Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 33 of 322
Found at i:9792620 original size:62 final size:61
Alignment explanation
Indices: 9792550--9792733 Score: 234
Period size: 62 Copynumber: 3.0 Consensus size: 61
9792540 TCTATTGCCT
* * *
9792550 TATTCAAAAGAACTTCTATTTTGTTAAATAGGACAAAATATAAAAATAATTTACTATTAAA-A
1 TATTCAAAACAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTT-CTA-CAAATA
* *
9792612 TATTCAAAATAAC-TCTTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTC-TATTTTATTAAATAGGACAAAATATAAAAATAATTTCTACAAATA
* *
9792673 TATTCAAAACAACTTATATTTTATTAAAT--GA-AACAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATAGGACAA-AATATAAAAATAATTTCTACAAATA
9792732 TA
1 TA
9792734 CTAAAAAAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
58 2 0.02
59 29 0.26
60 3 0.03
61 30 0.27
62 48 0.43
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (61 bp):
TATTCAAAACAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTCTACAAATA
Found at i:9793114 original size:18 final size:18
Alignment explanation
Indices: 9793088--9793129 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9793078 GATTGAGAAA
* *
9793088 AGGAAACATATAAGAGTT
1 AGGATACATATAAGAGCT
*
9793106 AGGATACATATAAGGGCT
1 AGGATACATATAAGAGCT
9793124 AGGATA
1 AGGATA
9793130 TGCATCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:9793623 original size:23 final size:21
Alignment explanation
Indices: 9793583--9793625 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
9793573 CATGCCAGAT
9793583 ATTCAAATTCTGTATGAATTC
1 ATTCAAATTCTGTATGAATTC
*
9793604 ATTCAGAATTACTGTCTGAATT
1 ATTCA-AATT-CTGTATGAATT
9793626 GTTGGATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTCAAATTCTGTATGAATTC
Found at i:9795391 original size:53 final size:54
Alignment explanation
Indices: 9795311--9795419 Score: 141
Period size: 53 Copynumber: 2.0 Consensus size: 54
9795301 GCGGAATTAG
* *
9795311 TTGAATGATCAAATTAAAAAAAATAATAATT-AGGTGACAAAAAAAGA-CAATAA
1 TTGAATAACCAAATTAAAAAAAATAATAATTGA-GTGACAAAAAAAGAGCAATAA
* * * *
9795364 TTGAATAACCAAATTAAAAGAATTAATAGTTGAGTGACAAAAAAATAGCAATAA
1 TTGAATAACCAAATTAAAAAAAATAATAATTGAGTGACAAAAAAAGAGCAATAA
9795418 TT
1 TT
9795420 AGTGATTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 39 0.81
54 9 0.19
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (54 bp):
TTGAATAACCAAATTAAAAAAAATAATAATTGAGTGACAAAAAAAGAGCAATAA
Found at i:9797262 original size:16 final size:16
Alignment explanation
Indices: 9797236--9797272 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9797226 CATGTAATTC
9797236 TGATA-ATCCTTTGAA
1 TGATATATCCTTTGAA
9797251 TGATATATCCTTTGAA
1 TGATATATCCTTTGAA
9797267 TGATAT
1 TGATAT
9797273 GTGCAGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (16 bp):
TGATATATCCTTTGAA
Found at i:9800873 original size:18 final size:18
Alignment explanation
Indices: 9800850--9800906 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
9800840 CCCAACTACT
* *
9800850 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
9800868 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
9800886 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
9800904 GTA
1 GTA
9800907 AACGGTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:9808962 original size:13 final size:13
Alignment explanation
Indices: 9808944--9808969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9808934 GGCAATGAAT
9808944 TGTTTAGGATCAA
1 TGTTTAGGATCAA
9808957 TGTTTAGGATCAA
1 TGTTTAGGATCAA
9808970 GATACAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGTTTAGGATCAA
Found at i:9814483 original size:60 final size:59
Alignment explanation
Indices: 9814408--9814586 Score: 313
Period size: 60 Copynumber: 3.0 Consensus size: 59
9814398 GGGTTTCGAT
*
9814408 AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTTATACAAAAATATTCAAAAAA
1 AACTTCT-ATTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAAA
*
9814468 AACTTCTATTCTATTAAATGAAGCAATATAAAAATAATTTGTACAAAAATATTCAAAAAA
1 AACTTCTATT-TATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAAA
9814528 AACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAA
1 AACTTCTA-TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAA
9814587 TAAATCAATA
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
59 3 0.03
60 109 0.96
61 2 0.02
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (59 bp):
AACTTCTATTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAAA
Found at i:9817199 original size:17 final size:17
Alignment explanation
Indices: 9817159--9817217 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
9817149 GATAAAATGT
**
9817159 ATAAAATATAATATATA
1 ATAAAATATAATATGGA
*
9817176 A-AAAATATCATATGGA
1 ATAAAATATAATATGGA
* *
9817192 GTAAAATATAATATGTA
1 ATAAAATATAATATGGA
9817209 ATAAAATAT
1 ATAAAATAT
9817218 GAAAACAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (17 bp):
ATAAAATATAATATGGA
Found at i:9817358 original size:21 final size:22
Alignment explanation
Indices: 9817325--9817370 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
9817315 ATTTTTATAC
*
9817325 ATAATTAAGA-TTTAAAAAAAT
1 ATAATAAAGATTTTAAAAAAAT
*
9817346 ATAATAAATATTTTTAAAAAAAT
1 ATAATAAAGA-TTTTAAAAAAAT
9817369 AT
1 AT
9817371 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
23 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAATAAAGATTTTAAAAAAAT
Found at i:9819795 original size:12 final size:13
Alignment explanation
Indices: 9819766--9819790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9819756 ATCTACCGAC
9819766 AATTATAAAAAAA
1 AATTATAAAAAAA
9819779 AATTATAAAAAA
1 AATTATAAAAAA
9819791 TATTAATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTATAAAAAAA
Found at i:9826296 original size:6 final size:6
Alignment explanation
Indices: 9826285--9826313 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9826275 AATATGTACC
9826285 AACAAA AACAAA AACAAA AA-AAA AACAAA
1 AACAAA AACAAA AACAAA AACAAA AACAAA
9826314 CAAACAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:9826306 original size:15 final size:15
Alignment explanation
Indices: 9826285--9826322 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9826275 AATATGTACC
9826285 AACAAAAACAAAAACA
1 AACAAAAA-AAAAACA
9826301 AA-AAAAAAACAAACA
1 AACAAAAAAA-AAACA
9826316 AACAAAA
1 AACAAAA
9826323 GAACTCACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (15 bp):
AACAAAAAAAAAACA
Found at i:9826308 original size:11 final size:12
Alignment explanation
Indices: 9826285--9826313 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9826275 AATATGTACC
9826285 AACAAAAACAAA
1 AACAAAAACAAA
9826297 AACAAAAA-AAA
1 AACAAAAACAAA
9826308 AACAAA
1 AACAAA
9826314 CAAACAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAAAAACAAA
Found at i:9828116 original size:23 final size:23
Alignment explanation
Indices: 9828086--9828132 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9828076 CATGGATTAG
*
9828086 TATGCATGAATTGTGAAGTTTTA
1 TATGCATGAATTATGAAGTTTTA
9828109 TATGCATGAATTATGAAGTTTTA
1 TATGCATGAATTATGAAGTTTTA
9828132 T
1 T
9828133 GGTAGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (23 bp):
TATGCATGAATTATGAAGTTTTA
Found at i:9828977 original size:24 final size:24
Alignment explanation
Indices: 9828944--9829014 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 24
9828934 AGGCTCTTTG
*
9828944 TGAGCTTCCCGTTAATGGCTCTCCA
1 TGAGCTTCCCGTTAATGGCTC-ACA
9828969 -GAGCTTCCCGTTACATGGCTCACA
1 TGAGCTTCCCGTTA-ATGGCTCACA
*
9828993 TGAGCTTCCCGTTTATGTGCTC
1 TGAGCTTCCCGTTAATG-GCTC
9829015 GTATGAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 18 0.44
25 23 0.56
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.32
Consensus pattern (24 bp):
TGAGCTTCCCGTTAATGGCTCACA
Found at i:9832331 original size:40 final size:40
Alignment explanation
Indices: 9832269--9832361 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
9832259 TCTATGCCTG
* * *
9832269 GTGTGTTTCAGTTGGCCCAGCTCTAATGAGCTTCTGTCTA
1 GTGTGTTTCAGTTGGACAAGCTCTAATGAGCATCTGTCTA
* * * *
9832309 GTGTGTTTCGGTTGGATAAGCTCTTATGAGCATCTGTCTG
1 GTGTGTTTCAGTTGGACAAGCTCTAATGAGCATCTGTCTA
9832349 GTGTG-TTCAGTTG
1 GTGTGTTTCAGTTG
9832362 ATCTGACGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 7 0.16
40 38 0.84
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (40 bp):
GTGTGTTTCAGTTGGACAAGCTCTAATGAGCATCTGTCTA
Found at i:9836673 original size:71 final size:71
Alignment explanation
Indices: 9836557--9836694 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
9836547 TTTTGGAGTA
*
