Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 3 of 311
Found at i:799302 original size:17 final size:16
Alignment explanation
Indices: 799277--799320 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
799267 TAAAGATTTC
*
799277 AAATAAAAAGTACATAA
1 AAATAAAAAGTA-AAAA
* *
799294 AATTAAAAATTAAAAA
1 AAATAAAAAGTAAAAA
799310 AAATAAAAAGT
1 AAATAAAAAGT
799321 GCTCTTCTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (16 bp):
AAATAAAAAGTAAAAA
Found at i:799564 original size:2 final size:2
Alignment explanation
Indices: 799557--799581 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
799547 CCAAAAATTA
799557 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
799582 GATAGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:800409 original size:12 final size:12
Alignment explanation
Indices: 800385--800423 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
800375 GGTTTTTTCA
800385 TTTCTTTTCTTTT
1 TTTCTTTT-TTTT
800398 TTTCTTTTTTTT
1 TTTCTTTTTTTT
800410 TTTCCTTTTTTTT
1 TTT-CTTTTTTTT
800423 T
1 T
800424 AATTCTGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:813914 original size:6 final size:6
Alignment explanation
Indices: 813903--813928 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
813893 GCAAATGAAT
813903 CATTTC CATTTC CATTTC CATTTC CA
1 CATTTC CATTTC CATTTC CATTTC CA
813929 ATTTGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATTTC
Found at i:817210 original size:39 final size:39
Alignment explanation
Indices: 817156--817231 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
817146 GTCCATAGCA
817156 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
1 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
*
817195 ATTTTAAATACCAACTTGGATGTCCTATGTGGCAAAT
1 ATTTTAAATACCAACTTGGATGTCCTATATGGCAAAT
817232 TCAAATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (39 bp):
ATTTTAAATACCAACTTGGATGTCCTATATGGCAAATCC
Found at i:817241 original size:39 final size:39
Alignment explanation
Indices: 817159--817242 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
817149 CATAGCAATT
**
817159 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCATT
1 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
* *
817198 TTAAATACCAACTTGGATGTCCTATGTGGCAAATTCAAA
1 TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
817237 TTAAAT
1 TTAAAT
817243 TTATTTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (39 bp):
TTAAATACCAACTTGGATGTCCTATATGGCAAATCCAAA
Found at i:820571 original size:19 final size:19
Alignment explanation
Indices: 820549--820586 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
820539 CAAATTAATA
820549 TATAAAAATTGAAAAAATT
1 TATAAAAATTGAAAAAATT
*
820568 TATAAAAATTTAAAAAATT
1 TATAAAAATTGAAAAAATT
820587 AAATTTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TATAAAAATTGAAAAAATT
Found at i:820574 original size:10 final size:9
Alignment explanation
Indices: 820552--820586 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
820542 ATTAATATAT
*
820552 AAAAATTGA
1 AAAAATTTA
820561 AAAAATTTA
1 AAAAATTTA
820570 TAAAAATTTA
1 -AAAAATTTA
820580 AAAAATT
1 AAAAATT
820587 AAATTTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTTA
Found at i:820705 original size:9 final size:9
Alignment explanation
Indices: 820663--820704 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
820653 TTTTTTAAAT
820663 ATTTTTTAC
1 ATTTTTTAC
*
820672 ATTTTTTAT
1 ATTTTTTAC
*
820681 AATTTTTAC
1 ATTTTTTAC
*
820690 ACTTTTTAC
1 ATTTTTTAC
820699 -TTTTTT
1 ATTTTTT
820705 TTGTAACAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTTAC
Found at i:820705 original size:18 final size:18
Alignment explanation
Indices: 820661--820697 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
820651 TATTTTTTAA
*
820661 ATATTTTTTACATTTTTT
1 ATATTTTTTACACTTTTT
*
820679 ATAATTTTTACACTTTTT
1 ATATTTTTTACACTTTTT
820697 A
1 A
820698 CTTTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATTTTTTACACTTTTT
Found at i:821233 original size:29 final size:29
Alignment explanation
Indices: 821201--821273 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
821191 AAATGAAGGT
*
821201 CAAACTTTTCAAAATGGTCAAATAAGAAC
1 CAAACTTTTCAAAATGCTCAAATAAGAAC
* **
821230 CAAACTTTTTAAAAAATGCTCAAATAAGGGC
1 CAAAC-TTTT-CAAAATGCTCAAATAAGAAC
821261 CAAACTTCTTCAA
1 CAAACTT-TTCAA
821274 GCAAATCCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 5 0.14
30 8 0.22
31 23 0.64
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (29 bp):
CAAACTTTTCAAAATGCTCAAATAAGAAC
Found at i:824807 original size:37 final size:37
Alignment explanation
Indices: 824733--824822 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
824723 AGTACACAAG
*
824733 TAATCCAACCGA-AACATGCCAAACGCTCATAAGAGC
1 TAATCCAACCGATAACATGCCAAACGCTCATAAAAGC
* *
824769 TAATCCAACCGATAACATGCCAAATGTTCCA-AAAAGC
1 TAATCCAACCGATAACATGCCAAACGCT-CATAAAAGC
*
824806 TAATCCAACTGATAACA
1 TAATCCAACCGATAACA
824823 CACCACGACA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
36 12 0.25
37 34 0.71
38 2 0.04
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (37 bp):
TAATCCAACCGATAACATGCCAAACGCTCATAAAAGC
Found at i:832424 original size:66 final size:66
Alignment explanation
Indices: 832342--832476 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
832332 ACACAATCCC
832342 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
1 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
832407 A
66 A
*
832408 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGTGTATGCAATGATGCAAATTCAAATC
1 AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
832473 A
66 A
832474 AAC
1 AAC
832477 TCATATAATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (66 bp):
AACCCAATGCAGATGTAGATTTAATATATATTAGATATGAGTATGCAATGATGCAAATTCAAATC
A
Found at i:833070 original size:30 final size:30
Alignment explanation
Indices: 833007--833063 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
832997 CACCTGGCCA
*
833007 TGTGGCTTACACAGCCTAGGCACACGACCG
1 TGTGGCTTACACAGCCTAGGCACACAACCG
* *
833037 TGTGGCTTACATAGTCTAGGCACACAA
1 TGTGGCTTACACAGCCTAGGCACACAA
833064 TTGTGTGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (30 bp):
TGTGGCTTACACAGCCTAGGCACACAACCG
Found at i:836372 original size:13 final size:13
Alignment explanation
Indices: 836354--836379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
836344 TACAAAAATG
836354 GTGAAAAGTCAGA
1 GTGAAAAGTCAGA
836367 GTGAAAAGTCAGA
1 GTGAAAAGTCAGA
836380 CCTTTTGGCT
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:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (13 bp):
GTGAAAAGTCAGA
Found at i:837736 original size:26 final size:26
Alignment explanation
Indices: 837706--837758 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
837696 GATAACATAT
*
837706 AATCAATTAAATAAATGT-TTAAATTA
1 AATCAAATAAATAAAT-TATTAAATTA
*
837732 AATCAAATAGATAAATTATTAAATTA
1 AATCAAATAAATAAATTATTAAATTA
837758 A
1 A
837759 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (26 bp):
AATCAAATAAATAAATTATTAAATTA
Found at i:838028 original size:6 final size:6
Alignment explanation
Indices: 838017--838157 Score: 60
Period size: 6 Copynumber: 23.0 Consensus size: 6
838007 TGTCATACAA
* * * **
838017 TATAAT TATAAT TATTTTAT TTTATT TATTAAT ATATTAAT TATGGT TATAAT
1 TATAAT TATAAT TA--TAAT TATAAT TA-TAAT -TA-TAAT TATAAT TATAAT
* * *
838070 TATAAT TATAA- TATAGT TGATCA- TACAA- TATAAT TATAAT TAT--T
1 TATAAT TATAAT TATAAT T-ATAAT TATAAT TATAAT TATAAT TATAAT
* **
838114 T-TATT TATTAAT ATATTAAT TATGGT TATAAT TATAAT TATAAT
1 TATAAT TA-TAAT -TA-TAAT TATAAT TATAAT TATAAT TATAAT
838158 ATAGTTGATG
Statistics
Matches: 102, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
3 1 0.01
4 2 0.02
5 12 0.12
6 57 0.56
7 12 0.12
8 18 0.18
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TATAAT
Found at i:838128 original size:76 final size:75
Alignment explanation
Indices: 838023--838166 Score: 270
Period size: 76 Copynumber: 1.9 Consensus size: 75
838013 ACAATATAAT
*
838023 TATAATTATTTTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
1 TATAATTATATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
838088 GATCATACAA
66 GATCATACAA
838098 TATAATTATAATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGT
1 TATAATTAT-ATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGT
838163 TGAT
65 TGAT
838167 GTTGCTATCA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 9 0.13
76 58 0.87
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (75 bp):
TATAATTATATTATTTTATTTATTAATATATTAATTATGGTTATAATTATAATTATAATATAGTT
GATCATACAA
Found at i:842228 original size:13 final size:13
Alignment explanation
