Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 210 of 284
Found at i:69702769 original size:19 final size:19
Alignment explanation
Indices: 69702745--69702835 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
69702735 AATCATATCT
*
69702745 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
69702764 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
69702782 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
69702799 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
69702818 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
69702836 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:69702803 original size:35 final size:37
Alignment explanation
Indices: 69702745--69702835 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
69702735 AATCATATCT
*
69702745 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
69702782 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
69702818 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
69702836 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:69702814 original size:14 final size:15
Alignment explanation
Indices: 69702759--69702814 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
69702749 AGATTGTATA
69702759 TCATATCTAAGATTG
1 TCATATCTAAGATTG
69702774 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
69702792 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
69702809 -CATATC
1 TCATATC
69702815 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:69704141 original size:30 final size:30
Alignment explanation
Indices: 69704086--69704142 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
69704076 ACTAAAATAA
* * *
69704086 GTTGCTCGCACAAGTTGTCAATATATCAGG
1 GTTGCTCACACAAGCTGACAATATATCAGG
*
69704116 GTTGCTCACACAAGCTGACAGTATATC
1 GTTGCTCACACAAGCTGACAATATATC
69704143 GAGCTTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGACAATATATCAGG
Found at i:69704239 original size:21 final size:21
Alignment explanation
Indices: 69704215--69704261 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
69704205 GATCTCATAA
69704215 GAACATGTAAAGTCCTTGATC
1 GAACATGTAAAGTCCTTGATC
69704236 GAACATGTAAAGTCCTTGATC
1 GAACATGTAAAGTCCTTGATC
*
69704257 AAACA
1 GAACA
69704262 CGTGTATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (21 bp):
GAACATGTAAAGTCCTTGATC
Found at i:69707492 original size:17 final size:17
Alignment explanation
Indices: 69707470--69707515 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
69707460 GAAAAATGAG
69707470 AATTTTTAAAACACGAA
1 AATTTTTAAAACACGAA
* *
69707487 AATTTTGAAAACACGAG
1 AATTTTTAAAACACGAA
*
69707504 AATTTTTGAAAC
1 AATTTTTAAAAC
69707516 CTGAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:69709058 original size:30 final size:30
Alignment explanation
Indices: 69709000--69709116 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
69708990 TGTAATTTTT
* * *
69709000 AGAAAATTTA-GGGTTAAAATGCAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
69709029 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
69709059 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
69709088 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
69709117 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 10 0.14
30 63 0.86
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:69709116 original size:60 final size:59
Alignment explanation
Indices: 69709000--69709116 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
69708990 TGTAATTTTT
* * * * *
69709000 AGAAAATTTAGGGTTAAAATGCAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
69709059 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
69709117 TTATTTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 10 0.20
60 39 0.80
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:69709517 original size:50 final size:52
Alignment explanation
Indices: 69709387--69709589 Score: 286
Period size: 50 Copynumber: 3.8 Consensus size: 52
69709377 CACGTGAGCC
* *
69709387 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-A---GAAA
*
69709442 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAC-G-GAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAGAAA
*
69709492 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAGA--AA
*
69709546 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
69709590 TAGAAATTGA
Statistics
Matches: 137, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
50 47 0.34
51 1 0.01
52 1 0.01
54 45 0.33
55 38 0.28
56 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAGAAA
Found at i:69709570 original size:54 final size:55
Alignment explanation
Indices: 69709387--69709603 Score: 322
Period size: 54 Copynumber: 4.1 Consensus size: 55
69709377 CACGTGAGCC
* *
69709387 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
* *
69709442 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAAC-G-GA---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
69709492 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
* *
69709546 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
69709601 AAG
1 AAG
69709604 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
50 46 0.31
51 1 0.01
52 1 0.01
54 52 0.35
55 43 0.29
56 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:69709618 original size:13 final size:14
Alignment explanation
Indices: 69709582--69709615 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
69709572 GAGTTGATTT
*
69709582 TTGAAAAATAGAAA
1 TTGAAAAGTAGAAA
69709596 TTGAAAAGTAGAAA
1 TTGAAAAGTAGAAA
69709610 TTGAAA
1 TTGAAA
69709616 GTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (14 bp):
TTGAAAAGTAGAAA
Found at i:69709750 original size:94 final size:91
Alignment explanation
Indices: 69709550--69709767 Score: 250
Period size: 94 Copynumber: 2.4 Consensus size: 91
69709540 AATTAAAAGG
* * * **
69709550 CTCAACTCACCTCTCACAATATGAGTTGA----TTTTTGAAAAATAGAAATTGAAAAGTAGAAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTAAAAAACAGAAAT
*
69709611 TGAAAGTACCTCAGCGTACCCTGAGG
66 TGAAAGTACCTCAGCGTACCCTGAGA
* * * *
69709637 CTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTTTGAAACACAGAAATTAAAAAAACAGAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAATT-AAAAAACAGAAA
*
69709702 TTGAAAAG-ACCTCAGCGTGTGGCCC-GAGA
65 TTG-AAAGTACCTCAGC--GT-ACCCTGAGA
69709731 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
69709768 ATTTTTTTTG
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
87 26 0.24
91 17 0.16
92 19 0.17
93 4 0.04
94 40 0.37
95 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (91 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTAAAAAACAGAAAT
TGAAAGTACCTCAGCGTACCCTGAGA
Found at i:69709838 original size:85 final size:85
Alignment explanation
Indices: 69709731--69710018 Score: 567
Period size: 85 Copynumber: 3.4 Consensus size: 85
69709721 TGGCCCGAGA
69709731 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
69709796 TACCTCAACGTGTCTTGAGG
66 TACCTCAACGTGTCTTGAGG
69709816 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
69709881 TACCTCAACGTGTCTTGAGG
66 TACCTCAACGTGTCTTGAGG
69709901 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
69709966 TACCTCAACGTGTCTTGAGG
66 TACCTCAACGTGTCTTGAGG
*
69709986 CTCAACTCACCTCTCGCAATATAAGTTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
69710019 GAAAAATAAA
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 202 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (85 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAA
TACCTCAACGTGTCTTGAGG
Found at i:69709852 original size:179 final size:171
Alignment explanation
Indices: 69709596--69710018 Score: 542
Period size: 170 Copynumber: 2.4 Consensus size: 171
69709586 AAAATAGAAA
* * * * ** * *
69709596 TTGAAAAGTAGAAATTGAAAGTACCTCAGCGTACCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
69709661 GCTGATTTTTTTTTGAAACACAGAAATTAAAAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCC
66 GTTGATTTTTTTTT-----A-AGAAATTAAAAAAACAGAAATTGAAAAGACCTCAACGTGT--CC
69709726 CGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTT
123 CGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTT
69709775 TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
***** ** ** * ** *
69709840 GTTGA-TTTTTTTTATTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
66 GTTGATTTTTTTTTAAGAAATTAAAAAAACAGAAATTGAAAAGACCTCAACGTGTCCCGAGACTC
69709904 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTT
131 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTT
*
69709945 TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
69710010 GTTGATTTT
66 GTTGATTTT
69710019 GAAAAATAAA
Statistics
Matches: 218, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
170 117 0.54
171 3 0.01
172 28 0.13
173 1 0.00
178 8 0.04
179 61 0.28
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (171 bp):
TTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTTAAGAAATTAAAAAAACAGAAATTGAAAAGACCTCAACGTGTCCCGAGACTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTT
