Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 280 of 290
Found at i:89590230 original size:30 final size:30
Alignment explanation
Indices: 89590164--89590231 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
89590154 TAGGTACAAG
89590164 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
** *
89590194 AAGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
89590224 TGGTGGTG
1 TGGTGGTG
89590232 ACAAAGGCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
Found at i:89591116 original size:102 final size:103
Alignment explanation
Indices: 89591010--89591199 Score: 269
Period size: 102 Copynumber: 1.8 Consensus size: 103
89591000 AAAACAGATT
** * * * *
89591010 TTGAAAATACCTTGGTATGTGA-CTCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTT
1 TTGAAAATACCTCAGCATGTGATCT-GAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTT
89591073 G-CAAAGCATAAATTGAAAAAAAATAAAAATAAAAATCAA
65 GACAAA-CATAAATTGAAAAAAAATAAAAATAAAAATCAA
*
89591112 TTGAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTT
1 TTGAAAATACCTCAGCATGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTT
89591177 GACAAACATAAATTGAAAAAAAA
65 GACAAACATAAATTGAAAAAAAA
89591200 AAGAAATTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
102 48 0.62
103 2 0.03
104 23 0.30
105 4 0.05
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (103 bp):
TTGAAAATACCTCAGCATGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTG
ACAAACATAAATTGAAAAAAAATAAAAATAAAAATCAA
Found at i:89591256 original size:92 final size:89
Alignment explanation
Indices: 89591110--89591447 Score: 378
Period size: 92 Copynumber: 3.7 Consensus size: 89
89591100 AATAAAAATC
* * *
89591110 AATTGAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
89591175 TTGACAAACATAAATTGAAAAAAAAAAGA
65 TTGAAAAACA-AAATTG---AAAAACAGA
* * *
89591204 AATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTAATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
89591268 GGAAAAACAAAATTTGAAAAACAGA
66 TGAAAAACAAAA-TTGAAAAACAGA
* ** * *
89591293 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
89591358 TTTAAAACACAGAAATTGAAGAACAGA
65 TTGAAAA-ACA-AAATTGAAAAACAGA
* * * * *
89591385 AATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
89591447 T
66 T
89591448 TTTAAAGACA
Statistics
Matches: 210, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
88 36 0.17
89 29 0.14
90 3 0.01
91 42 0.20
92 76 0.36
93 3 0.01
94 21 0.10
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (89 bp):
AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAACAAAATTGAAAAACAGA
Found at i:89591301 original size:13 final size:14
Alignment explanation
Indices: 89591269--89591301 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89591259 TAATTTTTTG
89591269 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
89591283 GAAAAACAGAATTT
1 GAAAAACAAAATTT
89591297 GAAAA
1 GAAAA
89591302 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:89591329 original size:183 final size:178
Alignment explanation
Indices: 89591112--89591446 Score: 449
Period size: 183 Copynumber: 1.8 Consensus size: 178
89591102 TAAAAATCAA
*
89591112 TTGAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATC-GAAGCTCAACTCACCACTCGCAATATGAATTGATTTTTTT
* * * * * *
89591177 GACAA-ACATAAATTGAAAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTC
65 GAAAACACAGAAATTG---AAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTC
*
89591241 ACCTCTCGCAATATGAGTTAATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
125 ACCTCTCGCAATATGAGCTAATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
*
89591295 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCGAA-GCTCAACTCACCACTCGCAATATGAATTGATTTTTT
* * * * *
89591359 TTAAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCT
64 TGAAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCT
*
89591424 CTCGCAATATGAGCTGATTTTTT
129 CTCGCAATATGAGCTAATTTTTT
89591447 TTTTAAAGAC
Statistics
Matches: 134, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
179 39 0.29
181 22 0.16
182 2 0.01
183 60 0.45
184 11 0.08
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (178 bp):
TTGAAAATACCTCAGCGTGTGATCGAAGCTCAACTCACCACTCGCAATATGAATTGATTTTTTTG
AAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTAATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:89591592 original size:148 final size:147
Alignment explanation
Indices: 89591373--89591910 Score: 700
Period size: 148 Copynumber: 3.6 Consensus size: 147
89591363 AACACAGAAA
* * *
89591373 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
89591436 GCTGATTTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
65 GTTGA--TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
89591501 CTCGCAATATGAGTTGA-TTT
127 CTCGCAATATGAGTTGATTTT
* * * * *
89591521 TTGACGAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
89591584 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
65 GTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
89591649 CGCAATATGAGCTGATTTTT
129 CGCAATATGAGTTGA-TTTT
* *
89591669 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
89591734 GTTGA--TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTGC-TGAGGCTCAACTCACCTA
65 GTTGATTTTTTTGA-AAACAGAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTC
89591796 TCGCAATATGAGTTGATTTTT
128 TCGCAATATGAGTTGA-TTTT
* *
89591817 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
89591882 GTTGA--TTTTTGAAAAGCATAAATTGAAAA
65 GTTGATTTTTTTGAAAA-CAGAAATTGAAAA
89591911 AACGGAAATT
Statistics
Matches: 352, Mismatches: 27, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
146 68 0.19
147 8 0.02
148 234 0.66
149 5 0.01
150 37 0.11
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (147 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTT
Found at i:89591652 original size:75 final size:75
Alignment explanation
Indices: 89591373--89591910 Score: 729
Period size: 75 Copynumber: 7.3 Consensus size: 75
89591363 AACACAGAAA
* * * * *
89591373 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
89591436 GCTGATTTTTTT
66 GTTGA--TTTTT
* *
89591448 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
89591513 GTTGA--TTT
66 GTTGATTTTT
** * * * * *
89591521 TTGACGAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
89591584 GTTGATTTTT
66 GTTGATTTTT
*
89591594 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
89591659 GCTGATTTTT
66 GTTGATTTTT
* *
89591669 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
89591734 GTTGA--TTT
66 GTTGATTTTT
* * * * *
89591742 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTGC-TGAGGCTCAACTCACCTATCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATG
89591806 AGTTGATTTTT
65 AGTTGATTTTT
*
89591817 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
89591882 GTTGA--TTT
66 GTTGATTTTT
* *
89591890 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
89591911 AACGGAAATT
Statistics
Matches: 410, Mismatches: 43, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
71 37 0.09
72 1 0.00
73 136 0.33
74 3 0.01
75 195 0.48
76 1 0.00
77 37 0.09
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:89591803 original size:223 final size:221
Alignment explanation
Indices: 89591373--89591891 Score: 898
Period size: 223 Copynumber: 2.3 Consensus size: 221
89591363 AACACAGAAA
* * * *
89591373 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
89591436 GCTGATTTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
66 GCTGA--TTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
* *
89591501 CTCGCAATATGAGTTGATTTTTGACGAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAAC
129 CTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAAC
89591566 TCACCTATCGCAATATGAGTTGATTTTT
194 TCACCTATCGCAATATGAGTTGATTTTT
89591594 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
89591659 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
89591724 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTGCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCT--TGAGGCTCAAC
89591789 TCACCTATCGCAATATGAGTTGATTTTT
194 TCACCTATCGCAATATGAGTTGATTTTT
* *
89591817 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
89591882 GTTGATTTTT
66 GCTGATTTTT
89591892 GAAAAGCATA
Statistics
Matches: 284, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
221 134 0.47
222 1 0.00
223 149 0.52
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (221 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTC
ACCTATCGCAATATGAGTTGATTTTT
Found at i:89592206 original size:16 final size:15
Alignment explanation
Indices: 89592181--89592228 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
89592171 CTATTTTAAG
89592181 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
89592196 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
