Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 19 of 216
Found at i:5926669 original size:41 final size:40
Alignment explanation
Indices: 5926566--5926680 Score: 146
Period size: 37 Copynumber: 2.9 Consensus size: 40
5926556 CTTTATCGGA
*
5926566 TAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCGAC
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAC
** * * *
5926606 TAAACCG-A--AGTAAATTGGCACCCAGTGCCTCATCGAAT
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCG-AC
5926644 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATC
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATC
5926681 AACTCGAAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 24 0.39
38 6 0.10
39 2 0.03
40 5 0.08
41 24 0.39
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAC
Found at i:5929583 original size:25 final size:25
Alignment explanation
Indices: 5929552--5929611 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
5929542 ATTATTATGG
*
5929552 TTTTGTCTACAGTTTCGTGATTTTA
1 TTTTGTCCACAGTTTCGTGATTTTA
* *
5929577 TTTTGTCCATAGTTTTGTGATTTTA
1 TTTTGTCCACAGTTTCGTGATTTTA
*
5929602 TTTTGACCAC
1 TTTTGTCCAC
5929612 TCTTATATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (25 bp):
TTTTGTCCACAGTTTCGTGATTTTA
Found at i:5934618 original size:25 final size:24
Alignment explanation
Indices: 5934557--5934618 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
5934547 AAGCGGTAAG
**
5934557 AAACTTGAGCTTGAGCTCAACTCA
1 AAACTTGAGCTTGAGCTCAAAGCA
* *
5934581 AAATTTGAGGCTTGAGACTCAAAGCT
1 AAACTTGA-GCTTGAG-CTCAAAGCA
*
5934607 AGACTTGAGCTT
1 AAACTTGAGCTT
5934619 AACGGAGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 7 0.23
25 11 0.37
26 12 0.40
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
AAACTTGAGCTTGAGCTCAAAGCA
Found at i:5940288 original size:31 final size:30
Alignment explanation
Indices: 5940253--5940321 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5940243 TTTTTTTTGT
5940253 CCAAACCCATTTTTCGGAACTATATTTTTAC
1 CCAAACCCATTTTT-GGAACTATATTTTTAC
*** * *
5940284 CCAAATTTATTTTTTGAACTATATTTTTAT
1 CCAAACCCATTTTTGGAACTATATTTTTAC
5940314 CCAAACCC
1 CCAAACCC
5940322 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
CCAAACCCATTTTTGGAACTATATTTTTAC
Found at i:5944386 original size:27 final size:25
Alignment explanation
Indices: 5944356--5944428 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 25
5944346 ATTATTAATC
5944356 TTTTTATAATTAATTATTAAATTATTA
1 TTTTTATAATTAA-TATTAAATTA-TA
*
5944383 TTTTTAT-ATTAATATGTTAA-TATA
1 TTTTTATAATTAATAT-TAAATTATA
5944407 TTATTTATAATTAA-ATTTAAAT
1 TT-TTTATAATTAATA-TTAAAT
5944429 AAAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 4 0.10
25 14 0.36
26 14 0.36
27 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTTATAATTAATATTAAATTATA
Found at i:5944640 original size:16 final size:15
Alignment explanation
Indices: 5944591--5944641 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
5944581 CCAATATAAG
5944591 TATATAATAT-AATA
1 TATATAATATAAATA
*
5944605 TACATAGATATAAA-A
1 TATATA-ATATAAATA
5944620 TTATATAATTATAAATA
1 -TATATAA-TATAAATA
5944637 TATAT
1 TATAT
5944642 TCAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 18 0.60
17 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATAATATAAATA
Found at i:5949898 original size:21 final size:23
Alignment explanation
Indices: 5949856--5949898 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
5949846 TAATTAATTA
*
5949856 TAAACAGAAGCAAATCTCTTTTG
1 TAAACAGAAGCAAATATCTTTTG
*
5949879 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
5949899 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTG
Found at i:5952786 original size:34 final size:34
Alignment explanation
Indices: 5952743--5952953 Score: 206
Period size: 34 Copynumber: 6.1 Consensus size: 34
5952733 AAATAATACC
** * *
5952743 AGAAATGATGAATGAACAGGAGAGATTCCCTACA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* *
5952777 AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* * * * *
5952811 ACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
1 A-GAAATGATGCGTGAACAAGAGAGATTCCCTGCA
*
5952846 AGAAATGATGCGTGAACAAGAAAGATTCCCTGCA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* * *
5952880 AGAAATGATGTGTGAAAAAGAGAGATTCTCTGCA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* ** * * * *
5952914 ACAAAAAAATGCGTGAATAGGAAATATTCCCTGCA
1 A-GAAATGATGCGTGAACAAGAGAGATTCCCTGCA
5952949 AGAAA
1 AGAAA
5952954 AGACAAGTGA
Statistics
Matches: 147, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
34 94 0.64
35 53 0.36
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (34 bp):
AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
Found at i:5952925 original size:103 final size:103
Alignment explanation
Indices: 5952743--5952953 Score: 332
Period size: 103 Copynumber: 2.0 Consensus size: 103
5952733 AAATAATACC
* * * *
5952743 AGAAATGATGAATGAACAGGAGAGATTCCCTACAAGAAATGATGTGTGAACATGAGAGATTCCCT
1 AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
*
5952808 GCAACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
66 GCAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
** * *
5952846 AGAAATGATGCGTGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAAAAAGAGAGATTCTCT
1 AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
*
5952911 GCAACAAAAAAATGCGTGAATAGGAAATATTCCCTGCA
66 GCAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
5952949 AGAAA
1 AGAAA
5952954 AGACAAGTGA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (103 bp):
AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
GCAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
Found at i:5953221 original size:14 final size:13
Alignment explanation
Indices: 5953191--5953228 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
5953181 AGTTTCCAAA
*
5953191 TTTTCAAATTGAG
1 TTTTCAAATTAAG
5953204 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
5953218 TTTTCAAATTA
1 TTTTCAAATTA
5953229 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:5958969 original size:22 final size:22
Alignment explanation
Indices: 5958922--5958963 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5958912 TATATATTTA
*
5958922 AAAAAATTATTAAAAATTCACC
1 AAAAAATCATTAAAAATTCACC
5958944 AAAAAATCATTAAAAATTCA
1 AAAAAATCATTAAAAATTCA
5958964 TTAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAATCATTAAAAATTCACC
Found at i:5958970 original size:10 final size:11
Alignment explanation
Indices: 5958923--5958969 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
5958913 ATATATTTAA
5958923 AAAAATT-ATT
1 AAAAATTCATT
**
5958933 AAAAATTCACC
1 AAAAATTCATT
*
5958944 AAAAAATCATT
1 AAAAATTCATT
5958955 AAAAATTCATT
1 AAAAATTCATT
5958966 AAAA
1 AAAA
5958970 TAAAAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 7 0.23
11 23 0.77
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATTCATT
Found at i:5960327 original size:18 final size:18
Alignment explanation
Indices: 5960304--5960340 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5960294 ATATTTTTTT
5960304 TTATTTTAAAAAATTTAA
1 TTATTTTAAAAAATTTAA
* *
5960322 TTATTTTTAAATATTTAA
1 TTATTTTAAAAAATTTAA
5960340 T
1 T
5960341 AATTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTTAAAAAATTTAA
Found at i:5960679 original size:24 final size:23
Alignment explanation
Indices: 5960652--5960706 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
5960642 ATTTACCATG
5960652 TTTAAATTAAATTGTT-TATGATTT
1 TTTAAATTAAATT-TTATAT-ATTT
5960676 TTTAAATTAAATTTTACTATATTT
1 TTTAAATTAAATTTTA-TATATTT
5960700 TTTAAAT
1 TTTAAAT
5960707 ATTAATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAAATTAAATTTTATATATTT
Found at i:5960721 original size:25 final size:24
Alignment explanation
Indices: 5960652--5960721 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
5960642 ATTTACCATG
* *
5960652 TTTAAAT-TAAATTGTTTATGATTT
1 TTTAAATATTAATTTTTTAT-ATTT
* *
5960676 TTTAAAT-TAAATTTTACTATATTT
1 TTTAAATATTAATTTT-TTATATTT
5960700 TTTAAATATTAATTTATTTATA
1 TTTAAATATTAATTT-TTTATA
5960722 ATTGAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 25 0.64
25 13 0.33
26 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAAATATTAATTTTTTATATTT
Found at i:5966243 original size:14 final size:14
Alignment explanation
Indices: 5966187--5966242 Score: 67
Period size: 14 Copynumber: 3.8 Consensus size: 14
5966177 CAAGCTAATA
5966187 ACTAACTGTTAACT
1 ACTAACTGTTAACT
*
5966201 AACTACAACTATTAACT
1 -ACT--AACTGTTAACT
*
5966218 ACTAACTGTTACCT
1 ACTAACTGTTAACT
5966232 ACTAACTGTTA
1 ACTAACTGTTA
5966243 CAACCTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
16 3 0.08
17 10 0.28
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (14 bp):
ACTAACTGTTAACT
Found at i:5975368 original size:19 final size:19
Alignment explanation
Indices: 5975340--5975376 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5975330 TAATATGAGC
*
5975340 AAAAACAAACAAATCAATA
1 AAAAAAAAACAAATCAATA
5975359 AAAAAAAAACAAATCAAT
1 AAAAAAAAACAAATCAAT
5975377 CGTGTATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAAAACAAATCAATA
Found at i:5977214 original size:20 final size:21
Alignment explanation
Indices: 5977184--5977225 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5977174 CTACCAAGTG
5977184 AGTATTTTTTTTATTTCAAAA
1 AGTATTTTTTTTATTTCAAAA
5977205 AGTATTTTTTTTATTTCAAAA