Found at i:69709967 original size:170 final size:161
Alignment explanation
Indices: 69709723--69710230 Score: 629
Period size: 170 Copynumber: 3.3 Consensus size: 161
69709713 TCAGCGTGTG
*
69709723 GCCC-GAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
1 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
69709787 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
66 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
* *
69709852 TATTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGT
128 TA----TTTTGAAA--AAGAAATTGAAAATACCTCAACAT
* *
69709892 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
1 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
*
69709957 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG------AT
66 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAT
* *
69710016 TTTGAAAAATAAATTGAAAATACCTCAGCAT
131 TTTGAAAAAGAAATTGAAAATACCTCAACAT
**
69710047 GCCCTGAGG-----CTCACCTCTCGCAATATGAGTTG---------A-TTTTTTTGAAAAACAGA
1 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
69710097 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----T-T
66 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAT
* * *
69710157 TTTGAAAAATAAATTGAAAATACCTCAGCGT
131 TTTGAAAAAGAAATTGAAAATACCTCAACAT
69710188 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
69710231 GACAAACAGA
Statistics
Matches: 311, Mismatches: 14, Indels: 45
0.84 0.04 0.12
Matches are distributed among these distances:
140 71 0.23
141 41 0.13
146 23 0.07
150 23 0.07
155 27 0.09
157 8 0.03
161 1 0.00
169 2 0.01
170 115 0.37
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (161 bp):
GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATTTTTTTTGAAAGGCAGA
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAT
TTTGAAAAAGAAATTGAAAATACCTCAACAT
Found at i:69710098 original size:140 final size:142
Alignment explanation
Indices: 69709940--69710248 Score: 509
Period size: 140 Copynumber: 2.2 Consensus size: 142
69709930 TTTTTTTTAT
**
69709940 TTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
69710005 TATAAGTTGA-TTTTGAAAAATAAATTGAAAATACCTCAGCATGCCCTGAGG-CTCACCTCTCGC
66 TATAAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCATGCCCTGAGGACTCACCTCTCGC
69710068 AATATGAGTTGA
131 AATATGAGTTGA
69710080 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
* *
69710145 TATGAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
66 TATAAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCATGCCCTGAGG----ACTCACCTC
69710210 TCGCAATATGAGTTGA
127 TCGCAATATGAGTTGA
*
69710226 --TTTTTGACAAACAGAAATTGAAA
1 TTTTTTTGAAAAACAGAAATTGAAA
69710249 CATCAAAATA
Statistics
Matches: 158, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
140 72 0.46
141 40 0.25
144 22 0.14
146 24 0.15
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (142 bp):
TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
TATAAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCATGCCCTGAGGACTCACCTCTCGC
AATATGAGTTGA
Found at i:69710182 original size:71 final size:72
Alignment explanation
Indices: 69709942--69710248 Score: 414
Period size: 71 Copynumber: 4.3 Consensus size: 72
69709932 TTTTTTATTT
* * *
69709942 TTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
69710007 TAAGTTGA
65 TGAGTTGA
* * *
69710015 -TTTTGAAAA-ATAAATTGAAAATACCTCAGCATGCCCTGAGG-----CTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
69710073 GAGTTGA
66 GAGTTGA
* *
69710080 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 --TTTTTG-AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
69710145 TATGAGTTGA
63 TATGAGTTGA
* *
69710155 TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
69710219 GAGTTGA
66 GAGTTGA
69710226 TTTTTGACAAACAGAAATTGAAA
1 TTTTTGA-AAACAGAAATTGAAA
69710249 CATCAAAATA
Statistics
Matches: 205, Mismatches: 17, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
65 23 0.11
68 5 0.02
69 4 0.02
70 54 0.26
71 64 0.31
72 15 0.07
73 16 0.08
75 24 0.12
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGA
Found at i:69711846 original size:14 final size:14
Alignment explanation
Indices: 69711823--69711860 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
69711813 GACCTCTCCA
69711823 TTTTCTTTTCTTTCT
1 TTTTC-TTTCTTTCT
69711838 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
69711852 TTTTGCTTT
1 TTTT-CTTT
69711861 TGAATGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:69716112 original size:18 final size:17
Alignment explanation
Indices: 69716070--69716114 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
69716060 GAAAAATGAG
*
69716070 AATTTTTAAAACACGAA
1 AATTTTGAAAACACGAA
69716087 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
69716104 AAGTTTTGAAA
1 AA-TTTTGAAA
69716115 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (17 bp):
AATTTTGAAAACACGAA
Found at i:69716824 original size:3 final size:3
Alignment explanation
Indices: 69716816--69716849 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
69716806 ACTAATTTAA
69716816 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
69716850 CAAACCAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:69717662 original size:29 final size:29
Alignment explanation
Indices: 69717623--69717738 Score: 108
Period size: 30 Copynumber: 4.0 Consensus size: 29
69717613 TGTATTTTTT
* *
69717623 AGAAAATTTA-GGGTTAAAATGTAATTTA
1 AGAAAGTTTAGGGGTTAAAATGAAATTTA
* *
69717651 ATGAAAGTTTAGGGGTTTAAGTGAAATTTA
1 A-GAAAGTTTAGGGGTTAAAATGAAATTTA
* * * *
69717681 AAAAATTTTAAGGGTAAAAATGAAATTTA
1 AGAAAGTTTAGGGGTTAAAATGAAATTTA
* * *
69717710 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTAGGGGTTAAAATGAAATTT
69717739 TTATTTTTTA
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 1 0.01
29 30 0.43
30 38 0.55
ACGTcount: A:0.44, C:0.01, G:0.22, T:0.34
Consensus pattern (29 bp):
AGAAAGTTTAGGGGTTAAAATGAAATTTA
Found at i:69717738 original size:59 final size:57
Alignment explanation
Indices: 69717620--69717738 Score: 132
Period size: 59 Copynumber: 2.1 Consensus size: 57
69717610 AAATGTATTT
* * * * ** *
69717620 TTTAGAAAATTTAGGGTTAAAATGTAATTTAATGAAAGTTTAGGGGTTTAAGTGAAA
1 TTTAAAAAATTTAGGGTAAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAA
*
69717677 TTTAAAAAATTTTAAGGGTAAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGTAA
1 TTTAAAAAA-TTT-AGGGTAAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAA
69717736 TTT
1 TTT
69717739 TTATTTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 8 0.16
58 5 0.10
59 38 0.75
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (57 bp):
TTTAAAAAATTTAGGGTAAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAA
Found at i:69725265 original size:23 final size:21
Alignment explanation
Indices: 69725243--69725288 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
69725233 GTAATGAAAT
69725243 TATATTTTAGCTCTCATCAAA
1 TATATTTTAGCTCTCATCAAA
69725264 -ATATTTTAGCTCTCATCAAA
1 TATATTTTAGCTCTCATCAAA
*
69725284 AATAT
1 TATAT
69725289 ATAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.41
Consensus pattern (21 bp):
TATATTTTAGCTCTCATCAAA
Found at i:69725288 original size:21 final size:20
Alignment explanation
Indices: 69725244--69725284 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69725234 TAATGAAATT
69725244 ATATTTTAGCTCTCATCAAA
1 ATATTTTAGCTCTCATCAAA
69725264 ATATTTTAGCTCTCATCAAA
1 ATATTTTAGCTCTCATCAAA
69725284 A
1 A
69725285 ATATATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATTTTAGCTCTCATCAAA
Found at i:69726114 original size:26 final size:26
Alignment explanation
Indices: 69726085--69726142 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
69726075 TGATACAAAT
69726085 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
69726111 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
69726137 TGATAA
1 TGATAA
69726143 GAATTTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:69738894 original size:15 final size:15
Alignment explanation
Indices: 69738874--69738903 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69738864 AAATTTTAAT
*
69738874 TTTTTATAGTTTGTA
1 TTTTTATAATTTGTA
69738889 TTTTTATAATTTGTA
1 TTTTTATAATTTGTA
69738904 AAGAATTAAA
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:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTGTA
Found at i:69749290 original size:17 final size:18
Alignment explanation
Indices: 69749268--69749306 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
69749258 TAATTCAATT
*
69749268 AAAT-AAAATATTTTAAA
1 AAATAAAAATATTTAAAA
69749285 AAATAAAAATATTTAAAA
1 AAATAAAAATATTTAAAA
69749303 AAAT
1 AAAT
69749307 CGATTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAAAATATTTAAAA
Found at i:69749771 original size:10 final size:10
Alignment explanation
Indices: 69749758--69749937 Score: 76
Period size: 10 Copynumber: 18.9 Consensus size: 10
69749748 CTTATTAGGT
*
69749758 TTTTTTATCA
1 TTTTTTATAA
69749768 -TTTTTATAA
1 TTTTTTATAA
*
69749777 -TATTTATAA
1 TTTTTTATAA
* *
69749786 GTTTTTATGA
1 TTTTTTATAA
*
69749796 TTTTTAATAA
1 TTTTTTATAA
69749806 TTTTTTATAA
