Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 9 of 221
Found at i:3084270 original size:13 final size:13
Alignment explanation
Indices: 3084252--3084282 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3084242 ATTATTTTTC
3084252 TAATTTTGATATG
1 TAATTTTGATATG
3084265 TAATTTTGATATG
1 TAATTTTGATATG
*
3084278 CAATT
1 TAATT
3084283 ATATCATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (13 bp):
TAATTTTGATATG
Found at i:3093253 original size:19 final size:19
Alignment explanation
Indices: 3093211--3093261 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
3093201 AAAAATTACA
3093211 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
3093230 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
3093249 AAAAATTCTAAAA
1 AAAAATTC-AAAA
3093262 CATATAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 20 0.71
20 4 0.14
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:3094908 original size:29 final size:31
Alignment explanation
Indices: 3094876--3094936 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
3094866 TAAAAAATAA
3094876 TGTAAATAAATAA-TT-AATAT-AATTTTTTT
1 TGTAAAT-AATAATTTGAATATAAATTTTTTT
*
3094905 TGTAAATTATAATTTGAATATAAATTTTTTT
1 TGTAAATAATAATTTGAATATAAATTTTTTT
3094936 T
1 T
3094937 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.14
29 9 0.32
30 5 0.18
31 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (31 bp):
TGTAAATAATAATTTGAATATAAATTTTTTT
Found at i:3099233 original size:22 final size:22
Alignment explanation
Indices: 3099208--3099256 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3099198 TGGTGTAAAA
*
3099208 TATATAAACAAATTAATGAAAT
1 TATATAAACAAATAAATGAAAT
* * *
3099230 TATAAAAATAAATAAATTAAAT
1 TATATAAACAAATAAATGAAAT
3099252 TATAT
1 TATAT
3099257 CAAAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TATATAAACAAATAAATGAAAT
Found at i:3100618 original size:21 final size:23
Alignment explanation
Indices: 3100592--3100634 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
3100582 TATTTAGATT
3100592 ATATTTTCAATTA-AT-TAAAAA
1 ATATTTTCAATTATATGTAAAAA
*
3100613 ATATTTTTAATTATATGTAAAA
1 ATATTTTCAATTATATGTAAAA
3100635 GTTAAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATTTTCAATTATATGTAAAAA
Found at i:3116262 original size:122 final size:122
Alignment explanation
Indices: 3116044--3116270 Score: 323
Period size: 122 Copynumber: 1.9 Consensus size: 122
3116034 ATTTTTTAAA
* ** * *
3116044 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
** * *
3116109 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAACTTTTGTTTTTC
66 GTTAAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAACTTTTGTTTTTC
**
3116166 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTT-
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AATTTA
3116230 T-TTAAAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCT
65 TGTT-AAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCT
3116271 CGGGCACGCT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
121 2 0.02
122 86 0.93
123 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTAAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAACTTTTGTTTTTC
Found at i:3116320 original size:68 final size:69
Alignment explanation
Indices: 3116166--3116338 Score: 208
Period size: 68 Copynumber: 2.5 Consensus size: 69
3116156 TTTGTTTTTC
* * * *
3116166 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAAATTTT
3116231 TTAA
66 TTAA
* * *
3116235 AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTC-GGGCACGCTGAGGTATTTTT-AGTTTA
1 AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAAATTT-
*
3116298 TGTT-T
65 T-TTAA
* * *
3116303 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCT
3116339 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
67 4 0.04
68 51 0.56
69 36 0.40
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (69 bp):
AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAAATTTT
TTAA
Found at i:3116378 original size:121 final size:121
Alignment explanation
Indices: 3116235--3116461 Score: 305
Period size: 121 Copynumber: 1.9 Consensus size: 121
3116225 AATTTTTTAA
* * * * *
3116235 AAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTT-T
** *
3116299 GTTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
65 -TTTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
3116356 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTTT
*
3116421 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 TTT--AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
3116462 CGGGGCACGC
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
120 4 0.04
121 35 0.38
122 21 0.23
123 31 0.34
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (121 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTTT
TTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:3116454 original size:70 final size:69
Alignment explanation
Indices: 3116338--3116524 Score: 216
Period size: 70 Copynumber: 2.7 Consensus size: 69
3116328 GAGTTAAGCC
* **
3116338 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTAA-TTTTG-TTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCC
3116403 GAGGTAT
63 GAGGTAT
** *
3116410 TTTTAATTTT-TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCG
1 TTTTAATTTTGTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCG
3116474 AGGTAT
64 AGGTAT
* ** *
3116480 TTTTAGTTTATGTTTT-AAATTGACTCATATTGCGAGAGGTGAGTT
1 TTTTAATTT-TGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTT
3116525 AAGCTTTTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
69 30 0.30
70 56 0.55
71 5 0.05
72 10 0.10
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAG
GTAT
Found at i:3116631 original size:117 final size:119
Alignment explanation
Indices: 3116410--3116641 Score: 276
Period size: 117 Copynumber: 2.0 Consensus size: 119
3116400 GTTGAGGTAT
** *
3116410 TTTTAATTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGA
1 TTTTAATTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGA
* ** ** *
3116475 GGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGC
66 GGTATTTTTAATTTATGTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGC
*** **
3116529 TTTTAATTTTTGTTTTTCAAATCAACTCATATTGCGAGAA-TGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTT-TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCG
3116593 A-GT-TTTTTAAATTT-T-TTAAAAAATCAACTCATATTGCGAGAAGTGAGTT
65 AGGTATTTTT-AATTTATGTT-AAAAATCAACTCATATTGCGAGAAGTGAGTT
3116642 GAGCCTCGGG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
116 2 0.02
117 32 0.33
118 6 0.06
119 31 0.32
120 25 0.26
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (119 bp):
TTTTAATTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGA
GGTATTTTTAATTTATGTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGC
Found at i:3116788 original size:377 final size:381
Alignment explanation
Indices: 3115974--3117153 Score: 2138
Period size: 377 Copynumber: 3.1 Consensus size: 381
3115964 CTTTCCAAGG
3115974 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
3116039 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
3116104 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAACTTTTGTTTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
3116169 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-TTTTTAAATTTTTTA
* *
3116234 AAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGCACGCTGAGGTATTTTTAGTTTAT
260 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGTTTAT
3116299 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
325 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
3116356 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
3116421 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
3116486 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAG-CTTTTAATTTTTGTTTTTC-AA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
3116549 ATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGTTGA-GTTTTTTAAATTTTTTAA
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTTTTTTAAATTTTTTAA
3116612 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
261 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTAT
3116677 G-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
325 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
3116733 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
3116798 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
* *
3116863 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGCTAAGCCTTTTAATTTTTG-TTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
* *
3116927 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTAAATTTTTTTT
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTTTTTTAAA--TTTTTT
* *
3116992 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTT
259 -AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGTTT
3117057 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
323 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
3117116 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
3117154 GGCTCACATG
Statistics
Matches: 772, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
377 279 0.36
378 63 0.08
379 53 0.07
380 29 0.04
381 18 0.02
382 203 0.26
383 93 0.12
384 34 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (381 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTTTTTTAAATTTTTTAA
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGTTTATG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:3116898 original size:192 final size:192
Alignment explanation
Indices: 3115974--3117153 Score: 2123
Period size: 191 Copynumber: 6.2 Consensus size: 192
3115964 CTTTCCAAGG
3115974 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
3116039 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
3116104 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAACTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
