Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 175 of 279
Found at i:57643040 original size:8 final size:8
Alignment explanation
Indices: 57643019--57643095 Score: 72
Period size: 8 Copynumber: 10.0 Consensus size: 8
57643009 TTTATTTCAA
57643019 AAAAAAAG
1 AAAAAAAG
**
57643027 GCAAAAA-
1 AAAAAAAG
*
57643034 AATAAAAG
1 AAAAAAAG
*
57643042 AAAAAGAG
1 AAAAAAAG
57643050 -AAAAAA-
1 AAAAAAAG
*
57643056 ATAAAAAG
1 AAAAAAAG
57643064 AAAAAAGAG
1 AAAAAA-AG
57643073 AAAAAAAG
1 AAAAAAAG
57643081 -AAAAAAG
1 AAAAAAAG
57643088 AAAAAAAG
1 AAAAAAAG
57643096 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
7 21 0.39
8 25 0.46
9 8 0.15
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:57643047 original size:21 final size:21
Alignment explanation
Indices: 57643017--57643084 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 21
57643007 CTTTTATTTC
57643017 AAAA-AAAAAG-GCAAAAAAAT
1 AAAAGAAAAAGAG-AAAAAAAT
57643037 AAAAGAAAAAGAGAAAAAAAT
1 AAAAGAAAAAGAGAAAAAAAT
*
57643058 AAAAAGAAAAAAGAGAAAAAAAG
1 -AAAAG-AAAAAGAGAAAAAAAT
57643081 AAAA
1 AAAA
57643085 AAGAAAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 4 0.09
21 14 0.33
22 10 0.23
23 15 0.35
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAGAGAAAAAAAT
Found at i:57643054 original size:31 final size:31
Alignment explanation
Indices: 57643019--57643095 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
57643009 TTTATTTCAA
* *
57643019 AAAAAAAGGCAAAAA-AATAAA-AGAAAAAGAG
1 AAAAAAA--CAAAAAGAAAAAAGAGAAAAAAAG
*
57643050 AAAAAAATAAAAAGAAAAAAGAGAAAAAAAG
1 AAAAAAACAAAAAGAAAAAAGAGAAAAAAAG
*
57643081 AAAAAAGAAAAAAAG
1 AAAAAA-ACAAAAAG
57643096 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 5 0.13
30 5 0.13
31 22 0.56
32 7 0.18
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (31 bp):
AAAAAAACAAAAAGAAAAAAGAGAAAAAAAG
Found at i:57643055 original size:23 final size:22
Alignment explanation
Indices: 57643042--57643092 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
57643032 AAAATAAAAG
*
57643042 AAAAAGAGAAAAAAATAAAAAG
1 AAAAAGAGAAAAAAAAAAAAAG
57643064 AAAAAAGAGAAAAAAAGAAAAAAG
1 -AAAAAGAGAAAAAAA-AAAAAAG
57643088 AAAAA
1 AAAAA
57643093 AAGGAGAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAGAGAAAAAAAAAAAAAG
Found at i:57643078 original size:17 final size:16
Alignment explanation
Indices: 57643042--57643094 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
57643032 AAAATAAAAG
*
57643042 AAAAAGAGAAAAA-AAT
1 AAAAAGA-AAAAAGAAA
57643058 AAAAAGAAAAAAGAGAA
1 AAAAAGAAAAAAGA-AA
57643075 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
57643091 AAAA
1 AAAA
57643095 GGAGAGGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.15
16 14 0.41
17 15 0.44
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:57644172 original size:87 final size:87
Alignment explanation
Indices: 57644018--57644305 Score: 344
Period size: 87 Copynumber: 3.4 Consensus size: 87
57644008 GCAGATCGAA
* * * *
57644018 GACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGT-----TCACAGATCTTATCTCCCTAAGC
1 GACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGCTCAAAATTACAGATCTTATCTCCCTAAGC
* *
57644078 AGTAGCGGAGCAAATCAACGAC
66 AGTAGCGGAGTAGATCAACGAC
*
57644100 GACTCGCCTTAACCCCCTAAGCAGTAGGGTAGCAAGCT-AAAATTACAGATCTTATCTCCCTAAG
1 GACTCGCCTTAACCCCCTAAGCAGTAGGGTAAC-AGCTCAAAATTACAGATCTTATCTCCCTAAG
*
57644164 CAGTAGCGGAATAGATCAACGAC
65 CAGTAGCGGAGTAGATCAACGAC
* * * * *
57644187 AACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGC
1 GACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGCTCAAAATTACAGATCTTATCTCCCTAAGC
* *
57644252 AGTAGTGGAGTAGAT---CGAA
66 AGTAGCGGAGTAGATCAACGAC
*
57644271 GA-TGCGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 GACT-CGCCTTAACCCCCTAAGCAGTAGGGTAACAG
57644306 GTTAAAGTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
82 30 0.17
83 4 0.02
84 33 0.18
86 3 0.02
87 109 0.61
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (87 bp):
GACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGCTCAAAATTACAGATCTTATCTCCCTAAGC
AGTAGCGGAGTAGATCAACGAC
Found at i:57644795 original size:207 final size:206
Alignment explanation
Indices: 57644430--57645144 Score: 1072
Period size: 207 Copynumber: 3.5 Consensus size: 206
57644420 ATTCAACGGA
* * * *
57644430 GAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
57644495 TTTGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
*
57644560 ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCTT
131 ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAG-AAGATCCAAGATGGTTTGGCATCCT
* *
57644625 TGTACTTGCAAG
195 TGTGCTTACAAG
* * * *
57644637 GAGCAAGTCAAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAGTCTAAGATGAT
1 GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
57644702 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
*
57644767 ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCT
131 ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAG-AAGATCCAAGATGGTTTGGCATCCT
57644832 TGTGCTTACAAG
195 TGTGCTTACAAG
* * * *
57644844 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGAT
1 GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * **
57644909 TTGGCATCTCTGTATTTTCAGAGAACAAATCGAAGTGTGGCGTCTCCATATTCGATGGAGGATAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
* * ** * * * * *
57644974 ACATATAGCAAATCTAACTTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTT
131 ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGAAGATCCAAGATGGTTTGGCATCCTT
57645039 GTGCTTACAAG
196 GTGCTTACAAG
* * *
57645050 GAGCAAATCGAAGACATAGCTGATATGGCTTTCGCGTGTTTAC-TCTGAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGT-TGAAGCAAATCTAAGATGA
*
57645114 TTTGGCATCTCTGTATTGTCAGCGAACAAAT
65 TTTGGCATCTCTGTATTGTCAGAGAACAAAT
57645145 TAAAGAAGCA
Statistics
Matches: 465, Mismatches: 42, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 1 0.00
206 121 0.26
207 343 0.74
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (206 bp):
GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
ACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGAAGATCCAAGATGGTTTGGCATCCTT
GTGCTTACAAG
Found at i:57644935 original size:87 final size:88
Alignment explanation
Indices: 57644769--57644943 Score: 214
Period size: 87 Copynumber: 2.0 Consensus size: 88
57644759 GAGGGCAGAC
* *
57644769 ACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCTTG
1 ACATAGCAGATCTGGCCTTCAGATGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCCTTG
*
57644834 TGCTTACAAGGAACAAATCGAAG
66 TACTTACAAGGAACAAATCGAAG
* * * *
57644857 ACATAGCTGATTTGGCTTTCACG-TGTTTACATTGAAGCAAG-TCTAAGATGATTTGGCAT-CTC
1 ACATAGCAGATCTGGCCTTCA-GATGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCCT-
* *
57644919 TGTATTTTC-AGAGAACAAATCGAAG
64 TGTACTTACAAG-GAACAAATCGAAG
57644944 TGTGGCGTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
86 4 0.05
87 36 0.48
88 34 0.45
89 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (88 bp):
ACATAGCAGATCTGGCCTTCAGATGTTTACACTGAAGCAAGATCTAAGATGATTTGGCATCCTTG
TACTTACAAGGAACAAATCGAAG
Found at i:57645563 original size:17 final size:18
Alignment explanation
Indices: 57645550--57645672 Score: 78
Period size: 18 Copynumber: 6.8 Consensus size: 18
57645540 TAATCTTCAA
57645550 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
*
57645569 TGATATGCAATCTTGGA-
1 TGATATGCAATCTTAGAG
* *
57645586 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
57645605 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* * *
57645621 T-ATAATACAATCCTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
57645640 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
57645658 TGATATACAATCTTA
1 TGATATGCAATCTTA
57645673 AAAGATATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
15 2 0.02
16 3 0.04
17 22 0.26
18 27 0.32
19 27 0.32
20 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:57645574 original size:19 final size:19
Alignment explanation
Indices: 57645549--57645672 Score: 161
Period size: 19 Copynumber: 6.8 Consensus size: 19
57645539 ATAATCTTCA
57645549 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
57645568 GTGATATGCAATCTTGGAT
1 ATGATATGCAATCTTAGAT
57645587 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
57645604 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
57645622 AT-A-ATACAATCCTAGAT
1 ATGATATGCAATCTTAGAT
57645639 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57645657 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