89592213 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
89592228 T
1 T
89592229 ATTCTTAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:89593137 original size:19 final size:18
Alignment explanation
Indices: 89593111--89593158 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
89593101 TATTTTGTTA
89593111 TTTATTTTTATTTCATCT
1 TTTATTTTTATTTCATCT
89593129 TTATATTTTTATTTCATCT
1 TT-TATTTTTATTTCATCT
89593148 TTTACTTTTTA
1 TTTA-TTTTTA
89593159 CTTTTTACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTTTATTTCATCT
Found at i:89597234 original size:16 final size:16
Alignment explanation
Indices: 89597209--89597256 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
89597199 CTATTTTAAG
89597209 TTTA-TTTTAATTTTA
1 TTTATTTTTAATTTTA
89597224 TTTATTTTTAATTATTA
1 TTTATTTTTAATT-TTA
*
89597241 -TTATTTTAAATTTTA
1 TTTATTTTTAATTTTA
89597256 T
1 T
89597257 ATTCTTAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.24
16 19 0.66
17 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTTAATTTTA
Found at i:89598150 original size:18 final size:19
Alignment explanation
Indices: 89598127--89598190 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
89598117 TTCCTTTAAA
*
89598127 TTATTTTGT-TATTTATTT
1 TTATTTTATCTATTTATTT
*
89598145 TTATTTTATCTTTTTATTT
1 TTATTTTATCTATTTATTT
*
89598164 TTATTTCATCT-TTTACTTT
1 TTATTTTATCTATTTA-TTT
89598183 TTACTTTT
1 TTA-TTTT
89598191 TACGTTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 12 0.31
19 24 0.62
20 3 0.08
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTTTATCTATTTATTT
Found at i:89598162 original size:19 final size:18
Alignment explanation
Indices: 89598138--89598190 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
89598128 TATTTTGTTA
89598138 TTTATTTTTATTTTATCTT
1 TTTATTTTTATTTTATC-T
*
89598157 TTTATTTTTATTTCATCT
1 TTTATTTTTATTTTATCT
89598175 TTTACTTTTTACTTTT
1 TTTA-TTTTTA-TTTT
89598191 TACGTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 22 0.73
20 3 0.10
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATTTTATCT
Found at i:89608881 original size:22 final size:23
Alignment explanation
Indices: 89608833--89608881 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
89608823 ATATTACATA
**
89608833 TGTATAAAAAATAAAAATTATTT
1 TGTATAAAAAATAAAAATTATAG
89608856 TGTA-AAAAAATATAAAA-TATAG
1 TGTATAAAAAATA-AAAATTATAG
89608878 TGTA
1 TGTA
89608882 GCATTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (23 bp):
TGTATAAAAAATAAAAATTATAG
Found at i:89628253 original size:53 final size:52
Alignment explanation
Indices: 89628101--89628260 Score: 178
Period size: 52 Copynumber: 3.1 Consensus size: 52
89628091 TGACAGAAAA
* * * *
89628101 GATGTGATATGTGCTTCCATATAAGACCATAGCAGGGCTATGGAATCGGTAC
1 GATGTGATATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * * *
89628153 AATGTGATTTGT-ACTCCCCTATAAGACCATAGCTGGGCTATGACATCGGTAT
1 GATGTGATATGTGA-TTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
89628205 GATGTGATAATGTGATTCCGTAAAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAT
89628258 GAT
1 GAT
89628261 ATGTGATCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 49 0.56
53 38 0.43
54 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
GATGTGATATGTGATTCCATATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:89631184 original size:21 final size:21
Alignment explanation
Indices: 89631159--89631215 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
89631149 AACCATATTT
*
89631159 AATACCCTCACCAACATTTTTC
1 AATACCCTAACCAACA-TTTTC
* **
89631181 -ATACACTAACCAGTATTTTC
1 AATACCCTAACCAACATTTTC
*
89631201 AATACCCTTACCAAC
1 AATACCCTAACCAAC
89631216 CTTTACATCG
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (21 bp):
AATACCCTAACCAACATTTTC
Found at i:89631971 original size:33 final size:33
Alignment explanation
Indices: 89631934--89631997 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
89631924 TTTTGTTTGA
*
89631934 TTAAATCAATATT-AAAAAAGAGGTTAGGGTTAG
1 TTAAATCAAGATTAAAAAAAG-GGTTAGGGTTAG
*
89631967 TTAAATTAAGATTAAAAAAAGGGTTAGGGTT
1 TTAAATCAAGATTAAAAAAAGGGTTAGGGTT
89631998 TTCTGATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.31
Consensus pattern (33 bp):
TTAAATCAAGATTAAAAAAAGGGTTAGGGTTAG
Found at i:89636610 original size:13 final size:13
Alignment explanation
Indices: 89636592--89636653 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
89636582 TTTGGCAATA
89636592 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
89636605 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * * *
89636618 ATATGGAAAAATG
1 CTTTTGAAAAGTG
* *
89636631 CTTTTTAGAAGTG
1 CTTTTGAAAAGTG
89636644 CTTTTGAAAA
1 CTTTTGAAAA
89636654 TTTTGGTTTA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:89636874 original size:24 final size:24
Alignment explanation
Indices: 89636839--89636892 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
89636829 TATTTTAATA
*
89636839 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
89636863 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
89636887 TATAAA
1 TATAAA
89636893 ATTTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:89638613 original size:17 final size:18
Alignment explanation
Indices: 89638582--89638615 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
89638572 ATATCATGTA
89638582 TTTTATTTTCATTTTCAC
1 TTTTATTTTCATTTTCAC
*
89638600 TTTT-TTTTCCTTTTCA
1 TTTTATTTTCATTTTCA
89638616 AAGAATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTCATTTTCAC
Found at i:89645685 original size:20 final size:21
Alignment explanation
Indices: 89645657--89645696 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
89645647 GCTATAAATC
*
89645657 CTTATAATTT-TTTTTGTAAA
1 CTTAAAATTTATTTTTGTAAA
89645677 CTTAAAATTTAGTTTTTGTA
1 CTTAAAATTTA-TTTTTGTA
89645697 TTTTGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
CTTAAAATTTATTTTTGTAAA
Found at i:89654565 original size:34 final size:36
Alignment explanation
Indices: 89654494--89654566 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
89654484 ATAGTATGAT
* *
89654494 TTGAAATTTTCTAAATAATGTATTACAAATTTTTTTC
1 TTGAAATTTTCTAAACAA-GTATTACAAATTTATTTC
*
89654531 TTGAAATTTTCTAAACAA-TA-TACAACTTTATTTC
1 TTGAAATTTTCTAAACAAGTATTACAAATTTATTTC
89654565 TT
1 TT
89654567 ATTGAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 14 0.42
35 2 0.06
37 17 0.52
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (36 bp):
TTGAAATTTTCTAAACAAGTATTACAAATTTATTTC
Found at i:89658539 original size:20 final size:20
Alignment explanation
Indices: 89658505--89658542 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89658495 AAGGACACAT
**
89658505 AATTATTCATTTAATATTAC
1 AATTATTCAAGTAATATTAC
89658525 AATTATTCAAGTAATATT
1 AATTATTCAAGTAATATT
89658543 GTTTGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTATTCAAGTAATATTAC
Found at i:89659482 original size:18 final size:18
Alignment explanation
Indices: 89659410--89659482 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 18
89659400 TTTTAGAAAA
*
89659410 TTTTTA-AAATTTTAACT
1 TTTTTATAAATTTTAAAT
* *
89659427 TTTTTATATATTTTTAGAT
1 TTTTTATA-AATTTTAAAT
89659446 TTTTT-TAAATTTTATAAT
1 TTTTTATAAATTTTA-AAT
*
89659464 TTTTTATAAATTATAAAT
1 TTTTTATAAATTTTAAAT
89659482 T
1 T
89659483 ATAAATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 12 0.26
18 14 0.30
19 20 0.43
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTTTATAAATTTTAAAT
Found at i:89661772 original size:14 final size:15
Alignment explanation
Indices: 89661740--89661774 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
89661730 CATTCCTCAA
89661740 CAGAATCAGATCATAT
1 CAGAATCAGAT-ATAT
89661756 CAGAATCAGAT-TAT
1 CAGAATCAGATATAT
89661770 CAGAA
1 CAGAA
89661775 ATATACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
16 11 0.58
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (15 bp):
CAGAATCAGATATAT
Found at i:89671265 original size:17 final size:18
Alignment explanation
Indices: 89671235--89671268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89671225 ACTGTTATTA
*
89671235 TTATTTTTTCTTTCTTTT
1 TTATTTTATCTTTCTTTT
89671253 TTATTTTAT-TTTCTTT
1 TTATTTTATCTTTCTTT
89671269 CTTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (18 bp):
TTATTTTATCTTTCTTTT
Found at i:89671278 original size:26 final size:24
Alignment explanation
Indices: 89671229--89671273 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
89671219 AAGGTTACTG
89671229 TTATTATTATTTTTTCTTTCTTTT
1 TTATTATTATTTTTTCTTTCTTTT
89671253 TTATT-TTA--TTTTCTTTCTTTT
1 TTATTATTATTTTTTCTTTCTTTT
89671274 CTTTTCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (24 bp):
TTATTATTATTTTTTCTTTCTTTT
Found at i:89672070 original size:17 final size:18
Alignment explanation
Indices: 89672050--89672090 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