Indices: 842210--842235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
842200 CAGTTTCTAC
842210 CTATTATAAAAGT
1 CTATTATAAAAGT
842223 CTATTATAAAAGT
1 CTATTATAAAAGT
842236 AAAAATATTA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CTATTATAAAAGT
Found at i:842305 original size:15 final size:15
Alignment explanation
Indices: 842263--842309 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
842253 TAATAAATTG
* *
842263 AAAATTTAAATGCTGA
1 AAAATTTAAAT-ATTA
842279 AAAA-TTAAATATTA
1 AAAATTTAAATATTA
842293 AAAATTTAAATATTA
1 AAAATTTAAATATTA
842308 AA
1 AA
842310 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 18 0.64
16 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
AAAATTTAAATATTA
Found at i:843830 original size:13 final size:13
Alignment explanation
Indices: 843812--843837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
843802 TTTTGATCTT
843812 AATGTCAGCTGGG
1 AATGTCAGCTGGG
843825 AATGTCAGCTGGG
1 AATGTCAGCTGGG
843838 TTGTGGAAGG
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:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
AATGTCAGCTGGG
Found at i:848602 original size:21 final size:21
Alignment explanation
Indices: 848576--848629 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
848566 CGGGTGTGGG
*
848576 ACACGGGCGTGTTACCCTTCC
1 ACACGGGCGTGTTACCATTCC
848597 ACACGGGCGTGTTACCATTCC
1 ACACGGGCGTGTTACCATTCC
*
848618 ACATGGGCGTGT
1 ACACGGGCGTGT
848630 GCCCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.31, G:0.28, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTTACCATTCC
Found at i:850112 original size:46 final size:46
Alignment explanation
Indices: 850060--850235 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
850050 TGGTTGAGCA
850060 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
850106 TTCGAACTCGTTGAGTTGAATCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
850151 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
850199 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
850236 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.59
47 26 0.24
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:850216 original size:93 final size:93
Alignment explanation
Indices: 850057--850227 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
850047 GGATGGTTGA
* **
850057 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
850122 TGAATCCGAGTTCGTGAGATGTAACTAG
66 TGAATCCGAGTTCGTGAGATGTAACTAG
* * *
850150 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
850215 TGAGTCCGAGTTC
66 TGAATCCGAGTTC
850228 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGTGAGATGTAACTAG
Found at i:852194 original size:72 final size:71
Alignment explanation
Indices: 852078--852220 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 71
852068 GTATGGAAGT
*
852078 GTTAGTAAAGTCAAGTAGCACCTCGAACCCCGTCCCGACGTCGGATGCGGGCGAGGGGTGTTACA
1 GTTAGTAAAGTCAAGTAGCACCTCGAACCCCGTCCCGACGTCGGATGCGGGCAAGGGGTGTTACA
852143 GTTTTA
66 GTTTTA
* * *
852149 GTTAGTAAAAGTCAGGTAGCACCTTGAACCCCGTCCCGGCGTCGGATGCGGGCAAGGGGTGTTAC
1 GTTAGT-AAAGTCAAGTAGCACCTCGAACCCCGTCCCGACGTCGGATGCGGGCAAGGGGTGTTAC
852214 AGTTTTA
65 AGTTTTA
852221 ACTTGGACCG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 6 0.09
72 61 0.91
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.23
Consensus pattern (71 bp):
GTTAGTAAAGTCAAGTAGCACCTCGAACCCCGTCCCGACGTCGGATGCGGGCAAGGGGTGTTACA
GTTTTA
Found at i:852855 original size:17 final size:17
Alignment explanation
Indices: 852835--853265 Score: 70
Period size: 17 Copynumber: 25.2 Consensus size: 17
852825 TTAAAGAAGT
852835 AAATTAATTAAAGTTTA
1 AAATTAATTAAAGTTTA
* * *
852852 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
852869 AAAATATTTAAAACAATCA
1 AAATTAATT-AAA-GTTTA
**
852888 AAATTAATTAAAG-AAA
1 AAATTAATTAAAGTTTA
* *
852904 TAAATAAATTAAATTTTAAAA
1 -AAATTAATTAAAGTTT---A
852925 TAAATTAATTAAAGTTTA
1 -AAATTAATTAAAGTTTA
* * *
852943 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
852960 AAAATATTTAAAACAATCA
1 AAATTAATT-AAA-GTTTA
* **
852979 AAATTAAATAAA-TAAA
1 AAATTAATTAAAGTTTA
*
852995 TAAATTAATTAAATTTTAAAA
1 -AAATTAATTAAAGTTT---A
853016 TAAATTAATTAAAGTTTA
1 -AAATTAATTAAAGTTTA
* * *
853034 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
* * ** *
853051 AAAATATTTAAAACAATAA
1 AAATTAATT-AAA-GTTTA
* **
853070 AAATTAATTAATG-AAA
1 AAATTAATTAAAGTTTA
*
853086 TAAATTAATTAAATTTTA
1 -AAATTAATTAAAGTTTA
* * *
853104 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
*
853121 AAA--AA-TAAA--ATA
1 AAATTAATTAAAGTTTA
** *
853133 AAATT--TTAAAAATCA
1 AAATTAATTAAAGTTTA
*
853148 AAATTAATTAAAGTTGA
1 AAATTAATTAAAGTTTA
853165 AAATAAATGAATTAAAGTTTA
1 AAAT---T-AATTAAAGTTTA
* *
853186 AAATAAATTTAA-TTTA
1 AAATTAATTAAAGTTTA
*
853202 AAA--AATTTAA-TTT-
1 AAATTAATTAAAGTTTA
* * *
853215 AATTTAA--AAA-ATCA
1 AAATTAATTAAAGTTTA
853229 AAATTAATTAAAGTTTA
1 AAATTAATTAAAGTTTA
* * *
853246 AAATAAATTTAATTTTA
1 AAATTAATTAAAGTTTA
853263 AAA
1 AAA
853266 AATAGAATTT
Statistics
Matches: 297, Mismatches: 82, Indels: 70
0.66 0.18 0.16
Matches are distributed among these distances:
12 5 0.02
13 9 0.03
14 19 0.06
15 10 0.03
16 14 0.05
17 147 0.49
18 18 0.06
19 26 0.09
20 1 0.00
21 48 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATTAATTAAAGTTTA
Found at i:852879 original size:16 final size:17
Alignment explanation
Indices: 852848--852962 Score: 51
Period size: 21 Copynumber: 6.4 Consensus size: 17
852838 TTAATTAAAG
852848 TTTAAAATAAATTTAAT
1 TTTAAAATAAATTTAAT
*
852865 TTTAAAA-ATATTTAA-
1 TTTAAAATAAATTTAAT
*
852880 ---AACAATCAAAATTAAT
1 TTTAA-AAT-AAATTTAAT
**
852896 TAAAGAAATAAATAAATTAAAT
1 TTTA-AAATAAAT---TTA-AT
*
852918 TTTAAAATAAATTAATTAAAG
1 TTTAAAATAAA-T--TT-AAT
852939 TTTAAAATAAATTTAAT
1 TTTAAAATAAATTTAAT
852956 TTTAAAA
1 TTTAAAA
852963 ATATTTAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
15 6 0.08
16 7 0.09
17 16 0.21
18 5 0.07
19 4 0.05
20 2 0.03
21 26 0.34
22 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTAAAATAAATTTAAT
Found at i:852932 original size:91 final size:91
Alignment explanation
Indices: 852834--853117 Score: 514
Period size: 91 Copynumber: 3.1 Consensus size: 91
852824 ATTAAAGAAG
852834 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAATTAA
1 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAATTAA
*
852899 AGAAATAAATAAATTAAATTTTAAAA
66 AGAAATAAATTAATTAAATTTTAAAA
*
852925 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAAATAA
1 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAATTAA
*
852990 ATAAATAAATTAATTAAATTTTAAAA
66 AGAAATAAATTAATTAAATTTTAAAA
*
853016 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATAAAAATTAATTAA
1 TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAATTAA
*
853081 TGAAATAAATTAATTAAATTTTAAAA
66 AGAAATAAATTAATTAAATTTTAAAA
853107 TAAATTTAATT
1 TAAA-TTAATT
853118 TTAAAAAATA
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
91 179 0.97
92 6 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (91 bp):
TAAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAATATTTAAAACAATCAAAATTAATTAA
AGAAATAAATTAATTAAATTTTAAAA
Found at i:852951 original size:21 final size:21
Alignment explanation
Indices: 852901--853199 Score: 132
Period size: 21 Copynumber: 13.6 Consensus size: 21
852891 TTAATTAAAG
* *
852901 AAATAAATAAATTAAATTTTA
1 AAATAAATTAATTAAAGTTTA
852922 AAATAAATTAATTAAAGTTTA
1 AAATAAATTAATTAAAGTTTA
*
852943 AAATAAATTTAATTTTAAAAATATTTA
1 AAATAAA-TTAA--TT--AAA-GTTTA
* * **
852970 AAA-CAATCAAAATTAAA-TAAA
1 AAATAAAT--TAATTAAAGTTTA
*
852991 TAAATAAATTAATTAAATTTTA
1 -AAATAAATTAATTAAAGTTTA
853013 AAATAAATTAATTAAAGTTTA
1 AAATAAATTAATTAAAGTTTA
*
853034 AAATAAATTTAATTTTAAAAATATTTA
1 AAATAAA-TTAA--TT--AAA-GTTTA
* ** *
853061 AAACAATAAAAATT-AA-TTAATG
1 AAATAA-ATTAATTAAAGTT--TA
*
853083 AAATAAATTAATTAAATTTTA
1 AAATAAATTAATTAAAGTTTA
*
853104 AAATAAATTTAATT----TTAAA
1 AAATAAA-TTAATTAAAGTT-TA
* ** *
853123 AAATAAAATAA--AATTTTAA
1 AAATAAATTAATTAAAGTTTA
*
853142 AAATCAAAATTAATTAAAGTTGA
1 AAAT--AAATTAATTAAAGTTTA
*
853165 AAATAAATGAATTAAAGTTTA
1 AAATAAATTAATTAAAGTTTA
853186 AAATAAATTTAATT
1 AAATAAA-TTAATT
853200 TAAAAAATTT
Statistics
Matches: 215, Mismatches: 30, Indels: 65
0.69 0.10 0.21
Matches are distributed among these distances:
18 5 0.02
19 14 0.07
20 4 0.02
21 103 0.48
22 34 0.16
23 17 0.08
24 4 0.02
25 5 0.02
26 8 0.04
27 20 0.09
28 1 0.00
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATAAATTAATTAAAGTTTA
Found at i:852970 original size:16 final size:17
Alignment explanation
Indices: 852905--853279 Score: 68
Period size: 21 Copynumber: 19.8 Consensus size: 17
852895 TTAAAGAAAT
*
852905 AAATAAATTAAATTTTA