57645673 AAAGATATGA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
17 29 0.32
18 30 0.33
19 31 0.34
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:57645623 original size:35 final size:35
Alignment explanation
Indices: 57645557--57645672 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 35
57645547 CAATGATATG
* *
57645557 CAATCTTAGATGTGATATGCAATCTTGGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
57645593 CAATCTTAGATATGATTGCAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
57645628 CAATCCTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
57645665 CAATCTTA
1 CAATCTTA
57645673 AAAGATATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 47 0.65
36 15 0.21
37 10 0.14
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:57648735 original size:23 final size:23
Alignment explanation
Indices: 57648705--57648791 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
57648695 GCTTTATCGA
* *
57648705 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
57648728 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
57648749 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
57648771 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
57648792 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:57652403 original size:31 final size:31
Alignment explanation
Indices: 57652365--57652427 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
57652355 ATACGTTCGG
57652365 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
*
57652396 TAATGCCTCGTAACCTTGTTTCGGTGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
57652427 T
1 T
57652428 TGGGGTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (31 bp):
TAATGCCTCGTAACCTTGTTTCGGCGACTGT
Found at i:57653372 original size:21 final size:23
Alignment explanation
Indices: 57653346--57653390 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
57653336 AAAAGGTATC
57653346 TACAAATT-AAATC-TCTAAGAT
1 TACAAATTCAAATCTTCTAAGAT
*
57653367 TACAAATTCATATCTTCTAAGAT
1 TACAAATTCAAATCTTCTAAGAT
57653390 T
1 T
57653391 GCAATCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (23 bp):
TACAAATTCAAATCTTCTAAGAT
Found at i:57653400 original size:21 final size:23
Alignment explanation
Indices: 57653346--57653402 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
57653336 AAAAGGTATC
*
57653346 TACAAATT-AAATC-TCTAAGAT
1 TACAAATTCATATCTTCTAAGAT
57653367 TACAAATTCATATCTTCTAAGAT
1 TACAAATTCATATCTTCTAAGAT
*
57653390 TGC-AA-TCATATCT
1 TACAAATTCATATCT
57653403 AAGATTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 16 0.50
22 6 0.19
23 10 0.31
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (23 bp):
TACAAATTCATATCTTCTAAGAT
Found at i:57653416 original size:17 final size:18
Alignment explanation
Indices: 57653382--57653434 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
57653372 ATTCATATCT
57653382 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
57653400 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
57653417 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
57653435 TAAAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:57653585 original size:21 final size:20
Alignment explanation
Indices: 57653547--57653586 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57653537 TTGGGCTTCG
**
57653547 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
57653567 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
57653587 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:57656849 original size:26 final size:24
Alignment explanation
Indices: 57656809--57656886 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
57656799 TTATTTTATT
* * **
57656809 AAATAAAAAAATTTAAAATTATAA
1 AAATAAATATATTTAAAAACATAA
57656833 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
* *
57656859 AAAT-AA-ATATTAAAAAAAATAA
1 AAATAAATATATTTAAAAACATAA
57656881 AAATAA
1 AAATAA
57656887 TACTAAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.40
23 3 0.07
25 8 0.18
26 16 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:57656874 original size:22 final size:21
Alignment explanation
Indices: 57656839--57656894 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
57656829 ATAATAAATC
* *
57656839 AAAT-ATATTTAAAAACATAA
1 AAATAATATTAAAAAAAATAA
57656859 AAATAAATATTAAAAAAAATAA
1 AAAT-AATATTAAAAAAAATAA
*
57656881 AAATAATACTAAAA
1 AAATAATATTAAAA
57656895 CAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 18 0.58
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAATATTAAAAAAAATAA
Found at i:57656988 original size:20 final size:20
Alignment explanation
Indices: 57656941--57656988 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
57656931 AAAAAATAGT
57656941 TATATTAAAAATTTAAAATAA
1 TATATTAAAAA-TTAAAATAA
*
57656962 T-TTTTAAAAA-TAAAATATA
1 TATATTAAAAATTAAAATA-A
57656981 TATATTAA
1 TATATTAA
57656989 TATATAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 13 0.57
21 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATTAAAAATTAAAATAA
Found at i:57662179 original size:3 final size:3
Alignment explanation
Indices: 57662173--57662207 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
57662163 ATTATTGAGT
* *
57662173 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57662208 TCTTCCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:57663428 original size:104 final size:104
Alignment explanation
Indices: 57663312--57663520 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
57663302 AAGCATTTTT
*
57663312 TTATTCGCGTATCGGGAGTTTGAGACATTGTATTCTAACTTACTGGATATGATTTTCTTTCTCGA
1 TTATTCGCGTATCGGGAGTTTGAGACATTGTATTCTAACTTACTGGATATGATTCTCTTTCTCGA
57663377 TTAACGTGGAATATACTTCTTTTTCCAAAACTTTAATGC
66 TTAACGTGGAATATACTTCTTTTTCCAAAACTTTAATGC
57663416 TTATTCGCGTATCGGGAGTTTGAGACATTGTATTCTAACTTACTGGATATGATTCTCTTTCTCGA
1 TTATTCGCGTATCGGGAGTTTGAGACATTGTATTCTAACTTACTGGATATGATTCTCTTTCTCGA
57663481 TTAACGTGGAATATACTTCTTTTTCCAAAACTTTAATGC
66 TTAACGTGGAATATACTTCTTTTTCCAAAACTTTAATGC
57663520 T
1 T
57663521 AGGATCGTAT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (104 bp):
TTATTCGCGTATCGGGAGTTTGAGACATTGTATTCTAACTTACTGGATATGATTCTCTTTCTCGA
TTAACGTGGAATATACTTCTTTTTCCAAAACTTTAATGC
Found at i:57666152 original size:55 final size:55
Alignment explanation
Indices: 57666068--57666177 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
57666058 CGAGAGCTAA
57666068 TCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCGAGAAGTCGCCTTGGGAAAG
1 TCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCGAGAAGTCGCCTTGGGAAAG
*
57666123 TCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCGAGAAGTCGTCTTGGGAAAG
1 TCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCGAGAAGTCGCCTTGGGAAAG
57666178 AGTCTACTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (55 bp):
TCAATGGGAAAAGAAATTTCAGGATACTCGGGCTCGAGAAGTCGCCTTGGGAAAG
Found at i:57675339 original size:39 final size:40
Alignment explanation
Indices: 57675236--57675643 Score: 233
Period size: 39 Copynumber: 9.8 Consensus size: 40
57675226 AAGAATTGCA
* *
57675236 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAG
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT--ACA-AG
* * * *
57675279 TAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTA-AAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTACAAG
* * * *
57675319 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT--TACAAG
* * *
57675360 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATACT
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT--ACA-A-G
* * * *
57675404 AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTA-AAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTACAAG
* * * *
57675443 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT--TACAAG
* * * *
57675484 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT--TACA-AG
* * *
57675527 TATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAG
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT--ACA-AG
* * *
57675570 TAATCCTATCTCCCTGAAGTTACTA-TGGAGCGGATTA-AAG
1 -GATCTTATCTCCCTGAAGTTAC-AGTGGAGCAGATTACAAG
* *
57675610 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGAT
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
57675644 CGCACCAGGT
Statistics
Matches: 288, Mismatches: 53, Indels: 51
0.73 0.14 0.13
Matches are distributed among these distances:
38 1 0.00
39 83 0.29
40 9 0.03
41 65 0.23