9836557 ATTTGATAAATAACATATTTTAAGGATAAAATAGGCAAAAGATCAAATAAAAAATTAAAATAATT
1 ATTTGATAAATAACACATTTTAAGGATAAAATAGGCAAAAGATCAAATAAAAAATTAAAATAATT
9836622 TTAATG
66 TTAATG
9836628 ATTTGATAAATAACACATTTTAAGGATAAAATAGGCAAAAGATCAAATAAAAAATTAAAATAATT
1 ATTTGATAAATAACACATTTTAAGGATAAAATAGGCAAAAGATCAAATAAAAAATTAAAATAATT
9836693 TT
66 TT
9836695 TTTTAAGTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.30
Consensus pattern (71 bp):
ATTTGATAAATAACACATTTTAAGGATAAAATAGGCAAAAGATCAAATAAAAAATTAAAATAATT
TTAATG
Found at i:9848757 original size:18 final size:18
Alignment explanation
Indices: 9848719--9848756 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9848709 CATGATATTC
*
9848719 AAAGTTATTTCATAAAAA
1 AAAGTTAATTCATAAAAA
9848737 AAAGTTAATT-ATAAAAA
1 AAAGTTAATTCATAAAAA
9848754 AAA
1 AAA
9848757 AAAGCTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAGTTAATTCATAAAAA
Found at i:9864927 original size:69 final size:69
Alignment explanation
Indices: 9864842--9864999 Score: 219
Period size: 69 Copynumber: 2.3 Consensus size: 69
9864832 TATAGTTAGA
* * * *
9864842 AGCTTGAGCTAACGCTAACTATTTTGGAGGCTGT-GTTGTTAAACCAACGAGCTTGAGATTACAT
1 AGCTTGAGCTAGCGCTAACTATTTTGGAGGCT-TCATTGTTAAACCAACGAGCCTGAGATTACAA
*
9864906 CTGGG
65 CTGAG
* *
9864911 AGCTTGAGCTAGCGCTAACTATTTTGGAGGCTTCATTGTTGAACCTACGAGCCTGAGATTACAAC
1 AGCTTGAGCTAGCGCTAACTATTTTGGAGGCTTCATTGTTAAACCAACGAGCCTGAGATTACAAC
9864976 TGAG
66 TGAG
* *
9864980 AGCTTGAACTCGCGCTAACT
1 AGCTTGAGCTAGCGCTAACT
9865000 GTATTAGAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 78 0.99
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (69 bp):
AGCTTGAGCTAGCGCTAACTATTTTGGAGGCTTCATTGTTAAACCAACGAGCCTGAGATTACAAC
TGAG
Found at i:9865053 original size:69 final size:69
Alignment explanation
Indices: 9864988--9865183 Score: 198
Period size: 69 Copynumber: 2.9 Consensus size: 69
9864978 AGAGCTTGAA
* * * *
9864988 CTCGCGCTAACTGTATTAGAGGTTACTATTCTT-ACCTGTGAGCCTTAATATGATAGCTAGAAGC
1 CTCGCGCTAACTGTATTAGAGGCTACGACTCTTCACCTGCGAGCCTTAATATGATAGCTAGAAGC
9865052 TTTG
66 TTTG
* * * * * * * *
9865056 CTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGT
1 CTCGCGCTAACTGTATTAGAGGCTACGACTCTTCACCTGCGAGCCTTAATATGATAGCTAGAAGC
9865121 TTTG
66 TTTG
** * * * * *
9865125 CTCTTGCTAACTGTGTTGGAGGCTA-TAGCTCTTCACCTGCGAACCTTAATGTGATAGCT
1 CTCGCGCTAACTGTATTAGAGGCTACGA-CTCTTCACCTGCGAGCCTTAATATGATAGCT
9865184 GGGAGATTTG
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
68 27 0.25
69 83 0.75
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (69 bp):
CTCGCGCTAACTGTATTAGAGGCTACGACTCTTCACCTGCGAGCCTTAATATGATAGCTAGAAGC
TTTG
Found at i:9865184 original size:69 final size:69
Alignment explanation
Indices: 9865017--9865286 Score: 292
Period size: 69 Copynumber: 3.9 Consensus size: 69
9865007 AGGTTACTAT
* * * * *
9865017 TCTT-ACCTGTGAGCCTTAATATGATAGCTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTG
1 TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGATTTGCTCTCGCTAACTGTGTTGGAGGCTG
*
9865081 CGAC
66 AGAC
* *
9865085 TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGTTTTGCTCTTGCTAACTGTGTTGGAGGCT-
1 TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGATTTGCTCTCGCTAACTGTGTTGGAGGCTG
*
9865149 ATAGC
66 AGA-C
* ** **
9865154 TCTTCACCTGCGAACCTTAATGTGATAGCTGGGAGATTTGCTCTCATTAACCATGTTGGAGGCTG
1 TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGATTTGCTCTCGCTAACTGTGTTGGAGGCTG
*
9865219 CGAC
66 AGAC
* * * * * * * * * *
9865223 TTTTCACCTGCGAGTCTTGATGTGACAACTGGGAGCTTTACTTTCACTAATTGTGTTGGAGGCT
1 TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGATTTGCTCTCGCTAACTGTGTTGGAGGCT
9865287 TTTGCTATTC
Statistics
Matches: 169, Mismatches: 30, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
68 5 0.03
69 163 0.96
70 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (69 bp):
TCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGATTTGCTCTCGCTAACTGTGTTGGAGGCTG
AGAC
Found at i:9865211 original size:138 final size:137
Alignment explanation
Indices: 9865017--9865286 Score: 344
Period size: 138 Copynumber: 2.0 Consensus size: 137
9865007 AGGTTACTAT
* * * * **
9865017 TCTTACCTGTGAGCCTTAATATGATAGCTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGC
1 TCTTACCTGCGAACCTTAATATGATAGCTAGAAGATTTGCTCTCACTAACCATGTTGGAGGCTGC
* * * * *
9865082 GACTCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGTTTTGCTCTT-GCTAACTGTGTTGGAG
66 GACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACT-TTCACTAACTGTGTTGGAG
9865146 GCTATAGC
130 GCTATAGC
* * * *
9865154 TCTTCACCTGCGAACCTTAATGTGATAGCTGGGAGATTTGCTCTCATTAACCATGTTGGAGGCTG
1 TCTT-ACCTGCGAACCTTAATATGATAGCTAGAAGATTTGCTCTCACTAACCATGTTGGAGGCTG
* * * *
9865219 CGACTTTTCACCTGCGAGTCTTGATGTGACAACTGGGAGCTTTACTTTCACTAATTGTGTTGGAG
65 CGACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACTTTCACTAACTGTGTTGGAG
9865284 GCT
130 GCT
9865287 TTTGCTATTC
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 6 0.05
138 106 0.95
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (137 bp):
TCTTACCTGCGAACCTTAATATGATAGCTAGAAGATTTGCTCTCACTAACCATGTTGGAGGCTGC
GACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACTTTCACTAACTGTGTTGGAGG
CTATAGC
Found at i:9865322 original size:138 final size:138
Alignment explanation
Indices: 9865069--9865331 Score: 330
Period size: 138 Copynumber: 1.9 Consensus size: 138
9865059 TCGCTAACTG
* * * * *
9865069 TGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATGTGATAGCTGGGAGTTTTGCTCTTGCTA
1 TGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACTCTTACTA
* * ** *
9865134 ACTGTGTTGGAGGCTATAGCTCTTCACCTGCGAACCTTAATGTGATAGCTGGGAGATTTGCTCTC
66 ACTGTGTTGGAGGCTATAGCTATTCACCTGCCAACCTTAATAAGACAGCTGGGAGATTTGCTCTC
9865199 ATTAACCA
131 ATTAACCA
* * *
9865207 TGTTGGAGGCTGCGACTTTTCACCTGCGAGTCTTGATGTGACAACTGGGAGCTTTACT-TTCACT
1 TGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACTCTT-ACT
* * * * * * *
9865271 AATTGTGTTGGAGGCTTTTGCTATTCACTTGCCAGCCTTAGTAAGACAGCTGGGAGCTTTG
65 AACTGTGTTGGAGGCTATAGCTATTCACCTGCCAACCTTAATAAGACAGCTGGGAGATTTG
9865332 GTCGCCTTAG
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
137 2 0.02
138 102 0.98
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (138 bp):
TGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATGTGACAACTGGGAGCTTTACTCTTACTA
ACTGTGTTGGAGGCTATAGCTATTCACCTGCCAACCTTAATAAGACAGCTGGGAGATTTGCTCTC
ATTAACCA
Found at i:9865341 original size:30 final size:30
Alignment explanation
Indices: 9865305--9865364 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
9865295 TCACTTGCCA
9865305 GCCTTAGTAAGACAGCTGGGAGCTTTGGTC
1 GCCTTAGTAAGACAGCTGGGAGCTTTGGTC
9865335 GCCTTAGTAAGACAGCTGGGAGCTTTGGTC
1 GCCTTAGTAAGACAGCTGGGAGCTTTGGTC
9865365 TCGCTAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (30 bp):
GCCTTAGTAAGACAGCTGGGAGCTTTGGTC
Found at i:9865536 original size:69 final size:68
Alignment explanation
Indices: 9865345--9865539 Score: 225
Period size: 69 Copynumber: 2.8 Consensus size: 68
9865335 GCCTTAGTAA
* *
9865345 GACAGCTGGGAGCTTTGGTCTCGCTAATTGTGTTGAAGGTTGCAGCTCTTCACCTTTG-AGTCTT
1 GACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGTTGCAGCTCTTCA-C-TTGCAGTCTT
9865409 AATAT
64 AATAT
* *
9865414 GACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCTA-CTCTTCACTTGCAAG-CTT
1 GACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGTTGC-AGCTCTTCACTTGC-AGTC-T
*
9865477 TAATGT
63 TAATAT
* *** * *
9865483 GACAACTGGGAGCTTTGCTCTTATTAACTGTGTTGAAGGCTGCAGCTTTTCACTTGC
1 GACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGTTGCAGCTCTTCACTTGC
9865540 GAGCCTTAGG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
67 3 0.03
68 3 0.03
69 101 0.94
70 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (68 bp):
GACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGTTGCAGCTCTTCACTTGCAGTCTTAA
TAT
Found at i:9865537 original size:237 final size:237
Alignment explanation
Indices: 9865111--9865548 Score: 529
Period size: 237 Copynumber: 1.8 Consensus size: 237
9865101 TTAATGTGAT
* * * * *
9865111 AGCTGGGAGTTTTGCTCTTGCTAACTGTGTTGGAGGCTATAGCTCTTCACCTGCGAACCTTAATG
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGCTACAGCTCTTCACCTGCGAACCTTAATA
* * * * *
9865176 TGATAGCTGGGAGATTTGCTCTCATTAACCATGTTGGAGGCTGCGACTTTTCACCTGCGAGTCTT
66 TGACAGCTAGGAGATTTGCTCTCACTAACCATGTTGGAGGCTGCGACTCTTCACCTGCAAGTCTT
* * * ***
9865241 GATGTGACAACTGGGAGCTTTACTTTCACTAATTGTGTTGGAGGCTTTTGCTATTCACTTGCCAG
131 AATGTGACAACTGGGAGCTTTACTTTCACTAACTGTGTTGAAGGCTGCAGCTATTCACTTGCCAG
9865306 CCTTAGTAAGACAGCTGGGAGCTTTGGTCGCCTTAGTAAGAC
196 CCTTAGTAAGACAGCTGGGAGCTTTGGTCGCCTTAGTAAGAC