3116166 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* * *
3116231 TT-AAAAAATTAACTCATATTGCGAGAAGTGAGTTAAGCCTC-GGGCACGCTGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
3116294 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
3116356 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
3116421 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
3116486 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAG-CTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
3116547 -AAATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGTTGA-GT-TTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
3116608 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
3116672 TTTATG-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
3116733 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
3116798 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
* *
3116863 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGCTAAGCCTTTTAATTTTTG-TTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
3116924 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTA-TTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA--TT
*
3116988 TTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTT
64 TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
3117052 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
129 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
3117116 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
3117154 GGCTCACATG
Statistics
Matches: 955, Mismatches: 20, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
185 35 0.04
186 86 0.09
187 33 0.03
188 29 0.03
189 29 0.03
190 189 0.20
191 293 0.31
192 227 0.24
193 34 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:3117205 original size:13 final size:14
Alignment explanation
Indices: 3117172--3117202 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3117162 TGCTGAGGTA
*
3117172 TTTTCAATTTATGT
1 TTTTCAATCTATGT
3117186 TTTTCAATCTATGT
1 TTTTCAATCTATGT
3117200 TTT
1 TTT
3117203 CAAAAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTCAATCTATGT
Found at i:3117227 original size:87 final size:88
Alignment explanation
Indices: 3117111--3117360 Score: 318
Period size: 84 Copynumber: 2.9 Consensus size: 88
3117101 TAATTTTTGT
3117111 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACA-GCTGAGGTATTT
* *
3117175 TCAATTTATGTTTTTC-AA-TCTATG
64 TCAATTTCTGTTTTTCTAATTCTA-C
* * *
3117199 TTTTCAAAAAT-AACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-CAC-GCTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACAGCTGAGGTATTTTC
* *
3117261 AATTTCTGCTTTACTAATTCTAC
66 AATTTCTGTTTTTCTAATTCTAC
* *
3117284 TTTTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTT
1 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACA-GCTGAGGTATTTT
*
3117347 CAAATTCTGTTTTT
65 CAATTTCTGTTTTT
3117361 AATTTCTGTT
Statistics
Matches: 140, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
83 4 0.03
84 55 0.39
85 10 0.07
86 7 0.05
87 52 0.37
88 12 0.09
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACAGCTGAGGTATTTTC
AATTTCTGTTTTTCTAATTCTAC
Found at i:3117367 original size:13 final size:13
Alignment explanation
Indices: 3117351--3117384 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
3117341 TCTTTTCAAA
3117351 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
3117364 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
3117379 TTCTGT
1 TTCTGT
3117385 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:3117376 original size:15 final size:15
Alignment explanation
Indices: 3117356--3117384 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3117346 TCAAATTCTG
3117356 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
3117371 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
3117385 GTTTCAAAAA
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:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:3117543 original size:54 final size:55
Alignment explanation
Indices: 3117460--3117677 Score: 333
Period size: 54 Copynumber: 4.1 Consensus size: 55
3117450 TCAATTTCTA
*
3117460 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3117515 CTTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3117569 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
3117620 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3117675 CTT
1 CTT
3117678 GGCTCACGTG
Statistics
Matches: 152, Mismatches: 4, Indels: 14
0.89 0.02 0.08
Matches are distributed among these distances:
50 12 0.08
51 36 0.24
52 2 0.01
53 2 0.01
54 49 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:3117675 original size:106 final size:104
Alignment explanation
Indices: 3117468--3117677 Score: 350
Period size: 106 Copynumber: 2.0 Consensus size: 104
3117458 TACTTTTCAA
* * *
3117468 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
*
3117533 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
3117572 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GT
1 TTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTAGT
3117636 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
63 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
3117678 GGCTCACGTG
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
104 11 0.11
105 40 0.40
106 42 0.42
107 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (104 bp):
TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
Found at i:3117982 original size:30 final size:31
Alignment explanation
Indices: 3117948--3118049 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
3117938 TAAAAAATAA
*
3117948 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3117978 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
3118008 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
3118038 AAATTTCATTTT
1 AAATTTCATTTT
3118050 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:3118426 original size:3 final size:3
Alignment explanation
Indices: 3118416--3118463 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
3118406 CGTGTAGGAG
3118416 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
3118461 GAA
1 GAA
3118464 AGAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3118798 original size:8 final size:7
Alignment explanation
Indices: 3118768--3118860 Score: 82
Period size: 8 Copynumber: 12.6 Consensus size: 7
3118758 CAGGCCAGGA
3118768 AAAAAAG
1 AAAAAAG
*
3118775 AGAGAAAG
1 A-AAAAAG
3118783 -AAAAAG
1 AAAAAAG
3118789 AAAAAGAG
1 AAAAA-AG
*
3118797 AAAGAAG
1 AAAAAAG
3118804 AAAAAAAG
1 -AAAAAAG
*
3118812 AAAAGAG
1 AAAAAAG
3118819 AAAAAAGG
1 AAAAAA-G
3118827 AAAAAAGG
1 AAAAAA-G
3118835 AAAAAAG
1 AAAAAAG
3118842 AAGAAAA-
1 AA-AAAAG
3118849 AAGAAAAG
1 AA-AAAAG
3118857 AAAA
1 AAAA
3118861 GAGTTTCAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
6 5 0.07
7 30 0.41
8 38 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:3118802 original size:22 final size:21
Alignment explanation
Indices: 3118769--3118860 Score: 89
Period size: 21 Copynumber: 4.2 Consensus size: 21
3118759 AGGCCAGGAA
*
3118769 AAAAAGAG-AGAAAGAAAAAG
1 AAAAAGAGAAAAAAGAAAAAG
* *
3118789 AAAAAGAGAAAGAAGAAAAAA
1 AAAAAGAGAAAAAAGAAAAAG
3118810 AGAAAAGAGAAAAAAGGAAAAAAGG
1 A-AAAAGAGAAAAAA-G-AAAAA-G
3118835 AAAAAAGAAGAAAAAAG-AAAAG
1 -AAAAAG-AGAAAAAAGAAAAAG
3118857 AAAA
1 AAAA
3118861 GAGTTTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 8 0.13
21 14 0.23
22 13 0.22
23 5 0.08
24 5 0.08
25 6 0.10
26 9 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAAGAGAAAAAAGAAAAAG
Found at i:3118804 original size:15 final size:14
Alignment explanation
Indices: 3118769--3118855 Score: 67
Period size: 14 Copynumber: 6.3 Consensus size: 14
3118759 AGGCCAGGAA
*
3118769 AAAAAGAGAGAAAG
1 AAAAAGAGAAAAAG
3118783 AAAAAGA-AAAAGAG
1 AAAAAGAGAAAA-AG
*
3118797 AAAGAAGAAAAAAAG
1 AAA-AAGAGAAAAAG
3118812 -AAAAGAGAAAAAAGG
1 AAAAAGAG-AAAAA-G
*
3118827 AAAAA-AGGAAAA-
1 AAAAAGAGAAAAAG
*
3118839 AAGAAGA-AAAAAG
1 AAAAAGAGAAAAAG
3118852 AAAA
1 AAAA
3118856 GAAAAGAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.14
13 11 0.19
14 23 0.39
15 9 0.15
16 8 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAAAG
Found at i:3118856 original size:15 final size:14
Alignment explanation
Indices: 3118768--3118860 Score: 82
Period size: 15 Copynumber: 6.3 Consensus size: 14
3118758 CAGGCCAGGA
*
3118768 AAAAAAGAGAGAAAG
1 AAAAAAGA-AAAAAG
3118783 -AAAAAGAAAAAGAG
1 AAAAAAGAAAAA-AG
*
3118797 AAAGAAGAAAAAAAG
1 AAAAAAG-AAAAAAG
*
3118812 AAAAGAGAAAAAAGG
1 AAAAAAGAAAAAA-G
3118827 AAAAAAGGAAAAAAG
1 AAAAAA-GAAAAAAG
3118842 AAGAAAA-AAGAAAAG
1 AA-AAAAGAA-AAAAG
3118857 AAAA
1 AAAA
3118861 GAGTTTCAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.05
14 19 0.29
15 28 0.42
16 16 0.24
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:3119439 original size:20 final size:22
Alignment explanation
Indices: 3119402--3119445 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3119392 AATTTTGTGT
*
3119402 AAAAAAATCTAGTGTTTTCAAAA
1 AAAAAAATCTAGT-TTTCCAAAA
3119425 AAAAAAATCTA-TTTTCCAAAA
1 AAAAAAATCTAGTTTTCCAAAA
3119446 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (22 bp):
AAAAAAATCTAGTTTTCCAAAA
Found at i:3119513 original size:18 final size:17
Alignment explanation
Indices: 3119441--3119601 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
3119431 ATCTATTTTC
* *
3119441 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
3119459 CTAAAAA-TTT-GTGTTT
1 C-AAAAATTTTCGTGTTT
3119475 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
3119491 CAAAAATTTTCGTGTTT
1 CAAAAATTTTCGTGTTT
3119508 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
3119526 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
3119543 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