42 7 0.02
43 36 0.12
44 80 0.28
45 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (40 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTACAAG
Found at i:57675454 original size:124 final size:124
Alignment explanation
Indices: 57675234--57675542 Score: 566
Period size: 124 Copynumber: 2.5 Consensus size: 124
57675224 CAAAGAATTG
*
57675234 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGT
57675299 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
66 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
57675358 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGT
57675423 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
66 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
* * * *
57675482 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCTTATCTCCCTGA
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGA
57675543 GATTACAGCG
Statistics
Matches: 180, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
123 14 0.08
124 166 0.92
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (124 bp):
CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGT
TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
Found at i:57675548 original size:167 final size:165
Alignment explanation
Indices: 57675319--57675671 Score: 582
Period size: 167 Copynumber: 2.1 Consensus size: 165
57675309 CGGATTAAAG
* * * *
57675319 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCACCAGATCTTATCTCCCTGAGATTACA
1 GATCTTATCTCCCTGAGA-TTACAGCAGAGCAGATCGAAACAGATCTTATCTCCCTGAGATTACA
57675383 GCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAGGATCT
65 GCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAGGATCT
57675448 TATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA
130 TATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA
* *
57675484 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCTGAGATTAC
1 GATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAA-ACA-GATCTTATCTCCCTGAGATTAC
* *
57675549 AGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACTATGGAGCGGATTAAAGGATC
64 AGCGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAGGATC
57675614 TTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA
129 TTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA
* *
57675651 GGTCTTATTTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTA
57675672 NNNNNNNNNN
Statistics
Matches: 175, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
165 32 0.18
166 3 0.02
167 140 0.80
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (165 bp):
GATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAACAGATCTTATCTCCCTGAGATTACAG
CGGAGCAGATTGAATATACTAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAGGATCTT
ATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCA
Found at i:57685779 original size:20 final size:19
Alignment explanation
Indices: 57685756--57685794 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
57685746 TTTATATTAT
57685756 TATATTATTAATATTATTTA
1 TATATTATTAATA-TATTTA
57685776 TATATTATTAATATATTTA
1 TATATTATTAATATATTTA
57685795 AATTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTATTAATATATTTA
Found at i:57685780 original size:11 final size:11
Alignment explanation
Indices: 57685756--57685792 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57685746 TTTATATTAT
57685756 TATATTA-TTA
1 TATATTATTTA
57685766 -ATATTATTTA
1 TATATTATTTA
*
57685776 TATATTATTAA
1 TATATTATTTA
57685787 TATATT
1 TATATT
57685793 TAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
9 6 0.25
10 3 0.12
11 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTATTTA
Found at i:57687810 original size:75 final size:75
Alignment explanation
Indices: 57687687--57687840 Score: 308
Period size: 75 Copynumber: 2.1 Consensus size: 75
57687677 TGATTAAGGT
57687687 ATGTCACACTTTGAACGTTACAAGTGAATAAGTTTATAAACGGGTTTAGGATCTATTCTTTTTGG
1 ATGTCACACTTTGAACGTTACAAGTGAATAAGTTTATAAACGGGTTTAGGATCTATTCTTTTTGG
57687752 GTCTAGTCCG
66 GTCTAGTCCG
57687762 ATGTCACACTTTGAACGTTACAAGTGAATAAGTTTATAAACGGGTTTAGGATCTATTCTTTTTGG
1 ATGTCACACTTTGAACGTTACAAGTGAATAAGTTTATAAACGGGTTTAGGATCTATTCTTTTTGG
57687827 GTCTAGTCCG
66 GTCTAGTCCG
57687837 ATGT
1 ATGT
57687841 ACTATCAGTC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (75 bp):
ATGTCACACTTTGAACGTTACAAGTGAATAAGTTTATAAACGGGTTTAGGATCTATTCTTTTTGG
GTCTAGTCCG
Found at i:57696036 original size:37 final size:34
Alignment explanation
Indices: 57695940--57696051 Score: 93
Period size: 37 Copynumber: 3.1 Consensus size: 34
57695930 TTAACATACA
*
57695940 TTTTAAATTTATTATTATATTTTTTGAAAATATT
1 TTTTAAATTTATTATTATATTTTTTCAAAATATT
* * *
57695974 TATTTATTTATTT-TTATATATTATTTCTTATCACCACTATT
1 T-TTTA--AATTTATTAT-TA-TATTT-TT-TCA-AAATATT
57696015 TTTTAAATTTATTATTATATTTTTT-AAAAGTATT
1 TTTTAAATTTATTATTATATTTTTTCAAAA-TATT
57696049 TTT
1 TTT
57696052 ATATTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
33 1 0.02
34 9 0.15
35 5 0.08
36 6 0.10
37 11 0.18
38 11 0.18
39 6 0.10
40 6 0.10
41 6 0.10
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (34 bp):
TTTTAAATTTATTATTATATTTTTTCAAAATATT
Found at i:57696066 original size:19 final size:21
Alignment explanation
Indices: 57696011--57696068 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
57696001 TTATCACCAC
* *
57696011 TATTTTTTAAATTTATTATTA
1 TATTTTTTAAATGTATTTTTA
*
57696032 TATTTTTTAAAAGTATTTTTA
1 TATTTTTTAAATGTATTTTTA
57696053 TA-TTTTT-AATGTATTT
1 TATTTTTTAAATGTATTT
57696069 CCTTGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.24
20 5 0.15
21 20 0.61
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (21 bp):
TATTTTTTAAATGTATTTTTA
Found at i:57696400 original size:28 final size:29
Alignment explanation
Indices: 57696343--57696414 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
57696333 TAATTGACTC
57696343 TATTTAAATCATCCTAATTTTGAGGTTAA
1 TATTTAAATCATCCTAATTTTGAGGTTAA
* * *
57696372 TATTTAAATCATCC-ATTTTTTAGTTTAA
1 TATTTAAATCATCCTAATTTTGAGGTTAA
*
57696400 TATTTAAATAATCCT
1 TATTTAAATCATCCT
57696415 TCAAGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (29 bp):
TATTTAAATCATCCTAATTTTGAGGTTAA
Found at i:57700125 original size:35 final size:35
Alignment explanation
Indices: 57700079--57700205 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 35
57700069 CATGATAAGA
* *
57700079 TGTGAAACGTAGGTATGATATTAACCGTATTGAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
* *
57700114 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
** ** ** **
57700149 TAAGAAACGTAGGTATGGCATTTCCCATACCAAGT
1 TGTGAAACGTAGGTATGATATTAACCATACTGAGT
* *
57700184 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGATATT
57700206 TCAATGAGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGATATTAACCATACTGAGT
Found at i:57706243 original size:20 final size:20
Alignment explanation
Indices: 57706218--57706257 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57706208 TTCCTATTTA
57706218 AATAATAATTTATATAAGCT
1 AATAATAATTTATATAAGCT
57706238 AATAATAATTTATATAAGCT
1 AATAATAATTTATATAAGCT
57706258 TACTCTCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
AATAATAATTTATATAAGCT
Found at i:57709028 original size:26 final size:26
Alignment explanation
Indices: 57708997--57709104 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57708987 TGAAATGTCC
*
57708997 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57709023 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
57709049 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
57709075 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57709101 ATCA
1 ATCA
57709105 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57714642 original size:26 final size:26
Alignment explanation
Indices: 57714596--57714648 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
57714586 TCAAACATGC
*
57714596 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
57714622 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
57714648 A
1 A
57714649 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:57716166 original size:26 final size:26
Alignment explanation
Indices: 57716135--57716242 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57716125 TGAAATGCCC
*
57716135 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57716161 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
57716187 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
57716213 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57716239 ATCA