1 AAATAAATTTAATTTTA
*
852922 AAATAAATTAATTAAAGTTTA
1 AAATAAA-T--TT-AATTTTA
852943 AAATAAATTTAATTTTA
1 AAATAAATTTAATTTTA
*
852960 AAA-ATATTTAA----A
1 AAATAAATTTAATTTTA
* * **
852972 ACAATCAAAATTAAATAAA
1 A-AAT-AAATTTAATTTTA
852991 TAAATAAATTAATTAAATTTTA
1 -AAATAAA-T--TT-AATTTTA
*
853013 AAATAAATTAATTAAAGTTTA
1 AAATAAA-T--TT-AATTTTA
853034 AAATAAATTTAATTTTA
1 AAATAAATTTAATTTTA
*
853051 AAA-ATATTTAA----A
1 AAATAAATTTAATTTTA
* * *
853063 ACAATAAAAATTAATTAATG
1 A-AAT-AAATTTAATT-TTA
853083 AAATAAATTAATTAAATTTTA
1 AAATAAA-T--TT-AATTTTA
853104 AAATAAATTTAATTTTAAA
1 AAATAAATTTAATTTT--A
**
853123 AAATAAAATAAAATTTTAA
1 AAAT-AAATTTAATTTT-A
*
853142 AAATCAAAATTAATTAAAGTTGA
1 AAAT-AAATTTAATT----TT-A
*
853165 AAATAAATGAATTAAAGTTTA
1 AAATAAAT---TT-AATTTTA
*
853186 AAATAAATTTAATTTAAA
1 AAATAAATTTAATTT-TA
* *
853204 AAATTTAATTTAATTTAAA
1 AAA-TAAATTTAATTT-TA
*
853223 AAATCAAAATTAATTAAAGTTTA
1 AAAT--AAA-T--TT-AATTTTA
853246 AAATAAATTTAATTTTAAA
1 AAATAAATTTAATTTT--A
853265 AAATAGAATTTAATT
1 AAATA-AATTTAATT
853280 AAAAAGAATA
Statistics
Matches: 273, Mismatches: 35, Indels: 97
0.67 0.09 0.24
Matches are distributed among these distances:
12 4 0.01
13 4 0.01
15 12 0.04
16 14 0.05
17 40 0.15
18 22 0.08
19 48 0.18
20 28 0.10
21 65 0.24
22 13 0.05
23 14 0.05
24 4 0.01
25 2 0.01
26 3 0.01
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATAAATTTAATTTTA
Found at i:853195 original size:82 final size:81
Alignment explanation
Indices: 853051--853253 Score: 261
Period size: 81 Copynumber: 2.5 Consensus size: 81
853041 TTTAATTTTA
* * *
853051 AAAATATTTAAAACAATAAAAATTAATT-AA--TG-AAATAAATTAATTAAATTTTAAAATAAAT
1 AAAAT-TTT-AAA-AATCAAAATTAATTAAAGTTGAAAATAAATGAATTAAAGTTTAAAATAAAT
853112 TTAATTTTAAAAAATAAAAT
63 TTAA-TTTAAAAAATAAAAT
853132 AAAATTTTAAAAATCAAAATTAATTAAAGTTGAAAATAAATGAATTAAAGTTTAAAATAAATTTA
1 AAAATTTTAAAAATCAAAATTAATTAAAGTTGAAAATAAATGAATTAAAGTTTAAAATAAATTTA
**
853197 ATTTAAAAAATTTAAT
66 ATTTAAAAAATAAAAT
** * *
853213 TTAATTTAAAAAATCAAAATTAATTAAAGTTTAAAATAAAT
1 AAAATTTTAAAAATCAAAATTAATTAAAGTTGAAAATAAAT
853254 TTAATTTTAA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 13 0.12
79 5 0.05
80 3 0.03
81 57 0.52
82 31 0.28
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (81 bp):
AAAATTTTAAAAATCAAAATTAATTAAAGTTGAAAATAAATGAATTAAAGTTTAAAATAAATTTA
ATTTAAAAAATAAAAT
Found at i:853209 original size:14 final size:14
Alignment explanation
Indices: 853190--853216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
853180 AGTTTAAAAT
853190 AAATTTAATTTAAA
1 AAATTTAATTTAAA
853204 AAATTTAATTTAA
1 AAATTTAATTTAA
853217 TTTAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTTAATTTAAA
Found at i:853282 original size:60 final size:60
Alignment explanation
Indices: 853169--853284 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
853159 AGTTGAAAAT
**
853169 AAATGAATTAAAGTTTAAAATAAATTTAATTTAAAAAATTTAATTTAATTTAAAAAATCA
1 AAATGAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAGAATTTAATTTAAAAAATCA
*
853229 AAATTAATTAAAGTTTAAAATAAATTTAATTTTAAAAAATAGAATTTAA-TTAAAAA
1 AAATGAATTAAAGTTTAAAATAAATTTAA-TTTAAAAAATAGAATTTAATTTAAAAA
853285 GAATAATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 35 0.67
61 17 0.33
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (60 bp):
AAATGAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAGAATTTAATTTAAAAAATCA
Found at i:853284 original size:19 final size:18
Alignment explanation
Indices: 853185--853290 Score: 95
Period size: 19 Copynumber: 5.4 Consensus size: 18
853175 ATTAAAGTTT
853185 AAAATAAATTTAATTTAA
1 AAAATAAATTTAATTTAA
*
853203 AAAATTTAATTTAATTTAA
1 AAAA-TAAATTTAATTTAA
* *
853222 AAAATCAAAATTAATTAAA
1 AAAAT-AAATTTAATTTAA
853241 GTTTAAAATAAATTTAATTTTAA
1 ----AAAATAAATTTAA-TTTAA
*
853264 AAAATAGAATTTAATTAAA
1 AAAATA-AATTTAATTTAA
853283 AAGAATAA
1 AA-AATAA
853291 TTAAAGAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
18 5 0.07
19 40 0.56
20 11 0.15
22 7 0.10
23 9 0.12
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAATAAATTTAATTTAA
Found at i:856118 original size:26 final size:27
Alignment explanation
Indices: 856035--856123 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 27
856025 TTTTCTTCAT
* *
856035 GTTTTTGAATAAGATAAAAAACTATGA
1 GTTTTTGAATAACATAAAAAATTATGA
* *
856062 GTTTCTAAATAACATAAAATCAAGTAATATG-
1 GTTTTTGAATAACATAAAA--AA-T--TATGA
*
856093 GTTTTTGAATAACATAAAGAATTATGA
1 GTTTTTGAATAACATAAAAAATTATGA
856120 GTTT
1 GTTT
856124 CGATTTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
26 4 0.08
27 20 0.41
28 1 0.02
29 4 0.08
31 16 0.33
32 4 0.08
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAAAATTATGA
Found at i:864764 original size:20 final size:20
Alignment explanation
Indices: 864736--864775 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
864726 CTCTAATTAG
*
864736 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
864756 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
864776 TCAATGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:869454 original size:25 final size:27
Alignment explanation
Indices: 869413--869463 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
869403 AGTCAAACAT
869413 GTATTTAGGTCAATTTAAC-CCTAGGA
1 GTATTTAGGTCAATTTAACTCCTAGGA
* *
869439 GTATTTCGGT-AATTTATCTCCTAGG
1 GTATTTAGGTCAATTTAACTCCTAGG
869464 GGTAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGA
Found at i:870969 original size:26 final size:26
Alignment explanation
Indices: 870937--871040 Score: 147
Period size: 26 Copynumber: 4.0 Consensus size: 26
870927 ATGCCCATCG
870937 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
* *
870963 TGAAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
* *
870989 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
*
871015 TGGAACATTTA-CTTAACCTATTATCA
1 TGGAACATTTACCTAAACC-ATTATCA
871041 ATTTGTACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 5 0.07
26 64 0.93
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (26 bp):
TGGAACATTTACCTAAACCATTATCA
Found at i:871010 original size:52 final size:52
Alignment explanation
Indices: 870937--871040 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
870927 ATGCCCATCG
870937 TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
* * * * *
870989 TGGAATATTTACCTAATCCATTATCATGGAACATTTACTTAACCTATTATCA
1 TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
871041 ATTTGTACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (52 bp):
TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
Found at i:876353 original size:28 final size:28
Alignment explanation
Indices: 876291--876346 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
876281 AGAAAAAGAA
876291 TGAACATATTCCTAGTAAGTTTTGAGTT
1 TGAACATATTCCTAGTAAGTTTTGAGTT
876319 TGAACATATTCCTAGTAAGTTTTGAGTT
1 TGAACATATTCCTAGTAAGTTTTGAGTT
876347 GAAACATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (28 bp):
TGAACATATTCCTAGTAAGTTTTGAGTT
Found at i:883308 original size:18 final size:18
Alignment explanation
Indices: 883285--883322 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
883275 CTCAGCATCC
883285 AAACAAAACAAAACAATA
1 AAACAAAACAAAACAATA
* *
883303 AAACAAAATAAAATAATA
1 AAACAAAACAAAACAATA
883321 AA
1 AA
883323 TAAATTACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACAAAACAAAACAATA
Found at i:885733 original size:12 final size:13
Alignment explanation
Indices: 885715--885739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
885705 TAGCCATAAG
885715 TTTTTTTGTATTC
1 TTTTTTTGTATTC
885728 TTTTTTTGTATT
1 TTTTTTTGTATT
885740 GGCCTAAGGT
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:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTTTGTATTC
Found at i:886933 original size:47 final size:47
Alignment explanation
Indices: 886903--887190 Score: 486
Period size: 47 Copynumber: 6.1 Consensus size: 47
886893 CACTTCCACG
** * * * *
886903 TTCATCACATTGGCCATTCTACCTTACCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
*
886950 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
886997 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
887044 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
887091 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
* * *
887138 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
887185 TTCATC
1 TTCATC
887191 TCATAGAATC
Statistics
Matches: 232, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACA
Found at i:886971 original size:94 final size:94
Alignment explanation
Indices: 886863--887190 Score: 464
Period size: 94 Copynumber: 3.5 Consensus size: 94
886853 ACACATTTCG
* ** * * * * **