* * * * ** **
9865348 AGCTGGGAGCTTTGGTCTCGCTAATTGTGTTGAAGGTTGCAGCTCTTCACCTTTGAGTCTTAATA
1 AGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGCTACAGCTCTTCACCTGCGAACCTTAATA
* * ** * * *
9865413 TGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCTACTCTTCACTTGCAAG-CTT
66 TGACAGCTAGGAGATTTGCTCTCACTAACCATGTTGGAGGCTGCGACTCTTCACCTGCAAGTC-T
* * * *
9865477 TAATGTGACAACTGGGAGCTTTGCTCTT-ATTAACTGTGTTGAAGGCTGCAGCTTTTCACTTGCG
130 TAATGTGACAACTGGGAGCTTTACT-TTCACTAACTGTGTTGAAGGCTGCAGCTATTCACTTGCC
9865541 AGCCTTAG
194 AGCCTTAG
9865549 GACTAATTTA
Statistics
Matches: 164, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
236 1 0.01
237 161 0.98
238 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (237 bp):
AGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGAAGGCTACAGCTCTTCACCTGCGAACCTTAATA
TGACAGCTAGGAGATTTGCTCTCACTAACCATGTTGGAGGCTGCGACTCTTCACCTGCAAGTCTT
AATGTGACAACTGGGAGCTTTACTTTCACTAACTGTGTTGAAGGCTGCAGCTATTCACTTGCCAG
CCTTAGTAAGACAGCTGGGAGCTTTGGTCGCCTTAGTAAGAC
Found at i:9865928 original size:14 final size:14
Alignment explanation
Indices: 9865880--9865930 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
9865870 AATTTCTGTA
*
9865880 AAATTTTTGGTATT
1 AAATTTTTTGTATT
* *
9865894 AAAATTTATGTA--
1 AAATTTTTTGTATT
*
9865906 AATTTTTTTGTATT
1 AAATTTTTTGTATT
9865920 AAATTTTTTGT
1 AAATTTTTTGT
9865931 GAAATTTCTG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
12 9 0.32
14 19 0.68
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (14 bp):
AAATTTTTTGTATT
Found at i:9865935 original size:27 final size:26
Alignment explanation
Indices: 9865870--9865937 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
9865860 TCAAACAATC
* *
9865870 AATTTCTGTAAAATTTTTGGTATTAA
1 AATTTATGTAAATTTTTTGGTATTAA
*
9865896 AATTTATGTAAATTTTTTTGTATTAA
1 AATTTATGTAAATTTTTTGGTATTAA
* *
9865922 ATTTTTTGTGAAATTT
1 AATTTATGT-AAATTT
9865938 CTGTAAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 30 0.83
27 6 0.17
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.56
Consensus pattern (26 bp):
AATTTATGTAAATTTTTTGGTATTAA
Found at i:9866618 original size:138 final size:137
Alignment explanation
Indices: 9866368--9866830 Score: 443
Period size: 138 Copynumber: 3.4 Consensus size: 137
9866358 TTGAACGGGG
* * * *
9866368 CCTTAATGTGACAACTGGGAGCTTTGCTTTCGCTAACTGTATTAGAGGCTGCGGCTCTTCACATA
1 CCTTAATATGACAGCTGGGAGCTTTGCTTTCGCTAACTATGTTAGAGGCTGCGGCTCTTCACATA
* * * * *
9866433 TGAACCTCAATGTGATAGTTGAGAGCTTTACTCT-AGTTAATTGTGTTGAAGGTTGCGGCTCTTC
66 TGAACCTTAATGTGACAATTG-GAGCTTTACTCTCA-CTAATTATGTTGAAGGTTGCGGCTCTTC
*
9866497 ACCTTCGAT
129 ACCTTCGAC
* * * * *
9866506 CCTTAATATGATAGTTGGGAGCTTAGCTTTTGCTAACTATGTTAGAGGCTGCGGCTCTTCACCTA
1 CCTTAATATGACAGCTGGGAGCTTTGCTTTCGCTAACTATGTTAGAGGCTGCGGCTCTTCACATA
* * * *
9866571 TGAACCTTAATGTGACAATTAGGAGTTTTACTTTCACTAAATATGTTGAAGGTTGCAGCTCTTCA
66 TGAACCTTAATGTGACAATT-GGAGCTTTACTCTCACTAATTATGTTGAAGGTTGCGGCTCTTCA
* *
9866636 -TTTTGAC
130 CCTTCGAC
* * * * * * ** *
9866643 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAATTATGTTAAAAGTTGCAACTCATCACAT-
1 CCTTAATATGACAGCTGGGAGCTTTGCTTTCGCTAACTATGTTAGAGGCTGCGGCTCTTCACATA
* * *
9866707 TCG-ACTCTTAATGTAACAATTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGTGGCTCTT
66 T-GAAC-CTTAATGTGACAATT-GGAGCTTTACTCTCACTAATTATGTTGAAGGTTGCGGCTCTT
* * *
9866771 CACTTTCAAG
128 CACCTTCGAC
* * * * *
9866781 CCTTAGTGTGACAGCT-GGATGCTTTGCTCTT-GTTAACTGTGTTGGAGGCT
1 CCTTAATATGACAGCTGGGA-GCTTTGCT-TTCGCTAACTATGTTAGAGGCT
9866831 ACAGCTTTTC
Statistics
Matches: 263, Mismatches: 55, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
136 3 0.01
137 110 0.42
138 147 0.56
139 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (137 bp):
CCTTAATATGACAGCTGGGAGCTTTGCTTTCGCTAACTATGTTAGAGGCTGCGGCTCTTCACATA
TGAACCTTAATGTGACAATTGGAGCTTTACTCTCACTAATTATGTTGAAGGTTGCGGCTCTTCAC
CTTCGAC
Found at i:9866805 original size:69 final size:68
Alignment explanation
Indices: 9866368--9866810 Score: 281
Period size: 69 Copynumber: 6.4 Consensus size: 68
9866358 TTGAACGGGG
* * * * * *
9866368 CCTTAATGTGACAACTGGGAGCTTTGCTTTCGCTAACTGTAT-TAG-AGGCTGCGGCTCTTCACA
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAA-T-TATGTTGAAGGTTGCAGCTCTTCAC-
*
9866431 TAT-GAA
63 TTTCG-A
* * * * * * * * *
9866437 CCTCAATGTGATAGTTGAGAGCTTTACTCT-AGTTAATTGTGTTGAAGGTTGCGGCTCTTCACCT
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCA-CTAATTATGTTGAAGGTTGCAGCTCTTCACTT
9866501 TCGA
65 TCGA
* * * * * ** * * *
9866505 TCCTTAATATGATAGTTGGGAGCTTAGCTTTTGCTAACTATGTT-AGAGGCTGCGGCTCTTCACC
1 -CCTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAATTATGTTGA-AGGTTGCAGCTCTTCA-C
*
9866569 TAT-GAA
63 TTTCG-A
** * * * * *
9866575 CCTTAATGTGACAATTAGGAGTTTTACTTTCACTAAATATGTTGAAGGTTGCAGCTCTTCA-TTT
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGCAGCTCTTCACTTT
*
9866639 TGA
66 CGA
* * * * * *
9866642 CCCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAATTATGTTAAAAGTTGCAACTCATCACAT
1 -CCTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGCAGCTCTTCACTT
9866707 TCGA
65 TCGA
* ** **
9866711 CTCTTAATGTAACAATTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGTGGCTCTTCACTT
1 C-CTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGCAGCTCTTCACTT
*
9866776 TCAA
65 TCGA
*
9866780 GCCTTAGTGTGACAGCT-GGATGCTTTGCTCT
1 -CCTTAATGTGACAGCTGGGA-GCTTTGCTCT
9866811 TGTTAACTGT
Statistics
Matches: 288, Mismatches: 70, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
67 5 0.02
68 60 0.21
69 218 0.76
70 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (68 bp):
CCTTAATGTGACAGCTGGGAGCTTTGCTCTCACTAATTATGTTGAAGGTTGCAGCTCTTCACTTT
CGA
Found at i:9878790 original size:30 final size:30
Alignment explanation
Indices: 9878744--9878800 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9878734 AATAGTTTCG
*
9878744 ATTTTAGGGGTTAAATTGAATAAAATGTAAA
1 ATTTTAAGGGTTAAATT-AATAAAATGTAAA
*
9878775 ATTTTAAGGG-TAAATTCATAAAATGT
1 ATTTTAAGGGTTAAATTAATAAAATGT
9878801 GATTAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 6 0.25
31 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.37
Consensus pattern (30 bp):
ATTTTAAGGGTTAAATTAATAAAATGTAAA
Found at i:9881025 original size:27 final size:27
Alignment explanation
Indices: 9880990--9881043 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9880980 TGAGATGTTT
*
9880990 AACAAATGGTTC-AGGTAAACGACCAAC
1 AACAAATGGTTCGA-GTAAACAACCAAC
*
9881017 AACATATGGTTCGAGTAAACAACCAAC
1 AACAAATGGTTCGAGTAAACAACCAAC
9881044 TCTGCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
AACAAATGGTTCGAGTAAACAACCAAC
Found at i:9887307 original size:16 final size:16
Alignment explanation
Indices: 9887286--9887320 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9887276 TCTTTTTGTC
9887286 ATTTTTATCTGTTTTT
1 ATTTTTATCTGTTTTT
* *
9887302 ATTTTTCTTTGTTTTT
1 ATTTTTATCTGTTTTT
9887318 ATT
1 ATT
9887321 AATGAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTTATCTGTTTTT
Found at i:9905719 original size:39 final size:40
Alignment explanation
Indices: 9905647--9905917 Score: 309
Period size: 39 Copynumber: 6.6 Consensus size: 40
9905637 CCACAAAGCA
* * *
9905647 TTCGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCC
1 TTCGGGACTTT-AGCCCGGATATAACACCAGCACGAATGCC
* *
9905687 TGCGGGACTTTAGCCCGGATATAACACTAGCACGAATGCC
1 TTCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
9905727 TTCGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
* *
9905766 TTCGGGAC-TTAGCCCAGATATAATACCAGCACGAATGCC
1 TTCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
*
9905805 TTCTGGACTTAGCCCTGGACTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTC-GG-----G-ACT----TTAGCCCGGATATAACACCAGCACGAATGCC
*
9905856 TTTGGGA-TTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
*
9905895 TTCAGGAC-TTAGCCCGGATATAA
1 TTCGGGACTTTAGCCCGGATATAA
9905918 TTCTCCATTA
Statistics
Matches: 201, Mismatches: 16, Indels: 29
0.82 0.07 0.12
Matches are distributed among these distances:
39 140 0.70
40 24 0.12
43 1 0.00
45 2 0.01
46 1 0.00
50 2 0.01
51 31 0.15
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (40 bp):
TTCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
Found at i:9905824 original size:12 final size:12
Alignment explanation
Indices: 9905807--9905831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9905797 CGAATGCCTT
9905807 CTGGACTTAGCC
1 CTGGACTTAGCC
9905819 CTGGACTTAGCC
1 CTGGACTTAGCC
9905831 C
1 C
9905832 GGATATAACA
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:0.36, G:0.24, T:0.24
