Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 227 of 230
Found at i:67341970 original size:14 final size:14
Alignment explanation
Indices: 67341951--67342000 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
67341941 CTTGTAGGTG
67341951 CGAACCCATATGTA
1 CGAACCCATATGTA
* * *
67341965 CGAACCCTGTAGGTG
1 CGAACCC-ATATGTA
67341980 CGAACCCATATGTA
1 CGAACCCATATGTA
67341994 CGAACCC
1 CGAACCC
67342001 TATAGGTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (14 bp):
CGAACCCATATGTA
Found at i:67342007 original size:58 final size:58
Alignment explanation
Indices: 67341846--67342015 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 58
67341836 CCCTATATAC
* * * * * *
67341846 ACGAACCCTGTATATGCGAACCCTACATGTGCGAACTCTACATGTGCGAACACTATAGGT
1 ACGAACCCTGTATGTGCGAACCC-ATATGTGCGAACCCTATAGGTGCGAAC-CCATAGGT
* ** * * * * *
67341906 GCGAACCCTACATGTGCGAACCCATATGCGCGAATCTTGTAGGTGCGAACCCATATGT
1 ACGAACCCTGTATGTGCGAACCCATATGTGCGAACCCTATAGGTGCGAACCCATAGGT
* * *
67341964 ACGAACCCTGTAGGTGCGAACCCATATGTACGAACCCTATAGGTGTGAACCC
1 ACGAACCCTGTATGTGCGAACCCATATGTGCGAACCCTATAGGTGCGAACCC
67342016 TGTATGTGGG
Statistics
Matches: 86, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
58 48 0.56
59 19 0.22
60 19 0.22
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (58 bp):
ACGAACCCTGTATGTGCGAACCCATATGTGCGAACCCTATAGGTGCGAACCCATAGGT
Found at i:67345230 original size:31 final size:31
Alignment explanation
Indices: 67345163--67345231 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
67345153 ATTAAGTACT
* * * *
67345163 AAATTAAGAAAAAGTGTCAAGTTCATGTACC
1 AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
*
67345194 GAATTAGGAAAAAGTGTCAAGTTAAGGCACC
1 AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
67345225 AAATTAG
1 AAATTAG
67345232 ACCAAAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (31 bp):
AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
Found at i:67346060 original size:6 final size:7
Alignment explanation
Indices: 67346043--67346068 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
67346033 AAAATATTCA
67346043 AAAAATT
1 AAAAATT
67346050 AAAAATT
1 AAAAATT
67346057 AAAAATT
1 AAAAATT
67346064 AAAAA
1 AAAAA
67346069 AAAGTTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:67346132 original size:11 final size:11
Alignment explanation
Indices: 67346116--67346142 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
67346106 AAAATTTAAC
67346116 ATTTTAGTAGT
1 ATTTTAGTAGT
67346127 ATTTTAGTAGT
1 ATTTTAGTAGT
67346138 ATTTT
1 ATTTT
67346143 TTGAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (11 bp):
ATTTTAGTAGT
Found at i:67347200 original size:18 final size:18
Alignment explanation
Indices: 67347167--67347216 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
67347157 ATTCACCTAA
*
67347167 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
67347186 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
67347204 ACCCAACCCAACC
1 ACCCAACCCAACC
67347217 TAATCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.40, C:0.46, G:0.02, T:0.12
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:67347337 original size:9 final size:9
Alignment explanation
Indices: 67347323--67347398 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
67347313 GTAGTGATTC
67347323 AATTCGGTT
1 AATTCGGTT
*
67347332 AATTCGGGT
1 AATTCGGTT
67347341 AATTCGGTT
1 AATTCGGTT
*
67347350 AATTCGGCT
1 AATTCGGTT
*
67347359 AATCCGGTT
1 AATTCGGTT
*
67347368 AATTCGGGT
1 AATTCGGTT
67347377 AATTCGGTT
1 AATTCGGTT
67347386 AATTCGGTT
1 AATTCGGTT
67347395 AATT
1 AATT
67347399 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:67347367 original size:36 final size:36
Alignment explanation
Indices: 67347327--67347397 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
67347317 TGATTCAATT
67347327 CGGTTAATTCGGGTAATTCGGTTAATTCGGCTAATC
1 CGGTTAATTCGGGTAATTCGGTTAATTCGGCTAATC
*
67347363 CGGTTAATTCGGGTAATTCGGTTAATTCGGTTAAT
1 CGGTTAATTCGGGTAATTCGGTTAATTCGGCTAAT
67347398 TTTTAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (36 bp):
CGGTTAATTCGGGTAATTCGGTTAATTCGGCTAATC
Found at i:67363102 original size:29 final size:27
Alignment explanation
Indices: 67363041--67363102 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
67363031 ATTCTTTATA
67363041 ATTTTAGAATTTAGTCCTTATATTTTT
1 ATTTTAGAATTTAGTCCTTATATTTTT
*
67363068 ACTTTTAGGAATTTAGTCTCCTTA-CTTTTT
1 A-TTTTA-GAATTTAG--TCCTTATATTTTT
67363098 ATTTT
1 ATTTT
67363103 TCTAGTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 1 0.03
28 5 0.17
29 12 0.40
30 6 0.20
31 6 0.20
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (27 bp):
ATTTTAGAATTTAGTCCTTATATTTTT
Found at i:67363665 original size:44 final size:44
Alignment explanation
Indices: 67363609--67363697 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
67363599 ATTGATGTTC
* *
67363609 ACATGATTTTGATAGATCATCTTATATGCATGTGTTAAATTGAT
1 ACATGATTTTGATAGATCATCTTATATGCATGTGTCAAATAGAT
67363653 ACATGATTTTGATAGATCATCTTATATGCATGTGTCAAATAGAT
1 ACATGATTTTGATAGATCATCTTATATGCATGTGTCAAATAGAT
67363697 A
1 A
67363698 ATCGAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (44 bp):
ACATGATTTTGATAGATCATCTTATATGCATGTGTCAAATAGAT
Found at i:67364484 original size:20 final size:21
Alignment explanation
Indices: 67364454--67364492 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
67364444 TAATAAAATA
67364454 AAAAATAGAAATTAAATAATT
1 AAAAATAGAAATTAAATAATT
67364475 AAAAAT-GAAATTAAATAA
1 AAAAATAGAAATTAAATAA
67364493 ACATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAATAGAAATTAAATAATT
Found at i:67366764 original size:28 final size:29
Alignment explanation
Indices: 67366698--67366773 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
67366688 CTCATATCAG
67366698 CCCATACATTT-CACAATTTCTCACATTTAA
1 CCCATA-ATTTACAC-ATTTCTCACATTTAA
* *
67366728 CACACAATTTACACATTTCTCA-ATTTAA
1 CCCATAATTTACACATTTCTCACATTTAA
*
67366756 CCCATAATTGACA-ATTTC
1 CCCATAATTTACACATTTC
67366774 ATTAAAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.12
28 16 0.40
29 12 0.30
30 7 0.17
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.36
Consensus pattern (29 bp):
CCCATAATTTACACATTTCTCACATTTAA
Found at i:67368562 original size:46 final size:46
Alignment explanation
Indices: 67368464--67368625 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
67368454 TACGTATGAT
*
67368464 CACTTATCAC-TTGTC-CTTGGTCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
67368507 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
67368553 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
67368599 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
67368626 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
43 10 0.09
44 5 0.04
45 20 0.18
46 77 0.69
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:67374749 original size:16 final size:17
Alignment explanation
Indices: 67374728--67374760 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67374718 ATAAAGTTAC
67374728 AAAAAAG-AAAAAGAAA
1 AAAAAAGAAAAAAGAAA
67374744 AAAAAAGAAAAAAGAAA
1 AAAAAAGAAAAAAGAAA
67374761 GGGCTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAA
Found at i:67387319 original size:17 final size:17
Alignment explanation
Indices: 67387283--67387325 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
67387273 ATCTAACTTT
* * *
67387283 AAAATAATGTAAATCTA
1 AAAATAATTTAAACCCA
67387300 AAAATAATTTAAACCCA
1 AAAATAATTTAAACCCA
*
67387317 AAATTAATT
1 AAAATAATT
67387326 CGATAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATAATTTAAACCCA
Found at i:67408433 original size:31 final size:31
Alignment explanation
Indices: 67408398--67408463 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
67408388 AAAAAAACTT
*
67408398 AATAG-TCTAGTGACTTGAAT-AAAATTTTTTG
1 AATAGTTC-AGTGACTTAAATGAAAA-TTTTTG
*
67408429 AATAGTTCAGTGATTTAAATGAAAATTTTTG
1 AATAGTTCAGTGACTTAAATGAAAATTTTTG
67408460 AATA
1 AATA
67408464 ATTTAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (31 bp):
AATAGTTCAGTGACTTAAATGAAAATTTTTG
Found at i:67410656 original size:30 final size:30
Alignment explanation
Indices: 67410622--67410679 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
67410612 ATTATAAATT
*
67410622 ATAAATTAAACAGATCTTATGGAATTAACC
1 ATAAATTAAACAGATCTTATGCAATTAACC
**
67410652 ATAAATTAAGGAGATCTTATGCAATTAA
1 ATAAATTAAACAGATCTTATGCAATTAA
67410680 TCAGTAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (30 bp):
ATAAATTAAACAGATCTTATGCAATTAACC
Found at i:67416651 original size:17 final size:16
Alignment explanation
Indices: 67416629--67416680 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
67416619 TTTTAAAATT
67416629 TTTATATATTATTTATA
1 TTTATATATT-TTTATA
67416646 TTTATAT-TTTTTATGA
1 TTTATATATTTTTAT-A
* *