1 TTTTTTATAA
*
69749816 -TATTTATAA
1 TTTTTTATAA
* * *
69749825 GTTTTGATATT
1 TTTTTTATA-A
69749836 TTTTTTATAA
1 TTTTTTATAA
*
69749846 -TTTTTATCA
1 TTTTTTATAA
** *
69749855 CGTTATATCAA
1 TTTTTTAT-AA
* *
69749866 -CTTTAAT-A
1 TTTTTTATAA
*
69749874 -TTTTTAAAA
1 TTTTTTATAA
*
69749883 TTTTTAATAA
1 TTTTTTATAA
69749893 --TTTTATAA
1 TTTTTTATAA
*
69749901 -TTTTTATGA
1 TTTTTTATAA
*
69749910 TATTTTATAA
1 TTTTTTATAA
*
69749920 -TTTTTATGA
1 TTTTTTATAA
*
69749929 CTTTTTATA
1 TTTTTTATA
69749938 TGTTTTTTTA
Statistics
Matches: 126, Mismatches: 34, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
8 12 0.10
9 47 0.37
10 59 0.47
11 8 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:69749773 original size:9 final size:9
Alignment explanation
Indices: 69749759--69750151 Score: 149
Period size: 9 Copynumber: 41.6 Consensus size: 9
69749749 TTATTAGGTT
*
69749759 TTTTTATCA
1 TTTTTATAA
69749768 TTTTTATAA
1 TTTTTATAA
*
69749777 TATTTATAA
1 TTTTTATAA
*
69749786 GTTTTTATGA
1 -TTTTTATAA
69749796 TTTTTAATAA
1 TTTTT-ATAA
69749806 TTTTTTATAA
1 -TTTTTATAA
*
69749816 TATTTATAA
1 TTTTTATAA
**
69749825 GTTTTGATATTT
1 -TTTT--TATAA
69749837 TTTTTATAA
1 TTTTTATAA
*
69749846 TTTTTATCAC
1 TTTTTAT-AA
* *
69749856 GTTATATCAA
1 TTTTTAT-AA
* *
69749866 CTTTAAT-A
1 TTTTTATAA
*
69749874 TTTTTAAAA
1 TTTTTATAA
69749883 TTTTTAATAA
1 TTTTT-ATAA
69749893 -TTTTATAA
1 TTTTTATAA
*
69749901 TTTTTATGA
1 TTTTTATAA
69749910 TATTTTATAA
1 T-TTTTATAA
*
69749920 TTTTTATGAC
1 TTTTTAT-AA
*
69749930 TTTTTATATGTT
1 TTTTTATA---A
*
69749942 TTTTTAAGAA
1 TTTTT-ATAA
69749952 TTTTTAT-A
1 TTTTTATAA
69749960 TATTTTATAAA
1 T-TTTTAT-AA
* *
69749971 ATTTTAAATA
1 TTTTTATA-A
69749981 TGTTTTATTAA
1 T-TTTTA-TAA
*
69749992 TTTTATAAAA
1 TTTT-TATAA
***
69750002 AAATTATAA
1 TTTTTATAA
**
69750011 TTTATTAGCA
1 TTT-TTATAA
69750021 TTTATT-TAA
1 TTT-TTATAA
69750030 -TTTTATATA
1 TTTTTATA-A
69750039 TTTTTAT--
1 TTTTTATAA
69750046 TTTTTATAA
1 TTTTTATAA
*
69750055 GTTTATATCAA
1 -TTTTTAT-AA
* *
69750066 CTTTAATAA
1 TTTTTATAA
69750075 TTTTT-TAA
1 TTTTTATAA
69750083 TATTTT-TAA
1 T-TTTTATAA
*
69750092 TATTTAT-A
1 TTTTTATAA
69750100 TTTTTATAA
1 TTTTTATAA
* **
69750109 CTTTTACGA
1 TTTTTATAA
69750118 TATTTTATAA
1 T-TTTTATAA
* *
69750128 TTTTAATGAT
1 TTTTTAT-AA
*
69750138 TTTTTTTAA
1 TTTTTATAA
69750147 TTTTT
1 TTTTT
69750152 TGTATTTTGA
Statistics
Matches: 284, Mismatches: 64, Indels: 72
0.68 0.15 0.17
Matches are distributed among these distances:
7 9 0.03
8 29 0.10
9 110 0.39
10 104 0.37
11 21 0.07
12 9 0.03
13 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:69749792 original size:19 final size:19
Alignment explanation
Indices: 69749768--69749829 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
69749758 TTTTTTATCA
69749768 TTTTTATAATATTTATAAG
1 TTTTTATAATATTTATAAG
* * *
69749787 TTTTTATGATTTTTAATAAT
1 TTTTTATAATATTT-ATAAG
69749807 TTTTTATAATATTTATAAG
1 TTTTTATAATATTTATAAG
69749826 TTTT
1 TTTT
69749830 GATATTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTATAATATTTATAAG
Found at i:69749800 original size:39 final size:39
Alignment explanation
Indices: 69749757--69749852 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
69749747 ACTTATTAGG
*
69749757 TTTTTTTATCATTTTTATAATATTTATAAGTTTT--TAT
1 TTTTTTTATAATTTTTATAATATTTATAAGTTTTGATAT
* *
69749794 GATTTTTAATAATTTTTTATAATATTTATAAGTTTTGATAT
1 -TTTTTTTATAA-TTTTTATAATATTTATAAGTTTTGATAT
69749835 TTTTTTTATAATTTTTAT
1 TTTTTTTATAATTTTTAT
69749853 CACGTTATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 8 0.16
39 30 0.60
40 9 0.18
41 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (39 bp):
TTTTTTTATAATTTTTATAATATTTATAAGTTTTGATAT
Found at i:69749890 original size:18 final size:18
Alignment explanation
Indices: 69749759--69749925 Score: 83
Period size: 19 Copynumber: 8.8 Consensus size: 18
69749749 TTATTAGGTT
*
69749759 TTTTTATCATTTTT-ATAA
1 TTTTTATAATTTTTAAT-A
*
69749777 TATTTATAAGTTTTT-ATGA
1 TTTTTATAA-TTTTTAAT-A
*
69749796 TTTTTAATAATTTTTTATAA
1 TTTTT-ATAATTTTTAAT-A
* * *
69749816 TATTTATAAGTTTTGATATTT
1 TTTTTATAA-TTTT--TAATA
69749837 TTTTTATAATTTTT-ATCA
1 TTTTTATAATTTTTAAT-A
* * *
69749855 CGTTATATCAA-CTTTAATA
1 -TTTTTAT-AATTTTTAATA
*
69749874 TTTTTAAAATTTTTAATA
1 TTTTTATAATTTTTAATA
*
69749892 ATTTTATAATTTTT-ATGA
1 TTTTTATAATTTTTAAT-A
69749910 TATTTTATAATTTTTA
1 T-TTTTATAATTTTTA
69749926 TGACTTTTTA
Statistics
Matches: 113, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
17 5 0.04
18 32 0.28
19 43 0.38
20 23 0.20
21 8 0.07
22 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTTTAATA
Found at i:69749905 original size:19 final size:19
Alignment explanation
Indices: 69749867--69749999 Score: 71
Period size: 19 Copynumber: 6.8 Consensus size: 19
69749857 TTATATCAAC
* *
69749867 TTTAATATTTTTA-AAATT
1 TTTAATAATTTTATAATTT
69749885 TTTAATAATTTTATAATTT
1 TTTAATAATTTTATAATTT
*
69749904 TTATGAT-ATTTTATAA-TT
1 TT-TAATAATTTTATAATTT
* *
69749922 TTT-ATGACTTTTTATATGTTTT
1 TTTAAT-A-ATTTTATA--ATTT
*
69749944 TTTAAGAATTTTTATATATTT
1 TTTAATAA-TTTTATA-ATTT
*
69749965 TATAA-AATTTTA-AATATGT
1 TTTAATAATTTTATAAT-T-T
*
69749984 TTTATTAATTTTATAA
1 TTTAATAATTTTATAA
69750000 AAAAATTATA
Statistics
Matches: 89, Mismatches: 12, Indels: 25
0.71 0.10 0.20
Matches are distributed among these distances:
16 2 0.02
17 3 0.03
18 18 0.20
19 31 0.35
20 12 0.13
21 9 0.10
22 13 0.15
23 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTAATAATTTTATAATTT
Found at i:69749955 original size:22 final size:22
Alignment explanation
Indices: 69749920--69749991 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
69749910 TATTTTATAA
* *
69749920 TTTTTATGACTTTTTATATGTT
1 TTTTTAAGAATTTTTATATGTT
*
69749942 TTTTTAAGAATTTTTATAT-AT
1 TTTTTAAGAATTTTTATATGTT
* *
69749963 TTTATAA-AATTTTAAATATGTT
1 TTTTTAAGAATTTT-TATATGTT
*
69749985 TTATTAA
1 TTTTTAA
69749992 TTTTATAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.15
21 11 0.28
22 23 0.57
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (22 bp):
TTTTTAAGAATTTTTATATGTT
Found at i:69750142 original size:19 final size:18
Alignment explanation
Indices: 69750100--69750150 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
69750090 AATATTTATA
69750100 TTTTTATAACTTTTACGAT
1 TTTTTATAA-TTTTACGAT
* *
69750119 ATTTTATAATTTTAATGAT
1 TTTTTATAATTTT-ACGAT
*
69750138 TTTTTTTAATTTT
1 TTTTTATAATTTT
69750151 TTGTATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTTACGAT
Found at i:69751252 original size:12 final size:12
Alignment explanation
Indices: 69751217--69751256 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
69751207 TAGAGTTAAT
*
69751217 AAAATTA-TTAA
1 AAAATTACTTAG
69751228 AAAATTAACTTAG
1 AAAATT-ACTTAG
69751241 AAAATTACTTAG
1 AAAATTACTTAG
69751253 AAAA
1 AAAA
69751257 CTAAGGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.23
12 11 0.42
13 9 0.35
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (12 bp):
AAAATTACTTAG
Found at i:69761442 original size:43 final size:44
Alignment explanation
Indices: 69761371--69761533 Score: 162
Period size: 43 Copynumber: 3.8 Consensus size: 44
69761361 ACAATACCAA
* *
69761371 TGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCAC
1 TGTCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGCCAC
* *
69761414 TGTTCCAGACAG-GGTCTTACACGAAATCAAATAT-GATGCTGA-
1 TGTCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGC-CAC
* *
69761456 TGTCCCAGACA-TGGTCTTACACGTAATCTCAA-ATCGATGCCAAC
1 TGTCCCAGACAGTGGTCTTACACGAAATC-AAATATCGATGCC-AC
* * *
69761500 -GTCCCAGA-TGTGGTCTTACATGAAATCATATATC
1 TGTCCCAGACAGTGGTCTTACACGAAATCAAATATC
69761534 AAAAATCCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 33 0.34
43 64 0.65
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
TGTCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGCCAC
Found at i:69761515 original size:85 final size:85
Alignment explanation
Indices: 69761370--69761532 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
69761360 TACAATACCA
* * *
69761370 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCCAGACAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACA
69761435 CGAAATCAAATATGATGCTG
66 CGAAATCAAATATGATGCTG
* *
69761455 ATGTCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATGCCAAC-GTCCCAGA-TGTGGTCTT
1 ATGTCCCAGACATGGTCTTACACGTAATC-AAATATCGATGCC-ACTGTCCCAGACAG-GGTCTT
* *
69761517 ACATGAAATCATATAT
63 ACACGAAATCAAATAT
69761533 CAAAAATCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 1 0.01
85 63 0.93
86 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACA
CGAAATCAAATATGATGCTG
Found at i:69764369 original size:89 final size:90
Alignment explanation
Indices: 69764209--69764422 Score: 304
Period size: 89 Copynumber: 2.4 Consensus size: 90
69764199 TAAGGGTGCT
* * * * *
69764209 ACCCTCAAACATTTTAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTTGCACTCATTTGGATATT
1 ACCCTCAAACATTTTAAAAAAAAGCAATTAAGCCCCTACCTTTGTTTTGCACTCAATTGGATACT
*
69764274 TGAACTTTCAAAATGCATAAAAAAG
66 TAAACTTTCAAAATGCATAAAAAAG
* *