1 AGTATTTTTTTTATTTCAAAA
5977226 TCTCAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
AGTATTTTTTTTATTTCAAAA
Found at i:5979491 original size:16 final size:16
Alignment explanation
Indices: 5979454--5979493 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
5979444 TGACTCAAAT
* *
5979454 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
5979470 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
5979486 TAAAATTA
1 TAAAATTA
5979494 TCAAATTATT
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:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:5979558 original size:66 final size:59
Alignment explanation
Indices: 5979496--5979611 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
5979486 TAAAATTATC
* * *
5979496 AAATTAT-TAATTGTTAATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGTA
*
5979554 AAATTATCAAATTTTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGT
1 AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGT
5979612 TTACATTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 7 0.13
59 46 0.87
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (59 bp):
AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGTA
Found at i:5980936 original size:25 final size:28
Alignment explanation
Indices: 5980902--5980958 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
5980892 AACTAAAAAC
*
5980902 TTAAATAT-AAAAA-TAAATATATAT-T
1 TTAAACATAAAAAACTAAATATATATAT
*
5980927 TTAAACATAAAAAACTTAATATATATAT
1 TTAAACATAAAAAACTAAATATATATAT
5980955 TTAA
1 TTAA
5980959 TATATTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 5 0.19
27 10 0.37
28 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAAACATAAAAAACTAAATATATATAT
Found at i:5982036 original size:13 final size:14
Alignment explanation
Indices: 5982020--5982048 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5982010 TTTTAAATAT
5982020 TTATAATG-TTTAA
1 TTATAATGATTTAA
5982033 TTATAATGATTTAA
1 TTATAATGATTTAA
5982047 TT
1 TT
5982049 CTTTGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:5988060 original size:19 final size:18
Alignment explanation
Indices: 5988036--5988083 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
5988026 TAAGAAATAT
*
5988036 ATATTTTTTATTTTTAAAA
1 ATATTTTTTATATTT-AAA
**
5988055 ATATTTTAAAATATTTAAA
1 ATATTTT-TTATATTTAAA
5988074 ATATTTTTTA
1 ATATTTTTTA
5988084 AATACTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTTTTATATTTAAA
Found at i:5988067 original size:10 final size:10
Alignment explanation
Indices: 5988047--5988080 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
5988037 TATTTTTTAT
5988047 TTTTAAAAATA
1 TTTT-AAAATA
5988058 TTTTAAAATA
1 TTTTAAAATA
5988068 -TTTAAAATA
1 TTTTAAAATA
5988077 TTTT
1 TTTT
5988081 TTAAATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:5989095 original size:29 final size:29
Alignment explanation
Indices: 5989062--5989117 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
5989052 ATATGGACAA
5989062 GATCAAATTAGTCCCTCTATTATTAAATT
1 GATCAAATTAGTCCCTCTATTATTAAATT
* * *
5989091 GATCAATTTAGTCTCTTTATTATTAAA
1 GATCAAATTAGTCCCTCTATTATTAAA
5989118 AGGAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (29 bp):
GATCAAATTAGTCCCTCTATTATTAAATT
Found at i:5989811 original size:16 final size:16
Alignment explanation
Indices: 5989787--5989833 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
5989777 GTTAACAATT
*
5989787 TTAACATTAAAATAAA
1 TTAATATTAAAATAAA
5989803 TTAATATTAAAA-AAA
1 TTAATATTAAAATAAA
5989818 -T-AT-TTAAAATAAA
1 TTAATATTAAAATAAA
5989831 TTA
1 TTA
5989834 GCAGTAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 2 0.07
15 3 0.11
16 11 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAATATTAAAATAAA
Found at i:5990813 original size:21 final size:21
Alignment explanation
Indices: 5990787--5990846 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
5990777 GAGATGGAGT
* *
5990787 TGGAGCTGGAGGTGGAATTGG
1 TGGAGCTGGTGGTGGAACTGG
5990808 TGGAGCTGGTGGTGGTGGAACTGG
1 TGGAGC---TGGTGGTGGAACTGG
5990832 TGGAGCTGGTGGTGG
1 TGGAGCTGGTGGTGG
5990847 TGGAACTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 15 0.44
24 19 0.56
ACGTcount: A:0.13, C:0.07, G:0.55, T:0.25
Consensus pattern (21 bp):
TGGAGCTGGTGGTGGAACTGG
Found at i:5990832 original size:24 final size:24
Alignment explanation
Indices: 5990797--5990882 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
5990787 TGGAGCTGGA
*
5990797 GGTGGAATTGGTGGAGCTGGTGGT
1 GGTGGAACTGGTGGAGCTGGTGGT
5990821 GGTGGAACTGGTGGAGCTGGTGGT
1 GGTGGAACTGGTGGAGCTGGTGGT
**
5990845 GGTGGAACTGGAACTGGAATTGGTGGT
1 GGTGGAACTGG---TGGAGCTGGTGGT
*
5990872 GGTGGAGCTGG
1 GGTGGAACTGG
5990883 AGCTAGAACT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
24 34 0.62
27 21 0.38
ACGTcount: A:0.15, C:0.07, G:0.52, T:0.26
Consensus pattern (24 bp):
GGTGGAACTGGTGGAGCTGGTGGT
Found at i:5990850 original size:15 final size:15
Alignment explanation
Indices: 5990805--5990834 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5990795 GAGGTGGAAT
*
5990805 TGGTGGAGCTGGTGG
1 TGGTGGAACTGGTGG
5990820 TGGTGGAACTGGTGG
1 TGGTGGAACTGGTGG
5990835 AGCTGGTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.57, T:0.27
Consensus pattern (15 bp):
TGGTGGAACTGGTGG
Found at i:5990862 original size:27 final size:27
Alignment explanation
Indices: 5990808--5991219 Score: 126
Period size: 27 Copynumber: 15.1 Consensus size: 27
5990798 GTGGAATTGG
5990808 TGGAGCTGGTGGTGGTGGAACTGG---
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
5990832 TGGAGCTGGTGGTGGTGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* * *
5990859 TGGAATTGGTGGTGGTGGAGCTGGAGCTAGAAC
1 TGG-A--GCTGGTGGT-G-G-TGGAACTGGAAC
* * * * * *
5990892 TGGATCTGATGGAGTTGGAGCTGGAAT
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** *
5990919 TGGAATTGGTGGTGGTGGAACTAGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** ** * * * *
5990946 TAAAAATGGAGATGGAGTAGGTTA-TGGAGC
1 TGGAGCTGGTGGT-G-GT-GG-AACTGGAAC
* *** * *
5990976 TGGAGGTGGAACTGGTGGAGCTAG-A-
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *
5991001 -GGAGTTGGTGGTGATGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
**
5991027 TGGTAG-TGG-AAT--TGGAACTGGAAC
1 TGG-AGCTGGTGGTGGTGGAACTGGAAC
* * *
5991051 TGGAACTGGAACTGGTGGTGAAACTGGAGC
1 TGGAGCTGG---TGGTGGTGGAACTGGAAC
* * *** *
5991081 TGGTGGTGGTGGAACTGGAGCTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *
5991108 TGGTGGTGGTGGTGGTGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *** *
5991135 TAGAGCTGGAACTGGTGGAATTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** *
5991162 TGGAATTGGTGGTGGTGGAATTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* * * * * *
5991189 TGGTGGTAGTGGAGCTGGAGCTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
5991216 TGGA
1 TGGA
5991220 ATTGGAATTG
Statistics
Matches: 278, Mismatches: 85, Indels: 47
0.68 0.21 0.11
Matches are distributed among these distances:
23 1 0.00
24 58 0.21
25 1 0.00
26 1 0.00
27 147 0.53
28 7 0.03
29 4 0.01
30 42 0.15
31 2 0.01
32 2 0.01
33 13 0.05
ACGTcount: A:0.23, C:0.08, G:0.44, T:0.24
Consensus pattern (27 bp):
TGGAGCTGGTGGTGGTGGAACTGGAAC
Found at i:5991026 original size:6 final size:6
Alignment explanation
Indices: 5991015--5991065 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
5991005 TTGGTGGTGA
* * *
5991015 TGGAAC TGGAAC TGGTAG TGGAAT TGGAAC TGGAAC TGGAAC TGGAAC
1 TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC
5991063 TGG
1 TGG
5991066 TGGTGAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.22
Consensus pattern (6 bp):
TGGAAC
Found at i:5991030 original size:18 final size:18
Alignment explanation
Indices: 5991009--5991110 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 18
5990999 GAGGAGTTGG
5991009 TGGTGATGGAACTGGAAC
1 TGGTGATGGAACTGGAAC
*
5991027 TGGT-AGTGGAATTGGAAC
1 TGGTGA-TGGAACTGGAAC
*
5991045 TGG-AACTGGAACTGGAAC
1 TGGTGA-TGGAACTGGAAC
* * *
5991063 TGGTGGTGAAACTGGAGC
1 TGGTGATGGAACTGGAAC
*
5991081 TGGTGGTGG---TGGAAC
1 TGGTGATGGAACTGGAAC
* *
5991096 TGGAGCTGGAACTGG
1 TGGTGATGGAACTGG
5991111 TGGTGGTGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
15 12 0.18
17 1 0.01
18 54 0.81
ACGTcount: A:0.25, C:0.11, G:0.42, T:0.23
Consensus pattern (18 bp):
TGGTGATGGAACTGGAAC
Found at i:5991107 original size:12 final size:12
Alignment explanation
Indices: 5991015--5991110 Score: 74
Period size: 12 Copynumber: 8.2 Consensus size: 12
5991005 TTGGTGGTGA
*
5991015 TGGAACTGGAAC
1 TGGAGCTGGAAC
*
5991027 TGGTAG-TGGAAT
1 TGG-AGCTGGAAC
*
5991039 TGGAACTGGAAC
1 TGGAGCTGGAAC
*
5991051 TGGAACTGGAAC
1 TGGAGCTGGAAC
* * *
5991063 TGGTGGTGAAAC
1 TGGAGCTGGAAC
5991075 TGGAGCTGG---
1 TGGAGCTGGAAC
* *
5991084 TGGTGGTGGAAC
1 TGGAGCTGGAAC
5991096 TGGAGCTGGAAC
1 TGGAGCTGGAAC
5991108 TGG
1 TGG
5991111 TGGTGGTGGT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
9 7 0.11
11 1 0.02
12 55 0.86
13 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.42, T:0.22
Consensus pattern (12 bp):
TGGAGCTGGAAC
Found at i:5991109 original size:33 final size:33
Alignment explanation
Indices: 5991057--5991152 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
5991047 GAACTGGAAC
* * *
5991057 TGGAACTGGTGGTGAAACTGGAGCTGGTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
* *
5991090 TGGAACTGGAGCTGGAACTGGTGGTGGTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