3119561 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
3119578 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
3119596 CAAAAA
1 CAAAAA
3119602 AAAAATCTCG
Statistics
Matches: 119, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.04
16 22 0.18
17 47 0.39
18 41 0.34
19 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:3119601 original size:35 final size:34
Alignment explanation
Indices: 3119441--3119601 Score: 175
Period size: 35 Copynumber: 4.7 Consensus size: 34
3119431 ATCTATTTTC
* * *
3119441 CAAAATTTTTAGTGTCTTCTAAAAATTT-GTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAATTTCGTGTTT
3119475 CAAAAATTTTC--GTTTTCAAAAATTTTCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAA-TTTCGTGTTT
* *
3119508 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
3119543 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
3119578 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
3119602 AAAAATCTCG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
31 5 0.05
32 8 0.08
33 17 0.16
34 13 0.12
35 63 0.59
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:3125421 original size:40 final size:41
Alignment explanation
Indices: 3125377--3125470 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
3125367 TTTGGCATCT
* * * *
3125377 AGTGCCTCATCGGA-TAATTCGAAGTAATAAATTGACACTC
1 AGTGCCTCATCGAATTAATCCAAAGTAATAAATTGACACCC
*
3125417 AGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGACACCC
1 AGTGCCTCATCGAATTAATCCAAAGTAATAAATTGACACCC
*
3125458 AGTGTCTCATCGA
1 AGTGCCTCATCGA
3125471 CTCGAAGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 13 0.28
41 34 0.72
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (41 bp):
AGTGCCTCATCGAATTAATCCAAAGTAATAAATTGACACCC
Found at i:3126321 original size:10 final size:10
Alignment explanation
Indices: 3126306--3126373 Score: 57
Period size: 10 Copynumber: 6.3 Consensus size: 10
3126296 CTTTCTCCCT
3126306 TTTCTTTTTC
1 TTTCTTTTTC
3126316 TTTCTTTTTTC
1 TTTC-TTTTTC
*
3126327 TTTCTGTTTC
1 TTTCTTTTTC
3126337 GTTTCGTTTCTATC
1 -TTTC-TTT-T-TC
3126351 TTTCTTTCTT-
1 TTTCTTT-TTC
*
3126361 TTTCTATTTC
1 TTTCTTTTTC
3126371 TTT
1 TTT
3126374 TTATTACTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
9 2 0.04
10 18 0.37
11 15 0.31
12 7 0.14
13 5 0.10
14 2 0.04
ACGTcount: A:0.03, C:0.19, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:3126324 original size:11 final size:11
Alignment explanation
Indices: 3126306--3126375 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 11
3126296 CTTTCTCCCT
3126306 TTTC-TTTTTC
1 TTTCTTTTTTC
3126316 TTTCTTTTTTC
1 TTTCTTTTTTC
3126327 TTTCTGTTTCGTTTC
1 TTTC--TTT--TTTC
*
3126342 GTTTCTATCTTTC
1 -TTTCT-TTTTTC
*
3126355 TTTCTTTTTCTA
1 TTTCTTTTT-TC
3126367 TTTCTTTTT
1 TTTCTTTTT
3126376 ATTACTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.08
11 13 0.27
12 15 0.31
13 7 0.14
14 1 0.02
15 5 0.10
16 4 0.08
ACGTcount: A:0.03, C:0.19, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:3127089 original size:21 final size:21
Alignment explanation
Indices: 3127065--3127117 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3127055 TAAAAAAAGT
3127065 TTAATAAATAAAAATAAAAAA
1 TTAATAAATAAAAATAAAAAA
* *
3127086 TTAATAAATATAAATTAAAAA
1 TTAATAAATAAAAATAAAAAA
*
3127107 TAATATAAATA
1 TTA-ATAAATA
3127118 TATTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAATAAATAAAAATAAAAAA
Found at i:3127104 original size:22 final size:22
Alignment explanation
Indices: 3127065--3127157 Score: 84
Period size: 23 Copynumber: 4.3 Consensus size: 22
3127055 TAAAAAAAGT
*
3127065 TTAATAAATA-AAAATAAAAAA
1 TTAATAAATATAAATTAAAAAA
3127086 TTAATAAATATAAATT-AAAAA
1 TTAATAAATATAAATTAAAAAA
* **
3127107 TAATATAAATATATTTTAAAAAA
1 TTA-ATAAATATAAATTAAAAAA
* **
3127130 TAATATAAATATATTTTAAAAAA
1 TTA-ATAAATATAAATTAAAAAA
3127153 -TAATA
1 TTAATA
3127158 CGGGTGGGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 20 0.31
22 16 0.25
23 28 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAATAAATATAAATTAAAAAA
Found at i:3127128 original size:23 final size:23
Alignment explanation
Indices: 3127079--3127157 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
3127069 TAAATAAAAA
* **
3127079 TAAAAAATTA-ATAAATATAAAT
1 TAAAAAATAATATAAATATATTT
3127101 T-AAAAATAATATAAATATATTT
1 TAAAAAATAATATAAATATATTT
3127123 TAAAAAATAATATAAATATATTT
1 TAAAAAATAATATAAATATATTT
3127146 TAAAAAATAATA
1 TAAAAAATAATA
3127158 CGGGTGGGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.13
22 12 0.23
23 33 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAAAATAATATAAATATATTT
Found at i:3127627 original size:16 final size:16
Alignment explanation
Indices: 3127606--3127645 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
3127596 TATTTAGTCA
3127606 TATAATAAATTATTAT
1 TATAATAAATTATTAT
3127622 TATAAT---TTATTAT
1 TATAATAAATTATTAT
*
3127635 TTTAATAAATT
1 TATAATAAATT
3127646 GTTTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
13 12 0.60
16 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATAAATTATTAT
Found at i:3127704 original size:16 final size:15
Alignment explanation
Indices: 3127664--3127704 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
3127654 TTTTAATTTT
3127664 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
3127678 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
3127692 ATTTTAAATAATA
1 ATTTTAAATAATA
3127705 TTCTTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:3134689 original size:16 final size:16
Alignment explanation
Indices: 3134668--3134709 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
3134658 ATTTTATGAG
*
3134668 TTATTTTAATTTTGAA
1 TTATTTTAAATTTGAA
3134684 TTATTTTAAATTTGAA
1 TTATTTTAAATTTGAA
*
3134700 TCA-TTTAAAT
1 TTATTTTAAAT
3134710 AATTATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (16 bp):
TTATTTTAAATTTGAA
Found at i:3144004 original size:31 final size:32
Alignment explanation
Indices: 3143940--3144014 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 32
3143930 TCTGAACTTG
*
3143940 AAATTGACCCAAACCTGAATGACCCGGAGTCA
1 AAATTGACCCAAACCTGAATGACCCAGAGTCA
3143972 AAATTGACCCAAA-CTGAAGTGACCCAGA-TCA
1 AAATTGACCCAAACCTGAA-TGACCCAGAGTCA
*
3144003 AAACTTAACCCA
1 AAA-TTGACCCA
3144015 TCCCGCTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 11 0.28
32 28 0.72
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.16
Consensus pattern (32 bp):
AAATTGACCCAAACCTGAATGACCCAGAGTCA
Found at i:3148615 original size:20 final size:20
Alignment explanation
Indices: 3148586--3148629 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3148576 TTCAAATTTT
**
3148586 AAAAATATTTTTAAAG-ATA
1 AAAAATATTTAAAAAGTATA
3148605 AAAAATAATTTAAAAAGTATA
1 AAAAAT-ATTTAAAAAGTATA
3148626 AAAA
1 AAAA
3148630 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAATATTTAAAAAGTATA
Found at i:3152747 original size:12 final size:12
Alignment explanation
Indices: 3152730--3152754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3152720 CGCTAAAGAA
3152730 CATGTTCTTTAG
1 CATGTTCTTTAG
3152742 CATGTTCTTTAG
1 CATGTTCTTTAG
3152754 C
1 C
3152755 GGCGCTAAGA
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:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (12 bp):
CATGTTCTTTAG
Found at i:3152782 original size:55 final size:56
Alignment explanation
Indices: 3152692--3152797 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 56
3152682 ACATCGCTAA
*
3152692 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCATGTT
1 CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCATGTT
*
3152748 CTTTAGCGGCGC-TA-AGAAAATAAACGCCGCTAAAGATCATGTTCTTTAGC
1 CTTTAGCGGCGCTTACAGAAAA-AAACGCCGCTAAAGAACATGTTCTTTAGC
3152798 GGCGCTTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
54 6 0.13
55 30 0.64
56 11 0.23
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (56 bp):
CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCATGTT
Found at i:3152828 original size:42 final size:42
Alignment explanation
Indices: 3152742--3152929 Score: 263
Period size: 43 Copynumber: 4.4 Consensus size: 42
3152732 TGTTCTTTAG
* *
3152742 CATGTTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGAT
1 CATGTTCTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGAT
3152785 CATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAT
1 CATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAT
*
3152827 CATATTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGAT
1 CATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGAT
* * *
3152870 CATGTTCTTTAGCGGTGCTTGGGAGGAAAACGCCGCTAAA-AGT
1 CATGTTCTTTAGCGGCGCTTAGGA-AAAAACGCCGCTAAAGA-T
3152913 -AGTGTTCTTTAGCGGCG
1 CA-TGTTCTTTAGCGGCG
3152930 TTTATTTCAC
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
42 42 0.32
43 91 0.68
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAT
Found at i:3152858 original size:85 final size:86
Alignment explanation
Indices: 3152746--3152909 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 86
3152736 CTTTAGCATG
3152746 TTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGA-A
1 TTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGA
3152810 AAAACGCCGCTAAAGATCATA
66 AAAACGCCGCTAAAGATCATA
* * * *
3152831 TTCTTTAGCGGCGCTTAGGAAGA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTTGGGAG
1 TTCTTTAGCGGCGC-TAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAG
*
3152895 GAAAACGCCGCTAAA
65 AAAAACGCCGCTAAA
3152910 AGTAGTGTTC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 52 0.72
86 20 0.28
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (86 bp):
TTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGA
AAAACGCCGCTAAAGATCATA
Found at i:3153421 original size:21 final size:21
Alignment explanation
Indices: 3153395--3153462 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
3153385 CTTCTCTCGT
* *
3153395 TGCTTCTCTCACTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
3153416 TGCTTCTCTTGCTGTAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
3153437 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
3153458 TGCTT
1 TGCTT
3153463 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.37
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:3155404 original size:113 final size:113
Alignment explanation
Indices: 3155278--3155600 Score: 486
Period size: 113 Copynumber: 2.8 Consensus size: 113
3155268 ACAATGAGCA
3155278 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGTCGTTTTCTTAGTTTT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGTCGTTTTCTTAGTTTT
* *
3155343 CGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAGGTAATTCTCAGGGCT
66 CGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAGCTAATGCTCAGGGCT
* * * *
3155391 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAGACCTAAGCCCAACGACATCATTTTCTTAGTTTT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGTCGTTTTCTTAGTTTT
* *
3155456 CGAGGCTTTGGTGGCGTTTTTGG-GAAAGCGCTGCTAATGCTCAGGGTT
66 CGAGGCTTTGGTGGCGTTTTTGGAG-AAGCGCAGCTAATGCTCAGGGCT
** *
3155504 TTAGCGGCGTTTTTTAAAAATAGCCGCAAAAAACCTAAGCCTAACGACGTCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGTCG-TTTTCTTAGTTT
** * *
3155569 GGGAGGCTTTGGTGGCGTTTTTGTAAAAGCGC
65 TCGAGGCTTTGGTGGCGTTTTTGGAGAAGCGC
3155601 CGCAAAAAAC
Statistics
Matches: 189, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 149 0.79
114 39 0.21
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (113 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGTCGTTTTCTTAGTTTT
CGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAGCTAATGCTCAGGGCT
Found at i:3155651 original size:72 final size:73
Alignment explanation
Indices: 3155509--3155653 Score: 204
Period size: 73 Copynumber: 2.0 Consensus size: 73
3155499 GGGTTTTAGC
* * * *
3155509 GGCGTTTTTTAAAAATAGCCGCAAAAAACCTAAGCCTAACGACGTCGTTTTTCTTAGTTTGGGAG
1 GGCGTTTTTTAAAAAGAGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTTGCGAG
3155574 GCTTTGGT
66 GCTTTGGT
* *
3155582 GGCGTTTTTGT-AAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCG-TTTTCTTAGTTTTCGA
1 GGCGTTTTT-TAAAAAGAGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTTGCGA
*
3155645 GTCTTTGGT
65 GGCTTTGGT
3155654 TGGGGATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
72 22 0.34
73 41 0.64
74 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (73 bp):
GGCGTTTTTTAAAAAGAGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTTGCGAG
GCTTTGGT
Found at i:3155789 original size:10 final size:10
Alignment explanation
Indices: 3155774--3155803 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3155764 AATTTTGAAA
3155774 GTAAAAATAT
1 GTAAAAATAT
3155784 GTAAAAATAT
1 GTAAAAATAT
*
3155794 ATAAAAATAT
1 GTAAAAATAT
3155804 TTATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
GTAAAAATAT
Found at i:3156130 original size:21 final size:21
Alignment explanation
Indices: 3156106--3156156 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
3156096 ATGGTTTACA
*
3156106 GTTTAGGGTTTACGGGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
* *
3156127 GTTTAAGGTTTATGAGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
3156148 GTTTAGGGT
1 GTTTAGGGT
3156157 CTAGGCTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTACGAGTTGGG
Found at i:3156880 original size:115 final size:114
Alignment explanation
Indices: 3156677--3157132 Score: 459
Period size: 115 Copynumber: 4.0 Consensus size: 114
3156667 ATTTAAAGGA
* * * * * *
3156677 ATTTTGTTTCAATAAAAA-CGGTGGCGTTCTATAGGATATATTAGTGGCGTTTTGGGTAAAACGC
1 ATTTTGTTTCAATAAAAAGC-TTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGC
* ** * ** * * *
3156741 CGTAAAAGTTTGGGCTTTCCCGGCGCTAAGCTGAAAACGCCGTAAAATGTG
65 CGCAAAAG-TCAGCCTTTAGCGGCGCTAAGTTAAAAACGCCGCAAAATGTG
* * *
3156792 ATTTTGTTTCAATAAAAAGGTTGCCGTTCTGTAAGATTTCTTACTGGCGTTTTTGGTAAAACGCC
1 ATTTTGTTTCAATAAAAAGCTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCC
* * *
3156857 GCAAAAGATCATCCTTTAGCGGCGCTATGTCAAAAACGCCGCAAAATGTG
66 GCAAAAG-TCAGCCTTTAGCGGCGCTAAGTTAAAAACGCCGCAAAATGTG
* * * * * ** *
3156907 ATTTTGTTTCAATAAAAATCTTGTCGTTTTGTGGGATTTCTTACTGGCGTTTTTGCCAAAATGCC
1 ATTTTGTTTCAATAAAAAGCTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCC
*
3156972 GCAAAAGGTCAGCCTTTAGCGGCGCT-AGATTAAAAACGCAGCAAAATGTG
66 GCAAAA-GTCAGCCTTTAGCGGCGCTAAG-TTAAAAACGCCGCAAAATGTG
* * * ** * * *
3157022 ATTCTGTTTTAATAAAACGCTT-CCGTGGTGTAGGATTTATTAGTGGCGTTTTTTGTAAAATGCC
1 ATTTTGTTTCAATAAAAAGCTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCC
* ** *
3157086 GAAAAATGTCAGCCTTTAGCGGCGCTGCGTTGAAAACGCCGCAAAAT
66 GCAAAA-GTCAGCCTTTAGCGGCGCTAAGTTAAAAACGCCGCAAAAT
3157133 TTCAATGGGT
Statistics
Matches: 284, Mismatches: 53, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
114 74 0.26
115 209 0.74
116 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (114 bp):
ATTTTGTTTCAATAAAAAGCTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCC
GCAAAAGTCAGCCTTTAGCGGCGCTAAGTTAAAAACGCCGCAAAATGTG
Found at i:3157352 original size:115 final size:115
Alignment explanation
Indices: 3157171--3157482 Score: 511
Period size: 115 Copynumber: 2.7 Consensus size: 115
3157161 GTTTTGTTGG
* * ** *
3157171 ATTTTGTGTTGACCGAAACGAAACCG--TTTTTATGTTTTTAGTGGCGTTTTTGTTAAAACGCCG
1 ATTTTGTGTTTACCAAAACGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCG
* *
3157234 CAAAAGATCTTGCTTTAGCGGCGCTTCTCTTAAAACACCGCAAAAATGTT
66 CAAAAGATGTTACTTTAGCGGCGCTTCTCTTAAAACACCGCAAAAATGTT
*
3157284 ATTTTGTGTTTACCAAAACGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAATGCCG
1 ATTTTGTGTTTACCAAAACGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCG
**
3157349 CAAAAGATGTTACTTTAGCGGCGCTTCTCTTAAAATGCCGCAAAAATGTT
66 CAAAAGATGTTACTTTAGCGGCGCTTCTCTTAAAACACCGCAAAAATGTT
*
3157399 ATTTTGTGTTTACCAAAACGTGACCCTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCG
1 ATTTTGTGTTTACCAAAACGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCG
3157464 CAAAAGATGTTACTTTAGC
66 CAAAAGATGTTACTTTAGC
3157483 TAGGGGTGAG
Statistics
Matches: 185, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 22 0.12
115 163 0.88
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (115 bp):
ATTTTGTGTTTACCAAAACGTGACCGTTTTTTTATGTATTTAGTGGCGTTTTTGTTAAAACGCCG
CAAAAGATGTTACTTTAGCGGCGCTTCTCTTAAAACACCGCAAAAATGTT
Found at i:3158171 original size:17 final size:17
Alignment explanation
Indices: 3158133--3158181 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
3158123 GGGTGAGAAG
3158133 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
3158151 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
3158168 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
3158182 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:3158476 original size:29 final size:30
Alignment explanation
Indices: 3158430--3158486 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
3158420 GGGTTAGGAG
* *
3158430 GGGAGAGGAGTAAAAGTTTTGGGGGAAAGT
1 GGGAGAGGAGGAAAAGTTTTGAGGGAAAGT
3158460 GGGA-AGGAGGAAAAGTTTTGAGGGAAA
1 GGGAGAGGAGGAAAAGTTTTGAGGGAAA
3158487 AGTAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.46, T:0.18
Consensus pattern (30 bp):
GGGAGAGGAGGAAAAGTTTTGAGGGAAAGT
Found at i:3158635 original size:9 final size:9
Alignment explanation
Indices: 3158618--3158648 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3158608 TCGAGTTGAT
3158618 TCGAATAAC
1 TCGAATAAC
*
3158627 TCGATTAAC
1 TCGAATAAC
3158636 TCGAATAAC
1 TCGAATAAC
3158645 TCGA
1 TCGA
3158649 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:3162378 original size:12 final size:12
Alignment explanation
Indices: 3162361--3162387 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3162351 GCAGAGGCTA
3162361 CAGCGAGAGAAG
1 CAGCGAGAGAAG
3162373 CAGCGAGAGAAG
1 CAGCGAGAGAAG
3162385 CAG
1 CAG
3162388 AGGTTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.41, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:3162880 original size:42 final size:42
Alignment explanation
Indices: 3162825--3162906 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
3162815 GTTTGTGAAA
*
3162825 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGACGTTTTTTAC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTAC
* *
3162867 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTT
3162907 TTCTGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTAC
Found at i:3164180 original size:19 final size:18
Alignment explanation
Indices: 3164156--3164660 Score: 187
Period size: 18 Copynumber: 26.2 Consensus size: 18
3164146 AAAATAATAA
3164156 TTTTTGAAAACACGAAGAT
1 TTTTTGAAAACACGAA-AT
3164175 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACG-AAAT
*
3164193 TTTTTTAAAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
*
3164212 TTTTTGAAAACCCGAAAACAT
1 TTTTTGAAAACACG--AA-AT
* *
3164233 GAAAATTTTGAAAACACGAAAA
1 ----TTTTTGAAAACACGAAAT
3164255 TTTTTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
*
3164273 TTTTATG---ACACGAAAA
1 TTTT-TGAAAACACGAAAT
*
3164289 ATTTTGAAAACACGAAA-
1 TTTTTGAAAACACGAAAT
* * * * *
3164306 ATTTCGAAAACATGTATT
1 TTTTTGAAAACACGAAAT
*
3164324 TTTTTTAAAACACGAAAT
1 TTTTTGAAAACACGAAAT
* *
3164342 TTTTTTACAAACACAAGAATTT
1 TTTTTGA-AAACAC--GAA-AT
3164364 TTTTTGAAAACACGAAAACAT
1 TTTTTGAAAACACG--AA-AT
* *
3164385 GAAAATTTTGAAAACACGAAAA
1 ----TTTTTGAAAACACGAAAT
3164407 TTTTTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
*
3164425 TTTTATG---ACACGAAAA
1 TTTT-TGAAAACACGAAAT
*
3164441 ATTTT-AAAACACGAAA-
1 TTTTTGAAAACACGAAAT
* * *
3164457 ATTTCGAAAACATG-AAT
1 TTTTTGAAAACACGAAAT
* **
3164474 TTTTTTAAAACACGATTT
1 TTTTTGAAAACACGAAAT
*
3164492 TTTTTAAAAACACGAGAATTTTT
1 TTTTTGAAAACACGA-AA----T
3164515 TTTTTGAAAGCACAAAAACATGAAA-
1 TTTTTGAAA--AC----AC--GAAAT
* *
3164540 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAT
3164558 TTTTTG-AAACACGCAAAAT
1 TTTTTGAAAACACG--AAAT
*