Consensus pattern (12 bp):
CTGGACTTAGCC
Found at i:9905884 original size:90 final size:90
Alignment explanation
Indices: 9905731--9905909 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 90
9905721 AATGCCTTCG
*
9905731 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAATACCAGC
1 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAACACCAGC
*
9905796 ACGAATGCCTTCTGGACTTAGCCCT
66 ACGAATGCCTTCAGGACTTAGCCCT
* * *
9905821 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGATTTAGCCCGGATATAACACCAGC
1 GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAACACCAGC
9905886 ACGAATGCCTTCAGGACTTAGCCC
66 ACGAATGCCTTCAGGACTTAGCCC
9905910 GGATATAATT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (90 bp):
GGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAACACCAGC
ACGAATGCCTTCAGGACTTAGCCCT
Found at i:9908443 original size:16 final size:16
Alignment explanation
Indices: 9908419--9908455 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9908409 CGTTTGAAGG
*
9908419 ATAGATGTTGATAACA
1 ATAGTTGTTGATAACA
9908435 ATAGTTGTTGATAACA
1 ATAGTTGTTGATAACA
*
9908451 GTAGT
1 ATAGT
9908456 AAAAGAGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (16 bp):
ATAGTTGTTGATAACA
Found at i:9910429 original size:37 final size:37
Alignment explanation
Indices: 9910379--9910452 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
9910369 GAAACTTATT
9910379 TAAGTAAAAGCTTTGTTCATGTCCAACTCAAGCCCAC
1 TAAGTAAAAGCTTTGTTCATGTCCAACTCAAGCCCAC
9910416 TAAGTAAAAGCTTTGTTCATGTCCAACTCAAGCCCAC
1 TAAGTAAAAGCTTTGTTCATGTCCAACTCAAGCCCAC
9910453 CTAAAAAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (37 bp):
TAAGTAAAAGCTTTGTTCATGTCCAACTCAAGCCCAC
Found at i:9919547 original size:25 final size:25
Alignment explanation
Indices: 9919518--9919568 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9919508 CAAAGGAAAA
**
9919518 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
9919543 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
9919568 T
1 T
9919569 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:9924219 original size:25 final size:25
Alignment explanation
Indices: 9924190--9924240 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9924180 CAAAGGAAAA
**
9924190 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
9924215 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
9924240 T
1 T
9924241 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:9945171 original size:7 final size:7
Alignment explanation
Indices: 9945159--9945185 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9945149 TAGAAGGGTA
9945159 TTTTCAG
1 TTTTCAG
9945166 TTTTCAG
1 TTTTCAG
9945173 TTTTCAG
1 TTTTCAG
9945180 TTTTCA
1 TTTTCA
9945186 CTTCAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (7 bp):
TTTTCAG
Found at i:9949720 original size:37 final size:37
Alignment explanation
Indices: 9949659--9949804 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
9949649 TACGTATGAT
* *
9949659 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9949694 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9949731 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9949768 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9949805 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9949821 original size:46 final size:46
Alignment explanation
Indices: 9949768--9950036 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
9949758 TAAGTGTAGC
* **
9949768 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9949814 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9949860 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9949912 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
9949958 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9950010 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9950037 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9949887 original size:52 final size:52
Alignment explanation
Indices: 9949811--9950030 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
9949801 TAGCTAAAGC
* *
9949811 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9949864 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9949916 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
9949962 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9950014 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
9950031 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:9949933 original size:98 final size:98
Alignment explanation
Indices: 9949768--9950036 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
9949758 TAAGTGTAGC
* * *
9949768 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
9949833 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
9949867 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
9949932 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
9949965 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
9950030 GATCAGA
66 GATCAGA
9950037 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:9953217 original size:49 final size:50
Alignment explanation
Indices: 9953162--9953365 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
9953152 TTCGTTTTCT
*
9953162 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
9953211 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
9953260 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
9953318 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
9953366 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:9953332 original size:58 final size:59
Alignment explanation
Indices: 9953246--9953364 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
9953236 TACACGAAAT
9953246 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
9953304 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
9953363 CA
1 CA
9953365 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:9953345 original size:28 final size:28
Alignment explanation
Indices: 9953255--9953345 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
9953245 TCACATATCA
9953255 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
9953283 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
9953313 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
9953341 CTTAC
1 CTTAC
9953346 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:9954679 original size:37 final size:37
Alignment explanation
Indices: 9954618--9954763 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
9954608 TACGTATGAT
* *
9954618 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9954653 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9954690 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9954727 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9954764 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9954780 original size:46 final size:46
Alignment explanation
Indices: 9954727--9954995 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
9954717 TAAGTGTAGC
* **
9954727 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9954773 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9954819 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9954871 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
9954917 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9954969 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9954996 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9954846 original size:52 final size:52
Alignment explanation
Indices: 9954770--9954989 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
9954760 TAGCTAAAGC
* *
9954770 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9954823 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9954875 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
9954921 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9954973 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
9954990 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:9954892 original size:98 final size:98
Alignment explanation
Indices: 9954727--9954995 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
9954717 TAAGTGTAGC
* * *
9954727 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
9954792 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
9954826 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
9954891 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
9954924 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
9954989 GATCAGA
66 GATCAGA
