Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 211 of 211
Found at i:65698951 original size:20 final size:19
Alignment explanation
Indices: 65698926--65698975 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
65698916 TTATGAAAAT
* *
65698926 ATATGTATGTATATATTAAA
1 ATATGTATATATA-AGTAAA
*
65698946 ATATGTATATATAAGTATA
1 ATATGTATATATAAGTAAA
65698965 ATATGTATATA
1 ATATGTATATA
65698976 AAAAAATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
ATATGTATATATAAGTAAA
Found at i:65699254 original size:3 final size:3
Alignment explanation
Indices: 65699246--65699277 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
65699236 ATACATGGTT
65699246 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
65699278 GATGCAATAT
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:65704463 original size:21 final size:22
Alignment explanation
Indices: 65704437--65704483 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65704427 CTCTGCTCAA
*
65704437 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
65704458 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
65704480 ACTC
1 ACTC
65704484 ACTCCTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:65707390 original size:22 final size:22
Alignment explanation
Indices: 65707336--65707396 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 22
65707326 TTGTACTATA
* *
65707336 CTTTATGTACTTGGTTTCTTTTT
1 CTTTATGTA-ATGCTTTCTTTTT
65707359 -TTTAAT-TAATGCTTTCTTTTT
1 CTTT-ATGTAATGCTTTCTTTTT
65707380 CTTTATGTAATTGCTTT
1 CTTTATGTAA-TGCTTT
65707397 GTATAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 13 0.41
22 11 0.34
23 8 0.25
ACGTcount: A:0.15, C:0.11, G:0.10, T:0.64
Consensus pattern (22 bp):
CTTTATGTAATGCTTTCTTTTT
Found at i:65712240 original size:31 final size:32
Alignment explanation
Indices: 65712180--65712241 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
65712170 AACTATTTCT
*
65712180 AAAAATTGAATAAAATCAAAATTTCATGTATA
1 AAAAATCGAATAAAATCAAAATTTCATGTATA
* *
65712212 AAAAATCGCATAAAATCAAAGTTT-ATGTAT
1 AAAAATCGAATAAAATCAAAATTTCATGTAT
65712242 GAGATTGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (32 bp):
AAAAATCGAATAAAATCAAAATTTCATGTATA
Found at i:65715849 original size:22 final size:20
Alignment explanation
Indices: 65715815--65715857 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
65715805 AGTTCTTTTT
65715815 TATTTCAAAAAATATATATACA
1 TATTTCAAAAAATA-A-ATACA
65715837 TATTT-AAAGAAATAAATACA
1 TATTTCAAA-AAATAAATACA
65715857 T
1 T
65715858 TAAATCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
TATTTCAAAAAATAAATACA
Found at i:65731574 original size:71 final size:69
Alignment explanation
Indices: 65731454--65731591 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 69
65731444 TATGAATATT
65731454 TATTTACAGATATTATTATTTTAAAAAATAATATGAAGTACCTAGTGTTTTAAACTGGGTTAAAA
1 TATTTACAGATATTATTATTTTAAAAAATAATATGAAGTACCTAGTGTTTTAAACTGGGTTAAAA
65731519 TAAA
66 TAAA
* *
65731523 TATTTAGAGATATTATTATTTTAAAAAAAATACTATGAAGTACCTAGTGTTTTAAACTGGGTTAA
1 TATTTACAGATATTATTATTTT--AAAAAATAATATGAAGTACCTAGTGTTTTAAACTGGGTTAA
65731588 AATA
64 AATA
65731592 TTTAAATATA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 21 0.32
71 44 0.68
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (69 bp):
TATTTACAGATATTATTATTTTAAAAAATAATATGAAGTACCTAGTGTTTTAAACTGGGTTAAAA
TAAA
Found at i:65733454 original size:20 final size:19
Alignment explanation
Indices: 65733431--65733476 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
65733421 ATTTATTTTT
*
65733431 AAAATTTAAAAATTATTAAA
1 AAAATTTAAAAAGTA-TAAA
*
65733451 AAAATATAAAAAGTATAAA
1 AAAATTTAAAAAGTATAAA
*
65733470 AATATTT
1 AAAATTT
65733477 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTTAAAAAGTATAAA
Found at i:65735311 original size:29 final size:29
Alignment explanation
Indices: 65735256--65735312 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
65735246 CTGGACCAAA
**
65735256 TTAGTCCCTATACTATTAAATTGATCAAT
1 TTAGTCCCTATACTATTAAAAAGATCAAT
*
65735285 TTAGTCCC-ATATTATTAAAAAGAATCAA
1 TTAGTCCCTATACTATTAAAAAG-ATCAA
65735313 ATAAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (29 bp):
TTAGTCCCTATACTATTAAAAAGATCAAT
Found at i:65737059 original size:18 final size:18
Alignment explanation
Indices: 65737036--65737084 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
65737026 TCTAACATTA
*
65737036 AAATATTATAGTATTATT
1 AAATATTATAATATTATT
65737054 AAATATTATAATATTATT
1 AAATATTATAATATTATT
*
65737072 AAATATTTTAATA
1 AAATATTATAATA
65737085 AAGTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AAATATTATAATATTATT
Found at i:65737062 original size:10 final size:10
Alignment explanation
Indices: 65737047--65737082 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
65737037 AATATTATAG
65737047 TATTATTAAA
1 TATTATTAAA
65737057 TATTA-T-AA
1 TATTATTAAA
65737065 TATTATTAAA
1 TATTATTAAA
65737075 TATT-TTAA
1 TATTATTAA
65737083 TAAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.29
9 6 0.25
10 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATTAAA
Found at i:65741328 original size:114 final size:111
Alignment explanation
Indices: 65741129--65741518 Score: 484
Period size: 103 Copynumber: 3.6 Consensus size: 111
65741119 CACAGTACAA
* * * *
65741129 TTTTTT-TGTCAGAATCAGATACAAAAATACAAAAAAAATTAAAAAAAAAATTTTGAGTGTTGGC
1 TTTTTTGTGTCAGAATCAGATATAAAAATACAAAAAAAATTAAAAAAAAATTTTTGGGTGCTGGC
*