886863 CATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTACCT
1 CATTGGCCATTCGGCTTCATCACATATTTGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
* * * *
886927 TACCACATATATACATGTTCACATTCATCA
65 CATCACATATTTGCATGTTCACATTCATCA
886957 CATTGGCCATTCGGCCTT-ATCACATATTTGCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGG-CTTCATCACATATTTGCATGTTCACATTCATCACATTGGCCATTCGGCCT
887021 CATCACATATTTGCATGTTCACATTCATCA
65 CATCACATATTTGCATGTTCACATTCATCA
*
887051 CATTGGCCATTCGGCCTCATCACATATTTGCATGTTCACATTCATCACATTGGCCATTCGGCCTC
1 CATTGGCCATTCGGCTTCATCACATATTTGCATGTTCACATTCATCACATTGGCCATTCGGCCTC
887116 ATCACATATTTGCATGTTCACATTCATCA
66 ATCACATATTTGCATGTTCACATTCATCA
* *
887145 CATTGGCCATTCGGCCTT-ATCACACATATGCATGTTCACATTCATC
1 CATTGGCCATTCGG-CTTCATCACATATTTGCATGTTCACATTCATC
887191 TCATAGAATC
Statistics
Matches: 213, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
93 3 0.01
94 205 0.96
95 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.34
Consensus pattern (94 bp):
CATTGGCCATTCGGCTTCATCACATATTTGCATGTTCACATTCATCACATTGGCCATTCGGCCTC
ATCACATATTTGCATGTTCACATTCATCA
Found at i:899714 original size:15 final size:15
Alignment explanation
Indices: 899694--899761 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
899684 GGACTTATGA
899694 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
899709 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
899726 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
899743 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
899756 ATATTT
1 ATATTT
899762 TCAATAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.25
15 12 0.27
16 1 0.02
17 7 0.16
18 1 0.02
19 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:899811 original size:13 final size:14
Alignment explanation
Indices: 899775--899821 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
899765 ATAATATGTG
*
899775 AATAATATTATTTAA
1 AATATTATT-TTTAA
899790 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
899805 AAT-TTATTGTTAA
1 AATATTATTTTTAA
899818 AATA
1 AATA
899822 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:899849 original size:20 final size:20
Alignment explanation
Indices: 899824--899885 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
899814 TTAAAATAAA
899824 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
*
899844 ATTAAAATAATAAAT--TTT
1 ATTAAAATATTAAATAATTT
**
899862 ATTTATTATATT-AATAATTT
1 A-TTAAAATATTAAATAATTT
899882 ATTA
1 ATTA
899886 TATCACTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Found at i:900677 original size:20 final size:19
Alignment explanation
Indices: 900652--900690 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
900642 CTTTTTCTTT
900652 ATAATTTGTTGAATTTTTTA
1 ATAATTTGTTG-ATTTTTTA
900672 ATAATTTGTTGATTTTTTA
1 ATAATTTGTTGATTTTTTA
900691 TAAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
ATAATTTGTTGATTTTTTA
Found at i:901528 original size:6 final size:6
Alignment explanation
Indices: 901517--901543 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
901507 GACGGCTGTC
901517 GACAAA GACAAA GACAAA GACAAA GAC
1 GACAAA GACAAA GACAAA GACAAA GAC
901544 TGTTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.19, G:0.19, T:0.00
Consensus pattern (6 bp):
GACAAA
Found at i:907940 original size:16 final size:16
Alignment explanation
Indices: 907921--907953 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
907911 ATGATCTAAA
907921 CTTATAATGACTTGAC
1 CTTATAATGACTTGAC
907937 CTTATAATGACTTGAC
1 CTTATAATGACTTGAC
907953 C
1 C
907954 AGAAAAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (16 bp):
CTTATAATGACTTGAC
Found at i:914369 original size:23 final size:22
Alignment explanation
Indices: 914334--914387 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
914324 AATTTTTAAA
* *
914334 TTTTTAAAATTTTTTTACATAT
1 TTTTTAAAATTTTATTACAAAT
* *
914356 TTTTTAGAATTTTTATTATAAAT
1 TTTTTA-AAATTTTATTACAAAT
914379 TTTTTAAAA
1 TTTTTAAAA
914388 ATATAAGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTTAAAATTTTATTACAAAT
Found at i:920650 original size:31 final size:34
Alignment explanation
Indices: 920590--920662 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 34
920580 GTTTTATAAT
*
920590 ATATTTTTTTTATAAATATTAAAAATATATTTTCA
1 ATATTATTTTTATAAATATT-AAAATATATTTTCA
*
920625 A-ATTATTTTT-TAAATATT-AAATATATTTTTA
1 ATATTATTTTTATAAATATTAAAATATATTTTCA
920656 ATATTAT
1 ATATTAT
920663 AAAACATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 13 0.37
32 5 0.14
33 8 0.23
34 8 0.23
35 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (34 bp):
ATATTATTTTTATAAATATTAAAATATATTTTCA
Found at i:920671 original size:19 final size:19
Alignment explanation
Indices: 920631--920718 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 19
920621 TTCAAATTAT
*
920631 TTTTTAAATATTA-AATATA
1 TTTTT-AATATTATAAAATA
*
920650 TTTTTAATATTATAAAACA
1 TTTTTAATATTATAAAATA
**
920669 TTTAAAATGATT-TAAAATA
1 TTTTTAAT-ATTATAAAATA
*
920688 TTTTTTAATATT-TTAAATGA
1 -TTTTTAATATTATAAAAT-A
*
920708 TTTTAAATATT
1 TTTTTAATATT
920719 TTTTAAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
18 7 0.12
19 39 0.70
20 10 0.18
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTTAATATTATAAAATA
Found at i:920719 original size:29 final size:28
Alignment explanation
Indices: 920618--920730 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
920608 TTAAAAATAT
* *
920618 ATTTTCAAATTATTTTTTAAATATTAAATAT
1 ATTTT-AAA-TATTTTTTAAATTTTAAAT-G
* * ** *
920649 ATTTTTAATATTATAAAACATTTAAAATG
1 ATTTTAAATATTTTTTAA-ATTTTAAATG
*
920678 ATTTAAAATATTTTTTAATATTTTAAATG
1 ATTTTAAATATTTTTTAA-ATTTTAAATG
920707 ATTTTAAATATTTTTTAAATTTTA
1 ATTTTAAATATTTTTTAAATTTTA
920731 CATAGAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.09
29 46 0.70
30 9 0.14
31 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTTTAAATATTTTTTAAATTTTAAATG
Found at i:920721 original size:10 final size:9
Alignment explanation
Indices: 920632--920720 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
920622 TCAAATTATT
920632 TTTTAAATA
1 TTTTAAATA
*
920641 -TTAAATATA
1 TTTTAA-ATA
*
920650 TTTTTAATA
1 TTTTAAATA
* *
920659 TTATAAAACA
1 TT-TTAAATA
*
920669 TTTAAAATGA
1 TTTTAAAT-A
*
920679 TTTAAAATA
1 TTTTAAATA
*
920688 TTTTTTAATA
1 -TTTTAAATA
920698 TTTTAAATGA
1 TTTTAAAT-A
920708 TTTTAAATA
1 TTTTAAATA
920717 TTTT
1 TTTT
920721 TTAAATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.06
9 26 0.41
10 34 0.53
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (9 bp):
TTTTAAATA
Found at i:921456 original size:37 final size:36
Alignment explanation
Indices: 921386--921456 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
921376 AATAATAATT
* *
921386 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTCAAAATTTTAAAAAATTAATTTCAAAAATACA
* * *
921422 TTTTCAAAATTTATAGATAATTAATTTCACAAATA
1 TTTTCAAAATTT-TAAAAAATTAATTTCAAAAATA
921457 TATATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 11 0.38
37 18 0.62
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (36 bp):
TTTTCAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:921596 original size:21 final size:19
Alignment explanation
Indices: 921570--921621 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
921560 AATATAAATT
921570 AAATAAGTAAAATAAATTAAA
1 AAATAA-TAAAA-AAATTAAA
* *
921591 AAATAATATAAAACTTAAA
1 AAATAATAAAAAAATTAAA
*
921610 AAAGAA-AAAAAA
1 AAATAATAAAAAA
921622 TCTAAGAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 4 0.15
21 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (19 bp):
AAATAATAAAAAAATTAAA
Found at i:921621 original size:18 final size:17
Alignment explanation
Indices: 921565--921682 Score: 85
Period size: 18 Copynumber: 6.6 Consensus size: 17
921555 TTAATAATAT
* *
921565 AAATTAAATAAGTAAAAT
1 AAATTAAAAAAG-AAAAA
*
921583 AAATTAAAAAATAATATAA
1 AAATTAAAAAAGAA-A-AA
*
921602 AACTTAAAAAAGAAAAA
1 AAATTAAAAAAGAAAAA
* * *
921619 AAATCTAAGAAAGAGACA
1 AAAT-TAAAAAAGAAAAA
921637 AAATATAAAAAA-AATAAA
1 AAAT-TAAAAAAGAA-AAA
* *
921655 AAGTTAAAAAAGTAAAA
1 AAATTAAAAAAGAAAAA
*
921672 AAAGTAAAAAA
1 AAATTAAAAAA
921683 AATATAATAA
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
17 27 0.35
18 38 0.49
19 13 0.17
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATTAAAAAAGAAAAA
Found at i:921684 original size:10 final size:9
Alignment explanation
Indices: 921652--921683 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
921642 TAAAAAAAAT
*
921652 AAAAAGTTA
1 AAAAAGTAA
921661 AAAAAGTAA
1 AAAAAGTAA
921670 AAAAAGTAA
1 AAAAAGTAA
921679 AAAAA
1 AAAAA
921684 ATATAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAAGTAA
Found at i:924988 original size:15 final size:15