9954996 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:9961379 original size:14 final size:14
Alignment explanation
Indices: 9961329--9961379 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
9961319 TTTAGCTCTG
9961329 AACCTT-AATCTTTA
1 AACCTTAAAT-TTTA
* *
9961343 AATCTTAAATTTTG
1 AACCTTAAATTTTA
9961357 AA-CTCTAAATTTTA
1 AACCT-TAAATTTTA
9961371 AACCTTAAA
1 AACCTTAAA
9961380 CCTCAAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.06
14 24 0.77
15 5 0.16
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (14 bp):
AACCTTAAATTTTA
Found at i:9961407 original size:20 final size:21
Alignment explanation
Indices: 9961369--9961407 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9961359 CTCTAAATTT
9961369 TAAACCTTAAACCTCAAACAC
1 TAAACCTTAAACCTCAAACAC
9961390 TAAA-CTTAAATCCT-AAAC
1 TAAACCTTAAA-CCTCAAAC
9961408 CTTAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCTCAAACAC
Found at i:9962887 original size:16 final size:17
Alignment explanation
Indices: 9962866--9962899 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9962856 TATCAAATTA
*
9962866 AATTATAT-TCTAATAT
1 AATTATATGTCAAATAT
9962882 AATTATATGTCAAATAT
1 AATTATATGTCAAATAT
9962899 A
1 A
9962900 GTGTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTATATGTCAAATAT
Found at i:9964000 original size:32 final size:32
Alignment explanation
Indices: 9963936--9964000 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
9963926 TAATAATGGT
9963936 AAAATTACATTTTAACTCTTAAAAAATAAAAA
1 AAAATTACATTTTAACTCTTAAAAAATAAAAA
* *
9963968 AAAATTA-ATTTTATACT-TTAAAAATTATAAA
1 AAAATTACATTTTA-ACTCTTAAAAAATAAAAA
9963999 AA
1 AA
9964001 TATAAGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (32 bp):
AAAATTACATTTTAACTCTTAAAAAATAAAAA
Found at i:9964139 original size:26 final size:26
Alignment explanation
Indices: 9964118--9964174 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
9964108 GTTGAATATA
9964118 ATAAAATGAAAATAATGGTGAAGAAG
1 ATAAAATGAAAATAATGGTGAAGAAG
9964144 ATAAAATGAAAATAATGGTGAAGAAG
1 ATAAAATGAAAATAATGGTGAAGAAG
9964170 A-AAAA
1 ATAAAA
9964175 GGAAGTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (26 bp):
ATAAAATGAAAATAATGGTGAAGAAG
Found at i:9967766 original size:3 final size:3
Alignment explanation
Indices: 9967758--9967788 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9967748 TTATTCTGTT
9967758 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
9967789 CTTTTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9970344 original size:22 final size:22
Alignment explanation
Indices: 9970319--9970375 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
9970309 AAATTAAATT
9970319 ATATATTTTTATAACGATAAAA
1 ATATATTTTTATAACGATAAAA
* * *** *
9970341 ATATAATTTTATTATTTTAATA
1 ATATATTTTTATAACGATAAAA
9970363 ATATATTTTTATA
1 ATATATTTTTATA
9970376 TTTTATAATT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATATTTTTATAACGATAAAA
Found at i:9970389 original size:24 final size:22
Alignment explanation
Indices: 9970340--9970388 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
9970330 TAACGATAAA
9970340 AATATAATTTTATTATTTTAAT
1 AATATAATTTTATTATTTTAAT
*
9970362 AATATATTTTTA-TATTTT-AT
1 AATATAATTTTATTATTTTAAT
9970382 AAT-TAAT
1 AATATAAT
9970389 AAAAGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 5 0.20
21 6 0.24
22 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATAATTTTATTATTTTAAT
Found at i:9970569 original size:17 final size:17
Alignment explanation
Indices: 9970494--9970571 Score: 54
Period size: 17 Copynumber: 4.7 Consensus size: 17
9970484 ACTTCTTAAA
* *
9970494 AATATTTAATATTTTTA
1 AATATTTAAAATTTTTT
*
9970511 AATA-TTAACA--TTTT
1 AATATTTAAAATTTTTT
* * **
9970525 AATGTTTTATAATTAATT
1 AAT-ATTTAAAATTTTTT
*
9970543 AAAATTTAAAATTTTTT
1 AATATTTAAAATTTTTT
9970560 AATATTTAAAAT
1 AATATTTAAAAT
9970572 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 6 0.14
16 9 0.20
17 25 0.57
18 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
AATATTTAAAATTTTTT
Found at i:9970583 original size:17 final size:16
Alignment explanation
Indices: 9970538--9970585 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
9970528 GTTTTATAAT
*
9970538 TAATTAAAATTTAAAA
1 TAATTTAAATTTAAAA
**
9970554 TTTTTTAATATTTAAAA
1 TAATTTAA-ATTTAAAA
9970571 TGAATTTAAATTTAA
1 T-AATTTAAATTTAA
9970586 TTGACTGATC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:9972713 original size:17 final size:17
Alignment explanation
Indices: 9972648--9972722 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 17
9972638 AGTTTTTGAG
9972648 TTATATAGCA-AAAAATA
1 TTATA-AGCATAAAAATA
*
9972665 TGT-TAATGCATAAAAAAA
1 T-TATAA-GCATAAAAATA
9972683 TT-TGAA--ATATAAAATA
1 TTAT-AAGCATA-AAAATA
9972699 TTATAAGCATAAAAATA
1 TTATAAGCATAAAAATA
9972716 TATATAA
1 T-TATAA
9972723 ATAAGATACA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 16 0.34
18 18 0.38
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (17 bp):
TTATAAGCATAAAAATA
Found at i:9974112 original size:26 final size:26
Alignment explanation
Indices: 9974083--9974132 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9974073 TAAATATTTA
* * *
9974083 AAATTGTAACAGAAGGTAAATAAAAT
1 AAATTGTAAAAAAAAGTAAATAAAAT
9974109 AAATTGTAAAAAAAAGTAAATAAA
1 AAATTGTAAAAAAAAGTAAATAAA
9974133 TAGATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (26 bp):
AAATTGTAAAAAAAAGTAAATAAAAT
Found at i:9976051 original size:37 final size:38
Alignment explanation
Indices: 9975981--9976053 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
9975971 TCTACTTTTA
*
9975981 TTGAATAAATATCTAAGAATTAAGGACTTCTTTAGTCC
1 TTGAATAAATATCAAAGAATTAAGGACTTCTTTAGTCC
9976019 TTGAATATAA-ATCAAAGAA-TAAGGA-TGTCTTTAGT
1 TTGAATA-AATATCAAAGAATTAAGGACT-TCTTTAGT
9976054 TACAATGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 1 0.03
37 14 0.44
38 15 0.47
39 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (38 bp):
TTGAATAAATATCAAAGAATTAAGGACTTCTTTAGTCC
Found at i:9986460 original size:4 final size:4
Alignment explanation
Indices: 9986436--9986474 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
9986426 AATATATGTA
* * *
9986436 TATG TATA TATG TATG AATG TATG TATG TATG TACG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
9986475 TCGTCCCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:9991429 original size:3 final size:3
Alignment explanation
Indices: 9991421--9991456 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9991411 AATGATAAGA
*
9991421 AGG AGG AGG AGG AGG AGG AGG AGG AGG AAG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
9991457 CAGCTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:9999624 original size:23 final size:23
Alignment explanation
Indices: 9999542--9999628 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
9999532 CCTGATCAGT
*
9999542 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
9999564 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
9999584 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
9999607 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
9999629 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:10000024 original size:15 final size:15
Alignment explanation
Indices: 9999999--10000056 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
9999989 TCATATATAT
9999999 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
10000015 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
10000030 AATAATTTCAATCAA
1 TATAAATTCAATCAA
10000045 TATAAATTCAAT
1 TATAAATTCAAT
10000057 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:10001344 original size:5 final size:5
Alignment explanation
Indices: 10001334--10001389 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
10001324 TTACTTATTT
* *
10001334 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
10001382 ATATA ATA
1 ATATA ATA
10001390 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:10001350 original size:12 final size:12
Alignment explanation
Indices: 10001333--10001386 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
10001323 TTTACTTATT
10001333 TATATAATATAA
1 TATATAATATAA
10001345 TATATAATATAATA
1 TATATAATAT-A-A
10001359 TACTATAATATAA
1 TA-TATAATATAA
*
10001372 TA-ATAATATCA
1 TATATAATATAA
10001383 TATA
1 TATA
10001387 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:10001521 original size:21 final size:22
Alignment explanation
Indices: 10001482--10001522 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10001472 CATACAATTG
*
10001482 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
10001504 TTAATATAA-ATTACAATAT