65741193 CTGTCAATGGCTGGCATCCAGTACACAGTACAAATTTTTTTTATTTTTTT
66 CTGTCAATGGC-GGCACCCAGTACACAGTACAAA---TTTTTATTTTTTT
* *
65741243 ATTTTTTGTATCAGAATCAGATATAAAAATACGAAAAAAATT-AAAAAAAA-TTTTGGGTGCTGG
1 -TTTTTTGTGTCAGAATCAGATATAAAAATACAAAAAAAATTAAAAAAAAATTTTTGGGTGCTGG
65741306 CCTGTCAATGGTCGGCACCCAGTACACAGTAC-AA-----A----TTT
65 CCTGTCAATGG-CGGCACCCAGTACACAGTACAAATTTTTATTTTTTT
* *
65741344 TTTTTTGTGTCAGAATTAGATATAAAAATACGAAAAAAATATAAAAAAAAATTTTTGGGTGCTGG
1 TTTTTTGTGTCAGAATCAGATATAAAAATACAAAAAAAAT-TAAAAAAAAATTTTTGGGTGCTGG
*
65741409 CCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTT-TTTTATT
65 CCTGTCAATGG-CGGCACCCAGTACACAGTACAAATTTTTATTTTTTT
* * * *
65741456 TTTTTCGTGTCAAAATCAGATATAAAAATATAAAAAAAATTTAAAAAAAATTTTTGGGTGCTG
1 TTTTTTGTGTCAGAATCAGATATAAAAATACAAAAAAAATTAAAAAAAAATTTTTGGGTGCTG
65741519 TGTACTGGGT
Statistics
Matches: 244, Mismatches: 16, Indels: 34
0.83 0.05 0.12
Matches are distributed among these distances:
100 38 0.16
101 4 0.02
102 8 0.03
103 44 0.18
104 2 0.01
105 1 0.00
111 22 0.09
112 37 0.15
113 2 0.01
114 40 0.16
115 15 0.06
116 31 0.13
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (111 bp):
TTTTTTGTGTCAGAATCAGATATAAAAATACAAAAAAAATTAAAAAAAAATTTTTGGGTGCTGGC
CTGTCAATGGCGGCACCCAGTACACAGTACAAATTTTTATTTTTTT
Found at i:65741405 original size:103 final size:101
Alignment explanation
Indices: 65741075--65741518 Score: 472
Period size: 114 Copynumber: 4.2 Consensus size: 101
65741065 TACGAAAAAG
65741075 AAAAAAAAA--TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AA---TTTTT
1 AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTTT
* *
65741134 T-TGTCAGAATCAGATACAAAAATACAAAAAAAATT
66 TGTGTCAGAATCAGATATAAAAATACGAAAAAAATT
* * * *
65741169 AAAAAAAAAATTTTGAGTGTTGGCCTGTCAATGGCTGGCATCCAGTACACAGTACAAATTTTTTT
1 -AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AA-------
*
65741234 TATTTTTTTATTTTTTGTATCAGAATCAGATATAAAAATACGAAAAAAATT
57 -A----TTT-TTTTTTGTGTCAGAATCAGATATAAAAATACGAAAAAAATT
*
65741285 -AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACACAGTACAAATTTTTTTT
1 AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTTT
*
65741349 TGTGTCAGAATTAGATATAAAAATACGAAAAAAATAT
66 TGTGTCAGAATCAGATATAAAAATACGAAAAAAAT-T
65741386 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTT
1 AAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA-------
* **
65741451 TTATTTTTTTCGTGTCAAAATCAGATATAAAAATATAAAAAAAATTT
58 TT-TTTTTTT-GTGTCAGAATCAGATATAAAAATACGAAAAAAA-TT
*
65741498 AAAAAAAATTTTTGGGTGCTG
1 AAAAAAAAATTTTGGGTGCTG
65741519 TGTACTGGGT
Statistics
Matches: 295, Mismatches: 20, Indels: 52
0.80 0.05 0.14
Matches are distributed among these distances:
95 9 0.03
97 39 0.13
99 1 0.00
100 38 0.13
101 4 0.01
102 8 0.03
103 47 0.16
105 1 0.00
107 1 0.00
110 2 0.01
111 19 0.06
112 38 0.13
113 3 0.01
114 48 0.16
115 6 0.02
116 31 0.11
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (101 bp):
AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTTT
TGTGTCAGAATCAGATATAAAAATACGAAAAAAATT
Found at i:65741507 original size:11 final size:11
Alignment explanation
Indices: 65741479--65741508 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65741469 AATCAGATAT
*
65741479 AAAAATATAAA
1 AAAAATTTAAA
65741490 AAAAATTTAAA
1 AAAAATTTAAA
65741501 AAAAATTT
1 AAAAATTT
65741509 TTGGGTGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:65741652 original size:113 final size:112
Alignment explanation
Indices: 65741488--65741774 Score: 394
Period size: 112 Copynumber: 2.6 Consensus size: 112
65741478 TAAAAATATA
* *
65741488 AAAAAAATTTAAAAAAAATTTTTGGGTGCTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACC
1 AAAAAAA--TAAAAAAAA-TTTT--GTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
65741553 CAAAAAAAAATTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC
61 CAAAAAAAAATTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC
65741605 GAAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AA
1 -AAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
* * *
65741669 AAAAATTTTTTTAATTTTTTTTTGTATTTTTATATCTGATTCTGACAC
65 AAAAAATTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC
*
65741717 --------AAAAAAAATTTTGTACTGTGTACCTGGGTGCCGGCCATTGACAGGCCAGCACCTAAA
1 AAAAAAATAAAAAAAATTTTGTACTGTGTA-CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
65741774 A
65 A
65741775 TTTTTTTTTC
Statistics
Matches: 161, Mismatches: 6, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
103 22 0.14
104 30 0.19
105 3 0.02
112 47 0.29
113 39 0.24
115 4 0.02
116 9 0.06
118 7 0.04
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (112 bp):
AAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
AAAAATTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC
Found at i:65741806 original size:104 final size:101
Alignment explanation
Indices: 65741498--65741794 Score: 339
Period size: 113 Copynumber: 2.8 Consensus size: 101
65741488 AAAAAAATTT
* *
65741498 AAAAAAAATTTTTGGGTGCTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAAAAA
1 AAAAAAAA-TTTT--GTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC---AAAAAA
** *
65741563 TTTTTAAATTTTTTTTCGTATTTTTATATCTGATTCTGACAC
60 TTTTTTTATTCTTTTTCGTATTTTTATATCTGATTCTGACAC
65741605 GAAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
1 ---------AAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AA
* *
65741670 AAAATTTTTTTAATTTTTTTTTGTATTTTTATATCTGATTCTGACAC
56 AAAATTTTTTT-ATTCTTTTTCGTATTTTTATATCTGATTCTGACAC