69764299 -CCCTCAAACCTTTTAAAAAAAAGCAATTAAGCCCCTACCTTTGTTTTGCACTCAATTGGGTACT
1 ACCCTCAAACATTTTAAAAAAAAGCAATTAAGCCCCTACCTTTGTTTTGCACTCAATTGGATACT
* *
69764363 TAAACTTTCAAAATGTATCAAAAAG
66 TAAACTTTCAAAATGCATAAAAAAG
* *
69764388 ACCCTCAAACTTTTTTCAAAAAAAGCAATTAAGCC
1 ACCCTCAAAC-ATTTTAAAAAAAAGCAATTAAGCC
69764423 AATTTTTTTT
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
89 79 0.72
90 9 0.08
91 22 0.20
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (90 bp):
ACCCTCAAACATTTTAAAAAAAAGCAATTAAGCCCCTACCTTTGTTTTGCACTCAATTGGATACT
TAAACTTTCAAAATGCATAAAAAAG
Found at i:69766684 original size:6 final size:6
Alignment explanation
Indices: 69766670--69766711 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
69766660 CCATTATATT
* *
69766670 AAAATA AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAGAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A
69766712 TTTGTTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:69771994 original size:14 final size:15
Alignment explanation
Indices: 69771966--69771994 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69771956 TTAACATTAT
69771966 CCTTTAAATATTTTA
1 CCTTTAAATATTTTA
69771981 CCTTTAAA-ATTTTA
1 CCTTTAAATATTTTA
69771995 AAAATTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
CCTTTAAATATTTTA
Found at i:69778278 original size:29 final size:29
Alignment explanation
Indices: 69778214--69778278 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
69778204 TTATTGTAGA
69778214 TTTTAT-TTTTAAATTTTTTAATGAATTT
1 TTTTATATTTTAAATTTTTTAATGAATTT
* * *
69778242 GTTCATATTTTATAATTTTTTGA-GAATTT
1 TTTTATATTTTA-AATTTTTTAATGAATTT
69778271 TTTTATAT
1 TTTTATAT
69778279 GAAATTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.13
29 17 0.57
30 9 0.30
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (29 bp):
TTTTATATTTTAAATTTTTTAATGAATTT
Found at i:69778329 original size:25 final size:24
Alignment explanation
Indices: 69778252--69778321 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
69778242 GTTCATATTT
*
69778252 TATAATTTTTTGAGAATT-TTTTTA
1 TATAATTTTTT-AAAATTATTTTTA
* *
69778276 TATGAAATTTTCAAAACTTATTTTTA
1 TAT-AATTTTTTAAAA-TTATTTTTA
69778302 TATAATTTTTTAAAATTATT
1 TATAATTTTTTAAAATTATT
69778322 ATATATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 11 0.29
25 18 0.47
26 9 0.24
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (24 bp):
TATAATTTTTTAAAATTATTTTTA
Found at i:69778583 original size:22 final size:22
Alignment explanation
Indices: 69778555--69778598 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
69778545 TATCACTTCA
69778555 AATATGGATAGCCAAAAAAATT
1 AATATGGATAGCCAAAAAAATT
*
69778577 AATATGGATAGCCAAAAGAATT
1 AATATGGATAGCCAAAAAAATT
69778599 GTCTTCACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (22 bp):
AATATGGATAGCCAAAAAAATT
Found at i:69790721 original size:15 final size:16
Alignment explanation
Indices: 69790701--69790731 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
69790691 TAGGTTTAGG
69790701 TTTTCTTTTC-TTTTA
1 TTTTCTTTTCATTTTA
69790716 TTTTCTTTTCATTTTA
1 TTTTCTTTTCATTTTA
69790732 AGTTTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTCATTTTA
Found at i:69794605 original size:31 final size:31
Alignment explanation
Indices: 69794570--69794645 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
69794560 TTACAAAATG
*
69794570 GTCACTGAACTATTCGGAAGTTTTCATCTAA
1 GTCACTGAACTATTCGAAAGTTTTCATCTAA
* ** * *
69794601 GTCACTAAACTATTTTAAAGTTTTTATTTAA
1 GTCACTGAACTATTCGAAAGTTTTCATCTAA
*
69794632 GTCATTGAACTATT
1 GTCACTGAACTATT
69794646 GAGTATTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (31 bp):
GTCACTGAACTATTCGAAAGTTTTCATCTAA
Found at i:69813619 original size:167 final size:167
Alignment explanation
Indices: 69813341--69813674 Score: 632
Period size: 167 Copynumber: 2.0 Consensus size: 167
69813331 ATAGTAGGGG
*
69813341 GAGTTGGGATTTTATTCTGAATTAAATTTTTGTAATTTTATTTTGTTTTGTTTTCTTCCCAAAAA
1 GAGTTGGGATTTTATTCTGAATTAAATTTTTATAATTTTATTTTGTTTTGTTTTCTTCCCAAAAA
* *
69813406 TCCCTTTTCTTTTCTGATGTTCTTCCCTTTCCTCTCTTTCCAAGTTTCTTTTTGTTTTCTTCTTC
66 TCCCTTTTCTTTTCTGATGTTCTTCCCTTTCCTCTCTCTCCAAGTTTCTTTTTGTTTTCATCTTC
69813471 TATCCTGTTCACAATCATTCGTTTTTATCACTGTGTT
131 TATCCTGTTCACAATCATTCGTTTTTATCACTGTGTT
69813508 GAGTTGGGATTTTATTCTGAATTAAATTTTTATAATTTTATTTTGTTTTGTTTTCTTCCCAAAAA
1 GAGTTGGGATTTTATTCTGAATTAAATTTTTATAATTTTATTTTGTTTTGTTTTCTTCCCAAAAA
*
69813573 TCCCTTTTCTTTTCTGATGTTCTTCCCTTTCCTCTCTCTGCAAGTTTCTTTTTGTTTTCATCTTC
66 TCCCTTTTCTTTTCTGATGTTCTTCCCTTTCCTCTCTCTCCAAGTTTCTTTTTGTTTTCATCTTC
69813638 TATCCTGTTCACAATCATTCGTTTTTATCACTGTGTT
131 TATCCTGTTCACAATCATTCGTTTTTATCACTGTGTT
69813675 TTGGATTTTC
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 163 1.00
ACGTcount: A:0.16, C:0.19, G:0.10, T:0.54
Consensus pattern (167 bp):
GAGTTGGGATTTTATTCTGAATTAAATTTTTATAATTTTATTTTGTTTTGTTTTCTTCCCAAAAA
TCCCTTTTCTTTTCTGATGTTCTTCCCTTTCCTCTCTCTCCAAGTTTCTTTTTGTTTTCATCTTC
TATCCTGTTCACAATCATTCGTTTTTATCACTGTGTT
Found at i:69825067 original size:15 final size:16
Alignment explanation
Indices: 69825042--69825074 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
69825032 AATATGTAAT
69825042 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
69825058 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
69825073 TT
1 TT
69825075 AAATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:69825107 original size:30 final size:32
Alignment explanation
Indices: 69825071--69825137 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 32
69825061 ATATTTTTAT
*
69825071 AATTAAATTA-AATTTTTATTATT-CTAA-AAA
1 AATTAAAATATAA-TTTTATTATTACTAATAAA
69825101 AATTAAAATATAATTTTATTATTACTAATTAAA
1 AATTAAAATATAATTTTATTATTACTAA-TAAA
69825134 AATT
1 AATT
69825138 TTATAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 19 0.59
31 6 0.19
33 7 0.22
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTAAAATATAATTTTATTATTACTAATAAA
Found at i:69825141 original size:19 final size:19
Alignment explanation
Indices: 69825119--69825163 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
69825109 TATAATTTTA
*
69825119 TTATTACTAATTAAAAATT
1 TTATTAATAATTAAAAATT
* *
69825138 TTATAAATTATTAAAAATT
1 TTATTAATAATTAAAAATT
*
69825157 TAATTAA
1 TTATTAA
69825164 AAAAATTCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTAATAATTAAAAATT
Found at i:69836095 original size:90 final size:90
Alignment explanation
Indices: 69835928--69836174 Score: 282
Period size: 90 Copynumber: 2.7 Consensus size: 90
69835918 TGCAACTCTA
* * * *
69835928 GTGGTTCATCCACAAATTATT-TGGCAACT-TTTATCTGCAAAAAATGTTGTGCATTCACAACCA
1 GTGGTTCATCCACCAATT-TTCTGGCAGCTCTTT-TTTGC-AAATATGTTGTGCATTCACAACCA
** * *
69835991 TCTGGTAGCGTATTAACCTAAAACACTG
63 TCTGACAACATATTAACCTAAAACACTG
* *
69836019 GTGGTTCATCCACCCATTTTCTGGCAGCTCTTTTTTGCAAATATGTTGTGTATTCACAACCATCT
1 GTGGTTCATCCACCAATTTTCTGGCAGCTCTTTTTTGCAAATATGTTGTGCATTCACAACCATCT
* **
69836084 GACAACATATTAACTTGCAACACTG
66 GACAACATATTAACCTAAAACACTG
** ** **
69836109 GTGGTTCATCCACCAAGATTCAAGCAGCTCTCATTTGCAAATATGTTGTGCATTCACAACCATCT
1 GTGGTTCATCCACCAATTTTCTGGCAGCTCTTTTTTGCAAATATGTTGTGCATTCACAACCATCT
69836174 G
66 G
69836175 GTAGTGTATT
Statistics
Matches: 133, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
90 103 0.77
91 27 0.20
92 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (90 bp):
GTGGTTCATCCACCAATTTTCTGGCAGCTCTTTTTTGCAAATATGTTGTGCATTCACAACCATCT
GACAACATATTAACCTAAAACACTG
Found at i:69836210 original size:90 final size:90
Alignment explanation
Indices: 69835971--69836194 Score: 304
Period size: 90 Copynumber: 2.5 Consensus size: 90
69835961 TCTGCAAAAA
** * *
69835971 ATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTAAAACACTGGTGGTTCATCCACCCAT
1 ATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTGCAACACTGGTGGTTCATCCACCAAG
* ** **
69836036 TTTCTGGCAGCTCTTTTTTGCAAAT
66 ATTCAAGCAGCTCTCATTTGCAAAT
* ** * * *
69836061 ATGTTGTGTATTCACAACCATCTGACAACATATTAACTTGCAACACTGGTGGTTCATCCACCAAG
1 ATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTGCAACACTGGTGGTTCATCCACCAAG
69836126 ATTCAAGCAGCTCTCATTTGCAAAT
66 ATTCAAGCAGCTCTCATTTGCAAAT
*
69836151 ATGTTGTGCATTCACAACCATCTGGTAGTGTATTAACCTGCAAC
1 ATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTGCAAC
69836195 TTTTGTGGTT
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 112 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (90 bp):
ATGTTGTGCATTCACAACCATCTGGTAGCGTATTAACCTGCAACACTGGTGGTTCATCCACCAAG
ATTCAAGCAGCTCTCATTTGCAAAT
Found at i:69843737 original size:19 final size:19
Alignment explanation
Indices: 69843710--69843758 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
69843700 CCTATAATGA
*
69843710 GATTGTTTAAAAAAAAGTC
1 GATTCTTTAAAAAAAAGTC
69843729 GATTCTTTATAAAAAAAAGTC
1 GATTC-TT-TAAAAAAAAGTC
69843750 GATTCTTTA
1 GATTCTTTA
69843759 TGAATTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 6 0.22
20 4 0.15
21 17 0.63
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (19 bp):
GATTCTTTAAAAAAAAGTC
Found at i:69843743 original size:21 final size:21