89672040 TATTTAGTTA
89672050 TTTATTTTAAAG-ATGAT
1 TTTATTTTAAAGTATGAT
*
89672067 TTTA-TTTAATGTATGAT
1 TTTATTTTAAAGTATGAT
89672084 TTTATTT
1 TTTATTT
89672091 AATGTATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 13 0.62
18 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (18 bp):
TTTATTTTAAAGTATGAT
Found at i:89672091 original size:17 final size:17
Alignment explanation
Indices: 89672062--89672097 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
89672052 TATTTTAAAG
89672062 ATGATTTTATTTAATGT
1 ATGATTTTATTTAATGT
89672079 ATGATTTTATTTAATGT
1 ATGATTTTATTTAATGT
89672096 AT
1 AT
89672098 TGTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (17 bp):
ATGATTTTATTTAATGT
Found at i:89674166 original size:31 final size:32
Alignment explanation
Indices: 89674131--89674193 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
89674121 AAATTAATAT
89674131 AAACTTATAACA-ATCATAAAAAA-ATAATAAA
1 AAACTTATAA-ATATCATAAAAAATATAATAAA
* *
89674162 AAACTTATAAATATTATAAAAAATCTAATAAA
1 AAACTTATAAATATCATAAAAAATATAATAAA
89674194 TTTTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 20 0.71
32 7 0.25
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (32 bp):
AAACTTATAAATATCATAAAAAATATAATAAA
Found at i:89674171 original size:11 final size:10
Alignment explanation
Indices: 89674149--89674297 Score: 58
Period size: 10 Copynumber: 15.0 Consensus size: 10
89674139 AACAATCATA
*
89674149 AAAAAATAAT
1 AAAAAATTAT
89674159 AAAAAACTTAT
1 AAAAAA-TTAT
*
89674170 -AAATATTAT
1 AAAAAATTAT
*
89674179 AAAAAA-TCT
1 AAAAAATTAT
* *
89674188 AATAAATTTT
1 AAAAAATTAT
*
89674198 AATAAATTAT
1 AAAAAATTAT
** *
89674208 -AAATCTTTT
1 AAAAAATTAT
89674217 ATAAAAATTAAT
1 A-AAAAATT-AT
*
89674229 GAAAATATT-T
1 -AAAAAATTAT
*
89674239 AAAATATTAT
1 AAAAAATTAT
**
89674249 AAAAACGTAT
1 AAAAAATTAT
* *
89674259 -ACAAATTCTT
1 AAAAAATT-AT
*
89674269 AAAAACTTAT
1 AAAAAATTAT
*
89674279 -AAAAATCAT
1 AAAAAATTAT
89674288 AAAAAATTAT
1 AAAAAATTAT
89674298 TAAGAACATT
Statistics
Matches: 100, Mismatches: 28, Indels: 22
0.67 0.19 0.15
Matches are distributed among these distances:
9 35 0.35
10 44 0.44
11 13 0.13
12 7 0.07
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:89674182 original size:28 final size:29
Alignment explanation
Indices: 89674098--89674182 Score: 68
Period size: 31 Copynumber: 2.9 Consensus size: 29
89674088 AAAAATATAA
* * *
89674098 AATATAAAA-TTAAAAATATTTTAAAATT
1 AATAAAAAACTTATAAATATTATAAAATT
* * *
89674126 AAT-ATAAACTTATAACA-ATCATAAAAAAAT
1 AATAAAAAACTTATAA-ATAT--TATAAAATT
89674156 AATAAAAAACTTATAAATATTATAAAA
1 AATAAAAAACTTATAAATATTATAAAA
89674183 AATCTAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.07
28 10 0.23
29 7 0.16
30 10 0.23
31 13 0.30
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AATAAAAAACTTATAAATATTATAAAATT
Found at i:89674192 original size:21 final size:19
Alignment explanation
Indices: 89674158--89674251 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 19
89674148 AAAAAAATAA
89674158 TAAAAAACTT-ATAAATATT
1 TAAAAAA-TTAATAAATATT
89674177 ATAAAAAATCTAATAAAT-TT
1 -TAAAAAAT-TAATAAATATT
* *
89674197 TAATAAATT-ATAAATCTTT
1 TAAAAAATTAATAAAT-ATT
89674216 TATAAAAATTAATGAAAATATT
1 TA-AAAAATTAAT--AAATATT
*
89674238 TAAAATATT-ATAAA
1 TAAAAAATTAATAAA
89674252 AACGTATACA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
17 6 0.10
18 4 0.06
19 12 0.19
20 18 0.29
21 14 0.23
22 4 0.06
23 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAAAAATTAATAAATATT
Found at i:89674290 original size:19 final size:20
Alignment explanation
Indices: 89674247--89674297 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
89674237 TTAAAATATT
* *
89674247 ATAAAAACGTATACAAATTC
1 ATAAAAACTTATACAAAATC
*
89674267 TTAAAAACTTATA-AAAATC
1 ATAAAAACTTATACAAAATC
*
89674286 ATAAAAAATTAT
1 ATAAAAACTTAT
89674298 TAAGAACATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAAAACTTATACAAAATC
Found at i:89674311 original size:19 final size:20
Alignment explanation
Indices: 89674248--89674311 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
89674238 TAAAATATTA
* *
89674248 TAAAAACGTATACAAATTC-T
1 TAAAAACTTATA-AAAATCAT
89674268 TAAAAACTTATAAAAATCA-
1 TAAAAACTTATAAAAATCAT
* *
89674287 TAAAAAATTATTAAGAA-CAT
1 TAAAAACTTA-TAAAAATCAT
89674307 TAAAA
1 TAAAA
89674312 TCGATACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAAACTTATAAAAATCAT
Found at i:89674885 original size:19 final size:19
Alignment explanation
Indices: 89674835--89674909 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
89674825 ATAGTTCATG
* *
89674835 TTTTTATGATTTTTTAATAA
1 TTTTTATGA-TTTTTATTAT
* * *
89674855 TTTATATCATTTTTATTTT
1 TTTTTATGATTTTTATTAT
*
89674874 ATTTTTAT-ATTTTTCAATAT
1 -TTTTTATGATTTTT-ATTAT
89674894 TTTTTATGATTTTTAT
1 TTTTTATGATTTTTAT
89674910 AAGTTTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 21 0.49
20 22 0.51
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATGATTTTTATTAT
Found at i:89674918 original size:39 final size:40
Alignment explanation
Indices: 89674835--89674919 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 40
89674825 ATAGTTCATG
* **
89674835 TTTTTATGATTTTTTAATAATTTATATCATTTTTATTTTA
1 TTTTTATGATTTTTCAATAATTTATATCATTTTTATAGTA
* * * *
89674875 TTTTTAT-ATTTTTCAATATTTTTTATGATTTTTATAAGTT
1 TTTTTATGATTTTTCAATAATTTATATCATTTTTAT-AGTA
89674915 TTTTT
1 TTTTT
89674920 TTTAAGATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
39 24 0.65
40 13 0.35
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (40 bp):
TTTTTATGATTTTTCAATAATTTATATCATTTTTATAGTA
Found at i:89674937 original size:22 final size:23
Alignment explanation
Indices: 89674893--89674941 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
89674883 TTTTTCAATA
*
89674893 TTTTTTATGATTTTTATAAGTTTT
1 TTTTTTAAGATTTTTAT-AGTTTT
89674917 TTTTTTAAGATTTTTAT-GTTTT
1 TTTTTTAAGATTTTTATAGTTTT
89674939 TTT
1 TTT
89674942 ATCTTTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.33
24 16 0.67
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (23 bp):
TTTTTTAAGATTTTTATAGTTTT
Found at i:89677540 original size:31 final size:30
Alignment explanation
Indices: 89677461--89677547 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
89677451 TTACTAAATC
* *
89677461 AACTTTGATTTGATGCAATTATACACATGA
1 AACTTTGATTTGATTCAATTATATACATGA
* * *
89677491 AACTTTAATTATGATTCAAATATATACTTGA
1 AACTTTGATT-TGATTCAATTATATACATGA
*
89677522 AACTTTGATATTGGTTCAATTATATA
1 AACTTTGAT-TTGATTCAATTATATA
89677548 TAATTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
30 9 0.19
31 37 0.79
32 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (30 bp):
AACTTTGATTTGATTCAATTATATACATGA
Found at i:89680403 original size:18 final size:18
Alignment explanation
Indices: 89680382--89680418 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89680372 TTATTAATTG
89680382 AAAAAAAATAATTATTAA
1 AAAAAAAATAATTATTAA
89680400 AAAAAAAATAATTATTAA
1 AAAAAAAATAATTATTAA
89680418 A
1 A
89680419 TTATTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAAAAATAATTATTAA
Found at i:89682444 original size:9 final size:9
Alignment explanation
Indices: 89682430--89682454 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89682420 TAATTTAAAT
89682430 TTTTAAAAA
1 TTTTAAAAA
89682439 TTTTAAAAA
1 TTTTAAAAA
89682448 TTTTAAA
1 TTTTAAA
89682455 TGGCTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:89682561 original size:31 final size:30
Alignment explanation
Indices: 89682523--89682612 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 30
89682513 GATACCCCCG
* *
89682523 TATATATATAATTAAATCAAAATCAAAATT
1 TATATATATAATTGAATCAAAATAAAAATT
*
89682553 CTATATATATATTTGAATCAAAATAAAAATT
1 -TATATATATAATTGAATCAAAATAAAAATT
* *
89682584 TAATAAATATGATTGAATCAAAACTAAAA
1 T-ATATATATAATTGAATCAAAA-TAAAA
89682613 TACATTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.02
31 45 0.88
32 5 0.10
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (30 bp):
TATATATATAATTGAATCAAAATAAAAATT
Found at i:89691561 original size:5 final size:5
Alignment explanation
Indices: 89691541--89691618 Score: 79
Period size: 5 Copynumber: 15.8 Consensus size: 5
89691531 GTAGTGGATG
* * * *
89691541 ATGAT AGGAC ATGAT ATGAT ATGAT ATGAT ATGTT TTGAT -TCGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT
* *
89691591 ATGAT ACGA- ATGAT ATGAT AAGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
89691619 GTTAGCTTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
4 4 0.07
5 54 0.92
6 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (5 bp):
ATGAT
Found at i:89691875 original size:15 final size:15
Alignment explanation
Indices: 89691834--89691876 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
89691824 GTTTCACACT
* *
89691834 TTTTTGGATTTTGTA
