Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 177 of 250
Found at i:56376576 original size:41 final size:43
Alignment explanation
Indices: 56376526--56376715 Score: 145
Period size: 41 Copynumber: 4.3 Consensus size: 43
56376516 CTCATCTCTT
56376526 TGAAGTTGCAGTAGAGCAGA-TCAAAA-CAAGTCTTATCTCCC
1 TGAAGTTGCAGTAGAGCAGATTCAAAACCAAGTCTTATCTCCC
* * * * * *
56376567 TGAAATTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCC
1 TGAAGTTGCAGTAGAGCAGATTCAA-A-ACCAAGTCTTATCTCCC
* * * *
56376612 TGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTC
1 TGAAGTTGCAGTAGAGCAGATT----C-A-AAACCA-AG-TCTTATCTCCC
* *
56376663 TGAAGTTGTAGTAGAGCAGA-TCAAAA-CAAGTCTTATCTTCC
1 TGAAGTTGCAGTAGAGCAGATTCAAAACCAAGTCTTATCTCCC
*
56376704 AGAAGTTGCAGT
1 TGAAGTTGCAGT
56376716 GGAACAAACT
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
41 36 0.31
42 5 0.04
43 3 0.03
44 4 0.03
45 34 0.29
46 1 0.01
49 3 0.03
50 4 0.03
51 26 0.22
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (43 bp):
TGAAGTTGCAGTAGAGCAGATTCAAAACCAAGTCTTATCTCCC
Found at i:56376621 original size:45 final size:43
Alignment explanation
Indices: 56376526--56376861 Score: 166
Period size: 45 Copynumber: 7.5 Consensus size: 43
56376516 CTCATCTCTT
* * * *
56376526 TGAAGTTGCAGTAGAGCAGATCAA-A-ACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATAAAGATACAAATCTTATTTCCC
*
56376567 TGAAATTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGA-TAAAGATA-CAAATCTTATTTCCC
* * * * *
56376612 TGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTC
1 TGAAGTTGCAGTGGAGCAGA-TAAAG--AT--A-CA-A-ATCTTATTTCCC
* * * *
56376663 TGAAGTTGTAGTAGAGCAGATCAA-A-ACAAGTCTTATCTT-CC
1 TGAAGTTGCAGTGGAGCAGATAAAGATACAAATCTTAT-TTCCC
* * * *
56376704 AGAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCT
1 TGAAGTTGCAGTGGAGCAGA-TAAAGATA-CAAATCTTATTTCCC
* * * * * *
56376749 TGAAGTTGCAGTGGAACCGATTAAAGCTATAAAGTACAGATCTCATCTCTC
1 TGAAGTTGCAGTGGAGCAGA-TAAAG------A-TACAAATCTTATTTCCC
* * * *
56376800 TGAAGTTGCAGTAGAGCAGATCAA-A-ACAAACCTTATTTCCT
1 TGAAGTTGCAGTGGAGCAGATAAAGATACAAATCTTATTTCCC
*
56376841 TGAAGTTGCAGTGAAGC-GATA
1 TGAAGTTGCAGTGGAGCAGATA
56376862 GAGCGAAGCA
Statistics
Matches: 222, Mismatches: 50, Indels: 47
0.70 0.16 0.15
Matches are distributed among these distances:
40 3 0.01
41 64 0.29
42 8 0.04
43 5 0.02
44 5 0.02
45 68 0.31
47 3 0.01
49 3 0.01
50 7 0.03
51 54 0.24
52 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (43 bp):
TGAAGTTGCAGTGGAGCAGATAAAGATACAAATCTTATTTCCC
Found at i:56376753 original size:137 final size:137
Alignment explanation
Indices: 56376496--56376853 Score: 556
Period size: 137 Copynumber: 2.6 Consensus size: 137
56376486 CTTATTTCCC
* *
56376496 TAAAGTTATAAAGCACAGATCTCATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAGTCTTA
1 TAAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTCTTA
* * * * *
56376561 TCTCCCTGAAATTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
66 TCTTCCTGAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
56376626 AACAGAT
131 AACAGAT
* * *
56376633 TGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAAGTCTTA
1 TAAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTCTTA
* *
56376698 TCTTCCAGAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCTTGAAGTTGCAGTGG
66 TCTTCCTGAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
*
56376763 AACCGAT
131 AACAGAT
* **
56376770 TAAAGCTATAAAGTACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTA
1 TAAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTCTTA
56376835 T-TTCCTTGAAGTTGCAGTG
66 TCTTCC-TGAAGTTGCAGTG
56376854 AAGCGATAGA
Statistics
Matches: 200, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
136 4 0.02
137 196 0.98
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (137 bp):
TAAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTCTTA
TCTTCCTGAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
AACAGAT
Found at i:56377476 original size:13 final size:13
Alignment explanation
Indices: 56377460--56377484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56377450 TATTTTTTTA
56377460 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
56377473 TTTTTTCTTTTC
1 TTTTTTCTTTTC
56377485 CGCATTTGTT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:56379479 original size:131 final size:131
Alignment explanation
Indices: 56379227--56379690 Score: 586
Period size: 131 Copynumber: 3.6 Consensus size: 131
56379217 TAATTATCTG
*
56379227 TTTAAAGATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTG-CCTACC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
* *
56379291 ATGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCTTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
56379356 C
131 C
*
56379357 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
* *
56379422 GTGCTGGGTTACAATTTCCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
56379487 C
131 C
* * * * * * *
56379488 TTTAAAAATTCTTTAAAACGAAGG-ATATTTTCGATGCTTAGCGATTCGGGGAATTGTGCCCTAT
1 TTTAAAAATTCCTTAAAACGAAGGCA-ATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
* * * * * * *
56379552 CGTGTTGGGTTGCAATTTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCATTCGT
65 CGTGCTGGGTTGCAATTTTCT-GTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTC--
56379617 AT-TC
127 ATGTC
* * * * *
56379621 TTT--AAATT-C-TAAAAC-AAAGCAATGTTCAATGTTTGG-AAGTTCGAGGAATCATGCCCAAC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAA-TTCGGGGAATCGTGCCCTAC
*
56379680 CGTACTGGGTT
65 CGTGCTGGGTT
56379691 TCGATTTTTC
Statistics
Matches: 290, Mismatches: 37, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
127 1 0.00
128 38 0.13
129 7 0.02
130 58 0.20
131 144 0.50
132 35 0.12
133 5 0.02
134 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
C
Found at i:56386352 original size:60 final size:60
Alignment explanation
Indices: 56386279--56386397 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
56386269 ATACTAAACT
* *
56386279 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAACTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTAC
*
56386339 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTA
56386398 TAAAAAAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTAC
Found at i:56386589 original size:14 final size:14
Alignment explanation
Indices: 56386563--56386596 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56386553 TTCTTTTTTT
*
56386563 TTCTT-TCTTCTTC
1 TTCTTCTCTCCTTC
56386576 TTCTTCTCTCCTTC
1 TTCTTCTCTCCTTC
56386590 TTCTTCT
1 TTCTTCT
56386597 TTTTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTTCTCTCCTTC
Found at i:56387596 original size:15 final size:15
Alignment explanation
Indices: 56387572--56387601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56387562 TAGTTTTCCC
*
56387572 TTTATTTTATTTTTA
1 TTTATGTTATTTTTA
56387587 TTTATGTTATTTTTA
1 TTTATGTTATTTTTA
56387602 ATAATTAGAT
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:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATGTTATTTTTA
Found at i:56388954 original size:23 final size:24
Alignment explanation
Indices: 56388928--56388973 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
56388918 TTAATATTTA
56388928 ATATTGTCTTTA-ATTTTT-TTATC
1 ATATT-TCTTTATATTTTTCTTATC
*
56388951 ATATTTTTTTATATTTTTCTTAT
1 ATATTTCTTTATATTTTTCTTAT
56388974 ATTTTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (24 bp):
ATATTTCTTTATATTTTTCTTATC
Found at i:56393028 original size:13 final size:13
Alignment explanation
Indices: 56393010--56393034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56393000 ATGAGACCTT
56393010 TTGTAAATAGGAC
1 TTGTAAATAGGAC
56393023 TTGTAAATAGGA
1 TTGTAAATAGGA
56393035 ATGGAATTTC
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:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (13 bp):
TTGTAAATAGGAC
Found at i:56395617 original size:43 final size:42
Alignment explanation
Indices: 56395544--56395704 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 42
56395534 AATGTCAACA
* * * *
56395544 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATAT-GATGCCAATG
* * *
56395587 TCTCAGACA-GCGTCTTACACGAAATTAAATATGATGTCAATG
1 TCCCAGACATG-GTCTTACACGAAATCAAATATGATGCCAATG
* *
56395629 TCCCAGACATGGTCTTACATGTAAATCACAA-ATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCA-AATA-TGATGCCAATG
* * *
56395673 TCCCAGACGTGGTCTTACACAAAATCACATAT
1 TCCCAGACATGGTCTTACACGAAATCAAATAT
56395705 CGGAATCCTA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 28 0.29
43 39 0.41
44 29 0.30
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
Found at i:56395679 original size:44 final size:43
Alignment explanation
Indices: 56395539--56395691 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 43
56395529 CGTACAATGT
* * *
56395539 CAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGC
1 CAACGTCCCAGACATGGTCTTACATGTAAATCAAA-ATTGATGC
* * * *
56395582 C-ACTGTCTCAGACA-GCGTCTTACACG-AAAT-TAAATATGATGT
1 CAAC-GTCCCAGACATG-GTCTTACATGTAAATCAAAAT-TGATGC
*
56395624 CAATGTCCCAGACATGGTCTTACATGTAAATCACAAATTGATGC
1 CAACGTCCCAGACATGGTCTTACATGTAAATCA-AAATTGATGC
*
56395668 CAACGTCCCAGACGTGGTCTTACA
1 CAACGTCCCAGACATGGTCTTACA
56395692 CAAAATCACA
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 28 0.32