1 TTAAAATAATATTACAATAT
10001523 AATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:10001716 original size:19 final size:22
Alignment explanation
Indices: 10001692--10001738 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
10001682 ATCCTTTCCA
10001692 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
10001711 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
10001732 CTAATTA
1 CTAATTA
10001739 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:10003143 original size:24 final size:26
Alignment explanation
Indices: 10003106--10003153 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
10003096 AAACACTTAT
*
10003106 TTTATTAATATTTA-AATAAATATAA
1 TTTATTAATATTTATAAAAAATATAA
10003131 TTTATT-ATATTTATAAAAAATAT
1 TTTATTAATATTTATAAAAAATAT
10003154 TTCTATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTATTAATATTTATAAAAAATATAA
Found at i:10003160 original size:24 final size:25
Alignment explanation
Indices: 10003103--10003160 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
10003093 GCAAAACACT
10003103 TATTTTATTAATATTTAAATAAATA
1 TATTTTATTAATATTTAAATAAATA
*
10003128 TAATTTATT-ATATTTATAA-AAA-A
1 TATTTTATTAATATTTA-AATAAATA
10003151 TATTTCTATT
1 TATTT-TATT
10003161 CATTAGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 14 0.48
25 10 0.34
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTATTAATATTTAAATAAATA
Found at i:10005059 original size:14 final size:14
Alignment explanation
Indices: 10005042--10005081 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10005032 ATTCAAGACA
10005042 CAAAACTCAAAATT
1 CAAAACTCAAAATT
*
10005056 CAAAATTCAAAATT
1 CAAAACTCAAAATT
*
10005070 CAAAACTTAAAA
1 CAAAACTCAAAA
10005082 CTTAAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (14 bp):
CAAAACTCAAAATT
Found at i:10007217 original size:17 final size:16
Alignment explanation
Indices: 10007186--10007216 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10007176 AGAAGAGAGA
10007186 AAAATGAAAAAAAAAC
1 AAAATGAAAAAAAAAC
10007202 AAAATGAAAAAAAAA
1 AAAATGAAAAAAAAA
10007217 AGTAACCGAC
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:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAAAAAC
Found at i:10010713 original size:39 final size:39
Alignment explanation
Indices: 10010683--10010837 Score: 201
Period size: 39 Copynumber: 4.1 Consensus size: 39
10010673 TGGTCCGACC
* *
10010683 GGAGGGCCGCCCCACCCCGGTGGTCCC-CCTGGTCCGGGA
1 GGAGGACCGCCCCATCCCGGTGG-CCCTCCTGGTCCGGGA
* *
10010722 GGAGGACCCCCCCATCCCGGTGGCCCTCCTGGTCCGGGT
1 GGAGGACCGCCCCATCCCGGTGGCCCTCCTGGTCCGGGA
* *
10010761 GGAGGACCGCCCCATCCTGGTGGCCCTCCTGGTCCGGGT
1 GGAGGACCGCCCCATCCCGGTGGCCCTCCTGGTCCGGGA
* *
10010800 GGAGGACCGCCCCAT-CC--TGGCCCTCCTGGCCCCGGA
1 GGAGGACCGCCCCATCCCGGTGGCCCTCCTGGTCCGGGA
10010836 GG
1 GG
10010838 CCCTCCTGGC
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
36 18 0.17
38 4 0.04
39 83 0.79
ACGTcount: A:0.08, C:0.43, G:0.35, T:0.14
Consensus pattern (39 bp):
GGAGGACCGCCCCATCCCGGTGGCCCTCCTGGTCCGGGA
Found at i:10010828 original size:9 final size:9
Alignment explanation
Indices: 10010814--10010891 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 9
10010804 GACCGCCCCA
10010814 TCCTGGCCC
1 TCCTGGCCC
10010823 TCCTGGCCC
1 TCCTGGCCC
**
10010832 -CGGAGGCCC
1 TC-CTGGCCC
10010841 TCCTGGCCC
1 TCCTGGCCC
*
10010850 TCCTGGTCC
1 TCCTGGCCC
*
10010859 ACCTGGCCC
1 TCCTGGCCC
*
10010868 -CGGTGGCCC
1 TC-CTGGCCC
10010877 TCCTGGCCC
1 TCCTGGCCC
*
10010886 ACCTGG
1 TCCTGG
10010892 TCCCATTTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.04, C:0.50, G:0.28, T:0.18
Consensus pattern (9 bp):
TCCTGGCCC
Found at i:10010841 original size:18 final size:18
Alignment explanation
Indices: 10010817--10010885 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
10010807 CGCCCCATCC
10010817 TGGCCCTCCTGGCCCCGG
1 TGGCCCTCCTGGCCCCGG
* *
10010835 AGGCCCTCCTGGCCCTC-C
1 TGGCCCTCCTGGCCC-CGG
* *
10010853 TGGTCCACCTGGCCCCGG
1 TGGCCCTCCTGGCCCCGG
10010871 TGGCCCTCCTGGCCC
1 TGGCCCTCCTGGCCC
10010886 ACCTGGTCCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.03, C:0.51, G:0.29, T:0.17
Consensus pattern (18 bp):
TGGCCCTCCTGGCCCCGG
Found at i:10010854 original size:36 final size:36
Alignment explanation
Indices: 10010814--10010896 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
10010804 GACCGCCCCA
*
10010814 TCCTGGCCCTCCTGGCCCCGGAGGCCCTCCTGGCCC
1 TCCTGGCCCACCTGGCCCCGGAGGCCCTCCTGGCCC
* *
10010850 TCCTGGTCCACCTGGCCCCGGTGGCCCTCCTGGCCC
1 TCCTGGCCCACCTGGCCCCGGAGGCCCTCCTGGCCC
*
10010886 ACCTGGTCCCA
1 TCCTGG-CCCA
10010897 TTTTCTCCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 38 0.93
37 3 0.07
ACGTcount: A:0.05, C:0.51, G:0.27, T:0.18
Consensus pattern (36 bp):
TCCTGGCCCACCTGGCCCCGGAGGCCCTCCTGGCCC
Found at i:10010866 original size:27 final size:26
Alignment explanation
Indices: 10010814--10010891 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
10010804 GACCGCCCCA
*
10010814 TCCTGGCCCTCCTGGCC-CCGGAGGCCC
1 TCCTGGCCCTCCTGGCCACC--TGGCCC
10010841 TCCTGGCCCTCCTGGTCCACCTGGCCC
1 TCCTGGCCCTCCTGG-CCACCTGGCCC
*
10010868 -CGGTGGCCCTCCTGGCCCACCTGG
1 TC-CTGGCCCTCCTGG-CCACCTGG
10010892 TCCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.89
28 2 0.04
29 2 0.04
ACGTcount: A:0.04, C:0.50, G:0.28, T:0.18
Consensus pattern (26 bp):
TCCTGGCCCTCCTGGCCACCTGGCCC
Found at i:10012564 original size:17 final size:16
Alignment explanation
Indices: 10012526--10012557 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10012516 TTTTTATATT
10012526 ATTAT-TTTTATAAAA
1 ATTATATTTTATAAAA
10012541 ATTATATTTTA-AAAA
1 ATTATATTTTATAAAA
10012556 AT
1 AT
10012558 ATAATATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATATTTTATAAAA
Found at i:10017531 original size:13 final size:13
Alignment explanation
Indices: 10017513--10017537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10017503 TACAACTACG
10017513 TCGAATCACCTAT
1 TCGAATCACCTAT
10017526 TCGAATCACCTA
1 TCGAATCACCTA
10017538 CTCACGTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (13 bp):
TCGAATCACCTAT
Found at i:10023167 original size:21 final size:20
Alignment explanation
Indices: 10023137--10023193 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
10023127 CATAAGTAAG
10023137 TTAAA-AAAATTAAAAT-TAA
1 TTAAATAAAATTAAAATAT-A
*
10023156 TTTAAATAAAATATATAATATA
1 -TTAAATAAAAT-TAAAATATA
*
10023178 TTAAATAAAAATAAAA
1 TTAAATAAAATTAAAA
10023194 ATTTCAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.29
21 15 0.48
22 6 0.19
23 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAATAAAATTAAAATATA
Found at i:10029320 original size:22 final size:21
Alignment explanation
Indices: 10029289--10029335 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
10029279 AGATTTTTTT
* *
10029289 ATAAAAATAATATAATGTTAA
1 ATAAAAATAATAAAATGATAA
10029310 ATAAAATATAATAAAATGATAA
1 ATAAAA-ATAATAAAATGATAA
10029332 ATAA
1 ATAA
10029336 TTGAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
ATAAAAATAATAAAATGATAA
Found at i:10029461 original size:15 final size:16
Alignment explanation
Indices: 10029436--10029468 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10029426 TTAATAATAT
10029436 AAAAAATTAAGTACTG
1 AAAAAATTAAGTACTG
*
10029452 AAAAAA-TAAGTTCTG
1 AAAAAATTAAGTACTG
10029467 AA
1 AA
10029469 GTTAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAGTACTG
Found at i:10029982 original size:47 final size:49
Alignment explanation
Indices: 10029889--10029982 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
10029879 CCTTCGGATC
*
10029889 AAATTTAAGTTATAAATTTTGTTTCGTATATTAATTAAAATTAAATACA
1 AAATTTAAGTTATAAATTTTATTTCGTATATTAATTAAAATTAAATACA
* *
10029938 AAATTTAAGTTCTAAATTTTATTT-G-GTATTAATTAAAATTAAATA
1 AAATTTAAGTTATAAATTTTATTTCGTATATTAATTAAAATTAAATA
10029983 AGAAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 19 0.45
48 1 0.02
49 22 0.52
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (49 bp):
AAATTTAAGTTATAAATTTTATTTCGTATATTAATTAAAATTAAATACA
Found at i:10037115 original size:16 final size:17
Alignment explanation
Indices: 10037096--10037128 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10037086 TATTTTTAAA
*
10037096 TATTTTTAT-ATATATT
1 TATTTTGATAATATATT
10037112 TATTTTGATAATATATT
1 TATTTTGATAATATATT
10037129 CTGATTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTGATAATATATT
Found at i:10037474 original size:8 final size:8
Alignment explanation
Indices: 10037461--10037504 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
10037451 AAATATTATA
