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 188 of 279
Found at i:61507860 original size:73 final size:73
Alignment explanation
Indices: 61507645--61508174 Score: 617
Period size: 73 Copynumber: 7.2 Consensus size: 73
61507635 GAAATTGAAG
* * * * *
61507645 AACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
61507710 TTTTTGA-A
65 TTTTTGACA
* *
61507718 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAAAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
61507783 --TTTTTGACA
63 TTTTTTTGACA
* * *
61507792 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
1 AACAAAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
61507857 TTTTGAAA
66 TTTTGACA
* * * *
61507865 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACGTCTTGCAATATGAGTT-A-
1 AACAAAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
61507928 AGTTTTGACA
64 TTTTTTGACA
* * *
61507938 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
61508003 TTTTTTGAAA
64 TTTTTTGACA
* * *
61508013 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAAAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
61508077 -GTTTTGACA
64 TTTTTTGACA
* * *
61508086 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
61508151 TTTTTT-AGA
64 TTTTTTGACA
* *
61508160 AACATAAATTAAAAA
1 AACAAAAATTGAAAA
61508175 AACGAAAATT
Statistics
Matches: 390, Mismatches: 49, Indels: 35
0.82 0.10 0.07
Matches are distributed among these distances:
71 39 0.10
72 3 0.01
73 173 0.44
74 37 0.09
75 99 0.25
76 38 0.10
77 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
AACAAAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGACA
Found at i:61508055 original size:148 final size:146
Alignment explanation
Indices: 61507661--61508238 Score: 832
Period size: 148 Copynumber: 3.8 Consensus size: 146
61507651 AATGGAAAAC
* * * *
61507661 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAA
1 ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAA
* *
61507726 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
65 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGAC
61507791 AAACAAAAATTGAAATT
130 AAACAAAAATTGAAATT
* * *
61507808 ACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
1 ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* *
61507873 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACGTCTTGCAATATGAGTTAAGTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGACA
61507938 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
*
61507954 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
61508019 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGA
64 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGA
61508084 CAAACAAAAATTGAAATT
129 CAAACAAAAATTGAAATT
*
61508102 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAAACATAA
1 ACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G--------
* * * *
61508167 ATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
55 ---AAAAACA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATAT
61508232 GAGTTGA
115 GAGTTGA
61508239 TTTGAAAAGC
Statistics
Matches: 398, Mismatches: 17, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
146 103 0.26
147 44 0.11
148 187 0.47
149 1 0.00
160 6 0.02
161 1 0.00
162 56 0.14
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (146 bp):
ACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGACA
AACAAAAATTGAAATT
Found at i:61508379 original size:14 final size:13
Alignment explanation
Indices: 61508344--61508388 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
61508334 TTGATTTTTG
61508344 AAAAACAGAAATT
1 AAAAACAGAAATT
*
61508357 AAAAGCAGAAATT
1 AAAAACAGAAATT
61508370 GAAAAACAGAAATT
1 -AAAAACAGAAATT
61508384 AAAAA
1 AAAAA
61508389 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:61508409 original size:100 final size:101
Alignment explanation
Indices: 61508172--61508532 Score: 450
Period size: 100 Copynumber: 3.7 Consensus size: 101
61508162 CATAAATTAA
*
61508172 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
61508236 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
61508271 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
61508336 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * *
61508371 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
61508436 GATTTTTGAAAAGCATAAATT--------G--A---
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * *
61508459 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
61508524 TTGATTTTT
64 TTGATTTTT
61508533 TTGAAAGATA
Statistics
Matches: 238, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
88 24 0.10
90 41 0.17
91 1 0.00
93 1 0.00
99 64 0.27
100 92 0.39
101 15 0.06
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:61508525 original size:90 final size:87
Alignment explanation
Indices: 61508357--61508532 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 87
61508347 AACAGAAATT
* * *
61508357 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
61508422 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
61508444 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
61508509 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
61508533 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.28
89 1 0.01
90 42 0.54
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:61519874 original size:30 final size:30
Alignment explanation
Indices: 61519837--61519942 Score: 113
Period size: 30 Copynumber: 3.3 Consensus size: 30
61519827 TAGGTACAAG
61519837 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
* *
61519867 AGGTGGTGGAGCAAGTGTTGCTAGTGGAGTTGGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTA----A--T-GGAGT
* *
61519904 TGGTGGTGGAACAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
61519934 TGGTGGTGG
1 TGGTGGTGG
61519943 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
30 35 0.56
31 1 0.02
34 1 0.02
36 1 0.02
37 25 0.40
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
Found at i:61519912 original size:37 final size:37
Alignment explanation
Indices: 61519862--61519936 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
61519852 TGTGGCTAAT
* *
61519862 GGAGTAGGTGGTGGAGCAAGTGTTGCTAGTGGAGTTG
1 GGAGTAGGTGGTGGAACAAGTGTGGCTAGTGGAGTTG
*
61519899 GGAGTTGGTGGTGGAACAAGTGTGGCTAGTGGAGTTG
1 GGAGTAGGTGGTGGAACAAGTGTGGCTAGTGGAGTTG
61519936 G
1 G
61519937 TGGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.05, G:0.49, T:0.27
Consensus pattern (37 bp):
GGAGTAGGTGGTGGAACAAGTGTGGCTAGTGGAGTTG
Found at i:61520263 original size:26 final size:25
Alignment explanation
Indices: 61520233--61520292 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
61520223 TATATTATTT
*
61520233 ATTTTTATCTTTTTACCTATTTTAAA
1 ATTTTTATC-TATTACCTATTTTAAA
* * *
61520259 CTTTTATATCTATTACTTGTTTTAAA
1 ATTTT-TATCTATTACCTATTTTAAA
61520285 ATTTTTAT
1 ATTTTTAT
61520293 ATTGTTTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.11
26 21 0.75
27 4 0.14
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTTTTATCTATTACCTATTTTAAA
Found at i:61520330 original size:24 final size:24
Alignment explanation
Indices: 61520303--61520350 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61520293 ATTGTTTGTA
61520303 TAGTCATGTTTTCAAATTTTCTTT
1 TAGTCATGTTTTCAAATTTTCTTT
*
61520327 TAGTGATGTTTTCAAATTTTCTTT
1 TAGTCATGTTTTCAAATTTTCTTT
61520351 CTTTCATATT
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:0.21, C:0.10, G:0.10, T:0.58
Consensus pattern (24 bp):
TAGTCATGTTTTCAAATTTTCTTT
Found at i:61532667 original size:5 final size:5
Alignment explanation
Indices: 61532659--61532686 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
61532649 AAGAAAAGGG
61532659 GAGAT GAGAT GAGAT GAGAT GAGAT GAG
1 GAGAT GAGAT GAGAT GAGAT GAGAT GAG
61532687 GGTTTCTTGA
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:0.39, C:0.00, G:0.43, T:0.18
Consensus pattern (5 bp):
GAGAT
Found at i:61547685 original size:36 final size:36
Alignment explanation
Indices: 61547591--61547686 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 36
61547581 CATTAATTTT
* *
61547591 AATATTATAACATTAAAAGT-TAATTTAATTAAGTAA
1 AATATTATAACATTAAAAATATAAATTAATTAAG-AA
* * *
61547627 AATCTTAAAACA--AAAAGATATAAATTATTTAA-AA
1 AATATTATAACATTAAAA-ATATAAATTAATTAAGAA
61547661 CAATATTATAACATTAAAAATATAAA
1 -AATATTATAACATTAAAAATATAAA
61547687 GAAATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
34 6 0.12
35 11 0.23
36 27 0.56
37 4 0.08
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.33
Consensus pattern (36 bp):
AATATTATAACATTAAAAATATAAATTAATTAAGAA
Found at i:61547710 original size:24 final size:25
Alignment explanation
Indices: 61547683--61547730 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
61547673 ATTAAAAATA
61547683 TAAAG-AAATTTTTAAACAAAAAGC
1 TAAAGAAAATTTTTAAACAAAAAGC
61547707 TAAAGAAAATTTTTAAACAAAAAG
1 TAAAGAAAATTTTTAAACAAAAAG
61547731 TATGGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (25 bp):
TAAAGAAAATTTTTAAACAAAAAGC
Found at i:61562953 original size:25 final size:24
Alignment explanation
Indices: 61562908--61562954 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