67416662 TTTTTGTATTTTTATA
1 TTTATATATTTTTATA
67416678 TTT
1 TTT
67416681 TTAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 14 0.45
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TTTATATATTTTTATA
Found at i:67416672 original size:8 final size:8
Alignment explanation
Indices: 67416628--67416683 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
67416618 TTTTTAAAAT
67416628 TTTTATATA
1 TTTT-TATA
67416637 TTATTTATA
1 TT-TTTATA
*
67416646 TTTATAT-
1 TTTTTATA
67416653 TTTTTATGA
1 TTTTTAT-A
*
67416662 TTTTTGTA
1 TTTTTATA
67416670 TTTTTATA
1 TTTTTATA
67416678 TTTTTA
1 TTTTTA
67416684 AATATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 18 0.45
9 14 0.35
10 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:67416690 original size:26 final size:25
Alignment explanation
Indices: 67416626--67416690 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
67416616 TTTTTTTAAA
*
67416626 ATTTTTATATATTATTTATATTTAT
1 ATTTTTATATATTTTTTATATTTAT
*
67416651 ATTTTT-TATGATTTTTGTATTTTTAT
1 ATTTTTATAT-ATTTTT-TATATTTAT
*
67416677 ATTTTTAAATATTT
1 ATTTTTATATATTT
67416691 AATAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 11 0.32
26 18 0.53
27 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (25 bp):
ATTTTTATATATTTTTTATATTTAT
Found at i:67418129 original size:29 final size:28
Alignment explanation
Indices: 67418063--67418180 Score: 78
Period size: 29 Copynumber: 4.1 Consensus size: 28
67418053 GATCCCAAAA
*
67418063 TTTTT-AAAAATTCTCATTAAGCCCCTAA-
1 TTTTTGAAAAATT-TAATTAA-CCCCTAAT
***
67418091 TTTAAAAAAAATTTAATTAACCTCCTAAT
1 TTTTTGAAAAATTTAATTAACC-CCTAAT
* * * *
67418120 TTTTTGAAAACTCTCATTAAACCGCTAAT
1 TTTTTGAAAAATTTAATT-AACCCCTAAT
* *
67418149 TTTTTTAAAAATTTTAATTAGATCCCTAAT
1 TTTTTGAAAAA-TTTAATTA-ACCCCTAAT
67418179 TT
1 TT
67418181 ATCGCCAAGA
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
27 2 0.03
28 14 0.21
29 34 0.50
30 18 0.26
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.42
Consensus pattern (28 bp):
TTTTTGAAAAATTTAATTAACCCCTAAT
Found at i:67420000 original size:13 final size:13
Alignment explanation
Indices: 67419984--67420013 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
67419974 AGTGCTGCAA
67419984 AAAAATGCTTATG
1 AAAAATGCTTATG
*
67419997 AAAAATGCTTTTG
1 AAAAATGCTTATG
67420010 AAAA
1 AAAA
67420014 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:67421611 original size:16 final size:18
Alignment explanation
Indices: 67421574--67421608 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
67421564 AATACTAAGA
67421574 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
67421591 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
67421609 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:67421620 original size:16 final size:17
Alignment explanation
Indices: 67421581--67421626 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
67421571 AGAATTTTAT
* *
67421581 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
67421599 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
67421616 T-AATTAT-TTTA
1 TAAATTATATTTA
67421627 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:67421622 original size:26 final size:25
Alignment explanation
Indices: 67421593--67421649 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
67421583 AATTATATAT
67421593 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
67421619 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
67421644 TTATAT
1 TTATAT
67421650 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:67421717 original size:18 final size:18
Alignment explanation
Indices: 67421696--67421731 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67421686 ATATTAAGAA
67421696 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
67421714 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
67421732 AATTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:67421737 original size:18 final size:18
Alignment explanation
Indices: 67421698--67421739 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
67421688 ATTAAGAATT
**
67421698 TTATTAAATTATATTTTT
1 TTATTAAATTATATTTAA
67421716 TTATTAAATTATATTTAA
1 TTATTAAATTATATTTAA
67421734 TTATTA
1 TTATTA
67421740 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTAAATTATATTTAA
Found at i:67421754 original size:121 final size:120
Alignment explanation
Indices: 67421497--67421804 Score: 510
Period size: 121 Copynumber: 2.6 Consensus size: 120
67421487 CCACAAAATC
*
67421497 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
67421562 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
*
67421617 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATGT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAAT-A
* * * *
67421682 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATTAT
65 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
* * * *
67421738 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
67421802 TTA
66 TTA
67421805 TTAAATTATA
Statistics
Matches: 177, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.02
120 62 0.35
121 111 0.63
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:67421794 original size:22 final size:21
Alignment explanation
Indices: 67421694--67421819 Score: 66
Period size: 22 Copynumber: 6.0 Consensus size: 21
67421684 TAATATTAAG
*
67421694 AATTTTATTAAATTATATT-T
1 AATTTTAGTAAATTATATTAT
*
67421714 --TTTTATTAAATTATATT-T
1 AATTTTAGTAAATTATATTAT
* ** *
67421732 AATTATTATTATTTTAAATTAT
1 AATT-TTAGTAAATTATATTAT
*
67421754 -ATTTTA-TACTATTATATATTAT
1 AATTTTAGTA--AAT-TATATTAT
* *
67421776 AATTTTAGTAAATTCATATAAG
1 AATTTTAGTAAATT-ATATTAT
* *
67421798 AATTTTATTAAATTATAATAT
1 AATTTTAGTAAATTATATTAT
67421819 A
1 A
67421820 TTTAATTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
18 18 0.21
19 2 0.02
20 5 0.06
21 23 0.27
22 28 0.33
23 6 0.07
24 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTAGTAAATTATATTAT
Found at i:67422071 original size:45 final size:44
Alignment explanation
Indices: 67421985--67422075 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
67421975 ACCTCTATTC
* *
67421985 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
67422029 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
67422074 CA
1 CA
67422076 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:67422075 original size:16 final size:16
Alignment explanation
Indices: 67422054--67422123 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
67422044 TTGATTTGCT
67422054 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
67422070 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
67422086 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
**
67422102 ATTATGCCTCTAATCC
1 ATTACACCTCTAATCC
*
67422118 AATACA
1 ATTACA
67422124 GCAAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.01, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:67424290 original size:30 final size:31
Alignment explanation
Indices: 67424232--67424291 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
67424222 ATTTAATTAA
* *
67424232 TTTTTTAAAAATTTAAAATATATAAAAATTG
1 TTTTTAAAAAATTAAAAATATATAAAAATTG
*
67424263 TTTTTAAAAAATTAAAAAT-TATTAAAATT
1 TTTTTAAAAAATTAAAAATATATAAAAATT
67424292 ACAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAAATTAAAAATATATAAAAATTG
Found at i:67426120 original size:8 final size:8
Alignment explanation
Indices: 67426101--67426143 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
67426091 TTTAAAATTT
67426101 TTAAAAATA
1 TTAAAAA-A
67426110 TTAAAAAA
1 TTAAAAAA
67426118 TTAAAAAA
1 TTAAAAAA
*
67426126 TTCGTAAAAA
1 TT--AAAAAA
67426136 TTAAAAAA
1 TTAAAAAA
67426144 AAACATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 16 0.53
9 7 0.23
10 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (8 bp):
TTAAAAAA
Found at i:67431468 original size:31 final size:31
Alignment explanation
Indices: 67431426--67431487 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
67431416 TACACCCAAG
*
67431426 ATCATTAAACTATTCAAAAGTTTTCATTTAA
1 ATCATTAAACTATCCAAAAGTTTTCATTTAA
* * *
67431457 ATCATTGAACTATCCGAAAGTTTTTATTTAA
1 ATCATTAAACTATCCAAAAGTTTTCATTTAA
67431488 TTCAACGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (31 bp):
ATCATTAAACTATCCAAAAGTTTTCATTTAA
Found at i:67439214 original size:20 final size:20
Alignment explanation
Indices: 67439189--67439261 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
67439179 AAGTTCAAGT
67439189 TTTTTTTTATTCGTTTTAAA
1 TTTTTTTTATTCGTTTTAAA
* **
67439209 TTTTTTTAATTAATTTT-AA
1 TTTTTTTTATTCGTTTTAAA
67439228 TTTTTTAATTATTTCGTGTTTAAA
1 TTTTTT--TTA-TTCGT-TTTAAA
67439252 TTATTTTTTA
1 TT-TTTTTTA
67439262 GATCGAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 8 0.20
20 14 0.34
21 2 0.05
22 3 0.07
23 6 0.15
