Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 106 of 171
Found at i:34241698 original size:13 final size:13
Alignment explanation
Indices: 34241680--34241704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34241670 AGAAACCTGC
34241680 ATTGTAAATAAAT
1 ATTGTAAATAAAT
34241693 ATTGTAAATAAA
1 ATTGTAAATAAA
34241705 GCAAGCTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATTGTAAATAAAT
Found at i:34242547 original size:24 final size:24
Alignment explanation
Indices: 34242496--34242547 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34242486 TTCGTATGTC
*
34242496 AAATAAATTATACTAATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
34242520 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
34242544 AAAT
1 AAAT
34242548 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:34243566 original size:23 final size:23
Alignment explanation
Indices: 34243533--34243695 Score: 135
Period size: 23 Copynumber: 7.3 Consensus size: 23
34243523 GCTGGGCAAT
34243533 AGAGAGCACACAAAGTGCTAAAC
1 AGAGAGCACACAAAGTGCTAAAC
*
34243556 AGAGAGTACACAAA--G-T--AC
1 AGAGAGCACACAAAGTGCTAAAC
* *
34243574 --TGAGCACACAAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAAAC
* * *
34243595 GGAGAGCACACGAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAAAC
* *
34243618 GGAGAGCACACACAGTGCTAATAAC
1 AGAGAGCACACAAAGTGCT-A-AAC
* *
34243643 AGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCAC-ACAAAGTGCTAAAC
* *
34243666 AGAGAGCACACACAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAAAC
34243689 AGAGAGC
1 AGAGAGC
34243696 GCGCTAGTGT
Statistics
Matches: 112, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 76 0.68
24 2 0.02
25 15 0.13
26 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (23 bp):
AGAGAGCACACAAAGTGCTAAAC
Found at i:34243590 original size:39 final size:39
Alignment explanation
Indices: 34243536--34243610 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
34243526 GGGCAATAGA
*
34243536 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* * *
34243575 GAGCACACAAAGTGCTAATCGGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
34243611 GCTAATCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:34243653 original size:46 final size:46
Alignment explanation
Indices: 34243575--34243695 Score: 163
Period size: 48 Copynumber: 2.6 Consensus size: 46
34243565 ACAAAGTACT
* * * * *
34243575 GAGCACACAAAGTGCTAATCGGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GACGTGCTAAACAGA
34243621 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGACGTGCTAAACAGA
34243669 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
34243696 GCGCTAGTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 26 0.39
48 40 0.60
49 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGACGTGCTAAACAGA
Found at i:34247136 original size:16 final size:16
Alignment explanation
Indices: 34247097--34247136 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34247087 TAAACATTCA
*
34247097 TCGATTGAGTCTTAGC
1 TCGATTGGGTCTTAGC
34247113 TCGATTGGGTCTTAGC
1 TCGATTGGGTCTTAGC
*
34247129 TTGATTGG
1 TCGATTGG
34247137 CATAAGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (16 bp):
TCGATTGGGTCTTAGC
Found at i:34248664 original size:58 final size:58
Alignment explanation
Indices: 34248574--34248691 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
34248564 ACTTACAAAT
*
34248574 TTCAGTTTTGAACCTTACAATTGGTAGTAGAGCCTCCCACTTAACATAGCTAGTGGTG
1 TTCAGTTTTGAACCTTACAATTGGTAGTAGAGCCTCCCACTTAACATAGCTAGTGCTG
*
34248632 TTCAGTTTTGAATCTTACAATTGGTAGTAGAGCCTCCCACTTAACATAGCTAGTGCTG
1 TTCAGTTTTGAACCTTACAATTGGTAGTAGAGCCTCCCACTTAACATAGCTAGTGCTG
34248690 TT
1 TT
34248692 TCCTTGTGGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (58 bp):
TTCAGTTTTGAACCTTACAATTGGTAGTAGAGCCTCCCACTTAACATAGCTAGTGCTG
Found at i:34252477 original size:52 final size:50
Alignment explanation
Indices: 34252397--34252605 Score: 265
Period size: 50 Copynumber: 4.1 Consensus size: 50
34252387 AGCTTATATA
* * *
34252397 TATATATGCATTTACGCTCGCCAGCTTCCACACGTTTATGCTTGTCAGCT
1 TATATATGCGTTTACGCTCACCAGCTTCCACACGTTTATGCTCGTCAGCT
* * *
34252447 TATTTATATGCGTTTATGCTAACCAGCTTCCACACGTCTATGCTCGTCAGCT
1 TA--TATATGCGTTTACGCTCACCAGCTTCCACACGTTTATGCTCGTCAGCT
* * * * * *
34252499 TATATATGTGTTTACGTTTACTAGCTTGCACACGTTTACGCTCGTCAGCT
1 TATATATGCGTTTACGCTCACCAGCTTCCACACGTTTATGCTCGTCAGCT
* * *
34252549 TATATATGCGTTTACGCTCTCCAGCTTGCACACATTTATGCTCGTCAGCT
1 TATATATGCGTTTACGCTCACCAGCTTCCACACGTTTATGCTCGTCAGCT
34252599 TATATAT
1 TATATAT
34252606 ATGTTTATGC
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
50 92 0.68
52 44 0.32
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (50 bp):
TATATATGCGTTTACGCTCACCAGCTTCCACACGTTTATGCTCGTCAGCT
Found at i:34252562 original size:26 final size:25
Alignment explanation
Indices: 34252531--34252629 Score: 94
Period size: 26 Copynumber: 3.9 Consensus size: 25
34252521 AGCTTGCACA
34252531 CGTTTACGCTCGTCAGCTTATATAT
1 CGTTTACGCTCGTCAGCTTATATAT
** *
34252556 GCGTTTACGCTC-TCCAGCTTGCACA-
1 -CGTTTACGCTCGT-CAGCTTATATAT
* *
34252581 CATTTATGCTCGTCAGCTTATATAT
1 CGTTTACGCTCGTCAGCTTATATAT
* *
34252606 ATGTTTATGCTCGTCAGCTTATAT
1 -CGTTTACGCTCGTCAGCTTATAT
34252630 TTTACGCTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 17 0.29
25 2 0.03
26 40 0.68
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.39
Consensus pattern (25 bp):
CGTTTACGCTCGTCAGCTTATATAT
Found at i:34252638 original size:21 final size:22
Alignment explanation
Indices: 34252532--34252646 Score: 63
Period size: 26 Copynumber: 4.8 Consensus size: 22
34252522 GCTTGCACAC
34252532 GTTTACGCTCGTCAGCTTATATAT
1 GTTTACGCTCGTCAGC-T-TATAT
* *
34252556 GCGTTTACGCTC-TCCAGCTTGCACAC
1 --GTTTACGCTCGT-CAGCTT--ATAT
* *
34252582 ATTTATGCTCGTCAGCTTATATATAT
1 GTTTACGCTCGTCAGC---T-TATAT
*
34252608 GTTTATGCTCGTCAGCTTATAT
1 GTTTACGCTCGTCAGCTTATAT
*
34252630 -TTTACGCTCTTCAGCTT
1 GTTTACGCTCGTCAGCTT
34252647 GCACACATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
21 15 0.21
22 5 0.07
23 1 0.01
24 13 0.18
25 3 0.04
26 33 0.46
27 1 0.01
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (22 bp):
GTTTACGCTCGTCAGCTTATAT
Found at i:34252651 original size:71 final size:74
Alignment explanation
Indices: 34252532--34252676 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 74
34252522 GCTTGCACAC
* * *
34252532 GTTTACGCTCGTCAGCTTATATATGCGTTTACGCTCTCCAGCTTGCACACATTTATGCTCGTCAG
1 GTTTACGCTCGTCAGCTTATATAT--GTTTACGCTCTCCAGCTTGCACACATTTACGCTCGACAA
34252597 CTTATATATAT
64 CTTATATATAT
* *
34252608 GTTTATGCTCGTCAGC-T-TATAT-TTTACGCTCTTCAGCTTGCACACATTTACGCTCGACAACT
1 GTTTACGCTCGTCAGCTTATATATGTTTACGCTCTCCAGCTTGCACACATTTACGCTCGACAACT
34252670 TATATAT
66 TATATAT
34252677 GTGATTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
71 43 0.67
74 5 0.08
75 1 0.02
76 15 0.23
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (74 bp):
GTTTACGCTCGTCAGCTTATATATGTTTACGCTCTCCAGCTTGCACACATTTACGCTCGACAACT
TATATATAT
Found at i:34258029 original size:50 final size:50
Alignment explanation
Indices: 34257947--34258138 Score: 180
Period size: 50 Copynumber: 3.9 Consensus size: 50
34257937 ACCAGCTTTC
* * **
34257947 ATACGTTTACGCTCGCCAATTTGCACACGTTTACGCTCGTCGGCTATATAT
1 ATACGTTTACACTCGCCAACTTGCACACGTTTACGCTCGTCAACT-TATAT
* * * *
34257998 ATACGTTTACACT-GCCACCTTGCACATGTTTACGCTCGCCATCTTATAT
1 ATACGTTTACACTCGCCAACTTGCACACGTTTACGCTCGTCAACTTATAT
* * * *
34258047 ATATGTGTT-TA--CG-C-TCTTGCACACGTTTACGCTCATCAACTTATAT
1 ATACGT-TTACACTCGCCAACTTGCACACGTTTACGCTCGTCAACTTATAT
** * *
34258093 ATGTGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAACTT
1 ATACGTTTACACTCGCCAACTTGCACACGTTTACGCTCGTCAACTT
34258139 GCACACATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.02
46 32 0.28
47 1 0.01
48 3 0.03
49 12 0.10
50 53 0.46
51 12 0.10
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (50 bp):
ATACGTTTACACTCGCCAACTTGCACACGTTTACGCTCGTCAACTTATAT
Found at i:34258075 original size:46 final size:44
Alignment explanation
Indices: 34258016--34258106 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 44
34258006 ACACTGCCAC
* * *
34258016 CTTGCACATGTTTACGCTCGCCATCTTATATATATGTGTTTACGCT
1 CTTGCACACGTTTACGCTCACCAAC-T-TATATATGTGTTTACGCT
*
34258062 CTTGCACACGTTTACGCTCATCAACTTATATATGTGTTTACGCT
1 CTTGCACACGTTTACGCTCACCAACTTATATATGTGTTTACGCT
34258106 C
1 C
34258107 GCCAGCTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 19 0.46
45 1 0.02
46 21 0.51
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (44 bp):
CTTGCACACGTTTACGCTCACCAACTTATATATGTGTTTACGCT
Found at i:34258156 original size:24 final size:24
Alignment explanation
Indices: 34258098--34258156 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
34258088 TATATATGTG
* * *
34258098 TTTACGCTCGCCAGCTTGCACACG
1 TTTACGCTCGTCAACTTGCACACA
34258122 TTTACGCTCGTCAACTTGCACACA
1 TTTACGCTCGTCAACTTGCACACA
*
34258146 TTTATGCTCGT
1 TTTACGCTCGT
34258157 TAGCTTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (24 bp):
TTTACGCTCGTCAACTTGCACACA
Found at i:34260058 original size:20 final size:22
Alignment explanation
Indices: 34260023--34260062 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
34260013 CAGCAAATGA
34260023 TTTTAAAATTATTAAAATTAGT
1 TTTTAAAATTATTAAAATTAGT
34260045 TTTTAAAA-TA-TAAAATTA
1 TTTTAAAATTATTAAAATTA
34260063 TTAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
TTTTAAAATTATTAAAATTAGT
Found at i:34260058 original size:29 final size:31
Alignment explanation
Indices: 34260026--34260098 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
34260016 CAAATGATTT
34260026 TAAAATTATTAAAATTA-GTTTTTAAAAT-A
1 TAAAATTATTAAAATTATGTTTTTAAAATAA
* *
34260055 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATGTTTTTAAAATAA
34260086 TAAAATTATTAAA
1 TAAAATTATTAAA
34260099 TAATTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 17 0.43
30 9 0.22
31 14 0.35
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TAAAATTATTAAAATTATGTTTTTAAAATAA
Found at i:34260105 original size:30 final size:29
Alignment explanation
Indices: 34260026--34260105 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
34260016 CAAATGATTT
34260026 TAAAATTATT-AA-AATTAGTTTTTAAAATA
1 TAAAATTATTAAATAATT--TTTTTAAAATA
* *
34260055 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
34260086 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
34260106 AATTTCTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.23
30 18 0.41
31 13 0.30
32 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:34261074 original size:6 final size:6
Alignment explanation
Indices: 34261066--34261106 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
34261056 GAAGAATGGG
* *
34261066 AAGGGG AAGGGG AAGGGA AAGGGA AAGGGA AAGGGA AAGGG
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGG
34261107 GAACAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:34261205 original size:13 final size:13
Alignment explanation
Indices: 34261160--34261207 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
34261150 ATAATTTTTT
*
34261160 ATTTTTAAAAATA
1 ATTTTAAAAAATA
*
34261173 ATTTAAAAAAATTA
1 ATTTTAAAAAA-TA
34261187 TATTTTAAAAAATA
1 -ATTTTAAAAAATA
34261201 ATTTTAA
1 ATTTTAA
34261208 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:34265023 original size:21 final size:20
Alignment explanation
Indices: 34264985--34265028 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
34264975 TTTCGAATCG
34264985 AGTCGAGTGAAATAAAATTCA
1 AGTCGAGTGAAATAAAATT-A
*
34265006 AGTCGAGTCG-AATCAAATTA
1 AGTCGAGT-GAAATAAAATTA
34265026 AGT
1 AGT
34265029 GAAGTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 16 0.76
22 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTCGAGTGAAATAAAATTA
Found at i:34265128 original size:15 final size:16
Alignment explanation
Indices: 34265108--34265137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34265098 CATGTTAGAG
34265108 CATATA-ATTTGAAAC
1 CATATATATTTGAAAC
34265123 CATATATATTTGAAA
1 CATATATATTTGAAA
34265138 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (16 bp):
CATATATATTTGAAAC