Alignment explanation
Indices: 924955--924989 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
924945 AAACACACAA
*
924955 AAACAAACAATAGAC
1 AAACAAACAATACAC
*
924970 AAACAAACAATACAT
1 AAACAAACAATACAC
924985 AAACA
1 AAACA
924990 TTGATGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.20, G:0.03, T:0.09
Consensus pattern (15 bp):
AAACAAACAATACAC
Found at i:929314 original size:28 final size:28
Alignment explanation
Indices: 929282--929337 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
929272 CAAAAGTTGA
929282 ACAACAGAAACACCATTAATGCCTACGG
1 ACAACAGAAACACCATTAATGCCTACGG
*
929310 ACAACAGAAGCACCATTAATGCCTACGG
1 ACAACAGAAACACCATTAATGCCTACGG
929338 TGCGACGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.29, G:0.16, T:0.14
Consensus pattern (28 bp):
ACAACAGAAACACCATTAATGCCTACGG
Found at i:931220 original size:23 final size:23
Alignment explanation
Indices: 931190--931235 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
931180 CCTCCATATT
931190 TCCACCAATGTGCTGATTAGTTA
1 TCCACCAATGTGCTGATTAGTTA
931213 TCCACCAATGTGCTGATTAGTTA
1 TCCACCAATGTGCTGATTAGTTA
931236 CAAGTTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
TCCACCAATGTGCTGATTAGTTA
Found at i:936524 original size:3 final size:3
Alignment explanation
Indices: 936482--936507 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
936472 GTAGTAACCC
936482 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
936508 ATACAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:949888 original size:40 final size:40
Alignment explanation
Indices: 949804--950028 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
949794 TTGAATGATG
* * * *
949804 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
949844 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
949884 TCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
949923 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
949963 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
950004 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
950029 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 120 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:950050 original size:119 final size:119
Alignment explanation
Indices: 949804--950061 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
949794 TTGAATGATG
* *
949804 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
949869 GTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAAA
66 GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTGACTAAA
* * * **
949923 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
949986 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTGA-CTAAA
* *
950043 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
950062 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTGACTAAA
Found at i:951622 original size:47 final size:47
Alignment explanation
Indices: 951381--951599 Score: 350
Period size: 47 Copynumber: 4.7 Consensus size: 47
951371 GTCGATTCTA
* *
951381 GAATGTGAAAGTGTATATATGTGATAGGGCCTAGTAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* *
951428 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* *
951475 GAATGTGAAAGTGTATGTGA-GTGATAAGGCTTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATAGCCGATGTGAT
*
951522 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
951569 GAATGTGAAAGTGTATATATGTGACAAGGCC
1 GAATGTGAAAGTGTATATATGTGATAAGGCC
951600 GAGTGGCCAA
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.01
47 157 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:951622 original size:94 final size:94
Alignment explanation
Indices: 951381--951643 Score: 350
Period size: 94 Copynumber: 2.8 Consensus size: 94
951371 GTCGATTCTA
*
951381 GAATGTGAAAGTGTATATATGTGATAGGGCCTAGTAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAGTAGCCGATGTGATGAATGTGAAAGTGTATAT
*
951446 GTGTGATAAGGCCTAATAGCCGACGTGAT
66 ATGTGATAAGGCCTAATAGCCGACGTGAT
* * *
951475 GAATGTGAAAGTGTATGTGA-GTGATAAGGCTTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 GAATGTGAAAGTGTATAT-ATGTGATAAGGCCTAGTAGCCGATGTGATGAATGTGAAAGTGTATA
* *
951539 TATGTGATAAGGCCTAATGGCCGATGTGAT
65 TATGTGATAAGGCCTAATAGCCGACGTGAT
* * * * * * * *
951569 GAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAAT-AGATGTGGAAGTGCATA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAGTAGCCGATGTGATGA-ATGTGAAAGTGTATA
*
951633 AATGTGATAAG
65 TATGTGATAAG
951644 TCCTGAAAGG
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
93 2 0.01
94 144 0.98
95 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAGTAGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGACGTGAT
Found at i:951628 original size:47 final size:47
Alignment explanation
Indices: 951381--951639 Score: 207
Period size: 47 Copynumber: 5.5 Consensus size: 47
951371 GTCGATTCTA
* * * * * * * *
951381 GAATGTGAAAGTGTATATATGTGATAGGGCCTAGTAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAAT
* * * * * *
951428 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
1 GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAAT
* * ** * * * *
951475 GAATGTGAAAGTGTATGTGA-GTGATAAGGCTTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATAT-ATGTGACAAGGCCGAATGGCCAACGTAAT
* * * * *
951522 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAAT
*
951569 GAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAAT
1 GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAAT
* * *
951616 -AGATGTGGAAGTGCATAAATGTGA
1 GA-ATGTGAAAGTGTATATATGTGA
951640 TAAGTCCTGA
Statistics
Matches: 189, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.01
47 187 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTAAT
Found at i:951640 original size:141 final size:141
Alignment explanation
Indices: 951381--951643 Score: 368
Period size: 141 Copynumber: 1.9 Consensus size: 141
951371 GTCGATTCTA
* *
951381 GAATGTGAAAGTGTATATATGTGATAGGGCCTAGTAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * **
951446 GTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGAGTGATAAGGCTTAATA
66 ATGTGACAAGGCCGAATAGCCAACGTAATGAATGTGAAAGTGCATGAAAGTGATAAGGCTTAATA
951511 GCCGATGTGAT
131 GCCGATGTGAT
*
951522 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
951587 ATGTGACAAGGCCGAGTGGCCAACGTAAT-AGATGTGGAAGTGCAT-AAATGTGATAAG
66 ATGTGACAAGGCCGAATAGCCAACGTAATGA-ATGTGAAAGTGCATGAAA-GTGATAAG
951644 TCCTGAAAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
140 2 0.02
141 104 0.98
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (141 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCCGAATAGCCAACGTAATGAATGTGAAAGTGCATGAAAGTGATAAGGCTTAATA
GCCGATGTGAT
Found at i:953104 original size:13 final size:13
Alignment explanation
Indices: 953086--953110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
953076 CAATTTTTTA
953086 TTTTTAATTAATG
1 TTTTTAATTAATG
953099 TTTTTAATTAAT
1 TTTTTAATTAAT
953111 AAATATATTG
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:953770 original size:97 final size:100
Alignment explanation
Indices: 953579--953771 Score: 261
Period size: 100 Copynumber: 2.0 Consensus size: 100
953569 AAAATAAAAT
** * * * *
953579 ATATTTAGTATAATGATAAATATCAAAATTATATATTTTTATTATATAATTATTATAATTATTAA
1 ATATTTAACATAATAATAAATATAAAAAATATATATTTTTAATATATAATTATTATAATTATTAA
953644 TTTATTTATATAAATAAAGGAGTTATTAATTTCAA
66 TTTATTTATATAAATAAAGGAGTTATTAATTTCAA
* *
953679 ATATTTAACATAATAATATATATAAAAAATATAT-TTTTTAATATATAATTA-TATATTTATT-A
1 ATATTTAACATAATAATAAATATAAAAAATATATATTTTTAATATATAATTATTATAATTATTAA
953741 TTTGATTT-TATAAATTAAA-GAGTTATTAATT
66 TTT-ATTTATATAAA-TAAAGGAGTTATTAATT
953772 AAAAAAACTC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
97 22 0.27
98 17 0.20
99 16 0.19
100 28 0.34
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (100 bp):
ATATTTAACATAATAATAAATATAAAAAATATATATTTTTAATATATAATTATTATAATTATTAA
TTTATTTATATAAATAAAGGAGTTATTAATTTCAA
Found at i:954964 original size:4 final size:4
Alignment explanation
Indices: 954957--954995 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
954947 AAACAATGTA
* *
954957 ATAC ATAC ATAC ATGC AAAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
954996 GCTACCATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:967956 original size:26 final size:26
Alignment explanation
Indices: 967927--968034 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
967917 TGGTACAAAT
*
967927 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
967953 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
967979 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
968005 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
968031 TGAT
1 TGAT