61562898 TATATAAAAT
* * *
61562908 TTTAAAAAATTTGAAATTTATACA
1 TTTAAAAAAATAGAAAATTATACA
61562932 TTTAAAAAAATAGATAAATTATA
1 TTTAAAAAAATAGA-AAATTATA
61562955 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTAAAAAAATAGAAAATTATACA
Found at i:61562962 original size:12 final size:12
Alignment explanation
Indices: 61562947--61562971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61562937 AAAAATAGAT
61562947 AAATTATAAAAA
1 AAATTATAAAAA
61562959 AAATTATAAAAA
1 AAATTATAAAAA
61562971 A
1 A
61562972 TAGATACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATTATAAAAA
Found at i:61570468 original size:51 final size:51
Alignment explanation
Indices: 61570403--61570503 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
61570393 ATAAAATGAG
*
61570403 ATGCATTATTAAATTGGTACAAGGTATATAATATCAATGGTAAAATCAATA
1 ATGCATTATTAAATTGGCACAAGGTATATAATATCAATGGTAAAATCAATA
61570454 ATGCATTATTAAATTGGCACAAGGTATATAATATCAATGGTAAAATCAAT
1 ATGCATTATTAAATTGGCACAAGGTATATAATATCAATGGTAAAATCAAT
61570504 TCAAGTCATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (51 bp):
ATGCATTATTAAATTGGCACAAGGTATATAATATCAATGGTAAAATCAATA
Found at i:61571261 original size:6 final size:6
Alignment explanation
Indices: 61571243--61571305 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
61571233 ATACAACTCT
*
61571243 CAATCA CATTCA CAATCA CAATCA CAATCA CAATCA CAATCA CAATCA
1 CAATCA CAATCA CAATCA CAATCA CAATCA CAATCA CAATCA CAATCA
61571291 CAATCA CAATC- CAAT
1 CAATCA CAATCA CAAT
61571306 TCATTTTCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
5 4 0.07
6 51 0.93
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
CAATCA
Found at i:61572916 original size:30 final size:31
Alignment explanation
Indices: 61572875--61572932 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
61572865 AGTATCAATT
61572875 TCCAACCAAATCATA-TAAAATAATAAGCCG
1 TCCAACCAAATCATATTAAAATAATAAGCCG
*
61572905 TCCATCCAAATCATATTAAAATAATAAG
1 TCCAACCAAATCATATTAAAATAATAAG
61572933 GCAAATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (31 bp):
TCCAACCAAATCATATTAAAATAATAAGCCG
Found at i:61576239 original size:117 final size:117
Alignment explanation
Indices: 61576033--61576266 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
61576023 ATCTTTATTT
61576033 TATTAATTTGAACTTAATTTATTTAATTACTAAACTAACCTTTAAAATCTATTAAAATCACAAAA
1 TATTAATTTGAACTTAATTTATTTAATTACTAAACTAACCTTTAAAATCTATTAAAATCACAAAA
61576098 GAACCTTTCCATCACAATCCACTATCTTAATATATGTTTTAATTATCATCTA
66 GAACCTTTCCATCACAATCCACTATCTTAATATATGTTTTAATTATCATCTA
61576150 TATTAATTTGAACTTAATTTATTTAATTACTAAACTAACCTTTAAAATCTATT-AAATCACAAAA
1 TATTAATTTGAACTTAATTTATTTAATTACTAAACTAACCTTTAAAATCTATTAAAATCAC-AAA
61576214 AGAACCTTTCCATCACAATCCACTATCTTAATATATGTTTTAATTATCATCTA
65 AGAACCTTTCCATCACAATCCACTATCTTAATATATGTTTTAATTATCATCTA
61576267 AGTCCACTAG
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
116 7 0.06
117 109 0.94
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (117 bp):
TATTAATTTGAACTTAATTTATTTAATTACTAAACTAACCTTTAAAATCTATTAAAATCACAAAA
GAACCTTTCCATCACAATCCACTATCTTAATATATGTTTTAATTATCATCTA
Found at i:61582024 original size:5 final size:5
Alignment explanation
Indices: 61582014--61582050 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
61582004 GATACTGTGA
61582014 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
61582051 GAACAGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:61582039 original size:14 final size:14
Alignment explanation
Indices: 61582014--61582050 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
61582004 GATACTGTGA
61582014 AAAATAAAATAAAAT
1 AAAAT-AAATAAAAT
61582029 AAAATAAATAAAAT
1 AAAATAAATAAAAT
61582043 AAAATAAA
1 AAAATAAA
61582051 GAACAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:61583701 original size:35 final size:35
Alignment explanation
Indices: 61583662--61583839 Score: 320
Period size: 35 Copynumber: 5.1 Consensus size: 35
61583652 ACACATTCTT
**
61583662 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGAAAGATCAATCTCACATAAATAATATA
**
61583697 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGAAAGATCAATCTCACATAAATAATATA
61583732 TATTCTCGAAAGATCAATCTCACATAAATAATATA
1 TATTCTCGAAAGATCAATCTCACATAAATAATATA
61583767 TATTCTCGAAAGATCAATCTCACATAAATAATATA
1 TATTCTCGAAAGATCAATCTCACATAAATAATATA
61583802 TATTCTCGAAAGATCAATCTCACATAAATAATATA
1 TATTCTCGAAAGATCAATCTCACATAAATAATATA
61583837 TAT
1 TAT
61583840 ATCACATACC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 141 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (35 bp):
TATTCTCGAAAGATCAATCTCACATAAATAATATA
Found at i:61588465 original size:27 final size:27
Alignment explanation
Indices: 61588430--61588607 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61588420 TAAATTGTAC
*
61588430 AGCATTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61588457 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61588483 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61588511 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61588539 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61588566 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61588593 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61588608 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61588544 original size:82 final size:81
Alignment explanation
Indices: 61588435--61588586 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 81
61588425 TGTACAGCAT
* *
61588435 TAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCG
1 TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGCG
61588499 AATTGACCATGCGGCAC
65 AATTGACCATGCGGCAC
** *
61588516 TAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG
1 TAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
*
61588581 AGTTGA
65 AATTGA
61588587 TTATATAGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 11 0.17
82 51 0.81
83 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCGA
ATTGACCATGCGGCAC
Found at i:61588598 original size:82 final size:81
Alignment explanation
Indices: 61588427--61588607 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
61588417 GATTAAATTG
* * *
61588427 TACAGCATTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61588492 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61588508 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61588572 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61588590 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61588608 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61588656 original size:53 final size:53
Alignment explanation
Indices: 61588596--61588701 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
61588586 ATTATATAGC
* *
61588596 ACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
1 ACTGAGTGTGCGGACCCAATAAACATTCGTGAATCATTATGGACACTATGTGT
* *
61588649 ACTGAGTGTGCGGGCCCAATAAATATTCGTGAATCATTATGGACACTATGTGT
1 ACTGAGTGTGCGGACCCAATAAACATTCGTGAATCATTATGGACACTATGTGT
61588702 GCGACATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (53 bp):
ACTGAGTGTGCGGACCCAATAAACATTCGTGAATCATTATGGACACTATGTGT
Found at i:61589533 original size:266 final size:266
Alignment explanation
Indices: 61589059--61589590 Score: 1046
Period size: 266 Copynumber: 2.0 Consensus size: 266
61589049 GTGATAATGT
61589059 TATTGATGGATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTG
1 TATTGATGGATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTG
61589124 TCACCCATTATAGGTTGCTTGGACTCATCTATTTTTGCGGGGCCAGGCCGTCATCGAAGTCATCA
66 TCACCCATTATAGGTTGCTTGGACTCATCTATTTTTGCGGGGCCAGGCCGTCATCGAAGTCATCA
61589189 CACCGGATAGCAAGTTTTGGTACTTTCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAA
131 CACCGGATAGCAAGTTTTGGTACTTTCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAA
61589254 GCTATTACGTTGTGTTTGAACTTTGGCATGTAAACTTTAAGCCATGCGAAAATGGCACGAATGTT
196 GCTATTACGTTGTGTTTGAACTTTGGCATGTAAACTTTAAGCCATGCGAAAATGGCACGAATGTT
61589319 CGATTG
261 CGATTG
61589325 TATTGATGGATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTG
1 TATTGATGGATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTG
* *
61589390 TCACCCATTATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCGGGCCGTCATCGAAGTCATCA
66 TCACCCATTATAGGTTGCTTGGACTCATCTATTTTTGCGGGGCCAGGCCGTCATCGAAGTCATCA
61589455 CACCGGATAGCAAGTTTTGGTACTTTCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAA
131 CACCGGATAGCAAGTTTTGGTACTTTCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAA
61589520 GCTATTACGTTGTGTTTGAACTTTGGCATGTAAACTTTAAGCCATGCGAAAATGGCACGAATGTT
196 GCTATTACGTTGTGTTTGAACTTTGGCATGTAAACTTTAAGCCATGCGAAAATGGCACGAATGTT
61589585 CGATTG
261 CGATTG
61589591 AGTTGGATCA
Statistics
Matches: 264, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 264 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (266 bp):
TATTGATGGATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTG
TCACCCATTATAGGTTGCTTGGACTCATCTATTTTTGCGGGGCCAGGCCGTCATCGAAGTCATCA
CACCGGATAGCAAGTTTTGGTACTTTCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAA
GCTATTACGTTGTGTTTGAACTTTGGCATGTAAACTTTAAGCCATGCGAAAATGGCACGAATGTT
CGATTG