* * * *
5991123 TGGAACTGGAACTAGAGCTGGAACTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGG
5991153 AATTGGAACT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.20, C:0.10, G:0.47, T:0.23
Consensus pattern (33 bp):
TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
Found at i:5991111 original size:21 final size:21
Alignment explanation
Indices: 5991045--5991212 Score: 99
Period size: 21 Copynumber: 8.0 Consensus size: 21
5991035 GAATTGGAAC
*
5991045 TGGAACTGGAACTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
***
5991066 TGGTGAAACTGGAGCTGGTGGTGG
1 T-G-G-AACTGGAGCTGGAACTGG
5991090 TGGAACTGGAGCTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
*** * *
5991111 TGGTGGTGGTGGTGGAAC---
1 TGGAACTGGAGCTGGAACTGG
*
5991129 TGGAACTAGAGCTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
* * *
5991150 TGGAATTGGAACTGGAATTGG
1 TGGAACTGGAGCTGGAACTGG
*** **
5991171 TGGTGGTGGAATTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
* * *
5991192 TGGTAGTGGAGCTGGAGCTGG
1 TGGAACTGGAGCTGGAACTGG
5991213 AACTGGAATT
Statistics
Matches: 110, Mismatches: 31, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
18 12 0.11
21 79 0.72
22 2 0.02
23 2 0.02
24 15 0.14
ACGTcount: A:0.21, C:0.10, G:0.45, T:0.24
Consensus pattern (21 bp):
TGGAACTGGAGCTGGAACTGG
Found at i:5991124 original size:39 final size:43
Alignment explanation
Indices: 5991039--5991152 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 43
5991029 GTAGTGGAAT
*
5991039 TGGAACTGGAACTGGAACTGGAACTGGTGGTGAAACTGGAGCTGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGGTG--ACTGGAGCTGG
*** *
5991084 TGGTGGTGGAACTGGAGCTGGAACTGGTGGTG-GT-G-G-TGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGGTGACTGGAGCTGG
*
5991123 TGGAACTGGAACTAGAGCTGGAACTGGTGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGG
5991153 AATTGGAACT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 29 0.48
40 1 0.02
41 1 0.02
42 1 0.02
45 28 0.47
ACGTcount: A:0.22, C:0.11, G:0.45, T:0.22
Consensus pattern (43 bp):
TGGAACTGGAACTGGAGCTGGAACTGGTGGTGACTGGAGCTGG
Found at i:5991161 original size:15 final size:15
Alignment explanation
Indices: 5991141--5991194 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
5991131 GAACTAGAGC
5991141 TGGAACTGGTGGAAT
1 TGGAACTGGTGGAAT
5991156 TGGAAC---TGGAAT
1 TGGAACTGGTGGAAT
***
5991168 TGGTGGTGGTGGAAT
1 TGGAACTGGTGGAAT
5991183 TGGAACTGGTGG
1 TGGAACTGGTGG
5991195 TAGTGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 9 0.30
15 21 0.70
ACGTcount: A:0.22, C:0.06, G:0.44, T:0.28
Consensus pattern (15 bp):
TGGAACTGGTGGAAT
Found at i:5991166 original size:39 final size:39
Alignment explanation
Indices: 5991090--5991166 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
5991080 CTGGTGGTGG
* ** ***
5991090 TGGAACTGGAGCTGGAACTGGTGGTGGTGGTGGTGGAAC
1 TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAAC
*
5991129 TGGAACTAGAGCTGGAACTGGTGGAATTGGAACTGGAA
1 TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAA
5991167 TTGGTGGTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.43, T:0.22
Consensus pattern (39 bp):
TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAAC
Found at i:5991219 original size:54 final size:54
Alignment explanation
Indices: 5991005--5991224 Score: 200
Period size: 54 Copynumber: 4.1 Consensus size: 54
5990995 GCTAGAGGAG
* *
5991005 TTGGTGGTGATGGAACTGGAAC---TGGTAGTGGAATTGGAACTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
* * * * * **
5991056 CTGGAACTGGTGGTGAAACTGGAGCTGGTGGTGGTGGAACTGGAGCTGGAACTGGTG
1 TTGG---TGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
* * * *
5991113 GTGGTGGTGGTGGAACTGGAACTAGAGCTGGAACTGG---TGGAATTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACT-G-G-TGGTAGTGGAACTGGAACTGGAACTGGAA
* * *
5991167 TTGGTGGTGGTGGAATTGGAACTGGTGGTAGTGGAGCTGGAGCTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
5991221 TTGG
1 TTGG
5991225 AATTGGTGGT
Statistics
Matches: 132, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
51 10 0.08
52 1 0.01
53 1 0.01
54 85 0.64
55 1 0.01
56 1 0.01
57 33 0.25
ACGTcount: A:0.23, C:0.09, G:0.44, T:0.25
Consensus pattern (54 bp):
TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
Found at i:5991381 original size:18 final size:18
Alignment explanation
Indices: 5991348--5991382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5991338 AAAGTGGTGG
*
5991348 AGCTAGTGGAGTTGGAAA
1 AGCTAGTGGAGGTGGAAA
*
5991366 AGCTAGTGGTGGTGGAA
1 AGCTAGTGGAGGTGGAA
5991383 CTGGTGGAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
AGCTAGTGGAGGTGGAAA
Found at i:5997230 original size:20 final size:20
Alignment explanation
Indices: 5997205--5997265 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
5997195 TATGAACATT
5997205 AAATAAATTAATATAATAAA
1 AAATAAATTAATATAATAAA
* *
5997225 AAAT-AATTACATAGAA-CAA
1 AAATAAATTA-ATATAATAAA
* *
5997244 AAATAAATATAAAATTATAAA
1 AAATAAAT-TAATATAATAAA
5997265 A
1 A
5997266 GAATCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 11 0.35
20 15 0.48
21 5 0.16
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAAATTAATATAATAAA
Found at i:5998644 original size:23 final size:23
Alignment explanation
Indices: 5998617--5998661 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5998607 TTTCCTAATG
*
5998617 AAACCAAATTCAATACCAAATCA
1 AAACCAAATCCAATACCAAATCA
*
5998640 AAACCAAATCCAATATCAAATC
1 AAACCAAATCCAATACCAAATC
5998662 GAGCTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
AAACCAAATCCAATACCAAATCA
Found at i:5998661 original size:12 final size:12
Alignment explanation
Indices: 5998619--5998661 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
5998609 TCCTAATGAA
*
5998619 ACCAAATTCAAT
1 ACCAAATCCAAT
*
5998631 ACCAAAT-CAAA
1 ACCAAATCCAAT
5998642 ACCAAATCCAAT
1 ACCAAATCCAAT
*
5998654 ATCAAATC
1 ACCAAATC
5998662 GAGCTTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (12 bp):
ACCAAATCCAAT
Found at i:6004994 original size:30 final size:29
Alignment explanation
Indices: 6004955--6005060 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 29
6004945 GGTGGAGGCT
*
6004955 TTGGTAAAGGTGGTGGATATGGTGGTGGGA
1 TTGG-AAAGGTGGTGGATATGGTGGTGGAA
* * *
6004985 TTGGCAAAGGAGGAGG-TGTTGGTGGTGGAA
1 TTGG-AAAGGTGGTGGAT-ATGGTGGTGGAA
* * *
6005015 TTGGGAAAGGTGGTGGATACGGAGGTGGCA
1 TT-GGAAAGGTGGTGGATATGGTGGTGGAA
*
6005045 TAGGAAAGGGTGGTGG
1 TTGGAAA-GGTGGTGG
6005061 GATTGGCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
29 6 0.10
30 51 0.85
31 3 0.05
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.24
Consensus pattern (29 bp):
TTGGAAAGGTGGTGGATATGGTGGTGGAA
Found at i:6005246 original size:156 final size:156
Alignment explanation
Indices: 6004975--6005264 Score: 476
Period size: 156 Copynumber: 1.9 Consensus size: 156
6004965 TGGTGGATAT
* *
6004975 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTGGGAAAGGTGGTGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAAGGTGGAGGATACGGAGG
* * *
6005040 TGGCATAGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTG
66 TGGCATAGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGTGATGGAGGTGGAATCGGAAAGGGAG
6005105 GAGGATACGGAGGTGGCATAGGAAAA
131 GAGGATACGGAGGTGGCATAGGAAAA
6005131 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAA-TCGGAAAGGGTGGAGGATACGGAG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAA-GGTGGAGGATACGGAG
* * *
6005195 GTGGCATCGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGAT-ATGGAGGTGGAATTGGTAAGGG
65 GTGGCATAGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGG-TGATGGAGGTGGAATCGGAAAGGG
6005259 AGGAGG
129 AGGAGG
6005265 CCATGGAATT
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
155 6 0.05
156 117 0.94
157 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.51, T:0.19
Consensus pattern (156 bp):
GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAAGGTGGAGGATACGGAGG
TGGCATAGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGTGATGGAGGTGGAATCGGAAAGGGAG
GAGGATACGGAGGTGGCATAGGAAAA
Found at i:6005264 original size:78 final size:78
Alignment explanation
Indices: 6004975--6005234 Score: 468
Period size: 78 Copynumber: 3.3 Consensus size: 78
6004965 TGGTGGATAT
* *
6004975 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTGGGAAA-GGTGGTGGATACGGAG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAA-TCGGAAAGGGTGGAGGATACGGAG
6005039 GTGGCATAGGAAAG
65 GTGGCATAGGAAAG
6005053 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
*
6005118 TGGCATAGGAAAA
66 TGGCATAGGAAAG
6005131 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
*
6005196 TGGCATCGGAAAG
66 TGGCATAGGAAAG
6005209 GGTGGTGGGATTGGCAAAGGAGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGG
6005235 ATATGGAGGT
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
77 6 0.03
78 170 0.97
ACGTcount: A:0.25, C:0.05, G:0.52, T:0.18
Consensus pattern (78 bp):
GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
TGGCATAGGAAAG
Found at i:6005294 original size:36 final size:30
Alignment explanation
Indices: 6005209--6005294 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 30
6005199 CATCGGAAAG
*
6005209 GGTGGTGGGATTGGCAAAGGAGGAGGATAT
1 GGTGGTGGGATTGGCAAGGGAGGAGGATAT
* * *
6005239 GGAGGTGGAATTGGTAAGGGAGGAGGCCATGGAATT
1 GGTGGTGGGATTGGCAAGGGAGGAGG--AT---A-T
6005275 GGTGGTGGGATTGGCAAGGG
1 GGTGGTGGGATTGGCAAGGG