Found at i:34265252 original size:9 final size:9
Alignment explanation
Indices: 34265231--34265294 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
34265221 TTTAGAAAAA
34265231 TTTTAAA-T
1 TTTTAAATT
*
34265239 TTTTAACTT
1 TTTTAAATT
34265248 TTTTATATATT
1 TTTTA-A-ATT
34265259 TTTTAGAATT
1 TTTTA-AATT
34265269 TTTTAAACTT
1 TTTTAAA-TT
* *
34265279 TTATAATTT
1 TTTTAAATT
34265288 TTTTAAA
1 TTTTAAA
34265295 ATATAAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.13
9 15 0.33
10 16 0.36
11 8 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTAAATT
Found at i:34265291 original size:29 final size:28
Alignment explanation
Indices: 34265231--34265294 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
34265221 TTTAGAAAAA
*
34265231 TTTTAAATTTTTAACTTTTTTATATATT
1 TTTTAAATTTTTAACTTTTATATATATT
34265259 TTTTAGAATTTTTTAAACTTTTATA-AT-TT
1 TTTTA-AA-TTTTT-AACTTTTATATATATT
34265288 TTTTAAA
1 TTTTAAA
34265295 ATATAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 7 0.22
29 9 0.28
30 7 0.22
31 9 0.28
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTAAATTTTTAACTTTTATATATATT
Found at i:34267437 original size:10 final size:10
Alignment explanation
Indices: 34267422--34267486 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
34267412 ATTCTAGAAA
34267422 TTTTTAAATT
1 TTTTTAAATT
*
34267432 TTTTTAACTT
1 TTTTTAAATT
* * *
34267442 TCTTTATATA
1 TTTTTAAATT
*
34267452 TTTTTAGATTT
1 TTTTTA-AATT
34267463 TTTTTGAAATT
1 TTTTT-AAATT
*
34267474 TTTAT-AATT
1 TTTTTAAATT
34267483 TTTT
1 TTTT
34267487 AATATATATA
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
9 7 0.17
10 20 0.49
11 13 0.32
12 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:34271374 original size:20 final size:20
Alignment explanation
Indices: 34271340--34271415 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
34271330 GTATCATAGA
34271340 TGCAAGACA-GGGCACCAAAG
1 TGCAA-ACAGGGGCACCAAAG
* * * *
34271360 TGTAAATAGGGGCACGAATTG
1 TGCAAACAGGGGCACCAA-AG
*
34271381 TGCAAACAGGAGCACCAAAG
1 TGCAAACAGGGGCACCAAAG
*
34271401 TGCAAACAAGGGCAC
1 TGCAAACAGGGGCAC
34271416 TTCTTCATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 2 0.05
20 26 0.60
21 15 0.35
ACGTcount: A:0.39, C:0.21, G:0.29, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACCAAAG
Found at i:34278985 original size:40 final size:40
Alignment explanation
Indices: 34278927--34279060 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
34278917 AAGAGTTTGT
34278927 GCCCAGCGT-TAGTCGGATAAACTGACAATATAAAATGTGA
1 GCCCAGC-TCTAGTCGGATAAACTGACAATATAAAATGTGA
* * * * *
34278967 GCCCAGCTCTAGTTGGATATA-T--CAACA-AATAT-TGC
1 GCCCAGCTCTAGTCGGATAAACTGACAATATAAAATGTGA
* *
34279002 GCCCAGCGCTAGTCGGATAAACCGACAATATAAAATGTGA
1 GCCCAGCTCTAGTCGGATAAACTGACAATATAAAATGTGA
*
34279042 GCCCAGCTCTAGTTGGATA
1 GCCCAGCTCTAGTCGGATA
34279061 TACCAACAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
35 20 0.27
36 4 0.05
37 4 0.05
38 4 0.05
39 6 0.08
40 36 0.49
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCCAGCTCTAGTCGGATAAACTGACAATATAAAATGTGA
Found at i:34279014 original size:35 final size:35
Alignment explanation
Indices: 34278967--34279089 Score: 138
Period size: 35 Copynumber: 3.4 Consensus size: 35
34278957 TAAAATGTGA
* *
34278967 GCCCAGCTCTAGTTGGATATATCAACAAATATTGC
1 GCCCAGCGCTAGTTGGATATACCAACAAATATTGC
* * * *
34279002 GCCCAGCGCTAGTCGGATAAACCGACAATATAAAATGTGA
1 GCCCAGCGCTAGTTGGATATACCAACAA-AT---AT-TGC
*
34279042 GCCCAGCTCTAGTTGGATATACCAACAAATATTGC
1 GCCCAGCGCTAGTTGGATATACCAACAAATATTGC
34279077 GCCCAGCGCTAGT
1 GCCCAGCGCTAGT
34279090 CAGATAAACT
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
35 37 0.52
36 4 0.06
39 4 0.06
40 26 0.37
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (35 bp):
GCCCAGCGCTAGTTGGATATACCAACAAATATTGC
Found at i:34279018 original size:75 final size:75
Alignment explanation
Indices: 34278927--34279252 Score: 360
Period size: 75 Copynumber: 4.4 Consensus size: 75
34278917 AAGAGTTTGT
* *
34278927 GCCCAGCGTTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATATCAA
1 GCCCAGCGCTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
34278992 CAAATATTGC
66 CAAATATTGC
*
34279002 GCCCAGCGCTAGTCGGATAAACCGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
1 GCCCAGCGCTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
34279067 CAAATATTGC
66 CAAATATTGC
* * ** * ** *** * **
34279077 GCCCAGCGCTAGTCAGATAAACTGACAA-GT----TGTTTGCCTAGCAGTAGTCAAATAAACTGA
1 GCCCAGCGCTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
* **
34279137 CAGAGGTTGC
66 CAAATATTGC
* * * *
34279147 GCCCAGCGCTAGTCGGATAAACCGACAATATAAAATATGAGCTCAGCTCTAGTTGGATAAACCAA
1 GCCCAGCGCTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
* *
34279212 C-GATGTTGC
66 CAAATATTGC
*
34279221 GCACAGCGCTAGTCGGAT-AACTGACGAATATA
1 GCCCAGCGCTAGTCGGATAAACTGAC-AATATA
34279253 TTTTTTTATT
Statistics
Matches: 207, Mismatches: 38, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
70 52 0.25
71 1 0.00
73 6 0.03
74 31 0.15
75 117 0.57
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (75 bp):
GCCCAGCGCTAGTCGGATAAACTGACAATATAAAATGTGAGCCCAGCTCTAGTTGGATATACCAA
CAAATATTGC
Found at i:34279160 original size:35 final size:33
Alignment explanation
Indices: 34279073--34279174 Score: 98
Period size: 35 Copynumber: 3.0 Consensus size: 33
34279063 CCAACAAATA
*
34279073 TTGCGCCCAGCGCTAGTCAGATAAACTGACAAG
1 TTGCGCCCAGCGCTAGTCAAATAAACTGACAAG
* *
34279106 TTGTTTGCCTAGCAG-TAGTCAAATAAACTGACAGAGG
1 TTG--CGCCCAGC-GCTAGTCAAATAAACTGACA-A-G
** *
34279143 TTGCGCCCAGCGCTAGTCGGATAAACCGACAA
1 TTGCGCCCAGCGCTAGTCAAATAAACTGACAA
34279175 TATAAAATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
33 3 0.05
34 2 0.04
35 44 0.80
36 2 0.04
37 4 0.07
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (33 bp):
TTGCGCCCAGCGCTAGTCAAATAAACTGACAAG
Found at i:34285154 original size:25 final size:25
Alignment explanation
Indices: 34285114--34285323 Score: 219
Period size: 25 Copynumber: 8.3 Consensus size: 25
34285104 ATGAGACAGT
34285114 CAGAATAT-GCTCTTACGAGCCAAA
1 CAGAATATCGCTCTTACGAGCCAAA
34285138 CAGAATATCGCTCTTACGAGCCAAA
1 CAGAATATCGCTCTTACGAGCCAAA
* * *
34285163 TAGAATATCGCTCCTACGAGCCAAT
1 CAGAATATCGCTCTTACGAGCCAAA
* **
34285188 CAGAATATTGCTCTTACGAGCCAGT
1 CAGAATATCGCTCTTACGAGCCAAA
* * *
34285213 CAAAATATCGATCTTACGAGCCAGA
1 CAGAATATCGCTCTTACGAGCCAAA
* * *
34285238 CAGAATATTGCTCTTGCGAGCCAGA
1 CAGAATATCGCTCTTACGAGCCAAA
* *
34285263 CAGAATATCGCTCTTTCAAGCCAAAA
1 CAGAATATCGCTCTTACGAGCC-AAA
34285289 TCAGAATAAT-GCTCCTT-CGAGCCAAAA
1 -CAGAAT-ATCGCT-CTTACGAGCC-AAA
34285316 TCAGAATA
1 -CAGAATA
34285324 AGGTTCCTTC
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.05
25 120 0.75
26 3 0.02
27 25 0.16
28 5 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (25 bp):
CAGAATATCGCTCTTACGAGCCAAA
Found at i:34285302 original size:27 final size:27
Alignment explanation
Indices: 34285113--34285347 Score: 118
Period size: 25 Copynumber: 9.2 Consensus size: 27
34285103 TATGAGACAG
34285113 TCAGAAT-ATGCT-CTTACGAGCC-AAA
1 TCAGAATAATGCTCCTT-CGAGCCAAAA
34285138 -CAGAAT-ATCGCT-CTTACGAGCC-AAA
1 TCAGAATAAT-GCTCCTT-CGAGCCAAAA
*
34285163 T-AGAAT-ATCGCTCCTACGAGCC--AA
1 TCAGAATAAT-GCTCCTTCGAGCCAAAA
* *
34285187 TCAGAATATTGCT-CTTACGAGCC--AG
1 TCAGAATAATGCTCCTT-CGAGCCAAAA
* * *
34285212 TCAAAAT-ATCGAT-CTTACGAGCC-AGA
1 TCAGAATAAT-GCTCCTT-CGAGCCAAAA
* *
34285238 -CAGAATATTGCT-CTTGCGAGCC-AGA
1 TCAGAATAATGCTCCTT-CGAGCCAAAA
* *
34285263 -CAGAAT-ATCGCTCTTTCAAGCCAAAA
1 TCAGAATAAT-GCTCCTTCGAGCCAAAA
34285289 TCAGAATAATGCTCCTTCGAGCCAAAA
1 TCAGAATAATGCTCCTTCGAGCCAAAA
* * *
34285316 TCAGAATAAGGTTCCTTCGAGCCAGAA
1 TCAGAATAATGCTCCTTCGAGCCAAAA
34285343 TCAGA
1 TCAGA
34285348 TTACTCCTCA
Statistics
Matches: 174, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
24 15 0.09
25 99 0.57
26 8 0.05
27 50 0.29
28 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (27 bp):
TCAGAATAATGCTCCTTCGAGCCAAAA
Found at i:34285836 original size:13 final size:13
Alignment explanation
Indices: 34285820--34285847 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34285810 TACTTTACAA
34285820 AATAATCAAATCT
1 AATAATCAAATCT
34285833 AATAATCAAATCT
1 AATAATCAAATCT
34285846 AA
1 AA
34285848 CAACCAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATCAAATCT
Found at i:34288758 original size:37 final size:35
Alignment explanation
Indices: 34288695--34288770 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 35
34288685 ATTCCAAAAA
34288695 TAATATTATTTTAATAATTTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAATTT-ATATT-AATTTAATAT
34288731 TAATACTTATTTTAATAGTATTT-TATTAATTTAATAT
1 TAATA-TTATTTTAATA--ATTTATATTAATTTAATAT
34288768 TAA
1 TAA
34288771 AGTGATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
36 13 0.36
37 19 0.53
39 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (35 bp):
TAATATTATTTTAATAATTTATATTAATTTAATAT
Found at i:34288768 original size:11 final size:11
Alignment explanation
Indices: 34288695--34288770 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
34288685 ATTCCAAAAA
*
34288695 TAATATTATTT
1 TAATATTAATT
34288706 TAATAATTTAATAT
1 TAAT-A-TTAAT-T
34288720 TAA-ATTTAATT
1 TAATA-TTAATT
*
34288731 TAATACTTATTT
1 TAATA-TTAATT
*
34288743 TAATAGT-ATT
1 TAATATTAATT
34288753 T--TATTAATT
1 TAATATTAATT
34288762 TAATATTAA
1 TAATATTAA
34288771 AGTGATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 15 0.29
12 19 0.37
13 4 0.08
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:34288778 original size:20 final size:18
Alignment explanation
Indices: 34288696--34288802 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 18
34288686 TTCCAAAAAT
* *
34288696 AATATTATTTTAATAATTT
1 AATATTAATTTAAT-ATTA
34288715 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
34288732 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
34288751 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
34288770 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
34288790 AAT-TTAATTTAAT
1 AATATTAATTTAAT
34288803 GTTTATCTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
17 18 0.26
18 7 0.10
19 22 0.31
20 23 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:34293051 original size:22 final size:23
Alignment explanation
Indices: 34293007--34293051 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
34292997 CTTGTACTTT
* *
34293007 TATTTTTAGCAATTTATAGTTTC
1 TATTTTTAGCAATTTAAAATTTC
*
34293030 TATTTTTCG-AATTTAAAATTTC
1 TATTTTTAGCAATTTAAAATTTC
34293052 AAATCTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (23 bp):
TATTTTTAGCAATTTAAAATTTC
Found at i:34293838 original size:25 final size:26
Alignment explanation
Indices: 34293800--34293848 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
34293790 GTGGGGGGAT
34293800 TTTTATTTTATTTAATATTAATATGA
1 TTTTATTTTATTTAATATTAATATGA
*
34293826 TTTTA-TTTATTTAATTTTAATAT
1 TTTTATTTTATTTAATATTAATAT
34293849 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTATTTTATTTAATATTAATATGA
Found at i:34293966 original size:20 final size:19
Alignment explanation
Indices: 34293931--34293968 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
34293921 TGTTAATAAT
34293931 AATTTTTATATAATTTTTA
1 AATTTTTATATAATTTTTA
34293950 AATTTATTAT-TATATTTTT
1 AATTT-TTATATA-ATTTTT
34293969 TGAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTTTTATATAATTTTTA
Found at i:34295376 original size:20 final size:21
Alignment explanation
Indices: 34295330--34295369 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
34295320 AATCAATTTC
34295330 AAATATAAAATATTTATTACT
1 AAATATAAAATATTTATTACT
34295351 AAATAT-AAATATTTATTAC
1 AAATATAAAATATTTATTAC
34295370 ATTATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATAAAATATTTATTACT
Found at i:34302064 original size:21 final size:22
Alignment explanation
Indices: 34302039--34302080 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34302029 ATAAAATATG
*
34302039 TATTATTT-ATTTTAATAATTT
1 TATTATTTAATTTTAAAAATTT
34302060 TATTATTTAATTTTAAAAATT
1 TATTATTTAATTTTAAAAATT
34302081 GATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTAATTTTAAAAATTT
Found at i:34306996 original size:39 final size:39
Alignment explanation
Indices: 34306942--34307019 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
34306932 ACATTTATTA
*
34306942 TATGGACTTTTTCTTTTGGTGCACGCTTGTGTGTGTAGT
1 TATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGT
34306981 TATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGT
1 TATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGT
34307020 CATTGGCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.12, C:0.13, G:0.28, T:0.47
Consensus pattern (39 bp):
TATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGT
Found at i:34307037 original size:41 final size:39
Alignment explanation
Indices: 34306943--34307031 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
34306933 CATTTATTAT
* *
34306943 ATGGACTTTTTCTTTTGGTGCACGCTTGTGTGTGTAGTT
1 ATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGTC
34306982 ATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGTC
1 ATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGTC
34307021 ATTGG-CTTTTT
1 A-TGGACTTTTT
34307032 ATCTTTCCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 44 0.94
40 3 0.06
ACGTcount: A:0.11, C:0.13, G:0.27, T:0.48
Consensus pattern (39 bp):
ATGGACTTTTTCTTTTGGTGCACGCATGTGTGTGTAGTC
Found at i:34315508 original size:105 final size:105
Alignment explanation
Indices: 34315277--34315496 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 105
34315267 TACACATGCC
* * * * *
34315277 TGACACATGGGCCATCACACGGGCGTGTGCCCTAAGGAAAATAGGTATAGGGGACATACTGGCTA
1 TGACACACGGGCCAGCACACGGGCGTGTGCCCTAAGGAAAATAGGGATAAGGGACACACTGGCTA
* * *
34315342 TACACGAGCTGAGACATGGCTGTGTGACCTTATTTCGAGT
66 TACACGAGCTGAGACACGGCTGTGTGACCCTATTTAGAGT
* * *
34315382 TGACACACGGGCCAGCACACGGGGGTGTGCCCTGAGGAAAATAGGGGTAAGGGACACAC-GAGCT
1 TGACACACGGGCCAGCACACGGGCGTGTGCCCTAAGGAAAATAGGGATAAGGGACACACTG-GCT
* * * *
34315446 ATACACGGGTTGGGACACGATCATGTG-G-CCCTATTTAGAGT
65 ATACACGAGCTGAGACACG-GC-TGTGTGACCCTATTTAGAGT
34315487 TGACACACGG
1 TGACACACGG
34315497 TTTAGCCCAC
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
104 1 0.01
105 90 0.93
106 2 0.02
107 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.20
Consensus pattern (105 bp):
TGACACACGGGCCAGCACACGGGCGTGTGCCCTAAGGAAAATAGGGATAAGGGACACACTGGCTA
TACACGAGCTGAGACACGGCTGTGTGACCCTATTTAGAGT
Found at i:34322596 original size:29 final size:29
Alignment explanation
Indices: 34322562--34322623 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
34322552 GCTTGCTGAG
**
34322562 TGTTATAAGTTGGCATATATGCATAGAAA
1 TGTTATAACATGGCATATATGCATAGAAA
* **
34322591 TGTTATGACATGTTATATATGCATAGAAA
1 TGTTATAACATGGCATATATGCATAGAAA
34322620 TGTT
1 TGTT
34322624 TACATGTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (29 bp):
TGTTATAACATGGCATATATGCATAGAAA
Found at i:34322628 original size:27 final size:29
Alignment explanation
Indices: 34322576--34322632 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
34322566 ATAAGTTGGC
34322576 ATATATGCATAGAAATGTTATGACATGTT
1 ATATATGCATAGAAATGTTATGACATGTT
34322605 ATATATGCATAGAAATGTT-T-ACATGTT
1 ATATATGCATAGAAATGTTATGACATGTT
34322632 A
1 A
34322633 ACTCATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 8 0.29
28 1 0.04
29 19 0.68
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (29 bp):
ATATATGCATAGAAATGTTATGACATGTT
Found at i:34325952 original size:16 final size:16
Alignment explanation
Indices: 34325931--34325961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34325921 AACAAATATT
*
34325931 ATATTTTGAATAAAAA
1 ATATTTTAAATAAAAA
34325947 ATATTTTAAATAAAA
1 ATATTTTAAATAAAA
34325962 TTTGGCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATTTTAAATAAAAA
Found at i:34328934 original size:18 final size:18
Alignment explanation
Indices: 34328911--34328945 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34328901 AGGTAGACGA
*
34328911 AAACGTGCCATAAGGAAG
1 AAACGTGCCACAAGGAAG
34328929 AAACGTGCCACAAGGAA
1 AAACGTGCCACAAGGAA
34328946 AAGGAAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.20, G:0.26, T:0.09
Consensus pattern (18 bp):
AAACGTGCCACAAGGAAG
Found at i:34334133 original size:175 final size:175
Alignment explanation
Indices: 34333820--34334169 Score: 513
Period size: 175 Copynumber: 2.0 Consensus size: 175
34333810 TTCTTTTCCT
**
34333820 TTTGTAGATCCACTTACACACTATGGGTTTTATCCCTTTTGGTAAATCTACAAGTTCTCACACTG
1 TTTGTAGATCCACTTACACACTATGGGTTTTATCCCTTTCAGTAAATCTACAAGTTCTCACACTG
* * *
34333885 AGTTGGAATACATAGAGTCCATCTTAGTTTTCATAGCTATTTCCAAGAGCTTAGAATTAGTACTA
66 AGTTGGAATACATAGAGTCCATCTCAGTTTTCATACCTATTTCCAAGAGCTTAGAATTAGCACTA
* * * *
34333950 TACATCTTTTTTTCATACGTGAATGGGTCATCTTCCTGTTTGGCA
131 TACATCTTTTTGTCATACGTGAATAGGCCATCTTCCTATTTGGCA
* * ** * * *
34333995 TTTGTATATCCAGTTACACTTTATGGGTTTTATCCCTTTCAGTAAGTTTACAAGTTCTCACATTG
1 TTTGTAGATCCACTTACACACTATGGGTTTTATCCCTTTCAGTAAATCTACAAGTTCTCACACTG
*
34334060 AGTTGGAATACATAGAGTCCATCTCAGTTTTCATACCTATTTTCCAA-AGCTTGGAATTAGCACT
66 AGTTGGAATACATAGAGTCCATCTCAGTTTTCATACCTA-TTTCCAAGAGCTTAGAATTAGCACT
* *
34334124 ATGCATCTTTTTGTCATACGTGAGTAGGCCATCTTCCTATTTGGCA
130 ATACATCTTTTTGTCATACGTGAATAGGCCATCTTCCTATTTGGCA
34334170 GACTCGGTGT
Statistics
Matches: 155, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 148 0.95
176 7 0.05
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (175 bp):
TTTGTAGATCCACTTACACACTATGGGTTTTATCCCTTTCAGTAAATCTACAAGTTCTCACACTG
AGTTGGAATACATAGAGTCCATCTCAGTTTTCATACCTATTTCCAAGAGCTTAGAATTAGCACTA
TACATCTTTTTGTCATACGTGAATAGGCCATCTTCCTATTTGGCA
Found at i:34337100 original size:43 final size:42
Alignment explanation
Indices: 34336992--34337107 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
34336982 AGAACATGAC
** *
34336992 CTTTAGCGGCGCTTACCCATAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCTTTTCCACAAGCGCCGCTGAAGGCCATGTT
** *
34337034 CTTTAGCGGCGCAGGATT-AACAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGC--TTTTCCACAAGCGCCGCTGAAGGCCATGTT
34337077 CTTTAGCGGCGCTTTTTCCACAAGCGCCGCT
1 CTTTAGCGGCGC-TTTTCCACAAGCGCCGCT
34337108 AATATAACAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 14 0.23
43 47 0.77
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCACAAGCGCCGCTGAAGGCCATGTT
Found at i:34337432 original size:21 final size:21
Alignment explanation
Indices: 34337419--34337460 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34337409 TGCTTCCTTT
34337419 GCTTGCCTCGCTGCTACCTCC
1 GCTTGCCTCGCTGCTACCTCC
*
34337440 GCTTGCCTCGCTGCTGCCTCC
1 GCTTGCCTCGCTGCTACCTCC
34337461 ACTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.48, G:0.21, T:0.29
Consensus pattern (21 bp):
GCTTGCCTCGCTGCTACCTCC
Found at i:34337562 original size:66 final size:66
Alignment explanation
Indices: 34337456--34337603 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 66
34337446 CTCGCTGCTG
* *
34337456 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
34337521 A
66 A
* * **
34337522 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
*
34337586 AG
65 AA
34337588 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
34337604 AGCAATTTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 1 0.01
66 72 0.99
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:34343077 original size:49 final size:49
Alignment explanation
Indices: 34343020--34343773 Score: 640
Period size: 49 Copynumber: 14.6 Consensus size: 49
34343010 TTTAATATAA
* *
34343020 TTAA-ATAATTAGTTACTTTAATATCATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
** *
34343068 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-AATTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* *
34343116 TTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
34343165 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
34343214 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * * *
34343277 TTAATATAATAATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * *
34343326 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* *
34343374 TTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
34343423 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * *
34343472 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAC
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * *
34343535 TTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* ** * *
34343583 TTAATATAATCATAAAATTTAATATCATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * *
34343632 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAC
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * *
34343695 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
34343744 TTAATATAATTATTTAATTTAATATAATTA
1 TTAATATAATTATTTACTTTAATATAATTA
34343774 TTTACTTTAA
Statistics
Matches: 580, Mismatches: 74, Indels: 103
0.77 0.10 0.14
Matches are distributed among these distances:
48 129 0.22
49 218 0.38
50 12 0.02
51 2 0.00
52 16 0.03
53 6 0.01
54 42 0.07
55 14 0.02
56 24 0.04
57 18 0.03
58 44 0.08
59 6 0.01
60 20 0.03
62 12 0.02
63 17 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (49 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:34343190 original size:97 final size:98
Alignment explanation
Indices: 34343020--34343475 Score: 524
Period size: 97 Copynumber: 4.5 Consensus size: 98
34343010 TTTAATATAA
* *
34343020 TTAA-ATAATTAGTTACTTTAATATCATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
**
34343084 CTTTAATATAATTAAATAATTAAAT-AATTAAT
66 CTTTAATATAATTAAATAATTAAATCTTTTAAT
* * *
34343116 TTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
34343181 CTTTAATATAATTAAATAATTAAATCTTTTAACT
66 CTTTAATATAATTAAATAATTAAATCTTTTAA-T
* * * * * * *
34343215 TAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAATTT
1 TTAATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAACTT
* * * *
34343279 AATATAATAATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
52 AATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAT
* * *
34343326 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
* * *
34343390 CTTTAGTATAATTAAATGATTAAATCTTTTAAC
66 CTTTAATATAATTAAATAATTAAATCTTTTAAT
*
34343423 TTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAA
34343476 ATATTTAATT
Statistics
Matches: 303, Mismatches: 38, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
96 4 0.01
97 166 0.55
98 13 0.04
99 6 0.02
100 2 0.01
101 5 0.02
102 2 0.01
103 14 0.05
104 4 0.01
105 7 0.02
106 5 0.02
107 14 0.05
108 2 0.01
109 6 0.02
111 5 0.02
112 48 0.16
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (98 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
CTTTAATATAATTAAATAATTAAATCTTTTAAT
Found at i:34343367 original size:18 final size:18
Alignment explanation
Indices: 34343068--34345042 Score: 343
Period size: 18 Copynumber: 113.3 Consensus size: 18
34343058 ATCTTTTAAC
** *
34343068 TTAATATAATTATTTACT
1 TTAATATAATTAAATAAT
34343086 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34343103 TTAA-ATAA-T---TAAT
1 TTAATATAATTAAATAAT
** *
34343116 TTAATATAATTATTTACT
1 TTAATATAATTAAATAAT
* *
34343134 TTAGTATAATTAAATGA-
1 TTAATATAATTAAATAAT
* * *
34343151 TTAA-AT-CTT--TTAAC
1 TTAATATAATTAAATAAT
* ** *
34343165 TTAATATAATCATTTACT
1 TTAATATAATTAAATAAT
34343183 TTAATATAATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34343201 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34343222 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34343238 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34343256 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
* *
34343277 TTAATATAA-TAATTTAGT
1 TTAATATAATTAA-ATAAT
34343295 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34343312 TT-ATAT-CTT--TTAAA
1 TTAATATAATTAAATAAT
* ** *
34343326 TTAATATACTTATTTACT
1 TTAATATAATTAAATAAT
34343344 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34343361 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
** *
34343374 TTAATATAATTATTTACT
1 TTAATATAATTAAATAAT
* *
34343392 TTAGTATAATTAAATGA-
1 TTAATATAATTAAATAAT
* * *
34343409 TTAA-AT-CTT--TTAAC
1 TTAATATAATTAAATAAT
* ** *
34343423 TTAATATAATCATTTACT
1 TTAATATAATTAAATAAT