1 ATCA
57716243 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57718101 original size:15 final size:15
Alignment explanation
Indices: 57718076--57718133 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
57718066 TCATATATAT
57718076 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
57718092 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
57718107 AATAATTTCAATCAA
1 TATAAATTCAATCAA
57718122 TATAAATTCAAT
1 TATAAATTCAAT
57718134 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:57718774 original size:5 final size:5
Alignment explanation
Indices: 57718761--57718817 Score: 105
Period size: 5 Copynumber: 11.2 Consensus size: 5
57718751 TTCTTTAGTT
57718761 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
57718812 TATAA T
1 TATAA T
57718818 TAAAACGTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 47 0.92
6 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:57721932 original size:53 final size:51
Alignment explanation
Indices: 57721768--57721969 Score: 185
Period size: 53 Copynumber: 3.8 Consensus size: 51
57721758 TGGCAACAAG
* *
57721768 TGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCAAT-GGAAAACAAA
1 TGATAAGTG--ATCCGTATAAGACCATAGCTGGGCTATGGC-ATCGGAGAA-TAA
* * * *
57721822 AGATAAGTGATTTCCGTATAAGACCATAGCTGGGTTATGGCTTC--AGATTAA
1 TGATAAGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAATAA
*
57721873 TGTGATACAAGTGATCCGTATAAGACCATAGCTGCGCTATGGCATCGGAGAATAA
1 --TGAT--AAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAATAA
* * * *
57721928 TGATAAGTGCTTCCGTGTAAGACCATATCTGGGATATGGCAT
1 TGATAAGTG-ATCCGTATAAGACCATAGCTGGGCTATGGCAT
57721970 TGGTATGGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
51 7 0.06
52 30 0.25
53 37 0.30
54 36 0.30
55 12 0.10
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (51 bp):
TGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAATAA
Found at i:57727179 original size:24 final size:26
Alignment explanation
Indices: 57727150--57727197 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
57727140 AACTCTCTAA
*
57727150 TTATAATA-TTTGGTGAA-TAAAAAT
1 TTATAAGAGTTTGGTGAAGTAAAAAT
*
57727174 TTATAAGAGTTTGTTGAAGTAAAA
1 TTATAAGAGTTTGGTGAAGTAAAA
57727198 CCTCCAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (26 bp):
TTATAAGAGTTTGGTGAAGTAAAAAT
Found at i:57727864 original size:26 final size:26
Alignment explanation
Indices: 57727812--57727864 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
57727802 AAATAAACTG
* * * *
57727812 TTAATAGAATCAATTGGTTAAATCAA
1 TTAATAAAATCAATTGATCAAACCAA
*
57727838 TTAATAAAATCAGTTGATCAAACCAA
1 TTAATAAAATCAATTGATCAAACCAA
57727864 T
1 T
57727865 CATTACAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (26 bp):
TTAATAAAATCAATTGATCAAACCAA
Found at i:57732798 original size:24 final size:24
Alignment explanation
Indices: 57732771--57732837 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
57732761 ATTTAGTCTG
57732771 TATTTAATAAATTAAAAAAATAAA
1 TATTTAATAAATTAAAAAAATAAA
*
57732795 TA-TTAGATAAATATTAAAAAATTAAA
1 TATTTA-AT-AA-ATTAAAAAAATAAA
57732821 T-TTTGAATATAATTAAA
1 TATTT-AATA-AATTAAA
57732838 TTATTTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
23 3 0.08
24 4 0.11
25 9 0.25
26 19 0.53
27 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATTAAAAAAATAAA
Found at i:57736552 original size:53 final size:53
Alignment explanation
Indices: 57736471--57736621 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
57736461 CTTACACGGT
* *
57736471 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
57736526 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
57736579 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
57736622 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:57744071 original size:53 final size:53
Alignment explanation
Indices: 57743990--57744140 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
57743980 CTTACACGGT
* *
57743990 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
57744045 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
57744098 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
57744141 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:57746570 original size:20 final size:20
Alignment explanation
Indices: 57746545--57746585 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57746535 GAAGATTTAG
57746545 ATTTAGGGTTAGTAGTGAAT
1 ATTTAGGGTTAGTAGTGAAT
57746565 ATTTAGGGTTAGTAGTGAAT
1 ATTTAGGGTTAGTAGTGAAT
57746585 A
1 A
57746586 ATTGTAGTAA
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:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTTAGGGTTAGTAGTGAAT
Found at i:57747310 original size:12 final size:13
Alignment explanation
Indices: 57747287--57747319 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
57747277 TTCAAATTAT
57747287 AATTTTTATTTAC
1 AATTTTTATTTAC
*
57747300 AATTTTT-TTTAT
1 AATTTTTATTTAC
57747312 AATTTTTA
1 AATTTTTA
57747320 AATTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTATTTAC
Found at i:57747469 original size:16 final size:16
Alignment explanation
Indices: 57747448--57747479 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57747438 ATAAAACACC
57747448 AAACTTACTACTATTT
1 AAACTTACTACTATTT
57747464 AAACTTACTACTATTT
1 AAACTTACTACTATTT
57747480 TTTCTGTTTG
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:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
AAACTTACTACTATTT
Found at i:57749784 original size:23 final size:22
Alignment explanation
Indices: 57749742--57749783 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57749732 TTTTAACTTA
*
57749742 ATTTTTT-TATTTTCATTTTTC
1 ATTTTTTATATATTCATTTTTC
57749763 ATTTTTTATATATTCATTTTT
1 ATTTTTTATATATTCATTTTT
57749784 TGAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTTTTATATATTCATTTTTC
Found at i:57754305 original size:76 final size:76
Alignment explanation
Indices: 57754210--57754436 Score: 445
Period size: 76 Copynumber: 3.0 Consensus size: 76
57754200 CCAATTTAGA
57754210 AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
1 AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
57754275 TATGTTATTGC
66 TATGTTATTGC
57754286 AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
1 AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
57754351 TATGTTATTGC
66 TATGTTATTGC
*
57754362 ATTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
1 AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
57754427 TATGTTATTG
66 TATGTTATTG
57754437 TATTTGTTCG
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 150 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (76 bp):
AGTAATAACGAATTAGATCCCTAATTTAGAAGTTAAGCAAGCACATGGAAATCAACCAACCACTC
TATGTTATTGC
Found at i:57755671 original size:18 final size:18
Alignment explanation
Indices: 57755639--57755684 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
57755629 AAATTATTTC
57755639 TAATAATTATTAATT-TTA
1 TAATAATT-TTAATTATTA
57755657 TAATAATTTTAAATTGATTA
1 TAATAATTTT-AATT-ATTA
57755677 -AATAATTT
1 TAATAATTT
57755685 GTTTAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 12 0.48
19 8 0.32
20 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAATAATTTTAATTATTA
Found at i:57759781 original size:16 final size:16
Alignment explanation
Indices: 57759762--57759797 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
57759752 CTTTTCCCCC
57759762 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
57759778 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
57759794 CTCT
1 CTCT
57759798 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:57766782 original size:21 final size:21
Alignment explanation
Indices: 57766756--57766796 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
57766746 AATATGTACT
57766756 TTTAAACTGGTTTATTGATAC
1 TTTAAACTGGTTTATTGATAC
57766777 TTTAAACTGGTTTATTGATA
1 TTTAAACTGGTTTATTGATA
57766797 ATAATTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTAAACTGGTTTATTGATAC
Found at i:57771462 original size:18 final size:18
Alignment explanation
Indices: 57771425--57771460 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57771415 TGATTAAAAT
57771425 ATTATAATGAAACTTCAA
1 ATTATAATGAAACTTCAA
*
57771443 ATTATAATTAAA-TTCAA
1 ATTATAATGAAACTTCAA
57771460 A
1 A
57771461 ATGAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTATAATGAAACTTCAA
Found at i:57783299 original size:5 final size:5
Alignment explanation