6005295 TGGTGGAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
30 22 0.51
32 2 0.05
35 1 0.02
36 18 0.42
ACGTcount: A:0.24, C:0.05, G:0.51, T:0.20
Consensus pattern (30 bp):
GGTGGTGGGATTGGCAAGGGAGGAGGATAT
Found at i:6005326 original size:18 final size:18
Alignment explanation
Indices: 6005305--6005345 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6005295 TGGTGGAGTC
*
6005305 GGTGGAGGAATTGGAAAG
1 GGTGGAGGAATTGGAAAA
* *
6005323 GGTGGCGGGATTGGAAAA
1 GGTGGAGGAATTGGAAAA
6005341 GGTGG
1 GGTGG
6005346 TGGATTTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.54, T:0.17
Consensus pattern (18 bp):
GGTGGAGGAATTGGAAAA
Found at i:6005410 original size:24 final size:24
Alignment explanation
Indices: 6005380--6005444 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
6005370 TGGATATGGC
6005380 AAGGGTGGTGGTTTTGGAGGTGGA
1 AAGGGTGGTGGTTTTGGAGGTGGA
* ***
6005404 GTA-GGTGGTGGAGCTGGAGGTGGA
1 -AAGGGTGGTGGTTTTGGAGGTGGA
6005428 AAGGGTGGTGGTTTTGG
1 AAGGGTGGTGGTTTTGG
6005445 TGGAGGTGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.55, T:0.28
Consensus pattern (24 bp):
AAGGGTGGTGGTTTTGGAGGTGGA
Found at i:6005452 original size:42 final size:42
Alignment explanation
Indices: 6005334--6005456 Score: 102
Period size: 48 Copynumber: 2.8 Consensus size: 42
6005324 GTGGCGGGAT
* * * * ** * *
6005334 TGGAAAAGGTGGTGGATTTGGCGGTGGTGCCGGAGGTGGATA
1 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGGAGCTGGAGA
* *
6005376 TGGCAAGGGTGGTGGTTTTGGAGGTGGAGTAGGTGGTGGAGCTGGAGG
1 TGGAAAGGGTGGTGGTTTT---GGT-G-G-AGGTGGTGGAGCTGGAGA
6005424 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGG
1 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGG
6005457 TGGTGGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
42 25 0.39
43 1 0.02
44 1 0.02
45 5 0.08
46 1 0.02
47 1 0.02
48 30 0.47
ACGTcount: A:0.15, C:0.04, G:0.54, T:0.26
Consensus pattern (42 bp):
TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGGAGCTGGAGA
Found at i:6006009 original size:21 final size:23
Alignment explanation
Indices: 6005960--6006009 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
6005950 ATATATTCTC
* * *
6005960 TTTTATTCTCCTATTTTTGTTTC
1 TTTTATTCTCCTATTATTATTTA
6005983 TTTTATTCT-CT-TTATTATTTA
1 TTTTATTCTCCTATTATTATTTA
6006004 TTTTAT
1 TTTTAT
6006010 AACACGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTATTCTCCTATTATTATTTA
Found at i:6013013 original size:18 final size:18
Alignment explanation
Indices: 6012990--6013032 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6012980 GAATAAGTTT
6012990 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
6013008 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
6013026 TTAATTA
1 TTAATTA
6013033 CACCTTGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:6014828 original size:20 final size:18
Alignment explanation
Indices: 6014791--6014831 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6014781 GATTAGTATC
*
6014791 ATTTATGTTCGTTTTATG
1 ATTTATGTTCGATTTATG
6014809 ATTTATGTTCGAAATTTATG
1 ATTTATGTTCG--ATTTATG
6014829 ATT
1 ATT
6014832 GTTCTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (18 bp):
ATTTATGTTCGATTTATG
Found at i:6015448 original size:32 final size:32
Alignment explanation
Indices: 6015379--6015451 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 32
6015369 CCGACAGCCC
* *
6015379 GCCCGAAATATGGGAGGGTTTGGGTAAAAAGATAG
1 GCCCGAAATATGGGA--G-TTGGGCAAAAAAATAG
6015414 GCCCGAAATATGGGA-TTGGGCAAAAAAATGAG
1 GCCCGAAATATGGGAGTTGGGCAAAAAAAT-AG
6015446 GCCCGA
1 GCCCGA
6015452 TTAAAAAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 12 0.34
32 8 0.23
35 15 0.43
ACGTcount: A:0.36, C:0.14, G:0.34, T:0.16
Consensus pattern (32 bp):
GCCCGAAATATGGGAGTTGGGCAAAAAAATAG
Found at i:6015550 original size:11 final size:11
Alignment explanation
Indices: 6015534--6015558 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6015524 TTTTTTTAAC
6015534 TTTAAAATACT
1 TTTAAAATACT
6015545 TTTAAAATACT
1 TTTAAAATACT
6015556 TTT
1 TTT
6015559 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:6015562 original size:41 final size:40
Alignment explanation
Indices: 6015517--6015643 Score: 191
Period size: 41 Copynumber: 3.1 Consensus size: 40
6015507 AATATTTTTA
*
6015517 TTTTTTATTTTTTTAACTTTAAAATACTTTTAAAATACTTT
1 TTTTTTATTTTTTTAATTTTAAAATA-TTTTAAAATACTTT
* *
6015558 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAATACTTT
1 TTTTTT-ATTTTTTTAATTTTAAAATATTTTAAAATACTTT
*
6015599 TTTTTAATTTTTTTAATTTTAAAATATTTTCAAAATACTTT
1 TTTTTTATTTTTTTAATTTTAAAATATTTT-AAAATACTTT
6015640 TTTT
1 TTTT
6015644 AATTTTTATT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
40 23 0.29
41 37 0.47
42 18 0.23
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTTATTTTTTTAATTTTAAAATATTTTAAAATACTTT
Found at i:6015571 original size:9 final size:9
Alignment explanation
Indices: 6015557--6015618 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
6015547 TAAAATACTT
6015557 TTTTTTTAA
1 TTTTTTTAA
6015566 TTTTTTTAA
1 TTTTTTTAA
**
6015575 -TTTTAAAA
1 TTTTTTTAA
6015583 TTTTTTTAAATA
1 TTTTTTT--A-A
6015595 CTTTTTTTTAA
1 --TTTTTTTAA
6015606 TTTTTTTAA
1 TTTTTTTAA
6015615 TTTT
1 TTTT
6015619 AAAATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.14
9 26 0.60
11 2 0.05
12 2 0.05
14 7 0.16
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:6015600 original size:40 final size:41
Alignment explanation
Indices: 6015517--6015650 Score: 202
Period size: 40 Copynumber: 3.3 Consensus size: 41
6015507 AATATTTTTA
* *
6015517 TTTTTT-ATTTTTTTAACTTTAAAATACTTTTAAAATACTTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC-TT
*
6015558 TTTTTTAATTTTTTTAATTTTAAAAT-TTTTTTAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
*
6015598 TTTTTTAATTTTTTTAATTTTAAAATATTTTCAAAATAC-T
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
6015638 TTTTTTAATTTTT
1 TTTTTTAATTTTT
6015651 ATTTTTATTT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
40 42 0.49
41 26 0.30
42 18 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:6015661 original size:5 final size:6
Alignment explanation
Indices: 6015639--6015669 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
6015629 CAAAATACTT
6015639 TTTTTAA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
6015670 AAATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:6016458 original size:21 final size:22
Alignment explanation
Indices: 6016411--6016461 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
6016401 CCCGGCCCGG
6016411 TTTTTAATAAACACAAAAAAATA
1 TTTTTAA-AAACACAAAAAAATA
*
6016434 -TTTTAAAAATA-AAAAAAATA
1 TTTTTAAAAACACAAAAAAATA
6016454 TTTTTAAA
1 TTTTTAAA
6016462 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTTTAAAAACACAAAAAAATA
Found at i:6028465 original size:20 final size:21
Alignment explanation
Indices: 6028430--6028468 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6028420 ATACATAATT
*
6028430 ATTTATTCGTAAAAATTTACA
1 ATTTATTCGAAAAAATTTACA
6028451 ATTTATTC-AAAAAATTTA
1 ATTTATTCGAAAAAATTTA
6028469 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTATTCGAAAAAATTTACA
Found at i:6028997 original size:40 final size:41
Alignment explanation
Indices: 6028940--6029024 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
6028930 AAAAAAAAGA
6028940 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTG-TGT
1 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
* *
6028980 TTTGTGTTTTGCTGCTCTTTCTTCTATTTTACTGTTGTTGT
1 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
6029021 TTTG
1 TTTG
6029025 CTACTATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.06, C:0.15, G:0.18, T:0.61
Consensus pattern (41 bp):
TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
Found at i:6030938 original size:34 final size:35
Alignment explanation
Indices: 6030880--6030946 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
6030870 CAAACACCAA
6030880 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
6030915 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
6030947 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6031487 original size:4 final size:4
Alignment explanation
Indices: 6031478--6031516 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
6031468 AACGGATCCT
6031478 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
6031517 GAAATAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:6035133 original size:25 final size:23
Alignment explanation
Indices: 6035084--6035136 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
6035074 AATTTTGGGT
*
6035084 CAAAACAAAATATTTTCCTTTCA
1 CAAAACAAAATATTTTCCTTCCA
* *
6035107 CAAAATCAATATATTTTTCTTCCCA
1 CAAAA-CAAAATATTTTCCTT-CCA
6035132 CAAAA
1 CAAAA
6035137 AATTATTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 13 0.52
25 7 0.28
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (23 bp):
CAAAACAAAATATTTTCCTTCCA
Found at i:6037649 original size:9 final size:9
Alignment explanation
Indices: 6037634--6037693 Score: 84
Period size: 9 Copynumber: 6.7 Consensus size: 9
6037624 ATGTAGTAAT
6037634 TTAATTCGG
1 TTAATTCGG
*
6037643 GTAATTCGG
1 TTAATTCGG
* *
6037652 GTAATTCGA
1 TTAATTCGG
6037661 TTAATTCGG
1 TTAATTCGG
6037670 TTAATTCGG
1 TTAATTCGG
*
6037679 ATAATTCGG
1 TTAATTCGG
6037688 TTAATT
1 TTAATT
6037694 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
TTAATTCGG