*
65741717 AAAAAAAATTTTGTACTGTGTACCTGGGTGCCGGCCATTGACAGGCCAGCA-CC-TAAAATTTTT
1 AAAAAAAATTTTGTACTGTGTA-CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTT
65741780 TT-TTCTTTTTCGTAT
65 TTATTCTTTTTCGTAT
65741795 ATCAGTATTA
Statistics
Matches: 171, Mismatches: 8, Indels: 21
0.86 0.04 0.10
Matches are distributed among these distances:
99 11 0.06
101 11 0.06
103 24 0.14
104 28 0.16
111 12 0.07
112 34 0.20
113 39 0.23
115 4 0.02
116 8 0.05
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (101 bp):
AAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTT
TATTCTTTTTCGTATTTTTATATCTGATTCTGACAC
Found at i:65742949 original size:30 final size:30
Alignment explanation
Indices: 65742913--65742969 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65742903 AATAGTTTAT
65742913 ATTTTTATAATTTTTAAAGAA-TTAAATTAA
1 ATTTTTATAATTTTT-AAGAACTTAAATTAA
*
65742943 ATTTTTATTATTTTTAAGAACTTAAAT
1 ATTTTTATAATTTTTAAGAACTTAAAT
65742970 ATAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAGAACTTAAATTAA
Found at i:65742979 original size:29 final size:29
Alignment explanation
Indices: 65742917--65742979 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 29
65742907 GTTTATATTT
*
65742917 TTATAATTTTTAAAGAATTAAATTAAATTT
1 TTATAATTTTT-AAGAATTAAATTAAATTA
*
65742947 TTATTATTTTTAAGAACTTAAATATAATATTA
1 TTATAATTTTTAAGAA-TTAAAT-TAA-ATTA
65742979 T
1 T
65742980 CATTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 16 0.57
31 3 0.11
32 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (29 bp):
TTATAATTTTTAAGAATTAAATTAAATTA
Found at i:65743553 original size:22 final size:23
Alignment explanation
Indices: 65743507--65743553 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
65743497 GATTAAAATT
*
65743507 AAATTGTAATTTTTAAAATAGTA
1 AAATTGTAATTTTTAAAAGAGTA
* *
65743530 AAATTTTAA-TTTTAAAAGATTA
1 AAATTGTAATTTTTAAAAGAGTA
65743552 AA
1 AA
65743554 TCAAAATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
AAATTGTAATTTTTAAAAGAGTA
Found at i:65748480 original size:54 final size:53
Alignment explanation
Indices: 65748414--65748524 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 53
65748404 ATATATTATG
* *
65748414 ATTTTAGTAAATTCATA-AAAGAATAATTATATTAAGAATTTTATTAAATTATAT
1 ATTTTAGTAAATT-ATATAAAGAATAATTATATTAA-AATATGATTAAATTATAT
* * * * *
65748468 ATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTT
1 ATTTTAGTAAATTATA-TAAAGAATAATTATATTAAAATATGATTAAATTATAT
65748522 ATT
1 ATT
65748525 ATTTATATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.06
54 30 0.62
55 15 0.31
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.49
Consensus pattern (53 bp):
ATTTTAGTAAATTATATAAAGAATAATTATATTAAAATATGATTAAATTATAT
Found at i:65748484 original size:17 final size:17
Alignment explanation
Indices: 65748451--65748484 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
65748441 TATATTAAGA
65748451 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
65748468 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
65748485 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:65748744 original size:16 final size:16
Alignment explanation
Indices: 65748725--65748756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65748715 TTATTATAGT
65748725 TCTATTCTATTACAGC
1 TCTATTCTATTACAGC
*
65748741 TCTATTTTATTACAGC
1 TCTATTCTATTACAGC
65748757 AAACCAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
TCTATTCTATTACAGC
Found at i:65751563 original size:21 final size:21
Alignment explanation
Indices: 65751539--65751579 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65751529 TCGCTAAACT
65751539 TTAAAATTATAAATTTACATA
1 TTAAAATTATAAATTTACATA
* *
65751560 TTAAAATTATTACTTTACAT
1 TTAAAATTATAAATTTACAT
65751580 GGTTTTCCGC
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:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAATTATAAATTTACATA
Found at i:65751887 original size:21 final size:21
Alignment explanation
Indices: 65751861--65751902 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
65751851 CAATGAAAAT
*
65751861 TTTTGAACAA-TTTAATGATCA
1 TTTTGAA-AAGTTAAATGATCA
65751882 TTTTGAAAAGTTAAATGATCA
1 TTTTGAAAAGTTAAATGATCA
65751903 AAACAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTTGAAAAGTTAAATGATCA
Found at i:65765078 original size:30 final size:30
Alignment explanation
Indices: 65765044--65765100 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
65765034 TGCATTTCCA
65765044 TTCTGCTGCTGAATTTGAGGAGCCAAAATG
1 TTCTGCTGCTGAATTTGAGGAGCCAAAATG
65765074 TTCTGCTGCTGAATTTGAGGAGCCAAA
1 TTCTGCTGCTGAATTTGAGGAGCCAAA
65765101 GGATATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (30 bp):
TTCTGCTGCTGAATTTGAGGAGCCAAAATG
Found at i:65769713 original size:2 final size:2
Alignment explanation
Indices: 65769706--65769752 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
65769696 AATAATTCTA
*
65769706 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
65769748 AG AG A
1 AG AG A
65769753 AACTGGAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65770472 original size:27 final size:27
Alignment explanation
Indices: 65770421--65770472 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
65770411 AGGGCTGAAG
*
65770421 GTGGTGCTAATGAGAATGGCAGCACCA
1 GTGGTGCTAATGAGAATAGCAGCACCA
*
65770448 GTGGTGCTAATGAGAATAGCGGCAC
1 GTGGTGCTAATGAGAATAGCAGCAC
65770473 AGGACTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.19