Found at i:61596671 original size:19 final size:20
Alignment explanation
Indices: 61596644--61596702 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
61596634 TCTTCGAAGA
*
61596644 TATGCAATCTTAGATATG-G
1 TATGTAATCTTAGATATGAG
*
61596663 TATGTAATCTTAAAAGATATGAT
1 TATGTAATCTT---AGATATGAG
*
61596686 TTTGTAATCTTAGATAT
1 TATGTAATCTTAGATAT
61596703 TTAATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
22 7 0.21
23 10 0.30
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
TATGTAATCTTAGATATGAG
Found at i:61596683 original size:22 final size:23
Alignment explanation
Indices: 61596655--61596697 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61596645 ATGCAATCTT
61596655 AGATATG-GTATGTAATCTTAAA
1 AGATATGAGTATGTAATCTTAAA
* *
61596677 AGATATGATTTTGTAATCTTA
1 AGATATGAGTATGTAATCTTA
61596698 GATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAGTATGTAATCTTAAA
Found at i:61601817 original size:17 final size:17
Alignment explanation
Indices: 61601767--61601817 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
61601757 TGGAAACATG
*
61601767 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
61601784 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
61601803 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
61601818 ATTTTGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:61602880 original size:21 final size:21
Alignment explanation
Indices: 61602856--61602919 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
61602846 GAAGTTGAAA
61602856 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
* * **
61602877 CATGTAAGTTA-GTAAG---AA
1 CATG-AATTTACTTAAGCTTGC
61602895 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
61602916 CATG
1 CATG
61602920 TAAGTTAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (21 bp):
CATGAATTTACTTAAGCTTGC
Found at i:61602897 original size:39 final size:39
Alignment explanation
Indices: 61602854--61602932 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
61602844 AGGAAGTTGA
61602854 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
61602893 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
61602932 A
1 A
61602933 TGAAGTAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
Found at i:61602931 original size:21 final size:21
Alignment explanation
Indices: 61602868--61602931 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
61602858 TGAATTTACT
61602868 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
** * *
61602889 TAAG---AACATG-AATTTACT
1 TAAGCTTGCCATGTAAGTTA-G
61602907 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
61602928 TAAG
1 TAAG
61602932 ATGAAGTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TAAGCTTGCCATGTAAGTTAG
Found at i:61608040 original size:214 final size:217
Alignment explanation
Indices: 61607650--61608080 Score: 604
Period size: 214 Copynumber: 2.0 Consensus size: 217
61607640 GTATGTTAAT
* * * *
61607650 TTGTTAAACTGAAAAGGTGAAGAATCCATCCAAAAGAAACCGTTGAGTTTAAACATATATATACG
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * * *
61607715 ATATATGTAAGTCATGCAAAAATTTAAAGCACATGGAACTAGGCATGCACAAAATGACAGACTAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
* * *
61607780 CAAAGAAGCAATAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTTGCAAT-AG
131 CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
61607844 ACCTTGTTTCAGTGGCAAGGAG
196 ACCTTGTTTCAGTGGCAAGGAG
* * *
61607866 TTGTTACATTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATA-T
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * **
61607930 A-ATATGTAAGTCATACAAAAATTTAAATCACATAGAACTAGGTATGCA-AAAAAG-TTGACCAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
** *
61607992 CAAAGAAGCAAAAGATTATTA-GAACCATCATTTGAACTTCATGAGCATATTCAATATTCGCAAT
131 CAAAGAAGCAAAAGA-TA--AGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAAT
61608056 GAAACCTTGTTTCAGTGGCAAGGAG
193 GAAACCTTGTTTCAGTGGCAAGGAG
61608081 GAGGCTTTGG
Statistics
Matches: 190, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
212 19 0.10
213 7 0.04
214 82 0.43
215 25 0.13
216 57 0.30
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (217 bp):
TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
ACCTTGTTTCAGTGGCAAGGAG
Found at i:61611068 original size:9 final size:9
Alignment explanation
Indices: 61611038--61611070 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
61611028 ATAAGTATAA
61611038 AATTAACCG
1 AATTAACCG
*
61611047 AATCAACCG
1 AATTAACCG
61611056 AATTAACCG
1 AATTAACCG
61611065 AATTAA
1 AATTAA
61611071 ATTATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:61615429 original size:6 final size:6
Alignment explanation
Indices: 61615430--61615460 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
61615420 TTAGTTTTAG
61615430 ACTTTT ACTTTT ACTTTT ACTTTT ACTTTT A
1 ACTTTT ACTTTT ACTTTT ACTTTT ACTTTT A
61615461 GATTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (6 bp):
ACTTTT
Found at i:61615477 original size:12 final size:12
Alignment explanation
Indices: 61615430--61615477 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
61615420 TTAGTTTTAG
*
61615430 ACTTTTACTTTT
1 ACTTTTATTTTT
*
61615442 ACTTTTACTTTT
1 ACTTTTATTTTT
61615454 ACTTTTAGATTTTT
1 ACTTTT--ATTTTT
*
61615468 ATTTTTATTT
1 ACTTTTATTT
61615478 ATTAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (12 bp):
ACTTTTATTTTT
Found at i:61622709 original size:75 final size:75
Alignment explanation
Indices: 61622581--61622730 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
61622571 CATGAGTCTA
* *
61622581 GTTTTAGGGAAAATTAACGGATCTTAATTTGGAGTTCCTTAGCTCAAGTTATAAATAATTTAGTG
1 GTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTCCGTAGCTCAAGTTATAAATAATTTAGTG
61622646 ACTATGACTC
66 ACTATGACTC
*
61622656 GTTTCAGGGAAAATTAATGGATCTTAATTTGGAGTTCCGTAGCTCAAGTTATAAATAATTTAGTG
1 GTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTCCGTAGCTCAAGTTATAAATAATTTAGTG
61622721 ACTATGACTC
66 ACTATGACTC
61622731 AAGTAGGCAG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (75 bp):
GTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTCCGTAGCTCAAGTTATAAATAATTTAGTG
ACTATGACTC
Found at i:61629259 original size:13 final size:14
Alignment explanation
Indices: 61629235--61629263 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61629225 GTAATGTGAT
61629235 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
61629249 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
61629262 TT
1 TT
61629264 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:61632388 original size:32 final size:32
Alignment explanation
Indices: 61632352--61632415 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
61632342 AAGTTTTAAT
61632352 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
61632384 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
61632416 AGTCTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (32 bp):
CACAACCAAATCATGTTACACAATCAATTCTA
Found at i:61632405 original size:18 final size:18
Alignment explanation
Indices: 61632352--61632406 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
61632342 AAGTTTTAAT
61632352 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
* *
61632370 CACAATC-AAT--T-CTA
1 CACAACCAAATCATGTTA
61632384 CACAACCAAATCATGTTA
1 CACAACCAAATCATGTTA
61632402 CACAA
1 CACAA
61632407 TCAATTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
17 4 0.14
18 13 0.45
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (18 bp):
CACAACCAAATCATGTTA
Found at i:61639749 original size:17 final size:17
Alignment explanation
Indices: 61639724--61639757 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61639714 TCGTAAATCG
61639724 CAGTCTCACTACAGTTT
1 CAGTCTCACTACAGTTT
* *
61639741 CAGTTTCACTACCGTTT
1 CAGTCTCACTACAGTTT
61639758 TTAGTTTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (17 bp):
CAGTCTCACTACAGTTT
Found at i:61644096 original size:23 final size:23
Alignment explanation
Indices: 61644047--61644096 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
61644037 GGAACTTATG
**
61644047 ATTTAATTAACTTAATTAACCTT
1 ATTTAATTAACTTAATTAACCAA
*
61644070 ATTTACTTAA-TTAATTAAACCAA
1 ATTTAATTAACTTAATT-AACCAA
61644093 ATTT
1 ATTT
61644097 TAAGCTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTAACTTAATTAACCAA
Found at i:61648575 original size:20 final size:19
Alignment explanation
Indices: 61648549--61648593 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
61648539 TTTTTAATTA
* *
61648549 TTAAAATCTTTTAATATTT
1 TTAAAATATATTAATATTT
*
61648568 TATAAAATATATTATTATTT
1 T-TAAAATATATTAATATTT
61648588 TTAAAA
1 TTAAAA
61648594 ATTGAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATATATTAATATTT
Found at i:61659681 original size:14 final size:15
Alignment explanation
Indices: 61659657--61659685 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61659647 TTTGTGACTC
61659657 GACTAATATAGGTTA
1 GACTAATATAGGTTA
61659672 GACT-ATATAGGTTA
1 GACTAATATAGGTTA
61659686 AAACTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
GACTAATATAGGTTA
Found at i:61660357 original size:60 final size:60
Alignment explanation