Found at i:6037665 original size:27 final size:27
Alignment explanation
Indices: 6037634--6037693 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
6037624 ATGTAGTAAT
*
6037634 TTAATTCGGGTAATTCGGGTAATTCGA
1 TTAATTCGGGTAATTCGGATAATTCGA
* *
6037661 TTAATTCGGTTAATTCGGATAATTCGG
1 TTAATTCGGGTAATTCGGATAATTCGA
6037688 TTAATT
1 TTAATT
6037694 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.42
Consensus pattern (27 bp):
TTAATTCGGGTAATTCGGATAATTCGA
Found at i:6037751 original size:28 final size:27
Alignment explanation
Indices: 6037720--6037780 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
6037710 AAAAAACATA
6037720 TAATTAACCGAAAAAATTTCGGTTCGGT
1 TAATTAACCG-AAAAATTTCGGTTCGGT
* ** *
6037748 TAATTTTATTGAAAAATTTTGGTTCGGT
1 TAA-TTAACCGAAAAATTTCGGTTCGGT
6037776 TAATT
1 TAATT
6037781 CGGTTAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.07
28 22 0.79
29 4 0.14
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (27 bp):
TAATTAACCGAAAAATTTCGGTTCGGT
Found at i:6042038 original size:25 final size:27
Alignment explanation
Indices: 6042001--6042057 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
6041991 AAATATAAAA
6042001 AATAAAATTTAGTTAAA-ATATTGTTTT
1 AATAAAA-TTAGTTAAATATATTGTTTT
*
6042028 AATAAAA-TAGTTAAATTTATTGTTTT
1 AATAAAATTAGTTAAATATATTGTTTT
6042054 AATA
1 AATA
6042058 TTTTATTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 8 0.29
26 13 0.46
27 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (27 bp):
AATAAAATTAGTTAAATATATTGTTTT
Found at i:6058932 original size:25 final size:25
Alignment explanation
Indices: 6058898--6058956 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
6058888 TTTAATATAC
6058898 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
6058923 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
*
6058948 AAAAAATAT
1 AAAATATAT
6058957 TTTTTACTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAATATATATTTGATTAAAAATAA
Found at i:6060195 original size:3 final size:3
Alignment explanation
Indices: 6060187--6060217 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6060177 TGTTTTTAAA
6060187 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6060218 TCCATGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6066920 original size:88 final size:88
Alignment explanation
Indices: 6066771--6067550 Score: 1155
Period size: 88 Copynumber: 8.9 Consensus size: 88
6066761 CCTCAGAGAA
* *
6066771 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTGGAAGATAGCAGATATT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6066836 GCCTTCCTATATCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
6066859 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
6066924 GCCTTCCTGTACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
*
6066947 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6067012 GCCTTCCTGTACCGACAGTAAAG
66 GCCTTCCTGTACCGACAGTGAAG
* *
6067035 CAAATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6067100 GCCCTCCTGTACCGACAGTGAAT
66 GCCTTCCTGTACCGACAGTGAAG
* * *
6067123 CAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAACAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
** *
6067188 GCCTTCCTGTACCGATGGTGAAA
66 GCCTTCCTGTACCGACAGTGAAG
* * * *
6067211 CAGATCAAAGACACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* **
6067276 GCCTTCTTGTATTGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * *
6067299 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTAAAGATAGAAGATCTC
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6067364 GCCTTCCTATACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * ** * *
6067387 CAGATCGAAGATACCAACCTTGCCTCTCTAGGTCATAGTGGAGTAGGTTGAAAATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6067452 GCATTCCTGTACCGAAAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * * * * * * *
6067475 CAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAAGCTGAAGATAGTAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6067540 GTCTTCATGTA
66 GCCTTCCTGTA
6067551 TTGGCGTGAA
Statistics
Matches: 624, Mismatches: 68, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 624 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
GCCTTCCTGTACCGACAGTGAAG
Found at i:6067587 original size:44 final size:44
Alignment explanation
Indices: 6067524--6067721 Score: 288
Period size: 44 Copynumber: 4.5 Consensus size: 44
6067514 GGAGCAAGCT
* * * *
6067524 GAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGCTC
1 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
*
6067568 GAAGAAAGCAGATCTTGTCTTCATATATTAGCGTGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
* * *
6067612 GAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATT
1 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
* *
6067656 AAAGAAAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
* *
6067700 AAAGATAGCAGATCTTGTCTTC
1 GAAGAAAGCAGATCTTGTCTTC
6067722 CCATACTGGT
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 139 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (44 bp):
GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
Found at i:6069567 original size:6 final size:6
Alignment explanation
Indices: 6069558--6069582 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6069548 TACATGTATA
6069558 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
6069583 TTTTCTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:6072944 original size:21 final size:21
Alignment explanation
Indices: 6072918--6072967 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
6072908 CTACAACTTA
*
6072918 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
6072939 AAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
6072960 AAGCAGAG
1 AAGCAGAG
6072968 CAGGCCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:6073393 original size:42 final size:41
Alignment explanation
Indices: 6073370--6073614 Score: 348
Period size: 42 Copynumber: 5.9 Consensus size: 41
6073360 TAAGAATAAA
6073370 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTTTCTAAG
*
6073411 CGCCGTTAAAGTACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGTACATGGTCTTTAGCGGCG-TTTTTTCTAAG
* * *
6073453 CGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTCCTAAG
1 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTTT-CTAAG
* *
6073495 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGTACATGGTCTTTAGCGGCG--TTTTTTCTAAG
* *
6073538 CGCCGCTAAA-TAACATTGTCTTTAGCGGCGTTTTTTTTTAAG
1 CGCCGCTAAAGT-ACATGGTCTTTAGCGGCG-TTTTTTCTAAG
*
6073580 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTT
6073615 GTTTGTAAAC
Statistics
Matches: 184, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
41 40 0.22
42 107 0.58
43 31 0.17
44 6 0.03
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (41 bp):
CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTTTCTAAG
Found at i:6073572 original size:85 final size:84
Alignment explanation
Indices: 6073370--6073614 Score: 386
Period size: 85 Copynumber: 2.9 Consensus size: 84
6073360 TAAGAATAAA
* * *
6073370 CGCCGCTAAAGT-ACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGTTAAAGTACATGGTCTTT
1 CGCCGCTAAA-TAACATTGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
6073434 AGCGGCG-TTTTTTTCTAAG
65 AGCGGCGTTTTTTTTCTAAG
* *
6073453 CGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAATAACATTGTCTTTAGCGGCGTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTT
*
6073518 AGAGGCGTTTTTTTTCTAAG
65 AGCGGCGTTTTTTTTCTAAG
*
6073538 CGCCGCTAAATAACATTGTCTTTAGCGGCGTTTTTTTTTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAATAACATTGTCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
6073603 AGCGGCGTTTTT
65 AGCGGCGTTTTT
6073615 GTTTGTAAAC
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
83 32 0.22
84 32 0.22
85 78 0.53
86 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (84 bp):
CGCCGCTAAATAACATTGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
GCGGCGTTTTTTTTCTAAG
Found at i:6073589 original size:127 final size:125
Alignment explanation
Indices: 6073370--6073614 Score: 393
Period size: 127 Copynumber: 1.9 Consensus size: 125
6073360 TAAGAATAAA
* * *
6073370 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGTTAAAGTACATGGTCTTTA
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTCTAAGCGCCGCTAAAGTACATGGTCTTTA
*
6073435 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTCCTAAG
66 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTCCTAAG
*
6073495 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAGCGCCGCTAAA-TAACATTGTCT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCG--TTTTTTCTAAGCGCCGCTAAAGT-ACATGGTCT
* *
6073559 TTAGCGGCGTTTTTTTTTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
63 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTT
6073615 GTTTGTAAAC
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
125 28 0.25
126 1 0.01
127 81 0.74
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (125 bp):
CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTCTAAGCGCCGCTAAAGTACATGGTCTTTA
GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTCCTAAG
Found at i:6078717 original size:23 final size:23
Alignment explanation
Indices: 6078691--6078735 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6078681 ATGGGGCCGT
*
6078691 TTGGGCTATGCCAATTGGGCTGA
1 TTGGGCTAGGCCAATTGGGCTGA