Consensus pattern (27 bp):
GTGGTGCTAATGAGAATAGCAGCACCA
Found at i:65771091 original size:12 final size:12
Alignment explanation
Indices: 65771074--65771099 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65771064 TATTCTTTTC
65771074 AAAAAAAACTAT
1 AAAAAAAACTAT
65771086 AAAAAAAACTAT
1 AAAAAAAACTAT
65771098 AA
1 AA
65771100 TACGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAAACTAT
Found at i:65795979 original size:18 final size:20
Alignment explanation
Indices: 65795923--65796025 Score: 64
Period size: 18 Copynumber: 5.5 Consensus size: 20
65795913 TAAAAAAATC
*
65795923 AAATATTAAAAATTAG-AATA
1 AAATA-TAAAAATTAGTAAGA
* *
65795943 AAATATAAAAA--AGAAAAA
1 AAATATAAAAATTAGTAAGA
65795961 AAATATAAAAATT-GT-A-A
1 AAATATAAAAATTAGTAAGA
* *
65795978 AATTGTATAAAATTAGTAAGA
1 AAATATA-AAAATTAGTAAGA
*
65795999 AATTATAAAAA-TA-T-AG-
1 AAATATAAAAATTAGTAAGA
65796015 AAATATAAAAA
1 AAATATAAAAA
65796026 ACTTATAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
16 10 0.14
17 10 0.14
18 22 0.31
19 11 0.16
20 10 0.14
21 7 0.10
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
AAATATAAAAATTAGTAAGA
Found at i:65795989 original size:27 final size:27
Alignment explanation
Indices: 65795959--65796054 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 27
65795949 AAAAAAGAAA
* *
65795959 AAAAATATAAAAATTGTAAAATTGTAT
1 AAAAATATAAAAATTATAAAATTATAT
*
65795986 AAAATTAGTAAGAAATTATAAAA--ATAT
1 AAAAATA-TAA-AAATTATAAAATTATAT
* *
65796013 AGAAATATAAAAAACTTATAAAATTTTAT
1 AAAAATAT-AAAAA-TTATAAAATTATAT
**
65796042 AAAGTTATAAAAA
1 AAAAATATAAAAA
65796055 ATGTAAAGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
26 4 0.07
27 24 0.44
28 8 0.15
29 18 0.33
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAAATATAAAAATTATAAAATTATAT
Found at i:65796035 original size:56 final size:54
Alignment explanation
Indices: 65795961--65796069 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 54
65795951 AAAAGAAAAA
* *
65795961 AAATATAAAAATTGTAAAATTGTATAAAATTAGTAAGAAAT-TATAA-AAATATAG
1 AAATATAAAAATTATAAAATTGTATAAAATTA-TAAAAAATGTA-AAGAAATATAG
* *
65796015 AAATATAAAAAACTTATAAAATTTTATAAAGTTATAAAAAATGTAAAGAAATATA
1 AAATAT-AAAAA-TTATAAAATTGTATAAAATTATAAAAAATGTAAAGAAATATA
65796070 AATTTAGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 6 0.13
55 14 0.30
56 27 0.57
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATATAAAAATTATAAAATTGTATAAAATTATAAAAAATGTAAAGAAATATAG
Found at i:65796050 original size:29 final size:27
Alignment explanation
Indices: 65795967--65796098 Score: 83
Period size: 29 Copynumber: 4.6 Consensus size: 27
65795957 AAAAAAATAT
* *
65795967 AAAAATTGTAAAATTGTATAAAATTAGTA
1 AAAAATTATAAAATTATAT-AAATTA-TA
* * *
65795996 AGAAATTATAAAAATATAGAAA-TATA
1 AAAAATTATAAAATTATATAAATTATA
*
65796022 AAAAACTTATAAAATTTTATAAAGTTATA
1 AAAAA-TTATAAAATTATATAAA-TTATA
65796051 AAAAATGTA-AAGAA--ATATAAATTTAGTAA
1 AAAAAT-TATAA-AATTATATAAA-TTA-T-A
65796080 AAAAATTTATAAAAATTAT
1 AAAAA-TTAT-AAAATTAT
65796099 CATACCAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
26 6 0.08
27 25 0.31
28 7 0.09
29 35 0.44
30 3 0.04
31 2 0.03
32 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAAATTATAAAATTATATAAATTATA
Found at i:65796271 original size:36 final size:37
Alignment explanation
Indices: 65796231--65796302 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
65796221 GGGGTCATTA
* *
65796231 ATTTTGTACGATTTTTAT-AAAATTTTATAATTTTTT
1 ATTTTGTACAATTTTTATAAAAATATTATAATTTTTT
* *
65796267 ATTTTTTACAATTTTTATAAAAATATTCTAATTTTT
1 ATTTTGTACAATTTTTATAAAAATATTATAATTTTT
65796303 AATAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (37 bp):
ATTTTGTACAATTTTTATAAAAATATTATAATTTTTT
Found at i:65796325 original size:24 final size:26
Alignment explanation
Indices: 65796297--65796346 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
65796287 AAATATTCTA
65796297 ATTTTTAAT-AAATTT-AGAATTTTT
1 ATTTTTAATAAAATTTAAGAATTTTT
* *
65796321 ATTTTTATTAAAATTTAATAATTTTT
1 ATTTTTAATAAAATTTAAGAATTTTT
65796347 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTTAATAAAATTTAAGAATTTTT
Found at i:65807002 original size:2 final size:2
Alignment explanation
Indices: 65806995--65807020 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65806985 AGCAGGAACC
65806995 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
65807021 AAAGGAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:65809470 original size:13 final size:12
Alignment explanation
Indices: 65809436--65809468 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
65809426 AATACACAAA
65809436 TAACTAAAATTTC
1 TAAC-AAAATTTC
65809449 TAACAAAATTTC
1 TAACAAAATTTC
65809461 TAACAAAA
1 TAACAAAA
65809469 ATGACTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
TAACAAAATTTC
Found at i:65811093 original size:182 final size:182
Alignment explanation
Indices: 65810786--65811323 Score: 1040
Period size: 182 Copynumber: 3.0 Consensus size: 182
65810776 TCTTCCCCCA
* *
65810786 GATGCAATATGCTATAACATCAACAAAACCAGTTATGGTTTTCCTGATAACAGAGTAAGAATTAA
1 GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
* *
65810851 AGAACCAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAATCACAAAACCAGTTCC
66 AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
65810916 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAACCAATGGGC
131 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAACCAATGGGC
65810968 GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