Indices: 61660283--61660404 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
61660273 GGTTCTTAAA
*
61660283 TCAAAAAGATAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
61660343 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
61660403 TC
1 TC
61660405 CTATGGTAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (60 bp):
TCAAAAAGAAAAAAACTATGTGCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
Found at i:61661619 original size:19 final size:20
Alignment explanation
Indices: 61661592--61661650 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
61661582 TCTTCGAAGA
*
61661592 TATGCAATCTTAGATATG-G
1 TATGTAATCTTAGATATGAG
*
61661611 TATGTAATCTTAAAAGATATGAT
1 TATGTAATCTT---AGATATGAG
*
61661634 TTTGTAATCTTAGATAT
1 TATGTAATCTTAGATAT
61661651 TTAATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
22 7 0.21
23 10 0.30
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
TATGTAATCTTAGATATGAG
Found at i:61661631 original size:22 final size:23
Alignment explanation
Indices: 61661603--61661645 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61661593 ATGCAATCTT
61661603 AGATATG-GTATGTAATCTTAAA
1 AGATATGAGTATGTAATCTTAAA
* *
61661625 AGATATGATTTTGTAATCTTA
1 AGATATGAGTATGTAATCTTA
61661646 GATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAGTATGTAATCTTAAA
Found at i:61666765 original size:17 final size:17
Alignment explanation
Indices: 61666715--61666765 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
61666705 TGGAAACATG
*
61666715 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
61666732 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
61666751 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
61666766 ATTTTGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:61672949 original size:214 final size:217
Alignment explanation
Indices: 61672559--61672989 Score: 604
Period size: 214 Copynumber: 2.0 Consensus size: 217
61672549 GTATGTTAAT
* * * *
61672559 TTGTTAAACTGAAAAGGTGAAGAATCCATCCAAAAGAAACCGTTGAGTTTAAACATATATATACG
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * * *
61672624 ATATATGTAAGTCATGCAAAAATTTAAAGCACATGGAACTAGGCATGCACAAAATGACAGACTAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
* * *
61672689 CAAAGAAGCAATAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTTGCAAT-AG
131 CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
61672753 ACCTTGTTTCAGTGGCAAGGAG
196 ACCTTGTTTCAGTGGCAAGGAG
* * *
61672775 TTGTTACATTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATA-T
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * **
61672839 A-ATATGTAAGTCATACAAAAATTTAAATCACATAGAACTAGGTATGCA-AAAAAG-TTGACCAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
** *
61672901 CAAAGAAGCAAAAGATTATTA-GAACCATCATTTGAACTTCATGAGCATATTCAATATTCGCAAT
131 CAAAGAAGCAAAAGA-TA--AGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAAT
61672965 GAAACCTTGTTTCAGTGGCAAGGAG
193 GAAACCTTGTTTCAGTGGCAAGGAG
61672990 GAGGCTTTGG
Statistics
Matches: 190, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
212 19 0.10
213 7 0.04
214 82 0.43
215 25 0.13
216 57 0.30
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (217 bp):
TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
ACCTTGTTTCAGTGGCAAGGAG
Found at i:61675715 original size:18 final size:18
Alignment explanation
Indices: 61675692--61675750 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
61675682 ATAAGTATAA
*
61675692 AATTAATTGAATTAATCG
1 AATTAACTGAATTAATCG
* *
61675710 AATTAACTAAATT-ATACA
1 AATTAACTGAATTAAT-CG
*
61675728 AATTAACTGAATTAACCG
1 AATTAACTGAATTAATCG
61675746 AATTA
1 AATTA
61675751 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (18 bp):
AATTAACTGAATTAATCG
Found at i:61677090 original size:18 final size:18
Alignment explanation
Indices: 61677063--61677098 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61677053 TTTTATCAAT
61677063 ATTTAGTAAATATATATA
1 ATTTAGTAAATATATATA
* *
61677081 ATTTATTAAATATCTATA
1 ATTTAGTAAATATATATA
61677099 CATAGAAAAC
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:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTAGTAAATATATATA
Found at i:61680786 original size:42 final size:42
Alignment explanation
Indices: 61680739--61680823 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
61680729 TAGTTGAACA
61680739 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
*
61680781 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTTTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
61680823 T
1 T
61680824 ATGAAAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (42 bp):
TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
Found at i:61694202 original size:23 final size:23
Alignment explanation
Indices: 61694172--61694222 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
61694162 AATCAATAAT
*
61694172 TTGCACCAAAGTGCCACTATCAC
1 TTGCACCAAAGTGCCACAATCAC
*
61694195 TTGCACCAAAGTGTCACAATCAC
1 TTGCACCAAAGTGCCACAATCAC
61694218 TTGCA
1 TTGCA
61694223 TGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACAATCAC
Found at i:61705983 original size:46 final size:45
Alignment explanation
Indices: 61705794--61706162 Score: 167
Period size: 44 Copynumber: 8.5 Consensus size: 45
61705784 ATCTACTCTG
** **
61705794 CTGTAA-CTTCAGGGAGATAAGATCCTTTA-T-TTTAATCCACTCCA
1 CTGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTTAATCTGCTCCA
* * * *
61705838 CTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCAATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTAATCTGCTCCA
* * *
61705881 CTGTAATCTCAGGGAGATAAGATTTCTG---GCCTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGA--TCTGAATTCTTTAATCTGCTCCA
* * *
61705925 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTAATCTGCTCCA
* * * * * *
61705971 CTGTAATCTCAGGGAAATAAGACCTG-GTGC---GATCTGCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTGAATTCTTTAATCTGCTCCA
* * **
61706012 CAGTAA-CTTCAGAGAGATAAGATC------CTTTAATCCACTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTAATCTGCTCCA
* * * * *
61706051 CTGTAA-CTTCAGGGAGATAGGAT-T-ACTATATTCAATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTAATCTGCTCCA
* * *
61706095 CTGTAATCTCAGGGAGATAAGATTTGAAATTCTTTAGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTAATCTGCTCCA
61706141 CTGTAATCTCAGGG-GAATAAGA
1 CTGTAATCTCAGGGAG-ATAAGA
61706163 CCTTTTATAA
Statistics
Matches: 248, Mismatches: 49, Indels: 54
0.71 0.14 0.15
Matches are distributed among these distances:
36 1 0.00
39 27 0.11
40 1 0.00
41 26 0.10
42 5 0.02
43 29 0.12
44 88 0.35
45 3 0.01
46 65 0.26
47 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
CTGTAATCTCAGGGAGATAAGATCTGAATTCTTTAATCTGCTCCA
Found at i:61706006 original size:87 final size:88
Alignment explanation
Indices: 61705913--61706165 Score: 245
Period size: 87 Copynumber: 2.9 Consensus size: 88
61705903 TTTCTGGCCT
61705913 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAAT
1 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAAT
*
61705978 CTCAGGGAAATAAGACCT-GGTG
66 CTCAGGGAAATAAGACCTAGATG
* * * * * * ***
61706000 CGATCTGCTCTACAGTAACTTCAGAGAGATAAGATC-------CTTTAATCCACTCCACTGTAA-
1 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAAT
* * * * *
61706057 CTTCAGGGAGATAGGATTACTATATT
66 C-TCAGGGAAATAAGA--CCTAGATG
* * *
61706083 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTTAGTCTGTTCCACTGTAAT
1 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAAT
*
61706148 CTCAGGGGAATAAGACCT
66 CTCAGGGAAATAAGACCT
61706166 TTTATAATGA
Statistics
Matches: 123, Mismatches: 31, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
79 1 0.01
80 29 0.24
82 2 0.02
83 29 0.24
87 31 0.25
88 2 0.02
90 28 0.23
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (88 bp):
CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAAT
CTCAGGGAAATAAGACCTAGATG
Found at i:61715250 original size:61 final size:60
Alignment explanation
Indices: 61715151--61715268 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 60
61715141 TAGTAGACTC
*
61715151 TTTTCCAAGGCGACTTCTCGAGCTCGAGTATCCTGAAATTTCTTTTCCCATTGATTAACT
1 TTTTCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGATTAACT
61715211 TTTTCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGATTA
1 TTTT-CCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGATTA
61715269 GCTCTCGTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 4 0.07
61 52 0.93
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.37
Consensus pattern (60 bp):
TTTTCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGATTAACT
Found at i:61719351 original size:18 final size:18
Alignment explanation
Indices: 61719330--61719364 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61719320 ATACAGAAGA
61719330 GGTTATCATGGCAGAGGT
1 GGTTATCATGGCAGAGGT
*
61719348 GGTTATCGTGGCAGAGG
1 GGTTATCATGGCAGAGG
61719365 GGTCGAGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.43, T:0.26
Consensus pattern (18 bp):
GGTTATCATGGCAGAGGT
Found at i:61723028 original size:22 final size:22
Alignment explanation
Indices: 61722976--61723019 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61722966 TTTTTTAAAT
* *