* *
6078714 TTGGGTTAGGCTAATTGGGCTG
1 TTGGGCTAGGCCAATTGGGCTG
6078736 TCTTGTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.38, T:0.33
Consensus pattern (23 bp):
TTGGGCTAGGCCAATTGGGCTGA
Found at i:6079119 original size:87 final size:87
Alignment explanation
Indices: 6079074--6079274 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 87
6079064 TTCAACTTGG
* * *
6079074 GCCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
1 GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCACTGGAATCTCAGGGAGAT
* *
6079139 AAGATCTCTTATTTTAATCCGC
66 AAGATCTCATATTTCAATCCGC
* * * * *
6079161 TCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
1 GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCACTGGAATCTCAGGGAGAT
** *
6079226 AAGATCTC-TGGCTTCAATCTGC
66 AAGATCTCAT-ATTTCAATCCGC
* * *
6079248 TCCACTGTAACCTCAGGGAGATAAGAT
1 GCCACTGCAACTTCAGGGAGATAAGAT
6079275 CTGAAATTCT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 102 0.99
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCACTGGAATCTCAGGGAGAT
AAGATCTCATATTTCAATCCGC
Found at i:6079312 original size:46 final size:45
Alignment explanation
Indices: 6079105--6079489 Score: 254
Period size: 44 Copynumber: 8.8 Consensus size: 45
6079095 TAAGATAGTG
* * *
6079105 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * *
6079148 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * *
6079191 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
6079235 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * * *
6079282 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAGGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
6079325 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * *
6079363 -CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
6079405 ATCCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
6079452 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
6079490 CCTGTGTAAT
Statistics
Matches: 264, Mismatches: 56, Indels: 41
0.73 0.16 0.11
Matches are distributed among these distances:
39 26 0.10
40 2 0.01
41 28 0.11
42 1 0.00
43 32 0.12
44 102 0.39
45 2 0.01
46 68 0.26
47 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:6079332 original size:131 final size:128
Alignment explanation
Indices: 6079105--6079440 Score: 312
Period size: 131 Copynumber: 2.6 Consensus size: 128
6079095 TAAGATAGTG
* * * * * *
6079105 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTTATTTTAATCCGCTCCACTGT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTAATT-CTTTGATCTGCTCCACTGT
* * * *
6079169 AA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
65 AATC-TCAGGGAGATAGGATACTGTCGTCGATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC
6079232 TC
128 -C
* * *
6079234 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCAC
1 T--CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT--AATTCTTTGATCTGCTCCAC
* * *
6079299 TGTAATCTCAGGGAGATAGGA-CCTGAT-GT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGA
62 TGTAATCTCAGGGAGATAGGATACTG-TCGTCGATCTGCTCCACTGTAACTTCAGAGAGATAAGA
6079361 TCC
126 TCC
* * * * * * *
6079364 T-TT-AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCCTTGATCTGCTCCGCTGT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTAAT-TCTTTGATCTGCTCCACTGT
6079426 AATCTCAGGGAGATA
65 AATCTCAGGGAGATA
6079441 AGATCTGAAA
Statistics
Matches: 172, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
123 2 0.01
124 31 0.18
125 1 0.01
126 29 0.17
127 2 0.01
129 1 0.01
130 2 0.01
131 66 0.38
132 4 0.02
133 31 0.18
134 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (128 bp):
TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTAATTCTTTGATCTGCTCCACTGTA
ATCTCAGGGAGATAGGATACTGTCGTCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCC
Found at i:6099087 original size:3 final size:3
Alignment explanation
Indices: 6099079--6099225 Score: 294
Period size: 3 Copynumber: 49.0 Consensus size: 3
6099069 AATATAGTAT
6099079 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6099127 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6099175 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6099223 TTC
1 TTC
6099226 ATTTTTTAAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 144 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:6099454 original size:24 final size:24
Alignment explanation
Indices: 6099402--6099447 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6099392 ATCCATGCAC
*
6099402 ATATACATATATTTTTTATAATAT
1 ATATACATATATTTTTTAAAATAT
6099426 ATATACATA-ATTTTTTAGAAAT
1 ATATACATATATTTTTTA-AAAT
6099448 TATTATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATACATATATTTTTTAAAATAT
Found at i:6101012 original size:16 final size:16
Alignment explanation
Indices: 6100987--6101021 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6100977 TTGTGTTCTG
6100987 TTTTGGCTGCATGACA
1 TTTTGGCTGCATGACA
*
6101003 TTTTGTCTGCATGACA
1 TTTTGGCTGCATGACA
6101019 TTT
1 TTT
6101022 CATCATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTTGGCTGCATGACA
Found at i:6104147 original size:47 final size:47
Alignment explanation
Indices: 6104058--6104148 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
6104048 AAGGAGAAAG
* * * * *
6104058 GACCAAGGTGAAAACCCGCAAATGGCGTTTTGATTCCTAAAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAA
* *
6104105 GACCAAGGTGAAAACTCACAAAGGGCGCTTTGGGTCCAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAA
6104149 TAATAATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (47 bp):
GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAA
Found at i:6105523 original size:45 final size:45
Alignment explanation
Indices: 6105463--6105865 Score: 554
Period size: 45 Copynumber: 9.0 Consensus size: 45
6105453 GTCTGAAAAG
*
6105463 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * * *
6105508 AGCAAATCTTATCTTCTTGTATTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
6105553 AACAAATCTTGTCTTCCTGTATCGCCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
6105598 AGTAGATCTTGTCTTCCTATATTGGTAGAGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
*
6105643 AGCAGATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
6105688 AGCAGATATTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * * *
6105733 AGCAGATCTCGTCTTCCTATATTGGCAGTGAAGTATATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
6105778 AACAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
6105823 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTATATCAAAG
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAG
6105866 CGAAGCAGGT
Statistics
Matches: 317, Mismatches: 41, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 317 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
Found at i:6106899 original size:450 final size:450
Alignment explanation
Indices: 6106058--6106956 Score: 1744
Period size: 450 Copynumber: 2.0 Consensus size: 450
6106048 GGGGCAGATT
*
6106058 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATACTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATACTATCTC
* *
6106123 CCTAAAGTTGTAGTGGAGCAAATTAAAATGATAGATCTCATCTCTCTGAAATTATAATAGAGTAA
66 CCTAAAGTTGTAGTAGAGCAAATTAAAATGATAGATCTCATCTCTCTGAAATTACAATAGAGTAA
6106188 ATCATATCAAATTCTATCTCCCTGAAATCGCAGCAGAGCGGATTAAGACCGCAGAGCTTATCTCC
131 ATCATATCAAATTCTATCTCCCTGAAATCGCAGCAGAGCGGATTAAGACCGCAGAGCTTATCTCC
6106253 CTAAAGTTGCAGTGGAGTGGATCAAAATGATTGATCTTATCTCTCAGAAGTTACAGTAGAGCAGA
196 CTAAAGTTGCAGTGGAGTGGATCAAAATGATTGATCTTATCTCTCAGAAGTTACAGTAGAGCAGA
6106318 TCACATCAGACTTATCTCTTTAAAGTTGCAGTGGAGCAAACACAAGTTGCAAACCCTATTTCCCT
261 TCACATCAGACTTATCTCTTTAAAGTTGCAGTGGAGCAAACACAAGTTGCAAACCCTATTTCCCT
6106383 GATGTCGCAGCAGAGTGAATTGAAGCACCAGTTCTTATACCCCTAAGGATGCAGTGGGTTAGAAC
326 GATGTCGCAGCAGAGTGAATTGAAGCACCAGTTCTTATACCCCTAAGGATGCAGTGGGTTAGAAC
6106448 CAGGTTACTTGAAGAAGAGAAGCACTAAAGAAGTCGAAGCCCAGTAAGACAGGGCATAAA
391 CAGGTTACTTGAAGAAGAGAAGCACTAAAGAAGTCGAAGCCCAGTAAGACAGGGCATAAA
6106508 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATACTATCTC
1 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATACTATCTC
6106573 CCTAAAGTTGTAGTAGAGCAAATTAAAATGATAGATCTCATCTCTCTGAAATTACAATAGAGTAA
66 CCTAAAGTTGTAGTAGAGCAAATTAAAATGATAGATCTCATCTCTCTGAAATTACAATAGAGTAA
* * *
6106638 ATCGTATCAAATTCTATCTCTCTGAAATCGCAGCGGAGCGGATTAAGACCGCAGAGCTTATCTCC
131 ATCATATCAAATTCTATCTCCCTGAAATCGCAGCAGAGCGGATTAAGACCGCAGAGCTTATCTCC
6106703 CTAAAGTTGCAGTGGAGTGGATCAAAATGATTGATCTTATCTCTCAGAAGTTACAGTAGAGCAGA
196 CTAAAGTTGCAGTGGAGTGGATCAAAATGATTGATCTTATCTCTCAGAAGTTACAGTAGAGCAGA
6106768 TCACATCAGACTTATCTCTTTAAAGTTGCAGTGGAGCAAACACAAGTTGCAAACCCTATTTCCCT
261 TCACATCAGACTTATCTCTTTAAAGTTGCAGTGGAGCAAACACAAGTTGCAAACCCTATTTCCCT
6106833 GATGTCGCAGCAGAGTGAATTGAAGCACCAGTTCTTATACCCCTAAGGATGCAGTGGGTTAGAAC
326 GATGTCGCAGCAGAGTGAATTGAAGCACCAGTTCTTATACCCCTAAGGATGCAGTGGGTTAGAAC
6106898 CAGGTTACTTGAAGAAGAGAAGCACTAAAGAAGTCGAAGCCCAGTAAGACAGGGCATAA
391 CAGGTTACTTGAAGAAGAGAAGCACTAAAGAAGTCGAAGCCCAGTAAGACAGGGCATAA
6106957 TTGGGCTTTT
Statistics
Matches: 443, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
450 443 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (450 bp):
GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGCCAATAATACTATCTC
CCTAAAGTTGTAGTAGAGCAAATTAAAATGATAGATCTCATCTCTCTGAAATTACAATAGAGTAA
ATCATATCAAATTCTATCTCCCTGAAATCGCAGCAGAGCGGATTAAGACCGCAGAGCTTATCTCC