34343441 TTAATATAATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34343459 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34343480 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34343496 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* * *
34343514 AATTAAACATGATTAAATAAC
1 --TT-AATATAATTAAATAAT
** *
34343535 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34343553 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34343570 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
*
34343583 TTAATATAATCATAA-AAT
1 TTAATATAATTA-AATAAT
*
34343601 TTAATATCATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34343619 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34343640 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34343656 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* * *
34343674 AATTAAACATGATTAAATAAC
1 --TT-AATATAATTAAATAAT
** *
34343695 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34343713 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34343730 TT-ATAT-CTT--TTAAA
1 TTAATATAATTAAATAAT
**
34343744 TTAATATAATTATTTAAT
1 TTAATATAATTAAATAAT
** *
34343762 TTAATATAATTATTTACT
1 TTAATATAATTAAATAAT
34343780 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34343797 TTAA-AT-CTT--TTAAC
1 TTAATATAATTAAATAAT
* ** *
34343811 TTAATATAATCATTTACT
1 TTAATATAATTAAATAAT
34343829 TTAATATAATTAAATAAT
1 TTAATATAATTAAATAAT
* * *
34343847 TAAATCTTTTACCTTAAAT-AT
1 TTAA---TATA-ATTAAATAAT
** *
34343868 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34343884 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34343902 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
** *
34343923 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34343941 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34343958 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
*
34343971 TTAATATAATCATAA-AAT
1 TTAATATAATTA-AATAAT
*
34343989 TTAATATCATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34344007 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34344028 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344044 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* * *
34344062 AATTAAACATGATTAAATAAC
1 --TT-AATATAATTAAATAAT
** *
34344083 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34344101 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34344118 TT-ATAT-CTT--TTAAA
1 TTAATATAATTAAATAAT
**
34344132 TTAATATAATTATTTAAT
1 TTAATATAATTAAATAAT
** *
34344150 TTAATATAATTATTTACT
1 TTAATATAATTAAATAAT
34344168 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34344185 TTAA-AT-CTT--TTAAC
1 TTAATATAATTAAATAAT
* ** *
34344199 TTAATATAATCATTTACT
1 TTAATATAATTAAATAAT
34344217 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
*
34344234 TTAA-ATAATTAAAT-CT
1 TTAATATAATTAAATAAT
**
34344250 TT--TA-CCTTAAAT-AT
1 TTAATATAATTAAATAAT
** *
34344264 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344280 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34344298 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
** *
34344319 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34344337 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34344354 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
*
34344367 TTAATATAATCATAA-AAT
1 TTAATATAATTA-AATAAT
*
34344385 TTAATATCATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34344403 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34344424 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344440 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* * *
34344458 AATTAAACATGATTAAATAAC
1 --TT-AATATAATTAAATAAT
** *
34344479 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34344497 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* * *
34344514 TT-ATAT-CTT--TTAAA
1 TTAATATAATTAAATAAT
**
34344528 TTAATATAATTATTTAAT
1 TTAATATAATTAAATAAT
34344546 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
* *
34344563 TTAA-AT-CTT---TTAT
1 TTAATATAATTAAATAAT
* ** *
34344576 CTTAATATAATCATTTACT
1 -TTAATATAATTAAATAAT
34344595 TTAATATAATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34344613 TAAATCTTTTAATTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34344634 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344650 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34344668 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
** *
34344689 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34344707 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34344724 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
*
34344737 TTAATATAATCATAA-AAT
1 TTAATATAATTA-AATAAT
* *
34344755 TTAATATCATTAAAT-CT
1 TTAATATAATTAAATAAT
**
34344772 TT--TA-CCTTAAAT-AT
1 TTAATATAATTAAATAAT
** *
34344786 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344802 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34344820 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
** *
34344841 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34344859 TTAATATAATTAAATAA-
1 TTAATATAATTAAATAAT
34344876 TTAA-AT-ATT---TAAT
1 TTAATATAATTAAATAAT
*
34344889 TTAATATAATCATAA-AAT
1 TTAATATAATTA-AATAAT
*
34344907 TTAATATCATTAAATAAT
1 TTAATATAATTAAATAAT
* *
34344925 TAAATCTTTTAACTTAAAT-AT
1 TTAA---TATAA-TTAAATAAT
** *
34344946 TTAAT-TAA-TCGATAGT
1 TTAATATAATTAAATAAT
34344962 GTT--TATAATTAAATACAT
1 -TTAATATAATTAAATA-AT
* *
34344980 AATTAAACATGATTAAATAAT
1 --TT-AATATAATTAAATAAT
** *
34345001 TTAATATAATTATTTAGT
1 TTAATATAATTAAATAAT
34345019 TTAATATAATTAAATAAT
1 TTAATATAATTAAATAAT
34345037 TATAAT
1 T-TAAT
34345043 CAAGCTGATA
Statistics
Matches: 1394, Mismatches: 331, Indels: 463
0.64 0.15 0.21
Matches are distributed among these distances:
12 23 0.02
13 50 0.04
14 63 0.05
15 120 0.09
16 110 0.08
17 157 0.11
18 591 0.42
19 49 0.04
21 83 0.06
22 148 0.11
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAATATAATTAAATAAT
Found at i:34343621 original size:160 final size:161
Alignment explanation
Indices: 34343370--34345044 Score: 1135
Period size: 160 Copynumber: 10.3 Consensus size: 161
34343360 ATTAAATATT
* * * * *
34343370 TAATTTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
* *
34343435 TTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
66 TATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
34343500 ATAATTAAATACATAATTAAACATGATTAAA
131 ATAATTAAATACATAATTAAACATGATTAAA
*
34343531 TAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATCA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
* *
34343595 TAAAATTTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
66 TATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
34343660 ATAATTAAATACATAATTAAACATGATTAAA
131 ATAATTAAATACATAATTAAACATGATTAAA
* * * * *
34343691 TAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
* ** * * * *
34343756 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAA-TTAAATCTTTTAACTTAAT--AT
66 TATAATTTAATATAATTAAATA-ATTAA-AT-CTT--TTAACTTAAAT-ATTTAA-TTAATCGAT
* * * * * *
34343818 AATCATTTACTTTAATATAATTAAATAATTAAATCTTTTACCTTAAA
124 AGT-GTTTA---TAAT-TAAATACATAATTAAA-C-ATGA--TTAAA
* * * * *
34343865 T-ATTTAAT-TAATCGA--TAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTA
1 TAATTTAATATAAT-TATTTAGT-TTAAT-A-TAATTAAATAATT-AA-ATCATT---TAATTTA
* * * * * *
34343926 ATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-ATTTAA-TTTAATA--TAA-TCAT--
57 ATATAATCATATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCG
* * * * * * * *
34343984 AAAAT-TTAAT-A-TCATTAAATAATTAAATCTTTTAACTTAAA
122 ATAGTGTTTATAATTAAATACATAATTAAA-C--ATGA-TTAAA
* * * *
34344025 T-ATTTAAT-TAATCGA--TAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAACTT
1 TAATTTAATATAAT-TATTTAGT-TTAAT-A-TAATTAAATAATTAAATCAT--TT-AAT---TT
* * * * * * *
34344085 AATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTAAT
56 AATATAATCATATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAA-ATATTTAATTAA-
** * * * * *
34344150 TTAATA-TAATTATTTACTTTAAT--ATAATT-AA-ATAATTAAA
119 TCGATAGT-GTT-TATAATTAAATACATAATTAAACATGATTAAA
* * * * * *
34344190 TCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATAATTAAATCTT-TTA
1 -----TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAAT-TTAATA
* * ** *
34344254 CCTTAAAT-ATTTAA-TTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATA
60 ---T-AATCATATAATTTAAT--ATAAT-TAAATAATTAAAT-C-T--TTTAAC----TTAAAT-
* * * *
34344317 ATTTAATATAAT-TAT-TTAG-TT-TAATATAATTAAATAATT-AA-AT-ATT---
109 ATTTAAT-TAATCGATAGT-GTTTATAAT-TAAATACATAATTAAACATGATTAAA
* ** * * * *
34344363 TAATTTAATATAATCATAAAATTTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAA-TTTAATA--TAA
* * * * * * * *
34344428 TTAATCGATAGTGTTTATAATTAAATACATAATTAAA-C--ATGA-TTAAATAACTTAATATAAT
63 -TCAT--ATAAT-TTAAT-A-TAATTAAATAATTAAATCTTTTAACTTAAAT-ATTTAAT-TAAT
* * *
34344489 -TATTTAGT-TTAATATAATTAAATA-ATTA-T-ATC-T--TT---
120 CGA--TAGTGTT--TATAATTAAATACATAATTAAACATGATTAAA
* * *
34344524 TAAATTAATATAATTATTTAATTTAATATAATTAAATAATTAAATC-TTTTATCTTAATATAATC
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAAT-TTAATATAATC
* * *
34344588 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAAATATTTAATTAATCGATAGTGTT
65 ATATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTT
34344653 TATAATTAAATACATAATTAAACATGATTAAA
130 TATAATTAAATACATAATTAAACATGATTAAA
34344685 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATC-
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
* * *
34344748 -ATAA---AATTTAA-T--ATCATTAAATCTTTTACCTTAAATATTTAATTAATCGATAGTGTTT
66 TATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
34344806 ATAATTAAATACATAATTAAACATGATTAAA
131 ATAATTAAATACATAATTAAACATGATTAAA
34344837 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATCA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
* *
34344901 TAAAATTTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
66 TATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
34344966 ATAATTAAATACATAATTAAACATGATTAAA
131 ATAATTAAATACATAATTAAACATGATTAAA
34344997 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTATAATCA
1 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTA-AATCA
34345045 AGCTGATATA
Statistics
Matches: 1245, Mismatches: 147, Indels: 243
0.76 0.09 0.15
Matches are distributed among these distances:
152 163 0.13
153 9 0.01
154 15 0.01
155 20 0.02
156 8 0.01
157 13 0.01
158 9 0.01
159 4 0.00
160 414 0.33
161 177 0.14
162 14 0.01
163 10 0.01
164 8 0.01
165 24 0.02
166 23 0.02
167 13 0.01
168 65 0.05
169 19 0.02
170 47 0.04
171 25 0.02
172 30 0.02
173 28 0.02
174 24 0.02
175 6 0.00
176 8 0.01
177 18 0.01
178 14 0.01
179 37 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (161 bp):
TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATCATTTAATTTAATATAATCA
TATAATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTT
ATAATTAAATACATAATTAAACATGATTAAA
Found at i:34343749 original size:31 final size:31
Alignment explanation
Indices: 34343713--34343820 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
34343703 ATTATTTAGT
34343713 TTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTAAATAATTATATCTTTTAAA
** * **
34343744 TTAATATAATTATTTAATTTAATATAATTATTTACT
1 TTAATATAATTAAATAA-TT-ATAT--CT-TTTAAA
* *
34343780 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATTATATCTTTTAAA
34343811 TTAATATAAT
1 TTAATATAAT
34343821 CATTTACTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
31 29 0.48
32 3 0.05
33 4 0.07
34 3 0.05
35 3 0.05
36 19 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TTAATATAATTAAATAATTATATCTTTTAAA
Found at i:34343773 original size:67 final size:67
Alignment explanation
Indices: 34343695--34343840 Score: 247
Period size: 67 Copynumber: 2.2 Consensus size: 67
34343685 ATTAAATAAC
* * *
34343695 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
34343760 AT
66 AT
*
34343762 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
*
34343827 CT
66 AT
34343829 TTAATATAATTA
1 TTAATATAATTA
34343841 AATAATTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.51