61722976 TTTGACTTTTGTTTCAATTGGTG
1 TTTG-CTTTTGTTCCAATTGATG
61722999 TTTGCTTTTGTTCCAATTGAT
1 TTTGCTTTTGTTCCAATTGAT
61723020 TTATTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (22 bp):
TTTGCTTTTGTTCCAATTGATG
Found at i:61724875 original size:26 final size:26
Alignment explanation
Indices: 61724831--61724886 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
61724821 AATTTTAAAA
** * *
61724831 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTT
61724857 TATTTTTAAAATAAATTTTTAGTGTT
1 TATTTTTAAAATAAATTTTTAGTGTT
61724883 TATT
1 TATT
61724887 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
TATTTTTAAAATAAATTTTTAGTGTT
Found at i:61725532 original size:33 final size:33
Alignment explanation
Indices: 61725484--61725546 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
61725474 AATTTAAAAC
* *
61725484 TTAGCCCCTGTACTTTTATTTTTAAGAATTTAG
1 TTAGCCCCTATACTTTTATTTTCAAGAATTTAG
* *
61725517 TTAGTCCCTATACTTTTGTTTTCAAGAATT
1 TTAGCCCCTATACTTTTATTTTCAAGAATT
61725547 AAGTCCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (33 bp):
TTAGCCCCTATACTTTTATTTTCAAGAATTTAG
Found at i:61725942 original size:14 final size:13
Alignment explanation
Indices: 61725919--61725957 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
61725909 CCAGGAAAGT
*
61725919 AAATCCTTTTCCAG
1 AAATCATTTTCC-G
61725933 AAATCATTTTCCG
1 AAATCATTTTCCG
61725946 AAAGTCATTTTC
1 AAA-TCATTTTC
61725958 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:61728228 original size:20 final size:20
Alignment explanation
Indices: 61728203--61728252 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
61728193 TATTTATCAA
61728203 GTATCGATATA-TTCTATTTG
1 GTATCGATATATTTCTA-TTG
*
61728223 GTATCGATAAATTTCTATTG
1 GTATCGATATATTTCTATTG
61728243 GTATCGATAT
1 GTATCGATAT
61728253 TAATGGCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (20 bp):
GTATCGATATATTTCTATTG
Found at i:61737686 original size:4 final size:4
Alignment explanation
Indices: 61737679--61737721 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
61737669 TTCCCTCTCT
* *
61737679 CTCC CTCC CTCC CTCC CTCC CTCTC C-CT CTCC CTCT CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTC-C CTCC CTCC CTCC CTCC CTC
61737722 TCTTCTCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 1 0.03
4 30 0.91
5 2 0.06
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (4 bp):
CTCC
Found at i:61737722 original size:8 final size:8
Alignment explanation
Indices: 61737675--61737724 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
61737665 TGCATTCCCT
61737675 CTCTCTCC
1 CTCTCTCC
*
61737683 CTCCCTCC
1 CTCTCTCC
*
61737691 CTCCCT-C
1 CTCTCTCC
61737698 C-CTCT-C
1 CTCTCTCC
61737704 C-CTCTCC
1 CTCTCTCC
61737711 CTCTCTCC
1 CTCTCTCC
61737719 CTCTCT
1 CTCTCT
61737725 TCTCTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 9 0.24
7 4 0.11
8 25 0.66
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (8 bp):
CTCTCTCC
Found at i:61758981 original size:59 final size:59
Alignment explanation
Indices: 61758906--61759023 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
61758896 TACATTTCCT
61758906 TTCCATACATTGCTTGGTAGAGTTGAAAAATGAAAGGAAAGAAGATAAAACTTTCAAAA
1 TTCCATACATTGCTTGGTAGAGTTGAAAAATGAAAGGAAAGAAGATAAAACTTTCAAAA
*
61758965 TTCCCTACATTGCTTGGTAGAGTTGAAAAATGAAAGGAAAGAAGATAAAACTTTCAAAA
1 TTCCATACATTGCTTGGTAGAGTTGAAAAATGAAAGGAAAGAAGATAAAACTTTCAAAA
61759024 AATGCATAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (59 bp):
TTCCATACATTGCTTGGTAGAGTTGAAAAATGAAAGGAAAGAAGATAAAACTTTCAAAA
Found at i:61766877 original size:275 final size:274
Alignment explanation
Indices: 61766381--61766927 Score: 986
Period size: 275 Copynumber: 2.0 Consensus size: 274
61766371 AGTCTCTTGG
* *
61766381 CCCATTAATTCTCGACCTTTCCTTACTTTAATCTATTCCTCATCATTTCCTTAATTTCCAAAATT
1 CCCATTAATTCTCGACCTTTCCTTACCTCAATCTATTCCTCATCATTTCCTTAATTTCCAAAATT
*
61766446 AGGGTTTTTTTTCTCAAAATCCATAATTTCATTTAGACTCATGACAATTTGTTTAAATCTCATCT
66 AGGGTTTTTTTTCTCAAAATCCATAATTTCATTTAGACTCATGACAATTTATTTAAATCTCATCT
*
61766511 CACGGATGTTATTCAACACCATACAATGGTTCGGGTGTAATTATTCCTATCTTGAAAGTAGTGAT
131 CACGGATGTTATCCAACACCATACAATGGTTCGGGTGTAATTATTCCTATCTTGAAAGTAGTGAT
* *
61766576 GCACATATTTAGTGGTATCTAAAGGAAGCCTTGGGTCTCCTTTATATTCAATCACACCAGTGGTG
196 GCACAGATTTAGTGGTATCCAAAGGAAGCCTTGGGTCTCCTTTATATTCAATCACACCAGTGGTG
61766641 AAATGGTATTTTGT
261 AAATGGTATTTTGT
*
61766655 CCCATTAATTCTCGACCTTTCCTTCCCTCAATCTATTCCTCATCATTTCCTTAATTTCCAAAATT
1 CCCATTAATTCTCGACCTTTCCTTACCTCAATCTATTCCTCATCATTTCCTTAATTTCCAAAATT
*
61766720 AGGGTTCTTTTTTCTCAAAATCCCTAATTTCATTTAGACTCATGACAATTTATTTAAATCTCATC
66 AGGGTT-TTTTTTCTCAAAATCCATAATTTCATTTAGACTCATGACAATTTATTTAAATCTCATC
*
61766785 TCACGGATGTTATCCAACACCATACAATGGTTCGGGTGTAATTATTCCTATCTTGAAAGTTGTGA
130 TCACGGATGTTATCCAACACCATACAATGGTTCGGGTGTAATTATTCCTATCTTGAAAGTAGTGA
* *
61766850 TGCATAGATTTAGTGGTATCCAAAGGAAGCCTTGGGTCTCCTTTATATTTAATCACACCAGTGGT
195 TGCACAGATTTAGTGGTATCCAAAGGAAGCCTTGGGTCTCCTTTATATTCAATCACACCAGTGGT
61766915 GAAATGGTATTTT
260 GAAATGGTATTTT
61766928 AAAAGTGTAT
Statistics
Matches: 261, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
274 68 0.26
275 193 0.74
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (274 bp):
CCCATTAATTCTCGACCTTTCCTTACCTCAATCTATTCCTCATCATTTCCTTAATTTCCAAAATT
AGGGTTTTTTTTCTCAAAATCCATAATTTCATTTAGACTCATGACAATTTATTTAAATCTCATCT
CACGGATGTTATCCAACACCATACAATGGTTCGGGTGTAATTATTCCTATCTTGAAAGTAGTGAT
GCACAGATTTAGTGGTATCCAAAGGAAGCCTTGGGTCTCCTTTATATTCAATCACACCAGTGGTG
AAATGGTATTTTGT
Found at i:61767373 original size:13 final size:15
Alignment explanation
Indices: 61767344--61767375 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61767334 AAGTTGCATC
61767344 TATATTAAAATTATA
1 TATATTAAAATTATA
61767359 TATATTAAAATTATA
1 TATATTAAAATTATA
61767374 TA
1 TA
61767376 AAAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATTAAAATTATA
Found at i:61767971 original size:24 final size:24
Alignment explanation
Indices: 61767943--61767994 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
61767933 TTTCTAGAAG
61767943 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
*
61767967 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGTATTTATTAGTATAATAT
61767991 ATTT
1 ATTT
61767995 GACCTACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:61768117 original size:14 final size:13
Alignment explanation
Indices: 61768084--61768117 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
61768074 CTTTTAGAGA
*
61768084 ATTTTATGTTTAC
1 ATTTTGTGTTTAC
61768097 ATTTTGTGTTTAC
1 ATTTTGTGTTTAC
61768110 ACTTTTGT
1 A-TTTTGT
61768118 ACTCTTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.62
Consensus pattern (13 bp):
ATTTTGTGTTTAC
Found at i:61769912 original size:24 final size:24
Alignment explanation
Indices: 61769884--61769935 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61769874 TTTCTAGAAG
* *
61769884 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
61769908 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
61769932 ATTT
1 ATTT
61769936 TATCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:61791183 original size:17 final size:17
Alignment explanation
Indices: 61791163--61791198 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
61791153 TTTTTTGTAA
61791163 ATTTTTT-TATAATTTAT
1 ATTTTTTCT-TAATTTAT
61791180 ATTTTTTCTTAATTTAT
1 ATTTTTTCTTAATTTAT
61791197 AT
1 AT
61791199 ATATTTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTCTTAATTTAT
Found at i:61791201 original size:28 final size:28
Alignment explanation
Indices: 61791147--61791224 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
61791137 TTCTTTTCAA
* * *
61791147 TTATCATTTTTTGTAAATTTTTTTATAAT
1 TTATCATTTTTTCTAAATTTATATAT-AT
*
61791176 TTAT-ATTTTTTCTTAATTTATATATAT
1 TTATCATTTTTTCTAAATTTATATATAT
* * * *
61791203 TTCTGATTTTTTATATATTTAT
1 TTATCATTTTTTCTAAATTTAT
61791225 TTTTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 5 0.12
28 31 0.77
29 4 0.10
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (28 bp):
TTATCATTTTTTCTAAATTTATATATAT
Found at i:61791203 original size:21 final size:21
Alignment explanation
Indices: 61791177--61791241 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
61791167 TTTTATAATT
61791177 TATATTTTTTCTTAA--TTTA
1 TATATTTTTTCTTAATTTTTA
* * *
61791196 TATA-TATTTCTGATTTTTTA
1 TATATTTTTTCTTAATTTTTA
61791216 TATATTTATTT-TTAATTTTTA
1 TATATTT-TTTCTTAATTTTTA
61791237 TATAT
1 TATAT
61791242 ATTTAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 7 0.19
19 4 0.11
20 8 0.22
21 14 0.39
22 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (21 bp):
TATATTTTTTCTTAATTTTTA
Found at i:61791205 original size:18 final size:18
Alignment explanation
Indices: 61791172--61791222 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
61791162 AATTTTTTTA
*
61791172 TAATTTATAT-TTTTTCT
1 TAATTTATATATATTTCT
61791189 TAATTTATATATATTTCT
1 TAATTTATATATATTTCT
* * *
61791207 GATTTTTTATATATTT
1 TAATTTATATATATTT
61791223 ATTTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 10 0.34
18 19 0.66
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TAATTTATATATATTTCT