CTAAAGTTGCAGTGGAGTGGATCAAAATGATTGATCTTATCTCTCAGAAGTTACAGTAGAGCAGA
TCACATCAGACTTATCTCTTTAAAGTTGCAGTGGAGCAAACACAAGTTGCAAACCCTATTTCCCT
GATGTCGCAGCAGAGTGAATTGAAGCACCAGTTCTTATACCCCTAAGGATGCAGTGGGTTAGAAC
CAGGTTACTTGAAGAAGAGAAGCACTAAAGAAGTCGAAGCCCAGTAAGACAGGGCATAAA
Found at i:6107472 original size:4 final size:4
Alignment explanation
Indices: 6107460--6107505 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
6107450 TTCGATTTTT
* * *
6107460 TTTA CTTA TTTA TTTA TTTA TTT- TTGA TTTT TTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
6107506 CTTAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
3 5 0.15
4 29 0.85
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6107494 original size:15 final size:14
Alignment explanation
Indices: 6107456--6107504 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
6107446 GGTGTTCGAT
6107456 TTTTTTTACTTATTTA
1 TTTTTTTA-TT-TTTA
*
6107472 TTTATTTATTTTTGA
1 TTTTTTTATTTTT-A
6107487 TTTTTTTATTTTTTA
1 TTTTTTTA-TTTTTA
6107502 TTT
1 TTT
6107505 ACTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 3 0.10
15 14 0.48
16 12 0.41
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:6108166 original size:3 final size:3
Alignment explanation
Indices: 6108152--6108186 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6108142 TTTATTTTTC
*
6108152 TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6108187 TCCATGTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6108441 original size:24 final size:24
Alignment explanation
Indices: 6108389--6108434 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6108379 ATCCATGCAC
*
6108389 ATATACATATATTTTTTATAATAT
1 ATATACATATATTTTTTAAAATAT
6108413 ATATACATA-ATTTTTTAGAAAT
1 ATATACATATATTTTTTA-AAAT
6108435 CATTATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATACATATATTTTTTAAAATAT
Found at i:6109220 original size:11 final size:11
Alignment explanation
Indices: 6109206--6109416 Score: 110
Period size: 11 Copynumber: 20.9 Consensus size: 11
6109196 ATTTTTTTAA
6109206 TTTTAAAATAT
1 TTTTAAAATAT
6109217 TTTTAAAATAT
1 TTTTAAAATAT
*
6109228 TTTT-TAAT-T
1 TTTTAAAATAT
*
6109237 TTTT----TAA
1 TTTTAAAATAT
6109244 TTTTAAAATAT
1 TTTTAAAATAT
6109255 TTTTAAAATAT
1 TTTTAAAATAT
*
6109266 TTTT-TAAT-T
1 TTTTAAAATAT
**
6109275 TTTT-TGA-A-
1 TTTTAAAATAT
6109283 TTTTAAAATAT
1 TTTTAAAATAT
6109294 TTTTAAAATACTT
1 TTTTAAAATA--T
*
6109307 TTTTTAAAT-T
1 TTTTAAAATAT
*
6109317 TTTT-TAATA-
1 TTTTAAAATAT
6109326 --TTAAAATAT
1 TTTTAAAATAT
6109335 TTTTAAAATACT
1 TTTTAAAATA-T
*
6109347 TATTTTAAAT-T
1 T-TTTAAAATAT
*
6109358 TTTT----TAA
1 TTTTAAAATAT
6109365 TTTTAAAATAT
1 TTTTAAAATAT
6109376 TTTTAAAATACT
1 TTTTAAAATA-T
**
6109388 TTTTTTAAT-T
1 TTTTAAAATAT
6109398 TTTT-AAA-AT
1 TTTTAAAATAT
6109407 TTTTAAAATA
1 TTTTAAAATA
6109417 AAAATGGGCC
Statistics
Matches: 157, Mismatches: 16, Indels: 54
0.69 0.07 0.24
Matches are distributed among these distances:
6 2 0.01
7 10 0.06
8 8 0.05
9 23 0.15
10 23 0.15
11 65 0.41
12 10 0.06
13 16 0.10
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:6109330 original size:41 final size:39
Alignment explanation
Indices: 6109151--6109416 Score: 410
Period size: 41 Copynumber: 6.7 Consensus size: 39
6109141 TATTTTTTAA
* *
6109151 TTTTTAATTTTTTTAATTTTAAAATATTTTTTACATACT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
6109190 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATA-T
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
6109228 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATA-T
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
6109266 TTTTTAATTTTTTTGAATTTTAAAATATTTTTAAAATACTT
1 TTTTTAATTTTTTT-AATTTTAAAATATTTTTAAAATAC-T
*
6109307 TTTTTAAATTTTTTTAATATTAAAATATTTTTAAAATACT
1 TTTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATACT
6109347 TATTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 T-TTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATAC-T
*
6109389 TTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTAATTTTTT-TAA-TTTTAAAATA
6109417 AAAATGGGCC
Statistics
Matches: 214, Mismatches: 5, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
38 53 0.25
39 58 0.27
40 10 0.05
41 72 0.34
42 21 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:6109337 original size:17 final size:17
Alignment explanation
Indices: 6109312--6109381 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 17
6109302 TACTTTTTTT
*
6109312 AAATTTTTTTAATATTA
1 AAATATTTTTAATATTA
6109329 AAATATTTTTAAAATACTTA
1 AAATATTTTT--AATA-TTA
* *
6109349 TTTTAAATTTTTTTAATTTTA
1 ----AAATATTTTTAATATTA
6109370 AAATATTTTTAA
1 AAATATTTTTAA
6109382 AATACTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
17 20 0.48
19 4 0.10
20 3 0.07
21 3 0.07
22 3 0.07
24 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATATTTTTAATATTA
Found at i:6109368 original size:31 final size:32
Alignment explanation
Indices: 6109356--6109416 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
6109346 TTATTTTAAA
6109356 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAATATTTTTAAAATAC
*
6109387 TTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 TTTTTTTAATTTTTAAAATATTTTTAAAATA
6109417 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTTTTTAATTTTTAAAATATTTTTAAAATAC
Found at i:6109925 original size:22 final size:24
Alignment explanation
Indices: 6109900--6109950 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
6109890 TTATTTATAA
6109900 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
6109920 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
6109946 ATAAA
1 ATAAA
6109951 AGCATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:6114658 original size:9 final size:9
Alignment explanation
Indices: 6114644--6114688 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
6114634 ATTTTATAAG
6114644 ATTTTTTAT
1 ATTTTTTAT
* *
6114653 ATTTTTAAA
1 ATTTTTTAT
6114662 ATTTTTATAT
1 ATTTTT-TAT
6114672 ATTTTTTAT
1 ATTTTTTAT
6114681 AATTTTTT
1 -ATTTTTT
6114689 GAGATGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 16 0.53
10 14 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:6114679 original size:11 final size:10
Alignment explanation
Indices: 6114644--6114688 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 10
6114634 ATTTTATAAG
6114644 ATTTTTTAT-
1 ATTTTTTATA
6114653 A-TTTTTA-A
1 ATTTTTTATA
*
6114661 AATTTTTATA
1 ATTTTTTATA
6114671 TATTTTTTATA
1 -ATTTTTTATA
6114682 ATTTTTT
1 ATTTTTT
6114689 GAGATGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 7 0.23
9 7 0.23
10 8 0.26
11 9 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:6116554 original size:32 final size:33
Alignment explanation
Indices: 6116483--6116542 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
6116473 TTGTACATAT
*
6116483 TATT-TTTTAAATTTTTAAAAATATTTATATTA
1 TATTATTTTAAATATTTAAAAATATTTATATTA
6116515 TATTATTTT-AATATTTAAAAAT-TTTATA
1 TATTATTTTAAATATTTAAAAATATTTATA
6116543 CATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.23
32 16 0.62
33 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATTATTTTAAATATTTAAAAATATTTATATTA
Found at i:6118108 original size:15 final size:15
Alignment explanation
Indices: 6118041--6118108 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
6118031 TTCCTTTTCT
*
6118041 AATACATTAAT-TAAT
1 AATA-ATTAATATAAA
*
6118056 AATAAAT-ATATTAAA
1 AATAATTAATA-TAAA
**
6118071 AATAATTAA-ATTTA
1 AATAATTAATATAAA
6118085 AATATATTAATATAAA
1 AATA-ATTAATATAAA
6118101 AATAATTA
1 AATAATTA
6118109 GAAAATGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 23 0.56
16 8 0.20
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATTAATATAAA
Found at i:6137747 original size:21 final size:22
Alignment explanation
Indices: 6137709--6137758 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
6137699 AAATTTAAAT
6137709 GTTTAAAATTATAATATTT-TAG
1 GTTT-AAATTATAATATTTGTAG
* *
6137731 GTTTAAATTTTATTATTTGTAG
1 GTTTAAATTATAATATTTGTAG
6137753 GATTTA
1 G-TTTA
6137759 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 8 0.33
23 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (22 bp):
GTTTAAATTATAATATTTGTAG
Found at i:6138054 original size:24 final size:22
Alignment explanation
Indices: 6138027--6138070 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
6138017 TCCATCAGAT
6138027 ATTTAAATAATATATAAAAATTTG
1 ATTTAAAT-ATATA-AAAAATTTG
6138051 ATTTAAATATATAAAAAATT
1 ATTTAAATATATAAAAAATT
6138071 CATAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTAAATATATAAAAAATTTG
Found at i:6138079 original size:21 final size:21
Alignment explanation
Indices: 6138030--6138079 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6138020 ATCAGATATT
* *
6138030 TAAATAATATATAAAAATTTGA
1 TAAA-AATATATAAAAAATTCA
**
6138052 TTTAAATATATAAAAAATTCA
1 TAAAAATATATAAAAAATTCA
6138073 TAAAAAT
1 TAAAAAT
6138080 CAATAATGTG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATATATAAAAAATTCA
Found at i:6139918 original size:20 final size:21
Alignment explanation
Indices: 6139895--6139933 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6139885 TCTATATTTT
6139895 AATTATT-ATTAAAATATAAA
1 AATTATTAATTAAAATATAAA
*
6139915 AATTATTAATTTAAATATA
1 AATTATTAATTAAAATATA
6139934 TAACTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATTAATTAAAATATAAA
Found at i:6144567 original size:20 final size:20