1 GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
65811033 AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
66 AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
65811098 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAACCAATGGGC
131 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAACCAATGGGC
65811150 GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
1 GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
65811215 AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
66 AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
65811280 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAAC
131 CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAAC
65811324 AGGTTTGCTG
Statistics
Matches: 352, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 352 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (182 bp):
GATGCAATATGCTATAACATCAACAAACCCAGTTTTGGTTTTCCTGATAACAGAGTAAGAATTAA
AGAAACAGATAAAATTGCAAATTATACTCCTATTCATGCAACCCAAAAAGCACAAAACCAGTTCC
CTCAACAACACTCCTAGTTATACAACATCCATGATGATACTAACCAATGGGC
Found at i:65814782 original size:32 final size:31
Alignment explanation
Indices: 65814695--65814786 Score: 150
Period size: 31 Copynumber: 2.9 Consensus size: 31
65814685 GCCCATTTTA
*
65814695 ATTTTAAAAAT-TTTAAAAAATTAAAAAAAGT
1 ATTTTAAAAATATTT-TAAAATTAAAAAAAGT
65814726 ATTTTAAAAATATTTTAAAATTAAAAAAAGT
1 ATTTTAAAAATATTTTAAAATTAAAAAAAGT
65814757 ATTTTAAAAATATTTTAAAATTTAAAAAAA
1 ATTTTAAAAATATTTTAAAA-TTAAAAAAA
65814787 TTAAAAAAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 46 0.79
32 12 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
ATTTTAAAAATATTTTAAAATTAAAAAAAGT
Found at i:65814793 original size:40 final size:40
Alignment explanation
Indices: 65814742--65814826 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
65814732 AAAATATTTT
* *
65814742 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAA-TTAAA
65814783 AAAATT-AAAAAAGTATGTAAAAAATATTTTAAAATTAAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAA
65814822 AAAAT
1 AAAAT
65814827 AAATATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 10 0.24
40 26 0.62
41 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (40 bp):
AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAA
Found at i:65814816 original size:11 final size:11
Alignment explanation
Indices: 65814695--65814776 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
65814685 GCCCATTTTA
65814695 ATTTT-AAAA-
1 ATTTTAAAAAT
65814704 ATTTTAAAAA-
1 ATTTTAAAAAT
**
65814714 ATTAAAAAAAGT
1 ATTTTAAAAA-T
65814726 ATTTTAAAAAT
1 ATTTTAAAAAT
65814737 ATTTT--AAA-
1 ATTTTAAAAAT
**
65814745 ATTAAAAAAAGT
1 ATTTTAAAAA-T
65814757 ATTTTAAAAAT
1 ATTTTAAAAAT
65814768 ATTTTAAAA
1 ATTTTAAAA
65814777 TTTAAAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
8 3 0.05
9 8 0.14
10 15 0.26
11 16 0.28
12 16 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:65817299 original size:21 final size:20
Alignment explanation
Indices: 65817269--65817311 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
65817259 AAAATTAAAT
65817269 TATTTATATTATGATTTTAG
1 TATTTATATTATGATTTTAG
65817289 TATTATATATTATGATTTTAG
1 TATT-TATATTATGATTTTAG
65817310 TA
1 TA
65817312 AATTCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (20 bp):
TATTTATATTATGATTTTAG
Found at i:65817590 original size:120 final size:120
Alignment explanation
Indices: 65817286--65817872 Score: 1013
Period size: 120 Copynumber: 4.9 Consensus size: 120
65817276 ATTATGATTT
65817286 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
65817351 ATTATATATTTTTATCT-AATTATA-TT--TAATAATAATTTTAAATTATATTTTG
66 ATTATATATTTTTAT-TAAATTATATTTAATAATAATAATTTTAAATTATATTTTA
65817403 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
65817468 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTA
*
65817523 TATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
65817588 ATTATATATTTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTA
*
65817643 TAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
65817708 ATTATATATTTTTATCT-AATTATATTTAATAATAATAATTTTAAATTATATTTTG
66 ATTATATATTTTTAT-TAAATTATATTTAATAATAATAATTTTAAATTATATTTTA
* *
65817763 TAGTATTATACATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * * *
65817828 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAAA
65817873 ATATGATTAA
Statistics
Matches: 448, Mismatches: 16, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
116 1 0.00
117 87 0.19
118 2 0.00
119 1 0.00
120 356 0.79
121 1 0.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTA
Found at i:65817844 original size:18 final size:17
Alignment explanation
Indices: 65817818--65817852 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65817808 AATATTAAGA
*
65817818 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
65817835 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
65817853 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:65818065 original size:19 final size:19
Alignment explanation
Indices: 65818041--65818078 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65818031 CTATTACGCC
65818041 TCTATTCCATTATATTCAA
1 TCTATTCCATTATATTCAA
65818060 TCTATTCCATTATATTCAA
1 TCTATTCCATTATATTCAA
65818079 CCAAACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTATTCCATTATATTCAA
Found at i:65830670 original size:16 final size:16
Alignment explanation