Indices: 57783286--57783340 Score: 74
Period size: 5 Copynumber: 10.8 Consensus size: 5
57783276 GAGTACCTGA
* * *
57783286 AAAAC AAAAT AAAAC AAAACA AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
57783337 AAAA
1 AAAA
57783341 AGATTCGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:57784357 original size:44 final size:44
Alignment explanation
Indices: 57784289--57784377 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
57784279 TTGGTGTGAG
57784289 AGAATTGTTCATTAGCCTCAAAGTTGATTTTTTTACTCTTTCCA
1 AGAATTGTTCATTAGCCTCAAAGTTGATTTTTTTACTCTTTCCA
*
57784333 AGAATTGTTCATTAGCCTCCAAGTTGATTTTTTTACTCTTTCCA
1 AGAATTGTTCATTAGCCTCAAAGTTGATTTTTTTACTCTTTCCA
57784377 A
1 A
57784378 TTATTTTGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (44 bp):
AGAATTGTTCATTAGCCTCAAAGTTGATTTTTTTACTCTTTCCA
Found at i:57784633 original size:15 final size:15
Alignment explanation
Indices: 57784598--57784627 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57784588 TAAAAGTAAG
57784598 AAAAAACATAATTAA
1 AAAAAACATAATTAA
57784613 AAAAAACATAATTAA
1 AAAAAACATAATTAA
57784628 TCAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAACATAATTAA
Found at i:57786672 original size:46 final size:46
Alignment explanation
Indices: 57786597--57786794 Score: 272
Period size: 46 Copynumber: 4.3 Consensus size: 46
57786587 TTATCTTCGA
* * * * * *
57786597 CATGATGCCATAGTATTTTTCAACTATGGTCTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATAT
*
57786643 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
57786689 CAGGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTAATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
57786735 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
57786781 CATGTTGCCATGGT
1 CATGTTGCCATGGT
57786795 TACACATTTC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 132 0.97
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:57786794 original size:30 final size:29
Alignment explanation
Indices: 57786758--57786822 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
57786748 TATCTTTCAA
*
57786758 CCATGGTCTTACTCATTTCATATCATGTTG
1 CCATGGT-TTACACATTTCATATCATGTTG
57786788 CCATGG-TTACACATTTCATATCATGTTG
1 CCATGGTTTACACATTTCATATCATGTTG
*
57786816 ACATGGT
1 CCATGGT
57786823 ATCTTTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 26 0.81
30 6 0.19
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (29 bp):
CCATGGTTTACACATTTCATATCATGTTG
Found at i:57786821 original size:74 final size:75
Alignment explanation
Indices: 57786725--57786869 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 75
57786715 TGGTCTTATT
* *
57786725 CATTTAATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGC
1 CATTTAATATCACGTTGACATGGTATCTTTCAACCATGGTCTTACTCATTTTCACATCATGTTGC
57786789 CATGGTTACA
66 CATGGTTACA
* * * * *
57786799 CATTTCATATCATGTTGACATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGC
1 CATTTAATATCACGTTGACATGGTATCTTTCAACCATGGTCTTACTCATTTTCACATCATGTTGC
57786864 CATGGT
66 CATGGT
57786870 ATCTTTCAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 44 0.70
75 19 0.30
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (75 bp):
CATTTAATATCACGTTGACATGGTATCTTTCAACCATGGTCTTACTCATTTTCACATCATGTTGC
CATGGTTACA
Found at i:57786899 original size:121 final size:120
Alignment explanation
Indices: 57786674--57786915 Score: 376
Period size: 121 Copynumber: 2.0 Consensus size: 120
57786664 AACCATGGTC
* * ** *
57786674 TTACTCATTTCATGTCAGGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTAATATCACG
1 TTACACATTTCATATCAGGTTGACATGGTATCTTTCAACCATGGTCTTATTCATTTAACATCACG
*
57786739 TTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
66 TTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
* ** * *
57786794 TTACACATTTCATATCATGTTGACATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCAT
1 TTACACATTTCATATCAGGTTGACATGGTATCTTTCAACCATGGTCTTATTCA-TTTAACATCAC
57786859 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
65 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
57786915 T
1 T
57786916 ATCTTTCAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 48 0.44
121 62 0.56
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (120 bp):
TTACACATTTCATATCAGGTTGACATGGTATCTTTCAACCATGGTCTTATTCATTTAACATCACG
TTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGG
Found at i:57786917 original size:167 final size:166
Alignment explanation
Indices: 57786642--57786949 Score: 508
Period size: 167 Copynumber: 1.8 Consensus size: 166
57786632 TCGTTTTCTG
* * *
57786642 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTTCCATGGTATCT
1 TCATGTTGACATGGTATCTTTCAACCATGGTCTTACTCATTTCACGTCAGGTTGCCATGGTATCT
* *
57786707 TTCAACCATGGTCTTATTCATTTAATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTC
66 TTCAACCATGGTCTTACTCATTTAATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
57786772 ATTTCATATCATGTTGCCATGGTTACACATTTCATA
131 ATTCCATATCATGTTGCCATGGTTACACATTTCATA
* * *
57786808 TCATGTTGACATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATC
1 TCATGTTGACATGGTATCTTTCAACCATGGTCTTACTCA-TTTCACGTCAGGTTGCCATGGTATC
* *
57786873 TTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
65 TTTCAACCATGGTCTTACTCATTTAATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
57786938 CATTCCATATCA
130 CATTCCATATCA
57786950 GAGAGCACAN
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
166 37 0.28
167 93 0.72
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (166 bp):
TCATGTTGACATGGTATCTTTCAACCATGGTCTTACTCATTTCACGTCAGGTTGCCATGGTATCT
TTCAACCATGGTCTTACTCATTTAATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
ATTCCATATCATGTTGCCATGGTTACACATTTCATA
Found at i:57786926 original size:46 final size:46
Alignment explanation
Indices: 57786794--57786950 Score: 215
Period size: 46 Copynumber: 3.4 Consensus size: 46
57786784 GTTGCCATGG
* *
57786794 TTACACATTTCATATCATGTTGACATGGTATCTTTCAACCATGGTC
1 TTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
** *** *
57786840 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
57786887 TTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
57786933 TTACACATTCCATATCAG
1 TTACACATTTCATATCAG
57786951 AGAGCACANN
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
46 56 0.58
47 41 0.42
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (46 bp):
TTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:57807356 original size:14 final size:14
Alignment explanation
Indices: 57807337--57807366 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57807327 TGGTAGACTT
57807337 TCTGATTTTACCCA
1 TCTGATTTTACCCA
57807351 TCTGATTTTACCCA
1 TCTGATTTTACCCA
57807365 TC
1 TC
57807367 GATAAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (14 bp):
TCTGATTTTACCCA
Found at i:57811409 original size:13 final size:13
Alignment explanation
Indices: 57811391--57811415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57811381 ATAACAATTT
57811391 TGAAAATATTTAA
1 TGAAAATATTTAA
57811404 TGAAAATATTTA
1 TGAAAATATTTA
57811416 CGAACTCGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TGAAAATATTTAA
Found at i:57815284 original size:17 final size:17
Alignment explanation
Indices: 57815262--57815297 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57815252 ATCAAATACC
*
57815262 AATATATTTTTCCTTAA
1 AATATATTTCTCCTTAA
*
57815279 AATATATTTCTCTTTAA
1 AATATATTTCTCCTTAA
57815296 AA
1 AA
57815298 AGTTAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATATTTCTCCTTAA
Found at i:57830031 original size:52 final size:52
Alignment explanation
Indices: 57829964--57830069 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
57829954 TGTTTTACCC
57829964 GTAACACCATACCAGCTAAGCTAATAAAAAATAAGAGAAACTAGCTAATTGA
1 GTAACACCATACCAGCTAAGCTAATAAAAAATAAGAGAAACTAGCTAATTGA
*
57830016 GTAACACCATTCCAGCTAAGCTAATAAAAAATAAGAGAAACTAGCTAATTGA
1 GTAACACCATACCAGCTAAGCTAATAAAAAATAAGAGAAACTAGCTAATTGA
57830068 GT
1 GT
57830070 TGTAGTTTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (52 bp):
GTAACACCATACCAGCTAAGCTAATAAAAAATAAGAGAAACTAGCTAATTGA
Found at i:57830179 original size:25 final size:25
Alignment explanation
Indices: 57830145--57830195 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57830135 TTGAGAGGAC
57830145 TTATGAATAATCTTAGGCATTGTAT
1 TTATGAATAATCTTAGGCATTGTAT
57830170 TTATGAATAATCTTAGGCATTGTAT
1 TTATGAATAATCTTAGGCATTGTAT
57830195 T
1 T
57830196 AAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATGAATAATCTTAGGCATTGTAT
Found at i:57844780 original size:23 final size:23
Alignment explanation
Indices: 57844750--57844798 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
57844740 GAAAAAAGGA
57844750 AAGATATTTTGAGGATTTCGGCC
1 AAGATATTTTGAGGATTTCGGCC
57844773 AAGATATTTTGAGGATTTCGGCC
1 AAGATATTTTGAGGATTTCGGCC
57844796 AAG
1 AAG
57844799 GAGAAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (23 bp):
AAGATATTTTGAGGATTTCGGCC
Found at i:57845144 original size:38 final size:39
Alignment explanation
Indices: 57845102--57845179 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
57845092 TCAAATACAT
* *
57845102 TTAAAATAAATATTAAAACAAGAAACAAA-TAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATA
* * * *
57845140 TTAAAACAATTCTTAAAACAATACACAAATTAAAAAATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATA
57845179 T
1 T
57845180 AATAAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 24 0.73
39 9 0.27
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.26
Consensus pattern (39 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATA
Found at i:57845228 original size:23 final size:23
Alignment explanation
Indices: 57845202--57845246 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
57845192 TTATATTAAA
*
57845202 ATTAAAAATAAAATATAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
57845225 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
57845247 TTATTATATA
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:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:57847824 original size:22 final size:21
Alignment explanation
Indices: 57847799--57847942 Score: 74
Period size: 22 Copynumber: 6.4 Consensus size: 21
57847789 AAATATCTTT
*
57847799 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACT-AAACC
**
57847821 ACTCCAACTACTCCACTAAACC
1 ACTCC-ACTAAACCACTAAACC
* **
57847843 ACTGCAACTACTCCACTAAACC
1 ACT-CCACTAAACCACTAAACC
*
57847865 ACTACACTAAACCACTCCACTAAACC
1 ACTCCACT-AA--A--CCACTAAACC
* * *
57847891 ACCCCAAC-CACCCTACTAAACC
1 ACTCC-ACTAAACC-ACTAAACC
**
57847913 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCA-CTAAACC
57847935 ACTCCACT
1 ACTCCACT
57847943 TGCCTACAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
21 8 0.09
22 60 0.64
23 10 0.11
25 1 0.01
26 13 0.14
27 2 0.02
ACGTcount: A:0.37, C:0.48, G:0.01, T:0.15
Consensus pattern (21 bp):
ACTCCACTAAACCACTAAACC
Found at i:57847833 original size:31 final size:31
Alignment explanation
Indices: 57847798--57847857 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
57847788 CAAATATCTT
57847798 TACTCCACTAAACCACTCCAACCACTCCAAC
1 TACTCCACTAAACCACTCCAACCACTCCAAC
* *
57847829 TACTCCACTAAACCACTGCAACTACTCCA
1 TACTCCACTAAACCACTCCAACCACTCCA
57847858 CTAAACCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.18
Consensus pattern (31 bp):
TACTCCACTAAACCACTCCAACCACTCCAAC
Found at i:57847874 original size:13 final size:13
Alignment explanation
Indices: 57847856--57847892 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
57847846 GCAACTACTC
57847856 CACTAAACCACTA
1 CACTAAACCACTA
*
57847869 CACTAAACCACTC
1 CACTAAACCACTA
57847882 CACTAAACCAC
1 CACTAAACCAC
57847893 CCCAACCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (13 bp):
CACTAAACCACTA
Found at i:57847909 original size:35 final size:35
Alignment explanation
Indices: 57847870--57847936 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
57847860 AAACCACTAC
57847870 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
1 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
57847905 ACTAAACCACTCCACTAAACCACCCCAACCAC
1 ACTAAACCACTCCACTAAACCACCCCAACCAC
57847937 TCCACTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.51, G:0.00, T:0.10
Consensus pattern (35 bp):
ACTAAACCACTCCACTAAACCACCCCAACCACCCT
Found at i:57847909 original size:48 final size:48
Alignment explanation
Indices: 57847830--57847927 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 48
57847820 CACTCCAACT
** *
57847830 ACTCCACTAAACCACTGCAACTACTCCACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACTAAACCACTACACTAAACC
*
57847878 ACTCCACTAAACCACCCCAACCAC-CCTACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCC-ACTAAACCACTACACTAAACC
57847926 AC
1 AC
57847928 CCCAACCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.04
48 43 0.96
ACGTcount: A:0.39, C:0.46, G:0.01, T:0.14
Consensus pattern (48 bp):
ACTCCACTAAACCACCCCAACCACTCCACTAAACCACTACACTAAACC
Found at i:57847914 original size:13 final size:13
Alignment explanation
Indices: 57847896--57847942 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
57847886 AAACCACCCC
57847896 AACCAC-CCTACTA
1 AACCACTCC-ACTA
57847909 AACCACTCCACTA
1 AACCACTCCACTA
57847922 AACCAC-CC-C--
1 AACCACTCCACTA
57847931 AACCACTCCACT
1 AACCACTCCACT
57847943 TGCCTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 2 0.07
12 2 0.07
13 16 0.53
14 2 0.07
ACGTcount: A:0.36, C:0.51, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:57848273 original size:3 final size:3
Alignment explanation
Indices: 57848262--57848344 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
57848252 TTTTATTTTT
* *
57848262 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
57848305 TCTCA TGTA TATA TTA TTA TT- TATA CTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
57848345 ATATGCCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 7 0.11
3 48 0.76
4 6 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:57848319 original size:21 final size:18
Alignment explanation
Indices: 57848266--57848348 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
57848256 ATTTTTTTAT
* *
57848266 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
57848285 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
57848303 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
*
57848324 TTTATACTATTATTA-TA
1 TTTATATTATTATTATTA
57848341 TTATATAT
1 TT-TATAT
57848349 GCCCTCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.07
18 25 0.46
19 9 0.17
20 4 0.07
21 12 0.22
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:57848694 original size:12 final size:12
Alignment explanation
Indices: 57848677--57848706 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57848667 GTATTTCTAT
57848677 TATATACATATA
1 TATATACATATA
*
57848689 TATATACATTTA
1 TATATACATATA
57848701 TATATA
1 TATATA
57848707 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:57852420 original size:30 final size:31
Alignment explanation
Indices: 57852354--57852422 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
57852344 ATGTTTATGG
* *
57852354 GTGACTGATTTGTCAATTTTCAATAACGTTA
1 GTGACTGATTTGTCAATTTTCAAGAAAGTTA
* *
57852385 ATGACTGATTTGT-TATTTT-AAGAAAGTTGA
1 GTGACTGATTTGTCAATTTTCAAGAAAGTT-A
57852415 GTGACTGA
1 GTGACTGA
57852423 ACTGAAAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.22
30 13 0.41
31 12 0.38
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (31 bp):
GTGACTGATTTGTCAATTTTCAAGAAAGTTA
Found at i:57856168 original size:43 final size:43
Alignment explanation
Indices: 57856107--57856193 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
57856097 TGTTGATGTC
57856107 ATCAACGTCGCATGTCATCACTAAACCACATTAAAAAATTAAT
1 ATCAACGTCGCATGTCATCACTAAACCACATTAAAAAATTAAT
* *
57856150 ATCAACGTTGCATGTCATCACTAAACTACATTAAAAAATTAAT
1 ATCAACGTCGCATGTCATCACTAAACCACATTAAAAAATTAAT
57856193 A
1 A
57856194 CCATTTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (43 bp):
ATCAACGTCGCATGTCATCACTAAACCACATTAAAAAATTAAT
Found at i:57856557 original size:6 final size:6
Alignment explanation
Indices: 57856546--57856574 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57856536 AAGTCAATCA
57856546 CTCTGT CTCTGT CTCTGT CTCTGT CTCTG
1 CTCTGT CTCTGT CTCTGT CTCTGT CTCTG
57856575 ACCCTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.34, G:0.17, T:0.48
Consensus pattern (6 bp):
CTCTGT
Found at i:57856587 original size:18 final size:18
Alignment explanation
Indices: 57856546--57856581 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57856536 AAGTCAATCA
* *
57856546 CTCTGTCTCTGTCTCTGT
1 CTCTGTCTCTGACCCTGT
57856564 CTCTGTCTCTGACCCTGT
1 CTCTGTCTCTGACCCTGT
57856582 TCCTGTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.36, G:0.17, T:0.44
Consensus pattern (18 bp):
CTCTGTCTCTGACCCTGT
Found at i:57857529 original size:14 final size:14
Alignment explanation
Indices: 57857510--57857539 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57857500 ATTGTTATAG
