Alignment explanation
Indices: 105816062--105816126 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
105816052 TTCCTGTTAT
105816062 TGGCTCGTATGAGCTTCCC-ATTA-A
1 TGGCTCGTATGAGCTTCCCGA-TACA
*
105816086 TGGCTC-TCTAGAGCTTCCCGATACA
1 TGGCTCGTAT-GAGCTTCCCGATACA
*
105816111 TGGCTCGCATGAGCTT
1 TGGCTCGTATGAGCTT
105816127 TCCGTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 2 0.06
24 17 0.50
25 14 0.41
26 1 0.03
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (25 bp):
TGGCTCGTATGAGCTTCCCGATACA
Found at i:105816124 original size:25 final size:24
Alignment explanation
Indices: 105815994--105816126 Score: 92
Period size: 25 Copynumber: 5.4 Consensus size: 24
105815984 AAGGCTCTTT
* *
105815994 CATGAGCTTCCCGATTAATTTGCTCT
1 CATGAGCTTCCCGA-TAA-TGGCTCG
*
105816020 C-TAGAGCTTCCCGATATTGGCTCG
1 CAT-GAGCTTCCCGATAATGGCTCG
* * * * *
105816044 CTTGAACTTTCCTGTTATTGGCTCG
1 CATGAGC-TTCCCGATAATGGCTCG
* *
105816069 TATGAGCTTCCC-ATTAATGGCTCT
1 CATGAGCTTCCCGA-TAATGGCTCG
105816093 C-TAGAGCTTCCCGATACATGGCTCG
1 CAT-GAGCTTCCCGATA-ATGGCTCG
105816118 CATGAGCTT
1 CATGAGCTT
105816127 TCCGTTTATA
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.01
24 32 0.38
25 38 0.45
26 13 0.15
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
CATGAGCTTCCCGATAATGGCTCG
Found at i:105816148 original size:74 final size:75
Alignment explanation
Indices: 105815994--105816156 Score: 208
Period size: 74 Copynumber: 2.2 Consensus size: 75
105815984 AAGGCTCTTT
* * *
105815994 CATGAGCTTCCCGATTAATTTGCTCTCTAGAGCTTCCCGATATTGGCTCGCTTGAACTTTCCTGT
1 CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATAATGGCTCGCATGAACTTTCCTGT
*
105816059 TATTGGCTCG
66 TATTGGCTCA
* *
105816069 TATGAGCTTCCC-ATTAA-TGGCTCTCTAGAGCTTCCCGATACATGGCTCGCATGAGCTTTCC-G
1 CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATA-ATGGCTCGCATGAACTTTCCTG
105816131 TTTATAT-GCTCA
65 -TTAT-TGGCTCA
105816143 CATGAGCATTCCCG
1 CATGAGC-TTCCCG
105816157 GATATGAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
73 23 0.30
74 36 0.47
75 17 0.22
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (75 bp):
CATGAGCTTCCCGATTAATTGGCTCTCTAGAGCTTCCCGATAATGGCTCGCATGAACTTTCCTGT
TATTGGCTCA
Found at i:105828840 original size:52 final size:52
Alignment explanation
Indices: 105828784--105828888 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
105828774 GCATGCAGAT
* *
105828784 ATATGTCTGCATATGTGTGCATGTGGATGCCCCAACTCAGAATACCAGTTCC
1 ATATGTCTGCATATGTGTGCATGTAGATACCCCAACTCAGAATACCAGTTCC
*
105828836 ATATGTCTGCATATGTGTGCATGTAGATACCCCAACTTAGAATACCAGTTCC
1 ATATGTCTGCATATGTGTGCATGTAGATACCCCAACTCAGAATACCAGTTCC
105828888 A
1 A
105828889 AACATATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (52 bp):
ATATGTCTGCATATGTGTGCATGTAGATACCCCAACTCAGAATACCAGTTCC
Found at i:105829202 original size:21 final size:20
Alignment explanation
Indices: 105829169--105829207 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
105829159 GCCCAGGCCG
*
105829169 TGTAGGGGTTTACACGCCTA
1 TGTAGGGCTTTACACGCCTA
105829189 TGTAGAGGCTTTACACGCC
1 TGTAG-GGCTTTACACGCC
105829208 CGTGTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (20 bp):
TGTAGGGCTTTACACGCCTA
Found at i:105835319 original size:42 final size:42
Alignment explanation
Indices: 105835271--105835350 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
105835261 CTTCCTCAGC
105835271 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTCCGT
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTCCGT
105835313 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCT
1 CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCT
105835351 TCTCATCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (42 bp):
CCCTTCCTAATGCCTATGAAATTGAATTGACACCTTCTCCGT
Found at i:105835626 original size:9 final size:9
Alignment explanation
Indices: 105835612--105835680 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
105835602 AATAAGTATA
105835612 AAATTAACC
1 AAATTAACC
105835621 AAATTAACC
1 AAATTAACC
*
105835630 GAATTAACC
1 AAATTAACC
*
105835639 AAATTACCC
1 AAATTAACC
105835648 AAATTAACC
1 AAATTAACC
*
105835657 AAATTAATC
1 AAATTAACC
*
105835666 GAATTAACC
1 AAATTAACC
*
105835675 GAATTA
1 AAATTA
105835681 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (9 bp):
AAATTAACC
Found at i:105835659 original size:36 final size:36
Alignment explanation
Indices: 105835612--105835680 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
105835602 AATAAGTATA
105835612 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
1 AAATTAACCAAATTAACCGAATTAACCAAATTACCC
* *
105835648 AAATTAACCAAATTAATCGAATTAACCGAATTA
1 AAATTAACCAAATTAACCGAATTAACCAAATTA
105835681 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (36 bp):
AAATTAACCAAATTAACCGAATTAACCAAATTACCC
Found at i:105835711 original size:6 final size:6
Alignment explanation
Indices: 105835700--105835744 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
105835690 AATTATATGT
*
105835700 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTATTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA T
105835745 ATATTAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:105835782 original size:5 final size:5
Alignment explanation
Indices: 105835772--105835802 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
105835762 ATTTTTATGA
105835772 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG T
105835803 ACTTGAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:105838291 original size:42 final size:42
Alignment explanation
Indices: 105838244--105838330 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
105838234 GTCTAGAATA
105838244 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
105838286 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
1 AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
105838328 AAC
1 AAC
105838331 GAGAGAGTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (42 bp):
AACCACAATTAGGTTGAATTGTCTTTCTCATTATTAAAAACT
Done.