3164577 TTTTTTAAAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
3164596 TTTTTGAAAACACGATAACAT
1 TTTTTGAAAACACG--AA-AT
* *
3164617 GAAAATTTTGAAAACACGAAAA
1 ----TTTTTGAAAACACGAAAT
3164639 TTTTTG-AAACACGAGAAT
1 TTTTTGAAAACACGA-AAT
3164657 TTTT
1 TTTT
3164661 ATGACACGAA
Statistics
Matches: 375, Mismatches: 51, Indels: 121
0.69 0.09 0.22
Matches are distributed among these distances:
15 3 0.01
16 16 0.04
17 85 0.23
18 96 0.26
19 67 0.18
20 9 0.02
21 18 0.05
22 10 0.03
23 17 0.05
25 48 0.13
29 2 0.01
30 2 0.01
31 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAT
Found at i:3164195 original size:17 final size:17
Alignment explanation
Indices: 3164154--3164765 Score: 147
Period size: 17 Copynumber: 32.1 Consensus size: 17
3164144 ACAAAATAAT
3164154 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
*
3164172 GATTTTTTGAAACACGAA
1 -AATTTTTGAAACACGAA
*
3164190 AATTTTTTTAAAACACGAGA
1 AA--TTTTTGAAACACGA-A
* *
3164210 ATTTTTTGAAAACCCGAAA
1 AATTTTTG-AAACACG-AA
3164229 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTG-AAACACGAA
*
3164253 AATTTTTGAAACACGAG
1 AATTTTTGAAACACGAA
*
3164270 AATTTTT-ATGACACGAA
1 AATTTTTGA-AACACGAA
*
3164287 AAATTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* * *
3164305 AA-TTTCGAAAACATGTAT
1 AATTTTTG-AAACACG-AA
** *
3164323 TTTTTTTAAAACACGAA
1 AATTTTTGAAACACGAA
* *
3164340 ATTTTTTTACAAACAC-AA
1 A-ATTTTT-GAAACACGAA
3164358 GAATTTTTTTTGAAAACACGAAA
1 -AA---TTTTTG-AAACACG-AA
3164381 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTG-AAACACGAA
*
3164405 AATTTTTGAAACACGAG
1 AATTTTTGAAACACGAA
*
3164422 AATTTTT-ATGACACGAA
1 AATTTTTGA-AACACGAA
* *
3164439 AAATTTTAAAACACGAA
1 AATTTTTGAAACACGAA
* *
3164456 AA-TTTCGAAAACATGAA
1 AATTTTTG-AAACACGAA
** * *
3164473 TTTTTTTAAAACACGAT
1 AATTTTTGAAACACGAA
** *
3164490 TTTTTTTAAAAACACGAGA
1 AATTTTT-GAAACACGA-A
* *
3164509 ATTTTTTTTTTGAAAGCACAAAA
1 A----ATTTTTGAAA-CAC-GAA
3164532 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTG-AAACACGAA
3164556 AATTTTTGAAACACGCAA
1 AATTTTTGAAACACG-AA
*
3164574 AATTTTTTTAAAACACGAGA
1 AA--TTTTTGAAACACGA-A
*
3164594 ATTTTTTGAAAACACGATA
1 AATTTTTG-AAACACGA-A
3164613 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTG-AAACACGAA
3164637 AATTTTTGAAACACGAGA
1 AATTTTTGAAACACGA-A
*
3164655 ATTTTTATGACACGAAAACACGAA
1 AATTTT-T-----G-AAACACGAA
** **
3164679 AATTTTTTTAACACGGG
1 AATTTTTGAAACACGAA
*
3164696 AATTTTTGAAAACATGAA
1 AATTTTTG-AAACACGAA
3164714 AATTTTTGAAACAC-AA
1 AATTTTTGAAACACGAA
* * *
3164730 AAATTTTAAAACACTAA
1 AATTTTTGAAACACGAA
* *
3164747 CATTTGTGAAACACGAA
1 AATTTTTGAAACACGAA
3164764 AA
1 AA
3164766 CTCTTGAAAA
Statistics
Matches: 451, Mismatches: 72, Indels: 142
0.68 0.11 0.21
Matches are distributed among these distances:
16 19 0.04
17 146 0.32
18 99 0.22
19 51 0.11
20 21 0.05
21 11 0.02
22 4 0.01
23 23 0.05
24 19 0.04
25 55 0.12
26 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:3164274 original size:34 final size:34
Alignment explanation
Indices: 3164227--3164775 Score: 202
Period size: 34 Copynumber: 14.6 Consensus size: 34
3164217 GAAAACCCGA
*
3164227 AAACATGAAAATTTTGAAAACACGAAAATTTTTG
1 AAACACGAAAATTTTGAAAACACGAAAATTTTTG
* * ** *
3164261 AAACACGAGAATTTTTATGACACGAAAAATTTTG
1 AAACACGAAAATTTTGAAAACACGAAAATTTTTG
* * *** *
3164295 AAAACACGAAAATTTCGAAAACATGTATTTTTTTTA
1 -AAACACGAAAATTTTGAAAACACG-AAAATTTTTG
* *
3164331 AAACACGAAATTTTTTTACAAACAC-AAGAATTTTTTTTG
1 AAACACGAAA-ATTTTGA-AAACACGAA-AA---TTTTTG
3164370 AAAACACGAAAACATGAAAATTTTGAAAACACGAAAATTTTTG
1 --AA-AC----AC--GAAAATTTTGAAAACACGAAAATTTTTG
* * ** * *
3164413 AAACACGAGAATTTTTATGACACGAAAAATTTTA
1 AAACACGAAAATTTTGAAAACACGAAAATTTTTG
* * ** *
3164447 AAACACGAAAATTTCGAAAACATGAATTTTTTTA
1 AAACACGAAAATTTTGAAAACACGAAAATTTTTG
*** * *
3164481 AAACACGATTTTTTTTAAAAACACGAGAATTTTTTTTTTG
1 AAACACGA-AAATTTTGAAAACACGA-AA----ATTTTTG
3164521 AAAGCACAAAAACATGAAAATTTTGAAAACACGAAAATTTTTG
1 -AA--AC----AC--GAAAATTTTGAAAACACGAAAATTTTTG
* *
3164564 AAACACGCAAAATTTTTTTAAAACACGAGAATTTTTTG
1 AAACACG-AAAA--TTTTGAAAACACGA-AAATTTTTG
3164602 AAAACACGATAACATGAAAATTTTGAAAACACGAAAATTTTTG
1 --AA-AC----AC--GAAAATTTTGAAAACACGAAAATTTTTG
* *
3164645 AAACACGAGAATTTTTATGACACGAAAACACGAAAATTTTTT
1 AAACACGA-AA-ATTT-T-----GAAAACACGAAAATTTTTG
* * * *
3164687 TAACACGGGAATTTTTGAAAACATGAAAATTTTTG
1 AAACAC-GAAAATTTTGAAAACACGAAAATTTTTG
* * * *
3164722 AAACACAAAAATTTT-AAAACACTAACATTTGTG
1 AAACACGAAAATTTTGAAAACACGAAAATTTTTG
*
3164755 AAACACGAAAACTCTTGAAAA
1 AAACACGAAAA-TTTTGAAAA
3164776 TGTTAAAAGT
Statistics
Matches: 383, Mismatches: 75, Indels: 113
0.67 0.13 0.20
Matches are distributed among these distances:
33 24 0.06
34 95 0.25
35 72 0.19
36 19 0.05
37 19 0.05
38 8 0.02
39 5 0.01
40 15 0.04
41 14 0.04
42 29 0.08
43 23 0.06
44 13 0.03
45 2 0.01
46 14 0.04
47 12 0.03
48 17 0.04
49 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (34 bp):
AAACACGAAAATTTTGAAAACACGAAAATTTTTG
Found at i:3164365 original size:21 final size:18
Alignment explanation
Indices: 3164321--3164379 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 18
3164311 GAAAACATGT
3164321 ATTTTTTTTAAAACACGA
1 ATTTTTTTTAAAACACGA
*
3164339 AATTTTTTTACAAACACAAGA
1 ATTTTTTTTA-AAACAC--GA
3164360 ATTTTTTTTGAAAACACGA
1 ATTTTTTTT-AAAACACGA
3164379 A
1 A
3164380 AACATGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
21 16 0.46
22 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (18 bp):
ATTTTTTTTAAAACACGA
Found at i:3164396 original size:152 final size:149
Alignment explanation
Indices: 3164174--3164580 Score: 649
Period size: 152 Copynumber: 2.7 Consensus size: 149
3164164 AACACGAAGA
* *
3164174 TTTTTTGAAACACGAAAATTTTTTTAAAACACGAGAA--TTTTTTGAAAACCCGAAAACATGAAA
1 TTTTTTAAAACACG-AAATTTTTTTAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAA
3164237 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTGAAAACAC
65 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTT-AAAACAC
*
3164302 GAAAATTTCGAAAACATGTATT
129 GAAAATTTCGAAAACATG-AAT
*
3164324 TTTTTTAAAACACGAAATTTTTTTACAAACACAAGAATTTTTTTTGAAAACACGAAAACATGAAA
1 TTTTTTAAAACACGAAATTTTTTTA-AAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAA
3164389 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTAAAACACG
65 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTAAAACACG
3164454 AAAATTTCGAAAACATGAAT
130 AAAATTTCGAAAACATGAAT
* * *
3164474 TTTTTTAAAACACG-ATTTTTTTTAAAAACACGAGAATTTTTTTTTTGAAAGCACAAAAACATGA
1 TTTTTTAAAACACGAAATTTTTTT-AAAACACGAGAA--TTTTTTTTGAAAACACGAAAACATGA
*
3164538 AAATTTTGAAAACACGAAAATTTTTGAAACACGCAAAATTTTT
63 AAATTTTGAAAACACGAAAATTTTTGAAACACG-AGAATTTTT
3164581 TTAAAACACG
Statistics
Matches: 241, Mismatches: 9, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
149 29 0.12
150 40 0.17
151 82 0.34
152 90 0.37
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (149 bp):
TTTTTTAAAACACGAAATTTTTTTAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAAA
TTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTAAAACACGA
AAATTTCGAAAACATGAAT
Found at i:3164562 original size:18 final size:18
Alignment explanation
Indices: 3164529--3164775 Score: 150
Period size: 17 Copynumber: 13.2 Consensus size: 18
3164519 TGAAAGCACA
*
3164529 AAAACATGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
3164546 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
3164564 -AAACACGCAAAATTTTTTT
1 AAAACACG-AAAA-TTTTTG
*
3164583 AAAACACGAGAATTTTTTG
1 AAAACACGA-AAATTTTTG
3164602 AAAACACGATAACATGAAAATTTTG
1 AAAACACGA-AA-AT-----TTTTG
3164627 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
3164645 -AAACACGAGAATTTTTATGACACG
1 AAAACACGA-AAATTTT-T-----G
3164669 AAAACACGAAAATTTTT-
1 AAAACACGAAAATTTTTG
** **
3164686 TTAACACGGGAATTTTTG
1 AAAACACGAAAATTTTTG
*
3164704 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
3164722 -AAACAC-AAAAATTTT-
1 AAAACACGAAAATTTTTG
* * *
3164737 AAAACACTAACATTTGTG
1 AAAACACGAAAATTTTTG
* *
3164755 -AAACACGAAAACTCTTG
1 AAAACACGAAAATTTTTG
3164772 AAAA
1 AAAA
3164776 TGTTAAAAGT
Statistics
Matches: 179, Mismatches: 27, Indels: 47
0.71 0.11 0.19
Matches are distributed among these distances:
16 14 0.08
17 62 0.35
18 36 0.20
19 23 0.13
20 10 0.06
23 3 0.02
24 9 0.05
25 22 0.12
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:3164692 original size:25 final size:25
Alignment explanation
Indices: 3164645--3164693 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3164635 AAAATTTTTG
* *
3164645 AAACACGAGAATTTTTATGACACGA
1 AAACACGAAAATTTTTATAACACGA
*
3164670 AAACACGAAAATTTTTTTAACACG
1 AAACACGAAAATTTTTATAACACG
3164694 GGAATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (25 bp):
AAACACGAAAATTTTTATAACACGA
Found at i:3164736 original size:16 final size:16
Alignment explanation
Indices: 3164699--3164765 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
3164689 ACACGGGAAT
3164699 TTTTGAAA-ACATGAAAA
1 TTTTGAAACACA--AAAA
3164716 TTTTTGAAACACAAAAA
1 -TTTTGAAACACAAAAA
* * *
3164733 TTTTAAAACACTAACA
1 TTTTGAAACACAAAAA
3164749 TTTGTGAAACACGAAAA
1 TTT-TGAAACAC-AAAA
3164766 CTCTTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
16 16 0.40
17 11 0.28
18 10 0.25
19 3 0.08
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (16 bp):
TTTTGAAACACAAAAA
Found at i:3164741 original size:33 final size:34
Alignment explanation
Indices: 3164699--3164775 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
3164689 ACACGGGAAT
*
3164699 TTTTGAAAACA-TGAAAATTTTTGAAACACAAAAA
1 TTTTGAAAACACT-AAAATTTGTGAAACACAAAAA
* *
3164733 TTTT-AAAACACTAACATTTGTGAAACACGAAAAC
1 TTTTGAAAACACTAAAATTTGTGAAACAC-AAAAA
*
3164767 TCTTGAAAA
1 TTTTGAAAA
3164776 TGTTAAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 20 0.56
34 12 0.33
35 4 0.11
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (34 bp):
TTTTGAAAACACTAAAATTTGTGAAACACAAAAA
Found at i:3165462 original size:17 final size:18