Found at i:61791240 original size:23 final size:22
Alignment explanation
Indices: 61791194--61791246 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
61791184 TTTCTTAATT
* *
61791194 TATATATATTTCTGATTTTTTA
1 TATATTTATTTCTAATTTTTTA
*
61791216 TATATTTATTTTTAATTTTTATA
1 TATATTTATTTCTAATTTTT-TA
61791239 TATATTTA
1 TATATTTA
61791247 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TATATTTATTTCTAATTTTTTA
Found at i:61794080 original size:3 final size:3
Alignment explanation
Indices: 61794067--61794100 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
61794057 ACCTAATTTA
61794067 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61794101 ATCGATGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61798152 original size:25 final size:23
Alignment explanation
Indices: 61798115--61798161 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
61798105 TTAGTCTATA
*
61798115 TATTCTATTTTTTATCAGTTTTAAT
1 TATTCTATATTTTAT-A-TTTTAAT
*
61798140 TATTTTATATTTTATATTTTAA
1 TATTCTATATTTTATATTTTAA
61798162 AATTTCTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTCTATATTTTATATTTTAAT
Found at i:61801282 original size:37 final size:37
Alignment explanation
Indices: 61801241--61801416 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
61801231 TTTGAGTACT
61801241 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61801278 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61801315 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61801352 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
61801389 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
61801417 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:61801488 original size:45 final size:46
Alignment explanation
Indices: 61801379--61801502 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
61801369 GTGATAAGTG
* *
61801379 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
61801425 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
61801470 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
61801503 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:61808980 original size:37 final size:37
Alignment explanation
Indices: 61808939--61809114 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
61808929 TTTGAGTACT
61808939 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61808976 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61809013 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
61809050 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
61809087 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
61809115 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:61809186 original size:45 final size:46
Alignment explanation
Indices: 61809077--61809200 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
61809067 GTGATAAGTG
* *
61809077 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
61809123 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
61809168 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
61809201 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:61815916 original size:24 final size:24
Alignment explanation
Indices: 61815854--61815905 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
61815844 TTTCTAGAAG
* *
61815854 ATTTAGTATTTA-TAAGTATAATAT
1 ATTTAGCATTTATTAA-CATAATAT
61815878 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
61815902 ATTT
1 ATTT
61815906 GACTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:61819798 original size:14 final size:15
Alignment explanation
Indices: 61819776--61819804 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61819766 ATAAATTTGA
61819776 AAAATAAAATTAGAC
1 AAAATAAAATTAGAC
61819791 AAAA-AAAATTAGAC
1 AAAATAAAATTAGAC
61819805 CTCAACACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAATAAAATTAGAC
Found at i:61821420 original size:67 final size:69
Alignment explanation
Indices: 61821292--61821423 Score: 189
Period size: 67 Copynumber: 1.9 Consensus size: 69
61821282 TCTGAATAAG
** *
61821292 AAAAGGCAAAATTACGCTCTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAGTCAAAACCATTA
1 AAAAGGCAAAATTACGCTCTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGGCAAAACCATTA
61821357 AGTT
66 AGTT
* *
61821361 AAAAGGCAAAATTACGTTGTTTTGATAAATGTTTA-CTCAT-T-AAGTTAAAAGGCAAAACCATT
1 AAAAGGCAAAATTACGCT-CTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGGCAAAACCATT
61821423 A
65 A
61821424 TATTGTGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 21 0.37
68 1 0.02
69 20 0.35
70 15 0.26
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (69 bp):
AAAAGGCAAAATTACGCTCTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGGCAAAACCATTA
AGTT
Found at i:61824073 original size:15 final size:15
Alignment explanation
Indices: 61824028--61824073 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
61824018 TCCCTCACCC
*
61824028 CCTCCACCACTTGCT
1 CCTCCACCAATTGCT
* * *
61824043 CCGCCACCTATGGCT
1 CCTCCACCAATTGCT
61824058 CCTCCACCAATTGCT
1 CCTCCACCAATTGCT
61824073 C
1 C
61824074 AGCCTCCTAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.50, G:0.11, T:0.24
Consensus pattern (15 bp):
CCTCCACCAATTGCT
Found at i:61824089 original size:30 final size:30
Alignment explanation
Indices: 61824028--61824089 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
61824018 TCCCTCACCC
* * **
61824028 CCTCCACCACTTGCTCCGCCACCTATGGCT
1 CCTCCACCAATTGCTCAGCCACCTACAGCT
*
61824058 CCTCCACCAATTGCTCAGCCTCCTACAGCT
1 CCTCCACCAATTGCTCAGCCACCTACAGCT
61824088 CC
1 CC
61824090 ACCAATGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.50, G:0.11, T:0.23
Consensus pattern (30 bp):
CCTCCACCAATTGCTCAGCCACCTACAGCT
Found at i:61827121 original size:14 final size:15
Alignment explanation
Indices: 61827095--61827127 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61827085 TTTATGAGCC
61827095 AAAATATAATATCAT
1 AAAATATAATATCAT
*
61827110 AAAATA-AATATCTT
1 AAAATATAATATCAT
61827124 AAAA
1 AAAA
61827128 CGAATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAATATCAT
Found at i:61846082 original size:21 final size:21
Alignment explanation
Indices: 61846058--61846100 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61846048 ACAGCAGTAA
*
61846058 CGGTAAGATTAGTTACTGTAG
1 CGGTAAGATTAGATACTGTAG
* *
61846079 CGGTGAGATTGGATACTGTAG
1 CGGTAAGATTAGATACTGTAG
61846100 C
1 C
61846101 AATGAGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (21 bp):
CGGTAAGATTAGATACTGTAG
Found at i:61858785 original size:13 final size:13
Alignment explanation
Indices: 61858769--61858795 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61858759 TATTATAAAA
61858769 ATTATAAAAAATT
1 ATTATAAAAAATT
61858782 ATTATAAAAAATT
1 ATTATAAAAAATT
61858795 A
1 A
61858796 ATTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTATAAAAAATT
Found at i:61859401 original size:19 final size:18
Alignment explanation
Indices: 61859366--61859411 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
61859356 CGGTTTTTTA
61859366 TTTTATTT--TATAATAT
1 TTTTATTTAATATAATAT
61859382 TTTTATTTAATATCAATAT
1 TTTTATTTAATAT-AATAT
61859401 TTTTATTTAAT
1 TTTTATTTAAT
61859412 TTTTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.30
18 3 0.11
19 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTTAATATAATAT
Found at i:61859436 original size:22 final size:23
Alignment explanation
Indices: 61859411--61859457 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
61859401 TTTTATTTAA
*
61859411 TTTTTATAATA-ATTATATATAT
1 TTTTTATAATACATTATATAAAT
*
61859433 TTTTTATAATACATTTTATAAAT
1 TTTTTATAATACATTATATAAAT
61859456 TT
1 TT
61859458 AATACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTATAATACATTATATAAAT
Found at i:61859462 original size:18 final size:18
Alignment explanation
Indices: 61859439--61859474 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61859429 ATATTTTTTA
*
61859439 TAATACATTTTATAAATT
1 TAATACATTTTAAAAATT
*
61859457 TAATACTTTTTAAAAATT
1 TAATACATTTTAAAAATT
61859475 ATAGAATAAT
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATACATTTTAAAAATT
Found at i:61864715 original size:27 final size:28
Alignment explanation
Indices: 61864671--61864724 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
61864661 TAAAACATAT
*
61864671 AAAAATAAGTCTAAAAAAATC-AAAACA
1 AAAAATAAGTATAAAAAAATCGAAAACA
* *
61864698 AAAAATTAGTATAGAAAAATCGAAAAC
1 AAAAATAAGTATAAAAAAATCGAAAAC
61864725 CGAACCGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (28 bp):
AAAAATAAGTATAAAAAAATCGAAAACA
Found at i:61867306 original size:17 final size:19
Alignment explanation
Indices: 61867270--61867306 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
61867260 TTAAAACGAT
61867270 AAAAATGTAGTTTTCATAAA
1 AAAAATGTA-TTTTCATAAA
61867290 AAAAATGT-TTTTC-TAAA
1 AAAAATGTATTTTCATAAA
61867307 CCTTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
20 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAAATGTATTTTCATAAA
Found at i:61872236 original size:19 final size:19
Alignment explanation
Indices: 61872200--61872239 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61872190 TTAAACTTTT
* *