Consensus pattern (67 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
AT
Found at i:34343809 original size:49 final size:49
Alignment explanation
Indices: 34343756--34344023 Score: 234
Period size: 49 Copynumber: 5.2 Consensus size: 49
34343746 AATATAATTA
34343756 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* *
34343805 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* * * * * * *
34343854 TTTACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CAT
1 TTTA-ATTTAATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T
* *
34343912 GATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-A
1 --TT---TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* ** * *
34343965 TTTAATTTAATATAATCATAAAATTTAATATCATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
*
34344014 TTTAACTTAA
1 TTTAATTTAA
34344024 ATATTTAATT
Statistics
Matches: 177, Mismatches: 25, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
48 40 0.23
49 60 0.34
50 5 0.03
51 2 0.01
52 4 0.02
53 2 0.01
54 14 0.08
55 4 0.02
56 8 0.05
57 6 0.03
58 15 0.08
59 2 0.01
60 7 0.04
62 6 0.03
63 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (49 bp):
TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
Found at i:34343848 original size:228 final size:226
Alignment explanation
Indices: 34343535--34344000 Score: 770
Period size: 228 Copynumber: 2.1 Consensus size: 226
34343525 ATTAAATAAC
* *
34343535 TTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATCATAAAA
*
34343600 TTTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
66 TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
34343665 TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
131 TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
* * * **
34343730 TTATATCTTTTAAATTAATATAATTATTTAAT
196 TTAAAT-ATTTAAATTAATATAATCATAAAAT
* **
34343762 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAACTTAATATAATCATAAA
* *
34343827 CTTTAATATAATTAAATAATTAAATCTTTTACCTTAAATATTTAATTAATCGATAGTGTTTATAA
65 ATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
*
34343892 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
130 TTAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATA
*
34343957 ATTAAATATTTAATTTAATATAATCATAAAAT
195 ATTAAATATTTAAATTAATATAATCATAAAAT
*
34343989 TTAATATCATTA
1 TTAATATAATTA
34344001 AATAATTAAA
Statistics
Matches: 222, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
227 71 0.32
228 151 0.68
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (226 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAACTTAATATAATCATAAAA
TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
TTAAATATTTAAATTAATATAATCATAAAAT
Found at i:34344137 original size:31 final size:31
Alignment explanation
Indices: 34344101--34344208 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
34344091 ATTATTTAGT
34344101 TTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTAAATAATTATATCTTTTAAA
** * **
34344132 TTAATATAATTATTTAATTTAATATAATTATTTACT
1 TTAATATAATTAAATAA-TT-ATAT--CT-TTTAAA
* *
34344168 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATTATATCTTTTAAA
34344199 TTAATATAAT
1 TTAATATAAT
34344209 CATTTACTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
31 29 0.48
32 3 0.05
33 4 0.07
34 3 0.05
35 3 0.05
36 19 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TTAATATAATTAAATAATTATATCTTTTAAA
Found at i:34344161 original size:67 final size:67
Alignment explanation
Indices: 34344083--34344228 Score: 247
Period size: 67 Copynumber: 2.2 Consensus size: 67
34344073 ATTAAATAAC
* * *
34344083 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
34344148 AT
66 AT
*
34344150 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
*
34344215 CT
66 AT
34344217 TTAATATAATTA
1 TTAATATAATTA
34344229 AATAATTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.51
Consensus pattern (67 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCATTTA
AT
Found at i:34344197 original size:49 final size:49
Alignment explanation
Indices: 34344144--34344239 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
34344134 AATATAATTA
* *
34344144 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
34344193 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
34344240 AATTAAATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (49 bp):
TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
Found at i:34344235 original size:8 final size:8
Alignment explanation
Indices: 34344217--34344247 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
34344207 ATCATTTACT
34344217 TTAATATAA
1 TTAA-ATAA
34344226 TTAAATAA
1 TTAAATAA
34344234 TTAAATAA
1 TTAAATAA
34344242 TTAAAT
1 TTAAAT
34344248 CTTTTACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAAATAA
Found at i:34344329 original size:396 final size:388
Alignment explanation
Indices: 34343353--34344918 Score: 2704
Period size: 388 Copynumber: 4.1 Consensus size: 388
34343343 TTTAATATAA
* * *
34343353 TTAAA-TAAT-TAAATATTTAATTTAATATAATTATTTACTTTAGTATAATTAAATGATTAAATC
1 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
34343416 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATT
66 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATT
*
34343481 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAACTTAATATAATT
131 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
34343546 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
196 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
34343611 TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
261 TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
34343676 TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
326 TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
34343739 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
1 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
*
34343804 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTACCTTAAATATT
66 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATT
34343869 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
131 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
34343934 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
196 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
34343999 TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
261 TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
34344064 TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
326 TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
34344127 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
1 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
*
34344192 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATAATTAAATCTTTTACCT
66 TTTTAACTTAATATAATCATTTAC--T--T-TAA-T--ATAATTAAATAATTAAATCTTTTAACT
34344257 TAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTA
123 TAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTA
34344322 ATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTT
188 ATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTT
34344387 AATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAA
253 AATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAA
34344452 ATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTA
318 ATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTA
34344517 TATCTT
383 TATCTT
34344523 TT--A--AAT-TAA-TA--TAA--T--TAT--TTA---A-TTTAATATAATTAAATAATTAAATC
1 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
* *
34344570 TTTTATCTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAAATATT
66 TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATT
34344635 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
131 TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
34344700 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATC--
196 ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
*
34344763 ------ATTAAATCTTTTACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
261 TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
* * *
34344822 TTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAAT-AT
326 TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
* * ** *
34344884 TTAATTTAATATAATCATAAAATTTAATATCATTA
1 TTAAATTAATATAATTATTTAATTTAATATAATTA
34344919 AATAATTAAA
Statistics
Matches: 1141, Mismatches: 15, Indels: 59
0.94 0.01 0.05
Matches are distributed among these distances:
361 3 0.00
362 116 0.10
365 3 0.00
366 3 0.00
367 1 0.00
369 2 0.00
370 161 0.14
371 1 0.00
372 1 0.00
373 6 0.01
374 1 0.00
375 3 0.00
376 1 0.00
378 48 0.04
379 1 0.00
382 3 0.00
384 3 0.00
386 6 0.01
387 4 0.00
388 464 0.41
390 3 0.00
391 3 0.00
392 4 0.00
393 3 0.00
394 2 0.00
396 295 0.26
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (388 bp):
TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
TTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATT
TAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATT
ATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCAT
TAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAA
TTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTT
Found at i:34344391 original size:30 final size:30
Alignment explanation
Indices: 34344320--34344391 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
34344310 TTAAATAATT
* * *
34344320 TAATATAATTATTTAGTTTAATATAATTAAA
1 TAAT-TAAATATTTAATTTAATATAATCAAA
34344351 TAATTAAATATTTAATTTAATATAATCATAA
1 TAATTAAATATTTAATTTAATATAATCA-AA
*
34344382 -AATTTAATAT
1 TAATTAAATAT
34344392 CATTAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTAAATATTTAATTTAATATAATCAAA
Found at i:34344621 original size:210 final size:208
Alignment explanation
Indices: 34344319--34344769 Score: 740
Period size: 210 Copynumber: 2.2 Consensus size: 208
34344309 ATTAAATAAT
*
34344319 TTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAA
1 TTAATATAATTATTTAATTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAA
*
34344384 TTTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
66 TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
34344449 TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
131 TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
* *
34344514 TTATATCTTTTAAA
196 TTAAAT-ATTTAAA
* * **
34344528 TTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCTTTTATCTTAATATAATCATTTA
1 TTAATATAATTATTTAATTTAATATAATTAAATAATTAAATATTTAAT-TTAATATAATCATAAA
* *
34344593 CTTTAATATAATTAAATAATTAAATCTTTTAATTTAAATATTTAATTAATCGATAGTGTTTATAA
65 ATTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
*
34344658 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
130 TTAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATA
*
34344723 ATTAAATATTTAAT
195 ATTAAATATTTAAA
* ** *
34344737 TTAATATAATCATAAAATTTAATATCATTAAAT
1 TTAATATAATTATTTAATTTAATATAATTAAAT
34344770 CTTTTACCTT
Statistics
Matches: 225, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
209 79 0.35
210 146 0.65
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (208 bp):
TTAATATAATTATTTAATTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAA
TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAAT
TAAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAATTAAATAA
TTAAATATTTAAA
Found at i:34344724 original size:66 final size:66
Alignment explanation
Indices: 34344654--34344882 Score: 163
Period size: 66 Copynumber: 3.2 Consensus size: 66
34344644 GATAGTGTTT
*
34344654 ATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTA
1 ATAATTAAATAAATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTA
34344719 A
66 A
** * * * * * * *
34344720 ATAATTAAATATTTAATTTAATATAATCATAA-AATTTAATATCATTAAATCTTTTACCTTAAAT
1 ATAATTAAATAAATAATTAAACATGATTA-AATAATTTAATATAATT--A---TTTA-GTTTAAT
34344784 ATTTAATTAA
59 A--TAATTAA
*
34344794 TCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGT
1 ---ATA---ATTA-AA-TAAA----TAATTAAACATGATTAAATAATTTAATATAATTATTTAGT
34344859 TTAATATAATTAA
54 TTAATATAATTAA
34344872 ATAATTAAATA
1 ATAATTAAATA
34344883 TTTAATTTAA
Statistics
Matches: 121, Mismatches: 20, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