24 4 0.10
25 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTTTTATTCGTTTTAAA
Found at i:67456167 original size:14 final size:14
Alignment explanation
Indices: 67456130--67456168 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
67456120 TGGGGGTGGG
67456130 TTTTATTTTTGATT
1 TTTTATTTTTGATT
*
67456144 TTTGATTTTTGATTT
1 TTTTATTTTTGA-TT
67456159 TTTTATTTTT
1 TTTTATTTTT
67456169 TTATTGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTGATT
Found at i:67456169 original size:7 final size:7
Alignment explanation
Indices: 67456130--67456160 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
67456120 TGGGGGTGGG
67456130 TTTT-AT
1 TTTTGAT
67456136 TTTTGAT
1 TTTTGAT
67456143 TTTTGAT
1 TTTTGAT
67456150 TTTTGAT
1 TTTTGAT
67456157 TTTT
1 TTTT
67456161 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (7 bp):
TTTTGAT
Found at i:67457391 original size:23 final size:22
Alignment explanation
Indices: 67457365--67457606 Score: 119
Period size: 23 Copynumber: 10.4 Consensus size: 22
67457355 ACCAATTTGG
67457365 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* * **
67457388 ACAGCATGTGTATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
67457411 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * * *
67457435 GGCAGCATACATATAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
67457459 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* *
67457482 ACAGCATGTATATACAAAATTGA
1 ACAGCAT-TATACACAAAATTTA
* *
67457505 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * *
67457529 GGCAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
67457553 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* * **
67457576 ACAGCATGTGTATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
67457599 ACAGCATT
1 ACAGCATT
67457607 TTTACATCAA
Statistics
Matches: 160, Mismatches: 42, Indels: 35
0.68 0.18 0.15
Matches are distributed among these distances:
22 6 0.04
23 108 0.68
24 27 0.17
25 19 0.12
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (22 bp):
ACAGCATTATACACAAAATTTA
Found at i:67457448 original size:94 final size:94
Alignment explanation
Indices: 67457261--67457646 Score: 551
Period size: 94 Copynumber: 4.0 Consensus size: 94
67457251 ATCTACCCTG
* * * * * *
67457261 TTTGGACAGCTCTTATACATCAAAAATTGAGCAGCATATATATATAAAATTGGACAGCATTTTTT
1 TTTGGACAGCACTTATACA-C-AAAATTTAACAGCATGTATATACAAAATTGGACAGCA---TTG
*
67457326 TTTCACCAAAAATTAGGCAGCATACATATACCAA
61 ATTCACCAAAAATTAGGCAGCATACATATACCAA
*
67457360 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTGTATACAAAATTGGACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
67457425 CCAAAAATTAGGCAGCATACATATACCAA
66 CCAAAAATTAGGCAGCATACATATACCAA
*
67457454 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGAACAGCATTGATTCA
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
*
67457519 CCAAAAATTAGGCAGCATACATACACCAA
66 CCAAAAATTAGGCAGCATACATATACCAA
* *
67457548 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTGTATACAAAATTGGACAGCATT-TTTAC
1 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATT-C
* * *
67457612 ATCAAAAATTTGGACAGCATATATATGA-CAA
65 ACCAAAAATTAGG-CAGCATACATAT-ACCAA
67457643 TTTG
1 TTTG
67457647 AGCAGCATAA
Statistics
Matches: 266, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
93 2 0.01
94 195 0.73
95 17 0.06
96 1 0.00
97 32 0.12
98 1 0.00
99 18 0.07
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (94 bp):
TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTGATTCA
CCAAAAATTAGGCAGCATACATATACCAA
Found at i:67457599 original size:46 final size:47
Alignment explanation
Indices: 67457262--67457642 Score: 277
Period size: 46 Copynumber: 8.0 Consensus size: 47
67457252 TCTACCCTGT
* * * * * *
67457262 TTGGACAGCTCTTATACATCAAAAATTGAGCAGCATATATATATAAAA
1 TTGGACAGCACTTATACA-CCAAAATTTAACAGCATGTATATACAAAA
* * * * * ** * *
67457310 TTGGACAGCATTTTTTTTTCACCAAAAATTAGGCAGCATACATATACCAAT
1 TTGGACAGCA---CTTATACACCAAAATTTA-ACAGCATGTATATACAAAA
*
67457361 TTGGACAGCACTTATACA-CAAAATTTAACAGCATGTGTATACAAAA
1 TTGGACAGCACTTATACACCAAAATTTAACAGCATGTATATACAAAA
* * * ** * *
67457407 TTGGACAGCA-TTGATTCACCAAAAATTAGGCAGCATACATATACCAAT
1 TTGGACAGCACTT-ATACACCAAAATTTA-ACAGCATGTATATACAAAA
67457455 TTGGACAGCACTTATACA-CAAAATTTAACAGCATGTATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTTAACAGCATGTATATACAAAA
* * * * ** * * *
67457501 TTGAACAGCA-TTGATTCACCAAAAATTAGGCAGCATACATACACCAAT
1 TTGGACAGCACTT-ATACACCAAAATTTA-ACAGCATGTATATACAAAA
*
67457549 TTGGACAGCACTTATACA-CAAAATTTAACAGCATGTGTATACAAAA
1 TTGGACAGCACTTATACACCAAAATTTAACAGCATGTATATACAAAA
* * * * *
67457595 TTGGACAGCATTTTTACATCAAAAATTTGGACAGCATATATATGACAA
1 TTGGACAGCACTTATACA-CCAAAATTT-AACAGCATGTATAT-ACAA
67457643 TTTGAGCAGC
Statistics
Matches: 256, Mismatches: 61, Indels: 30
0.74 0.18 0.09
Matches are distributed among these distances:
45 4 0.02
46 82 0.32
47 40 0.16
48 74 0.29
49 15 0.06
50 11 0.04
51 30 0.12
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (47 bp):
TTGGACAGCACTTATACACCAAAATTTAACAGCATGTATATACAAAA
Found at i:67458451 original size:28 final size:28
Alignment explanation
Indices: 67458417--67458514 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
67458407 TTTAATAAGT
** * *
67458417 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
67458445 TTGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
67458473 TCGCACACTTGGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
67458501 TCGCACACTTAGTG
1 TCGCACACTTAGTG
67458515 TCGAAAGTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:67465551 original size:12 final size:12
Alignment explanation
Indices: 67465534--67465568 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
67465524 AAAGATGAAA
*
67465534 ACTTGATTAATG
1 ACTTGATGAATG
67465546 ACTTGATGAATG
1 ACTTGATGAATG
67465558 ACTTGATGAAT
1 ACTTGATGAAT
67465569 AAATGAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (12 bp):
ACTTGATGAATG
Found at i:67468031 original size:20 final size:20
Alignment explanation
Indices: 67468006--67468069 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
67467996 TAATAAGGTT
67468006 TTAATAAGGCATATTATCTA
1 TTAATAAGGCATATTATCTA
* **
67468026 TTAAT-AGACATCCAAGAGT-T-
1 TTAATAAGGCAT--ATTA-TCTA
67468046 TTAATAAGGCATATTATCTA
1 TTAATAAGGCATATTATCTA
67468066 TTAA
1 TTAA
67468070 AAGACATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 1 0.03
19 8 0.25
20 14 0.44
21 8 0.25
22 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
TTAATAAGGCATATTATCTA
Found at i:67468047 original size:40 final size:40
Alignment explanation
Indices: 67468003--67468083 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
67467993 TCCTAATAAG
*
67468003 GTTTTAATAAGGCATATTATCTATTAATAGACATCCAAGA
1 GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
*
67468043 GTTTTAATAAGGCATATTATCTATTAAAAGACATCTAAGA
1 GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
67468083 G
1 G
67468084 AGTATTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (40 bp):
GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
Found at i:67473775 original size:129 final size:130
Alignment explanation
Indices: 67473620--67474090 Score: 641
Period size: 130 Copynumber: 3.6 Consensus size: 130
67473610 AAGAAAGAAA
* *
67473620 GCTCAAAAATCACATTGTTCAACTC-AAAAACCTAAATCTAAACTTAACCAGCAACACTGAATCA
1 GCTCAAAAATCACATTGTTCATCTCAAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCA
67473684 ATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
66 ATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
** *
67473749 GCTCAAAAATCACATTGTTCATCTCAAAAAAAAAAAATCTAAACTTAACCAGCAACACAGAATCA
1 GCTCAAAAATCACATTGTTCATCTCAAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCA
* * *
67473814 ATAAAAATTCAAATTGGTACATAGAAATCTCAAAGTCAATGCTAACAAAAACGAC--AAAAGAAG
66 ATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
67473877 GCTCAAAAATCACATTGTTCGA-CTCAAAAAAACTAAATCTAAACTTAAACCAGCTAA-ACTGAA
1 GCTCAAAAATCACATTGTTC-ATCTCAAAAAAACTAAATCTAAACTT-AACCAGC-AACACTGAA
* * * * * * *
67473940 TCAATAAAAATTCAAAAATAGTACATAGAAATCACAGACTCAATACTAGCAAAAACTAAAAAAAA
63 TCAATAAAAATTC-AAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAAC--GACAAAA
67474005 AAAGAAG
125 AAA-AAG
* * * *
67474012 AAGCTCAAAAACCACATTGTTCATCTC--AAAAACTAAATCTAAACTAAACCTGCAACCCTGAAT
1 --GCTCAAAAATCACATTGTTCATCTCAAAAAAACTAAATCTAAACTTAACCAGCAACACTGAAT
67474075 CAATAAAAATTCAAAT
64 CAATAAAAATTCAAAT
67474091 CAATTCAAAA
Statistics
Matches: 302, Mismatches: 26, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
128 49 0.16
129 50 0.17
130 125 0.41
132 1 0.00
133 5 0.02
134 28 0.09
135 21 0.07
136 1 0.00
137 22 0.07
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (130 bp):
GCTCAAAAATCACATTGTTCATCTCAAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCA
ATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
Found at i:67476667 original size:13 final size:13
Alignment explanation
Indices: 67476651--67476692 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
67476641 TTTTTATCGG
*
67476651 ATTAATTTAATAA
1 ATTATTTTAATAA
67476664 ATTATTTTGAATAA
1 ATTATTTT-AATAA
*
67476678 ATTATTTTAAAAA
1 ATTATTTTAATAA
67476691 AT
1 AT
67476693 AGAGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
ATTATTTTAATAA
Found at i:67476678 original size:14 final size:14
Alignment explanation
Indices: 67476659--67476685 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67476649 GGATTAATTT
67476659 AATAAATTATTTTG
1 AATAAATTATTTTG
67476673 AATAAATTATTTT
1 AATAAATTATTTT
67476686 AAAAAATAGA
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:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AATAAATTATTTTG
Found at i:67477908 original size:11 final size:12
Alignment explanation
Indices: 67477884--67477913 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
67477874 ATATTTTTTT
67477884 AAAAATTTATAA
1 AAAAATTTATAA
67477896 AAAAATTTA-AA
1 AAAAATTTATAA
67477907 AAAAATT
1 AAAAATT
67477914 CTGAAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATTTATAA
Found at i:67481348 original size:30 final size:29
Alignment explanation
Indices: 67481295--67481356 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
67481285 TTTTTTATTA
*
67481295 TTATATATTTTATAATCAAATTAAATCGC
1 TTATATATTTTATAATCAAATTAAATCAC
*
67481324 TTATATTTTATTATTAAT-AAATTAAATCAC
1 TTATATATT-TTA-TAATCAAATTAAATCAC
67481354 TTA
1 TTA
67481357 CTGTTCTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 17 0.59
31 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (29 bp):
TTATATATTTTATAATCAAATTAAATCAC
Found at i:67482982 original size:15 final size:17
Alignment explanation
Indices: 67482954--67483003 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
67482944 TTATTATGTT
*
67482954 ATATATAGTTTATAATG
1 ATATATAATTTATAATG
*
67482971 AT-TA-AATTTATAATA
1 ATATATAATTTATAATG
67482986 ATATATAATATTATAATG
1 ATATATAAT-TTATAATG
67483004 TAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.41
16 4 0.15
17 5 0.19
18 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATATATAATTTATAATG
Found at i:67483959 original size:22 final size:21
Alignment explanation
Indices: 67483909--67483959 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
67483899 CTGTTACTCT
*
67483909 CTACCCTCTTTAACCCTAAAAC
1 CTACCC-CTTTAACCCCAAAAC
* *
67483931 CTTCCCCTTTAAACCCCAAACC
1 CTACCCCTTT-AACCCCAAAAC
67483953 CTACCCC
1 CTACCCC
67483960 AATATCCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (21 bp):
CTACCCCTTTAACCCCAAAAC
Found at i:67497274 original size:16 final size:18
Alignment explanation
Indices: 67497235--67497268 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67497225 TAAGTTTATA
67497235 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
67497252 ATATTTATATATTATGT
1 ATATTTATATATTATGT
67497269 AATTTAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:67497427 original size:12 final size:12
Alignment explanation
Indices: 67497412--67497437 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67497402 AAAATAAAAT
67497412 AAAAAATTTAAA
1 AAAAAATTTAAA
67497424 AAAAAATTTAAA
1 AAAAAATTTAAA
67497436 AA
1 AA
67497438 TAATATGGGC
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:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAATTTAAA
Found at i:67498439 original size:12 final size:12
Alignment explanation
Indices: 67498406--67498440 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
67498396 TTTTATTTGC
67498406 ATTTTTTTTGTCA
1 ATTTTTTTT-TCA
67498419 ATTTTTTTTTCA
1 ATTTTTTTTTCA
67498431 ATTTTTTTTT
1 ATTTTTTTTT
67498441 TAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:67498787 original size:24 final size:25
Alignment explanation
Indices: 67498741--67498796 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
67498731 ATCAACATTC
* * * *
67498741 AAAAAATTAATAACTAAATTTAACT
1 AAAAAAATAAGAACCAAATTTAACA
67498766 AAAAAAATAAGAACCAAA-TTAACA
1 AAAAAAATAAGAACCAAATTTAACA
67498790 AAAAAAA
1 AAAAAAA
67498797 ACATAAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.20
Consensus pattern (25 bp):
AAAAAAATAAGAACCAAATTTAACA
Found at i:67500301 original size:50 final size:50
Alignment explanation
Indices: 67500226--67500325 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
67500216 TAACAGAATG
67500226 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTACCCATTTTCT
1 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTACCCATTTTCT
*
67500276 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
1 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTACCCATTTTCT
67500326 GAGTAGAGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (50 bp):
ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTACCCATTTTCT
Found at i:67503594 original size:21 final size:22
Alignment explanation
Indices: 67503554--67503594 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67503544 CAAGTAAGGG
*
67503554 TTTTTTAAATATTGTATATTAA
1 TTTTTTAAATATGGTATATTAA
*
67503576 TTTTTTAATTATGGT-TATT
1 TTTTTTAAATATGGTATATT
67503595 TTTTCAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTTTAAATATGGTATATTAA
Found at i:67504086 original size:37 final size:39
Alignment explanation
Indices: 67504039--67504112 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 39
67504029 TAAACATTAA
*
67504039 AAAAATATTTTAAAA-ATAAAA-AAAAATAAAAAATTTT
1 AAAAATATTTTAAAATAAAAAATAAAAATAAAAAATTTT
*
67504076 AAAAGTATTTTAAAATTAAAAAATAAAAATAAAAAAT
1 AAAAATATTTTAAAA-TAAAAAATAAAAATAAAAAAT
67504113 ATATATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 14 0.44
39 5 0.16
40 13 0.41
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (39 bp):
AAAAATATTTTAAAATAAAAAATAAAAATAAAAAATTTT
Found at i:67507906 original size:60 final size:63
Alignment explanation
Indices: 67507842--67507977 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 63
67507832 AAAAAATTAA
* *
67507842 ATAGTTTGA-TGATCATTTTGTAACTTTTCATAGTTGGGTGACCAAAAAAG-AAAAAAAAA-C
1 ATAGTTTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAAAATC
* * *
67507902 ATAG-TTGAGTGACCATTTTGTAACTTTTCATCGTTAGTTGATCAAAAAAGAAAAAAAAAATC
1 ATAGTTTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAAAATC
*
67507964 ATAG-TTGGGTGACC
1 ATAGTTTGAGTGACC
67507978 TCTACTAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 4 0.06
60 40 0.60
61 9 0.13
62 14 0.21
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (63 bp):
ATAGTTTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAAAATC
Found at i:67508539 original size:22 final size:22
Alignment explanation
Indices: 67508518--67508572 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
67508508 TTTTTTATTA
67508518 AATAAAATA-AAAT-TAATAATT
1 AATAAAATATAAATATAA-AATT
*
67508539 -ATAAAATATAAATATAAAACT
1 AATAAAATATAAATATAAAATT
*
67508560 AATAAAATGTAAA
1 AATAAAATATAAA
67508573 ATTTATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATAAAATATAAATATAAAATT
Found at i:67508554 original size:13 final size:15
Alignment explanation
Indices: 67508518--67508575 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 15
67508508 TTTTTTATTA
67508518 AATAAA-ATAAAATT
1 AATAAATATAAAATT
*
67508532 AATAATTATAAAA-T
1 AATAAATATAAAATT
*
67508546 -ATAAATATAAAACT
1 AATAAATATAAAATT
*
67508560 AATAAAATGTAAAATT
1 AAT-AAATATAAAATT
67508576 TATTCTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.31
14 7 0.19
15 8 0.22
16 10 0.28
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
AATAAATATAAAATT
Found at i:67508754 original size:17 final size:17
Alignment explanation
Indices: 67508732--67508767 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
67508722 AATATTGTAT
67508732 TTCATTATTCAAAATAA
1 TTCATTATTCAAAATAA
**
67508749 TTCATTATTGTAAATAA
1 TTCATTATTCAAAATAA
67508766 TT
1 TT
67508768 TGCTTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (17 bp):
TTCATTATTCAAAATAA
Found at i:67511828 original size:11 final size:11
Alignment explanation
Indices: 67511812--67511837 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
67511802 AAAAAATAAA
67511812 AAAAGTATTTT
1 AAAAGTATTTT
67511823 AAAAGTATTTT
1 AAAAGTATTTT
67511834 AAAA
1 AAAA
67511838 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:67519553 original size:26 final size:25
Alignment explanation
Indices: 67519522--67519573 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
67519512 CCTATTTTTT
* *
67519522 AATAAACATTAAAAAATTATTTTAAA
1 AATAAAAAATAAAAAA-TATTTTAAA
67519548 AATAAAAAATAAAAAATATTTTAAA
1 AATAAAAAATAAAAAATATTTTAAA
67519573 A
1 A
67519574 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AATAAAAAATAAAAAATATTTTAAA