61872200 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
*
61872219 ATTAAACTTTTCGGTTCTA
1 ATTAAACTTTTCGATTCTA
61872238 AT
1 AT
61872240 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:61872371 original size:17 final size:17
Alignment explanation
Indices: 61872349--61872382 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61872339 CCGTGCATCT
61872349 TCAAATAACTCGATAGA
1 TCAAATAACTCGATAGA
*
61872366 TCAAATAACTTGATAGA
1 TCAAATAACTCGATAGA
61872383 ATAGATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
TCAAATAACTCGATAGA
Found at i:61873104 original size:18 final size:16
Alignment explanation
Indices: 61873081--61873114 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
61873071 TCAACTAAAG
61873081 TAAATTTTAATAATTTTT
1 TAAA-TTTAA-AATTTTT
61873099 TAAATTTAAAATTTTT
1 TAAATTTAAAATTTTT
61873115 AGATATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAAATTTAAAATTTTT
Found at i:61874606 original size:9 final size:9
Alignment explanation
Indices: 61874592--61874635 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
61874582 CAAATCTAAC
61874592 TCTCTCAAT
1 TCTCTCAAT
61874601 TCTCTCTAA-
1 TCTCTC-AAT
*
61874610 ACTCTCAAT
1 TCTCTCAAT
61874619 TCTCTCAAT
1 TCTCTCAAT
*
61874628 TTTCTCAA
1 TCTCTCAA
61874636 GATTTGTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:61874831 original size:16 final size:18
Alignment explanation
Indices: 61874812--61874846 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
61874802 TTCAACTAAG
61874812 TTAATTT-TAAAA-ATTT
1 TTAATTTCTAAAATATTT
61874828 TTAATTTCTAAAATATTT
1 TTAATTTCTAAAATATTT
61874846 T
1 T
61874847 AAACTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTTCTAAAATATTT
Found at i:61876835 original size:24 final size:24
Alignment explanation
Indices: 61876770--61876851 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
61876760 GATGGAGACA
*
61876770 AAGATGAAGACGGGGGTAGAGATG
1 AAGATGAAGACGGGGGTCGAGATG
* * *
61876794 AAAATGAAGGCGAGGGTCGAGATG
1 AAGATGAAGACGGGGGTCGAGATG
* **
61876818 AAGATGAATACGGGGGTCGAGGGG
1 AAGATGAAGACGGGGGTCGAGATG
61876842 AAGATGAAGA
1 AAGATGAAGA
61876852 AGATGAAGAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.38, C:0.06, G:0.44, T:0.12
Consensus pattern (24 bp):
AAGATGAAGACGGGGGTCGAGATG
Found at i:61879646 original size:21 final size:22
Alignment explanation
Indices: 61879603--61879651 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
61879593 TCAATTTCAG
*
61879603 TTTTTCTATTAGAATAATATTT
1 TTTTTCTATTAAAATAATATTT
* *
61879625 TTTTTCTTTTAAAAT-ATGTTT
1 TTTTTCTATTAAAATAATATTT
61879646 TTTTTC
1 TTTTTC
61879652 AGAAGGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTTCTATTAAAATAATATTT
Found at i:61884467 original size:29 final size:31
Alignment explanation
Indices: 61884433--61884524 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
61884423 GGGGATCTAG
* *
61884433 AATTTTTTTTT-AGCTTTTAAGGG-CC-CAA
1 AATTTTTTTTTCAACTTTTAAGGGACCTAAA
**
61884461 AATTTTTTTACCAACTTTTAAGGGACCTAAA
1 AATTTTTTTTTCAACTTTTAAGGGACCTAAA
**
61884492 AATTTTTTTCTTCAACTTTTAAGAAACCTAAA
1 AATTTTTTT-TTCAACTTTTAAGGGACCTAAA
61884524 A
1 A
61884525 CCTTATTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
28 9 0.17
29 11 0.21
30 2 0.04
31 11 0.21
32 19 0.37
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (31 bp):
AATTTTTTTTTCAACTTTTAAGGGACCTAAA
Found at i:61889083 original size:91 final size:91
Alignment explanation
Indices: 61888880--61889086 Score: 220
Period size: 91 Copynumber: 2.3 Consensus size: 91
61888870 GACTATAAAT
* *
61888880 CTACAA-ATCTGGTGGTTCATCCACATATTATTTGGCAACTTTTATCTGTAAAAAATGTTGTGTA
1 CTACAACAT-TGGTGGTTCATCCACACATTATCTGGCAACTTTTATCTGTAAAAAATGTTGTGTA
* *
61888944 TTCACAACCATCTAGCAGCATATTAAC
65 TTCACAACCATCTAACAACATATTAAC
* * * * * * **
61888971 CTACAACATGGGTGATCCATCCACCCATTATCTGGCAGCTTTTATCTG-CAATTATGTTGTGTAT
1 CTACAACATTGGTGGTTCATCCACACATTATCTGGCAACTTTTATCTGTAAAAAATGTTGTGTAT
**
61889035 TCACAACTGTCTAACAACATATTAAC
66 TCACAACCATCTAACAACATATTAAC
* ** *
61889061 TTGTAACGTTTGGTGGTTCATCCACA
1 CTACAAC-ATTGGTGGTTCATCCACA
61889087 ACCCGATGTG
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
90 39 0.42
91 51 0.55
92 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (91 bp):
CTACAACATTGGTGGTTCATCCACACATTATCTGGCAACTTTTATCTGTAAAAAATGTTGTGTAT
TCACAACCATCTAACAACATATTAAC
Found at i:61890787 original size:21 final size:20
Alignment explanation
Indices: 61890748--61890785 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61890738 AATCAAATTA
61890748 TTTTTAAAATTTTATTTTAT
1 TTTTTAAAATTTTATTTTAT
61890768 TTTTTAAAATTTTATTTT
1 TTTTTAAAATTTTATTTT
61890786 TAAACAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTAAAATTTTATTTTAT
Found at i:61891159 original size:16 final size:16
Alignment explanation
Indices: 61891126--61891166 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
61891116 TATATTCAAA
61891126 ATATTATAAATATATT
1 ATATTATAAATATATT
*
61891142 ATATTGTAAATA-ATT
1 ATATTATAAATATATT
61891157 -TATATATAAA
1 ATAT-TATAAA
61891167 GTAAGGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATTATAAATATATT
Found at i:61911203 original size:8 final size:8
Alignment explanation
Indices: 61911190--61911221 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
61911180 ATGCTTAAGA
61911190 TATAATAT
1 TATAATAT
61911198 TATAATAT
1 TATAATAT
61911206 TATAATAT
1 TATAATAT
*
61911214 GATAATAT
1 TATAATAT
61911222 ATATTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
TATAATAT
Found at i:61914550 original size:24 final size:23
Alignment explanation
Indices: 61914519--61914566 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
61914509 AAAAATCTAG
61914519 AAAATAATGATGATGTTGGAGAT
1 AAAATAATGATGATGTTGGAGAT
61914542 AAAAGTAATGATGATGTTGGAGAT
1 AAAA-TAATGATGATGTTGGAGAT
61914566 A
1 A
61914567 TTTTAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (23 bp):
AAAATAATGATGATGTTGGAGAT
Found at i:61916173 original size:847 final size:847
Alignment explanation
Indices: 61914540--61916237 Score: 3396
Period size: 847 Copynumber: 2.0 Consensus size: 847
61914530 GATGTTGGAG
61914540 ATAAAAGTAATGATGATGTTGGAGATATTTTAGATTAAATAAATAAATAAATATTAGTTTATTAA
1 ATAAAAGTAATGATGATGTTGGAGATATTTTAGATTAAATAAATAAATAAATATTAGTTTATTAA
61914605 TATTTTAATTTGATTTTTAAATGATATTTTATCATTTTATTATTTTATTTAGTATATATATATAT
66 TATTTTAATTTGATTTTTAAATGATATTTTATCATTTTATTATTTTATTTAGTATATATATATAT
61914670 GGAAGAAAATATGAAGAATCATCTTCCTTTCCCATGCATTTCACGTTAGAAGAGGAGAGAAGAAA
131 GGAAGAAAATATGAAGAATCATCTTCCTTTCCCATGCATTTCACGTTAGAAGAGGAGAGAAGAAA
61914735 GAAAGTTTTGCTTTCTTTACAAATTGGTCATTCCACCAAAAAATTACCATTTTCACCTAGAAATC
196 GAAAGTTTTGCTTTCTTTACAAATTGGTCATTCCACCAAAAAATTACCATTTTCACCTAGAAATC
61914800 AAAAGAATTTCCGTAGCTACCAAGAGAGAAAAATGTTAAGGAGACTATGGAGAGTTAGAATATGA
261 AAAAGAATTTCCGTAGCTACCAAGAGAGAAAAATGTTAAGGAGACTATGGAGAGTTAGAATATGA
61914865 AGTTAGATTTAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGC
326 AGTTAGATTTAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGC
61914930 ACAAGGTAATAACATCAAGATTCCAATATACTTTTGAGTTTGATATTATTGAAAATGTAGGAAAT
391 ACAAGGTAATAACATCAAGATTCCAATATACTTTTGAGTTTGATATTATTGAAAATGTAGGAAAT
61914995 TAATGTTAATGTAGAGTTTCATTATATAAGGTTCTATATTCTTGTTATGCTAGTAAAGGGAAATA
456 TAATGTTAATGTAGAGTTTCATTATATAAGGTTCTATATTCTTGTTATGCTAGTAAAGGGAAATA
61915060 AGAGAAAGTGATGGAAAATATTGAAGAGAAAGGAAAGGAAGGTGTTATAAATTTTGTTATCAACA
521 AGAGAAAGTGATGGAAAATATTGAAGAGAAAGGAAAGGAAGGTGTTATAAATTTTGTTATCAACA
61915125 TTTTATACTAAAACAGTTTTGGACAGCAGCAGTAAGTTAAATTTGAAAAATCACCATAAATAGTG
586 TTTTATACTAAAACAGTTTTGGACAGCAGCAGTAAGTTAAATTTGAAAAATCACCATAAATAGTG
61915190 GAAATTTAATTAGAGGATGAAAAAATATAGAATTAAAACTTATTGAGTCTAGTTTCTCATAGAAG
651 GAAATTTAATTAGAGGATGAAAAAATATAGAATTAAAACTTATTGAGTCTAGTTTCTCATAGAAG
61915255 AAACGGTGTATGTAAAGGAATTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAA
716 AAACGGTGTATGTAAAGGAATTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAA
61915320 TGAATTCTAGTTCCCCTGTTCTGACTTGGAAAAATCATTAAAAATTGTATAAAAATAATTATGAG
781 TGAATTCTAGTTCCCCTGTTCTGACTTGGAAAAATCATTAAAAATTGTATAAAAATAATTATGAG
61915385 TT
846 TT
61915387 ATAAAAGTAATGATGATGTTGGAGATATTTTAGATTAAATAAATAAATAAATATTAGTTTATTAA
1 ATAAAAGTAATGATGATGTTGGAGATATTTTAGATTAAATAAATAAATAAATATTAGTTTATTAA
61915452 TATTTTAATTTGATTTTTAAATGATATTTTATCATTTTATTATTTTATTTAGTATATATATATAT
66 TATTTTAATTTGATTTTTAAATGATATTTTATCATTTTATTATTTTATTTAGTATATATATATAT
61915517 GGAAGAAAATATGAAGAATCATCTTCCTTTCCCATGCATTTCACGTTAGAAGAGGAGAGAAGAAA
131 GGAAGAAAATATGAAGAATCATCTTCCTTTCCCATGCATTTCACGTTAGAAGAGGAGAGAAGAAA
61915582 GAAAGTTTTGCTTTCTTTACAAATTGGTCATTCCACCAAAAAATTACCATTTTCACCTAGAAATC
196 GAAAGTTTTGCTTTCTTTACAAATTGGTCATTCCACCAAAAAATTACCATTTTCACCTAGAAATC
61915647 AAAAGAATTTCCGTAGCTACCAAGAGAGAAAAATGTTAAGGAGACTATGGAGAGTTAGAATATGA
261 AAAAGAATTTCCGTAGCTACCAAGAGAGAAAAATGTTAAGGAGACTATGGAGAGTTAGAATATGA
61915712 AGTTAGATTTAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGC
326 AGTTAGATTTAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGC
61915777 ACAAGGTAATAACATCAAGATTCCAATATACTTTTGAGTTTGATATTATTGAAAATGTAGGAAAT
391 ACAAGGTAATAACATCAAGATTCCAATATACTTTTGAGTTTGATATTATTGAAAATGTAGGAAAT
61915842 TAATGTTAATGTAGAGTTTCATTATATAAGGTTCTATATTCTTGTTATGCTAGTAAAGGGAAATA