43 26 0.30
44 27 0.31
45 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
CAACGTCCCAGACATGGTCTTACATGTAAATCAAAATTGATGC
Found at i:56397896 original size:18 final size:18
Alignment explanation
Indices: 56397873--56397975 Score: 71
Period size: 18 Copynumber: 5.4 Consensus size: 18
56397863 ACATCGTGAT
*
56397873 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCAGAAGTCTAA
*
56397891 CTGAAGCACATAAGTGCTAA
1 CTGAAGC-CAGAAGT-CTAA
* * *
56397911 ATGGAAGCCTGAAGGCTAA
1 CT-GAAGCCAGAAGTCTAA
*
56397930 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CAGAAGT-CT-AA
* * *
56397951 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCAGAAGTCTAA
56397969 CTGAAGC
1 CTGAAGC
56397976 TCACCAGAGC
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
18 20 0.31
19 16 0.25
20 15 0.23
21 13 0.20
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (18 bp):
CTGAAGCCAGAAGTCTAA
Found at i:56397917 original size:21 final size:21
Alignment explanation
Indices: 56397893--56397957 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 21
56397883 AAGTCTAACT
56397893 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAATG
*
56397914 GAAGC-C-TGAAG-GCTAACT-
1 GAAGCACAT-AAGTGCTAAATG
*
56397932 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAATG
56397953 GAAGC
1 GAAGC
56397958 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 10 0.28
21 10 0.28
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAATG
Found at i:56397930 original size:39 final size:39
Alignment explanation
Indices: 56397875--56397975 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
56397865 ATCGTGATCT
* *
56397875 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
56397914 GAAGCCTGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
56397953 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
56397976 TCACCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:56399225 original size:16 final size:18
Alignment explanation
Indices: 56399194--56399228 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
56399184 CAATTAACCC
56399194 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
56399212 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
56399228 C
1 C
56399229 ATAAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:56401285 original size:46 final size:46
Alignment explanation
Indices: 56401209--56401355 Score: 141
Period size: 46 Copynumber: 3.0 Consensus size: 46
56401199 TTGCACATAG
* * * *
56401209 TCACATATCACACACCGAAGCCATAGCCCAGCCATGGTCTTACACGGA
1 TCACATAT--CACACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
* * *
56401257 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAA
1 TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATAC-GGA
*
56401304 GCACATAATCACATATCTATGATGCCATAGCCCAGCTATGGTCTTATACGGA
1 TCACAT-ATCAC--A-C--TGATGCCATAGCCCAGCTATGGTCTTATACGGA
56401356 AATCACTTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
46 29 0.36
47 7 0.09
48 13 0.16
50 1 0.01
51 1 0.01
52 2 0.02
53 28 0.35
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:56401413 original size:31 final size:31
Alignment explanation
Indices: 56401378--56401557 Score: 265
Period size: 31 Copynumber: 5.8 Consensus size: 31
56401368 CTTGTCACTT
*
56401378 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56401409 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
56401440 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
56401471 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
56401502 GTAGCAGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56401533 GTAGCTGAAGCTACCCCTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
56401558 TGTCATTTGT
Statistics
Matches: 135, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
30 4 0.03
31 129 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56401537 original size:93 final size:93
Alignment explanation
Indices: 56401378--56401557 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
56401368 CTTGTCACTT
56401378 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTGATCAGGTA
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTGATCAGGTA
*
56401443 GCCGGAGCTACCACTTTTCACTGATCAG
66 GCCGAAGCTACCACTTTTCACTGATCAG
*
56401471 GTAGCCGGAA-CTACCACTTTTCACTGATCAGGTAG-CAGAAGCTACCATTTTTCACTGATCAGG
1 GTAGCC-GAAGCTACCACTATTCACTGATCAGGTAGCCAG-AGCTACCATTTTTCACTGATCAGG
* *
56401534 TAGCTGAAGCTACCCCTTTTCACT
64 TAGCCGAAGCTACCACTTTTCACT
56401558 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
92 3 0.04
93 75 0.93
94 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (93 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTGATCAGGTA
GCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56402931 original size:18 final size:18
Alignment explanation
Indices: 56402908--56402971 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
56402898 ACATCGTGAT
*
56402908 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCAAAGTCTAA
*
56402926 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCCCA-AAGT-CT-AA
* *
56402947 CGGAAGCCCAAAGGCTAA
1 CTGAAGCCCAAAGTCTAA
56402965 CTGAAGC
1 CTGAAGC
56402972 TCACCAGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
20 5 0.14
21 10 0.27
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCAAAGTCTAA
Found at i:56407246 original size:40 final size:40
Alignment explanation
Indices: 56407202--56407562 Score: 614
Period size: 40 Copynumber: 9.0 Consensus size: 40
56407192 AGAATTGAGA
*
56407202 GTTACATCCGGGCTAAGTCCCGAATAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
56407242 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTACTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
56407282 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
56407322 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
56407362 GTTATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
56407402 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
56407442 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTCGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
56407482 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
56407522 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGCCGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
56407562 G
1 G
56407563 ATGTGTAATC
Statistics
Matches: 303, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 303 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:56407621 original size:43 final size:43
Alignment explanation
Indices: 56407554--56407650 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 43
56407544 AAGGGCATTC
*
56407554 GTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGCTTT
1 GTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAACAGGCTTT
* * * * * *
56407597 GTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAACAGGCTTA
1 GTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAACAGGCTTT
*
56407640 ATGCCGGTGAT
1 GTGCCGGTGAT
56407651 TCGAGCAAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (43 bp):
GTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAACAGGCTTT
Found at i:56407808 original size:25 final size:25
Alignment explanation
Indices: 56407769--56407823 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
56407759 TGTGAAATAA
56407769 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
56407794 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
56407819 CGAAT
1 CGAAT
56407824 TCTTTAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:56407846 original size:28 final size:28
Alignment explanation
Indices: 56407807--56407902 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
56407797 ATGAATTGAG
*
56407807 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
* ** * ** *
56407835 GCACTATGTGTGTGAGA-TCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
56407863 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
56407891 GCACTATGTGTG
1 GCACTATGTGTG
56407903 TGAGATCGGT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
27 1 0.02
28 47 0.96
29 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:56407873 original size:56 final size:56
Alignment explanation
Indices: 56407805--56407932 Score: 238
Period size: 56 Copynumber: 2.3 Consensus size: 56
56407795 GAATGAATTG
56407805 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGT
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGT
*
56407861 GGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGT
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGT
*
56407917 AGACACTGTGTGTGCG
1 AGGCACTGTGTGTGCG
56407933 GATTTCGTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGTGAGATCGGTCAGT
Found at i:56407923 original size:28 final size:27
Alignment explanation
Indices: 56407834--56407930 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 27
56407824 TCTTTAACCG
56407834 AGCACTATGTGTGTGAGATCGGTCAGT
1 AGCACTATGTGTGTGAGATCGGTCAGT
* * * ** *
56407861 GGGCACTGTGTGTGCGA-ATTCTTTAACCG-
1 -AGCACTATGTGTGTGAGA-TCGGT--CAGT
56407890 AGCACTATGTGTGTGAGATCGGTCAGT
1 AGCACTATGTGTGTGAGATCGGTCAGT
*
56407917 AGACACTGTGTGTG
1 AG-CACTATGTGTG
56407931 CGGATTTCGT
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.84
29 1 0.02
30 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (27 bp):