Alignment explanation
Indices: 69843717--69843759 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
69843707 TGAGATTGTT
69843717 TAAAAAAAAGTCGATTCTTTA
1 TAAAAAAAAGTCGATTCTTTA
69843738 TAAAAAAAAGTCGATTCTTTA
1 TAAAAAAAAGTCGATTCTTTA
69843759 T
1 T
69843760 GAATTTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (21 bp):
TAAAAAAAAGTCGATTCTTTA
Found at i:69844569 original size:31 final size:31
Alignment explanation
Indices: 69844534--69844625 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
69844524 ATTTTTAGAG
69844534 TTAGGACTAAATTGATAGATTTTGTAAATAT
1 TTAGGACTAAATTGATAGATTTTGTAAATAT
* * * *
69844565 TTAGGGCCAAATTTATTGAATTTT-TAAA-A-
1 TTAGGACTAAATTGATAG-ATTTTGTAAATAT
* * * *
69844594 TTAGAACTAAAATGACAAATTTTGTAAATAT
1 TTAGGACTAAATTGATAGATTTTGTAAATAT
69844625 T
1 T
69844626 GATGGTTAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
28 5 0.11
29 14 0.31
30 2 0.04
31 19 0.42
32 5 0.11
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.40
Consensus pattern (31 bp):
TTAGGACTAAATTGATAGATTTTGTAAATAT
Found at i:69844616 original size:60 final size:60
Alignment explanation
Indices: 69844523--69844649 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
69844513 GTATAGTTTT
* * * * * * *
69844523 AATTTTTAGAGTTAGGACTAAATTGATAGATTTTGTAAATATTTAGGGCCAAATTTATTG
1 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGGCCAAATTTATTG
* ** *
69844583 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTGATGGTTAAATTTGTTG
1 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGGCCAAATTTATTG
69844643 AATTTTT
1 AATTTTT
69844650 TATATTTAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (60 bp):
AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGGCCAAATTTATTG
Found at i:69849867 original size:34 final size:34
Alignment explanation
Indices: 69849829--69849900 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
69849819 ATCACAACCA
69849829 CTTATTTACCATCCTTAGTTCTTAAAACAACACT
1 CTTATTTACCATCCTTAGTTCTTAAAACAACACT
*
69849863 CTTATTTACCATCCTTAGTTCTTAAAACGACACT
1 CTTATTTACCATCCTTAGTTCTTAAAACAACACT
69849897 CTTA
1 CTTA
69849901 GTCACACAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (34 bp):
CTTATTTACCATCCTTAGTTCTTAAAACAACACT
Found at i:69855354 original size:19 final size:19
Alignment explanation
Indices: 69855313--69855365 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
69855303 GCATTACTTT
* *
69855313 CACACAAAGTGCATCTTGA
1 CACACAAGGTGCATCGTGA
*
69855332 CACACAAGGTGCATCGTGG
1 CACACAAGGTGCATCGTGA
**
69855351 CACATGAGGTGCATC
1 CACACAAGGTGCATC
69855366 CTGGTGAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (19 bp):
CACACAAGGTGCATCGTGA
Found at i:69857035 original size:43 final size:43
Alignment explanation
Indices: 69856945--69857035 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
69856935 TACCGAGATG
* * *
69856945 TGATTACATGTAAGACTATGTCCGAGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCCGAGACATTGGCATCGTATTA
** * *
69856988 TGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTTTA
1 TGATTACATGTAAGACCATGTCCGAGACATTGGCATCGTATTA
69857031 TGATT
1 TGATT
69857036 TTGCATAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCCGAGACATTGGCATCGTATTA
Found at i:69857416 original size:15 final size:15
Alignment explanation
Indices: 69857398--69857431 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
69857388 TTGTTTTAAT
69857398 TATATATACATAAGG
1 TATATATACATAAGG
69857413 TATATATACATAAGG
1 TATATATACATAAGG
69857428 TATA
1 TATA
69857432 ATTAACACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (15 bp):
TATATATACATAAGG
Found at i:69861172 original size:5 final size:5
Alignment explanation
Indices: 69861162--69861190 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69861152 GTATTTGTGA
69861162 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
69861191 AAGAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:69867543 original size:19 final size:18
Alignment explanation
Indices: 69867519--69867568 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
69867509 AGTAATTTTA
69867519 AATTTTTATAACATT-TAAT
1 AATTTTTATAAC-TTAT-AT
69867538 AATTTTTAATAACTTATAT
1 AATTTTT-ATAACTTATAT
69867557 ATATTTTTATAA
1 A-ATTTTTATAA
69867569 TTTTCTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTTATAACTTATAT
Found at i:69867569 original size:29 final size:27
Alignment explanation
Indices: 69867531--69867608 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 27
69867521 TTTTTATAAC
* *
69867531 ATTTAATAATTTTTAATAACTTATATAT
1 ATTTTATAATTTTTAATAAATTAT-TAT
*
69867559 ATTTTTATAATTTTCTAAAGAAATTATTAT
1 A-TTTTATAATTTT-T-AATAAATTATTAT
*
69867589 ATTTTATTAATTTCTAATAA
1 ATTTTA-TAATTTTTAATAA
69867609 TTTTTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 5 0.12
29 17 0.41
30 11 0.27
31 8 0.20
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTTTATAATTTTTAATAAATTATTAT
Found at i:69868062 original size:19 final size:18
Alignment explanation
Indices: 69868038--69868103 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
69868028 TCATAACATA
69868038 TTAATAAATTTTATAATAT
1 TTAATAAATTTTAT-ATAT
** *
69868057 TTAATAGTTTTTATATTT
1 TTAATAAATTTTATATAT
*
69868075 TTTA-AAATTTTATGATAT
1 TTAATAAATTTTAT-ATAT
69868093 TTAAT-AATTTT
1 TTAATAAATTTT
69868104 GATAGATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 7 0.19
18 18 0.49
19 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAATAAATTTTATATAT
Found at i:69868184 original size:23 final size:24
Alignment explanation
Indices: 69868130--69868197 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
69868120 AATTTCAAAA
*
69868130 TTTTAAATATTTTAATGAATTTTAG
1 TTTTAATTATTTTAAT-AATTTTAG
* *
69868155 CTATAATTATTTTAAT-ATTTTAG
1 TTTTAATTATTTTAATAATTTTAG
*
69868178 TTTTAATT-TTAT-ATAATTTT
1 TTTTAATTATTTTAATAATTTT
69868198 CTATAATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
21 2 0.06
22 8 0.22
23 13 0.36
25 13 0.36
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAATTATTTTAATAATTTTAG
Found at i:69875855 original size:18 final size:18
Alignment explanation
Indices: 69875832--69875917 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
69875822 GAACGATTAT
* * *
69875832 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATAAA
*
69875850 TTATTCGGTAACAATAAA
1 TTATTCAGTAACAATAAA
* * *
69875868 TTATTCAATAATAATAAG
1 TTATTCAGTAACAATAAA
69875886 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TAAA
69875905 TTATTCAGTAACA
1 TTATTCAGTAACA
69875918 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 40 0.71
19 16 0.29
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:69875873 original size:36 final size:37
Alignment explanation
Indices: 69875832--69875920 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
69875822 GAACGATTAT
*
69875832 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * *
69875868 TTATTCAATAATAATAAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
69875905 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
69875921 GATCTTTCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 27 0.63
37 16 0.37
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:69877546 original size:15 final size:16
Alignment explanation
Indices: 69877523--69877571 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
69877513 TTTCGTTTCA
69877523 TTCTGTTTCTTTTCTTT
1 TTCT-TTTCTTTTCTTT
*
69877540 TT-TTTTCATTTCTTT
1 TTCTTTTCTTTTCTTT
*
69877555 TTCTTTTGTTTTACTTT
1 TTCTTTTCTTTT-CTTT
69877572 ATATATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.48
16 8 0.30
17 6 0.22
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (16 bp):
TTCTTTTCTTTTCTTT
Found at i:69877725 original size:31 final size:31
Alignment explanation
Indices: 69877669--69877758 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 31
69877659 CACACTTGTC
*
69877669 ATAATTTAATATATTTATTACATAAAAATC-TT
1 ATAATATAA-ATATTTATTA-ATAAAAATCTTT
*
69877701 ATAATATAAATATTTAATTAATAAATATCTTTT
1 ATAATATAAATATTT-ATTAATAAAAATC-TTT
*
69877734 ATAAATAATAAATATCTATTAATAA
1 AT-AAT-ATAAATATTTATTAATAA
69877759 TTAAATATAC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 14 0.28
32 12 0.24
33 4 0.08
34 11 0.22
35 9 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAATATAAATATTTATTAATAAAAATCTTT
Found at i:69881274 original size:27 final size:27
Alignment explanation
Indices: 69881244--69881325 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
69881234 ATGGCAACTA
* * *
69881244 GGGTAGTTTTTCGGGATGGTAAACACG
1 GGGTAGTTTGTCAGGACGGTAAACACG
**
69881271 GGGTAGTTTGTCAGGACGGTAAACATA
1 GGGTAGTTTGTCAGGACGGTAAACACG
* * *
69881298 AGG-A-TATGTCGGGACGGTAAACACG
1 GGGTAGTTTGTCAGGACGGTAAACACG
69881323 GGG
1 GGG
69881326 AAGTCTGCCA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 19 0.43
26 1 0.02
27 24 0.55
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.23
Consensus pattern (27 bp):
GGGTAGTTTGTCAGGACGGTAAACACG
Found at i:69887399 original size:44 final size:45
Alignment explanation
Indices: 69887337--69887421 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