Found at i:67523286 original size:24 final size:24
Alignment explanation
Indices: 67523254--67523301 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
67523244 TTTTATAAAG
67523254 TTAGAAGGCCAAATAAATCATTAT
1 TTAGAAGGCCAAATAAATCATTAT
67523278 TTAGAAGGCCAAATAAATCATTAT
1 TTAGAAGGCCAAATAAATCATTAT
67523302 GCCTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAGAAGGCCAAATAAATCATTAT
Found at i:67532036 original size:23 final size:24
Alignment explanation
Indices: 67532010--67532058 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
67532000 ATTATATAGA
67532010 AAGAGTTT-AAGTACGAACAAG-TT
1 AAGAGTTTGAA-TACGAACAAGCTT
*
67532033 AAGAGTTTGAATACGATCAAGCTT
1 AAGAGTTTGAATACGAACAAGCTT
67532057 AA
1 AA
67532059 TCAAGCTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (24 bp):
AAGAGTTTGAATACGAACAAGCTT
Found at i:67534089 original size:33 final size:33
Alignment explanation
Indices: 67534032--67534113 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
67534022 AAAATTTCCC
67534032 AAAAAA-TTAAAA-G-AGATTAATTTATTTTCAA
1 AAAAAATTTAAAAGGCA-ATTAATTTATTTTCAA
67534063 AAAAAATTTAAAAGGCAATTAATTTATTTTCAA
1 AAAAAATTTAAAAGGCAATTAATTTATTTTCAA
67534096 AAAAAATTTAAAAGGCAA
1 AAAAAATTTAAAAGGCAA
67534114 AATTTTCAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 35 0.73
34 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (33 bp):
AAAAAATTTAAAAGGCAATTAATTTATTTTCAA
Found at i:67541039 original size:61 final size:62
Alignment explanation
Indices: 67540912--67541039 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 62
67540902 TCACTCAGCT
* ** * ** *
67540912 ATTTTTTTTTCTTTTTTTGATCACACAATTATGAAAAGTTGTAAAACGGTCATTAAACTATG
1 ATTTTTTTTTCTTTTTTCGATCACACAATTATGAAAAGTTACAAAACAGTCACCAAACTATA
* * *
67540974 ATTTTTTTTTCTTTTTTCG-TCACTCAATTATGAAAAGTTACAAAATAGTCACCCAACT-TCA
1 ATTTTTTTTTCTTTTTTCGATCACACAATTATGAAAAGTTACAAAACAGTCACCAAACTAT-A
67541035 ATTTT
1 ATTTT
67541040 GTCTTTTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 1 0.02
61 36 0.65
62 18 0.33
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (62 bp):
ATTTTTTTTTCTTTTTTCGATCACACAATTATGAAAAGTTACAAAACAGTCACCAAACTATA
Found at i:67545653 original size:6 final size:6
Alignment explanation
Indices: 67545642--67545672 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
67545632 CGAAAGGGAA
*
67545642 GGACCC GGACCC GGACCC GGACCC AGACCC G
1 GGACCC GGACCC GGACCC GGACCC GGACCC G
67545673 AACCTAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.48, G:0.32, T:0.00
Consensus pattern (6 bp):
GGACCC
Found at i:67546203 original size:14 final size:14
Alignment explanation
Indices: 67546184--67546211 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67546174 TCATTCATTC
67546184 CTACAATTAAAAAT
1 CTACAATTAAAAAT
67546198 CTACAATTAAAAAT
1 CTACAATTAAAAAT
67546212 TATTTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
CTACAATTAAAAAT
Found at i:67551794 original size:18 final size:18
Alignment explanation
Indices: 67551768--67551802 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67551758 GATATAATTT
* *
67551768 AAAATAAAAATTTTAAAG
1 AAAAAAAAAATTATAAAG
67551786 AAAAAAAAAATTATAAA
1 AAAAAAAAAATTATAAA
67551803 AATGGATGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAAAAAAATTATAAAG
Found at i:67552461 original size:4 final size:4
Alignment explanation
Indices: 67552452--67552476 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
67552442 TTGATTCTTG
67552452 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
67552477 TTATTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:67556352 original size:92 final size:92
Alignment explanation
Indices: 67556190--67556369 Score: 279
Period size: 92 Copynumber: 2.0 Consensus size: 92
67556180 CATTAATTTT
* * *
67556190 ATTATAGGTTGTTATCATATCTGCTCTTTGTTGATACAATACTTAGAACTACCCATAGTCCCTCC
1 ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATACTTAGAACTACCCATAGCCCCTCC
*
67556255 GCAACTCTTAAATAGGAGGATAACGTC
66 GCAACTCTTAAATAGGAAGATAACGTC
* * **
67556282 ATTATATGTTATTATCATATCTGCTTTTTGTTAATACAATGTTTAGAACTACCCATAGCCCCTCC
1 ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATACTTAGAACTACCCATAGCCCCTCC
*
67556347 TCAACTCTTAAATAGGAAGATAA
66 GCAACTCTTAAATAGGAAGATAA
67556370 TGCGCTTCAG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (92 bp):
ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATACTTAGAACTACCCATAGCCCCTCC
GCAACTCTTAAATAGGAAGATAACGTC
Found at i:67557758 original size:16 final size:17
Alignment explanation
Indices: 67557739--67557776 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
67557729 CTTGCGGATT
67557739 TTTTTAA-AATATTTTG
1 TTTTTAATAATATTTTG
67557755 TTTTTAATTTAATATTTTG
1 TTTTTAA--TAATATTTTG
67557774 TTT
1 TTT
67557777 ACATCTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
19 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTAATAATATTTTG
Found at i:67563362 original size:118 final size:117
Alignment explanation
Indices: 67562943--67563451 Score: 542
Period size: 117 Copynumber: 4.3 Consensus size: 117
67562933 GTGATTCGAT
* * * * ** *
67562943 GTTT-CAAGTGAATAATTGCAGTTGATTGGTTTGTGATTGCCAGAAAACCGAGTTTAGGGTGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * * *
67563007 GAGATATACATATAGGAGTGAAGATTTCAGTCTT-CAACTGTTGGTGAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAAC-ATCGGTGAGTTCA
* * * * * *
67563059 GTTTACGAGTGATTTACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * *
67563124 GAGATATACATATAGGAGTGAGGATTTTAGTCTCGAAACATCGGTCAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACATCGGTGAGTTCA
* * * *
67563176 GTTTTCAAGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACCGAGTTTAGGGCATTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
** * *
67563241 GAGAT-TAACGCATAGGAGTTAAGATTTTAGTCTTGAAACATCGGTGAGTTCG
66 GAGATAT-ACATATAGGAGTGAAGATTTTAGTCTTGAAACATCGGTGAGTTCA
* * * * *
67563293 GTTTACGAGTGAGTTTGTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCAAGTTTATGGTGTT
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTT
* ** * * *
67563358 TGAGATTTATGTATGGGAGTGAAGATTTTAGTCTTG-AACAGTTGGTGAGCTT-G
65 TGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACA-TCGGTGAG-TTCA
* * **
67563411 GTTTACAAGTGAGTTTTTTTCAGTTGGTTTTTATGTGATTG
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTG
67563452 TCGGGAACTG
Statistics
Matches: 332, Mismatches: 54, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
116 5 0.02
117 202 0.61
118 122 0.37
119 3 0.01
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.37
Consensus pattern (117 bp):
GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACATCGGTGAGTTCA
Found at i:67565114 original size:12 final size:13
Alignment explanation
Indices: 67565097--67565140 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
67565087 TGTGATTTGG
67565097 TTTTCAT-TTTTT
1 TTTTCATATTTTT
67565109 TTTTCATATTAATTT
1 TTTTCATATT--TTT
67565124 TTTTCATATTTTGT
1 TTTTCATATTTT-T
67565138 TTT
1 TTT
67565141 ATTTTGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 4 0.14
15 13 0.46
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTCATATTTTT
Found at i:67566173 original size:22 final size:22
Alignment explanation
Indices: 67566145--67566190 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
67566135 TCAAAAATAC
67566145 GAAATTATAGTAGAATGTTAGT
1 GAAATTATAGTAGAATGTTAGT
67566167 GAAATTATAGTAGAATGTTAGT
1 GAAATTATAGTAGAATGTTAGT
67566189 GA
1 GA
67566191 CAACAGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (22 bp):
GAAATTATAGTAGAATGTTAGT
Found at i:67573713 original size:21 final size:23
Alignment explanation
Indices: 67573689--67573730 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
67573679 AATACTTTTT
*
67573689 AATTTTT-TTATTT-TTAAAATA
1 AATTTTTGGTATTTATTAAAATA
67573710 AATTTTTGGTATTTATTAAAA
1 AATTTTTGGTATTTATTAAAA
67573731 AATGGGTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
AATTTTTGGTATTTATTAAAATA
Found at i:67573715 original size:27 final size:26
Alignment explanation
Indices: 67573660--67573715 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
67573650 AATATATATA
**
67573660 TTTAATTTTTTAATTTTAAAATACTT
1 TTTAATTTTTTAATTTTAAAATAAAT
*
67573686 TTTAATTTTTTTATTTTTAAAATAAAT
1 TTTAA-TTTTTTAATTTTAAAATAAAT
67573713 TTT
1 TTT
67573716 TGGTATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTAATTTTTTAATTTTAAAATAAAT
Found at i:67582680 original size:4 final size:4
Alignment explanation
Indices: 67582673--67582698 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
67582663 ATATTTAACT
67582673 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
67582699 AGGCTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:67593752 original size:8 final size:8
Alignment explanation
Indices: 67593722--67593762 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