*
57857510 TAATGAGTGATGAA
1 TAATGAGAGATGAA
57857524 TAATGAGAGATGAA
1 TAATGAGAGATGAA
57857538 TA
1 TA
57857540 TAAAGTGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (14 bp):
TAATGAGAGATGAA
Found at i:57860382 original size:33 final size:33
Alignment explanation
Indices: 57860340--57860405 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
57860330 TAGTTGAAAG
* *
57860340 ATAGCTTCCATGGTTGATTTTCTCTCTCATCTT
1 ATAGCTTCCAAGGTTGACTTTCTCTCTCATCTT
57860373 ATAGCTTCCAAGGTTGACTTTCTCTCTCATCTT
1 ATAGCTTCCAAGGTTGACTTTCTCTCTCATCTT
57860406 GTCTCAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (33 bp):
ATAGCTTCCAAGGTTGACTTTCTCTCTCATCTT
Found at i:57868534 original size:29 final size:29
Alignment explanation
Indices: 57868502--57868560 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
57868492 CCTACACCCG
*
57868502 CCTCCATAACATCTTTCCTTTCACCACCA
1 CCTCCATAACATCTTCCCTTTCACCACCA
57868531 CCTCCATAACATCTTCCCTTTCACCACCA
1 CCTCCATAACATCTTCCCTTTCACCACCA
57868560 C
1 C
57868561 GAAAGCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTCCATAACATCTTCCCTTTCACCACCA
Found at i:57871943 original size:3 final size:3
Alignment explanation
Indices: 57871935--57871969 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
57871925 TATATATTGC
57871935 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57871970 ACTAAAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57873022 original size:17 final size:17
Alignment explanation
Indices: 57873000--57873034 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57872990 CTATCTAAGT
57873000 AATATTATGT-ATTTTTA
1 AATATTAT-TAATTTTTA
57873017 AATATTATTAATTTTTA
1 AATATTATTAATTTTTA
57873034 A
1 A
57873035 CAAATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AATATTATTAATTTTTA
Found at i:57873414 original size:20 final size:20
Alignment explanation
Indices: 57873386--57873426 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
57873376 GAAAAGAGAG
*
57873386 AAAATAAACATGTTGAGTCT
1 AAAAGAAACATGTTGAGTCT
57873406 AAAAGAAACATGTTGAGTCT
1 AAAAGAAACATGTTGAGTCT
57873426 A
1 A
57873427 GTGCCTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (20 bp):
AAAAGAAACATGTTGAGTCT
Found at i:57882513 original size:18 final size:17
Alignment explanation
Indices: 57882474--57882506 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57882464 AATTATTAAA
57882474 TTATTTTTTATAAATAT
1 TTATTTTTTATAAATAT
57882491 TTATTTTTT-TAAATAT
1 TTATTTTTTATAAATAT
57882507 GTTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTTTATAAATAT
Found at i:57885591 original size:20 final size:21
Alignment explanation
Indices: 57885549--57885592 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
57885539 TGAAATTAAT
*
57885549 AAAATAACATATAATCATTTA
1 AAAATAACATAAAATCATTTA
57885570 AAAATAA-ATAAAAT-ATTCTA
1 AAAATAACATAAAATCATT-TA
57885590 AAA
1 AAA
57885593 TGAAAACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAACATAAAATCATTTA
Found at i:57887214 original size:22 final size:22
Alignment explanation
Indices: 57887163--57887214 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
57887153 AAATTTGAAT
* *
57887163 TTCAAGTTAATCGATCAAGTCA
1 TTCAAGTCAATCGATCAAGTAA
**
57887185 TTTGAGTCAATCGAAT-AAGTAA
1 TTCAAGTCAATCG-ATCAAGTAA
57887207 TTCAAGTC
1 TTCAAGTC
57887215 TTGAGTTTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (22 bp):
TTCAAGTCAATCGATCAAGTAA
Found at i:57896101 original size:11 final size:11
Alignment explanation
Indices: 57896082--57896120 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57896072 CATTAACAAT
57896082 AAAATAATAAC
1 AAAATAATAAC
* *
57896093 AACATAATAAT
1 AAAATAATAAC
*
57896104 AAAATAATAGC
1 AAAATAATAAC
57896115 AAAATA
1 AAAATA
57896121 GTGACAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:57897845 original size:30 final size:30
Alignment explanation
Indices: 57897809--57897869 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
57897799 CAATTTAACA
57897809 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAACAAAATT
* * *
57897839 AGCAAATGTCTTTAAAATAATAATAAAATT
1 AGCAAATGCCTCTAAAATAATAACAAAATT
57897869 A
1 A
57897870 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAACAAAATT
Found at i:57897880 original size:17 final size:17
Alignment explanation
Indices: 57897850--57897882 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57897840 GCAAATGTCT
57897850 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
57897867 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
57897883 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:57897921 original size:14 final size:14
Alignment explanation
Indices: 57897904--57897934 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57897894 ATCCAAACAA
57897904 TAACAACAAAATAG
1 TAACAACAAAATAG
*
57897918 TAACAACATAATAG
1 TAACAACAAAATAG
57897932 TAA
1 TAA
57897935 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:57908645 original size:27 final size:27
Alignment explanation
Indices: 57908615--57908666 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
57908605 ACTTAAAAGC
* *
57908615 AAATTATTATATATAATAGGCTAGTCT
1 AAATCATTATATATAATAGGATAGTCT
* *
57908642 AAATCATTGTATATATTAGGATAGT
1 AAATCATTATATATAATAGGATAGT
57908667 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (27 bp):
AAATCATTATATATAATAGGATAGTCT
Found at i:57915912 original size:86 final size:86
Alignment explanation
Indices: 57915767--57915941 Score: 296
Period size: 86 Copynumber: 2.0 Consensus size: 86
57915757 GCAACCAAAC
57915767 ATTAGGTCATGTAATCATTACTAAGTCAAAACAAAATCAGGGAAGTAAGAACTACATGAGGAGAA
1 ATTAGGTCATGTAATCATTACTAAGTCAAAACAAAATCAGGGAAGTAAGAACTACATGAGGAGAA
* ** *
57915832 GCAGGGGGAGAAGCGCTGTAA
66 GCAAGGCAAGAAACGCTGTAA
* *
57915853 ATTAGGTCTTGTAATCATTTCTAAGTCAAAACAAAATCAGGGAAGTAAGAACTACATGAGGAGAA
1 ATTAGGTCATGTAATCATTACTAAGTCAAAACAAAATCAGGGAAGTAAGAACTACATGAGGAGAA
57915918 GCAAGGCAAGAAACGCTGTAA
66 GCAAGGCAAGAAACGCTGTAA
57915939 ATT
1 ATT
57915942 TGTTCACTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (86 bp):
ATTAGGTCATGTAATCATTACTAAGTCAAAACAAAATCAGGGAAGTAAGAACTACATGAGGAGAA
GCAAGGCAAGAAACGCTGTAA
Found at i:57916017 original size:32 final size:32
Alignment explanation
Indices: 57915979--57916044 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57915969 ATCTATGTCA
57915979 AAGTTAAGAATTCATATGAACAATTTGAAACT
1 AAGTTAAGAATTCATATGAACAATTTGAAACT
57916011 AAGTTAAGAATTCATATGAACAATTTGAAACT
1 AAGTTAAGAATTCATATGAACAATTTGAAACT
57916043 AA
1 AA
57916045 ATTGTTTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (32 bp):
AAGTTAAGAATTCATATGAACAATTTGAAACT
Found at i:57938366 original size:18 final size:17
Alignment explanation
Indices: 57938343--57938397 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
57938333 AAAATTAATT
57938343 TATTTTTAATGTTTTTA
1 TATTTTTAATGTTTTTA
* *
57938360 GTATTTTTGATGTATTATA
1 -TATTTTTAATGT-TTTTA
*
57938379 TTTTTTTAAT-TTTTTA
1 TATTTTTAATGTTTTTA
57938395 TAT
1 TAT
57938398 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 6 0.20
17 1 0.03
18 19 0.63
19 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
TATTTTTAATGTTTTTA
Found at i:57939335 original size:48 final size:48
Alignment explanation
Indices: 57939264--57939361 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
57939254 TTTTGGATTA
57939264 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
1 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
57939312 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
1 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
57939360 GT
1 GT
57939362 CTCGATCCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (48 bp):
GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
Found at i:57942065 original size:36 final size:36
Alignment explanation
Indices: 57942022--57942093 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
57942012 CCAAATACGC
57942022 CACCTACCTCCACTACACCTATCCCATCACATTCAA
1 CACCTACCTCCACTACACCTATCCCATCACATTCAA
* * *
57942058 CACCTACCTCCACTACACCTTTTCCATCCCATTCAA
1 CACCTACCTCCACTACACCTATCCCATCACATTCAA
57942094 TGTCTCACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (36 bp):
CACCTACCTCCACTACACCTATCCCATCACATTCAA
Found at i:57944577 original size:15 final size:15
Alignment explanation
Indices: 57944557--57944594 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
57944547 AAGTACAATT
57944557 TAGCAACAGAACTTG
1 TAGCAACAGAACTTG
*
57944572 TAGCAATAGAACTTG
1 TAGCAACAGAACTTG