AGCACTATGTGTGTGAGATCGGTCAGT
Found at i:56417819 original size:26 final size:26
Alignment explanation
Indices: 56417790--56417897 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
56417780 TGATTCAAAT
*
56417790 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
* *
56417816 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
56417842 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
* *
56417868 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
56417894 TGAT
1 TGAT
56417898 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:56421808 original size:50 final size:50
Alignment explanation
Indices: 56421684--56421932 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
56421674 GATAATAACA
* * ** * *
56421684 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56421735 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56421785 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56421835 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56421890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56421933 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56421862 original size:100 final size:104
Alignment explanation
Indices: 56421683--56421932 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
56421673 TGATAATAAC
**
56421683 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56421748 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
56421785 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56421848 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56421890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56421933 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56422048 original size:13 final size:13
Alignment explanation
Indices: 56422027--56422058 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56422017 GCTTGGATCA
*
56422027 TCATCAAATAAAT
1 TCATAAAATAAAT
56422040 TCATAAAATAAAT
1 TCATAAAATAAAT
56422053 TCATAA
1 TCATAA
56422059 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56422305 original size:30 final size:30
Alignment explanation
Indices: 56422270--56422327 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56422260 CCTCGACTCT
*
56422270 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
56422300 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
56422328 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:56429378 original size:50 final size:50
Alignment explanation
Indices: 56429254--56429502 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
56429244 GATAATAACA
* * ** * *
56429254 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56429305 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56429355 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56429405 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56429460 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56429503 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56429432 original size:100 final size:104
Alignment explanation
Indices: 56429253--56429502 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
56429243 TGATAATAAC
**
56429253 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56429318 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
56429355 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56429418 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56429460 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56429503 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56429618 original size:13 final size:13
Alignment explanation
Indices: 56429597--56429628 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56429587 GCTTGGATCA
*
56429597 TCATCAAATAAAT
1 TCATAAAATAAAT
56429610 TCATAAAATAAAT
1 TCATAAAATAAAT
56429623 TCATAA
1 TCATAA
56429629 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56430964 original size:22 final size:22
Alignment explanation
Indices: 56430939--56430980 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56430929 ATATAAGTAC
*
56430939 AATAACAATAATGGTAATAAAA
1 AATAAAAATAATGGTAATAAAA
*
56430961 AATAAAAATAATTGTAATAA
1 AATAAAAATAATGGTAATAA
56430981 TAATAGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (22 bp):
AATAAAAATAATGGTAATAAAA
Found at i:56431621 original size:20 final size:19
Alignment explanation
Indices: 56431605--56431641 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
56431595 TAAAAAATAG
56431605 AGAA-AAAAGAAAAAAAAA
1 AGAAGAAAAGAAAAAAAAA
56431623 AGAAGAAAAGAAAAAAAAA
1 AGAAGAAAAGAAAAAAAAA
56431642 CCTTAGCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AGAAGAAAAGAAAAAAAAA
Found at i:56431630 original size:14 final size:14
Alignment explanation
Indices: 56431607--56431640 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
56431597 AAAAATAGAG
56431607 AAAAAAGAAAA-AA
1 AAAAAAGAAAAGAA
56431620 AAAAGAAGAAAAGAA
1 AAAA-AAGAAAAGAA
56431635 AAAAAA
1 AAAAAA
56431641 ACCTTAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:56432008 original size:12 final size:12
Alignment explanation
Indices: 56431991--56432015 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56431981 TTGGGTTAGT
56431991 GTTTTGGGCTAA
1 GTTTTGGGCTAA
56432003 GTTTTGGGCTAA
1 GTTTTGGGCTAA
56432015 G
1 G
56432016 GGTTTTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:56433360 original size:21 final size:20
Alignment explanation
Indices: 56433273--56433358 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
56433263 AACATGGATA
* *
56433273 AATTTTCTAAAAGGTTTTATG
1 AATTTTTTAAAA-TTTTTATG
* *
56433294 AACTTTTTTTAAATTTTTTTG
1 AA-TTTTTTAAAATTTTTATG
*
56433315 -ATTTTTTAAAAATATTTAT-
1 AATTTTTT-AAAATTTTTATG
*
56433334 TATTATTTTAAAATTTTTATG
1 AATT-TTTTAAAATTTTTATG
56433355 AATT
1 AATT
56433359 ATACGTGAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
19 6 0.12
20 22 0.43
21 15 0.29
22 8 0.16
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
AATTTTTTAAAATTTTTATG
Found at i:56433969 original size:15 final size:15
Alignment explanation
Indices: 56433949--56433990 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
56433939 ATGATTCTAA
*
56433949 TGAAATGTGATTTTT
1 TGAAATGTGATTATT
*
56433964 TGAAATGTCATTATT
1 TGAAATGTGATTATT
*
56433979 AGAAATGTGATT
1 TGAAATGTGATT
56433991 GTCGGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.45
Consensus pattern (15 bp):
TGAAATGTGATTATT
Found at i:56436179 original size:10 final size:9
Alignment explanation
Indices: 56436153--56436183 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
56436143 TAGTGTGTTC
56436153 TTTATTTTA
1 TTTATTTTA
56436162 TTTATTTTA
1 TTTATTTTA
56436171 TTCTATTTTA
1 TT-TATTTTA
56436181 TTT
1 TTT
56436184 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:56437464 original size:23 final size:23
Alignment explanation
Indices: 56437427--56437554 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
56437417 TCTTTTTTGT
56437427 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
56437450 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
56437472 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
56437495 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATATTA
* *
56437518 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
56437543 TATTATTTATAT
1 TATTATATATAT
56437555 ATATATATTT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
21 8 0.10
22 15 0.19
23 25 0.32
24 8 0.10
25 22 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:56437530 original size:25 final size:26
Alignment explanation
Indices: 56437502--56437560 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
56437492 CTATATTACG
*
56437502 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* * *
56437527 TATATCT-TTAATATTATATTATTTA
1 TATATATATTAATACTATATTATGTA
56437552 TATATATAT
1 TATATATAT
56437561 ATTTCTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.07
25 24 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:56437554 original size:14 final size:15
Alignment explanation
Indices: 56437506--56437564 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
56437496 ATTACGTATA
56437506 TATATTATACTAT-TT
1 TATATTATA-TATATT
* *
56437521 TAT-GTATATATCTT
1 TATATTATATATATT
56437535 TAATATTATAT-TATT
1 T-ATATTATATATATT
56437550 TATA-TATATATATT
1 TATATTATATATATT
56437564 T
1 T
56437565 CTTTCTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 8 0.22
14 15 0.41
15 9 0.24
16 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (15 bp):
TATATTATATATATT
Found at i:56437595 original size:13 final size:13
Alignment explanation
Indices: 56437577--56437601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56437567 TTCTACATGT
56437577 TATCTTATGTATA
1 TATCTTATGTATA
56437590 TATCTTATGTAT
1 TATCTTATGTAT
56437602 TATGTATTTT
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
TATCTTATGTATA
Found at i:56437810 original size:8 final size:7
Alignment explanation
Indices: 56437791--56437830 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
56437781 TAATTATTAT
*
56437791 TATTTAA
1 TATTTTA
56437798 TATTTTGA
1 TATTTT-A
56437806 TATTTTAA
1 TATTTT-A
56437814 TATTTTA
1 TATTTTA
56437821 TATTTTA
1 TATTTTA
56437828 TAT
1 TAT
56437831 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
TATTTTA
Found at i:56437814 original size:16 final size:15