66 36 0.30
67 2 0.02
68 1 0.01
70 2 0.02
71 6 0.05
72 9 0.07
74 7 0.06
75 3 0.02
77 3 0.02
78 7 0.06
80 9 0.07
81 6 0.05
82 2 0.02
84 1 0.01
85 2 0.02
86 25 0.21
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (66 bp):
ATAATTAAATAAATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTA
A
Found at i:34344761 original size:30 final size:30
Alignment explanation
Indices: 34344690--34344761 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
34344680 TTAAATAATT
* * *
34344690 TAATATAATTATTTAGTTTAATATAATTAAA
1 TAAT-TAAATATTTAATTTAATATAATCAAA
34344721 TAATTAAATATTTAATTTAATATAATCATAA
1 TAATTAAATATTTAATTTAATATAATCA-AA
*
34344752 -AATTTAATAT
1 TAATTAAATAT
34344762 CATTAAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTAAATATTTAATTTAATATAATCAAA
Found at i:34344767 original size:152 final size:153
Alignment explanation
Indices: 34344610--34345038 Score: 770
Period size: 152 Copynumber: 2.8 Consensus size: 153
34344600 ATAATTAAAT
*
34344610 AATTAAATCTTTTAATTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
1 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
34344675 CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTA
66 CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTA
34344740 ATATAATCATAAAATTTAATATC
131 ATATAATCATAAAATTTAATATC
*
34344763 -ATTAAATCTTTTACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
1 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
34344827 CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTA
66 CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTA
34344892 ATATAATCATAAAATTTAATATC
131 ATATAATCATAAAATTTAATATC
34344915 ATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACAT
1 -------AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACAT
34344980 AATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTA
59 AATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTA
34345039 TAATCAAGCT
Statistics
Matches: 265, Mismatches: 3, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
152 150 0.57
160 115 0.43
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (153 bp):
AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTA
ATATAATCATAAAATTTAATATC
Found at i:34344913 original size:30 final size:30
Alignment explanation
Indices: 34344842--34344913 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
34344832 TTAAATAATT
* * *
34344842 TAATATAATTATTTAGTTTAATATAATTAAA
1 TAAT-TAAATATTTAATTTAATATAATCAAA
34344873 TAATTAAATATTTAATTTAATATAATCATAA
1 TAATTAAATATTTAATTTAATATAATCA-AA
*
34344904 -AATTTAATAT
1 TAATTAAATAT
34344914 CATTAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTAAATATTTAATTTAATATAATCAAA
Found at i:34344984 original size:370 final size:365
Alignment explanation
Indices: 34344127--34344986 Score: 1266
Period size: 370 Copynumber: 2.3 Consensus size: 365
34344117 ATTATATCTT
* *
34344127 TTAAATTAATATAATTATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATC
1 TTAAA-TAAT-TAAATATTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATTAAATC
* * *
34344192 TTTTAACTTAATATAATCATTTACTTTAATATA-ATTA-AATAATTAAATAATTAAATCTTTTAC
64 TTTTAAC-T--TA-AAT-A-TTA-ATTAATATATTTTATAATAATTAAATAATTAAATCTTTTAA
34344255 CTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATT
122 CTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATT
34344320 TAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAAT
187 TAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAAT
34344385 TTAATATCATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATT
252 TTAATATC-------AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATT
34344450 AAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAA
310 AAATACATAATTAAACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAA
* * *
34344506 TTAAATAATTATATCTTTTAAATTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCT
1 TTAAATAATTAAAT-ATTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCT
* * * * *
34344571 TTTATCTT-AATA-TAA-TCATTTACTTTA-ATATAATTAAATAATTAAATCTTTTAATTTAAAT
65 TTTAACTTAAATATTAATTAATATATTTTATA-ATAATTAAATAATTAAATCTTTTAACTTAAAT
34344632 ATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATA
129 ATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATA
34344697 ATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATAT
194 ATTATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATAT
*
34344762 C-ATTAAATCTTTTACCTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAA
259 CAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAA
*
34344826 ACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAA
324 ACATGATTAAATAACTTAATATAATTATTTAGTTTAATATAA
* ** *
34344868 TTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCATTAAATAATTAAATCTT
1 TTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCTT
* *
34344933 TTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
66 TTAACTTAAATA-TTAATTAAT--ATA-T-TTTATAA-TAATTAAATAATTAAA
34344987 CATGATTAAA
Statistics
Matches: 441, Mismatches: 27, Indels: 35
0.88 0.05 0.07
Matches are distributed among these distances:
361 51 0.12
362 120 0.27
364 3 0.01
365 3 0.01
367 2 0.00
368 5 0.01
369 9 0.02
370 178 0.40
372 1 0.00
373 3 0.01
375 1 0.00
377 4 0.01
378 56 0.13
379 5 0.01
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (365 bp):
TTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCTT
TTAACTTAAATATTAATTAATATATTTTATAATAATTAAATAATTAAATCTTTTAACTTAAATAT
TTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAAT
TATTTAGTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATCATAAAATTTAATATCA
ATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAAC
ATGATTAAATAACTTAATATAATTATTTAGTTTAATATAA
Found at i:34348465 original size:20 final size:21
Alignment explanation
Indices: 34348422--34348465 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
34348412 TCTTTCATCA
* *
34348422 TTAAGCTTTAATTAATCATTT
1 TTAACCTTTAATTAATCATAT
*
34348443 TTAACCTTT-ATTAATCCTAT
1 TTAACCTTTAATTAATCATAT
34348463 TTA
1 TTA
34348466 TAATTAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAACCTTTAATTAATCATAT
Found at i:34349871 original size:20 final size:20
Alignment explanation
Indices: 34349829--34349877 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34349819 AAAGCCCGTG
* **
34349829 GTATCGATTTTTTTACATGA
1 GTATCGATATTTTTACAAAA
*
34349849 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
34349869 GTATCGATA
1 GTATCGATA
34349878 ATATTAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:34352083 original size:16 final size:16
Alignment explanation
Indices: 34352062--34352092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34352052 GAATTAATTC
*
34352062 TTAATTCATTTGTGAA
1 TTAATTCACTTGTGAA
34352078 TTAATTCACTTGTGA
1 TTAATTCACTTGTGA
34352093 TGTTCATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (16 bp):
TTAATTCACTTGTGAA
Found at i:34356581 original size:17 final size:17
Alignment explanation
Indices: 34356559--34356591 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34356549 ATTTTAATAG
34356559 TTTAATA-TTATATTTAC
1 TTTAATACTTAT-TTTAC
34356576 TTTAATACTTATTTTA
1 TTTAATACTTATTTTA
34356592 ATAGTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAATACTTATTTTAC
Found at i:34356605 original size:37 final size:35
Alignment explanation
Indices: 34356542--34356610 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
34356532 ATTTAAAAAA
34356542 TAATATTATTTTAATAGTTTAATATTATATTTACTT
1 TAATATTATTTTAATAGTTTAATATTA-ATTTACTT
*
34356578 TAATACTTATTTTAATAGTATT-CTATTAATTTA
1 TAATA-TTATTTTAATAGT-TTAATATTAATTTA
34356611 AAATTAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 10 0.33
37 18 0.60
38 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TAATATTATTTTAATAGTTTAATATTAATTTACTT
Found at i:34360739 original size:17 final size:17
Alignment explanation
Indices: 34360719--34360759 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34360709 TAGTTGTCAT
*
34360719 TGCATTTTACTTGTCTC
1 TGCATTTTACTTGTCTA
* *
34360736 TGCATTTTATTTGTTTA
1 TGCATTTTACTTGTCTA
34360753 TGCATTT
1 TGCATTT
34360760 GCATTGTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (17 bp):
TGCATTTTACTTGTCTA
Found at i:34364075 original size:20 final size:20
Alignment explanation
Indices: 34364050--34364089 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34364040 TCTCAAAGAA
34364050 AGTTTTAAATTTGCTTTCTT
1 AGTTTTAAATTTGCTTTCTT
34364070 AGTTTTAAATTTGCTTTCTT
1 AGTTTTAAATTTGCTTTCTT
34364090 TTTGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (20 bp):
AGTTTTAAATTTGCTTTCTT
Found at i:34364099 original size:19 final size:19
Alignment explanation
Indices: 34364052--34364100 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
34364042 TCAAAGAAAG
34364052 TTTTAAATTTGCTTTCTTA
1 TTTTAAATTTGCTTTCTTA
34364071 GTTTTAAATTTGCTTTCTT-
1 -TTTTAAATTTGCTTTCTTA
34364090 TTTGTAAATTT
1 TTT-TAAATTT
34364101 ACAAAACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 18 0.64
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTTAAATTTGCTTTCTTA
Found at i:34365507 original size:27 final size:27
Alignment explanation
Indices: 34365477--34365534 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
34365467 AGGATCTTTT
* *
34365477 CTCTTGGTTGTAAGGCCGTCTCTAGAG
1 CTCTTGGTTGTAAGACCATCTCTAGAG
*
34365504 CTCTTGGTTGTAAGATCATCTCTAGAG
1 CTCTTGGTTGTAAGACCATCTCTAGAG
34365531 CTCT
1 CTCT
34365535 AGCTCTGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
CTCTTGGTTGTAAGACCATCTCTAGAG
Found at i:34366534 original size:40 final size:41
Alignment explanation
Indices: 34366490--34366589 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 41
34366480 GCCTAGAGCT
*
34366490 ATTTTAACTTGTTTGAAAAGCATTTTGAAATG-TTAAAATG
1 ATTTTAACTTGTTTGAAAAGCATTTTGAAATGTTTAAAATA
* * * **
34366530 ATTTTGACTTGGTTG-AAATCATTTTGACCTGTTTAAAATA
1 ATTTTAACTTGTTTGAAAAGCATTTTGAAATGTTTAAAATA
*
34366570 ATTTTAACTTGATTTTAAAA
1 ATTTTAACTTG-TTTGAAAA
34366590 TTGTTTCAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
39 13 0.27
40 30 0.62
41 2 0.04
42 3 0.06
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (41 bp):
ATTTTAACTTGTTTGAAAAGCATTTTGAAATGTTTAAAATA
Found at i:34366553 original size:20 final size:20
Alignment explanation
Indices: 34366521--34366580 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
34366511 ATTTTGAAAT
*
34366521 GTTAAAATGATTTTGACTTG
1 GTTAAAATAATTTTGACTTG
* * *
34366541 GTTGAAATCATTTTGACCTG
1 GTTAAAATAATTTTGACTTG
* *
34366561 TTTAAAATAATTTTAACTTG
1 GTTAAAATAATTTTGACTTG
34366581 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (20 bp):
GTTAAAATAATTTTGACTTG
Found at i:34366699 original size:22 final size:24
Alignment explanation
Indices: 34366671--34366714 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
34366661 TAATTTGTCA
34366671 ATTTTAACTT-TTAT-TCAAAAAT
1 ATTTTAACTTGTTATATCAAAAAT
*
34366693 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
34366715 TACTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAT
Found at i:34367467 original size:43 final size:43
Alignment explanation
Indices: 34367418--34367575 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
34367408 CTTTAGTTTA
* * * *
34367418 TCCGATGATACACTATGTGTGCTAATATAATTACTTTGGCTTG
1 TCCGATGATGCACTATGTGTGCTAGTATAATTGCTTCGGCTTG
* * * * ** *
34367461 TCCGATGATTCACTGTGTGTGCCAGCATAATTGCTTCGATTTA
1 TCCGATGATGCACTATGTGTGCTAGTATAATTGCTTCGGCTTG
** * *
34367504 TTGGATGATGTATTATGTGTGCTAGTATAATTGCTTCGGCTTG
1 TCCGATGATGCACTATGTGTGCTAGTATAATTGCTTCGGCTTG
* * *
34367547 TCCGATAATGCACTATGTGTACCAGTATA
1 TCCGATGATGCACTATGTGTGCTAGTATA
34367576 TTTCCTCCAA
Statistics
Matches: 87, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (43 bp):
TCCGATGATGCACTATGTGTGCTAGTATAATTGCTTCGGCTTG
Found at i:34367589 original size:86 final size:86
Alignment explanation
Indices: 34367414--34367604 Score: 220
Period size: 86 Copynumber: 2.2 Consensus size: 86
34367404 TATACTTTAG
* * * * * * *
34367414 TTTATCCGATGATACACTATGTGTGCTAATATAATTACTTTGGCTTGTCCGATGATTCACTGTGT
1 TTTATCAGATGATGCATTATGTGTGCTAATATAATTACTTCGGCTTGTCCGATAATGCACTATGT
* * * *