968035 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:969367 original size:32 final size:27
Alignment explanation
Indices: 969231--969371 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
969221 AGGAAGCGTC
*
969231 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
969258 CTGCTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATATATCTGA-T
*
969285 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
969312 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
969339 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
969366 CTGGTG
1 CTGGTG
969372 ACTTCATCAC
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.10
27 87 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:969369 original size:54 final size:53
Alignment explanation
Indices: 969231--969371 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
969221 AGGAAGCGTC
*
969231 CTGGTGGCTATGCCACAATTATCTGATCTGCTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
969285 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTATT
*
969339 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTG
969372 ACTTCATCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 7 0.09
54 72 0.90
55 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:972823 original size:66 final size:66
Alignment explanation
Indices: 972740--972870 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
972730 CATTGCTCAA
* * * *
972740 CTTAAAGCGGAAGCAGCA-TCGAGAGAATTAGAGGCTAA-AAGAAAATATGATGAACTCCAGCTA
1 CTTAAAGCAGAAGCAGCAGTAG-GAGAAGTAGAGGC-AATAAGAAAATATGACGAACTCCAGCTA
972803 CAC
64 CAC
* * *
972806 CTTAAAGCAGAAGCAGCAGTAGGGGCAGTAGAGGCAATAAGAAAATATGACGAACTCTAGCTACA
1 CTTAAAGCAGAAGCAGCAGTAGGAGAAGTAGAGGCAATAAGAAAATATGACGAACTCCAGCTACA
972871 ACTTCAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 2 0.04
66 52 0.93
67 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (66 bp):
CTTAAAGCAGAAGCAGCAGTAGGAGAAGTAGAGGCAATAAGAAAATATGACGAACTCCAGCTACA
C
Found at i:973962 original size:5 final size:5
Alignment explanation
Indices: 973952--973977 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
973942 CAAATTCAAG
973952 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
973978 AAGTTATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:974597 original size:26 final size:26
Alignment explanation
Indices: 974563--974614 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
974553 ATCTCTTTGT
974563 TTTTAGTTTTAATAATCTAGTCCAAA
1 TTTTAGTTTTAATAATCTAGTCCAAA
974589 TTTTAGTTTTAATAATCTAGTCCAAA
1 TTTTAGTTTTAATAATCTAGTCCAAA
974615 ACTAAAGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (26 bp):
TTTTAGTTTTAATAATCTAGTCCAAA
Found at i:977712 original size:118 final size:118
Alignment explanation
Indices: 977552--977782 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
977542 TATTTCCGGT
977552 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
977617 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
977670 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
977735 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
977783 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:978752 original size:21 final size:21
Alignment explanation
Indices: 978735--978773 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
978725 ACTAAAATAA
978735 AATAAA-AAT-AAAAGAAAAT
1 AATAAATAATAAAAAGAAAAT
978754 AATAAATAATAAAAAGAAAA
1 AATAAATAATAAAAAGAAAA
978774 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AATAAATAATAAAAAGAAAAT
Found at i:990187 original size:35 final size:35
Alignment explanation
Indices: 990147--990220 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
990137 TTAAAACATG
*
990147 TAAGAATTTAATGAGAGTTTCTTTTAATACAAATT
1 TAAGAATTTAATGAGAATTTCTTTTAATACAAATT
990182 TAAGAATTTAATGAGAATTTCTTTTAATACAAATT
1 TAAGAATTTAATGAGAATTTCTTTTAATACAAATT
990217 TAAG
1 TAAG
990221 GGTCAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (35 bp):
TAAGAATTTAATGAGAATTTCTTTTAATACAAATT
Found at i:1000074 original size:43 final size:43
Alignment explanation
Indices: 1000026--1000137 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
1000016 CCGGCATTAC
*
1000026 GCCTGCTAGGCAAGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
* *
1000069 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
* *
1000112 GCCTACTAGGCACA-AATGCCCGAATA
1 GCCTGCTAGGCA-AGAAGGCCCGAATA
1000138 TAATACCAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCAAGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:1000178 original size:38 final size:38
Alignment explanation
Indices: 1000130--1000213 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
1000120 GGCACAAATG
* * * *
1000130 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAACACCAGCACGAAGCCTGCGGGATTTAA
*
1000168 CCCGGATATAACACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAACACCAGCACGAAGCCTGCGGGATTTAA
1000206 CCCGAATA
1 CCCGAATA
1000214 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (38 bp):
CCCGAATATAACACCAGCACGAAGCCTGCGGGATTTAA
Found at i:1007051 original size:29 final size:29
Alignment explanation
Indices: 1006993--1007053 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1006983 ACATCTCAAA
* * *
1006993 AAATTATAAAAAAATAAATAACATATAAT
1 AAATTATAAAAAAATAAAAAAAATAAAAT
*
1007022 AAATT-TAAAAATATAAACAAAAATAAAAT
1 AAATTATAAAAAAATAAA-AAAAATAAAAT
1007051 AAA
1 AAA
1007054 ACCCTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (29 bp):
AAATTATAAAAAAATAAAAAAAATAAAAT
Found at i:1017850 original size:17 final size:18
Alignment explanation
Indices: 1017828--1017864 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1017818 ATGTGATTCT
1017828 TTTAAAATAAA-AA-TAAA
1 TTTAAAA-AAATAAGTAAA
1017845 TTTAAAAAAATAAGTAAA
1 TTTAAAAAAATAAGTAAA
1017863 TT
1 TT
1017865 AAATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 9 0.50
18 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
TTTAAAAAAATAAGTAAA
Found at i:1021587 original size:20 final size:19
Alignment explanation
Indices: 1021562--1021615 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
1021552 TTGTACGAGT
1021562 TTGCACTTCGGTGCCTCTG
1 TTGCACTTCGGTGCCTCTG
*
1021581 ATTGCACATT-TGTGCCTCTG
1 -TTGCAC-TTCGGTGCCTCTG
*
1021601 TCTACACTTCGGTGC
1 T-TGCACTTCGGTGC
1021616 TTTTGTTACG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.11
20 23 0.82
21 2 0.07
ACGTcount: A:0.11, C:0.30, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGCACTTCGGTGCCTCTG
Found at i:1023420 original size:30 final size:31
Alignment explanation
Indices: 1023377--1023439 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
1023367 GAATGGCTTG
* *
1023377 GATATGCCTAGATGTTGATAATGTGTTTTGT
1 GATATGCCAAGATGTTAATAATGTGTTTTGT
1023408 GATAT-CCAAGATGTTAATAATGTGTTTTGT
1 GATATGCCAAGATGTTAATAATGTGTTTTGT
1023438 GA
1 GA
1023440 CATATTGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (31 bp):
GATATGCCAAGATGTTAATAATGTGTTTTGT
Found at i:1030628 original size:17 final size:17
Alignment explanation
Indices: 1030606--1030643 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1030596 ATGTGTATAA
*
1030606 TTATATCAAATCAATTT
1 TTATATCAAATCAATAT
*
1030623 TTATATTAAATCAATAT
1 TTATATCAAATCAATAT
1030640 TTAT
1 TTAT
1030644 GTATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATCAAATCAATAT
Found at i:1033493 original size:31 final size:31
Alignment explanation
Indices: 1033445--1033528 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
1033435 TTAGTCTTGA
*
1033445 CATAT-ACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
1033475 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
1033506 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
1033529 ACTGTAAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:1033599 original size:42 final size:42
Alignment explanation
Indices: 1033552--1033685 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
1033542 TGGCCCTTAG
*
1033552 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
1033594 GCCCATTTCAATATCACATCTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1033636 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1033678 GCCCATTT
1 GCCCATTT
1033686 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:1033861 original size:25 final size:25
Alignment explanation
Indices: 1033833--1033903 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 25
1033823 CTCTTTTAAT
*
1033833 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTC-GATA
1033858 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
1033883 AACTAGGGAAGAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTT
1033904 GGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