Alignment explanation
Indices: 56437793--56437837 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
56437783 ATTATTATTA
56437793 TTTAATATTTTGATAT
1 TTTAATATTTT-ATAT
56437809 TTTAATATTTTATAT
1 TTTAATATTTTATAT
56437824 TTTATATATTTTAT
1 TTTA-ATATTTTAT
56437838 TATTCACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTAATATTTTATAT
Found at i:56447151 original size:71 final size:73
Alignment explanation
Indices: 56447052--56447783 Score: 584
Period size: 73 Copynumber: 9.5 Consensus size: 73
56447042 CTTTTCAAGG
* * * * *
56447052 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
56447116 GTTTTTC-
66 GTTTGTCA
*
56447123 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
56447188 GTTTGTCA
66 GTTTGTCA
*
56447196 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
56447261 GTTTGTCA
66 GTTTGTCA
* * * **
56447269 AAAATTAACTCATATTGGGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
56447333 TCTGTTCTTCAATTTCTGTTCGT
63 TCTG---------TT-TG-TC-A
** * * * * * *
56447356 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
* *
56447418 TAAATTTCTGTTTTTCA
57 TCAATTTCTGTTTGTCA
*
56447435 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
56447500 GTTTGTCA
66 GTTTGTCA
* * **
56447508 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
56447572 TCTGTTTTTCAATTTCTGTTCGT
63 TCTG---------TT-TG-TC-A
** * * * * * *
56447595 AAAAGAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
* *
56447657 TAAATTTCTGTTTTTCA
57 TCAATTTCTGTTTGTCA
*
56447674 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
56447739 GTTTGTCA
66 GTTTGTCA
*
56447747 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
56447784 GGCTCACATA
Statistics
Matches: 535, Mismatches: 68, Indels: 114
0.75 0.09 0.16
Matches are distributed among these distances:
71 57 0.11
72 11 0.02
73 212 0.40
74 38 0.07
75 46 0.09
79 34 0.06
80 10 0.02
81 4 0.01
82 8 0.01
84 8 0.01
85 5 0.01
86 10 0.02
87 34 0.06
90 22 0.04
91 24 0.04
92 8 0.01
93 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCA
Found at i:56447345 original size:14 final size:14
Alignment explanation
Indices: 56447326--56447353 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56447316 CTGAGGTCTT
56447326 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56447340 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56447354 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:56447541 original size:239 final size:239
Alignment explanation
Indices: 56447123--56448070 Score: 1756
Period size: 239 Copynumber: 4.0 Consensus size: 239
56447113 TTTGTTTTTC
* * *
56447123 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
56447187 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
*
56447252 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGGGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
56447317 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
56447361 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
56447426 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
56447491 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
* *
56447556 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAG
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
56447600 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
56447665 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
*
56447730 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATAC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
*
56447795 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCATAAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
56447839 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
56447904 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACACTGAGGTAAT
66 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
56447969 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
*
56448034 CTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
195 CTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
56448071 TTTTCAATTT
Statistics
Matches: 692, Mismatches: 15, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
238 52 0.08
239 487 0.70
240 151 0.22
241 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (239 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
Found at i:56447582 original size:14 final size:14
Alignment explanation
Indices: 56447563--56447591 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56447553 TGCTGAGGTC
56447563 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56447577 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56447591 T
1 T
56447592 CGTAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:56447823 original size:14 final size:14
Alignment explanation
Indices: 56447804--56447831 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56447794 CTGAGGTCTT
56447804 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56447818 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56447832 ATAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:56447946 original size:75 final size:73
Alignment explanation
Indices: 56447837--56448062 Score: 310
Period size: 75 Copynumber: 3.0 Consensus size: 73
56447827 TGTTCATAAA
56447837 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
56447902 TCTGTTTTTC
64 TCTGTTTTTC
* * * *
56447912 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATTT
*
56447977 CTGTTTGTC
65 CTGTTTTTC
* * *
56447986 -AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAAT
*
56448050 TTCTGCTTTTC
63 TTCTGTTTTTC
56448061 AA
1 AA
56448063 TTTCTGTTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
72 2 0.02
73 36 0.27
74 13 0.10
75 80 0.61
76 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
TGTTTTTC
Found at i:56448064 original size:14 final size:15
Alignment explanation
Indices: 56448039--56448080 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
56448029 ACATGCTGAG
*
56448039 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
56448054 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
56448068 GTTTTTTCAATTT
1 GTCTTTTCAATTT
56448081 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:56448076 original size:15 final size:14
Alignment explanation
Indices: 56448042--56448091 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
56448032 TGCTGAGGTC
56448042 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
56448055 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
56448069 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
56448084 TTTTTCAA
1 TTTTTCAA
56448092 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:56448946 original size:30 final size:30
Alignment explanation
Indices: 56448838--56448984 Score: 183
Period size: 30 Copynumber: 4.9 Consensus size: 30
56448828 ACTTTTCTCA
* *
56448838 ACTAGCCACACCTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
56448868 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
56448898 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
56448928 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
56448958 ACTAACCACA-CTTGCTCCACCA-CAACT
1 ACTAGCCACACCTT-CTCCACCACCAACT
56448985 TGTACCTACA
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.07
30 98 0.93
ACGTcount: A:0.28, C:0.47, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:56449481 original size:23 final size:23
Alignment explanation
Indices: 56449444--56449571 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
56449434 TCCTTTTTGT
56449444 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
56449467 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
56449489 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
56449512 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATATTA
* *
56449535 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
56449560 TATTATTTATAT
1 TATTATATATAT
56449572 ATATATTTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
21 8 0.10
22 15 0.19
23 25 0.32
24 8 0.10
25 22 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:56449547 original size:25 final size:26
Alignment explanation
Indices: 56449519--56449578 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
56449509 CTATATTACG
*
56449519 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* * *
56449544 TATATCT-TTAATATTATATTATTTA
1 TATATATATTAATACTATATTATGTA
56449569 TATATATATT
1 TATATATATT
56449579 TTTTCTACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.07
25 24 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:56449824 original size:8 final size:8
Alignment explanation
Indices: 56449811--56449855 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
56449801 TAATTATTAT
56449811 TATTTTAA
1 TATTTTAA
*
56449819 TATTTTGA
1 TATTTTAA
*
56449827 TATTTTGA
1 TATTTTAA
56449835 TATTTTATA
1 TATTTTA-A
*
56449844 TATTTTAT
1 TATTTTAA
56449852 TATT
1 TATT
56449856 CACATCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (8 bp):
TATTTTAA
Found at i:56454363 original size:10 final size:9
Alignment explanation
Indices: 56454337--56454367 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
56454327 TTGTGTGTTC
56454337 TTTATTTTA
1 TTTATTTTA
56454346 TTTATTTTA
1 TTTATTTTA
56454355 TTCTATTTTA
1 TT-TATTTTA
56454365 TTT
1 TTT