Alignment explanation
Indices: 3165440--3165481 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
3165430 TGCTTTGTTC
3165440 TTTTTTGCTATTCTGGTT
1 TTTTTTGCTATTCTGGTT
* *
3165458 TTTTTTGCTGTT-TTGTT
1 TTTTTTGCTATTCTGGTT
3165475 TTTTTTG
1 TTTTTTG
3165482 GGCGTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.02, C:0.07, G:0.17, T:0.74
Consensus pattern (18 bp):
TTTTTTGCTATTCTGGTT
Found at i:3165488 original size:18 final size:17
Alignment explanation
Indices: 3165433--3165498 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 17
3165423 TTGGGCCTGC
*
3165433 TTTGTTCTTTTTTGCTAT
1 TTTGTT-TTTTTTGCTGT
*
3165451 TCTGGTTTTTTTTGCTGT
1 T-TTGTTTTTTTTGCTGT
3165469 TTTGTTTTTTTTGGGC-GT
1 TTTGTTTTTTTT--GCTGT
3165487 TTTGTTTTTTTT
1 TTTGTTTTTTTT
3165499 TGGGGCTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 10 0.24
18 26 0.62
19 6 0.14
ACGTcount: A:0.02, C:0.08, G:0.18, T:0.73
Consensus pattern (17 bp):
TTTGTTTTTTTTGCTGT
Found at i:3165643 original size:11 final size:10
Alignment explanation
Indices: 3165591--3165644 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
3165581 TTTCTTTTTT
3165591 TTTTTCCTTCC
1 TTTTT-CTTCC
3165602 TTTCTTC-TCTC
1 TTT-TTCTTC-C
*
3165613 TTTTTCTTCT
1 TTTTTCTTCC
3165623 TTTTTCTTCC
1 TTTTTCTTCC
3165633 TTTTTCCTTCC
1 TTTTT-CTTCC
3165644 T
1 T
3165645 CTTCGGGGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 19 0.51
11 16 0.43
12 2 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTCTTCC
Found at i:3165790 original size:14 final size:13
Alignment explanation
Indices: 3165760--3165791 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3165750 CTCTTCTTCC
3165760 TTTTTGGTTGCTA
1 TTTTTGGTTGCTA
*
3165773 TTTTTGGTTGCTG
1 TTTTTGGTTGCTA
3165786 TTTTTG
1 TTTTTG
3165792 TTTCTTCTTT
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:0.03, C:0.06, G:0.25, T:0.66
Consensus pattern (13 bp):
TTTTTGGTTGCTA
Found at i:3165972 original size:22 final size:22
Alignment explanation
Indices: 3165929--3165972 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
3165919 GGCCCTTTCG
* *
3165929 TTGCTCTTTTTTGTTTGATTTT
1 TTGCTCTGTTTTCTTTGATTTT
3165951 TTGCTGCTGTTTTCTTTG-TTTT
1 TTGCT-CTGTTTTCTTTGATTTT
3165973 CTTTCGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.02, C:0.11, G:0.16, T:0.70
Consensus pattern (22 bp):
TTGCTCTGTTTTCTTTGATTTT
Found at i:3166321 original size:59 final size:60
Alignment explanation
Indices: 3166252--3166388 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
3166242 ATTTCTTGAG
* * *
3166252 AGTTTAGGGGTTAAAGTG-AAATTTT-GAGAAAGTATAAGGGTCGAAATGT-AATTTTATAA
1 AGTTTAGGGGTAAAAATGTAAATTTTAGA-AAAGT-TAAGGGTCAAAATGTAAATTTTATAA
* *
3166311 AGTTTTGGGGTAAAAATGTAAATTTTAGAAAAGTTTAGGGTCAAAATGTAAATTTTGA-AA
1 AGTTTAGGGGTAAAAATGTAAATTTTAGAAAAGTTAAGGGTCAAAATGTAAATTTT-ATAA
** *
3166371 AGTACAGGGGTTAAAATG
1 AGTTTAGGGGTAAAAATG
3166389 CAAAAAATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 28 0.43
60 34 0.52
61 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (60 bp):
AGTTTAGGGGTAAAAATGTAAATTTTAGAAAAGTTAAGGGTCAAAATGTAAATTTTATAA
Found at i:3166387 original size:30 final size:31
Alignment explanation
Indices: 3166256--3166388 Score: 116
Period size: 30 Copynumber: 4.5 Consensus size: 31
3166246 CTTGAGAGTT
* *
3166256 TAGGGGTTAAAGTG-AAATTTTGAGAAAGTA
1 TAGGGGTCAAAATGTAAATTTTGAGAAAGTA
* * * *
3166286 TAAGGGTCGAAATGT-AATTTT-ATAAAGTT
1 TAGGGGTCAAAATGTAAATTTTGAGAAAGTA
* * *
3166315 TTGGGGTAAAAATGTAAATTTT-AGAAAAGTT
1 TAGGGGTCAAAATGTAAATTTTGAG-AAAGTA
3166346 TA-GGGTCAAAATGTAAATTTTGA-AAAGTA
1 TAGGGGTCAAAATGTAAATTTTGAGAAAGTA
* *
3166375 CAGGGGTTAAAATG
1 TAGGGGTCAAAATG
3166389 CAAAAAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
29 23 0.28
30 51 0.62
31 8 0.10
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (31 bp):
TAGGGGTCAAAATGTAAATTTTGAGAAAGTA
Found at i:3166686 original size:16 final size:16
Alignment explanation
Indices: 3166665--3166695 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3166655 TATGGAACCA
3166665 TATTAAATAATACTAG
1 TATTAAATAATACTAG
3166681 TATTAAATAATACTA
1 TATTAAATAATACTA
3166696 TTTGCATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTAAATAATACTAG
Found at i:3167190 original size:26 final size:26
Alignment explanation
Indices: 3167161--3167218 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
3167151 TTAGATTTAT
*
3167161 ATTATTTTATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
*
3167187 ATTATTTGATAAGCTATAGAGTGAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
3167213 ATTATT
1 ATTATT
3167219 ATGCAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (26 bp):
ATTATTTGATAAGCTATAGAGTAAGA
Found at i:3169286 original size:15 final size:15
Alignment explanation
Indices: 3169268--3169364 Score: 69
Period size: 15 Copynumber: 6.4 Consensus size: 15
3169258 CTTGGCACCT
3169268 TAACCCCTAAATCCC
1 TAACCCCTAAATCCC
3169283 TAACCCCT-AA-CCC
1 TAACCCCTAAATCCC
3169296 TTAAATCCCCCTAAA-CCC
1 -T-AA--CCCCTAAATCCC
*
3169314 TAACCCCCTAAATCAC
1 TAA-CCCCTAAATCCC
*
3169330 TAACCCTTAACAT--C
1 TAACCCCTAA-ATCCC
* *
3169344 TAAGCCCTAAATTCC
1 TAACCCCTAAATCCC
3169359 TAACCC
1 TAACCC
3169365 TTAACCCCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.07
14 12 0.18
15 31 0.46
16 9 0.13
17 6 0.09
18 5 0.07
ACGTcount: A:0.34, C:0.43, G:0.01, T:0.22
Consensus pattern (15 bp):
TAACCCCTAAATCCC
Found at i:3169314 original size:24 final size:22
Alignment explanation
Indices: 3169268--3169395 Score: 77
Period size: 22 Copynumber: 5.8 Consensus size: 22
3169258 CTTGGCACCT
*
3169268 TAACCCCTAAATCCCTAACCCC
1 TAACCCCTAAATCCCTAAACCC
*
3169290 TAACCCTTAAATCCCCCTAAACCC
1 TAACCCCTAAAT--CCCTAAACCC
*
3169314 TAACCCCCTAAATCACT-AACCC
1 TAA-CCCCTAAATCCCTAAACCC
** * *
3169336 TTAACATCT-AAGCCCTAAATTCC
1 -TAACCCCTAAATCCCTAAA-CCC
* * *
3169359 TAA-CCCTTAACCCCTAAACCT
1 TAACCCCTAAATCCCTAAACCC
*
3169380 TAATCCC-AAA-CCCTAA
1 TAACCCCTAAATCCCTAA
3169396 TCCATACCCC
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
20 6 0.07
21 13 0.16
22 36 0.43
23 8 0.10
24 12 0.14
25 8 0.10
ACGTcount: A:0.35, C:0.42, G:0.01, T:0.22
Consensus pattern (22 bp):
TAACCCCTAAATCCCTAAACCC
Found at i:3169375 original size:29 final size:29
Alignment explanation
Indices: 3169319--3169375 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3169309 AACCCTAACC
*
3169319 CCCTAAATCACTAACCCTTAACATCTAAG
1 CCCTAAATCACTAACCCTTAACACCTAAG
*
3169348 CCCTAAATTC-CTAACCCTTAACCCCTAA
1 CCCTAAA-TCACTAACCCTTAACACCTAA
3169376 ACCTTAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.35, C:0.39, G:0.02, T:0.25
Consensus pattern (29 bp):
CCCTAAATCACTAACCCTTAACACCTAAG
Found at i:3170116 original size:81 final size:81
Alignment explanation
Indices: 3169977--3170131 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
3169967 CGTTTCCATC
* * *
3169977 AAAACGCCGCTAAAACTCCAACATTAGCGGCGCTTTACAAAAAAACGCCACTAAAAACCTTAACT
1 AAAACGCCGCTAAAACTCCAAAATTAGCGGCGC-TTACAAAAAAACGCCACTAAAAACCATAACA
3170042 TTAGCGGCGCATTATCG
65 TTAGCGGCGCATTATCG
*
3170059 AAAACGCTGCTAAAAGC-CCTAAAATTAGCGGCG-TT-CAGAAAAAACGCCACTAAAAACCATAA
1 AAAACGCCGCTAAAA-CTCC-AAAATTAGCGGCGCTTACA-AAAAAACGCCACTAAAAACCATAA
3170121 CATTAGCGGCG
63 CATTAGCGGCG
3170132 TTTGTTTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
80 2 0.03
81 35 0.53
82 16 0.24
83 13 0.20
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.17
Consensus pattern (81 bp):
AAAACGCCGCTAAAACTCCAAAATTAGCGGCGCTTACAAAAAAACGCCACTAAAAACCATAACAT
TAGCGGCGCATTATCG
Found at i:3170133 original size:40 final size:40
Alignment explanation
Indices: 3169996--3170131 Score: 132
Period size: 40 Copynumber: 3.3 Consensus size: 40
3169986 CTAAAACTCC
*
3169996 AACATTAGCGGCGCTTTACAAAAAAACGCCACTAAAAACCTT
1 AACATTAGCGGCGC-TT-CAAAAAAACGCCACTAAAAACCAT
* ** ** * *
3170038 AACTTTAGCGGCGCATT-ATCGAAAACGCTGCTAAAAGCCCT
1 AACATTAGCGGCGC-TTCA-AAAAAACGCCACTAAAAACCAT
*
3170079 AAAATTAGCGGCG-TTCAGAAAAAACGCCACTAAAAACCAT
1 AACATTAGCGGCGCTTCA-AAAAAACGCCACTAAAAACCAT
3170119 AACATTAGCGGCG
1 AACATTAGCGGCG
3170132 TTTGTTTAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.41
41 27 0.36
42 15 0.20
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (40 bp):
AACATTAGCGGCGCTTCAAAAAAACGCCACTAAAAACCAT
Found at i:3170276 original size:40 final size:40
Alignment explanation
Indices: 3170194--3170277 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
3170184 GAGTTTGGAG
* * *
3170194 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAAAGGCCTAT
1 TTTTTGTGGCGTTTTAGCAAAAGCGCCACTAAAGCCCGAT
** *
3170234 TTTTTGTGGCGTTTTCTCACAAA-CGCCACTAATGCCCGAT
1 TTTTTGTGGCGTTTTAGCA-AAAGCGCCACTAAAGCCCGAT
3170274 TTTT
1 TTTT
3170278 ACCGGCGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTTGTGGCGTTTTAGCAAAAGCGCCACTAAAGCCCGAT
Found at i:3171604 original size:17 final size:17
Alignment explanation
Indices: 3171582--3171615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3171572 GATAAGGACA
3171582 AAGGGTGGGGTTTAGAT
1 AAGGGTGGGGTTTAGAT
3171599 AAGGGTGGGGTTTAGAT
1 AAGGGTGGGGTTTAGAT
3171616 GAGCGATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.47, T:0.29
Consensus pattern (17 bp):
AAGGGTGGGGTTTAGAT
Found at i:3175129 original size:22 final size:22
Alignment explanation
Indices: 3175101--3175155 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
3175091 ACTCTTAATT
**
3175101 TATTTTTTAATTTATTTAATAA
1 TATTTTTTAATAGATTTAATAA
3175123 TATTTTTTTGAATAGATTTAATAA
1 TA-TTTTTT-AATAGATTTAATAA
*
3175147 TACTTTTTA
1 TATTTTTTA
3175156 TATAAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.11
23 11 0.39
24 14 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTTTAATAGATTTAATAA
Found at i:3175532 original size:4 final size:4
Alignment explanation
Indices: 3175510--3175566 Score: 96
Period size: 4 Copynumber: 14.2 Consensus size: 4
3175500 CGTCTCGAAA
* *
3175510 ATAC GTAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3175558 ATAC ATAC A