10037461 TATATTTT
1 TATATTTT
10037469 TATATTTT
1 TATATTTT
10037477 TAATATTTT
1 T-ATATTTT
10037486 TAATGATTTT
1 T-AT-ATTTT
10037496 TAT-TTTT
1 TATATTTT
10037503 TA
1 TA
10037505 AAAATAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.18
8 9 0.26
9 13 0.38
10 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TATATTTT
Found at i:10037477 original size:9 final size:9
Alignment explanation
Indices: 10037440--10037505 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 9
10037430 CAACATTTAA
10037440 TTAATA-TT
1 TTAATATTT
*
10037448 TTAAAATATT
1 TTAATAT-TT
*
10037458 ATATATATTT
1 TTA-ATATTT
10037468 TT-ATATTT
1 TTAATATTT
10037476 TTAATATTT
1 TTAATATTT
10037485 TTAATGATTT
1 TTAAT-ATTT
10037495 TT-AT-TTT
1 TTAATATTT
10037502 TTAA
1 TTAA
10037506 AAATAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 5 0.10
8 14 0.29
9 13 0.27
10 13 0.27
11 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTAATATTT
Found at i:10038119 original size:42 final size:42
Alignment explanation
Indices: 10038060--10038140 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
10038050 CCGTGGGAGT
10038060 ACGCTGTCTATAGTCTACCATTGAAGCAACCACTTACATTTC
1 ACGCTGTCTATAGTCTACCATTGAAGCAACCACTTACATTTC
10038102 ACGCTGTCTATAGTCTACCATTGAAGCAACCACTTACAT
1 ACGCTGTCTATAGTCTACCATTGAAGCAACCACTTACAT
10038141 ACATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (42 bp):
ACGCTGTCTATAGTCTACCATTGAAGCAACCACTTACATTTC
Found at i:10042523 original size:13 final size:13
Alignment explanation
Indices: 10042505--10042550 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
10042495 GGTAATAAAA
*
10042505 TTCTTTTTGAGTT
1 TTCTTTTTAAGTT
*
10042518 TTCTTTTTAAGAAT
1 TTCTTTTTAAG-TT
10042532 TTC-TTTTAAGTT
1 TTCTTTTTAAGTT
10042544 TTCTTTT
1 TTCTTTT
10042551 AGAAGAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (13 bp):
TTCTTTTTAAGTT
Found at i:10043938 original size:31 final size:30
Alignment explanation
Indices: 10043860--10043988 Score: 147
Period size: 31 Copynumber: 4.3 Consensus size: 30
10043850 ATGTACAAGG
* * * *
10043860 TATGAAAAATTACAGGGTATGATATG--TA
1 TATGAATAATTATAGGGTATGAAATGCAAA
* *
10043888 TGTGAATGAA-TATAAGGTATGAACATGCAAA
1 TATGAAT-AATTATAGGGTATGAA-ATGCAAA
10043919 TATGAATAATTATAGGGTATGAATATGCAAA
1 TATGAATAATTATAGGGTATGAA-ATGCAAA
10043950 TATGAATAATTATAGGGTATGATAATGCAAA
1 TATGAATAATTATAGGGTATGA-AATGCAAA
10043981 TATGAATA
1 TATGAATA
10043989 TTGATGCCTA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.17
29 5 0.06
30 2 0.02
31 63 0.73
32 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (30 bp):
TATGAATAATTATAGGGTATGAAATGCAAA
Found at i:10043941 original size:17 final size:17
Alignment explanation
Indices: 10043919--10043975 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
10043909 AACATGCAAA
10043919 TATGAATAATTATAGGG
1 TATGAATAATTATAGGG
* *
10043936 TATGAAT-ATGCA-A--A
1 TATGAATAAT-TATAGGG
10043950 TATGAATAATTATAGGG
1 TATGAATAATTATAGGG
10043967 TATG-ATAAT
1 TATGAATAAT
10043976 GCAAATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 8 0.26
17 12 0.39
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (17 bp):
TATGAATAATTATAGGG
Found at i:10047244 original size:41 final size:41
Alignment explanation
Indices: 10047198--10047278 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
10047188 TCCAAAAATA
*
10047198 GTCCAATAACCATTTTGGCCCTTTAGATCAATTTCTATTTG
1 GTCCAATAACCATTTTGGCCCTTTAGATCAATTGCTATTTG
*
10047239 GTCCAATAACCATTTTGGCCTTTTAGATCAATTGCTATTT
1 GTCCAATAACCATTTTGGCCCTTTAGATCAATTGCTATTT
10047279 AAGTCCCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (41 bp):
GTCCAATAACCATTTTGGCCCTTTAGATCAATTGCTATTTG
Found at i:10048088 original size:24 final size:24
Alignment explanation
Indices: 10048056--10048103 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10048046 TTTGGTTTGG
10048056 ATCGGTATGATATGATGTTGTGAT
1 ATCGGTATGATATGATGTTGTGAT
10048080 ATCGGTATGATATGATGTTGTGAT
1 ATCGGTATGATATGATGTTGTGAT
10048104 GAAATTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (24 bp):
ATCGGTATGATATGATGTTGTGAT
Found at i:10052035 original size:9 final size:9
Alignment explanation
Indices: 10052021--10052088 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
10052011 ATAAGTATAA
10052021 AATTAACCG
1 AATTAACCG
10052030 AATTAACCG
1 AATTAACCG
*
10052039 AATTAATCG
1 AATTAACCG
*
10052048 AATTGACCG
1 AATTAACCG
*
10052057 AATT-ACTTG
1 AATTAAC-CG
*
10052066 AATTAACTG
1 AATTAACCG
10052075 AATTAACCG
1 AATTAACCG
10052084 AATTA
1 AATTA
10052089 TTTGTATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 2 0.04
9 48 0.92
10 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:10052129 original size:7 final size:6
Alignment explanation
Indices: 10052107--10052170 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
10052097 AAATTATATT
* **
10052107 TTTTTA TTTTTA TTTTTA GTTTTACA TTTTTA TTTTTA TTTATTA -AATTA
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT-TTA TTTTTA
10052157 TTTTTAA TTTTTA T
1 TTTTT-A TTTTTA T
10052171 GATTGGGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 3 0.06
6 26 0.55
7 17 0.36
8 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:10052188 original size:13 final size:13
Alignment explanation
Indices: 10052172--10052215 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
10052162 AATTTTTATG
10052172 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
10052185 ATTGGGTTGGG--
1 ATTGGGTTGGGTA
10052196 -TTGGGTTGGGTA
1 ATTGGGTTGGGTA
*
10052208 CTTGGGTT
1 ATTGGGTT
10052216 AATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.36
13 18 0.64
ACGTcount: A:0.09, C:0.02, G:0.48, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:10053755 original size:19 final size:20
Alignment explanation
Indices: 10053720--10053765 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
10053710 CGGAAAATGA
10053720 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
10053740 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
10053759 TTTCTGG
1 TTTCTGG
10053766 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:10053871 original size:20 final size:20
Alignment explanation
Indices: 10053846--10053885 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10053836 CTGTTTTTAC
10053846 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
10053866 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
10053886 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:10053890 original size:16 final size:18
Alignment explanation
Indices: 10053841--10053885 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
10053831 AAAATCTGTT
* *
10053841 TTTACATATATTAATAAA
1 TTTATATATTTTAATAAA
10053859 TTTATATATATATTAATAAA
1 TTTATATAT-T-TTAATAAA
10053879 TTTATAT
1 TTTATAT
10053886 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATTTTAATAAA
Found at i:10058599 original size:46 final size:46
Alignment explanation
Indices: 10058547--10058776 Score: 397
Period size: 46 Copynumber: 5.0 Consensus size: 46
10058537 TTTCTGTCAT
** * *
10058547 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* **
10058593 GCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10058639 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10058685 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10058731 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10058777 AGAGCACACT
Statistics
Matches: 178, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 178 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:10059023 original size:18 final size:18
Alignment explanation
Indices: 10059002--10059036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10058992 CGTATTCTTT
* *
10059002 GGGAGGGTTGTATCAGAC
1 GGGAGGGCTATATCAGAC
10059020 GGGAGGGCTATATCAGA
1 GGGAGGGCTATATCAGA
10059037 ATAGGATCAC
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:0.26, C:0.11, G:0.43, T:0.20
Consensus pattern (18 bp):
GGGAGGGCTATATCAGAC
Found at i:10060699 original size:118 final size:118
Alignment explanation
Indices: 10060491--10060727 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
10060481 CAATTTAATC
*
10060491 CTAACTAAATTCACTTACTTTTCTATCTTAATTCATACTTTATTTCTACCCAATTTTTATCCAAA
1 CTAACTAAATTCACTTACTTTTCTATCTTAATTCATACTTTATTTCTACCCAATTTTTAACCAAA
*
10060556 CTTAGACATAATTATCTATTTTTCATCATAAAATCATAATTTCGAAATTCTTT
66 CTTAGACATAATTATCTATTTTTCATCATAAAACCATAATTTCGAAATTCTTT
*
10060609 CTAACTAAATTCACTTACTTTTCTATCTTAATTCATACTTTATTTCTACTCAATTTTTAACCAAA
1 CTAACTAAATTCACTTACTTTTCTATCTTAATTCATACTTTATTTCTACCCAATTTTTAACCAAA