*
57944587 TTGCAACA
1 TAGCAACA
57944595 TTTGGAACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (15 bp):
TAGCAACAGAACTTG
Found at i:57952767 original size:29 final size:29
Alignment explanation
Indices: 57952732--57952811 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
57952722 TCACAAATTT
*
57952732 AGAATTTAGTCCTTGTATTTTTATTTTCA
1 AGAATTTAGTCCTTGTACTTTTATTTTCA
*
57952761 AGAATTTAGTTCTTGTACTTTTATTTTCA
1 AGAATTTAGTCCTTGTACTTTTATTTTCA
* *
57952790 AGAATTTAATCCTTCTACTTTT
1 AGAATTTAGTCCTTGTACTTTT
57952812 CAGATTTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.54
Consensus pattern (29 bp):
AGAATTTAGTCCTTGTACTTTTATTTTCA
Found at i:57957939 original size:39 final size:39
Alignment explanation
Indices: 57957885--57957959 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
57957875 CCACTCAAAT
* * *
57957885 GCTATCGAATCAAAACTCGAAACTTTGAAAACAAAAAAA
1 GCTATCAAATCAAAACTAGAAACCTTGAAAACAAAAAAA
*
57957924 GCTATCAAATCAAAACTAGAATCCTTGAAAACAAAA
1 GCTATCAAATCAAAACTAGAAACCTTGAAAACAAAA
57957960 TCGAAGCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (39 bp):
GCTATCAAATCAAAACTAGAAACCTTGAAAACAAAAAAA
Found at i:57960976 original size:19 final size:19
Alignment explanation
Indices: 57960930--57960977 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
57960920 GTATATATTT
57960930 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
57960948 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
57960967 TAAGTTTTATT
1 TAAATTTTATT
57960978 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:57961039 original size:43 final size:43
Alignment explanation
Indices: 57960991--57961083 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
57960981 ATTCTAGAAA
57960991 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
57961034 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
57961077 TATTTTC
1 TATTTTC
57961084 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:57965488 original size:19 final size:19
Alignment explanation
Indices: 57965442--57965489 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
57965432 GTATATATTT
57965442 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
57965460 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
57965479 TAAGTTTTATT
1 TAAATTTTATT
57965490 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:57974230 original size:53 final size:53
Alignment explanation
Indices: 57974150--57974258 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
57974140 GGATCTGAGA
*
57974150 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACGAACAAAC
1 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
* * * *
57974203 AGATAGGAAAATGAAAAGGTTTGCCGGGTTCTATTGTTCACTAACCAATAAAC
1 AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
57974256 AGA
1 AGA
57974259 CCAATTTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (53 bp):
AGATAGGAAAATCAAAAGGTATGCCGGGCTCTATTGTTCACTAACCAACAAAC
Found at i:57974857 original size:27 final size:27
Alignment explanation
Indices: 57974827--57974878 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
57974817 TTTTAATTTC
* *
57974827 TTTTTCTTTAATTTTTGTTCTTTTTAT
1 TTTTTCCTTAATTTTTGTTCATTTTAT
* *
57974854 TTTTTCCTTACTTTTTTTTCATTTT
1 TTTTTCCTTAATTTTTGTTCATTTT
57974879 CTAACCTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTTCCTTAATTTTTGTTCATTTTAT
Found at i:57978405 original size:9 final size:9
Alignment explanation
Indices: 57978351--57978415 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
57978341 TTAAGTCTAT
*
57978351 AAATTATTA
1 AAATTATAA
57978360 AAATCATATAA
1 AAAT--TATAA
*
57978371 AAATT-TGA
1 AAATTATAA
*
57978379 AAATAATAGA
1 AAATTATA-A
*
57978389 ATATTATAA
1 AAATTATAA
57978398 AAATTATAA
1 AAATTATAA
57978407 AAATTATAA
1 AAATTATAA
57978416 GATATTATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.13
9 24 0.53
10 7 0.16
11 8 0.18
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:57978409 original size:28 final size:27
Alignment explanation
Indices: 57978366--57978423 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
57978356 ATTAAAATCA
*
57978366 TATAAAAATTTGAAAATAAT-AGAATAT
1 TATAAAAATTTAAAAATAATAAG-ATAT
*
57978393 TATAAAAATTATAAAAATTATAAGATAT
1 TATAAAAATT-TAAAAATAATAAGATAT
57978421 TAT
1 TAT
57978424 TGTGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
28 15 0.56
29 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (27 bp):
TATAAAAATTTAAAAATAATAAGATAT
Found at i:57978412 original size:18 final size:18
Alignment explanation
Indices: 57978351--57978415 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
57978341 TTAAGTCTAT
*
57978351 AAATTATTAAAATCATATAA
1 AAATTATAAAAAT--TATAA
* *
57978371 AAATT-TGAAAATAATAGA
1 AAATTATAAAAATTATA-A
*
57978389 ATATTATAAAAATTATAA
1 AAATTATAAAAATTATAA
57978407 AAATTATAA
1 AAATTATAA
57978416 GATATTATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 14 0.38
19 15 0.41
20 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:57979436 original size:23 final size:22
Alignment explanation
Indices: 57979377--57979437 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
57979367 TCAAATTAAC
*
57979377 TATTTTAATATAT-TATTGCTAT
1 TATTTTATTAT-TCTATTGCTAT
*
57979399 TATTATTATGT-TTCTATTTCTATT
1 TATT-TTAT-TATTCTATTGCTA-T
57979423 TATTTTATTATTCTA
1 TATTTTATTATTCTA
57979438 ATACAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 6 0.19
23 20 0.62
24 6 0.19
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (22 bp):
TATTTTATTATTCTATTGCTAT
Found at i:57979465 original size:15 final size:15
Alignment explanation
Indices: 57979442--57979478 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
57979432 ATTCTAATAC
57979442 AATTATTATTTATCT
1 AATTATTATTTATCT
*
57979457 AATTTTTATTTATCT
1 AATTATTATTTATCT
*
57979472 ATTTATT
1 AATTATT
57979479 TTTCTACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
AATTATTATTTATCT
Found at i:57982125 original size:11 final size:10
Alignment explanation
Indices: 57982105--57982159 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
57982095 TTTTATACTA
57982105 AATAAATAAT
1 AATAAATAAT
57982115 AATATAATAAT
1 AATA-AATAAT
57982126 AATAAATATAT
1 AATAAATA-AT
* *
57982137 CATAAAATATT
1 AAT-AAATAAT
57982148 AATAAAATAAT
1 AAT-AAATAAT
57982159 A
1 A
57982160 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
10 8 0.21
11 25 0.66
12 5 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAAATAAT
Found at i:57982141 original size:25 final size:26
Alignment explanation
Indices: 57982115--57982198 Score: 63
Period size: 28 Copynumber: 3.3 Consensus size: 26
57982105 AATAAATAAT
57982115 AATATAATAATAATAAATATATCATAA
1 AATATAATAATAATAAATATATCAT-A
*
57982142 AATATTAATAA-AATAATATTTATC-T-
1 AATA-TAATAATAATAA-ATATATCATA
* *
57982167 AAT-TAATTAAT-TTAAA-ATATCATC
1 AATATAA-TAATAATAAATATATCATA
57982191 AATATAAT
1 AATATAAT
57982199 TATTACATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 10 0.21
25 6 0.13
27 10 0.21
28 12 0.26
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
AATATAATAATAATAAATATATCATA
Found at i:57982814 original size:48 final size:48
Alignment explanation
Indices: 57982762--57982888 Score: 116
Period size: 52 Copynumber: 2.5 Consensus size: 48
57982752 ATTTTTTGTT
* *
57982762 ATTATCTATTTTAACTTTTTATATA-ATGCTCATTTCAAA-TTTTT-ATAC
1 ATTATATATTTTAA-TTTTTATATATATG-T-ATTTCAAACTTTTTCACAC
* *
57982810 ATTATTTACTTTAATATTTTCATATATTATGTATTTCAAACTTTTTTCACAC
1 ATTATATATTTTAAT-TTTT-ATATA-TATGTATTTCAAAC-TTTTTCACAC
57982862 ATTATATATTTTGAATTGTTTATATAT
1 ATTATATATTTT-AATT-TTTATATAT
57982889 TATTTTTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
47 1 0.02
48 16 0.25
49 13 0.20
50 1 0.02
51 9 0.14
52 19 0.29
53 6 0.09
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.55
Consensus pattern (48 bp):
ATTATATATTTTAATTTTTATATATATGTATTTCAAACTTTTTCACAC
Found at i:57982854 original size:25 final size:24
Alignment explanation
Indices: 57982793--57982872 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
57982783 TATAATGCTC
* *
57982793 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
57982817 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
* *
57982842 ATTTCAAACTTTTTTCACACATTATAT
1 ATTTCAAA---TTTTCATACATTATGT
57982869 ATTT
1 ATTT
57982873 TGAATTGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 7 0.16
25 20 0.45
27 17 0.39
ACGTcount: A:0.33, C:0.11, G:0.01, T:0.55
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Done.