1 ATAC ATAC A
3175567 CAACATTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:3181195 original size:19 final size:19
Alignment explanation
Indices: 3181154--3181212 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 19
3181144 CCCTCTCAAC
*
3181154 AAAAATTACAAAATATTT-C
1 AAAAATT-CAAAATATTTAT
3181173 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
3181192 AAAAGAATTCAAAAT-TTTAT
1 -AAA-AATTCAAAATATTTAT
3181212 A
1 A
3181213 TTTTTTTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 10 0.28
19 8 0.22
20 8 0.22
21 10 0.28
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:3183402 original size:31 final size:32
Alignment explanation
Indices: 3183359--3183426 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
3183349 AAAAATATAA
*
3183359 TATATAAAATTACGCA-AAATCAAAATTTATG
1 TATATAAAATTACACACAAATCAAAATTTATG
* * *
3183390 TATATAATATTACACACGAATTCAAAGTTTATG
1 TATATAAAATTACACAC-AAATCAAAATTTATG
3183423 TATA
1 TATA
3183427 GTTTTCAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 14 0.45
33 17 0.55
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (32 bp):
TATATAAAATTACACACAAATCAAAATTTATG
Found at i:3183882 original size:17 final size:18
Alignment explanation
Indices: 3183847--3183883 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3183837 TAAAAAGTAA
*
3183847 AATATTTATGAAAATTTT
1 AATATTTATGAAAACTTT
3183865 AATATTTAT-AAAACTTT
1 AATATTTATGAAAACTTT
3183882 AA
1 AA
3183884 GCCCCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATATTTATGAAAACTTT
Found at i:3191383 original size:18 final size:18
Alignment explanation
Indices: 3191360--3191394 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3191350 TGTCACAGCA
3191360 ACAAGTTAAAAAAAAAGT
1 ACAAGTTAAAAAAAAAGT
* *
3191378 ACAAGTTTAACAAAAAG
1 ACAAGTTAAAAAAAAAG
3191395 ATTAAATTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.17
Consensus pattern (18 bp):
ACAAGTTAAAAAAAAAGT
Found at i:3194784 original size:29 final size:27
Alignment explanation
Indices: 3194743--3194842 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 27
3194733 AAAAAGTTAT
3194743 AAAATTACT-AAATTTTAATAAAAATATTA
1 AAAATTA-TAAAATTTTAA-AAAAATA-TA
* *
3194772 AAAATTATAAAATTAGTAAGAAAATATA
1 AAAATTATAAAATT-TTAAAAAAATATA
* ** *
3194800 AAAATTGTAATTTTTTATAAAAAAATAAAA
1 AAAATTATAA-AATTT-TAAAAAAAT-ATA
3194830 AAAATTATAAAAT
1 AAAATTATAAAAT
3194843 ACATCAAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
28 12 0.22
29 29 0.53
30 14 0.25
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATTATAAAATTTTAAAAAAATATA
Found at i:3194801 original size:37 final size:37
Alignment explanation
Indices: 3194719--3194804 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
3194709 AAAATTATAT
*
3194719 AATATAAAAATAAAAAAAAGTTATAAAATTACTAAAT
1 AATATAAAAATAAAAAAAAGTTATAAAATTACTAAAA
** ** *
3194756 TTTAATAAAAATATTAAAAA-TTATAAAATTAGTAAGAA
1 AAT-ATAAAAATAAAAAAAAGTTATAAAATTACTAA-AA
3194794 AATATAAAAAT
1 AATATAAAAAT
3194805 TGTAATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
37 23 0.59
38 16 0.41
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (37 bp):
AATATAAAAATAAAAAAAAGTTATAAAATTACTAAAA
Found at i:3194809 original size:19 final size:18
Alignment explanation
Indices: 3194760--3194809 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
3194750 CTAAATTTTA
*
3194760 ATAAAAATAT-TAAAAATT
1 ATAAAAAT-TGTAAAAAAT
3194778 AT-AAAATTAGTAAGAAAAT
1 ATAAAAATT-GTAA-AAAAT
3194797 ATAAAAATTGTAA
1 ATAAAAATTGTAA
3194810 TTTTTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 5 0.19
19 10 0.37
20 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
ATAAAAATTGTAAAAAAT
Found at i:3195085 original size:21 final size:20
Alignment explanation
Indices: 3195041--3195099 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
3195031 AAATAATAAT
3195041 TTTACTATTTTTAT-A-TTTC
1 TTTAC-ATTTTTATAATTTTC
3195060 TTTACATTTTTTTATAATTTTC
1 TTTACA--TTTTTATAATTTTC
*
3195082 -TTACAATTTTATAATTTT
1 TTTACATTTTTATAATTTT
3195100 TTTCTGTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 7 0.20
21 6 0.17
22 4 0.11
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTACATTTTTATAATTTTC
Found at i:3195177 original size:19 final size:19
Alignment explanation
Indices: 3195119--3195177 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
3195109 TTCTATATAA
* *
3195119 TTTATAATTTTTATAAAAT
1 TTTATAATTTTTATTAATT
**
3195138 TTTGCAATTTTT-TTACGATT
1 TTTATAATTTTTATTA--ATT
3195158 TTTATAATTTTTATTAATT
1 TTTATAATTTTTATTAATT
3195177 T
1 T
3195178 ATCTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 12 0.39
21 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTATAATTTTTATTAATT
Found at i:3197270 original size:21 final size:21
Alignment explanation
Indices: 3197193--3197291 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
3197183 GCTTCAGTTT
* *
3197193 AACTCATATGAGTTTCCGTTC
1 AACTCTTATGAGTTTTCGTTC
* * * *
3197214 AGCTCTTTTGAG-CTTCTGTTT
1 AACTCTTATGAGTTTTC-GTTC
*
3197235 AAC-CGTTATGGGTTTTCGTTC
1 AACTC-TTATGAGTTTTCGTTC
*
3197256 AGCTCTTATGAGTTTTCGTTC
1 AACTCTTATGAGTTTTCGTTC
* *
3197277 AACCCTTATGGGTTT
1 AACTCTTATGAGTTT
3197292 CTGTTTAGCA
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
20 3 0.05
21 51 0.88
22 4 0.07
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.44
Consensus pattern (21 bp):
AACTCTTATGAGTTTTCGTTC
Found at i:3197286 original size:42 final size:42
Alignment explanation
Indices: 3197163--3197317 Score: 132
Period size: 42 Copynumber: 3.7 Consensus size: 42
3197153 TAGTGTTTAC
* * * * * * * * *
3197163 TTTCTGTTTAGCTCTCACGAGCTTCAGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* * *
3197205 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCGTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* *
3197247 TTTTCGTTCAGCTCTTATGAG-TTTTCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCT-GTTCAACCCTTATGGG
* * * *
3197289 TTTCTGTTTAGCACTTATGTGCTTCTGTT
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTT
3197318 TAGCCTTCGG
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 3 0.03
42 84 0.93
43 3 0.03
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
Found at i:3197305 original size:21 final size:21
Alignment explanation
Indices: 3197281--3197321 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3197271 TCGTTCAACC
*
3197281 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTTTAGCA
*
3197302 CTTATGTGCTTCTGTTTAGC
1 CTTATGGGCTTCTGTTTAGC
3197322 CTTCGGGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (21 bp):
CTTATGGGCTTCTGTTTAGCA
Found at i:3199233 original size:3 final size:3
Alignment explanation
Indices: 3199227--3199256 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
3199217 TAGTCCCCAA
3199227 ATT ATT ATT ATT ATT ATT ATT ATTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT
3199257 GGTTTAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3215460 original size:24 final size:24
Alignment explanation
Indices: 3215433--3215485 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3215423 TTTATTGAAG
* *
3215433 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
* *
3215457 ATTTAGCATTTTTTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
3215481 ATTTA
1 ATTTA
3215486 ACTTTGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:3215496 original size:24 final size:24
Alignment explanation
Indices: 3215440--3215496 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
3215430 AAGATTTAGT
* * *
3215440 ATTTATGAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTAAC
*
3215464 ATTTTTTAGCATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
3215488 -TTTGATTAG
1 ATTT-ATTAG
3215497 AATTAGGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:3228608 original size:28 final size:28
Alignment explanation
Indices: 3228569--3228655 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
3228559 TAAAAATAAA
3228569 AAAAGTTA-TAAAATTATTAAATTTTAAT
1 AAAA-TTATTAAAATTATTAAATTTTAAT
* *
3228597 AAAATTATTAAAATTATTAAATTAGTAAG
1 AAAATTATTAAAATTATTAAATT-TTAAT
* * *
3228626 AAAA-TATAAAAATT-GTAAATTTTTAT
1 AAAATTATTAAAATTATTAAATTTTAAT
3228652 AAAA
1 AAAA
3228656 AATAAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 6 0.12
27 9 0.18
28 28 0.56
29 7 0.14
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
AAAATTATTAAAATTATTAAATTTTAAT
Found at i:3228668 original size:17 final size:19
Alignment explanation
Indices: 3228648--3228683 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
3228638 TTGTAAATTT
3228648 TTATAAAA-A-ATAAAAAA
1 TTATAAAATACATAAAAAA
3228665 TTATAAAATACATAAAAAA
1 TTATAAAATACATAAAAAA
3228684 GACTCTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
TTATAAAATACATAAAAAA
Found at i:3228673 original size:28 final size:29
Alignment explanation
Indices: 3228578--3228673 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 29
3228568 AAAAAGTTAT
* * *
3228578 AAAATTATTAAATTTTAAT-AAAATTATT
1 AAAATTATTAAATTTTTATAAAAAATATA
** *
3228606 AAAATTATTAAATTAGTA-AGAAAATATA
1 AAAATTATTAAATTTTTATAAAAAATATA
*
3228634 AAAATT-GTAAATTTTTATAAAAAATA-A
1 AAAATTATTAAATTTTTATAAAAAATATA
*
3228661 AAAATTATAAAAT
1 AAAATTATTAAAT
3228674 ACATAAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 15 0.28
28 38 0.72
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTATTAAATTTTTATAAAAAATATA
Found at i:3228967 original size:22 final size:22
Alignment explanation
Indices: 3228939--3228982 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3228929 AATTTATAAC
3228939 TTTTATAAAATTTTACAATTTT
1 TTTTATAAAATTTTACAATTTT
** *
3228961 TTTTATAATTTTTTACGATTTT
1 TTTTATAAAATTTTACAATTTT
3228983 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATAAAATTTTACAATTTT
Found at i:3228999 original size:16 final size:18
Alignment explanation
Indices: 3228978--3229016 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3228968 ATTTTTTACG