Indices: 65830649--65830680 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65830639 GTTTCAATGT
65830649 TGATTGAAGGTAGAAC
1 TGATTGAAGGTAGAAC
*
65830665 TGATTGAAGGTGGAAC
1 TGATTGAAGGTAGAAC
65830681 ATTTTGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (16 bp):
TGATTGAAGGTAGAAC
Found at i:65864169 original size:33 final size:33
Alignment explanation
Indices: 65864127--65864193 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
65864117 GGAGAAAAGA
*
65864127 TTAACTAACATAAGAGAAATTTCAGGCAAATAT
1 TTAACTAACATAAGACAAATTTCAGGCAAATAT
65864160 TTAACTAACATAAGACAAATTTCAGGCAAATAT
1 TTAACTAACATAAGACAAATTTCAGGCAAATAT
65864193 T
1 T
65864194 ATCTTTGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (33 bp):
TTAACTAACATAAGACAAATTTCAGGCAAATAT
Found at i:65870575 original size:24 final size:24
Alignment explanation
Indices: 65870530--65870576 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
65870520 TTATAAAATC
*
65870530 AATTATAGAATTAAATTTATATAA
1 AATTATAGAAATAAATTTATATAA
*
65870554 AATTATA-AAATAATTTTAATATA
1 AATTATAGAAATAAATTT-ATATA
65870577 TTTTAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTATAGAAATAAATTTATATAA
Found at i:65875173 original size:2 final size:2
Alignment explanation
Indices: 65875166--65875197 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
65875156 GAAGAGCACT
65875166 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
65875198 TCAAACTTTT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:65878847 original size:29 final size:29
Alignment explanation
Indices: 65878805--65878863 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
65878795 CAACACCAAT
65878805 CCTTCTTCGTTTTCTCGTAATACTTGTCA
1 CCTTCTTCGTTTTCTCGTAATACTTGTCA
*
65878834 CCTTCTTTGTTTTCTCGTAATACTTGTCA
1 CCTTCTTCGTTTTCTCGTAATACTTGTCA
65878863 C
1 C
65878864 AACAATCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.27, G:0.10, T:0.49
Consensus pattern (29 bp):
CCTTCTTCGTTTTCTCGTAATACTTGTCA
Found at i:65882011 original size:14 final size:14
Alignment explanation
Indices: 65881988--65882024 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
65881978 TAAACCTTAT
*
65881988 TAGGAAAAATTTTG
1 TAGGATAAATTTTG
*
65882002 TAGGGTAAATTTTG
1 TAGGATAAATTTTG
65882016 TAGGATAAA
1 TAGGATAAA
65882025 AACCTAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (14 bp):
TAGGATAAATTTTG
Found at i:65883913 original size:21 final size:21
Alignment explanation
Indices: 65883889--65883930 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
65883879 TCAAACTCAC
65883889 ACATAGTGGAAAAACCAAATG
1 ACATAGTGGAAAAACCAAATG
65883910 ACATAGTGGAAAAACCAAATG
1 ACATAGTGGAAAAACCAAATG
65883931 CATTTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.14
Consensus pattern (21 bp):
ACATAGTGGAAAAACCAAATG
Found at i:65884983 original size:18 final size:17
Alignment explanation
Indices: 65884957--65884992 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65884947 TTTGGTTATA
65884957 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
65884975 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
65884992 T
1 T
65884993 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:65885152 original size:47 final size:47
Alignment explanation
Indices: 65885083--65885178 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
65885073 TTTGGTCTTC
*
65885083 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
65885130 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
65885177 AA
1 AA
65885179 CACTAAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (47 bp):
AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
Found at i:65885520 original size:8 final size:8
Alignment explanation
Indices: 65885509--65885546 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
65885499 CAAAAACACA
65885509 TTTTTTTC
1 TTTTTTTC
65885517 TTTTCTTTC
1 TTTT-TTTC
*
65885526 TTTCTTT-
1 TTTTTTTC
65885533 TTTTTTTC
1 TTTTTTTC
65885541 TTTTTT
1 TTTTTT
65885547 GGGTGATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:65889372 original size:55 final size:54
Alignment explanation
Indices: 65889285--65889432 Score: 138
Period size: 58 Copynumber: 2.6 Consensus size: 54
65889275 TTTTTATAGT
* * * *
65889285 ATTATATATTATGATTTTTTAATTCATA--TAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTATG-TTATTAAATT-ATATTTAATAATTATATTAA-AATATGATTAA
* *
65889340 ATTATATATTATGTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATGTTATTAAATTATA-TT--TAATAATTATATTAAAATATGATTAA
* * *
65889397 ATTATTTATTATTTTTATTAAATTATTTTTAATAAT
1 ATTATATATTA-TGTTATTAAATTATATTTAATAAT
65889433 AATCTTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
53 3 0.04
54 8 0.10
55 20 0.26
57 20 0.26
58 27 0.35
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (54 bp):
ATTATATATTATGTTATTAAATTATATTTAATAATTATATTAAAATATGATTAA
Found at i:65889415 original size:58 final size:58
Alignment explanation
Indices: 65889312--65889435 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
65889302 TTTAATTCAT
* *
65889312 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATGTTATTAAATTATATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTATGTTATTAAATTATATTTA
* * * * *
65889370 ATAATAATTATGTTAA-AATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTA-TGTTATTAAATTATATTTA
65889428 ATAATAAT
1 ATAATAAT
65889436 CTTATTAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 18 0.31
58 40 0.69
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (58 bp):