25 28 0.67
26 14 0.33
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:1034800 original size:27 final size:26
Alignment explanation
Indices: 1034761--1034911 Score: 83
Period size: 27 Copynumber: 5.7 Consensus size: 26
1034751 TATTAGGGGC
* * *
1034761 ATTTTAGTCATTTCATCCTACAAGGGT
1 ATTTTGGTAATTTCA-CATACAAGGGT
* **
1034788 ATTTTGGTAATTTTACAAATTGAA-GGT
1 ATTTTGGTAA-TTT-CACATACAAGGGT
* * *
1034815 A-TTCGGTAATTTCACAAACCAGTGGT
1 ATTTTGGTAATTTCACATACAAG-GGT
* * *
1034841 ATTTTGGTAATTTTACAAACTAGGGGT
1 ATTTTGGTAATTTCACATAC-AAGGGT
* *
1034868 ATTTTGGTAA-TTCTATCCTACAGGGGT
1 ATTTTGGTAATTTC-A-CATACAAGGGT
*
1034895 ATTTTAGTAATTTCACA
1 ATTTTGGTAATTTCACA
1034912 ATCGAGGGTA
Statistics
Matches: 94, Mismatches: 21, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
24 4 0.04
25 3 0.03
26 14 0.15
27 58 0.62
28 13 0.14
29 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (26 bp):
ATTTTGGTAATTTCACATACAAGGGT
Found at i:1034919 original size:27 final size:26
Alignment explanation
Indices: 1034784--1034912 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 26
1034774 CATCCTACAA
* **
1034784 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTCACAAACAG
* *
1034810 AAGGTA-TTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTCACAAA-CAG
* *
1034837 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAAC-AG
**
1034864 GGGTATTTTGGTAA-TTCTATCCTACAG
1 GGGTATTTTGGTAATTTC-A-CAAACAG
*
1034891 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTCACAA
1034913 TCGAGGGTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
26 23 0.28
27 52 0.64
28 6 0.07
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAAACAG
Found at i:1034945 original size:27 final size:27
Alignment explanation
Indices: 1034911--1035054 Score: 200
Period size: 27 Copynumber: 5.3 Consensus size: 27
1034901 GTAATTTCAC
* *
1034911 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
1034938 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
1034965 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
1034992 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
1035019 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
1035046 AATCGAGGG
1 AATCGAGGG
1035055 CATTTTAGTA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:1035074 original size:81 final size:80
Alignment explanation
Indices: 1034895--1035074 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 80
1034885 CTACAGGGGT
* * * *
1034895 ATTTTAGTAATTT-CACAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAAT
1 ATTTTAGTAATTTGTA-AATCGAAGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAAT
* ** *
1034959 TTTGTAAATCGAGGGT
65 TCTACAAATCGAGGGC
***** *
1034975 AAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAA
1 ATTTTAGTAATT-TGTAAATCGAAGGTAAAACGGTAATTCTATAAACT-GAGGGTAAAATGGTAA
1035039 TTCTACAAATCGAGGGC
64 TTCTACAAATCGAGGGC
1035056 ATTTTAGTAATTTGGTAAA
1 ATTTTAGTAATTT-GTAAA
1035075 CTAAAGTATT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
80 9 0.12
81 67 0.87
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (80 bp):
ATTTTAGTAATTTGTAAATCGAAGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATT
CTACAAATCGAGGGC
Found at i:1038487 original size:47 final size:47
Alignment explanation
Indices: 1038418--1038573 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 47
1038408 AGCTTAAGAT
1038418 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
1038465 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGAGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
1038512 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
1038557 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
1038574 AAAGTGTGCA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 21 0.23
46 6 0.07
47 65 0.71
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:1038698 original size:39 final size:40
Alignment explanation
Indices: 1038644--1038728 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
1038634 AAATGAATTG
* * * *
1038644 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
1038683 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
1038723 TGCTGG
1 TGCTGG
1038729 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:1041956 original size:31 final size:31
Alignment explanation
Indices: 1041913--1042027 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
1041903 TTAGTCTTGA
*
1041913 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1041943 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
1041974 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1042005 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
1042028 ACTGTAAACG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:1042098 original size:42 final size:42
Alignment explanation
Indices: 1042051--1042184 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
1042041 TTGCCCTTAG
*
1042051 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
1042093 GCCCATTTCAATATCACATGTAATGTCAATGAAAGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1042135 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1042177 GCCCATTT
1 GCCCATTT
1042185 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:1042360 original size:25 final size:25
Alignment explanation
Indices: 1042332--1042401 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
1042322 CTCTTTTAAT
1042332 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
1042357 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
1042382 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
1042402 GGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:1043239 original size:27 final size:27
Alignment explanation
Indices: 1043209--1043273 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
1043199 GGGCATATTC
1043209 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
1043236 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
1043263 GTCTTTTTACC
1 GTCATTTTACC
1043274 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:1043275 original size:26 final size:26
Alignment explanation
Indices: 1043209--1043313 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 26
1043199 GGGCATATTC
1043209 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
1043236 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * * ***
1043263 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-CAAGGGTATTACG
*
1043290 GTCATTTCATCCTACAAGGGTATT
1 GTCATTTTA-CCTACAAGGGTATT
1043314 TTGGTAATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
26 5 0.08
27 49 0.80
28 7 0.11
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:1043323 original size:27 final size:26
Alignment explanation
Indices: 1043280--1043472 Score: 136
Period size: 27 Copynumber: 7.2 Consensus size: 26
1043270 TACCTATTAG
* * **
1043280 GGGTATTTTAGTCATTTCATCCTACAA
1 GGGTATTTTGGTAATTTCA-CAAACAA
* **
1043307 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTCACAAA-CAA
* *
1043334 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTCACAAACAA
* * *
1043360 GTGGTATTTCGGTAATTTTACAAACTAG
1 G-GGTATTTTGGTAATTTCACAAAC-AA
* *
1043388 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTCACAAACAA
** *
1043414 GGAGTATTTTGGTAA-TTCTATCCTACAG
1 GG-GTATTTTGGTAATTTC-A-CAAACAA
* * *
1043442 GGGTATTTTAGTAATTTCACAATCGA
1 GGGTATTTTGGTAATTTCACAAACAA
1043468 GGGTA
1 GGGTA
1043473 AAACGGTAAT
Statistics
Matches: 131, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
26 15 0.11
27 107 0.82
28 9 0.07
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAAACAA
Found at i:1043325 original size:54 final size:53
Alignment explanation
Indices: 1043275--1043472 Score: 184
Period size: 54 Copynumber: 3.7 Consensus size: 53
1043265 CTTTTTACCT
* **
1043275 ATTAGGGGTATTTTAGTCATTTCATCCTACAAGGGTATTTTGGTAATTTTACAA
1 ATTAGGGGTATTTTAGTAATTTCA-CAAACAAGGGTATTTTGGTAATTTTACAA
** * *
1043329 ATT-GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAA
1 ATTAG-GGGTATTTTAGTAATTTCACAAACAAG-GGTATTTTGGTAATTTTACAA
* * * * * **
1043383 ACTAGGGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGGTAATTCTATCCT
1 ATTAGGGGTATTTTAGTAATTTCACAAACAAGG-GTATTTTGGTAATTTTA-CAA
* * *
1043438 A-CAGGGGTATTTTAGTAATTTCACAATCGAGGGTA
1 ATTAGGGGTATTTTAGTAATTTCACAAACAAGGGTA
1043473 AAACGGTAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
53 10 0.08
54 106 0.89
55 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (53 bp):
ATTAGGGGTATTTTAGTAATTTCACAAACAAGGGTATTTTGGTAATTTTACAA
Found at i:1043447 original size:81 final size:81
Alignment explanation
Indices: 1043307--1043499 Score: 196
Period size: 81 Copynumber: 2.4 Consensus size: 81
1043297 CATCCTACAA