*
3228978 ATTTTA-TA-AATTTTAT
1 ATTTTATTACAATTTAAT
3228994 ATTTTATTACAATTTAAT
1 ATTTTATTACAATTTAAT
3229012 ATTTT
1 ATTTT
3229017 TTTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATTACAATTTAAT
Found at i:3229018 original size:27 final size:27
Alignment explanation
Indices: 3228959--3229029 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
3228949 TTTTACAATT
* *
3228959 TTTTTTATAATTTTTTACGATTTTATA
1 TTTTTTATAATTTTTTACAATTTAATA
**
3228986 AATTTTAT-ATTTTATTACAATTTAATA
1 TTTTTTATAATTTT-TTACAATTTAATA
3229013 TTTTTTTTATAATTTTT
1 --TTTTTTATAATTTTT
3229030 ATTAATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.15
27 17 0.50
29 7 0.21
30 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTTTATAATTTTTTACAATTTAATA
Found at i:3229032 original size:18 final size:18
Alignment explanation
Indices: 3228956--3229032 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 18
3228946 AAATTTTACA
3228956 ATTTTTTTTATAATTTTT
1 ATTTTTTTTATAATTTTT
*** *
3228974 -TACGATTTTATAAATTTT
1 AT-TTTTTTTATAATTTTT
* * *
3228992 ATATTTTATTACAATTTAAT
1 AT-TTTTTTTATAATTT-TT
3229012 ATTTTTTTTATAATTTTT
1 ATTTTTTTTATAATTTTT
3229030 ATT
1 ATT
3229033 AATTTTTCTT
Statistics
Matches: 42, Mismatches: 14, Indels: 6
0.68 0.23 0.10
Matches are distributed among these distances:
17 1 0.02
18 16 0.38
19 22 0.52
20 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTTTTTATAATTTTT
Found at i:3229038 original size:56 final size:58
Alignment explanation
Indices: 3228898--3229038 Score: 143
Period size: 56 Copynumber: 2.4 Consensus size: 58
3228888 TTTCTTTACA
*
3228898 TTTTTTATAATTTTTTTCTATATTTCTATATAATTTATAACTTTTATAAAATTTTACAATT
1 TTTTTTATAA-TTTTTT-TACATTT-TATATAATTTATAACTTTTATAAAATTTTACAATT
*
3228959 TTTTTTATAA-TTTTTTACGATTTTATA-AATTT-TATA-TTTTATTACAA-TTTA-ATATT
1 TTTTTTATAATTTTTTTAC-ATTTTATATAATTTATA-ACTTTTA-TAAAATTTTACA-ATT
3229015 TTTTTTATAATTTTTATTA-ATTTT
1 TTTTTTATAATTTTT-TTACATTTT
3229039 TCTTTCTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
55 1 0.01
56 29 0.40
57 14 0.19
58 9 0.12
59 9 0.12
61 10 0.14
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (58 bp):
TTTTTTATAATTTTTTTACATTTTATATAATTTATAACTTTTATAAAATTTTACAATT
Found at i:3239165 original size:36 final size:36
Alignment explanation
Indices: 3239118--3239187 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
3239108 CCATAGATGC
* *
3239118 AGTGGATTCACCATAAGTTACCATAGAAGCAGTGAA
1 AGTGGATTCACCATAAGTAACCAAAGAAGCAGTGAA
* *
3239154 AGTGGGTTCACCATAGGTAACCAAAGAAGCAGTG
1 AGTGGATTCACCATAAGTAACCAAAGAAGCAGTG
3239188 TAGTTAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (36 bp):
AGTGGATTCACCATAAGTAACCAAAGAAGCAGTGAA
Found at i:3241650 original size:15 final size:16
Alignment explanation
Indices: 3241630--3241661 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3241620 TTTAAAATAC
3241630 TTTTAAAAT-AATTTT
1 TTTTAAAATAAATTTT
3241645 TTTTAAAATAAATTTT
1 TTTTAAAATAAATTTT
3241661 T
1 T
3241662 AATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAAATAAATTTT
Found at i:3241665 original size:26 final size:25
Alignment explanation
Indices: 3241618--3241677 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
3241608 TTATTTTTTA
*
3241618 ATTTTAAAATACTTTTAAAATAATTT
1 ATTTTAAAATAATTTTAAAAT-ATTT
* *
3241644 TTTTTAAAATAAATTTT-TAATATTT
1 ATTTTAAAAT-AATTTTAAAATATTT
3241669 ATTTTAAAA
1 ATTTTAAAA
3241678 ATGGGCCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.41
26 12 0.41
27 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTTAAAATAATTTTAAAATATTT
Found at i:3244430 original size:36 final size:36
Alignment explanation
Indices: 3244389--3244461 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3244379 TGAATGAGAT
3244389 TGATTATATAATGTTTTCATATTGATTGATAGTATA
1 TGATTATATAATGTTTTCATATTGATTGATAGTATA
3244425 TGATTATATAATGTTTTCATATTGATTGATAGTATA
1 TGATTATATAATGTTTTCATATTGATTGATAGTATA
3244461 T
1 T
3244462 ACATGGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.51
Consensus pattern (36 bp):
TGATTATATAATGTTTTCATATTGATTGATAGTATA
Found at i:3246075 original size:29 final size:29
Alignment explanation
Indices: 3246023--3246080 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
3246013 AATATTAAAA
*
3246023 AATATATTAAAATCATTAACAATTGTATT
1 AATATATTAAAATAATTAACAATTGTATT
* *
3246052 AATATTTTAAAAATAATTAA-AATTTTATT
1 AATATATT-AAAATAATTAACAATTGTATT
3246081 GAGAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
AATATATTAAAATAATTAACAATTGTATT
Found at i:3250431 original size:18 final size:18
Alignment explanation
Indices: 3250391--3250436 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3250381 ATATTACTTC
* *
3250391 TAAAAAGTTTTTTTAGGA
1 TAAAAAGTATTTTTAAGA
*
3250409 CAAAAAGTATTTTTAAGA
1 TAAAAAGTATTTTTAAGA
3250427 TAAAAA-TATT
1 TAAAAAGTATT
3250437 GCTAAACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAAAAGTATTTTTAAGA
Found at i:3253081 original size:20 final size:21
Alignment explanation
Indices: 3253047--3253096 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
3253037 CCAAATTTTT
3253047 TTTTAGAAAATTAAAAAAAGTA
1 TTTTA-AAAATTAAAAAAAGTA
*
3253069 TTTTAAAAA-TAAAAAAATTA
1 TTTTAAAAATTAAAAAAAGTA
3253089 TTTTAAAA
1 TTTTAAAA
3253097 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 18 0.67
21 4 0.15
22 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
TTTTAAAAATTAAAAAAAGTA
Found at i:3253241 original size:31 final size:35
Alignment explanation
Indices: 3253190--3253260 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 35
3253180 TGCCAGAAAA
*
3253190 CGGGCCTAATTTTTTGCCC-AA-TC-C-CATATTT
1 CGGGCCTAATTTTTTACCCAAACTCTCTCATATTT
3253221 CGGGCCT-ATATTTTTACCCAAACTCTCTCATATTT
1 CGGGCCTAAT-TTTTTACCCAAACTCTCTCATATTT
3253256 CGGGC
1 CGGGC
3253261 GGGCCGTCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 2 0.06
31 15 0.44
32 2 0.06
33 2 0.06
34 1 0.03
35 12 0.35
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (35 bp):
CGGGCCTAATTTTTTACCCAAACTCTCTCATATTT
Found at i:3255737 original size:14 final size:14
Alignment explanation
Indices: 3255654--3255737 Score: 54
Period size: 13 Copynumber: 6.1 Consensus size: 14
3255644 TATATTTTAA
*
3255654 AATATTTTCAATA-
1 AATATTTTTAATAT
3255667 AATATTTTTAAT-T
1 AATATTTTTAATAT
*
3255680 CAATAAGTTTT-ATAT
1 -AAT-ATTTTTAATAT
3255695 AATATTTTTAA-A-
1 AATATTTTTAATAT
* *
3255707 AATTAAGTTCT-ATAT
1 AA-T-ATTTTTAATAT
3255722 AATATTTTTAATAT
1 AATATTTTTAATAT
3255736 AA
1 AA
3255738 AAATATTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
12 2 0.04
13 23 0.43
14 21 0.39
15 8 0.15
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (14 bp):
AATATTTTTAATAT
Found at i:3258289 original size:50 final size:50
Alignment explanation
Indices: 3258174--3258422 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
3258164 GATCATAACA
* * ** *
3258174 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
3258225 TGGCC-ATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
3258275 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
3258325 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
3258380 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3258423 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
49 3 0.02
50 92 0.54
51 29 0.17
52 3 0.02
53 4 0.02
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:3258795 original size:30 final size:30
Alignment explanation
Indices: 3258761--3258818 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3258751 CCTCGACTCT
* *
3258761 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
3258791 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
3258819 AAGGCTCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:3264166 original size:14 final size:15
Alignment explanation
Indices: 3264146--3264186 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
3264136 TTTGATTGGC
3264146 AGTAAAATGTTTTCT
1 AGTAAAATGTTTTCT
*
3264161 -GTAAAATGATTTCT
1 AGTAAAATGTTTTCT
3264175 AG-AAAATGTTTT
1 AGTAAAATGTTTT
3264187 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 22 0.96
15 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:3264198 original size:34 final size:35
Alignment explanation
Indices: 3264155--3264221 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3264145 CAGTAAAATG
* *
3264155 TTTTCTGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCTGTAAAATAATTTACTAGAAAATATTTTAC
*
3264189 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATAATTTACTAGAAAATATTTT
3264222 TTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:3264327 original size:18 final size:19
Alignment explanation
Indices: 3264300--3264352 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
3264290 GAAAAGTTGT
*
3264300 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
3264319 TTTATATATATATTAATAAA
1 TTT-TATATATATTAATAAA
*
3264339 TTTT-TATATTTTAA
1 TTTTATATATATTAA
3264353 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 4 0.13
20 18 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:3264348 original size:16 final size:20
Alignment explanation
Indices: 3264306--3264347 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3264296 TTGTTTTTAC
3264306 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
*
3264326 ATATATTAATAAATTTTTAT
1 ATATATTAATAAATTTATAT
3264346 AT
1 AT
3264348 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:3268343 original size:27 final size:29
Alignment explanation
Indices: 3268277--3268335 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
3268267 AAAATTGACT
* * *
3268277 TAAATTAATTTTTTTAATAATATAAAAAT
1 TAAATTAATCTATTTAATAATATAAAAAG
3268306 TAAATTAATCTATTTAATAA-A-AAAAAG
1 TAAATTAATCTATTTAATAATATAAAAAG
3268333 TAA
1 TAA
3268336 TTTTATCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 1 0.04
29 18 0.67
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
TAAATTAATCTATTTAATAATATAAAAAG
Done.