67593712 TTGGTTTATT
67593722 TAATAATTA
1 TAATAA-TA
*
67593731 TAATAGTAA
1 TAATAAT-A
67593740 TAATAATA
1 TAATAATA
67593748 TAATAATA
1 TAATAATA
67593756 TAATAAT
1 TAATAAT
67593763 GTTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 17 0.59
9 12 0.41
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:67593772 original size:3 final size:3
Alignment explanation
Indices: 67593722--67593762 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
67593712 TTGGTTTATT
* *
67593722 TAA TAA TTA TAA TAG TAA TAA TAA T-A TAA TAA T-A TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
67593763 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:67595973 original size:21 final size:22
Alignment explanation
Indices: 67595925--67595974 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
67595915 AAATTTTTTT
*
67595925 AATTTTAAAATATTTTAAAATA
1 AATTTTTAAATATTTTAAAATA
**
67595947 CTTTTTTAAAT-TTTTAAAATA
1 AATTTTTAAATATTTTAAAATA
67595968 AATTTTT
1 AATTTTT
67595975 GGTATTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTTTTAAATATTTTAAAATA
Found at i:67595973 original size:22 final size:22
Alignment explanation
Indices: 67595927--67595974 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
67595917 ATTTTTTTAA
*
67595927 TTTTAAAATATTTTAAAATACT
1 TTTTAAAATATTTTAAAATAAT
*
67595949 TTTTTAAAT-TTTTAAAATAAAT
1 TTTTAAAATATTTTAAAAT-AAT
67595971 TTTT
1 TTTT
67595975 GGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAAATATTTTAAAATAAT
Found at i:67600357 original size:18 final size:17
Alignment explanation
Indices: 67600326--67600387 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
67600316 ATCACACTGG
*
67600326 AAAAA-AATATTTTTTT
1 AAAAATAATAATTTTTT
67600342 AAATAATAATAATTTTGTT
1 AAA-AATAATAATTTT-TT
* *
67600361 AAAGATAATTATTTTTT
1 AAAAATAATAATTTTTT
*
67600378 TAAAA-AATAA
1 AAAAATAATAA
67600388 AAATATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.19
17 7 0.19
18 18 0.49
19 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAAAATAATAATTTTTT
Found at i:67600362 original size:19 final size:18
Alignment explanation
Indices: 67600326--67600400 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
67600316 ATCACACTGG
67600326 AAAAA-AAT-ATTTTTTT
1 AAAAATAATAATTTTTTT
*
67600342 AAATAATAATAATTTTGTT
1 AAA-AATAATAATTTTTTT
* *
67600361 AAAGATAATTATTTTTTT
1 AAAAATAATAATTTTTTT
*
67600379 AAAAAATAAAAATATTTTTT
1 -AAAAATAATAAT-TTTTTT
67600399 AA
1 AA
67600401 GTGAATGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 15 0.32
19 21 0.45
20 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAATAATAATTTTTTT
Found at i:67610079 original size:58 final size:60
Alignment explanation
Indices: 67610006--67610141 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 60
67609996 TTAATATAAC
* * **
67610006 ATTTAGTATCTGAACTTTACACTTTTTTCTAATTTGGTA-C-AAACTTTTTTTTAGCCCA
1 ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
* * * * *
67610064 ATTTGGTACCTGAACTTGACATTTTTTTGTAATTTGGTATCAAAACTTTTTTGGGGCCTA
1 ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
*
67610124 ATTTGGTACCTAAACTTT
1 ATTTGGTACCTGAACTTT
67610142 TTCTTTTAGG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 34 0.52
59 1 0.02
60 30 0.46
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (60 bp):
ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
Found at i:67610140 original size:60 final size:58
Alignment explanation
Indices: 67610018--67610140 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 58
67610008 TTAGTATCTG
* ** *
67610018 AACTTTACACTTTTTTCTAATTTGGTACAAACTTTTTTTTAGCCCAATTTGGTACCTG
1 AACTTGACACTTTTTTCTAATTTGGTACAAACTTTTTTGGAGCCCAATTTGGTACCTA
* * * *
67610076 AACTTGACATTTTTTTGTAATTTGGTATCAAAACTTTTTTGGGGCCTAATTTGGTACCTA
1 AACTTGACACTTTTTTCTAATTTGGTA-C-AAACTTTTTTGGAGCCCAATTTGGTACCTA
67610136 AACTT
1 AACTT
67610141 TTTCTTTTAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 24 0.44
59 1 0.02
60 30 0.55
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (58 bp):
AACTTGACACTTTTTTCTAATTTGGTACAAACTTTTTTGGAGCCCAATTTGGTACCTA
Found at i:67615304 original size:38 final size:38
Alignment explanation
Indices: 67615243--67615351 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
67615233 TGTTGTGGGC
*
67615243 ATGCCATAAGTCCCTGTACCTTTTTGTAAATTTATCATT
1 ATGCCATAAGTCCTTGTA-CTTTTTGTAAATTTATCATT
* **
67615282 ATGTCATAAGTCCTTGTACTTTTTGTAAATTTATTTTT
1 ATGCCATAAGTCCTTGTACTTTTTGTAAATTTATCATT
* ** *
67615320 ATGCCATAAATTTTTGTATTTTTTGTAAATTT
1 ATGCCATAAGTCCTTGTACTTTTTGTAAATTT
67615352 GTCCTTTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 45 0.74
39 16 0.26
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (38 bp):
ATGCCATAAGTCCTTGTACTTTTTGTAAATTTATCATT
Found at i:67631699 original size:3 final size:3
Alignment explanation
Indices: 67631693--67631719 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67631683 GAAGAAGAAA
67631693 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
67631720 GAAGATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:67632189 original size:16 final size:15
Alignment explanation
Indices: 67632159--67632187 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
67632149 GGATTTTATT
67632159 TTACTTTTTTTTTTG
1 TTACTTTTTTTTTTG
67632174 TTACTTTTTTTTTT
1 TTACTTTTTTTTTT
67632188 TGAACGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.83
Consensus pattern (15 bp):
TTACTTTTTTTTTTG
Found at i:67633206 original size:15 final size:15
Alignment explanation
Indices: 67633186--67633215 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67633176 GACGTGATAT
*
67633186 TGATGACCAATAGCA
1 TGATGACAAATAGCA
67633201 TGATGACAAATAGCA
1 TGATGACAAATAGCA
67633216 GCCTCACACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (15 bp):
TGATGACAAATAGCA
Found at i:67635215 original size:30 final size:30
Alignment explanation
Indices: 67635179--67635238 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
67635169 TTTGGGGTTC
67635179 GAGGTTGGACAATAACGTTGTCCCTAAAGT
1 GAGGTTGGACAATAACGTTGTCCCTAAAGT
*
67635209 GAGGTTGGACAATAATGTTGTCCCTAAAGT
1 GAGGTTGGACAATAACGTTGTCCCTAAAGT
67635239 TCGAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
GAGGTTGGACAATAACGTTGTCCCTAAAGT
Found at i:67637340 original size:40 final size:39
Alignment explanation
Indices: 67637296--67637410 Score: 103
Period size: 40 Copynumber: 3.0 Consensus size: 39
67637286 AAAAGTAATA
67637296 AAATAACAAAAACCTAACCTTTATCTAAATAAACAATTTT
1 AAATAA-AAAAACCTAACCTTTATCTAAATAAACAATTTT
* * *
67637336 AAAT----AAGCCTAAACTTTATCTAAATAAACATTTTTT
1 AAATAAAAAAACCTAACCTTTATCTAAATAAACA-ATTTT
** * * * *
67637372 ATTTAAAAAACCCTAACATTTGTCAAAATAAACAATTTT
1 AAATAAAAAAACCTAACCTTTATCTAAATAAACAATTTT
67637411 TTAAAATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
35 24 0.41
36 6 0.10
39 4 0.07
40 25 0.42
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (39 bp):
AAATAAAAAAACCTAACCTTTATCTAAATAAACAATTTT
Found at i:67637747 original size:23 final size:23
Alignment explanation
Indices: 67637711--67637765 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
67637701 AATTTATTTT
67637711 TTTAGAAATATTTATAAAAAAATA
1 TTTA-AAATATTTATAAAAAAATA
* *
67637735 CTTTAAAAT-TTTATCAAATAATA
1 -TTTAAAATATTTATAAAAAAATA
*
67637758 TTCAAAAT
1 TTTAAAAT
67637766 CCATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 4 0.15
25 4 0.15
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAATATTTATAAAAAAATA
Found at i:67640638 original size:10 final size:9
Alignment explanation
Indices: 67640623--67640714 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
67640613 ATAATAATCA
67640623 ATAAAAATT
1 ATAAAAATT
67640632 ATAAAAATT
1 ATAAAAATT
*
67640641 AT-TAAATT
1 ATAAAAATT
*
67640649 TTAAAAAATAT
1 AT-AAAAAT-T
* *
67640660 TTAAAAGTT
1 ATAAAAATT
*
67640669 ATTAAAATT
1 ATAAAAATT
*
67640678 AGAAAAAAAGTT
1 --ATAAAAA-TT
67640690 ATAAAAATCGT
1 ATAAAAAT--T
67640701 A-AAAAATT
1 ATAAAAATT
67640709 ATAAAA
1 ATAAAA
67640715 TATATAGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
8 8 0.12
9 23 0.36
10 21 0.33
11 10 0.16
12 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:67640646 original size:19 final size:20
Alignment explanation
Indices: 67640624--67640714 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
67640614 TAATAATCAA
67640624 TAAAAATTATAAAAATTA-T
1 TAAAAATTATAAAAATTAGT
* * *
67640643 T--AAATTTTAAAAAATATT
1 TAAAAATTATAAAAATTAGT
* * *
67640661 TAAAAGTTATTAAAATTAGA
1 TAAAAATTATAAAAATTAGT
* *
67640681 AAAAAAGTTATAAAAA-TCGT
1 TAAAAA-TTATAAAAATTAGT
*
67640701 AAAAAATTATAAAA
1 TAAAAATTATAAAA
67640715 TATATAGAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
17 13 0.24
18 2 0.04
19 9 0.16
20 23 0.42
21 8 0.15
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATTATAAAAATTAGT
Found at i:67640656 original size:28 final size:29
Alignment explanation
Indices: 67640625--67640697 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
67640615 AATAATCAAT
*
67640625 AAAAATTATAAAAATTATTAAATTTTA-AA
1 AAAAATTATAAAAATTATTAAA-ATTAGAA
* *
67640654 AAATATT-TAAAAGTTATTAAAATTAGAA
1 AAAAATTATAAAAATTATTAAAATTAGAA
67640682 AAAAAGTTATAAAAAT
1 AAAAA-TTATAAAAAT
67640698 CGTAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.08
28 19 0.53
29 8 0.22
30 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAAATTATTAAAATTAGAA
Found at i:67640664 original size:18 final size:17
Alignment explanation
Indices: 67640627--67640660 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67640617 TAATCAATAA
*
67640627 AAATTATAAAAATTATT
1 AAATTATAAAAAATATT
*
67640644 AAATTTTAAAAAATATT
1 AAATTATAAAAAATATT
67640661 TAAAAGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATAAAAAATATT
Found at i:67641494 original size:186 final size:186
Alignment explanation
Indices: 67641174--67641734 Score: 908
Period size: 186 Copynumber: 3.0 Consensus size: 186
67641164 AAATATTTCT
*
67641174 ATTTTACAGACTCGGTTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
*
67641239 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCAC-AGTAAAAAGCATTAGGGACCAACA
66 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTA-TAAAAAGCATTAGGGACCAAAA
* **
67641303 TATAATACATGAGATGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAATGGCA
130 TATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
*
67641360 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGCCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
* * *
67641425 TAATCGAATTTCTAAAATAGAGAAAAATCATTTTACTCACTATAAAAAGCATTAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTATAAAAAGCATTAGGGACCAAAAT
*
67641490 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTAAGTGACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
* * * * *
67641546 ATTTTACAAACTCGATTTAAGAAAATAAAGTTCCGAAACCATTGAAAATTAAGTCGTTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
** * * * * *
67641611 TGGTCAAATTTCTAACATATAGAGAAATAATTTTACTCACTGTAAAAAGCATCAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTATAAAAAGCATTAGGGACCAAAAT
67641676 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
67641732 ATT
1 ATT
67641735 AGACAACCGT
Statistics
Matches: 348, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
186 347 1.00
187 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (186 bp):
ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTATAAAAAGCATTAGGGACCAAAAT
ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
Found at i:67643419 original size:332 final size:333
Alignment explanation
Indices: 67642475--67643969 Score: 1597
Period size: 333 Copynumber: 4.5 Consensus size: 333
67642465 TCTGCACATG
* *
67642475 GGTGCTTGGATTCGGGTGTGAGTGT--ACACAGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * *
67642536 AGAGGATCTCTGGACGAT-AGTATTCCTATACTCGTGTTCAAGTTAGAGGTGTCTATGAGTTAGA
65 AAAGGATCTTTGGAAGATCA-TATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGA
* * * * * *
67642600 CCTAG-TGAATGTGTAGTATCAACAATATATAGGTTTCATATTTTGGCCAAGTTCATTCTCAAGC
129 CCCAGCT-CA-GTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGC
* * * *
67642664 TTAATATTTTTGTATAAATCTTCCCAAATACAGGGTGGGGCTTTGCACATAGGTCCTTGGACAGG
192 TTAATATTTTTGTCTAAACCTTCCCAAATAC-GGGTGGGGCTTTGCTCATAGGTCCTTGGACAAG
* * ** ** *
67642729 TCTAGTTCAAGTATGTGTCAGACATGATTCCTGAAAGAAAAGCAAGGGGAACCGATAGCTTTTTG
256 TCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAA-GGGAAGTGTTAGCTTTTTG
* *
67642794 GCTCCGGGTGCTAA
320 GCTTCGGGTGCTAT
* * * * ** *
67642808 GGTACTTGGATTTGCGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTGTATTTTCTATGTAT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAA-GG-GTATTTTCTATGTAT
* * ** * ** * * * *
67642873 TAATAGGATCTCTGGAAGATCATATTGTTATA-TTCGTGATCGGGTCTGAGGTGTCTAGGAGATG
63 TAAAAGGATCTTTGGAAGATCATATTCCTATACTT-GTGTTCAAGTCAGAGGTGTCTATGAGTTA
* **
67642937 GA-CCAGGCTCATGGGTAGCATCAACACTGCATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
127 GACCCA-GCTCA-GTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
* * * * *
67643001 GCTTTATA-TTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATGGGTCCTTGGACA
190 GCTTAATATTTTTGTCTAAACCTTCCCAAATA-CGGGTGGGGCTTTGCTCATAGGTCCTTGGACA
* * * *
67643065 AGTCTAGTACAAGTATGTGTCAGACACGATTA-TTGAAGAAAAG-AGGGGAAGTGTTAACTTTTT
254 AGTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTT
* * *
67643128 TGCTTCGGGAGATAT
319 GGCTTCGGGTGCTAT
* * * *
67643143 GGTGCTTGGGTTCGGGTGTGAGTGTGTACACGAGTGAGGTCAAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * *** *
67643208 AAAAGATCTTTGGAAGATCATATTCCGATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * *** *
67643273 CCAGCTC-GTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAGGCTTG
130 CCAGCTCAGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTTA
* * * * * *
67643337 ATATTTTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGA-AAGGAC
195 ATATTTTTGTCTAAACCTTCCCAAATAC-GGGTGGGGCTTTGCTCATAGGTCCTTGGACAA-GTC
* * *
67643401 TAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGCTTTTTCGC
258 TAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGC-AAGGGAAGTGTTAGCTTTTTGGC
* *
67643466 TTCGAGTGTTAT
322 TTCGGGTGCTAT
* * *
67643478 GGTGCTTGGATTCGGGTGTCAGTGTGCACACGGGTGTGTTC-GAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * *
67643542 AGAGGAT-TTT--TAGATCATATTCCTATACTCTGTGTTCAAATCAAAGGTATCTATGAGTTAGA
65 AAAGGATCTTTGGAAGATCATATTCCTATACT-TGTGTTCAAGTCAGAGGTGTCTATGAGTTAGA
* * * *
67643604 CCAAGCTCATATGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTATCAGGCC
129 CCCAGCTCA-GTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCT
*
67643669 TAATATTTTTGTCTAAACCTTCCCAAATACCGGTGGGGCTTTG-TACATAGGTCCTTGGACAAGT
193 TAATATTTTTGTCTAAACCTTCCCAAATACGGGTGGGGCTTTGCT-CATAGGTCCTTGGACAAGT
*
67643733 CTAGTTCAAGTATGTGT-TGTACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
257 CTAGTTCAAGTATGTGTCAG-ACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
67643797 CTTCGGGTGCTAT
321 CTTCGGGTGCTAT
* *
67643810 GGTGCTTGGATTCAGGTGTGAGTGTGCACACAGGTGTGTTCGAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * ** * * * * *
67643875 AAAGGATCTTTGAAAGATCATATTCCTGTACTCATGTTCAGGTTAGAGGTATCTATGTGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
*** **
67643940 TGGGCTTGGGTGTAGCATCAACACTATATA
130 CCAGC-TCAGTGTAGCATCAACACTATATA
67643970 TAATTTCTCA
Statistics
Matches: 964, Mismatches: 166, Indels: 62
0.81 0.14 0.05
Matches are distributed among these distances:
331 71 0.07
332 175 0.18
333 196 0.20
334 113 0.12
335 181 0.19
336 22 0.02
337 17 0.02
338 78 0.08
339 109 0.11
340 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (333 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGTGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGACC
CAGCTCAGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTTAA
TATTTTTGTCTAAACCTTCCCAAATACGGGTGGGGCTTTGCTCATAGGTCCTTGGACAAGTCTAG
TTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGGCTTCG
GGTGCTAT
Found at i:67645469 original size:33 final size:33
Alignment explanation
Indices: 67645376--67645475 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 33
67645366 CCCTTAGAGT
* *
67645376 TTTCAGACGACTGATCAACAGGTTTCGAATTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
* ** * * *
67645409 CTTGTGAAGACTGGTCAGCAGGCTCCGAATTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
* * * *
67645442 TTTCAGATGACTCATCATCAGGTTCCGATTTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
67645475 T
1 T
67645476 CCCAGTTTCC
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (33 bp):
TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
Found at i:67653805 original size:19 final size:19
Alignment explanation
Indices: 67653771--67653807 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67653761 ATATGTGAAA
**
67653771 AAACAAATAACTAATAAAT
1 AAACAAATAAAAAATAAAT
67653790 AAACAAATAAAAAATAAA
1 AAACAAATAAAAAATAAA
67653808 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
AAACAAATAAAAAATAAAT
Found at i:67658746 original size:47 final size:47
Alignment explanation
Indices: 67658661--67658783 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
67658651 CGTTTGTAGG
*
67658661 ACAAACGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
1 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* * *
67658708 ACAACTGAACCA-CGAAAACATTATATGAGGTGCTAGAAGCATGGACT
1 ACAACCGAA-CATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* *
67658755 ACAACCGAACATTGAAAACATTTTATGAG
1 ACAACCGAACATCGAAAACATTATATGAG
67658784 ATCAATAGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 2 0.03
47 63 0.94
48 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (47 bp):
ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
Found at i:67668863 original size:20 final size:20
Alignment explanation
Indices: 67668835--67668874 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67668825 AACCAACCTT
* *
67668835 GGGTTATTGGGTTGGGTTTA
1 GGGTCATTGGGTTGAGTTTA
67668855 GGGTCATTGGGTTGAGTTTA
1 GGGTCATTGGGTTGAGTTTA
67668875 TATGGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.42, T:0.42
Consensus pattern (20 bp):
GGGTCATTGGGTTGAGTTTA
Found at i:67678415 original size:11 final size:11
Alignment explanation
Indices: 67678378--67678416 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67678368 CAATAACAAT
67678378 AAAATAATAGC
1 AAAATAATAGC
*
67678389 AATATAATAGC
1 AAAATAATAGC
* *
67678400 GAAATGATAGC
1 AAAATAATAGC
67678411 AAAATA
1 AAAATA
67678417 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:67678478 original size:23 final size:23
Alignment explanation
Indices: 67678452--67678495 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67678442 TTTTGGGTGG
**
67678452 CAAATTCGGGCTTATATTTTTTT
1 CAAATTCGAACTTATATTTTTTT
67678475 CAAATTCGAACTTATATTTTT
1 CAAATTCGAACTTATATTTTT
67678496 ACTTAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (23 bp):
CAAATTCGAACTTATATTTTTTT
Found at i:67700196 original size:10 final size:10
Alignment explanation
Indices: 67700162--67700203 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
67700152 GTAATTGGCA
*
67700162 TTTTAGTTTT
1 TTTTATTTTT
*
67700172 TCTTATTTATT
1 TTTTATTT-TT
67700183 TTTTATTTTT
1 TTTTATTTTT
67700193 TTTTATTTTT
1 TTTTATTTTT
67700203 T
1 T
67700204 ATTTTGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:67707485 original size:17 final size:17
Alignment explanation
Indices: 67707460--67707494 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
67707450 ATAAACACTA
67707460 AAAAATATTTTAAAAAT
1 AAAAATATTTTAAAAAT
*
67707477 AAAAGTATTTTAAAAAT
1 AAAAATATTTTAAAAAT
67707494 A
1 A
67707495 TTTTAAAATT
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:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATTTTAAAAAT
Found at i:67708530 original size:30 final size:30
Alignment explanation
Indices: 67708474--67708530 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
67708464 ATTTGTACAC
* *
67708474 TGAAATTGCAATTAGGTTCATTTTGATACT
1 TGAAATTGCAACTAGGTTCATCTTGATACT
*
67708504 TGAACTTGCAACTAGGTTCCA-CTTGAT
1 TGAAATTGCAACTAGGTT-CATCTTGAT
67708531 CCCTAAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (30 bp):
TGAAATTGCAACTAGGTTCATCTTGATACT
Found at i:67711271 original size:105 final size:105
Alignment explanation
Indices: 67711083--67711291 Score: 319
Period size: 105 Copynumber: 2.0 Consensus size: 105
67711073 CGTCATGCGG
* * * *
67711083 TAAATGAAAGTATGAGGAGTCAGTTGAATCACAAGTGAAGTGACAAAAGATATATGTTCGAGTTT
1 TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
* * *
67711148 TTAATTGATATTAGTCTCGAGATCGATTTCTAGACGATCT
66 TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATCT
* *
67711188 TAAATGAAAGTACGAGGAGTCGGTAGAATCATAAGTGAAATGACAAAAGATATATATTCGAGTTT
1 TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
* *
67711253 TTAGTTGACATTAATCTCGAGATTGATCTCTAGACGATC
66 TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATC
67711292 ATTTGGACTC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 93 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (105 bp):
TAAATGAAAGTACGAGGAGTCAGTAGAATCACAAGTGAAATGACAAAAGATATATATTCGAGTTT
TTAATTGACATTAATCTCGAGATCGATCTCTAGACGATCT
Found at i:67712201 original size:34 final size:34
Alignment explanation
Indices: 67712163--67712233 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
67712153 TTATTAATAA
67712163 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
1 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
67712197 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
1 ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
67712231 ATT
1 ATT
67712234 AAAACGCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (34 bp):
ATTCGAATCGGTAACCTTGTTATCTTTTTTTACC
Found at i:67713869 original size:23 final size:23
Alignment explanation
Indices: 67713843--67713895 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
67713833 TAAAATTGAC
*
67713843 AAATTCA-AAAAGTATAAAGATT
1 AAATTCATAAAAGTACAAAGATT
* *
67713865 AAAATTGATCAAAGTACAAAGATT
1 -AAATTCATAAAAGTACAAAGATT
67713889 AAATTCA
1 AAATTCA
67713896 CAACTTATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATTCATAAAAGTACAAAGATT
Found at i:67717542 original size:21 final size:21
Alignment explanation
Indices: 67717500--67717583 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 21
67717490 CTCCAATCCC
* *
67717500 AAATTTAAAATATGAAACCTCA
1 AAATTTAAATTTTGAAA-CTCA
*
67717522 AAATTTAAATTTTGAATCTC-
1 AAATTTAAATTTTGAAACTCA
67717542 AAATGTTAAA-TTT-AAACTCA
1 AAAT-TTAAATTTTGAAACTCA
* *
67717562 AACTTTAAA-TTTCAAACTCA
1 AAATTTAAATTTTGAAACTCA
67717582 AA
1 AA
67717584 CCTCAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 13 0.24
20 19 0.35
21 8 0.15
22 14 0.26
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTTAAATTTTGAAACTCA
Found at i:67717563 original size:19 final size:20
Alignment explanation
Indices: 67717518--67717584 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
67717508 AATATGAAAC
* * *
67717518 CTCAAAATTTAAATTTTGAAT
1 CTCAAACTTTAAA-TTTCAAA
67717539 CTCAAA-TGTTAAATTT-AAA
1 CTCAAACT-TTAAATTTCAAA
67717558 CTCAAACTTTAAATTTCAAA
1 CTCAAACTTTAAATTTCAAA
67717578 CTCAAAC
1 CTCAAAC
67717585 CTCAAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 16 0.38
20 15 0.36
21 11 0.26
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (20 bp):
CTCAAACTTTAAATTTCAAA
Found at i:67728936 original size:31 final size:31
Alignment explanation
Indices: 67728874--67728938 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
67728864 AATATATATT
* * **
67728874 TTAAATCAATATCAAAGTTTTATGTGAATAA
1 TTAAATCAAAATCAAAGTTCTACATGAATAA
* *
67728905 TTAAATCAAAATTAAAGTTCTACATGTATAA
1 TTAAATCAAAATCAAAGTTCTACATGAATAA
67728936 TTA
1 TTA
67728939 TGCAAATCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
TTAAATCAAAATCAAAGTTCTACATGAATAA
Found at i:67732313 original size:19 final size:19
Alignment explanation
Indices: 67732278--67732344 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
67732268 ATCTTTTGAG
67732278 GTTTGAGTTTGAAATTTAAA
1 GTTTGAGTTT-AAATTTAAA
67732298 GTTTGAGTTTAAATTTAACA
1 GTTTGAGTTTAAATTTAA-A
*
67732318 -TTTGAGATTCAAAATTTAAA
1 GTTTGAG-TT-TAAATTTAAA
*
67732338 TTTTGAG
1 GTTTGAG
67732345 GTTTCATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 14 0.33
20 14 0.33
21 14 0.33
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (19 bp):
GTTTGAGTTTAAATTTAAA
Found at i:67736007 original size:23 final size:21
Alignment explanation
Indices: 67735956--67735999 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
67735946 GCATAAGTTG
*
67735956 TGAA-TTTAATCTTTGTACTT
1 TGAATTTTAATCTTTATACTT
67735976 TGATCATTTTAATCTTTATACTT
1 TGA--ATTTTAATCTTTATACTT
67735999 T
1 T
67736000 TTGAATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
22 1 0.05
23 16 0.80
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (21 bp):
TGAATTTTAATCTTTATACTT
Found at i:67737663 original size:31 final size:34
Alignment explanation
Indices: 67737603--67737670 Score: 115
Period size: 31 Copynumber: 2.1 Consensus size: 34
67737593 TGAGCGTTTT
67737603 AATGGTAAAAAAAGATAACAAGGTTACCGATTCG
1 AATGGTAAAAAAAGATAACAAGGTTACCGATTCG
67737637 AATGGT-AAAAAAGAT-ACAA-GTTACCGATTCG
1 AATGGTAAAAAAAGATAACAAGGTTACCGATTCG
67737668 AAT
1 AAT
67737671 TTATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 15 0.44
32 4 0.12
33 9 0.26
34 6 0.18
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (34 bp):
AATGGTAAAAAAAGATAACAAGGTTACCGATTCG
Found at i:67738684 original size:104 final size:103
Alignment explanation
Indices: 67738504--67738709 Score: 297
Period size: 104 Copynumber: 2.0 Consensus size: 103
67738494 GAGTCCAAAT
* * * *
67738504 GATCGTCTAGAGATCAATCTCGAGATTAATGTCAACTAAAAACTCGAATATATATCTTTTGTCAT
1 GATCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCAT
* *
67738569 TCACTTATGATTCTACCGACTCCTCGTACTTTCATTTAA
66 TCACTTATGATTCAACCGACTCCTCATAC-TTCATTTAA
* *
67738608 GATCGTCTAGAAATCGATCTCGAGACTAATATCAATTAAAAACTCGAACATATATC-TTTGTCAC
1 GATCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCA-
* *
67738672 TTCACTTGTGATTCAACTGACTCCTCATACTTCATTTA
65 TTCACTTATGATTCAACCGACTCCTCATACTTCATTTA
67738710 CCGCATGACG
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
103 15 0.16
104 76 0.84
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (103 bp):
GATCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCAT
TCACTTATGATTCAACCGACTCCTCATACTTCATTTAA
Done.