1 TTTTTGGACTTTATA
*
89691849 TGTTTCGGACTTTATA
1 T-TTTTGGACTTTATA
89691865 TTTTTGGACTTT
1 TTTTTGGACTTT
89691877 TAAGGAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (15 bp):
TTTTTGGACTTTATA
Found at i:89694957 original size:26 final size:27
Alignment explanation
Indices: 89694924--89694979 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
89694914 TAAAAAAATT
89694924 AATAAATTTAACCCTTAATATTTA-AA
1 AATAAATTTAACCCTTAATATTTACAA
* **
89694950 AATAAATTTAGCTTTTAATATTTACAA
1 AATAAATTTAACCCTTAATATTTACAA
89694977 AAT
1 AAT
89694980 CCGCTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAAATTTAACCCTTAATATTTACAA
Found at i:89706505 original size:14 final size:14
Alignment explanation
Indices: 89706486--89706512 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89706476 AAAAACTGAT
89706486 TTGTCATTCTCATG
1 TTGTCATTCTCATG
89706500 TTGTCATTCTCAT
1 TTGTCATTCTCAT
89706513 AATTTGGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TTGTCATTCTCATG
Found at i:89712601 original size:18 final size:18
Alignment explanation
Indices: 89712580--89712621 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
89712570 GAAATATTTA
*
89712580 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
89712598 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
89712616 TTTTAA
1 TTTTAA
89712622 AATTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:89713074 original size:51 final size:50
Alignment explanation
Indices: 89713009--89713119 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 50
89712999 AAAAATCATA
* * *
89713009 ATAAAAAAACAATTTTTTATAAAATTAT-AAACATTTGAATTTCAAAAAA-AC
1 ATAAAAATACAATTTTTT-T-AAATTATAAAAAATTAGAATTT-AAAAAATAC
* *
89713060 ATAAAAATATAATTTTTTTAAATTATAAAAAAATTAGAATTTAAAAAATAT
1 ATAAAAATACAATTTTTTTAAATTAT-AAAAAATTAGAATTTAAAAAATAC
89713111 ATAAAAATA
1 ATAAAAATA
89713120 AAAAATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
49 7 0.13
50 7 0.13
51 38 0.73
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (50 bp):
ATAAAAATACAATTTTTTTAAATTATAAAAAATTAGAATTTAAAAAATAC
Found at i:89713121 original size:17 final size:18
Alignment explanation
Indices: 89713078--89713147 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
89713068 ATAATTTTTT
*
89713078 TAAATTATAAAAAA-AT-
1 TAAAATATAAAAAATATA
* *
89713094 TAGAATTTAAAAAATATA
1 TAAAATATAAAAAATATA
89713112 TAAAA-ATAAAAAAT-T-
1 TAAAATATAAAAAATATA
*
89713127 TAAAATTTACAAAAATATA
1 TAAAATATA-AAAAATATA
89713146 TA
1 TA
89713148 TTAAAATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
15 5 0.12
16 14 0.33
17 16 0.38
18 5 0.12
19 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
TAAAATATAAAAAATATA
Found at i:89713121 original size:33 final size:34
Alignment explanation
Indices: 89713084--89713147 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
89713074 TTTTTAAATT
*
89713084 ATAAAAAAATTAGAATTTA-AAAAATATATAAAA
1 ATAAAAAAATTAAAATTTACAAAAATATATAAAA
*
89713117 ATAAAAAATTTAAAATTTACAAAAATATATA
1 ATAAAAAAATTAAAATTTACAAAAATATATA
89713148 TTAAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (34 bp):
ATAAAAAAATTAAAATTTACAAAAATATATAAAA
Found at i:89713675 original size:21 final size:21
Alignment explanation
Indices: 89713649--89713710 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
89713639 ATAATTTGTT
89713649 ATATTTTCATAATTTTATATA
1 ATATTTTCATAATTTTATATA
* * *
89713670 ATATTTTTAT-ATTTTTTACA
1 ATATTTTCATAATTTTATATA
* * *
89713690 TTTTTTTCAAAATTTTATATA
1 ATATTTTCATAATTTTATATA
89713711 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTCATAATTTTATATA
Found at i:89715091 original size:29 final size:29
Alignment explanation
Indices: 89715059--89715115 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
89715049 AGTAGCGTCC
* *
89715059 CCTACTTTTTAGATTTTACAGTTTTGTCT
1 CCTACTTTATAAATTTTACAGTTTTGTCT
*
89715088 CCTACTTTATAAATTTTATAGTTTTGTC
1 CCTACTTTATAAATTTTACAGTTTTGTC
89715116 CAAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (29 bp):
CCTACTTTATAAATTTTACAGTTTTGTCT
Found at i:89723455 original size:17 final size:18
Alignment explanation
Indices: 89723427--89723460 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
89723417 ATTTATATTT
89723427 TAAAAAATATTTATAAAA
1 TAAAAAATATTTATAAAA
*
89723445 TAAAAAA-ATTTCTAAA
1 TAAAAAATATTTATAAA
89723461 TTTTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATATTTATAAAA
Found at i:89723472 original size:26 final size:28
Alignment explanation
Indices: 89723431--89723482 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
89723421 ATATTTTAAA
89723431 AAATATTTATAAAATAA-AAAAATTTCT
1 AAATATTTATAAAATAATAAAAATTTCT
* *
89723458 AAAT-TTTCTAAAATAATAATAATTT
1 AAATATTTATAAAATAATAAAAATTT
89723483 TGGACATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATATTTATAAAATAATAAAAATTTCT
Found at i:89725881 original size:18 final size:17
Alignment explanation
Indices: 89725858--89725895 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
89725848 ACATAATTCT
89725858 AATTTA-TTAATATATCAA
1 AATTTATTTAA-ATAT-AA
89725876 AATTTATTTAAATATAA
1 AATTTATTTAAATATAA
89725893 AAT
1 AAT
89725896 AGTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTATTTAAATATAA
Found at i:89726520 original size:19 final size:19
Alignment explanation
Indices: 89726462--89726521 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
89726452 AAAATTATAA
*
89726462 TTTTAA-AATTTGTATAACTT
1 TTTTAATAATTT-T-TAAATT
* *
89726482 TTTTTAT-ATTTTTATGATT
1 TTTTAATAATTTTTA-AATT
89726501 TTTTAATAATTTTTAAATT
1 TTTTAATAATTTTTAAATT
89726520 TT
1 TT
89726522 AAAAAGGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.06
19 14 0.44
20 16 0.50
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAATAATTTTTAAATT
Found at i:89729653 original size:20 final size:20
Alignment explanation
Indices: 89729618--89729655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89729608 AAAAATTAGG
* *
89729618 AAATATTTTTTTTATTTTTT
1 AAATATTTTATCTATTTTTT
89729638 AAATATTTTATCTATTTT
1 AAATATTTTATCTATTTT
89729656 AATATTCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
AAATATTTTATCTATTTTTT
Found at i:89739415 original size:50 final size:50
Alignment explanation
Indices: 89739291--89739539 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
89739281 GATAATAACA
* * ** * *
89739291 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
89739342 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
89739392 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
89739442 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
89739497 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
89739540 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:89739469 original size:100 final size:104
Alignment explanation
Indices: 89739290--89739539 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
89739280 TGATAATAAC
**
89739290 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
89739355 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
89739392 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
89739455 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
89739497 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
89739540 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:89739655 original size:13 final size:13
Alignment explanation
Indices: 89739634--89739665 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
89739624 GCTTGGATCA
*
89739634 TCATCAAATAAAT
1 TCATAAAATAAAT
89739647 TCATAAAATAAAT
1 TCATAAAATAAAT
89739660 TCATAA
1 TCATAA
89739666 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:89739912 original size:30 final size:30
Alignment explanation
Indices: 89739877--89739934 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
89739867 CCTCGACTCT
*
89739877 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
89739907 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
89739935 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:89747002 original size:49 final size:50
Alignment explanation
Indices: 89746881--89747126 Score: 284
Period size: 49 Copynumber: 4.8 Consensus size: 50
89746871 GATAATAACA
* ** * *
89746881 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* *
89746932 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
89746981 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
89747031 TGCCCATGCCATGT-CCAGACATGGTCTTACA-GGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
89747084 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
89747127 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 17, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
48 11 0.07
49 53 0.32
50 32 0.19
51 31 0.18
52 1 0.01
53 2 0.01
54 13 0.08
55 17 0.10
56 8 0.05
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:89747105 original size:104 final size:100