56454368 TTCACACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:56455233 original size:58 final size:55
Alignment explanation
Indices: 56455125--56455256 Score: 151
Period size: 58 Copynumber: 2.3 Consensus size: 55
56455115 TTAATTCATA
* *
56455125 TAATAATAATTATATTAAGAATGTTATTAAATTATATTTTTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTTATTAAATTAT-TT
* * *
56455181 TAATAATAATTATTTTAA-AATATGGTTAAACTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAGAATATGATTAAA-T-TATATT-TTTTTATTAAATTATTT
56455238 TCAATAATAATCT-TATTAA
1 T-AATAATAAT-TATATTAA
56455257 AAATTAATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 9 0.14
56 18 0.28
57 8 0.12
58 29 0.45
59 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (55 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTTATTAAATTATTT
Found at i:56455449 original size:16 final size:16
Alignment explanation
Indices: 56455428--56455463 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56455418 TGAATTACTG
* *
56455428 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCA
56455444 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
56455460 ATTA
1 ATTA
56455464 TAGCCCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:56460954 original size:28 final size:29
Alignment explanation
Indices: 56460923--56460988 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
56460913 AATAATAGGT
*
56460923 ATAATAATAAATATAATG-ATATACAAAA
1 ATAATAATAAATAAAATGTATATACAAAA
* *
56460951 ATAATACTATATATAAAATGTGTATACAAAA
1 ATAATA--ATAAATAAAATGTATATACAAAA
56460982 ATAATAA
1 ATAATAA
56460989 AATATATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 1 0.03
30 10 0.31
31 15 0.47
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (29 bp):
ATAATAATAAATAAAATGTATATACAAAA
Found at i:56461545 original size:27 final size:25
Alignment explanation
Indices: 56461508--56461559 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
56461498 ATATAATGAA
*
56461508 GACACAATAATGCTAATAATGATAAT
1 GACACAATAATGATAATAAT-ATAAT
*
56461534 GACAGCAATAATGATACTAATATAAT
1 GACA-CAATAATGATAATAATATAAT
56461560 AAACGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (25 bp):
GACACAATAATGATAATAATATAAT
Found at i:56461915 original size:21 final size:22
Alignment explanation
Indices: 56461889--56461931 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
56461879 ATATTACATA
56461889 TAATAATAATAC-TAAAAATAG
1 TAATAATAATACATAAAAATAG
56461910 TAATAATAATACATTAAAAATA
1 TAATAATAATACA-TAAAAATA
56461932 ATTATGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
TAATAATAATACATAAAAATAG
Found at i:56465813 original size:38 final size:38
Alignment explanation
Indices: 56465762--56465923 Score: 236
Period size: 38 Copynumber: 4.3 Consensus size: 38
56465752 ATATTCGATG
*
56465762 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * *
56465800 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
*
56465838 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* *
56465876 TATATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
*
56465914 TATATTCGGG
1 TATATCCGGG
56465924 CCTTTGAGCC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:56465888 original size:76 final size:76
Alignment explanation
Indices: 56465762--56465923 Score: 270
Period size: 76 Copynumber: 2.1 Consensus size: 76
56465752 ATATTCGATG
*
56465762 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCT
*
56465827 CGTGCTAGTAT
66 AGTGCTAGTAT
* *
56465838 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCT
1 TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCT
*
56465903 AGTGCTGGTAT
66 AGTGCTAGTAT
*
56465914 TATATTCGGG
1 TATATCCGGG
56465924 CCTTTGAGCC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCT
AGTGCTAGTAT
Found at i:56467581 original size:18 final size:19
Alignment explanation
Indices: 56467554--56467596 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
56467544 TTAGAAATTA
* *
56467554 TTTTTCTAATACT-AATAT
1 TTTTTATAATAATCAATAT
56467572 TTTTTATAATAATCAATAT
1 TTTTTATAATAATCAATAT
56467591 TTTTTA
1 TTTTTA
56467597 AGAGTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTATAATAATCAATAT
Found at i:56468248 original size:22 final size:22
Alignment explanation
Indices: 56468218--56468269 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
56468208 GAAAATAGTA
*
56468218 TGCTCTTGTGGTACGTTTTCTT
1 TGCTTTTGTGGTACGTTTTCTT
56468240 TGCTTTTGTGGTACGTTTTCTT
1 TGCTTTTGTGGTACGTTTTCTT
56468262 TGTCTTTT
1 TG-CTTTT
56468270 TACTTTGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.04, C:0.15, G:0.21, T:0.60
Consensus pattern (22 bp):
TGCTTTTGTGGTACGTTTTCTT
Found at i:56468833 original size:12 final size:12
Alignment explanation
Indices: 56468812--56468854 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
56468802 TTAAATATTC
*
56468812 AAATATTTTTAA
1 AAATAATTTTAA
56468824 AAATAATTTTAAA
1 AAATAATTTT-AA
56468837 AAATAATAATTTAA
1 AAATAAT--TTTAA
56468851 AAAT
1 AAAT
56468855 GTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 6 0.22
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:56468838 original size:13 final size:13
Alignment explanation
Indices: 56468812--56468853 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
56468802 TTAAATATTC
*
56468812 AAAT-ATTTTTAA
1 AAATAATTTTAAA
56468824 AAATAATTTTAAA
1 AAATAATTTTAAA
56468837 AAATAATAATTTAAA
1 AAATAAT--TTTAAA
56468852 AA
1 AA
56468854 TGTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 14 0.54
15 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:56468904 original size:13 final size:13
Alignment explanation
Indices: 56468885--56468917 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
56468875 TATATTTAAA
56468885 ATTTAAAAAATAT
1 ATTTAAAAAATAT
*
56468898 -TTTTAAAAATAT
1 ATTTAAAAAATAT
56468910 ATTTAAAA
1 ATTTAAAA
56468918 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTAAAAAATAT
Found at i:56468904 original size:20 final size:20
Alignment explanation
Indices: 56468844--56468905 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
56468834 AAAAAATAAT
* *
56468844 AATTT-AAAAAT-GTTTTAT
1 AATTTAAAAAATATTTTTAA
* *
56468862 AATATTAAAATATTATATTTAA
1 AAT-TTAAAA-AATATTTTTAA
56468884 AATTTAAAAAATATTTTTAA
1 AATTTAAAAAATATTTTTAA
56468904 AA
1 AA
56468906 ATATATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 14 0.41
21 8 0.24
22 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTTAAAAAATATTTTTAA
Found at i:56468911 original size:32 final size:32
Alignment explanation
Indices: 56468860--56468959 Score: 116
Period size: 32 Copynumber: 3.1 Consensus size: 32
56468850 AAAATGTTTT
56468860 ATAATATTAAAATATTATATTTAAAATTTAAAAA
1 ATAATATTAAAA-A-TATATTTAAAATTTAAAAA
* *
56468894 ATATTTTTAAAAATATATTTAAAA-TT-AAAA
1 ATAATATTAAAAATATATTTAAAATTTAAAAA
* *
56468924 ATAATATTATAAA-ATATTTAAAATATTATAAA
1 ATAATATTAAAAATATATTTAAAAT-TTAAAAA
56468956 ATAA
1 ATAA
56468960 ATAATAAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
29 10 0.18
30 14 0.25
31 4 0.07
32 18 0.32
33 1 0.02
34 10 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAATATTAAAAATATATTTAAAATTTAAAAA
Found at i:56468947 original size:9 final size:10
Alignment explanation
Indices: 56468926--56468958 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
56468916 AATTAAAAAT
56468926 AATATTATAA
1 AATATTATAA
56468936 AATATT-TAA
1 AATATTATAA
56468945 AATATTATAA
1 AATATTATAA
56468955 AATA
1 AATA
56468959 AATAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATTATAA
Found at i:56469677 original size:23 final size:24
Alignment explanation
Indices: 56469651--56469703 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
56469641 TGTTTATAAG
*
56469651 TTGTTGT-CATTTTTTATTCT-TCA
1 TTGTTGTCCA-TTTCTATTCTCTCA
*
56469674 TTGTTGTCCATTTCTCTTCTCTCA
1 TTGTTGTCCATTTCTATTCTCTCA
56469698 TTGTTG
1 TTGTTG
56469704 CACATTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.09, C:0.19, G:0.11, T:0.60
Consensus pattern (24 bp):
TTGTTGTCCATTTCTATTCTCTCA
Found at i:56470663 original size:29 final size:28
Alignment explanation
Indices: 56470617--56470678 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
56470607 TTCGTTGAGC
*
56470617 TCTGGCGATATATCTGCAATTACTGGAGT
1 TCTGGCGATAAATCTGCAATTAC-GGAGT
* * *
56470646 TCTGGCGGTAAATTTGCAATTTCGGAGT
1 TCTGGCGATAAATCTGCAATTACGGAGT
56470674 TCTGG
1 TCTGG
56470679 TGATTTGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (28 bp):
TCTGGCGATAAATCTGCAATTACGGAGT
Found at i:56473890 original size:23 final size:24
Alignment explanation
Indices: 56473860--56473904 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
56473850 AGGCAAGACA
56473860 CTCATTTACCC-CTTCTTTTTTTT
1 CTCATTTACCCTCTTCTTTTTTTT
*
56473883 CTCATTTACCCTTTTCTTTTTT
1 CTCATTTACCCTCTTCTTTTTT
56473905 CTTCCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.62
Consensus pattern (24 bp):
CTCATTTACCCTCTTCTTTTTTTT
Found at i:56478391 original size:12 final size:12
Alignment explanation
Indices: 56478359--56478392 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
56478349 GGCCCACTTG
56478359 TATTAATTTTTA
1 TATTAATTTTTA
56478371 TA-TAATTTTTA
1 TATTAATTTTTA
56478382 TATT-ATTTTTA
1 TATTAATTTTTA
56478393 AATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:56478545 original size:30 final size:30
Alignment explanation