* * *
1043307 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
*
1043372 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* **
1043388 GGGTATTTTGGTAATTTTACAAACT-AGGAGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTT
1 GGGTATTTTGGTAATTTTACAAACTGAGG-GTATTTCGGTAATTTC-A-CAAACCAGGGGTATTT
* * *
1043450 TAGTAATTTCACAATCGA-
63 CAGTAATTTCACAAACTAG
**** *
1043468 GGGTAAAACGGTAATTTTATAAACTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTA
1043500 AAATGGTAAT
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
80 29 0.31
81 62 0.67
82 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:1043496 original size:27 final size:27
Alignment explanation
Indices: 1043462--1043605 Score: 200
Period size: 27 Copynumber: 5.3 Consensus size: 27
1043452 GTAATTTCAC
* *
1043462 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
1043489 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
1043516 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
1043543 AATCGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
1043570 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
1043597 AATCAAGGG
1 AATCGAGGG
1043606 CATTTTAGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:1043617 original size:81 final size:80
Alignment explanation
Indices: 1043446--1043619 Score: 181
Period size: 81 Copynumber: 2.2 Consensus size: 80
1043436 CTACAGGGGT
* *
1043446 ATTTTAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAATGGTAATT
1 ATTTTAGTAATTTCAAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATT
* ** * *
1043511 TTGTAAATCGAGGGT
66 CTACAAATCAAGGGC
***** * *
1043526 AAAACGGTAA-TTCTATAAATCGATGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTA
1 ATTTTAGTAATTTC-A-AAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGTAAAATGGTA
1043589 ATTCTACAAATCAAGGGC
63 ATTCTACAAATCAAGGGC
1043607 ATTTTAGTAATTT
1 ATTTTAGTAATTT
1043620 GGTAAACTAA
Statistics
Matches: 71, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
79 3 0.04
80 7 0.10
81 59 0.83
82 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (80 bp):
ATTTTAGTAATTTCAAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATT
CTACAAATCAAGGGC
Found at i:1061663 original size:18 final size:18
Alignment explanation
Indices: 1061640--1061675 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1061630 TTGAATAGCA
1061640 AAATTTAATAAAAAAATT
1 AAATTTAATAAAAAAATT
*
1061658 AAATTTAATAACAAAATT
1 AAATTTAATAAAAAAATT
1061676 CAATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAATAAAAAAATT
Found at i:1061673 original size:31 final size:33
Alignment explanation
Indices: 1061627--1061693 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
1061617 TTTAAAATAA
* * *
1061627 AAATTGAATAGCAAAATTTAAT-AAA-AAAATT
1 AAATTGAATAACAAAATTCAATCAAATAAAAGT
*
1061658 AAATTTAATAACAAAATTCAATCAAATAAAAGT
1 AAATTGAATAACAAAATTCAATCAAATAAAAGT
1061691 AAA
1 AAA
1061694 GCCACAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 19 0.63
32 3 0.10
33 8 0.27
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (33 bp):
AAATTGAATAACAAAATTCAATCAAATAAAAGT
Found at i:1066512 original size:31 final size:31
Alignment explanation
Indices: 1066472--1066535 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
1066462 AAATTTTTAA
* *
1066472 AATTTAAAAAGTA-TAAGAGCTAAAATTGATC
1 AATTCAAAAAGTACAAAGA-CTAAAATTGATC
*
1066503 AATTCAAAAAGTACAAAGATTAAAATTGATC
1 AATTCAAAAAGTACAAAGACTAAAATTGATC
1066534 AA
1 AA
1066536 ATTAAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.27
Consensus pattern (31 bp):
AATTCAAAAAGTACAAAGACTAAAATTGATC
Found at i:1069640 original size:3 final size:3
Alignment explanation
Indices: 1069510--1069610 Score: 52
Period size: 3 Copynumber: 33.7 Consensus size: 3
1069500 AATACATACC
* * * *
1069510 AAT ATT AAT AAT AAT AAT GAT ACT AGA- AAT AAT AAT GAA- ACAC ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT -AAT A-AT A-AT
* *
1069557 AAGT AGAT AA- AAT -AT AAT AAT AAT ACT AA- AAT AA- AGT AAT AAT
1 AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1069600 AAT AAT AAT AA
1 AAT AAT AAT AA
1069611 ATACTATATA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
2 9 0.12
3 56 0.74
4 10 0.13
5 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1069683 original size:56 final size:58
Alignment explanation
Indices: 1069563--1069688 Score: 138
Period size: 57 Copynumber: 2.2 Consensus size: 58
1069553 ACATAAGTAG
*
1069563 ATAAAATATA-ATAATAATACTAAAATAAAGTAATAATAATAATAATAAATACTATAT
1 ATAATATATACATAATAATACTAAAATAAAGTAATAATAATAATAATAAATACTATAT
* * * *
1069620 ACAAATATATACATAATAATA-TAAAA-AAAGTGATACTAA-AA-ACATATATACATATAT
1 A-TAATATATACATAATAATACTAAAATAAAGTAATAATAATAATA-ATAAATAC-TATAT
1069677 ATAATATA-ACAT
1 ATAATATATACAT
1069689 TAGAATATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
55 5 0.08
56 15 0.25
57 18 0.31
58 12 0.20
59 9 0.15
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.30
Consensus pattern (58 bp):
ATAATATATACATAATAATACTAAAATAAAGTAATAATAATAATAATAAATACTATAT
Found at i:1070041 original size:17 final size:18
Alignment explanation
Indices: 1070006--1070043 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1069996 TAATAATATT
1070006 AATAATAGATACAATAAA
1 AATAATAGATACAATAAA
1070024 AATAATA-ATACTAA-AAA
1 AATAATAGATAC-AATAAA
1070041 AAT
1 AAT
1070044 TAATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (18 bp):
AATAATAGATACAATAAA
Found at i:1070047 original size:18 final size:18
Alignment explanation
Indices: 1069987--1070047 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1069977 ATACTAAGAC
* * *
1069987 TAATAATAGTAATAATAT
1 TAATAATAATAAAAAAAT
*
1070005 TAATAATAGATACAATAAAAA
1 TAATAATA-ATA-AA-AAAAT
*
1070026 TAATAATACTAAAAAAAT
1 TAATAATAATAAAAAAAT
1070044 TAAT
1 TAAT
1070048 TTAAATAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 16 0.47
19 4 0.12
20 3 0.09
21 11 0.32
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAATAATAATAAAAAAAT
Found at i:1071209 original size:17 final size:18
Alignment explanation
Indices: 1071167--1071220 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
1071157 TGGGCTGGTA
* *
1071167 AATGGGTTTAAGTGGGTCT
1 AATGGGTTTAAG-GGTTTT
*
1071186 GATGGG-TTAAGGGTTTT
1 AATGGGTTTAAGGGTTTT
*
1071203 AATGGGTTTAGGGGTTTT
1 AATGGGTTTAAGGGTTTT
1071221 GTTATTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 9 0.31
18 15 0.52
19 5 0.17
ACGTcount: A:0.19, C:0.02, G:0.39, T:0.41
Consensus pattern (18 bp):
AATGGGTTTAAGGGTTTT
Found at i:1077965 original size:25 final size:25
Alignment explanation
Indices: 1077936--1077987 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1077926 TAAATGTGAA
1077936 ATTAGATTTTAATCCAAAGCTAAAT
1 ATTAGATTTTAATCCAAAGCTAAAT
1077961 ATTAGATTTTAATCCAAAGCTAAAT
1 ATTAGATTTTAATCCAAAGCTAAAT
1077986 AT
1 AT
1077988 CAGAAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTAGATTTTAATCCAAAGCTAAAT
Found at i:1080612 original size:29 final size:30
Alignment explanation
Indices: 1080547--1080627 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
1080537 AATACAAAAA
* *
1080547 CTATACATGAACTTTGATATAATGTGCAATGT
1 CTATACATAAACTTTGAT-T-TTGTGCAATGT
1080579 C-ATACATAAACTTTGATTTTGTGCAAT-T
1 CTATACATAAACTTTGATTTTGTGCAATGT
*
1080607 CTATACATTAAATTTTGATTT
1 CTATACA-TAAACTTTGATTT
1080628 GATTTAGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.05
29 13 0.30
30 13 0.30
31 15 0.34
32 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (30 bp):
CTATACATAAACTTTGATTTTGTGCAATGT
Found at i:1087083 original size:3 final size:3
Alignment explanation
Indices: 1087075--1087110 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1087065 AATATAAGCC
1087075 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1087111 AAACTTGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1087353 original size:20 final size:20
Alignment explanation
Indices: 1087303--1087354 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
1087293 TATGTTAGCA
1087303 TAGTTTTTATAGTAATTTAGG
1 TAGTTTTT-TAGTAATTTAGG
* *
1087324 AAGTAATTTTAG-AATTTAGG
1 TAGT-TTTTTAGTAATTTAGG
1087344 TTAGTTTTTTA
1 -TAGTTTTTTA
1087355 TTACTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 13 0.52
21 9 0.36
22 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (20 bp):
TAGTTTTTTAGTAATTTAGG
Found at i:1094840 original size:11 final size:11
Alignment explanation
Indices: 1094826--1094865 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1094816 ATTTTCTCCC
1094826 TATTTTGCTAT
1 TATTTTGCTAT
*
1094837 TATTTTACTAT
1 TATTTTGCTAT
* *
1094848 TATGTTGCTAC
1 TATTTTGCTAT
1094859 TATTTTG
1 TATTTTG
1094866 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Done.