34367479 GTGCCAGCATAATTGCTTCGA
66 GTACCAGCATAATTCCTCCAA
** * * *
34367500 TTTATTGGATGATGTATTATGTGTGCTAGTATAATTGCTTCGGCTTGTCCGATAATGCACTATGT
1 TTTATCAGATGATGCATTATGTGTGCTAATATAATTACTTCGGCTTGTCCGATAATGCACTATGT
* *
34367565 GTACCAGTATATTTCCTCCAA
66 GTACCAGCATAATTCCTCCAA
34367586 TTTATCAGATGATGCATTA
1 TTTATCAGATGATGCATTA
34367605 CTATGCCTGA
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (86 bp):
TTTATCAGATGATGCATTATGTGTGCTAATATAATTACTTCGGCTTGTCCGATAATGCACTATGT
GTACCAGCATAATTCCTCCAA
Found at i:34379302 original size:25 final size:25
Alignment explanation
Indices: 34379273--34379325 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
34379263 TGATTTGTAT
34379273 AGAATGCTTTCATGTGAAACCACCA
1 AGAATGCTTTCATGTGAAACCACCA
34379298 AGAATGCTTTCATGTGAAACCACCA
1 AGAATGCTTTCATGTGAAACCACCA
34379323 AGA
1 AGA
34379326 CAACCAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (25 bp):
AGAATGCTTTCATGTGAAACCACCA
Found at i:34380057 original size:19 final size:18
Alignment explanation
Indices: 34380029--34380070 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
34380019 AATTTTTTTT
*
34380029 ATTTTTTTATTATTATTC
1 ATTTTTTTATTATTATTA
*
34380047 ATTTATTTTATTCTTATTA
1 ATTT-TTTTATTATTATTA
34380066 ATTTT
1 ATTTT
34380071 AGTTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTATTATTATTA
Found at i:34382520 original size:21 final size:21
Alignment explanation
Indices: 34382489--34382572 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
34382479 CTGACTGCTA
*
34382489 TGTCACGACACAAGACCTGGG
1 TGTCGCGACACAAGACCTGGG
* * *
34382510 TGTCGCTACACAGGACCTAGG
1 TGTCGCGACACAAGACCTGGG
* *
34382531 TGTAGCGACACGAGACCTGGG
1 TGTCGCGACACAAGACCTGGG
* *
34382552 TGTCACGACACGA-ACCTGGG
1 TGTCGCGACACAAGACCTGGG
34382572 T
1 T
34382573 ATTGTGAGAT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 8 0.15
21 44 0.85
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.17
Consensus pattern (21 bp):
TGTCGCGACACAAGACCTGGG
Found at i:34386082 original size:20 final size:20
Alignment explanation
Indices: 34386053--34386093 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
34386043 CGAGGAGATG
* *
34386053 AGAAGTGAGAGGAGAATGAT
1 AGAAGCGAGAGGAAAATGAT
34386073 AGAAGCGAGAGGAAAATGAT
1 AGAAGCGAGAGGAAAATGAT
34386093 A
1 A
34386094 AACTTTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.37, T:0.12
Consensus pattern (20 bp):
AGAAGCGAGAGGAAAATGAT
Found at i:34386388 original size:7 final size:7
Alignment explanation
Indices: 34386378--34386405 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34386368 ATATAAATAT
34386378 TTTTTTA
1 TTTTTTA
34386385 TTTTTTA
1 TTTTTTA
34386392 TTTTTTA
1 TTTTTTA
34386399 TTTTTTA
1 TTTTTTA
34386406 GAAATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:34387445 original size:5 final size:5
Alignment explanation
Indices: 34387435--34387518 Score: 100
Period size: 5 Copynumber: 16.8 Consensus size: 5
34387425 TTCATAGCAA
* * *
34387435 ATCAT ATCAT AGCGT ATCAT ATCAT ATTAT ATCAT ATCGA- ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATC-AT ATCAT ATCAT
*
34387485 ATCAT ATCAT ATCGA- ATCAT AGCAT ATCAT ATCA
1 ATCAT ATCAT ATC-AT ATCAT ATCAT ATCAT ATCA
34387519 CGTCCTACCC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
4 2 0.03
5 63 0.94
6 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (5 bp):
ATCAT
Found at i:34387466 original size:25 final size:25
Alignment explanation
Indices: 34387426--34387518 Score: 132
Period size: 25 Copynumber: 3.7 Consensus size: 25
34387416 GTATCAAATT
* * * *
34387426 TCATAGCAAATCATATCATAGCGTA
1 TCATATCATATCATATCATATCGAA
*
34387451 TCATATCATATTATATCATATCGAA
1 TCATATCATATCATATCATATCGAA
34387476 TCATATCATATCATATCATATCGAA
1 TCATATCATATCATATCATATCGAA
*
34387501 TCATAGCATATCATATCA
1 TCATATCATATCATATCA
34387519 CGTCCTACCC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.34
Consensus pattern (25 bp):
TCATATCATATCATATCATATCGAA
Found at i:34394142 original size:12 final size:12
Alignment explanation
Indices: 34394125--34394149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34394115 GATACTTATA
34394125 TTAAATTTCTTT
1 TTAAATTTCTTT
34394137 TTAAATTTCTTT
1 TTAAATTTCTTT
34394149 T
1 T
34394150 CTTTAAAATT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAAATTTCTTT
Found at i:34394561 original size:5 final size:5
Alignment explanation
Indices: 34394551--34394590 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
34394541 TTTATTTTGA
34394551 TTATT TTATT TTATT TCTA-T TTATT TTA-T TTATT TT-TT TT
1 TTATT TTATT TTATT T-TATT TTATT TTATT TTATT TTATT TT
34394591 GATATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 10 0.31
5 20 0.62
6 2 0.06
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:34394565 original size:19 final size:18
Alignment explanation
Indices: 34394508--34394586 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 18
34394498 CAGCCCATTG
*
34394508 TTTTATTTATTTAATTT-
1 TTTTATTTATTTTATTTA
* * *
34394525 TATAATTCATTATTAATTTA
1 TTTTATTTATT-TT-ATTTA
34394545 TTTTGA-TTATTTTATTTTA
1 TTTT-ATTTATTTTA-TTTA
34394564 TTTCTATTTATTTTATTTA
1 TTT-TATTTATTTTATTTA
34394583 TTTT
1 TTTT
34394587 TTTTGATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
17 8 0.17
18 3 0.06
19 21 0.44
20 15 0.31
21 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (18 bp):
TTTTATTTATTTTATTTA
Found at i:34394622 original size:42 final size:42
Alignment explanation
Indices: 34394533--34394633 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
34394523 TTTATAATTC
* * *
34394533 ATTATTAATTTATTTTGATTATTTTATTTTATTTCTATTTAT
1 ATTATTTATTTTTTTTGATTATTTTATTTTATTTCTATTAAT
*
34394575 TTTATTTATTTTTTTTGA-TATTTTAAATTTCTA-TT-TATTAAT
1 ATTATTTATTTTTTTTGATTATTTT--ATTT-TATTTCTATTAAT
34394617 ATTATTTATATTTTTTT
1 ATTATTTAT-TTTTTTT
34394634 TCAGATTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 6 0.12
42 29 0.58
43 13 0.26
44 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (42 bp):
ATTATTTATTTTTTTTGATTATTTTATTTTATTTCTATTAAT
Found at i:34407262 original size:26 final size:26
Alignment explanation
Indices: 34407202--34407265 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
34407192 CCCAAAAAAG
** *
34407202 TCAATGGTCAACTGAAAAGTCAACAT
1 TCAATGGTCAACCAAAAAGTCAACAA
* * *
34407228 TTAACGGTCAACCAAAAAGTCAATAA
1 TCAATGGTCAACCAAAAAGTCAACAA
34407254 TCAATGGTCAAC
1 TCAATGGTCAAC
34407266 GATCAACGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (26 bp):
TCAATGGTCAACCAAAAAGTCAACAA
Found at i:34407403 original size:21 final size:21
Alignment explanation
Indices: 34407379--34407435 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
34407369 CAACGATCGA
34407379 GTTCGGATCCAGGTCGAGTT-G
1 GTTCGGATCCAGGTCG-GTTCG
* *
34407400 GTTCGGGTTCAGGTCGGTTCG
1 GTTCGGATCCAGGTCGGTTCG
*
34407421 GTTCGGTTCACAGGT
1 GTTCGGATC-CAGGT
34407436 TTGGGTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 22 0.73
22 5 0.17
ACGTcount: A:0.11, C:0.19, G:0.39, T:0.32
Consensus pattern (21 bp):
GTTCGGATCCAGGTCGGTTCG
Found at i:34414343 original size:2 final size:2
Alignment explanation
Indices: 34414338--34414386 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
34414328 ATATAAACTA
34414338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34414380 AT AT AT A
1 AT AT AT A
34414387 AGTTGAAGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34414746 original size:33 final size:33
Alignment explanation
Indices: 34414703--34414771 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
34414693 ATCTTCATTT
*
34414703 GAAATTCAAATTAATCCTTTTAAAATCCTAACTA
1 GAAATTCAAATTAATCATTTTAAAATCCTAA-TA
* * *
34414737 GAAA-TCAAATTACTCATTTTCAAATTCTAATA
1 GAAATTCAAATTAATCATTTTAAAATCCTAATA
34414769 GAA
1 GAA
34414772 TTTATCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 22 0.71
34 4 0.13
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (33 bp):
GAAATTCAAATTAATCATTTTAAAATCCTAATA
Found at i:34416134 original size:32 final size:33
Alignment explanation
Indices: 34416068--34416138 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
34416058 CTTAATTTGA
34416068 AATTTAAATTAATCCTTTTAAAATCCTAACTAG
1 AATTTAAATTAATCCTTTTAAAATCCTAACTAG
* * *
34416101 AATTTAAATTACTCTTTTTCAAATCCTAA-TAG
1 AATTTAAATTAATCCTTTTAAAATCCTAACTAG
34416133 AATTTA
1 AATTTA
34416139 TCTTTCTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 9 0.26
33 26 0.74
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (33 bp):
AATTTAAATTAATCCTTTTAAAATCCTAACTAG
Found at i:34416212 original size:2 final size:2
Alignment explanation
Indices: 34416205--34416230 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34416195 AAACCCTAAA
34416205 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
34416231 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34416235 original size:2 final size:2
Alignment explanation
Indices: 34416230--34416268 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
34416220 TCTCTCTCTC
34416230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34416269 CCTAGTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34416666 original size:29 final size:27
Alignment explanation
Indices: 34416579--34416678 Score: 132
Period size: 29 Copynumber: 3.7 Consensus size: 27
34416569 CGTTTCACAG
*
34416579 ATTTTATAGTTTTGCCACTATTTTTAA
1 ATTTTACAGTTTTGCCACTATTTTTAA
* *
34416606 GATTTTACAATTTTGCCAC--TTTTTAG
1 -ATTTTACAGTTTTGCCACTATTTTTAA
34416632 ATTTTACAGTTTTGCCACTGATTTTTTAA
1 ATTTTACAGTTTTGCCACT-A-TTTTTAA
34416661 ATTTTACAGTTTTGCCAC
1 ATTTTACAGTTTTGCCAC
34416679 CATTCTTCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
25 17 0.27
26 6 0.10
28 16 0.25
29 24 0.38
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (27 bp):
ATTTTACAGTTTTGCCACTATTTTTAA
Found at i:34416675 original size:54 final size:53
Alignment explanation
Indices: 34416577--34416678 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
34416567 ATCGTTTCAC
*
34416577 AGATTTTATAGTTTTGCCACTATTTTTAAGATTTTACAATTTTGCCACTTTTT
1 AGATTTTACAGTTTTGCCACTATTTTTAAGATTTTACAATTTTGCCACTTTTT
*
34416630 AGATTTTACAGTTTTGCCACTGATTTTTTAA-ATTTTACAGTTTTGCCAC
1 AGATTTTACAGTTTTGCCACT-A-TTTTTAAGATTTTACAATTTTGCCAC
34416679 CATTCTTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 20 0.44
54 18 0.40
55 7 0.16
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.50
Consensus pattern (53 bp):
AGATTTTACAGTTTTGCCACTATTTTTAAGATTTTACAATTTTGCCACTTTTT
Found at i:34420871 original size:30 final size:30
Alignment explanation
Indices: 34420837--34420981 Score: 123
Period size: 30 Copynumber: 4.9 Consensus size: 30
34420827 AAAAATGGTG
*
34420837 TTTTGACCCACAAACTTTCCAAAAATTATA
1 TTTTGACCCCCAAACTTTCCAAAAATTATA
* * * **
34420867 TTTTGACTCTCGAACTTTTTAAAAA-T-TA
1 TTTTGACCCCCAAACTTTCCAAAAATTATA
* * *
34420895 TGTTGACCCCCAAACTTTCTAAAAATTATG
1 TTTTGACCCCCAAACTTTCCAAAAATTATA
* *** *
34420925 TTTTTACCTTTAAATTTTCCAAAAATTATA
1 TTTTGACCCCCAAACTTTCCAAAAATTATA
* * *
34420955 ATCTCACCCCCAAACTTTCCAAAAATT
1 TTTTGACCCCCAAACTTTCCAAAAATT
34420982 CAAATTTAGC
Statistics
Matches: 87, Mismatches: 26, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
28 22 0.25
29 2 0.02
30 63 0.72
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTTGACCCCCAAACTTTCCAAAAATTATA
Found at i:34420919 original size:58 final size:59
Alignment explanation
Indices: 34420839--34420981 Score: 164
Period size: 58 Copynumber: 2.4 Consensus size: 59
34420829 AAATGGTGTT
* * * *
34420839 TTGACCCACAAACTTTCCAAAAATTATATTTTGACTCTCGAACTTTT-TAAAAATTAT-G
1 TTGACCCCCAAACTTTCCAAAAATTATATTTTGAC-CTCGAAATTTTCCAAAAATTATAA
* * * **
34420897 TTGACCCCCAAACTTTCTAAAAATTATGTTTTTACCTTTAAATTTTCCAAAAATTATAA
1 TTGACCCCCAAACTTTCCAAAAATTATATTTTGACCTCGAAATTTTCCAAAAATTATAA
*
34420956 TCTCACCCCCAAACTTTCCAAAAATT
1 T-TGACCCCCAAACTTTCCAAAAATT
34420982 CAAATTTAGC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
57 8 0.11
58 40 0.56
59 1 0.01
60 22 0.31
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.37
Consensus pattern (59 bp):
TTGACCCCCAAACTTTCCAAAAATTATATTTTGACCTCGAAATTTTCCAAAAATTATAA
Found at i:34425493 original size:23 final size:24
Alignment explanation