Alignment explanation
Indices: 89746880--89747126 Score: 338
Period size: 104 Copynumber: 2.4 Consensus size: 100
89746870 TGATAATAAC
**
89746880 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
89746945 TCCCAGACATGGTCTTATAGGGACCTCTCATCTCGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCATCTAGG
* *
89746981 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
89747044 T-CCAGACATGGTCTTACAGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGACCTCTC---ATC-T-AGG
* *
89747084 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
89747127 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 27 0.21
99 22 0.17
100 36 0.27
101 3 0.02
102 1 0.01
103 2 0.02
104 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (100 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGACCTCTCATCTAGG
Found at i:89747242 original size:13 final size:13
Alignment explanation
Indices: 89747221--89747252 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
89747211 GCTTGGATCA
*
89747221 TCATCAAATAAAT
1 TCATAAAATAAAT
89747234 TCATAAAATAAAT
1 TCATAAAATAAAT
89747247 TCATAA
1 TCATAA
89747253 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:89747498 original size:30 final size:30
Alignment explanation
Indices: 89747463--89747520 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
89747453 CCTCGACTCT
*
89747463 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
89747493 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
89747521 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:89750726 original size:29 final size:30
Alignment explanation
Indices: 89750676--89750743 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
89750666 TGGCCCAAGA
* * *
89750676 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
89750706 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
89750736 GAAAATAT
1 GTAAATAT
89750744 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.50, C:0.04, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:89753203 original size:46 final size:46
Alignment explanation
Indices: 89753152--89753429 Score: 353
Period size: 46 Copynumber: 6.0 Consensus size: 46
89753142 GTGTGCTCTC
** *
89753152 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
89753198 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
89753244 TGATATAAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
89753290 TGACGA-GAAATGAATAAGACCATGGTTGAAAGATAACATGGCAACG
1 TGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
89753336 TGATATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
89753382 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
89753428 TG
1 TG
89753430 TCAAAGATAA
Statistics
Matches: 206, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 203 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:89753309 original size:92 final size:91
Alignment explanation
Indices: 89753152--89753414 Score: 391
Period size: 92 Copynumber: 2.9 Consensus size: 91
89753142 GTGTGCTCTC
** * * *
89753152 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAGTAAGA
*
89753217 CCATGGTTGAAAGATACCATGACAACG
65 CCATGGTTGAAAGATAACATGACAACG
* * *
89753244 TGATATAAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACATGACGAGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAGTAAGA
*
89753309 CCATGGTTGAAAGATAACATGGCAACG
65 CCATGGTTGAAAGATAACATGACAACG
*
89753336 TGATATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAGTAAGA
*
89753401 CCATAGTTGAAAGA
65 CCATGGTTGAAAGA
89753415 CACTATGGCA
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
91 2 0.01
92 151 0.98
93 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (91 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAGTAAGAC
CATGGTTGAAAGATAACATGACAACG
Found at i:89753410 original size:138 final size:138
Alignment explanation
Indices: 89753166--89753429 Score: 402
Period size: 138 Copynumber: 1.9 Consensus size: 138
89753156 ATGAAATGTG
* **
89753166 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATAACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
* * * * *
89753231 TACCATGACAACGTGATATAAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACATGACGA
66 TACCATGACAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGA
89753296 GAAATGAA
131 GAAATGAA
*
89753304 TAAGACCATGGTTGAAAGATAACATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATAACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
* * * * *
89753369 TATCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGACAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
89753430 TCAAAGATAA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 112 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATAACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGACAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGA
GAAATGAA
Found at i:89753731 original size:16 final size:17
Alignment explanation
Indices: 89753710--89753742 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89753700 ATGATGGAGC
89753710 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
89753726 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
89753743 TACTTATGAA
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:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:89755200 original size:3 final size:3
Alignment explanation
Indices: 89755192--89755222 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
89755182 GATTTAAGAA
89755192 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
89755223 TTTTGCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:89757027 original size:9 final size:9
Alignment explanation
Indices: 89757008--89757040 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
89756998 ATTATTATAT
89757008 ATTTAATTTG
1 ATTT-ATTTG
89757018 ATTTATTTG
1 ATTTATTTG
89757027 ATTTATTT-
1 ATTTATTTG
89757035 ATTTAT
1 ATTTAT
89757041 AAATAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.26
9 13 0.57
10 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (9 bp):
ATTTATTTG
Found at i:89757199 original size:19 final size:20
Alignment explanation
Indices: 89757175--89757216 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
89757165 CAAACATCAG
89757175 AAAAGTAAATCA-TTTTTAA
1 AAAAGTAAATCATTTTTTAA
89757194 AAAAGTAAATCATTTTTTAA
1 AAAAGTAAATCATTTTTTAA
89757214 AAA
1 AAA
89757217 TTATTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAGTAAATCATTTTTTAA
Found at i:89759972 original size:21 final size:20
Alignment explanation
Indices: 89759929--89759973 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
89759919 AGAAATAAGG
***
89759929 TTGTTGTTCTTCTCTTTTCC
1 TTGTTGTTCTTCTCTTAAAC
89759949 TTGTTGTTTCTTCTCTTAAAC
1 TTGTTG-TTCTTCTCTTAAAC
89759970 TTGT
1 TTGT
89759974 AGAAGAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.07, C:0.20, G:0.11, T:0.62
Consensus pattern (20 bp):
TTGTTGTTCTTCTCTTAAAC
Found at i:89765952 original size:201 final size:201
Alignment explanation
Indices: 89765599--89766199 Score: 758
Period size: 202 Copynumber: 3.0 Consensus size: 201
89765589 ATGTGGTTGA
* * * *
89765599 AACCCATAACAAGATATGATTGTATGAATATTCATGGTGATAGCTTCGGTAATATGTAAACCAGA
1 AACCCATGACAAGATATGATTGTATGAATATTTATGGTGATGGCTTC-GTAATATGTAAACCGGA
* * * * *
89765664 CTAGTAGATCACGACATGAAAATATGTATAAGTCTATAAGGAAAATAACCATAGCACCTTTTGTG
65 CTAGCAGATCACGACATGAAAATATGTATAAGTCCATAAGGAAGATACCCATAGCGCCTTTTGTG
* * * *
89765729 AAAGTCCATTGGGACTGTAAACATGTGATTTTGTATG-TGGCCTGTGTGTCGTAATCTACTAAGC
130 AAAGTCCATCGGGACAGTAAACACGTGATTTTGTATGATGGCCTGTGTGGCGTAATCTACTAAGC
* *
89765793 TTTTTGG
195 CTTCTGG
* * * * *
89765800 GACCCATGACAAGATATGACTATATGAATATTTATGGTGATGGCTTCTGTAATATGTAAGCTGGA
1 AACCCATGACAAGATATGATTGTATGAATATTTATGGTGATGGCTTC-GTAATATGTAAACCGGA
* *
89765865 CTAGCAGATCACGACATGAACATATGTATAAGTCCATAAGGAAGATACCCATAGCGCCTTTTATG
65 CTAGCAGATCACGACATGAAAATATGTATAAGTCCATAAGGAAGATACCCATAGCGCCTTTTGTG
** * * * *
89765930 AAAGTCTGTCGGGACAGTAAACACGTAATTTTGTATGATGGCATGTGTGGCATAATCTAATAAGC
130 AAAGTCCATCGGGACAGTAAACACGTGATTTTGTATGATGGCCTGTGTGGCGTAATCTACTAAGC
89765995 CTTCTGG
195 CTTCTGG
* *
89766002 AACCCATGACAAGATATGATTGTATGAATATTCT-TGGTGATGGCTTCGATAATATGCAAACCGA
1 AACCCATGACAAGATATGATTGTATGAATATT-TATGGTGATGGCTTCG-TAATATGTAAACCGG
* * * * *
89766066 ATTGGCAGATCACAACATGAAAATGTGTATAAGTCCATGAAAG-AGATACCCATAGCGCCTTTTG
64 ACTAGCAGATCACGACATGAAAATATGTATAAGTCCAT-AAGGAAGATACCCATAGCGCCTTTTG
* ** * * * *
89766130 TGAAAGTCCACCAAGATAATAAACACGTGATTTTGTATGATGGTCTGTGTGGCGTAATCTGCTAA
128 TGAAAGTCCATCGGGACAGTAAACACGTGATTTTGTATGATGGCCTGTGTGGCGTAATCTACTAA
89766195 GCCTT
193 GCCTT
89766200 TGTGGCGTAT
Statistics
Matches: 340, Mismatches: 56, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
201 145 0.43
202 191 0.56
203 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (201 bp):