Indices: 56478509--56478568 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56478499 ACCTAACAAG
56478509 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* * *
56478539 CAAATGCCTTTAAATTAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
56478569 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:56482038 original size:72 final size:71
Alignment explanation
Indices: 56481837--56482038 Score: 251
Period size: 72 Copynumber: 2.8 Consensus size: 71
56481827 CACTGCATAA
* * * *
56481837 CCCATGACATGGGCTTGAAGTACTTGCCACCCAGGGGATTGTACTGAAGCTGGTGAATACTGCAA
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTAGTGAATACTGCAA
**
56481902 GCCTTGC
65 GCCAGGC
* * *
56481909 CCCATGACATGGGCTCGAACTGCTTGCCACCCAGGGGATTGTACAGGTGCCAGTGAATACTGCAA
1 CCCATGACATGGGCT-GAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTAGTGAATACTGCAA
56481974 GCCAGGC
65 GCCAGGC
** * * *
56481981 CCGGTGACATGGGCATGAAGTGCTTGCCACCCCGGGGATTGTGCAGGAGCTAATGAAT
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTAGTGAAT
56482039 GGGTTGCTAC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
71 1 0.01
72 109 0.98
73 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (71 bp):
CCCATGACATGGGCTGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTAGTGAATACTGCAAG
CCAGGC
Found at i:56483968 original size:159 final size:159
Alignment explanation
Indices: 56483671--56484130 Score: 636
Period size: 159 Copynumber: 2.9 Consensus size: 159
56483661 GAAATTCTCT
* * **
56483671 TGCGATCAACATGCTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAATTGTTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* ** * *
56483736 CCTGAATCCCTTTCATCACTTGC-TCCACTAAATCCAGATCTCTCAGTGCTGCGTTGTTCATAGG
66 CCTGAATCTCTTTCATCAC-TGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGA
* *
56483800 TATCTGAAGAAAGCATTTTATGAAGGAC-AC
130 TTTCTGAAGAAAGCATTCTATGAAGG-CGAC
* * * * *
56483830 TGCGATCACCATGTTTTTGAGATTCTTTAACATTTCCAATATTTCTCCTTTCACCATAACCATTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* *
56483895 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATTTCTCAACACTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
* *
56483960 TTCAGAAGAAAGCATTCTGTGAAGGCGAC
131 TTCTGAAGAAAGCATTCTATGAAGGCGAC
* * * *
56483989 TGTGACCACCATGTTTTTCAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGCTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* **
56484054 CCTGAATCTCTTTCATCACTTCTTCCAGAAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
*
56484119 TTCTGAAAAAAG
131 TTCTGAAGAAAG
56484131 TACTCTGGGA
Statistics
Matches: 263, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
158 4 0.02
159 259 0.98
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (159 bp):
TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
TTCTGAAGAAAGCATTCTATGAAGGCGAC
Found at i:56485275 original size:4 final size:4
Alignment explanation
Indices: 56485266--56485304 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
56485256 TAGTCATTGC
56485266 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
56485305 GACAGACAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:56485309 original size:4 final size:4
Alignment explanation
Indices: 56485302--56485388 Score: 174
Period size: 4 Copynumber: 21.8 Consensus size: 4
56485292 ATACATACAT
56485302 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
56485350 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACA
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACA
56485389 ATAAGAAACA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 83 1.00
ACGTcount: A:0.51, C:0.25, G:0.24, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:56488187 original size:18 final size:18
Alignment explanation
Indices: 56488161--56488201 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
56488151 AAGCTAGATT
*
56488161 GAGGAAAGGAAAAAGTTC
1 GAGGTAAGGAAAAAGTTC
56488179 GAGGTAAGGAAAAAGTTC
1 GAGGTAAGGAAAAAGTTC
56488197 GAGGT
1 GAGGT
56488202 TAGTAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.37, T:0.15
Consensus pattern (18 bp):
GAGGTAAGGAAAAAGTTC
Found at i:56491875 original size:30 final size:30
Alignment explanation
Indices: 56491839--56491953 Score: 144
Period size: 30 Copynumber: 3.8 Consensus size: 30
56491829 ACTTTTCTCA
*
56491839 ACTAGCCACACCTT-TTCCACCACCAACTCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
*
56491869 ACTAGCCACACCTT-CTCCACCACCAAATCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
** *
56491899 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTGCTCCACCACCAACTCC
*
56491929 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTGCTCCACCACCA
56491954 CTTGTACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 3 0.04
30 71 0.96
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:56492545 original size:16 final size:15
Alignment explanation
Indices: 56492524--56492576 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
56492514 TACGTATACA
56492524 TATATATTATACTATT
1 TATATATTATA-TATT
*
56492540 TATATA-TATATCTT
1 TATATATTATATATT
*
56492554 TA-ATACTATATTATT
1 TATATATTATA-TATT
56492569 TATATATT
1 TATATATT
56492577 TTTTTACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 9 0.29
15 9 0.29
16 10 0.32
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATATTATATATT
Found at i:56492573 original size:25 final size:25
Alignment explanation
Indices: 56492449--56492657 Score: 91
Period size: 25 Copynumber: 8.5 Consensus size: 25
56492439 TTGTTATTAT
*
56492449 TATATTTCTTAATATTATATTATATA
1 TATATTT-TTAATACTATATTATATA
**
56492475 TAT-TCTTTT-A-A-TATA-T-TAGG
1 TATAT-TTTTAATACTATATTATATA
* * *
56492495 TATATTCTAAATTCTATATTACGTATA
1 TATATTTTTAATACTATATTA--TATA
* *
56492522 CATATATATT-ATACTAT-TTATATA
1 TATAT-TTTTAATACTATATTATATA
* *
56492546 TATATCTTTAATACTATATTATTTA
1 TATATTTTTAATACTATATTATATA
* * *
56492571 TATATTTTT-TTAC-ATGTTATCTTATG
1 TATATTTTTAATACTATATTA---TATA
* *
56492597 TATATATTTAAT--TATATTATGTA
1 TATATTTTTAATACTATATTATATA
* * *
56492620 TGTATTTTTTACACTATATTATATA
1 TATATTTTTAATACTATATTATATA
*
56492645 CATATTTTTAATA
1 TATATTTTTAATA
56492658 TTATCACGTA
Statistics
Matches: 130, Mismatches: 34, Indels: 39
0.64 0.17 0.19
Matches are distributed among these distances:
20 7 0.05
21 3 0.02
22 4 0.03
23 22 0.17
24 20 0.15
25 36 0.28
26 23 0.18
27 13 0.10
28 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATATA
Found at i:56492616 original size:21 final size:21
Alignment explanation
Indices: 56492587--56492626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56492577 TTTTTACATG
*
56492587 TTATCTTATGTATATATTTAA
1 TTATATTATGTATATATTTAA
*
56492608 TTATATTATGTATGTATTT
1 TTATATTATGTATATATTT
56492627 TTTACACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATATTATGTATATATTTAA
Found at i:56492831 original size:16 final size:15
Alignment explanation
Indices: 56492807--56492841 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
56492797 TAATTATTAT
56492807 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
56492823 TATTTTAATATTTTA
1 TATTCTAATATTTTA
56492838 TATT
1 TATT
56492842 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:56502949 original size:73 final size:73
Alignment explanation
Indices: 56502697--56503692 Score: 790
Period size: 73 Copynumber: 13.0 Consensus size: 73
56502687 CTTTTCAAGG
* *** *
56502697 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTAAGACACGTTGAGGTACTTTT-AATTT-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTC
56502760 TGTTT-TC-
65 TGTTTGTCA
* * *
56502767 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
56502832 GTTTGTC-
66 GTTTGTCA
*
56502839 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
*
56502904 GCTTGTCA
66 GTTTGTCA
* * * *
56502912 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
* *
56502977 CTGTTCGTAAAAAA
64 CTGTTTGT----CA
* * *
56502991 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTC
*
56503056 TGTTTTTCA
65 TGTTTGTCA
*
56503065 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
56503130 GTTTGTCA
66 GTTTGTCA
* * * * *
56503138 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
56503203 CTGTTTTTCAATTTCTGTTCGT
64 CTG---------TT-TG-TC-A
** * ** ** * * *
56503225 AAAAAAAAATCA-ACTT-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT
1 AAAATCAACTCATA-TTGCGAGAG-GTGAGTTGAG-----CCTCGGGACACGCTGAGGTA-TTTT
* *
56503288 AAATTTCTGTTTTTCA
58 CAATTTCTGTTTGTCA
* *
56503304 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* *
56503369 GTTTTTTA
66 GTTTGTCA
* * * * *
56503377 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
56503442 CTGTTCTTCAATTTCTGTTCGT
64 CTG---------TT-TG-TC-A
** * * * * * *
56503464 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCGGGACACGCTGAGGTA-TTT
* *
56503526 TAAATTTCTGTTTTTCAA
57 TCAATTTCTGTTTGTC-A
* * *
56503544 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
56503609 GTTTGTCA
66 GTTTGTCA
* * ** * *
56503617 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCACGGCTCACGTGCTGAGGTCTTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAGGTATTTTCAATTT
56503682 CTGCTTT-TCA
64 CTG-TTTGTCA
56503692 A
1 A
56503693 TTTCTGTTTT
Statistics
Matches: 745, Mismatches: 117, Indels: 123
0.76 0.12 0.12
Matches are distributed among these distances:
69 3 0.00