Indices: 34425467--34425511 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34425457 CTTAAAACCC
34425467 AAGAAAAGAAAA-AAGAAAAAGCA
1 AAGAAAAGAAAAGAAGAAAAAGCA
* *
34425490 AAGAAAATAAAAGAAGGAAAAG
1 AAGAAAAGAAAAGAAGAAAAAG
34425512 TCAAGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (24 bp):
AAGAAAAGAAAAGAAGAAAAAGCA
Found at i:34425517 original size:24 final size:22
Alignment explanation
Indices: 34425466--34425517 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
34425456 TCTTAAAACC
34425466 CAAGAAAAGAAAAAAGAAAAAG
1 CAAGAAAAGAAAAAAGAAAAAG
* *
34425488 CAAAGAAAATAAAAGAAGGAAAAG
1 C-AAGAAAAGAAAA-AAGAAAAAG
34425512 TCAAGA
1 -CAAGA
34425518 TGAAAACCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 12 0.48
25 1 0.04
ACGTcount: A:0.71, C:0.06, G:0.19, T:0.04
Consensus pattern (22 bp):
CAAGAAAAGAAAAAAGAAAAAG
Found at i:34426379 original size:14 final size:14
Alignment explanation
Indices: 34426330--34426411 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
34426320 TTTTACCCAA
34426330 AAAAAAGAGAAGAGAG
1 AAAAAAGAGAA-A-AG
*
34426346 AGAGAAA-AGAAAAG
1 A-AAAAAGAGAAAAG
*
34426360 -AAAAAGGGAAAAG
1 AAAAAAGAGAAAAG
*
34426373 AAAAAAGAAAAAAG
1 AAAAAAGAGAAAAG
34426387 AAGAAAA-AGCAAAAG
1 AA-AAAAGAG-AAAAG
* *
34426402 CAAAAGGAGA
1 AAAAAAGAGA
34426412 GGTCAAGATA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 4 0.08
13 6 0.12
14 20 0.38
15 13 0.25
16 5 0.10
17 4 0.08
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAAAAG
Found at i:34426384 original size:13 final size:12
Alignment explanation
Indices: 34426350--34426383 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
34426340 AGAGAGAGAG
34426350 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
34426362 AAAGGGAAAAGAA
1 AAA-AGAAAAGAA
34426375 AAAAGAAAA
1 AAAAGAAAA
34426384 AAGAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:34427356 original size:49 final size:48
Alignment explanation
Indices: 34427262--34427543 Score: 187
Period size: 49 Copynumber: 5.8 Consensus size: 48
34427252 AGATGAGATG
* * * *
34427262 GGAAAGATTGAATCCA-CAACGGTGAATCTTGTACCATAG-GAATGTGAA
1 GGAAAGATTGAA-GCAGCAACGGCGAATCTTATACCTTAGAG-ATGTGAA
* * *
34427310 GGAAGAGATTAAAGCAGCAATGGCGAATCTTATACCTTAGAGATGTGATT
1 GGAA-AGATTGAAGCAGCAACGGCGAATCTTATACCTTAGAGATGTGA-A
* * * * * *
34427360 GGAAAGGTTGAAGCCGCAAGGGCAAACCTTATACCTTAGTGATGTGAA
1 GGAAAGATTGAAGCAGCAACGGCGAATCTTATACCTTAGAGATGTGAA
* * ** * * *
34427408 GGGAAATATTGAAGCCGCAACGGTAAATCTTATATCC-TAAAGATGAAGAG
1 -GGAAAGATTGAAGCAGCAACGGCGAATCTTATA-CCTTAGAGATG-TGAA
* * * * * *
34427458 GGAAAGGTGGAAGCCA-CAACGGTGAACCTTATACCCTAGAGATGAGAA
1 GGAAAGATTGAAG-CAGCAACGGCGAATCTTATACCTTAGAGATGTGAA
* *
34427506 GGGAAAGATTAAAGTC-GTAACGGCGAATCTTATACCTT
1 -GGAAAGATTGAAG-CAGCAACGGCGAATCTTATACCTT
34427544 GAATATGTAG
Statistics
Matches: 183, Mismatches: 40, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
48 11 0.06
49 162 0.89
50 10 0.05
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (48 bp):
GGAAAGATTGAAGCAGCAACGGCGAATCTTATACCTTAGAGATGTGAA
Found at i:34427406 original size:98 final size:97
Alignment explanation
Indices: 34427251--34427543 Score: 254
Period size: 98 Copynumber: 3.0 Consensus size: 97
34427241 CTACACTTGG
* * * ** * * *
34427251 AAGATG-AGATGGGAAAGATTGAATCCACAACGGTGAATCTTGTACCATAG-GAATGTGAA-GGA
1 AAGATGAAGA-GGGAAAGGTGGAAGCCACAACGGCAAACCTTATACCCTAGAG-ATGTGAAGGGA
*
34427313 AGAGATTAAAGCAGCAATGGCGAATCTTATACCTTA
64 A-AGATTAAAGC-GCAACGGCGAATCTTATACCTTA
* * * * * * * *
34427349 GAGATG-TGATTGGAAAGGTTGAAGCCGCAAGGGCAAACCTTATACCTTAGTGATGTGAAGGGAA
1 AAGATGAAGA-GGGAAAGGTGGAAGCCACAACGGCAAACCTTATACCCTAGAGATGTGAAGGGAA
* * **
34427413 ATATTGAAGCCGCAACGGTAAATCTTATATCC-TA
65 AGATTAAAG-CGCAACGGCGAATCTTATA-CCTTA
** *
34427447 AAGATGAAGAGGGAAAGGTGGAAGCCACAACGGTGAACCTTATACCCTAGAGATGAGAAGGGAAA
1 AAGATGAAGAGGGAAAGGTGGAAGCCACAACGGCAAACCTTATACCCTAGAGATGTGAAGGGAAA
*
34427512 GATTAAAGTCGTAACGGCGAATCTTATACCTT
66 GATTAAAG-CGCAACGGCGAATCTTATACCTT
34427544 GAATATGTAG
Statistics
Matches: 155, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
97 2 0.01
98 143 0.92
99 10 0.06
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (97 bp):
AAGATGAAGAGGGAAAGGTGGAAGCCACAACGGCAAACCTTATACCCTAGAGATGTGAAGGGAAA
GATTAAAGCGCAACGGCGAATCTTATACCTTA
Found at i:34427858 original size:42 final size:43
Alignment explanation
Indices: 34427799--34427975 Score: 176
Period size: 46 Copynumber: 4.0 Consensus size: 43
34427789 GAAGTTACAT
* * * * *
34427799 CATCATCTAATCTTTTACCCC-GACCACGAGGCAAATTGAAGC
1 CATCATCCAATCTTTTACCCCAGTCAAAGAGGCAGATTGAAGC
*
34427841 CATCATCCAATCTTTTACCCCTAAGTCAAGAGAGGCAGATTGAAGT
1 CATCATCCAATCTTTTACCCC--AGTCAA-AGAGGCAGATTGAAGC
* *
34427887 CATCATCCAATATTTTACCCCTAAGTCAAAAGGGGCAGATTGAAGC
1 CATCATCCAATCTTTTACCCC--AGTC-AAAGAGGCAGATTGAAGC
* * *
34427933 CATCATCCTATCTTTTACCCTAAGTCAAGAGGGGCAGATTGAA
1 CATCATCCAATCTTTTACCC-CAGTCAA-AGAGGCAGATTGAA
34427976 ATTATTATCT
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
42 20 0.17
44 2 0.02
45 21 0.18
46 71 0.61
47 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CATCATCCAATCTTTTACCCCAGTCAAAGAGGCAGATTGAAGC
Found at i:34427969 original size:45 final size:46
Alignment explanation
Indices: 34427828--34427975 Score: 235
Period size: 46 Copynumber: 3.2 Consensus size: 46
34427818 CCGACCACGA
* *
34427828 GGCAAATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGA
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGG
* * *
34427874 GGCAGATTGAAGTCATCATCCAATATTTTACCCCTAAGTCAAAAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGG
*
34427920 GGCAGATTGAAGCCATCATCCTATCTTTTA-CCCTAAGTCAAGAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGG
34427965 GGCAGATTGAA
1 GGCAGATTGAA
34427976 ATTATTATCT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 25 0.27
46 68 0.73
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (46 bp):
GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGG
Found at i:34428116 original size:73 final size:72
Alignment explanation
Indices: 34427998--34428155 Score: 203
Period size: 73 Copynumber: 2.2 Consensus size: 72
34427988 CTCAAGTTAC
* * * *
34427998 AGTGGAGCAAAAAATGAAGTAGAGCTCCATGTGAGTGAAACTTCAAA-CCCCA-TTCCTGATGAG
1 AGTGGATCAAAAAATAAAGTAGAGCTCAACGTGAGTGAAACTTCAAACCCCCACTTCCTGATGAG
*
34428061 ATGCAGAGA
66 ATAC-G-GA
* *
34428070 AGTGGGTCAAAATAATAAAGTGGAGCTCAACGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
1 AGTGGATCAAAA-AATAAAGTAGAGCTCAACGTGAGTGAAACTTCAAACCCCCA-CTTCCTGATG
34428135 AGATACGGA
64 AGATACGGA
34428144 AGTGGATCAAAA
1 AGTGGATCAAAA
34428156 CAATGAAGCG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
72 10 0.14
73 31 0.42
74 18 0.24
75 1 0.01
76 14 0.19
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (72 bp):
AGTGGATCAAAAAATAAAGTAGAGCTCAACGTGAGTGAAACTTCAAACCCCCACTTCCTGATGAG
ATACGGA
Found at i:34428210 original size:48 final size:46
Alignment explanation
Indices: 34428123--34428212 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 46
34428113 TCAAACCCCC
* *
34428123 ATCTTCCTGATGAGATACGGAAGTGGATCAAAACAATGAAGCGATA
1 ATCTTCCTAATGAGATACGGAAGTGGACCAAAACAATGAAGCGATA
*
34428169 ATCTTCCTAATGAGATACAGAGAAGTTGACCAAAACAATGAAGC
1 ATCTTCCTAATGAGATAC-G-GAAGTGGACCAAAACAATGAAGC
34428213 TAAGCTCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 17 0.44
47 1 0.03
48 21 0.54
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (46 bp):
ATCTTCCTAATGAGATACGGAAGTGGACCAAAACAATGAAGCGATA
Found at i:34428488 original size:220 final size:223
Alignment explanation
Indices: 34428103--34428719 Score: 825
Period size: 220 Copynumber: 2.8 Consensus size: 223
34428093 AGCTCAACGT
* *
34428103 GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATA-CG-GAAGTGGATCAAAACAATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATAAGATATAGAGAAGTGGATCAAAACAATGAAGCG
* * * * *
34428166 ATAATCTTCCTAATGAGATACAGAGAAGTTGACCAAAACAATGAAGCTAAGCTCAATGTGAGTGA
66 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGA
* * * *
34428231 AAATTCAAACCCCATCTTCTTGAT-AAGATACAGAGAAAGGGATAAAAACAATGAAGCAGAGCTT
131 AACTTCAAACCCCATCTTCCTGATGAAGATACAGAGAAAGGGATAAAAACAATGAAGAAAAGCTT
34428295 AACATCCCTGAGGTTAC-AG-TGAAGTA
196 AACATCCCTGAGGTTACAAGTTGAAGTA
* *
34428321 GAGTGAAACTTCAAACCCCCATCTTCCTGATAAGATATAGAGAAGTAGACCAAAACAATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATAAGATATAGAGAAGTGGATCAAAACAATGAAGCG
* * * * **
34428386 GTCATCTTCCTGATGTGATACAAAGAAGTGGACCAAAATAATGAAACGAAATTCAATGTGAGTGA
66 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGA
* * *
34428451 AACTTCAAACCCCATCTTCCTAATGAA-ATATAGAGAAAGGGATCAAAACAATGAAGAAAAGCTT
131 AACTTCAAACCCCATCTTCCTGATGAAGATACAGAGAAAGGGATAAAAACAATGAAGAAAAGCTT
34428515 AACATCCCTGAGGTTACAGTAGAGTAGAGTTGAAGTA
196 AACATCCCTGAGGTTAC--------A-AGTTGAAGTA
* * * * *
34428552 GAGTGAAACTTCAAACCTCCATCTTCTTGATAAGATATAAAGAACTGGATCAAAATAATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATAAGATATAGAGAAGTGGATCAAAACAATGAAGCG
* *
34428617 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGACGCGAAGCTCAATGTAAGTGA
66 GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGA
*
34428682 AACTTCAAACCCCCATCTTCCTGATG-AGATACAAAGAA
131 AACTTCAAA-CCCCATCTTCCTGATGAAGATACAGAGAA
34428720 GTGGGCCAAA
Statistics
Matches: 343, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
218 36 0.10
219 1 0.00
220 147 0.43
221 2 0.01
230 2 0.01
231 132 0.38
232 23 0.07
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (223 bp):
GAGTGAAACTTCAAACCCCCATCTTCCTGATAAGATATAGAGAAGTGGATCAAAACAATGAAGCG
GTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGA
AACTTCAAACCCCATCTTCCTGATGAAGATACAGAGAAAGGGATAAAAACAATGAAGAAAAGCTT
AACATCCCTGAGGTTACAAGTTGAAGTA
Found at i:34428745 original size:76 final size:76
Alignment explanation
Indices: 34428619--34428806 Score: 286
Period size: 76 Copynumber: 2.5 Consensus size: 76
34428609 ATGAAGCGGT
* * * * *
34428619 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGACGCGAAGCTCAATGTAAGTGAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTAAGTAAAA
*
34428684 CTTCAAACCCC
66 CTTCAAAACCC
* *
34428695 CATCTTCCTGATGAGATACAAAGAAGTGGGCCAAAAAAATAAAGCGAAGCTCAATGTGAGTAAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTAAGTAAAA
34428760 CTTCAAAACCC
66 CTTCAAAACCC
* *
34428771 CATCTTTCTGATGAGATACAAAGAAGTGGATCAAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAA
34428807 CGATGAAATG
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 101 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (76 bp):
CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTAAGTAAAA
CTTCAAAACCC
Found at i:34428853 original size:124 final size:124
Alignment explanation
Indices: 34428695--34429085 Score: 523
Period size: 124 Copynumber: 3.2 Consensus size: 124
34428685 TTCAAACCCC
* *
34428695 CATCTTCCTGATGAGATACAAAGAAGTGGGCCAAAAAAATAAAGCGAAGCTCAATGTGAGTAAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTGAGTGAAA
* * *
34428760 CTTCAAAACCCCATCTTTCTGATGAGATACAAAGAAGTGGATCAAAACGATGAAATGGT
66 CTTCAAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACGATGAAACGGT
* * * *
34428819 CATCGTCCTGATGAGATACAGAGAAGTGGACCAAAATAATTAAGCGAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTGAGTGAAA
* * * * * *
34428884 CTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAATGTATCAAAACAATGAAGCGGT
66 CTTCAAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACGATGAAACGGT
* * * * ** *
34428943 AATCTTCTTGATGAGATATAAAGAAGTGGACCAAAACAATGGAGCGAAGCTCAATATGAGTGAAA
1 CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTGAGTGAAA
* * **
34429008 CTTC-AAACCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACGATGAAGCAAT
66 CTTCAAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACGATGAAACGGT
* *
34429066 CATCTTCCTTACGAGATACA
1 CATCTTCCTGATGAGATACA
34429086 GAGAGGGCTC
Statistics
Matches: 230, Mismatches: 37, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
123 61 0.27
124 169 0.73
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (124 bp):
CATCTTCCTGATGAGATACAAAGAAGTGGACCAAAAAAATAAAGCGAAGCTCAATGTGAGTGAAA
CTTCAAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACGATGAAACGGT
Done.