ATAATAATTATATTAAGAATATGATTAAATTATATATTATGTTATTAAATTATATTTA
Found at i:65889571 original size:16 final size:16
Alignment explanation
Indices: 65889550--65889587 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
65889540 TAAATTACTG
*
65889550 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
65889566 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
65889582 ATTACA
1 ATTACA
65889588 GTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:65889708 original size:24 final size:24
Alignment explanation
Indices: 65889655--65889700 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
65889645 TCTTTTTAGA
* *
65889655 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
65889679 ATATTTAGAATTTATTAGCATA
1 ATATTTAGAATTTATTAGCATA
65889701 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:65893378 original size:9 final size:9
Alignment explanation
Indices: 65893361--65893397 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
65893351 TGAGTTTTCG
65893361 AATTCGAAT
1 AATTCGAAT
*
65893370 AACTCGAAT
1 AATTCGAAT
65893379 AATTCGAAT
1 AATTCGAAT
65893388 AATTCGAAT
1 AATTCGAAT
65893397 A
1 A
65893398 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:65893474 original size:21 final size:21
Alignment explanation
Indices: 65893433--65893475 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65893423 ACCCCAAACT
* *
65893433 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
65893454 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
65893475 C
1 C
65893476 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:65893507 original size:5 final size:5
Alignment explanation
Indices: 65893497--65893521 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
65893487 AAAACTTTTA
65893497 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
65893522 AACCCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:65898960 original size:306 final size:304
Alignment explanation
Indices: 65898358--65898972 Score: 1176
Period size: 306 Copynumber: 2.0 Consensus size: 304
65898348 GGATGGTGAT
*
65898358 TGTTAGGAATGATTGGAGGAGGATGATTTGTGTGCCGAATGTAAATTTTTCTTAGTCTTATAGCC
1 TGTTAGGAATGATTGGAGGAGGAGGATTTGTGTGCCGAATGTAAATTTTTCTTAGTCTTATAGCC
65898423 AACTCCAGATATATTGGGGATTAAGGCTTGCTGTACCATCTTGAACAAAGTAAAATCTTAAATGA
66 AACTCCAGATATATTGGGGATTAAGGCTTGCTGTACCATCTTGAACAAAGTAAAATCTTAAATGA
*
65898488 ACTTGTTGATGCCATTTTTTTTCCCTCTAGTAAAGCCCTATTTGAAGCTTTTCCAAATTGTGACA
131 ACTTGTTGATGCCATTTTTTTTCACTCTAGTAAAGCCCTATTTGAAGCTTTTCCAAATTGTGACA
65898553 TCTAATCTCCAAAGCTCTGTAAAGCTGAAATGCCCCTTGTATTTACTTCATTTTGTGATGTTATT
196 TCTAATCTCCAAAGCTCTGTAAAGCTGAAATGCCCCTTGTATTTACTTCATTTTGTGATGTTATT
65898618 GGTAATTTATGATTGATTTGAATCTAATTGCTGTAATATAAAAC
261 GGTAATTTATGATTGATTTGAATCTAATTGCTGTAATATAAAAC
65898662 TGTTAGGAATGATTGGAGGAGGAGGATTTGTGTGCCGAATGTAAATTTTTCTTAGTCTTATAGCC
1 TGTTAGGAATGATTGGAGGAGGAGGATTTGTGTGCCGAATGTAAATTTTTCTTAGTCTTATAGCC
65898727 AACTCCAGATATATTGGGGATTAAGGCTTGCTGTACCATCTTGAACAAAGTAAAATCTTAAATGA
66 AACTCCAGATATATTGGGGATTAAGGCTTGCTGTACCATCTTGAACAAAGTAAAATCTTAAATGA
*
65898792 ACTTGTTGATGCCATTTTTTTTTTTACTCTAGTAAAGCCCTATTTGAAGCTTTTCCAAATTGTGA
131 ACTTGTTGATGCCA--TTTTTTTTCACTCTAGTAAAGCCCTATTTGAAGCTTTTCCAAATTGTGA
65898857 CATCTAATCTCCAAAGCTCTGTAAAGCTGAAATGCCCCTTGTATTTACTTCATTTTGTGATGTTA
194 CATCTAATCTCCAAAGCTCTGTAAAGCTGAAATGCCCCTTGTATTTACTTCATTTTGTGATGTTA
*
65898922 TTGGTAATTTATGATTGATTTGAATCTAATTGCTGTAATATATAAC
259 TTGGTAATTTATGATTGATTTGAATCTAATTGCTGTAATATAAAAC
65898968 TGTTA
1 TGTTA
65898973 CTTAATTTTA
Statistics
Matches: 305, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
304 143 0.47
306 162 0.53
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (304 bp):
TGTTAGGAATGATTGGAGGAGGAGGATTTGTGTGCCGAATGTAAATTTTTCTTAGTCTTATAGCC
AACTCCAGATATATTGGGGATTAAGGCTTGCTGTACCATCTTGAACAAAGTAAAATCTTAAATGA
ACTTGTTGATGCCATTTTTTTTCACTCTAGTAAAGCCCTATTTGAAGCTTTTCCAAATTGTGACA
TCTAATCTCCAAAGCTCTGTAAAGCTGAAATGCCCCTTGTATTTACTTCATTTTGTGATGTTATT
GGTAATTTATGATTGATTTGAATCTAATTGCTGTAATATAAAAC
Found at i:65906771 original size:23 final size:26
Alignment explanation
Indices: 65906742--65906792 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
65906732 ATTTTTTTGT
65906742 TACTTATTTT-T-T-AACTTTGAAAA
1 TACTTATTTTGTATGAACTTTGAAAA
*
65906765 TACTTATTTTGTATGAATTTTGAAAA
1 TACTTATTTTGTATGAACTTTGAAAA
65906791 TA
1 TA
65906793 TCAATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 1 0.04
26 12 0.50
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (26 bp):
TACTTATTTTGTATGAACTTTGAAAA
Found at i:65910144 original size:26 final size:28
Alignment explanation
Indices: 65910115--65910174 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
65910105 TTACACTTTA
*
65910115 ATCACATGATTTA-TT-TTATTTCACAT
1 ATCACATAATTTACTTATTATTTCACAT
65910141 ATCACATAATTTATCTTACTTATTTCACAT
1 ATCACATAATTTA-CTTA-TTATTTCACAT
65910171 ATCA
1 ATCA
65910175 AATTTCTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 12 0.41
28 2 0.07
30 15 0.52
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (28 bp):
ATCACATAATTTACTTATTATTTCACAT
Found at i:65925993 original size:46 final size:45
Alignment explanation
Indices: 65925878--65926090 Score: 202
Period size: 46 Copynumber: 4.7 Consensus size: 45
65925868 AGGCGCAATG
* *
65925878 GTGTCTTTCAACCATGGTCTTATTTATTATTGACT-T-GATGTT--ATA
1 GTGTCTTTCAACCATGGTCTTATTCATT-TT--CTGTCG-TGTTCCATT
*
65925923 ATGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTGTTGCCATT
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTGTT-CCATT
* * * * *
65925969 GTATCTTTCAACTATGGTCTTATTCATTTTTTGTTGTGTTTCTATT
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTG-TTCCATT
* * *
65926015 GTGTCTTTTAACCATGGTCTTATTCATTTT-TCGTCGTGTTTCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCT-GTCGTGTTCCATT
* * *
65926060 GTGTCTTTCAACTATGTTCATATTCATTTTC
1 GTGTCTTTCAACCATGGTCTTATTCATTTTC
65926091 CACCGAGTTG
Statistics
Matches: 140, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.01
43 5 0.04
44 3 0.02
45 57 0.41
46 71 0.51
47 2 0.01
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTGTTCCATT
Found at i:65926129 original size:137 final size:137
Alignment explanation
Indices: 65925878--65926130 Score: 312
Period size: 137 Copynumber: 1.8 Consensus size: 137
65925868 AGGCGCAATG
* * *
65925878 GTGTCTTTCAACCATGGTCTTATTTATTATTGACTTGATGTTATAATGTCTTTCAACCATGGTCT
1 GTGTCTTTCAACCATGGTCTTATTCATTATTGACGTGATGTTATAATGTCTTTCAACCATGGTCA
*** * ** *
65925943 TATTCATTTTCTGTCGTGTTGCCATTGTATCTTTCAACTATGGTCTTATTCATTTTTTGTTGTGT
66 TATTCATTTTCCACCGAGTTGCCATAATATCATTCAACTATGGTCTTATTCATTTTTTGTTGTGT
65926008 TTCTATT
131 TTCTATT
* * * * * *
65926015 GTGTCTTTTAACCATGGTCTTATTCATTTTTCGTCGTG-T-TTCATAGTGTCTTTCAACTATGTT
1 GTGTCTTTCAACCATGGTCTTATTCATTATT-GACGTGATGTT-ATAATGTCTTTCAACCATGGT
* *
65926078 CATATTCATTTTCCACCGAGTTGCCATAATATCATTCAATTATGGTTTTATTC
64 CATATTCATTTTCCACCGAGTTGCCATAATATCATTCAACTATGGTCTTATTC
65926131 GTTTGATTCG
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
136 2 0.02
137 90 0.94
138 4 0.04
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (137 bp):
GTGTCTTTCAACCATGGTCTTATTCATTATTGACGTGATGTTATAATGTCTTTCAACCATGGTCA
TATTCATTTTCCACCGAGTTGCCATAATATCATTCAACTATGGTCTTATTCATTTTTTGTTGTGT
TTCTATT
Found at i:65935532 original size:20 final size:20
Alignment explanation
Indices: 65935488--65935526 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
65935478 CACTAACTTT
65935488 AAATGGAATACAATGAGATA
1 AAATGGAATACAATGAGATA
65935508 AAATGGAAT-CAAATGAGAT
1 AAATGGAATAC-AATGAGAT
65935527 GTAATGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.21
Consensus pattern (20 bp):
AAATGGAATACAATGAGATA
Found at i:65936695 original size:14 final size:14
Alignment explanation
Indices: 65936676--65936702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65936666 ACATATCTAA
65936676 AGTGTTCCATCCAC
1 AGTGTTCCATCCAC
65936690 AGTGTTCCATCCA
1 AGTGTTCCATCCA
65936703 TAATAATGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (14 bp):
AGTGTTCCATCCAC
Found at i:65938412 original size:13 final size:13
Alignment explanation
Indices: 65938394--65938418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65938384 TAATTTAATA
65938394 TTATTTTGTGTGT
1 TTATTTTGTGTGT
65938407 TTATTTTGTGTG
1 TTATTTTGTGTG
65938419 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:65940026 original size:27 final size:27
Alignment explanation
Indices: 65939993--65940046 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65939983 AACCTAGCAG
65939993 GCTAAGTGCCGGTGATCTGAATCAGGC
1 GCTAAGTGCCGGTGATCTGAATCAGGC
65940020 GCTAAGTGCCGGTGATCTGAATCAGGC
1 GCTAAGTGCCGGTGATCTGAATCAGGC
65940047 TATAAGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (27 bp):
GCTAAGTGCCGGTGATCTGAATCAGGC
Found at i:65940052 original size:27 final size:27
Alignment explanation
Indices: 65939995--65940052 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
65939985 CCTAGCAGGC
*
65939995 TAAGTGCCGGTGATCTGAATCAGGCGC
1 TAAGTGCCGGTGATCTGAATCAGGCGA
*
65940022 TAAGTGCCGGTGATCTGAATCAGGCTA
1 TAAGTGCCGGTGATCTGAATCAGGCGA
65940049 TAAG
1 TAAG
65940053 CCTAGCAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
TAAGTGCCGGTGATCTGAATCAGGCGA
Found at i:65940074 original size:41 final size:41
Alignment explanation
Indices: 65940020--65940205 Score: 318
Period size: 41 Copynumber: 4.5 Consensus size: 41
65940010 TGAATCAGGC
65940020 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
*
65940061 GCTAAGTGCCGGTGATCTGAATCTGGCTATAAGCCTAGCAG
1 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
*
65940102 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGTAG
1 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
* * * *
65940143 GCTAAGTGTCGGTGATATGAATCAGGTTATAAACCTAGCAG
1 GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
65940184 GCTAAGTGCCGGTGATCTGAAT
1 GCTAAGTGCCGGTGATCTGAAT
65940206 ATGTTAAATT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (41 bp):
GCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
Found at i:65977141 original size:17 final size:17
Alignment explanation
Indices: 65977119--65977153 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
65977109 CGTAAGATTT
*
65977119 AAAATTTTTAAAATTAA
1 AAAATTTTTAAAAATAA
65977136 AAAATTTTTAAAAATAA
1 AAAATTTTTAAAAATAA
65977153 A
1 A
65977154 TTACACGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTTTAAAAATAA
Found at i:65977718 original size:39 final size:39
Alignment explanation
Indices: 65977673--65977747 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
65977663 ACCTCCATTG
*
65977673 TCGTTCACGAGTCAGGCAGTCACCAACGGTCCACCATCA
1 TCGTTCACCAGTCAGGCAGTCACCAACGGTCCACCATCA
* *
65977712 TCGTTCACCAGTCAGGTAGTCACCATCGGTCCACCA
1 TCGTTCACCAGTCAGGCAGTCACCAACGGTCCACCA
65977748 GTCAATCGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (39 bp):
TCGTTCACCAGTCAGGCAGTCACCAACGGTCCACCATCA
Done.