Alignment explanation
Indices: 6144528--6144567 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6144518 GAAAATTTTC
**
6144528 AGTTTTGGGTTTTCTTTTGT
1 AGTTTTGGGTTTTCGGTTGT
*
6144548 AGTTTTGGGTTTTGGGTTGT
1 AGTTTTGGGTTTTCGGTTGT
6144568 TAATGGGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.03, G:0.33, T:0.60
Consensus pattern (20 bp):
AGTTTTGGGTTTTCGGTTGT
Found at i:6153840 original size:37 final size:37
Alignment explanation
Indices: 6153776--6153885 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
6153766 TACGTATGAT
*
6153776 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6153812 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6153849 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6153886 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:6153928 original size:52 final size:52
Alignment explanation
Indices: 6153849--6154162 Score: 402
Period size: 52 Copynumber: 6.2 Consensus size: 52
6153839 TAAGTGTAGC
* * **
6153849 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
6153902 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
6153954 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
6154006 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT-ACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
6154051 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
6154097 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
6154149 CACTTTATCACTTG
1 CACTTT-TCACTTG
6154163 ATCAGAAGTA
Statistics
Matches: 234, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
45 41 0.18
46 42 0.18
47 3 0.01
48 1 0.00
52 132 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:6154096 original size:143 final size:147
Alignment explanation
Indices: 6153848--6154168 Score: 506
Period size: 143 Copynumber: 2.2 Consensus size: 147
6153838 ATAAGTGTAG
* * *
6153848 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTTCA--
*
6153913 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCA
64 T-TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCA
*
6153978 GATAAGTGTAGCTGAAGCTA
128 GATAAGTGTAGCTAAAGCTA
* *
6153998 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT-ACTTATCAC-TTT-A-T
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTTCATT
*
6154059 CACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGAT
66 CACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGAT
6154124 AAGTGTAGCTAAAGCTA
131 AAGTGTAGCTAAAGCTA
*
6154141 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
6154169 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
143 106 0.66
147 1 0.01
148 3 0.02
149 9 0.06
150 42 0.26
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (147 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTTCATT
CACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGAT
AAGTGTAGCTAAAGCTA
Found at i:6166365 original size:5 final size:5
Alignment explanation
Indices: 6166355--6166380 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6166345 TTTACTAAGA
6166355 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
6166381 TAATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:6170702 original size:31 final size:31
Alignment explanation
Indices: 6170667--6170743 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
6170657 CAAACGATAT
* *
6170667 AAAAATTATTAGAAATTC-TAAAATATTGTAA
1 AAAAATTATTA-AAAATCATAAAAGATTGTAA
*
6170698 AAAAATTATTAAAAATCATCAAAGATTGTAA
1 AAAAATTATTAAAAATCATAAAAGATTGTAA
*
6170729 AAGAATTATTAAAAA
1 AAAAATTATTAAAAA
6170744 ATTTAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (31 bp):
AAAAATTATTAAAAATCATAAAAGATTGTAA
Found at i:6171497 original size:16 final size:17
Alignment explanation
Indices: 6171457--6171514 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
6171447 TATTTTTTCC
**
6171457 ATTTTTAATAATTTAAAT
1 ATTTTT-ATAATTTGTAT
*
6171475 AATTTTTGTAATTT-TAT
1 -ATTTTTATAATTTGTAT
6171492 ATTTTTATAATTTGGTAT
1 ATTTTTATAATTT-GTAT
6171510 ATTTT
1 ATTTT
6171515 AGTGTGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 12 0.35
17 2 0.06
18 14 0.41
19 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTTTTATAATTTGTAT
Found at i:6171694 original size:32 final size:31
Alignment explanation
Indices: 6171634--6171705 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
6171624 TATTTGTTGT
* * * *
6171634 TCAAAATTTTTGAAAATTCTTATAAAACCTC
1 TCAAAATTTTTAAAAAATATTATAAAACCCC
* *
6171665 TTAAAATTTTTAAAAAATATTAATTAAACCCC
1 TCAAAATTTTTAAAAAATATT-ATAAAACCCC
6171697 TCAAAATTT
1 TCAAAATTT
6171706 AGGGATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (31 bp):
TCAAAATTTTTAAAAAATATTATAAAACCCC
Found at i:6173006 original size:2 final size:2
Alignment explanation
Indices: 6172999--6173026 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6172989 AGATGATGTA
6172999 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
6173027 GAAGAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6174068 original size:192 final size:192
Alignment explanation
Indices: 6173741--6174131 Score: 764
Period size: 192 Copynumber: 2.0 Consensus size: 192
6173731 TTCTTCAACT
6173741 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
1 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
*
6173806 TAAACATATGTATAGTTACTTTGTGGGACAATTTGGATTTCATATTTTAAGAAAAATGTAATGAT
66 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
*
6173871 GCTTAAGCTGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
131 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
6173933 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
1 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
6173998 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
66 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
6174063 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
131 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
6174125 AATCTAA
1 AATCTAA
6174132 CATTTGATGG
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 197 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (192 bp):
AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
Found at i:6186751 original size:60 final size:59
Alignment explanation
Indices: 6186658--6186844 Score: 288
Period size: 60 Copynumber: 3.2 Consensus size: 59
6186648 ATGAATACAG
* *
6186658 ATTCATCAGAAAGTTTTGGTGGAGCCTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAG-AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
* * *
6186718 ATTCATCAGAAGGTTTTAATGGAGACTTCATCGGACTCTGTTCTTCCCTTGCTTCATGAA
1 ATTCATCAGAA-GTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
*
6186778 ATTCATC--AAGTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAGAAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
6186835 ATTCATCAGA
1 ATTCATCAGA
6186845 GCTGGTACTC
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
57 51 0.44
58 2 0.02
59 3 0.03
60 59 0.51
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (59 bp):
ATTCATCAGAAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
Found at i:6186818 original size:57 final size:57
Alignment explanation
Indices: 6186668--6186842 Score: 269
Period size: 57 Copynumber: 3.0 Consensus size: 57
6186658 ATTCATCAGA
* *
6186668 AAGTTTTGGTGGAGCCTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
1 AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
* * *
6186725 AGAAGGTTTTAATGGAGACTTCATCGGACTCTGTTCTTCCCTTGCTTCATGAAATTCATC
1 --AA-GTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
*
6186785 AAGTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
1 AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
6186842 A
1 A
6186843 GAGCTGGTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 52 0.49
58 2 0.02
59 2 0.02
60 50 0.47
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (57 bp):
AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
Found at i:6201734 original size:23 final size:22
Alignment explanation
Indices: 6201691--6201734 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6201681 TTCTAAGTCG
6201691 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
6201714 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6201735 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:6201843 original size:45 final size:45
Alignment explanation
Indices: 6201779--6201872 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
6201769 AATAGATACT
** *
6201779 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
6201824 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
6201869 CGGT
1 CGGT
6201873 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (45 bp):
CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:6201936 original size:51 final size:50
Alignment explanation
Indices: 6201869--6202064 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
6201859 CAATGATGTT
* *
6201869 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATC
* * * * * *
6201920 CGATACACGTAGTAGCCTACACATAGTACTACACAAGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATC
* * * * * *
6201971 TGGTACGCATAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TC
*
6202021 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
6202065 CACTTTCACT
Statistics
Matches: 116, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 73 0.63
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCATC
Done.