69887327 CTATACGCCT
* *
69887337 AAAATGAGTAATACCATAACTGAAAGATATTATAGCATCATGATA
1 AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCATGATA
* * *
69887382 AAAAGGAGTAA-ACCATAATTGAAAGACGTTATAGTATCAT
1 AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCAT
69887422 AAGTAAGCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 25 0.71
45 10 0.29
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (45 bp):
AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCATGATA
Found at i:69894273 original size:45 final size:45
Alignment explanation
Indices: 69894172--69894276 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
69894162 AAGGGTAGCA
* *
69894172 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
1 GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCTAAATCG
* * *
69894217 GTACCAATAACGGTAACAGTATTCGACACACAAAGTG-TCGAATCG
1 GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCT-AAATCG
*
69894262 GTAACAGTAACGGTA
1 GTAACAATAACGGTA
69894277 GTCGGCACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 51 0.98
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (45 bp):
GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCTAAATCG
Found at i:69894691 original size:24 final size:24
Alignment explanation
Indices: 69894659--69894706 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
69894649 GATAAAGTTT
69894659 GAATTATAGTGATACAAACCAGAA
1 GAATTATAGTGATACAAACCAGAA
*
69894683 GAATTATAGTGATACAAACTAGAA
1 GAATTATAGTGATACAAACCAGAA
69894707 TTCTCTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (24 bp):
GAATTATAGTGATACAAACCAGAA
Found at i:69899473 original size:27 final size:27
Alignment explanation
Indices: 69899443--69899496 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
69899433 ATAAGGTGTA
*
69899443 AGTGAATCTACAAGAGGAAAGAAATGC
1 AGTGAATCTACAAGAGGAAAAAAATGC
*
69899470 AGTGAATTTACAAGAGGAAAAAAATGC
1 AGTGAATCTACAAGAGGAAAAAAATGC
69899497 GAAAGGGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (27 bp):
AGTGAATCTACAAGAGGAAAAAAATGC
Found at i:69900713 original size:20 final size:21
Alignment explanation
Indices: 69900685--69900727 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
69900675 AGCTAATACT
*
69900685 AAGGAAAAAGA-AATCATAAA
1 AAGGAAAAACACAATCATAAA
* *
69900705 AAGGCAAAACACAATGATAAA
1 AAGGAAAAACACAATCATAAA
69900726 AA
1 AA
69900728 ATATCTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.09
Consensus pattern (21 bp):
AAGGAAAAACACAATCATAAA
Found at i:69903684 original size:21 final size:21
Alignment explanation
Indices: 69903650--69903689 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
69903640 AAAAAAACCC
69903650 GTAAAATTCTTAAAAGTTTTGA
1 GTAAAATTCTTAAAA-TTTTGA
*
69903672 GTAAACTTC-TAAAATTTT
1 GTAAAATTCTTAAAATTTT
69903690 CTAAAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (21 bp):
GTAAAATTCTTAAAATTTTGA
Found at i:69923435 original size:46 final size:47
Alignment explanation
Indices: 69923274--69923465 Score: 170
Period size: 53 Copynumber: 3.9 Consensus size: 47
69923264 ATATGTGCGC
* * * *
69923274 CCGTTTAAGACCATAGTTGGGCTATAGCATCGGTGCAATGTGATATGTGTTT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTG---TGTG--ATGTGATT
* *
69923326 TCGTATAATACCATAGCTGGGCTATGGCATCGGTGTGACATGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG---TG---ATGTGATT
* *
69923379 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGTGATGTGA-T
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGATGTGATT
* ** *
69923425 CCGTGTAAGACCATAGCACGGCTATGGCTTCGGTGTGTGAT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGAT
69923466 ATGTGAAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
46 36 0.31
47 6 0.05
49 2 0.02
50 2 0.02
52 32 0.27
53 40 0.34
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGATGTGATT
Found at i:69929790 original size:9 final size:9
Alignment explanation
Indices: 69929776--69929809 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
69929766 TGATTTGCTG
69929776 ATTAGTTAA
1 ATTAGTTAA
69929785 ATTAGTTAA
1 ATTAGTTAA
69929794 ATTAGTTAA
1 ATTAGTTAA
69929803 ATTAGTT
1 ATTAGTT
69929810 TTAACAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (9 bp):
ATTAGTTAA
Found at i:69930109 original size:17 final size:18
Alignment explanation
Indices: 69930077--69930111 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69930067 ATAATTTTTA
69930077 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
69930095 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
69930112 TGTGTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:69930235 original size:24 final size:24
Alignment explanation
Indices: 69930178--69930239 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
69930168 ACAGCATGCC
* *
69930178 TGGACAGATTTAATGAGCTGCTGG
1 TGGACAAATTTAATGAGCTGCTAG
* *
69930202 TTGACAAATTTAATGAGCTTCTAG
1 TGGACAAATTTAATGAGCTGCTAG
*
69930226 TGGACGAATTTAAT
1 TGGACAAATTTAAT
69930240 ATGTCCTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (24 bp):
TGGACAAATTTAATGAGCTGCTAG
Found at i:69933622 original size:53 final size:52
Alignment explanation
Indices: 69933486--69933684 Score: 194
Period size: 52 Copynumber: 3.9 Consensus size: 52
69933476 GAAAAGATGA
** * ** **
69933486 GATATGTGCGTCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGT
1 GATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACAT
* * *
69933538 GATATGTGTTTTCGTATAAGACCATAGCTGGGCTATGGCTTCGGTGTGACAT
1 GATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACAT
* *
69933590 GATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTG---T
1 GAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACAT
* ** * *
69933640 G--ATGTGA-TCCGTGTAAGACCATAGCACGGCTATGACTTCGGTGTG
1 GATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
69933685 TGATATGTGA
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
46 31 0.25
47 6 0.05
50 2 0.02
52 46 0.37
53 40 0.32
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (52 bp):
GATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACAT
Found at i:69933681 original size:46 final size:47
Alignment explanation
Indices: 69933594--69933688 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
69933584 TGACATGATA
* ** *
69933594 ATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGTG
1 ATGTGATTCCGTATAAGACCATAGCACGGATATGACATCGGTGTGTG
* * *
69933641 ATGTGA-TCCGTGTAAGACCATAGCACGGCTATGACTTCGGTGTGTG
1 ATGTGATTCCGTATAAGACCATAGCACGGATATGACATCGGTGTGTG
69933687 AT
1 AT
69933689 ATGTGAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 35 0.85
47 6 0.15
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGATTCCGTATAAGACCATAGCACGGATATGACATCGGTGTGTG
Found at i:69935976 original size:31 final size:31
Alignment explanation
Indices: 69935938--69936072 Score: 207
Period size: 31 Copynumber: 4.4 Consensus size: 31
69935928 AGCTTCGGCT
* * *
69935938 AGTGAAAATTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
69935969 AGTGAAAAGTGGTAGTTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
69936000 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
69936031 CGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
69936062 AGTGAATAGTG
1 AGTGAAAAGTG
69936073 TACTTGGTTG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 94 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:69942118 original size:29 final size:29
Alignment explanation
Indices: 69942071--69942152 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
69942061 ACGAGATGCA
* *
69942071 AAAGTGCAAGTCAAAGTGGCAGG-CAATCC
1 AAAGTACAAGCCAAAGTGGC-GGACAATCC
*
69942100 AAAGTACAAGCCAAGGTGGCGGACAAT-C
1 AAAGTACAAGCCAAAGTGGCGGACAATCC
*
69942128 TAAGTGA-AAGCCAAAGTGGCGGACA
1 AAAGT-ACAAGCCAAAGTGGCGGACA
69942153 GTCTAACTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (29 bp):
AAAGTACAAGCCAAAGTGGCGGACAATCC
Found at i:69946517 original size:20 final size:20
Alignment explanation
Indices: 69946492--69946532 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69946482 AGATGATGAC
69946492 ATTCATGTTTTACTAATTTA
1 ATTCATGTTTTACTAATTTA
69946512 ATTCATGTTTTACTAATTTA
1 ATTCATGTTTTACTAATTTA
69946532 A
1 A
69946533 CATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTCATGTTTTACTAATTTA
Found at i:69961041 original size:38 final size:38
Alignment explanation
Indices: 69960990--69961070 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
69960980 TTAAGGATTA
69960990 TGAAATCATATTTGAAGAAAAAATAAATCATAACAAAC
1 TGAAATCATATTTGAAGAAAAAATAAATCATAACAAAC
69961028 TGAAATCATATTTGAAGAAAAAATAAATCATAACAAAC
1 TGAAATCATATTTGAAGAAAAAATAAATCATAACAAAC
69961066 TGAAA
1 TGAAA
69961071 GTAATACATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.58, C:0.10, G:0.09, T:0.23
Consensus pattern (38 bp):
TGAAATCATATTTGAAGAAAAAATAAATCATAACAAAC
Found at i:69961058 original size:22 final size:22
Alignment explanation
Indices: 69960992--69961059 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
69960982 AAGGATTATG
69960992 AAATCATATTTGAAGAAAAAAT
1 AAATCATATTTGAAGAAAAAAT
* *