70 53 0.07
71 5 0.01
72 71 0.10
73 185 0.25
74 86 0.12
75 112 0.15
76 3 0.00
77 10 0.01
78 15 0.02
79 57 0.08
80 24 0.03
81 5 0.01
82 5 0.01
83 2 0.00
84 6 0.01
85 4 0.01
86 9 0.01
87 36 0.05
90 22 0.03
91 24 0.03
92 8 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTGTCA
Found at i:56503212 original size:14 final size:14
Alignment explanation
Indices: 56503193--56503221 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56503183 TGCTGAGGTC
56503193 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56503207 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
56503221 T
1 T
56503222 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:56503387 original size:239 final size:239
Alignment explanation
Indices: 56502967--56503700 Score: 1333
Period size: 239 Copynumber: 3.1 Consensus size: 239
56502957 TGCTGAGGTC
56502967 TTTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTTCGT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
56503032 CACGCTAAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 CACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
56503097 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGG
130 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGG
56503162 TGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
195 TGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
*
56503207 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
56503272 ACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
56503337 CCTCGGGACACACTGAGGTAATTTCAATTTCTGTTTTTTAAAAATTAACTCATATTGCGAGAGGT
131 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
56503402 GAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
196 GAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
*
56503446 TCTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
56503511 ACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGA
66 ACGCTGAGGTATTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
56503576 GCCTTGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGG
130 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGG
* * * * *
56503641 TGAGTTGAGCCACGGCTCACGTGCTGAGGTCTTTTTAATTTCTGC
195 TGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
56503686 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
56503701 TTTTCAATTT
Statistics
Matches: 475, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
239 310 0.65
240 165 0.35
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (239 bp):
TTTTCAATTTCTGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGT
GAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGT
Found at i:56503453 original size:14 final size:14
Alignment explanation
Indices: 56503434--56503461 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56503424 CTGAGGTCTT
56503434 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56503448 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
56503462 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:56503494 original size:165 final size:165
Alignment explanation
Indices: 56503303--56503611 Score: 469
Period size: 165 Copynumber: 1.9 Consensus size: 165
56503293 TCTGTTTTTC
* *
56503303 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATATTTAAATTT
* * * * *
56503367 CTGTTTTT-TAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGT
66 CTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
**
56503431 CTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
129 AATTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
* *
56503468 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATATTTAAATTT
* *
56503533 CTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAA
66 CTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
56503598 TTTCAATTTCTGTT
131 TTTCAATTTCTGTT
56503612 TGTCAAAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
165 77 0.60
166 16 0.12
167 36 0.28
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATATTTAAATTT
CTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:56503576 original size:75 final size:73
Alignment explanation
Indices: 56503467--56503692 Score: 301
Period size: 75 Copynumber: 3.0 Consensus size: 73
56503457 TGTTCGTAAA
56503467 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
56503532 TCTGTTTTTC
64 TCTGTTTTTC
* * * *
56503542 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACGCTGAGGTATTTTTAATTT
*
56503607 CTGTTTGTC
65 CTGTTTTTC
* * * *
56503616 -AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCACGGCTCACGTGCTGAGGTCTTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACAC--GCTGAGGTATTTTTAAT
*
56503680 TTCTGCTTTTC
63 TTCTGTTTTTC
56503691 AA
1 AA
56503693 TTTCTGTTTT
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
72 2 0.02
73 37 0.28
74 13 0.10
75 77 0.59
76 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
TGTTTTTC
Found at i:56503694 original size:14 final size:15
Alignment explanation
Indices: 56503669--56503710 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
56503659 ACGTGCTGAG
*
56503669 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
56503684 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
56503698 GTTTTTTCAATTT
1 GTCTTTTCAATTT
56503711 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:56503706 original size:15 final size:14
Alignment explanation
Indices: 56503672--56503721 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
56503662 TGCTGAGGTC
56503672 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
56503685 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
56503699 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
56503714 TTTTTCAA
1 TTTTTCAA
56503722 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:56504503 original size:30 final size:30
Alignment explanation
Indices: 56504467--56504581 Score: 126
Period size: 30 Copynumber: 3.8 Consensus size: 30
56504457 ACTTTTCTCA
* * *
56504467 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCC
56504497 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAAATCC
** * *
56504527 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAAATCC
*
56504557 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
56504582 CTTGTACCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 3 0.04
30 70 0.96
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAAATCC
Found at i:56505108 original size:23 final size:23
Alignment explanation
Indices: 56505071--56505202 Score: 81
Period size: 23 Copynumber: 5.5 Consensus size: 23
56505061 TTTTTTTTGT
*
56505071 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
56505094 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
56505116 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
56505139 TATTACGTATACATATATATT-ATACTA
1 TATTA--TAT--ATAT-TCTTAATACTA
*
56505166 TTTTATATATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
56505191 TATTATTTATAT
1 TATTATATATAT
56505203 ATATATTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
22 17 0.20
23 25 0.30
24 6 0.07
25 20 0.24
27 13 0.16
28 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:56505174 original size:25 final size:26
Alignment explanation
Indices: 56505136--56505209 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
56505126 ATTCTAAATT
*
56505136 CTATATTACGTATACATATATATT-ATA
1 CTATATTA--TATATATATATATTAATA
* *
56505163 CTATTTTATATATATATCT-TTAATA
1 CTATATTATATATATATATATTAATA
*
56505188 CTATATTATTTATATATATATT
1 CTATATTATATATATATATATT
56505210 TTTACATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.05
25 28 0.72
26 2 0.05
27 7 0.18
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (26 bp):
CTATATTATATATATATATATTAATA
Found at i:56505233 original size:26 final size:22
Alignment explanation
Indices: 56505192--56505260 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
56505182 TTAATACTAT
*
56505192 ATTATTTATATATATATTTTTA
1 ATTATTTATGTATATATTTTTA
56505214 CATGTTATCTTATGTATATA-TTTTA
1 -A--TTAT-TTATGTATATATTTTTA
*
56505239 ATTATGTTATGTATGTATTTTT
1 ATTAT-TTATGTATATATTTTT
56505261 TACACTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 14 0.36
23 5 0.13
24 1 0.03
25 9 0.23
26 10 0.26
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTATTTATGTATATATTTTTA
Found at i:56505234 original size:30 final size:29
Alignment explanation
Indices: 56505169--56505234 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
56505159 TATACTATTT
*
56505169 TATATATATATCTTTAATACTATATTATT
1 TATATATATATCTTTAATACTATATTATG
* ** *
56505198 TATATATATATTTTTACATGTTATCTTATG
1 TATATATATATCTTTA-ATACTATATTATG
56505228 TATATAT
1 TATATAT
56505235 TTTAATTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (29 bp):
TATATATATATCTTTAATACTATATTATG
Found at i:56505462 original size:16 final size:15
Alignment explanation
Indices: 56505438--56505472 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
56505428 TAATTATTAT
56505438 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
56505454 TATTTTAATATTTTA
1 TATTCTAATATTTTA
56505469 TATT
1 TATT
56505473 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:56507003 original size:20 final size:18
Alignment explanation
Indices: 56506974--56507025 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
56506964 TTTTACCAAA