456 TAATGTTAATGTAGAGTTTCATTATATAAGGTTCTATATTCTTGTTATGCTAGTAAAGGGAAATA
61915907 AGAGAAAGTGATGGAAAATATTGAAGAGAAAGGAAAGGAAGGTGTTATAAATTTTGTTATCAACA
521 AGAGAAAGTGATGGAAAATATTGAAGAGAAAGGAAAGGAAGGTGTTATAAATTTTGTTATCAACA
61915972 TTTTATACTAAAACAGTTTTGGACAGCAGCAGTAAGTTAAATTTGAAAAATCACCATAAATAGTG
586 TTTTATACTAAAACAGTTTTGGACAGCAGCAGTAAGTTAAATTTGAAAAATCACCATAAATAGTG
61916037 GAAATTTAATTAGAGGATGAAAAAATATAGAATTAAAACTTATTGAGTCTAGTTTCTCATAGAAG
651 GAAATTTAATTAGAGGATGAAAAAATATAGAATTAAAACTTATTGAGTCTAGTTTCTCATAGAAG
61916102 AAACGGTGTATGTAAAGGAATTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAA
716 AAACGGTGTATGTAAAGGAATTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAA
61916167 TGAATTCTAGTTCCCCTGTTCTGACTTGGAAAAATCATTAAAAATTGTATAAAAATAATTATGAG
781 TGAATTCTAGTTCCCCTGTTCTGACTTGGAAAAATCATTAAAAATTGTATAAAAATAATTATGAG
61916232 TT
846 TT
61916234 ATAA
1 ATAA
61916238 TTTATATATT
Statistics
Matches: 851, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
847 851 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (847 bp):
ATAAAAGTAATGATGATGTTGGAGATATTTTAGATTAAATAAATAAATAAATATTAGTTTATTAA
TATTTTAATTTGATTTTTAAATGATATTTTATCATTTTATTATTTTATTTAGTATATATATATAT
GGAAGAAAATATGAAGAATCATCTTCCTTTCCCATGCATTTCACGTTAGAAGAGGAGAGAAGAAA
GAAAGTTTTGCTTTCTTTACAAATTGGTCATTCCACCAAAAAATTACCATTTTCACCTAGAAATC
AAAAGAATTTCCGTAGCTACCAAGAGAGAAAAATGTTAAGGAGACTATGGAGAGTTAGAATATGA
AGTTAGATTTAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGC
ACAAGGTAATAACATCAAGATTCCAATATACTTTTGAGTTTGATATTATTGAAAATGTAGGAAAT
TAATGTTAATGTAGAGTTTCATTATATAAGGTTCTATATTCTTGTTATGCTAGTAAAGGGAAATA
AGAGAAAGTGATGGAAAATATTGAAGAGAAAGGAAAGGAAGGTGTTATAAATTTTGTTATCAACA
TTTTATACTAAAACAGTTTTGGACAGCAGCAGTAAGTTAAATTTGAAAAATCACCATAAATAGTG
GAAATTTAATTAGAGGATGAAAAAATATAGAATTAAAACTTATTGAGTCTAGTTTCTCATAGAAG
AAACGGTGTATGTAAAGGAATTGTAAATCATGAGATATAATGAATTTTGTGAGACAAGGTCAGAA
TGAATTCTAGTTCCCCTGTTCTGACTTGGAAAAATCATTAAAAATTGTATAAAAATAATTATGAG
TT
Found at i:61917347 original size:46 final size:46
Alignment explanation
Indices: 61917294--61917588 Score: 434
Period size: 46 Copynumber: 6.4 Consensus size: 46
61917284 TATTTTAGTG
*
61917294 AAGAAAACCATACTGAGTTGTGAAAAGTATGTATGGTATTTCGATA
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATA
*
61917340 AAGAAAACCATACTGAGTTGTGAAAAGTATGTATGGTATTTCGATA
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATA
61917386 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATA
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATA
* * *
61917432 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTT-TAGTG
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGA-TA
* * * *
61917478 AAGAAAACCATATTGAATTGTGAAAAGTAGGTATGGTGTTTC-AGTG
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGA-TA
* *
61917524 AAGAAAACCATACTGAGTTGTGAAAAGTAGGAATGGTATTTCCG-TG
1 AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTT-CGATA
*
61917570 AAGAAAACCATACTAAGTT
1 AAGAAAACCATACTGAGTT
61917589 ATAACAATGT
Statistics
Matches: 234, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
45 1 0.00
46 232 0.99
47 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.29
Consensus pattern (46 bp):
AAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATA
Found at i:61921347 original size:24 final size:24
Alignment explanation
Indices: 61921320--61921371 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61921310 AATCAAAGTC
* *
61921320 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
61921344 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
61921368 AAAT
1 AAAT
61921372 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:61927467 original size:7 final size:7
Alignment explanation
Indices: 61927457--61927533 Score: 64
Period size: 7 Copynumber: 11.0 Consensus size: 7
61927447 GTTAATTGGT
61927457 GGGTTTA
1 GGGTTTA
61927464 GGGTTTA
1 GGGTTTA
* *
61927471 AGTTTTA
1 GGGTTTA
* *
61927478 CGGTTTG
1 GGGTTTA
*
61927485 GGGTTTG
1 GGGTTTA
61927492 GGGTTTA
1 GGGTTTA
*
61927499 GGGTTAA
1 GGGTTTA
61927506 GGGTTTA
1 GGGTTTA
** *
61927513 TAGTTTG
1 GGGTTTA
61927520 GGGTTTA
1 GGGTTTA
*
61927527 GGATTTA
1 GGGTTTA
61927534 TAATCAATTA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:61927718 original size:15 final size:16
Alignment explanation
Indices: 61927686--61927724 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
61927676 GATATTCTAT
61927686 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
61927702 A-TAATATAAAT-ATAA
1 ATTAATATAAATGA-AA
61927717 ATTAATAT
1 ATTAATAT
61927725 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 13 0.62
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:61927975 original size:16 final size:16
Alignment explanation
Indices: 61927954--61927985 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61927944 CAAAAGTAAT
61927954 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
61927970 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
61927986 GAAATAAATA
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:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:61928504 original size:17 final size:17
Alignment explanation
Indices: 61928452--61928504 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
61928442 TATAGAAACA
* *
61928452 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
61928469 CAATCGTAGATATGATATG
1 TAATCTTAGA-A-GATATG
61928488 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
61928505 ATTTACTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:61928504 original size:22 final size:21
Alignment explanation
Indices: 61928476--61928533 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
61928466 ATGCAATCGT
*
61928476 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
*
61928497 AAGATATGATTTACTAATCTTAG
1 -AGATATGATTT-GTAATCTTAG
*
61928520 AGATTTGATTTGTA
1 AGATATGATTTGTA
61928534 GATACTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 2 0.06
22 20 0.65
23 9 0.29
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:61934267 original size:45 final size:45
Alignment explanation
Indices: 61934216--61934489 Score: 379
Period size: 45 Copynumber: 6.1 Consensus size: 45
61934206 TTCGTTGTTT
* * * * *
61934216 TTCGATCTGCTTCGTTGCCAGTACAGGAAGGCATGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
61934261 TTCGATCTACTTCGCTGCCAATATAGGAGGACAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
61934306 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
61934351 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAG-TCTTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
** *
61934396 TTCGATCTACTTCATTGCCAATACACGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
61934441 TTTGATCTGCTTCACTGCCAATACAGGAAGATAAGATCTGCTATA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
61934486 TTCG
1 TTCG
61934490 TTGATTTGTT
Statistics
Matches: 204, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 2 0.01
45 200 0.98
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:61948551 original size:3 final size:3
Alignment explanation
Indices: 61948545--61948618 Score: 96
Period size: 3 Copynumber: 24.3 Consensus size: 3
61948535 AAAAAAAGTA
* *
61948545 AAT AAT AAT AAT ACT ACAT AAT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
61948591 AA- AGAT AAT AAT AAT AAT AGT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT A
61948619 TAAACCTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 58 0.94
4 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61962817 original size:17 final size:17
Alignment explanation
Indices: 61962795--61962829 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61962785 TAAGTCCATT
61962795 TCCCTACGTTTGCCGAG
1 TCCCTACGTTTGCCGAG
61962812 TCCCTACGTTTGCCGAG
1 TCCCTACGTTTGCCGAG
61962829 T
1 T
61962830 TTAGCTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.23, T:0.31
Consensus pattern (17 bp):
TCCCTACGTTTGCCGAG
Found at i:61966252 original size:20 final size:21
Alignment explanation
Indices: 61966227--61966268 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
61966217 AAAATTTCAA
61966227 TATTTTTATAACTTT-TTTTT
1 TATTTTTATAACTTTATTTTT
*
61966247 TATTTTTATATCTTTATTTTT
1 TATTTTTATAACTTTATTTTT
61966268 T
1 T
61966269 TAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (21 bp):
TATTTTTATAACTTTATTTTT
Found at i:61978092 original size:66 final size:64
Alignment explanation
Indices: 61977994--61978133 Score: 253
Period size: 66 Copynumber: 2.2 Consensus size: 64
61977984 AATTGCTAAT
*
61977994 ATATTATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACATAAAAAAAAATGA
1 ATATCATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACAT--AAAAAAATGA
61978059 G
64 G
61978060 ATATCATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACATAAAAAAATGAG
1 ATATCATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACATAAAAAAATGAG
61978124 ATATCATTAT
1 ATATCATTAT
61978134 GAAAAAAAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 21 0.29
66 52 0.71
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (64 bp):
ATATCATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACATAAAAAAATGAG
Done.