10060674 CTTAGACATAATTATCTATTTTTCATCATAAAACCATAATTTCGAAATTCTTT
66 CTTAGACATAATTATCTATTTTTCATCATAAAACCATAATTTCGAAATTCTTT
10060727 C
1 C
10060728 AATTTAGTCC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (118 bp):
CTAACTAAATTCACTTACTTTTCTATCTTAATTCATACTTTATTTCTACCCAATTTTTAACCAAA
CTTAGACATAATTATCTATTTTTCATCATAAAACCATAATTTCGAAATTCTTT
Found at i:10073867 original size:27 final size:27
Alignment explanation
Indices: 10073824--10073878 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
10073814 TTCGAACAAA
10073824 AATTGAGAAATTTGAGAGAACTA-AGAG
1 AATTGAGAAATTTGAGAGAA-TAGAGAG
*
10073851 AATTGAG-AGTTTAGAGAGAATAGAGAG
1 AATTGAGAAATTT-GAGAGAATAGAGAG
10073878 A
1 A
10073879 GCTGAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (27 bp):
AATTGAGAAATTTGAGAGAATAGAGAG
Found at i:10076324 original size:14 final size:14
Alignment explanation
Indices: 10076307--10076339 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10076297 TCACATATTC
10076307 TTTGTCCCCCTATA
1 TTTGTCCCCCTATA
10076321 TTTGTCCCCCTATA
1 TTTGTCCCCCTATA
10076335 TTTGT
1 TTTGT
10076340 TAACTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.48
Consensus pattern (14 bp):
TTTGTCCCCCTATA
Found at i:10076629 original size:154 final size:154
Alignment explanation
Indices: 10076349--10076654 Score: 603
Period size: 154 Copynumber: 2.0 Consensus size: 154
10076339 TTAACTTTTA
10076349 TTTTCACCTCCAAATTCGTAGCTTTTACTAGAACATATACATACTAGTTTTTCGATTCTTTTATG
1 TTTTCACCTCCAAATTCGTAGCTTTTACTAGAACATATACATACTAGTTTTTCGATTCTTTTATG
10076414 TTTTATATGGTAATCCCCTACCTTAGTATAGATTTAAATCTCCAATGGATAATCTCTTTAATTTC
66 TTTTATATGGTAATCCCCTACCTTAGTATAGATTTAAATCTCCAATGGATAATCTCTTTAATTTC
10076479 TATGATATAAACATATATACTAGT
131 TATGATATAAACATATATACTAGT
*
10076503 TTTTCATCTCCAAATTCGTAGCTTTTACTAGAACATATACATACTAGTTTTTCGATTCTTTTATG
1 TTTTCACCTCCAAATTCGTAGCTTTTACTAGAACATATACATACTAGTTTTTCGATTCTTTTATG
10076568 TTTTATATGGTAATCCCCTACCTTAGTATAGATTTAAATCTCCAATGGATAATCTCTTTAATTTC
66 TTTTATATGGTAATCCCCTACCTTAGTATAGATTTAAATCTCCAATGGATAATCTCTTTAATTTC
10076633 TATGATATAAACATATATACTA
131 TATGATATAAACATATATACTA
10076655 ATCTGTTCAA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (154 bp):
TTTTCACCTCCAAATTCGTAGCTTTTACTAGAACATATACATACTAGTTTTTCGATTCTTTTATG
TTTTATATGGTAATCCCCTACCTTAGTATAGATTTAAATCTCCAATGGATAATCTCTTTAATTTC
TATGATATAAACATATATACTAGT
Found at i:10083483 original size:33 final size:33
Alignment explanation
Indices: 10083386--10083484 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
10083376 TTTCTTCTTG
*
10083386 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
10083419 ACATTCCAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
10083452 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
10083485 CCACTCAGTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:10085718 original size:49 final size:49
Alignment explanation
Indices: 10085661--10085810 Score: 300
Period size: 49 Copynumber: 3.1 Consensus size: 49
10085651 ATACAAATTA
10085661 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
1 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
10085710 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
1 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
10085759 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
1 TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
10085808 TCA
1 TCA
10085811 TTCTCATTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 101 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (49 bp):
TCAAGCCTTCACATTAAGTTTAATTGAATTGAAGTTGCAGGGTTTTAAT
Found at i:10095411 original size:49 final size:49
Alignment explanation
Indices: 10095305--10095520 Score: 169
Period size: 49 Copynumber: 4.5 Consensus size: 49
10095295 AAATGTTGAC
* ** * *
10095305 GCCATGTCCCAGACATGGTCTTACACTGGCTAACACAT-T-AAAG-TCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCAAAGCT-AAT
* * *
10095353 GCCGTGTCCCAGACAGGTTTTACACTGACTTTCATATATCAAAGCTAAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAAGCTAAT
* * ** * *
10095402 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAAGCTAAT
* * * * * *
10095451 GTCATGTCCTAGACAGGTCTTACACTGA-T-ACACA-A-C-AAGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAAGCTAAT
*
10095495 ACCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
10095521 AGCTTGTATA
Statistics
Matches: 136, Mismatches: 29, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
44 27 0.20
45 1 0.01
46 1 0.01
47 19 0.14
48 16 0.12
49 71 0.52
50 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAAAGCTAAT
Found at i:10095474 original size:98 final size:91
Alignment explanation
Indices: 10095303--10095520 Score: 229
Period size: 98 Copynumber: 2.3 Consensus size: 91
10095293 TAAAATGTTG
* *
10095303 ACGCCATGTCCCAGACATGGTCTTACACTGGCTAACACATTAAAGTCGATGCCGTGTCCCAGACA
1 ACGCCATGTCCCAGACA-GGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGACA
* * *
10095368 GGTTTTACACTGACTTTCATATATCAAAGCTA
65 GGTCTTACACTGA--TACACA-A-C-AAGCTA
* ** ** * * *
10095400 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTTGATGTCATGTCCTAGAC
1 ACGCCATGTCCCAGACAGGTCTTACACTGGCTAACA-C-ATCAAAGTCGATGCCATGTCCCAGAC
*
10095465 AGGTCTTACACTGATACACAACAAGCTG
64 AGGTCTTACACTGATACACAACAAGCTA
*
10095493 ACACCATGTCCCAGACAGGTCTTACACT
1 ACGCCATGTCCCAGACAGGTCTTACACT
10095521 AGCTTGTATA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 31 0.30
94 1 0.01
95 1 0.01
96 21 0.20
97 17 0.17
98 32 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (91 bp):
ACGCCATGTCCCAGACAGGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGACAG
GTCTTACACTGATACACAACAAGCTA
Found at i:10095563 original size:48 final size:46
Alignment explanation
Indices: 10095497--10095657 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
10095487 AAGCTGACAC
* * * *
10095497 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCCCAAGGCCGATG
* * * * *
10095545 CATGTCTCAGACATGTCTTACACTGGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
* * *** * *
10095591 CATGTCCCAGACATGTCTTACACTGGCACTCATGATATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
*
10095637 CATGTCCCAAACATGTCTTAC
1 CATGTCCCAGACATGTCTTAC
10095658 GTTGGCTCAC
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
46 68 0.72
47 2 0.02
48 24 0.26
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
Found at i:10095602 original size:46 final size:46
Alignment explanation
Indices: 10095537--10095657 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 46
10095527 TATATCCCGA
* * *
10095537 GGCCGATGCATGTCTCAGACATGTCTTACACTGGCTCTCGTC-TCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCAT--AT
*
10095584 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATAT
* *
10095629 GGCTGATGCATGTCCCAAACATGTCTTAC
1 GGCCGATGCATGTCCCAGACATGTCTTAC
10095658 GTTGGCTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 2 0.03
46 63 0.95
47 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATAT
Found at i:10096998 original size:14 final size:15
Alignment explanation
Indices: 10096970--10097005 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10096960 AAAATCCTAA
10096970 TTTTCCTTCCTTTCT
1 TTTTCCTTCCTTTCT
*
10096985 TTTTCTTTCC-TTCT
1 TTTTCCTTCCTTTCT
10096999 TTTTCCT
1 TTTTCCT
10097006 CTCTGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCCTTCCTTTCT
Found at i:10098287 original size:16 final size:15
Alignment explanation
Indices: 10098262--10098295 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
10098252 ATTTATTAAT
10098262 TTAAAAATTAAAAATA
1 TTAAAAATT-AAAATA
*
10098278 TTAAATATTAAAATA
1 TTAAAAATTAAAATA
10098293 TTA
1 TTA
10098296 TCACAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAAAATTAAAATA
Found at i:10099098 original size:24 final size:26
Alignment explanation
Indices: 10099047--10099098 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
10099037 TACACGATTT
*
10099047 AAGTTTTAAAAGTTATTTTTTTAAAC
1 AAGTTTTAAAAGTTATATTTTTAAAC
*
10099073 AAGTTTTAAAA-TT-TATTTTTATAC
1 AAGTTTTAAAAGTTATATTTTTAAAC
10099097 AA
1 AA
10099099 TAATAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
25 2 0.08
26 11 0.46
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (26 bp):
AAGTTTTAAAAGTTATATTTTTAAAC
Found at i:10099509 original size:13 final size:13
Alignment explanation
Indices: 10099491--10099520 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10099481 CTCCAAATTT
10099491 TTATTTTATTTTA
1 TTATTTTATTTTA
*
10099504 TTATTTTATTTTT
1 TTATTTTATTTTA
10099517 TTAT
1 TTAT
10099521 AATTTTCGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Done.