*
56506974 ATTAATTAAATTATATGAT
1 ATTAAATAAATTATAT-AT
56506993 ATTTAAATAAATTA-ATAT
1 A-TTAAATAAATTATATAT
*
56507011 AAT-AATAAATTATAT
1 ATTAAATAAATTATAT
56507026 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 3 0.10
19 3 0.10
20 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATAAATTATATAT
Found at i:56507004 original size:29 final size:31
Alignment explanation
Indices: 56506972--56507051 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
56506962 ATTTTTACCA
* *
56506972 AAATTAAT-TAA-ATTATATGATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
*
56507001 AAATTAATATAATAATAAATTATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
* * * *
56507032 TATTTAATAGAATGATAAAT
1 AAATTAATATAATAATAAAT
56507052 AAAACATAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.19
30 3 0.07
31 31 0.74
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (31 bp):
AAATTAATATAATAATAAATGATATTTAAAT
Found at i:56507026 original size:31 final size:31
Alignment explanation
Indices: 56506991--56507051 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
56506981 AAATTATATG
*
56506991 ATATTTAAATAAATTAATATAATAATAAATT
1 ATATTTAAATAAATTAATAGAATAATAAATT
* * *
56507022 ATATTTAAATTATTTAATAGAATGATAAAT
1 ATATTTAAATAAATTAATAGAATAATAAAT
56507052 AAAACATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
ATATTTAAATAAATTAATAGAATAATAAATT
Found at i:56508724 original size:24 final size:24
Alignment explanation
Indices: 56508688--56508742 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
56508678 GGCACACCAC
* *
56508688 AGCTCGCAAGAGCGTCCC-ATTATT
1 AGCTCTCAAGAGCATCCCGA-TATT
*
56508712 AGCTCTCACGAGCATCCCGATATT
1 AGCTCTCAAGAGCATCCCGATATT
*
56508736 GGCTCTC
1 AGCTCTC
56508743 TTGAGCTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (24 bp):
AGCTCTCAAGAGCATCCCGATATT
Found at i:56508954 original size:24 final size:24
Alignment explanation
Indices: 56508848--56509066 Score: 113
Period size: 25 Copynumber: 8.8 Consensus size: 24
56508838 TGTAGCTCCT
*
56508848 ATGAGCGTCCCGATATATGGCTCTC
1 ATGAGCTTCCCGAT-TATGGCTCTC
** * * * *
56508873 CGGAGCTTCCCAATTAAAGGTTGTTTC
1 ATGAGCTTCCCGATT-ATGG--CTCTC
*
56508900 ATGAGCTTCCTGATTAATGGCTCTC
1 ATGAGCTTCCCGATT-ATGGCTCTC
** *
56508925 CGGAGCTTCCCGA-TAGTGGCTCAC
1 ATGAGCTTCCCGATTA-TGGCTCTC
*
56508949 ATGAGCTTCCCGATTATGGCTCTT
1 ATGAGCTTCCCGATTATGGCTCTC
* *
56508973 ATGAACTTCCCG-TTATACAGCTCAT-
1 ATGAGCTTCCCGATTAT--GGCTC-TC
* **
56508998 ATGAGCTTCCCGTTGTATGGCTCGA
1 ATGAGCTTCCCGAT-TATGGCTCTC
* *
56509023 ATGAGCTTCCTGTTTATGTGCTCGT-
1 ATGAGCTTCCCGATTATG-GCTC-TC
*
56509048 ATGAGCATTCCCGAATATG
1 ATGAGC-TTCCCGATTATG
56509067 AATTGACGGA
Statistics
Matches: 148, Mismatches: 32, Indels: 27
0.71 0.15 0.13
Matches are distributed among these distances:
23 5 0.03
24 41 0.28
25 70 0.47
26 11 0.07
27 21 0.14
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCGATTATGGCTCTC
Found at i:56509020 original size:25 final size:24
Alignment explanation
Indices: 56508927--56509060 Score: 119
Period size: 25 Copynumber: 5.4 Consensus size: 24
56508917 TGGCTCTCCG
* *
56508927 GAGCTTCCCG-ATAGTGGCTCACAT
1 GAGCTTCCCGTTTA-TGGCTCATAT
* *
56508951 GAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGTTTATGGCTCATAT
* **
56508975 GAACTTCCCGTTATACAGCTCATAT
1 GAGCTTCCCGTT-TATGGCTCATAT
56509000 GAGCTTCCCGTTGTATGGCTCGA-AT
1 GAGCTTCCCGTT-TATGGCTC-ATAT
* *
56509025 GAGCTTCCTGTTTATGTGCTCGTAT
1 GAGCTTCCCGTTTATG-GCTCATAT
56509050 GAGCATTCCCG
1 GAGC-TTCCCG
56509061 AATATGAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
24 32 0.36
25 51 0.57
26 6 0.07
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTTATGGCTCATAT
Found at i:56510491 original size:28 final size:28
Alignment explanation
Indices: 56510460--56510616 Score: 126
Period size: 28 Copynumber: 5.6 Consensus size: 28
56510450 TAATTATATG
* *
56510460 TGGCACTTAATGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * *
56510488 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
56510516 TGGCACTTAGTGTGCGAAGTAAT-GAGGA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGA
* ** * *
56510544 TGGCACTTAGTGTGTGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
*
56510572 CGGCACTTAGTGTGC-AAGGTATCG-GGTA
1 TGGCACTTAGTGTGCGAA-GTATCGAGG-A
*
56510600 TGACA-TCTAGTGTGCGA
1 TGGCACT-TAGTGTGCGA
56510617 TACATTGAGT
Statistics
Matches: 100, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
27 7 0.07
28 89 0.89
29 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:56510546 original size:56 final size:56
Alignment explanation
Indices: 56510460--56510621 Score: 197
Period size: 56 Copynumber: 2.9 Consensus size: 56
56510450 TAATTATATG
* * *
56510460 TGGCACTTAATGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
*
56510516 TGGCACTTAGTGTGCGAAGTAAT-GAGGATGGCACTTAGTGTGTGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGT-ATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
* * *
56510572 CGGCACTTAGTGTGC-AAGGTATCG-GGTATGACA-TCTAGTGTGCGATACAT
1 TGGCACTTAGTGTGCGAA-GTATCGAGG-ATGGCACT-TAGTGTGCGAAACAT
56510622 TGAGTATTCA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
55 7 0.08
56 84 0.90
57 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:56510700 original size:32 final size:32
Alignment explanation
Indices: 56510664--56510762 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
56510654 TGAGTATGAG
* *
56510664 ATTGGTACGAGATGATACAGGTATTTACGAAA
1 ATTGGTACAAGATGATACAGGTATGTACGAAA
* * *
56510696 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGATGATACAGGTATGTACGAAA
* **
56510728 ATTGGTACAACAT-AGTACATATATGTACGAAA
1 ATTGGTACAAGATGA-TACAGGTATGTACGAAA
56510760 ATT
1 ATT
56510763 CAATTGAGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATGTACGAAA
Found at i:56514145 original size:23 final size:23
Alignment explanation
Indices: 56514119--56514188 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
56514109 CAAACTACTA
* *
56514119 TGCTATAGAAGCAGACATAATCG
1 TGCTATAAAAGCAGACATAACCG
*
56514142 TGCTATAAAAGTAGACATAACCG
1 TGCTATAAAAGCAGACATAACCG
* *
56514165 TGCCATAAAAGCAGACAAAACCG
1 TGCTATAAAAGCAGACATAACCG
56514188 T
1 T
56514189 TTTAAGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (23 bp):
TGCTATAAAAGCAGACATAACCG
Found at i:56526369 original size:7 final size:7
Alignment explanation
Indices: 56526353--56526385 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
56526343 GACAGAGAGT
56526353 AATC-GC
1 AATCGGC
56526359 AATCGGC
1 AATCGGC
56526366 AATCGGC
1 AATCGGC
56526373 AATCGGC
1 AATCGGC
56526380 AATCGG
1 AATCGG
56526386 TAATTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.15
Consensus pattern (7 bp):
AATCGGC
Found at i:56526727 original size:78 final size:79
Alignment explanation
Indices: 56526589--56526749 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 79
56526579 ATTTTCCTAC
* ** *
56526589 TTTTTCAATTTAAAAATCATAGTCCAATTATTATTGTTGTTAGTAGATTTTTTTAAAATTTATCA
1 TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCATGAGTAGATTTTTTTAAAATTTATCA
* *
56526654 ACTTAATATGTTTA
66 ACTTAACATATTTA
** *
56526668 TTTTT-AATTTAAAAATTTTAGTCCAATCATTATTGTCATCGA-TA-ATTTTTGTTAGAATTTAT
1 TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCAT-GAGTAGATTTTT-TTAAAATTTAT
*
56526730 CAATTTAACATATTTA
64 CAACTTAACATATTTA
56526746 TTTT
1 TTTT
56526750 CCATCAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 6 0.09
78 58 0.83
79 6 0.09
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.52
Consensus pattern (79 bp):
TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCATGAGTAGATTTTTTTAAAATTTATCA
ACTTAACATATTTA
Found at i:56527194 original size:14 final size:14
Alignment explanation
Indices: 56527175--56527226 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
56527165 CATTTAAATG
56527175 ATAATTTTTTTTAC
1 ATAATTTTTTTTAC
* *
56527189 ATAATTTTTTTAAT
1 ATAATTTTTTTTAC
* **
56527203 AAAATTACTTTTAC
1 ATAATTTTTTTTAC
56527217 ATAATTTTTT
1 ATAATTTTTT
56527227 CTCACTTATG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
ATAATTTTTTTTAC
Found at i:56527824 original size:12 final size:12
Alignment explanation
Indices: 56527807--56527832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56527797 AATTTGTTTG
56527807 TTGTTTTAATAT
1 TTGTTTTAATAT
56527819 TTGTTTTAATAT
1 TTGTTTTAATAT
56527831 TT
1 TT
56527833 AAGTGTATTT
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:56535456 original size:16 final size:16
Alignment explanation
Indices: 56535435--56535467 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56535425 ACACCCAATT
56535435 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
56535451 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
56535467 T
1 T
56535468 TACGATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (16 bp):
TGGTGGGGCTCATCAA
Found at i:56537528 original size:23 final size:24
Alignment explanation
Indices: 56537493--56537555 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
56537483 CACTTAGTGC
56537493 CATTCTGGTGTGTTTGGGA-GGAT
1 CATTCTGGTGTGTTTGGGATGGAT
* * *
56537516 TATTTTGGTGTGTTT-AGATGGAT
1 CATTCTGGTGTGTTTGGGATGGAT
56537539 CATTCTGGTGTGTTTGG
1 CATTCTGGTGTGTTTGG
56537556 TTGGAATCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.46
Consensus pattern (24 bp):
CATTCTGGTGTGTTTGGGATGGAT
Done.