69961014 AAATC--A--T--A-ACAAACT
1 AAATCATATTTGAAGAAAAAAT
69961029 GAAATCATATTTGAAGAAAAAAT
1 -AAATCATATTTGAAGAAAAAAT
69961052 AAATCATA
1 AAATCATA
69961060 ACAAACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
18 2 0.06
20 2 0.06
22 14 0.41
23 5 0.15
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.25
Consensus pattern (22 bp):
AAATCATATTTGAAGAAAAAAT
Found at i:69976214 original size:33 final size:30
Alignment explanation
Indices: 69976152--69976215 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 30
69976142 ATAAGTTTGA
69976152 TTATTATTTATAAAATAATTTAAATATATT
1 TTATTATTTATAAAATAATTTAAATATATT
69976182 TTATTATTTATTATGAATATAATTTAAA-ATATT
1 TTATTATTTA-TA--AA-ATAATTTAAATATATT
69976215 T
1 T
69976216 AAATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 10 0.33
31 2 0.07
33 8 0.27
34 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTATTATTTATAAAATAATTTAAATATATT
Found at i:69976532 original size:39 final size:39
Alignment explanation
Indices: 69976478--69976557 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
69976468 CTACTGTGTG
69976478 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
1 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
69976517 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
1 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
69976556 AT
1 AT
69976558 GTATCTATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (39 bp):
ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
Found at i:69990594 original size:32 final size:32
Alignment explanation
Indices: 69990553--69990616 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
69990543 ATAAAGCCAA
*
69990553 ACATAAATCTTTTGCCTAAAGACCTCCCGATT
1 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
69990585 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
1 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
69990617 CGATTTGATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (32 bp):
ACATAAATCTTTTGCCCAAAGACCTCCCGATT
Found at i:70001377 original size:39 final size:40
Alignment explanation
Indices: 70001332--70001499 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
70001322 CGGGGTTTAG
* * *
70001332 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
70001371 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
70001411 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
70001451 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
70001492 CCGGATAT
1 CCGGATAT
70001500 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:70001482 original size:41 final size:40
Alignment explanation
Indices: 70001355--70001499 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
70001345 CTCGCACAAG
* * * * *
70001355 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
70001395 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
70001435 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
70001476 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
70001500 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:70010319 original size:14 final size:14
Alignment explanation
Indices: 70010300--70010328 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
70010290 GTCAGACACC
70010300 TGTACGTGTCTGAT
1 TGTACGTGTCTGAT
70010314 TGTACGTGTCTGAT
1 TGTACGTGTCTGAT
70010328 T
1 T
70010329 ATATTTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.45
Consensus pattern (14 bp):
TGTACGTGTCTGAT
Found at i:70012627 original size:29 final size:29
Alignment explanation
Indices: 70012594--70012681 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 29
70012584 TAATCTATTT
70012594 TTTAGTTCGAGTCGAGTTAAATTTTACAA
1 TTTAGTTCGAGTCGAGTTAAATTTTACAA
* * * * ***
70012623 TTTAGATC-ACTCGA-AT-AA-TCTATTT
1 TTTAGTTCGAGTCGAGTTAAATTTTACAA
70012648 TTTAGTTCGAGTCGAGTTAAATTTTACAA
1 TTTAGTTCGAGTCGAGTTAAATTTTACAA
70012677 TTTAG
1 TTTAG
70012682 ATCACTCGAA
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
25 10 0.24
26 7 0.17
27 2 0.05
28 7 0.17
29 15 0.37
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (29 bp):
TTTAGTTCGAGTCGAGTTAAATTTTACAA
Found at i:70012643 original size:54 final size:54
Alignment explanation
Indices: 70012584--70012694 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
70012574 TTCAAATAAT
70012584 TAATCTATTTTTTAGTTCGAGTCGAGTTAAATTTTACAATTTAGATCACTCGAA
1 TAATCTATTTTTTAGTTCGAGTCGAGTTAAATTTTACAATTTAGATCACTCGAA
70012638 TAATCTATTTTTTAGTTCGAGTCGAGTTAAATTTTACAATTTAGATCACTCGAA
1 TAATCTATTTTTTAGTTCGAGTCGAGTTAAATTTTACAATTTAGATCACTCGAA
70012692 TAA
1 TAA
70012695 CAGATTGGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (54 bp):
TAATCTATTTTTTAGTTCGAGTCGAGTTAAATTTTACAATTTAGATCACTCGAA
Found at i:70018702 original size:23 final size:24
Alignment explanation
Indices: 70018676--70018726 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
70018666 TACATGTTTA
70018676 TTTTTTG-TTTTCAGTTTG-TTTTG
1 TTTTTTGCTTTT-AGTTTGTTTTTG
*
70018699 TTTTTTGCTTTTATTTTGTTTTTG
1 TTTTTTGCTTTTAGTTTGTTTTTG
70018723 TTTT
1 TTTT
70018727 GCTTGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.04, C:0.04, G:0.14, T:0.78
Consensus pattern (24 bp):
TTTTTTGCTTTTAGTTTGTTTTTG
Found at i:70020233 original size:16 final size:16
Alignment explanation
Indices: 70020212--70020243 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
70020202 GGACACCGCC
70020212 GACTTAATTTTATATT
1 GACTTAATTTTATATT
70020228 GACTTAATTTTATATT
1 GACTTAATTTTATATT
70020244 TTTTCATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
GACTTAATTTTATATT
Found at i:70029012 original size:18 final size:17
Alignment explanation
Indices: 70028979--70029017 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
70028969 TTGTATAAAT
70028979 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
70028997 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
70029014 TGTG
1 TGTG
70029018 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:70029270 original size:23 final size:23
Alignment explanation
Indices: 70029243--70029340 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
70029233 AGTGTTATTG
70029243 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
70029266 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
70029289 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
70029311 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
70029334 ATCAGTG
1 ATCAGTG
70029341 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:70029309 original size:45 final size:45
Alignment explanation
Indices: 70029245--70029333 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
70029235 TGTTATTGAT
* *
70029245 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
70029290 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
70029334 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:70036384 original size:18 final size:17
Alignment explanation
Indices: 70036351--70036389 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
70036341 TTGTATAAAT
70036351 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
70036369 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
70036386 TGTG
1 TGTG
70036390 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:70036642 original size:23 final size:23
Alignment explanation
Indices: 70036615--70036712 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
70036605 AGTGTTATTG
70036615 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
70036638 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
70036661 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
70036683 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
70036706 ATCAGTG
1 ATCAGTG
70036713 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:70036681 original size:45 final size:45
Alignment explanation
Indices: 70036617--70036705 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
70036607 TGTTATTGAT
* *
70036617 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
70036662 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
70036706 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:70038372 original size:42 final size:42
Alignment explanation
Indices: 70038313--70038409 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
70038303 TTATGTGTGG
* ***
70038313 TTTCGTGTAAGACCATATCTGGGATATGCCATCGATATTTGA
1 TTTCGTGTAAGACCATATATGGGATATGCCATCGATACGAGA
*
70038355 TTTCGTGTAAGACCATATATGGGATATGGCATCGATACGAGA
1 TTTCGTGTAAGACCATATATGGGATATGCCATCGATACGAGA
*
70038397 TATCGTGTAAGAC
1 TTTCGTGTAAGAC
70038410 TATAGCTAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCATATATGGGATATGCCATCGATACGAGA
Found at i:70047052 original size:13 final size:13
Alignment explanation
Indices: 70047034--70047069 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
70047024 TTTGGCAATG
70047034 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
70047047 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
70047060 CTTTTGAAAA
1 CTTTTGAAAA
70047070 TTTGAGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:70047352 original size:21 final size:19