AACCCATGACAAGATATGATTGTATGAATATTTATGGTGATGGCTTCGTAATATGTAAACCGGAC
TAGCAGATCACGACATGAAAATATGTATAAGTCCATAAGGAAGATACCCATAGCGCCTTTTGTGA
AAGTCCATCGGGACAGTAAACACGTGATTTTGTATGATGGCCTGTGTGGCGTAATCTACTAAGCC
TTCTGG
Found at i:89770098 original size:20 final size:19
Alignment explanation
Indices: 89770075--89770136 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
89770065 AAATTTATAG
89770075 AATAATTATAGAATTATAAA
1 AATAATTATA-AATTATAAA
*
89770095 AATATATT-TAAATTTATATA
1 AATA-ATTATAAA-TTATAAA
*
89770115 AATCATTATAAAATTCATAAA
1 AATAATTAT-AAATT-ATAAA
89770136 A
1 A
89770137 GAAAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 5 0.15
20 18 0.53
21 11 0.32
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
AATAATTATAAATTATAAA
Found at i:89772607 original size:69 final size:69
Alignment explanation
Indices: 89772496--89772635 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
89772486 AGGGCTACGA
* *
89772496 GTATAACTATAGGTATGGCGATGGCCTAGTGTGAATATGACTTGTTTGGGTTTATATATATATAT
1 GTATAACCATAGGTATGGCGATGGCCTAGTGTGAATATGACTTGTTTGGGTTTATATAAATATAT
89772561 GAGG
66 GAGG
*
89772565 GTATAACCATAGGTATGGTGATGGCCTAGTGTGAATATGACTTGTTTGGGTTTATATAAATATAT
1 GTATAACCATAGGTATGGCGATGGCCTAGTGTGAATATGACTTGTTTGGGTTTATATAAATATAT
89772630 GAGG
66 GAGG
89772634 GT
1 GT
89772636 TAATATGGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (69 bp):
GTATAACCATAGGTATGGCGATGGCCTAGTGTGAATATGACTTGTTTGGGTTTATATAAATATAT
GAGG
Found at i:89774607 original size:14 final size:14
Alignment explanation
Indices: 89774588--89774614 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89774578 TTCAGTTCAC
89774588 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
89774602 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
89774615 CCTACTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:89808444 original size:85 final size:85
Alignment explanation
Indices: 89808301--89808465 Score: 294
Period size: 85 Copynumber: 1.9 Consensus size: 85
89808291 ACCATATAAG
* *
89808301 AGAAGCAACATAATACCAAAGAGAAAAGCACAATTGTCATCATAAATAACCTTTTGAATCTCAGG
1 AGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTCAGG
89808366 AGTTATATGTCCAATACAAA
66 AGTTATATGTCCAATACAAA
* *
89808386 AGAAGCAACATAATACCAAAGAGAAAAACATAATTGCCATCATAAATCACCTTTTGAATCTCAGG
1 AGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTCAGG
89808451 AGTTATATGTCCAAT
66 AGTTATATGTCCAAT
89808466 CCTATCCTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (85 bp):
AGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTCAGG
AGTTATATGTCCAATACAAA
Found at i:89823903 original size:21 final size:22
Alignment explanation
Indices: 89823879--89823919 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
89823869 TTTTTTTTCA
*
89823879 TTTGCTTCTGATTTT-ATTTAT
1 TTTGATTCTGATTTTGATTTAT
*
89823900 TTTGATTTTGATTTTGATTT
1 TTTGATTCTGATTTTGATTT
89823920 TCATGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (22 bp):
TTTGATTCTGATTTTGATTTAT
Found at i:89828846 original size:21 final size:20
Alignment explanation
Indices: 89828816--89828854 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
89828806 TTTAATTTTT
89828816 AAAAACTTAAAAATTCATTTA
1 AAAAACTTAAAAA-TCATTTA
*
89828837 AAAAATTTAAAAATCATT
1 AAAAACTTAAAAATCATT
89828855 AAATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAACTTAAAAATCATTTA
Found at i:89836443 original size:25 final size:25
Alignment explanation
Indices: 89836412--89836464 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
89836402 TTGTTGTCAA
89836412 TTATTCCATTTTTGTGCCCTTGTTC
1 TTATTCCATTTTTGTGCCCTTGTTC
89836437 TTATTCCATTTTTGTGCCCTTGTTC
1 TTATTCCATTTTTGTGCCCTTGTTC
89836462 TTA
1 TTA
89836465 ATCTTGTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.09, C:0.23, G:0.11, T:0.57
Consensus pattern (25 bp):
TTATTCCATTTTTGTGCCCTTGTTC
Found at i:89839118 original size:19 final size:20
Alignment explanation
Indices: 89839090--89839133 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
89839080 AGAAACTTAA
89839090 AAAAATATAATTATAAAATT
1 AAAAATATAATTATAAAATT
*
89839110 AAAAA-ATAATTATAAACTT
1 AAAAATATAATTATAAAATT
89839129 AAAAA
1 AAAAA
89839134 CAATGAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATATAATTATAAAATT
Found at i:89841157 original size:25 final size:26
Alignment explanation
Indices: 89841129--89841177 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
89841119 AGCCTGTTTC
89841129 CCTA-AATAAAAAAATGACCTTTAGA
1 CCTATAATAAAAAAATGACCTTTAGA
* *
89841154 CCTATATTAAAAAAATGGCCTTTA
1 CCTATAATAAAAAAATGACCTTTA
89841178 AAACTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (26 bp):
CCTATAATAAAAAAATGACCTTTAGA
Found at i:89844371 original size:26 final size:25
Alignment explanation
Indices: 89844325--89844377 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
89844315 TCATGATATA
*
89844325 TATATTATTTTTATCACTATTATTTT
1 TATATTATATTTATCACTATT-TTTT
*
89844351 TATATTATATTTAGTTA-TATTTTTT
1 TATATTATATTTA-TCACTATTTTTT
89844376 TA
1 TA
89844378 AATATTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 16 0.67
27 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
TATATTATATTTATCACTATTTTTT
Found at i:89844420 original size:3 final size:3
Alignment explanation
Indices: 89844412--89844450 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
89844402 ATGCATATAT
*
89844412 TTA TTA TTA TTA TTA TTA -TA TTTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
89844451 GTACTAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:89844431 original size:21 final size:21
Alignment explanation
Indices: 89844407--89844450 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
89844397 ATAATATGCA
*
89844407 TATATTTATTATTATTATTAT
1 TATATTTATTATTAATATTAT
89844428 TATATTTATTATTAATATTAT
1 TATATTTATTATTAATATTAT
89844449 TA
1 TA
89844451 GTACTAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATTTATTATTAATATTAT
Found at i:89844586 original size:23 final size:22
Alignment explanation
Indices: 89844529--89844589 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
89844519 ATAGTTTTTT
89844529 TATATTGT-TATCATTTCTAATA
1 TATATTGTATAT-ATTTCTAATA
*
89844551 TATATTGTATATATTTTTAATA
1 TATATTGTATATATTTCTAATA
*
89844573 TATTTATGTATATATTT
1 TATAT-TGTATATATTT
89844590 ATGTAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (22 bp):
TATATTGTATATATTTCTAATA
Found at i:89844587 original size:12 final size:12
Alignment explanation
Indices: 89844556--89844594 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
89844546 TAATATATAT
89844556 TGTATATATTT-
1 TGTATATATTTA
89844567 T-TAATATATTTA
1 TGT-ATATATTTA
89844579 TGTATATATTTA
1 TGTATATATTTA
89844591 TGTA
1 TGTA
89844595 GTTTTCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.04
11 9 0.36
12 14 0.56
13 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (12 bp):
TGTATATATTTA
Found at i:89844689 original size:26 final size:25
Alignment explanation
Indices: 89844641--89844707 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
89844631 TTCTTCTATG
89844641 TATA-TATTATAT-TTTTTTAATAC
1 TATATTATTATATATTTTTTAATAC
89844664 TATATCTATTATATATTTTTTAATAC
1 TATAT-TATTATATATTTTTTAATAC
89844690 TATATTATGTATATATTT
1 TATATTAT-TATATATTT
89844708 CCACACATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.10
25 11 0.28
26 25 0.62
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (25 bp):
TATATTATTATATATTTTTTAATAC
Found at i:89844801 original size:24 final size:24
Alignment explanation
Indices: 89844774--89844854 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
89844764 CTATCATATG
89844774 TATTATTTTCAATATATTTGTTAT
1 TATTATTTTCAATATATTTGTTAT
* *
89844798 TATTATTTATCACTTTATTT-TAATAT
1 TATTATTT-TCAATATATTTGT--TAT
*
89844824 TATTA-TTTC-ATCATACTTGTTTAT
1 TATTATTTTCAAT-ATATTTG-TTAT
89844848 TATTATT
1 TATTATT
89844855 ATTATTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 23 0.51
25 12 0.27
26 9 0.20
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTTTCAATATATTTGTTAT
Found at i:89844951 original size:3 final size:3
Alignment explanation
Indices: 89844844--89844937 Score: 50
Period size: 3 Copynumber: 31.0 Consensus size: 3
89844834 TCATACTTGT
* * * * * **
89844844 TTA TTA TTA TTA TTA TTA TTA TTA GTA GTA GTA TTA TCA TCA TTA ACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
89844892 TT- TATA TATA TTT TTA TGTA CATA TTA TTA TT- TTA -TA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
89844938 CCAAATATAT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
2 5 0.07
3 59 0.81
4 9 0.12
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:89857163 original size:90 final size:90
Alignment explanation
Indices: 89857002--89857415 Score: 464
Period size: 90 Copynumber: 4.6 Consensus size: 90
89856992 CGCTGAGGTA
* * * * *
89857002 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCGGGCCATA
1 TTTTCAATTTCTGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACA
89857067 TGCCAAGGTATTTTCAAAATTTCGT
66 TGCCAAGGTATTTTCAAAATTTCGT
* * *
89857092 TTTTCAATTTCTGTTTTCGAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGCCACA
1 TTTTCAATTTCTGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACA
* *
89857157 TTCCAAGGTATTTTCAAAATTCCGT
66 TGCCAAGGTATTTTCAAAATTTCGT
* *
89857182 TTTTCAATTTCTGTTTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG--A
1 TTTTCAATTTCTG-TT-TTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCA
* ** *
89857245 CACGCTGAGGTATTTTC--AATTTCTATT
64 CATGCCAAGGTATTTTCAAAATTTC--GT
* * * * *
89857272 TTTTCAATTTATATCTTT-CAAAAATCTACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTGT-TTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCAC
* * *
89857336 ATGTCGAGGTATTTTCAAAATTT-GC
65 ATGCCAAGGTATTTTCAAAATTTCGT
** *** *
89857361 TTTTCAAAAT-TAAATTCCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTCTGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
89857416 TGGCTCACGT
Statistics
Matches: 279, Mismatches: 35, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
87 2 0.01
88 81 0.29
89 11 0.04
90 138 0.49
91 2 0.01
92 45 0.16
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (90 bp):
TTTTCAATTTCTGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACA
TGCCAAGGTATTTTCAAAATTTCGT
Found at i:89859139 original size:68 final size:68
Alignment explanation
Indices: 89859067--89859214 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
89859057 CATCATGTGT
* * * *
89859067 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
89859130 TGTAG
64 TGTAG
* ** * *
89859135 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
89859198 GTAG
65 GTAG
89859202 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
89859215 GAGATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.05
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:89859171 original size:64 final size:64
Alignment explanation
Indices: 89859016--89859262 Score: 187
Period size: 68 Copynumber: 3.8 Consensus size: 64
89859006 TGGATGATAC
* ** * * *
89859016 AGATAATATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTA
1 AGATAA-ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
89859079 CAAG
63 C--G
* * * *
89859083 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAT
1 AGA-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
89859148 G
64 G
* * * * * * *
89859149 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
89859214 CG
63 CG
* * *
89859216 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 AGATAAATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
89859263 GTATAAGAGA
Statistics
Matches: 142, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
63 9 0.06
64 25 0.18
65 2 0.01
66 23 0.16
67 35 0.25
68 47 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (64 bp):
AGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:89861201 original size:44 final size:44
Alignment explanation
Indices: 89861135--89861328 Score: 334
Period size: 44 Copynumber: 4.4 Consensus size: 44
89861125 CAGATTTGGC
* *
89861135 CTCCCTGAAGTTGCAGTAGAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
* *
89861179 CTCCCTGAAATTACAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
1 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
*
89861223 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
89861267 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
1 CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
*
89861311 CTCCCTAAAGTTGCAGTG
1 CTCCCTGAAGTTGCAGTG
89861329 AAGCTGATCG
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 141 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGGTCAAAGTTGCAAGTCTTGA
Found at i:89862956 original size:11 final size:11
Alignment explanation
Indices: 89862940--89863051 Score: 50
Period size: 10 Copynumber: 10.7 Consensus size: 11
89862930 TTTTTATCAC
*
89862940 TATTATTTTTA
1 TATTATTATTA
89862951 TATTATTA-T-
1 TATTATTATTA
89862960 TATTA-TATTA
1 TATTATTATTA
89862970 TA-T-TTAGTTA
1 TATTATTA-TTA
89862980 TATT-TT-TTA
1 TATTATTATTA
* *
89862989 AAATATT-TT-
1 TATTATTATTA
89862998 T-TT-TCTATTA
1 TATTAT-TATTA
*
89863008 TATGCATATATT-
1 TAT-TAT-TATTA
89863020 TATTATTATTA
1 TATTATTATTA
89863031 TATTTATTATTAA
1 TA-TTATTATT-A
89863044 TATTATTA
1 TATTATTA
89863052 GTACTAGTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 16 0.21
10 17 0.22
11 15 0.19
12 17 0.22
13 8 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATTATTA
Found at i:89862957 original size:14 final size:14
Alignment explanation
Indices: 89862920--89862974 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
89862910 ATTATTCATG
89862920 ATATATATTATTTTT
1 ATAT-TATTATTTTT
*
89862935 ATCACTATTATTTTT
1 AT-ATTATTATTTTT
*
89862950 ATATTATTATTATT
1 ATATTATTATTTTT
89862964 ATATTA-TATTT
1 ATATTATTATTT
89862975 AGTTATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 4 0.11
14 16 0.46
15 14 0.40
16 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:89863034 original size:15 final size:15
Alignment explanation
Indices: 89863014--89863042 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89863004 ATTATATGCA
89863014 TATATTTATTATTAT
1 TATATTTATTATTAT
89863029 TATATTTATTATTA
1 TATATTTATTATTA
89863043 ATATTATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:89863170 original size:24 final size:24
Alignment explanation
Indices: 89863135--89863193 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
89863125 TTTTTTTATG
89863135 TTGT-TATCATTTCTAATATATATA
1 TTGTATAT-ATTTCTAATATATATA
* *
89863159 TTGTATATATTTTTAATATATTTA
1 TTGTATATATTTCTAATATATATA
89863183 -TGTATATATTT
1 TTGTATATATTT
89863194 ATGTAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 11 0.34
24 18 0.56
25 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (24 bp):
TTGTATATATTTCTAATATATATA
Found at i:89863271 original size:16 final size:15
Alignment explanation
Indices: 89863250--89863284 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
89863240 CTATATATAT
89863250 TATATTTTTTTAATAC
1 TATA-TTTTTTAATAC
89863266 TATA-TTTTTAATAC
1 TATATTTTTTAATAC
89863280 TATAT
1 TATAT
89863285 ATATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.78
16 4 0.22
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTTTTTAATAC
Found at i:89863275 original size:14 final size:14
Alignment explanation
Indices: 89863256--89863304 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
89863246 ATATTATATT
89863256 TTTTTAATACTATA
1 TTTTTAATACTATA
89863270 TTTTTAATACTATA
1 TTTTTAATACTATA
*
89863284 TATATT-ATA-TATA
1 T-TTTTAATACTATA
89863297 -TTTTAATA
1 TTTTTAATA
89863305 TTATGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 3 0.10
12 3 0.10
13 4 0.13
14 18 0.58
15 3 0.10
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:89863304 original size:26 final size:25
Alignment explanation
Indices: 89863266--89863314 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
89863256 TTTTTAATAC
89863266 TATATTTTTAATACTATATATATTA
1 TATATTTTTAATACTATATATATTA
* *
89863291 TATATATTTTAATATTATGTATAT
1 TATAT-TTTTAATACTATATATAT
89863315 ATTTCCACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATACTATATATATTA
Found at i:89863584 original size:3 final size:3
Alignment explanation
Indices: 89863454--89863570 Score: 105
Period size: 3 Copynumber: 38.7 Consensus size: 3
89863444 ATCATACTTG
*
89863454 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
89863502 TAT TAG TAT TAT CAT CAT TAA CAT T-T ATAT ATAT TTT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT -TA-T TAT
89863550 TAT TAT T-T TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
89863571 CCAAATATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
2 5 0.05
3 80 0.85
4 9 0.10
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:89867178 original size:42 final size:43
Alignment explanation
Indices: 89867050--89867194 Score: 224
Period size: 43 Copynumber: 3.4 Consensus size: 43
89867040 GATAAATCCC
* * *
89867050 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
89867091 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
89867134 GCAGGCTTAGTGCCGGTGATGTGTATT-GGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
89867176 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
89867195 AATGATATGT
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
41 15 0.15
42 34 0.35
43 48 0.49
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:89871724 original size:16 final size:16
Alignment explanation
Indices: 89871703--89871741 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
89871693 TTGAAGAAAT
89871703 TTTACTTTTGGAAAGA
1 TTTACTTTTGGAAAGA
89871719 TTTACTTTTGGAAAGA
1 TTTACTTTTGGAAAGA
89871735 TTTACTT