Alignment explanation
Indices: 70047298--70047356 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
70047288 ATTATTTATC
* *
70047298 AAATTTAATTAGAATATATA
1 AAATATAATTA-AATATTTA
*
70047318 AAATATATTTAAATATTTA
1 AAATATAATTAAATATTTA
70047337 AATATAATAATTAAATATTT
1 AA-AT-ATAATTAAATATTT
70047357 GTAATTAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 9 0.27
20 11 0.33
21 13 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATATAATTAAATATTTA
Found at i:70049298 original size:72 final size:72
Alignment explanation
Indices: 70049097--70049408 Score: 391
Period size: 72 Copynumber: 4.3 Consensus size: 72
70049087 AAAATCATAT
* * * * *
70049097 ATAAACAACTATTGGTAAAAATA-ATTT-AGTATAAATAAGTTGAACATAAATTTAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTCA-CATAAATAAGTAGAACATAAATTCAATATCCAAA
*
70049160 AATCAAAC
65 AACCAAAC
* * * *
70049168 ATAATCAATTATTGATAAAACTAG-TCTTAAGCATAAATAAGTAGACCATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTAGAT-TTCA-CATAAATAAGTAGAACATAAATTCAATATCCAA
*
70049232 AGACCAAAC
64 AAACCAAAC
* * *
70049241 ATAAACAACTATTAACAAAACAAGATTTCACATAAATAAGTCA-AACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTCACATAAATAAGT-AGAACATAAATTCAATATCCAAA
70049305 AACCAAAC
65 AACCAAAC
* *
70049313 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAAATT-AATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTCACATAAATAAGTAGAACAT-AAATTCAATATCCAAA
70049377 AACCAAAC
65 AACCAAAC
*
70049385 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
70049409 TTTAGCATTG
Statistics
Matches: 209, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
71 21 0.10
72 121 0.58
73 66 0.32
74 1 0.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTCACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:70049395 original size:144 final size:145
Alignment explanation
Indices: 70049127--70049397 Score: 404
Period size: 145 Copynumber: 1.9 Consensus size: 145
70049117 ATAATTTAGT
** * * * **
70049127 ATAAATAAGTTGAACATAAATTTAATATCCAAAAATCAAACATAATCAATTATTGATAAAACTAG
1 ATAAATAAGTCAAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
* * *
70049192 TCTTAAGCATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAACATAAACAACTATTAAC
66 TATTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAAC
70049257 AAAACAAGATTTCAC
131 AAAACAAGATTTCAC
70049272 ATAAATAAGTCAAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTCAAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
*
70049337 -ATTACA-CATAAATAAGTAGAACATAAAATT-AATATCCAAAAACCAAACATAAATAACTATT
66 TATTA-AGCATAAATAAGTAGAACAT-AAATTCAATATCCAAAAACCAAACATAAACAACTATT
70049398 GATAAAACTA
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
144 49 0.43
145 64 0.57
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (145 bp):
ATAAATAAGTCAAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
TATTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAAC
AAAACAAGATTTCAC
Found at i:70050257 original size:72 final size:72
Alignment explanation
Indices: 70049993--70050231 Score: 385
Period size: 72 Copynumber: 3.3 Consensus size: 72
70049983 AAAATCATAT
**
70049993 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
70050056 GACCAAAC
65 AACCAAAC
*
70050064 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
70050129 ACCAAAC
66 ACCAAAC
*
70050136 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAAATT-AATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT-AAATTCAATATCCAAA
70050200 AACCAAAC
65 AACCAAAC
*
70050208 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
70050232 TTTAGCATTG
Statistics
Matches: 157, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
71 25 0.16
72 127 0.81
73 5 0.03
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:70050682 original size:18 final size:18
Alignment explanation
Indices: 70050659--70050706 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
70050649 TCCATCAATT
* *
70050659 TGAACACCATTTGAAATG
1 TGAACATCATTTAAAATG
70050677 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
70050695 TGAACATCATTT
1 TGAACATCATTT
70050707 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:70051144 original size:73 final size:71
Alignment explanation
Indices: 70050996--70051177 Score: 213
Period size: 73 Copynumber: 2.5 Consensus size: 71
70050986 TCACCTGTGA
* * * * *
70050996 ATAAATTTTATATCC-AAAATCATATATAAACAACTATTGGTAAAAATAATTTAGTATAAATAAG
1 ATAAATTTAATATCCAAAAATCAAACATAAACAACTATTGATAAAAATAATTTAGCATAAATAAG
*
70051060 TTGAAC
66 TAGAAC
* * * *
70051066 ATAAATTTAATATCCAAAAATCAAACATAATCAATTATTGATAAAACTAGTCTTAAGCATAAATA
1 ATAAATTTAATATCCAAAAATCAAACATAAACAACTATTGATAAAAATAAT-TT-AGCATAAATA
*
70051131 AGTAGACC
64 AGTAGAAC
* * *
70051139 ATAAATTCAATATCCAAAGACCAAACATAAACAACTATT
1 ATAAATTTAATATCCAAAAATCAAACATAAACAACTATT
70051178 AACAAAACAA
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
70 14 0.15
71 28 0.30
72 2 0.02
73 49 0.53
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (71 bp):
ATAAATTTAATATCCAAAAATCAAACATAAACAACTATTGATAAAAATAATTTAGCATAAATAAG
TAGAAC
Found at i:70053347 original size:5 final size:5
Alignment explanation
Indices: 70053339--70053366 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70053329 ATTAAATGAA
70053339 AGAAT AGAAT AGAAT AGAAT AGAAT AGA
1 AGAAT AGAAT AGAAT AGAAT AGAAT AGA
70053367 CTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (5 bp):
AGAAT
Found at i:70053489 original size:9 final size:9
Alignment explanation
Indices: 70053465--70053505 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
70053455 TTTGAATTTT
*
70053465 ATAATTTAA
1 ATAATTCAA
*
70053474 ATTATTCAA
1 ATAATTCAA
*
70053483 ATAATTCGA
1 ATAATTCAA
70053492 ATAATTCAA
1 ATAATTCAA
70053501 ATAAT
1 ATAAT
70053506 AAATTGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAATTCAA
Found at i:70053612 original size:12 final size:12
Alignment explanation
Indices: 70053597--70053637 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
70053587 TTCAAAAAAT
70053597 AAAATATTTATA
1 AAAATATTTATA
*
70053609 AAAATATTT-TCC
1 AAAATATTTAT-A
70053621 AAAAT-TTTATA
1 AAAATATTTATA
70053632 AAAATA
1 AAAATA
70053638 AATATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:70053877 original size:52 final size:52
Alignment explanation
Indices: 70053777--70053878 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
70053767 ATCATACTAA
* * *
70053777 TTTTGTTTTATTTTATTCTAAAAGAATTTTCAAATAGAGATGGCATTTATTT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
* * *
70053829 TTTTCTTTTATTTTATTCTAAAAGAATTTTTAAATACATATGATATTTAT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTAT
70053879 ATTCAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (52 bp):
TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
Found at i:70054481 original size:2 final size:2
Alignment explanation
Indices: 70054474--70054632 Score: 318
Period size: 2 Copynumber: 79.5 Consensus size: 2
70054464 GGCTTCTTCT
70054474 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70054516 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70054558 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70054600 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
70054633 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 157 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:70069878 original size:5 final size:5
Alignment explanation
Indices: 70069870--70069897 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70069860 ATTAAATGAA
70069870 AGAAT AGAAT AGAAT AGAAT AGAAT AGA
1 AGAAT AGAAT AGAAT AGAAT AGAAT AGA
70069898 CTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (5 bp):
AGAAT
Found at i:70070020 original size:9 final size:9
Alignment explanation
Indices: 70069996--70070036 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
70069986 TTTGAATTTT
*
70069996 ATAATTTAA
1 ATAATTCAA
*
70070005 ATTATTCAA
1 ATAATTCAA
*
70070014 ATAATTCGA
1 ATAATTCAA
70070023 ATAATTCAA
1 ATAATTCAA
70070032 ATAAT
1 ATAAT
70070037 AAATTGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAATTCAA
Found at i:70070143 original size:12 final size:12
Alignment explanation
Indices: 70070128--70070168 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
70070118 TTCAAAAAAT
70070128 AAAATATTTATA
1 AAAATATTTATA
*
70070140 AAAATATTT-TCC
1 AAAATATTTAT-A
70070152 AAAAT-TTTATA
1 AAAATATTTATA
70070163 AAAATA
1 AAAATA
70070169 AATATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:70070408 original size:52 final size:52
Alignment explanation
Indices: 70070308--70070409 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
70070298 ATCATACTAA
* * *
70070308 TTTTGTTTTATTTTATTCTAAAAGAATTTTCAAATAGAGATGGCATTTATTT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
* * *
70070360 TTTTCTTTTATTTTATTCTAAAAGAATTTTTAAATACATATGATATTTAT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTAT
70070410 ATTCAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (52 bp):
TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
Done.