1 TTTACTT
89871742 AAAATTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (16 bp):
TTTACTTTTGGAAAGA
Found at i:89873938 original size:15 final size:15
Alignment explanation
Indices: 89873914--89874000 Score: 54
Period size: 15 Copynumber: 5.7 Consensus size: 15
89873904 CAAACAAAAC
89873914 AAAGAAAGAAAGAAA
1 AAAGAAAGAAAGAAA
*
89873929 AAAGATAGAAAGAAA
1 AAAGAAAGAAAGAAA
* *
89873944 CAAACAGAGAAAGCAAA
1 -AAAGAAAGAAAG-AAA
**
89873961 ACAA-AACAGAAAG-GG
1 A-AAGAA-AGAAAGAAA
89873976 AAAGAAAGAAA-AAA
1 AAAGAAAGAAAGAAA
*
89873990 AGGAGAAAGAA
1 A-AAGAAAGAA
89874001 GGAGATGAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
14 8 0.14
15 25 0.45
16 12 0.21
17 11 0.20
ACGTcount: A:0.71, C:0.06, G:0.22, T:0.01
Consensus pattern (15 bp):
AAAGAAAGAAAGAAA
Found at i:89873969 original size:19 final size:18
Alignment explanation
Indices: 89873905--89873970 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
89873895 ATAATAAAAC
*
89873905 AAACAAAACAAAGAAAGA
1 AAACAAAACAGAGAAAGA
* * *
89873923 AAGAAAAAAGATAGAAAG-
1 AA-ACAAAACAGAGAAAGA
89873941 AAAC-AAACAGAGAAAGCA
1 AAACAAAACAGAGAAAG-A
89873959 AAACAAAACAGA
1 AAACAAAACAGA
89873971 AAGGGAAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
16 10 0.26
17 1 0.03
18 8 0.21
19 19 0.50
ACGTcount: A:0.73, C:0.11, G:0.15, T:0.02
Consensus pattern (18 bp):
AAACAAAACAGAGAAAGA
Found at i:89873989 original size:23 final size:23
Alignment explanation
Indices: 89873929--89873989 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 23
89873919 AAGAAAGAAA
*
89873929 AAAGATAGAAAGAAACAAACAGAG
1 AAAGAAAGAAA-AAACAAACAGAG
* *
89873953 AAAGCAAA-ACAAAACAGAA-AGGG
1 AAAG-AAAGAAAAAACA-AACAGAG
89873976 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
89873990 AGGAGAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.10
23 17 0.57
24 8 0.27
25 2 0.07
ACGTcount: A:0.70, C:0.08, G:0.20, T:0.02
Consensus pattern (23 bp):
AAAGAAAGAAAAAACAAACAGAG
Found at i:89876994 original size:29 final size:29
Alignment explanation
Indices: 89876943--89877021 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
89876933 TAAATTAAAA
* * *
89876943 TAAAAAGATAAAATTAT-ATTTTATCCTCT
1 TAAAAATATAAAAATATAATTTAATCCT-T
* *
89876972 TAAAAATATAAAAAAATAATTTAATTCTT
1 TAAAAATATAAAAATATAATTTAATCCTT
*
89877001 TAAATATTATAAAAATATAAT
1 TAAA-AATATAAAAATATAAT
89877022 ATATTAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.39
Consensus pattern (29 bp):
TAAAAATATAAAAATATAATTTAATCCTT
Found at i:89877027 original size:18 final size:19
Alignment explanation
Indices: 89877004--89877045 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
89876994 AATTCTTTAA
*
89877004 ATATTATAAA-AATATAA-T
1 ATATTA-AAATAATAAAATT
89877022 ATATTAAAATAATAAAATT
1 ATATTAAAATAATAAAATT
89877041 ATATT
1 ATATT
89877046 TTTTATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.57
19 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATTAAAATAATAAAATT
Found at i:89886550 original size:22 final size:20
Alignment explanation
Indices: 89886515--89886567 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
89886505 ATAAAAATTT
*
89886515 TAAAAAATAAATAAAAGAAA
1 TAAAAAATAAATAAAACAAA
*
89886535 TAAAAATATTAAATAAAACACA
1 TAAAAA-A-TAAATAAAACAAA
89886557 TAAAATAATAA
1 TAAAA-AATAA
89886568 TAACAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 17 0.61
23 1 0.04
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
TAAAAAATAAATAAAACAAA
Found at i:89888532 original size:16 final size:16
Alignment explanation
Indices: 89888511--89888548 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
89888501 TCCGATGAAC
89888511 TTCCAACCGATTGAGA
1 TTCCAACCGATTGAGA
* *
89888527 TTCCAACCGGTTGAGC
1 TTCCAACCGATTGAGA
89888543 TTCCAA
1 TTCCAA
89888549 ATATCTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (16 bp):
TTCCAACCGATTGAGA
Found at i:89892671 original size:21 final size:20
Alignment explanation
Indices: 89892635--89892682 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
89892625 AAATAGTGAG
*
89892635 AATT-TATTTTCTAAATATA
1 AATTCTATTTTCTAAATAAA
*
89892654 AATTCTATTTTTTGAAATAAA
1 AATTCTATTTTCT-AAATAAA
89892675 AATTCTAT
1 AATTCTAT
89892683 CAGTTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 7 0.28
21 14 0.56
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTCTATTTTCTAAATAAA
Found at i:89895595 original size:50 final size:50
Alignment explanation
Indices: 89895536--89895632 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
89895526 TCAATCGAAT
89895536 TACAAAATGTTAAACCATTTGTCTGATAAATATATATTATTGAGAGGAAG
1 TACAAAATGTTAAACCATTTGTCTGATAAATATATATTATTGAGAGGAAG
89895586 TACAAAATGTTAAACCATTTGTCTGATAAATATATATTATTGAGAGG
1 TACAAAATGTTAAACCATTTGTCTGATAAATATATATTATTGAGAGG
89895633 GATGAGAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.35
Consensus pattern (50 bp):
TACAAAATGTTAAACCATTTGTCTGATAAATATATATTATTGAGAGGAAG
Found at i:89897106 original size:4 final size:4
Alignment explanation
Indices: 89897097--89897124 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
89897087 GACCACCGGG
89897097 GCTA GCTA GCTA GCTA GCTA GCTA GCTA
1 GCTA GCTA GCTA GCTA GCTA GCTA GCTA
89897125 ATTATGCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (4 bp):
GCTA
Found at i:89909455 original size:20 final size:19
Alignment explanation
Indices: 89909397--89909468 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 19
89909387 TTTATCAAAT
*
89909397 ATATTTAAATTATTTATT-
1 ATATTAAAATTATTTATTA
* *
89909415 ATATT-TAA-TACTTAATTA
1 ATATTAAAATTA-TTTATTA
89909433 ATATTAAAATTATTTATTTA
1 ATATTAAAATTATTTA-TTA
*
89909453 ATATTTAAATTTATTT
1 ATA-TTAAAATTATTT
89909469 CAATCCAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.05
17 7 0.16
18 10 0.23
19 5 0.12
20 8 0.19
21 11 0.26
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTAAAATTATTTATTA
Found at i:89909466 original size:21 final size:20
Alignment explanation
Indices: 89909397--89909468 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
89909387 TTTATCAAAT
*
89909397 ATATTTAAATTATTTA-TT-
1 ATATTAAAATTATTTATTTA
* * *
89909415 ATATT-TAA-TACTTAATTA
1 ATATTAAAATTATTTATTTA
89909433 ATATTAAAATTATTTATTTA
1 ATATTAAAATTATTTATTTA
*
89909453 ATATTTAAATTTATTT
1 ATA-TTAAAATTATTT
89909469 CAATCCAAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 5 0.12
17 4 0.09
18 10 0.23
19 2 0.05
20 11 0.26
21 11 0.26
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTAAAATTATTTATTTA
Found at i:89910580 original size:96 final size:94
Alignment explanation
Indices: 89910416--89910696 Score: 365
Period size: 96 Copynumber: 3.0 Consensus size: 94
89910406 CCAGAATTAT
*
89910416 GTATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAATAGACAATGGATGAT
1 GTATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGAC-ATGGATGAT
*
89910481 GTGGTAGGAAAGGTTTATAAAATAATTTCTC
65 GTGGTAGGAAA-GTTCATAAAATAATTTCTC
* * * *
89910512 GTATGAATGACATAGGAAAAATTGTTGAAATATCGTTAAATAATTAAAAAGGGATCATGGATGAT
1 GTATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGA-CATGGATGAT
*
89910577 GTGGTAGG--A-TTCATAAAATAATATCTC
65 GTGGTAGGAAAGTTCATAAAATAATTTCTC
* * *
89910604 ATATGAATGACAT-GAAAAAAATTGTTGAAATGTCATTAAATAATTGGAAAGAGACCATGGATGA
1 GTATGAATGACATAG-AAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGA-CATGGATGA
*
89910668 TGTGGT-GGAAAAGATTCAAAAAATAATTT
64 TGTGGTAGG-AAAG-TTCATAAAATAATTT
89910697 TTTTAATAGA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
91 3 0.02
92 76 0.47
94 2 0.01
96 79 0.49
97 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (94 bp):
GTATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACATGGATGATG
TGGTAGGAAAGTTCATAAAATAATTTCTC
Found at i:89910643 original size:92 final size:93
Alignment explanation
Indices: 89910417--89910677 Score: 350
Period size: 92 Copynumber: 2.8 Consensus size: 93
89910407 CAGAATTATG
*
89910417 TATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAATAGACAATGGATGATG
1 TATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGAC-ATGGATGATG
* * *
89910482 TGGTAGGAAAGGTTTATAAAATAATTTCTCG
65 TGGTAGG-AA-GTTCATAAAATAATATCTCA
* * * *
89910513 TATGAATGACATAGGAAAAATTGTTGAAATATCGTTAAATAATTAAAAAGGGATCATGGATGATG
1 TATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGA-CATGGATGATG
89910578 TGGTAGG-A-TTCATAAAATAATATCTCA
65 TGGTAGGAAGTTCATAAAATAATATCTCA
* *
89910605 TATGAATGACAT-GAAAAAAATTGTTGAAATGTCATTAAATAATTGGAAAGAGACCATGGATGAT
1 TATGAATGACATAG-AAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGA-CATGGATGAT
89910669 GTGGT-GGAA
64 GTGGTAGGAA
89910678 AAGATTCAAA
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
91 3 0.02
92 77 0.52
94 1 0.01
96 65 0.44
97 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (93 bp):
TATGAATGACATAGAAAAAATTGTTGAAATATCATTAAATAATTAGAAAGAGACATGGATGATGT
GGTAGGAAGTTCATAAAATAATATCTCA
Done.