Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008752.1 Hibiscus syriacus cultivar Beakdansim tig00111843_pilon, whole genome shotgun sequence
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: 1143363
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:105 original size:39 final size:40
Alignment explanation
Indices: 1--144 Score: 245
Period size: 40 Copynumber: 3.6 Consensus size: 40
* * *
1 GTATATGGTGGGCACGACCTTATGTTTAATGCACTTCGGC
1 GTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGT
41 GTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGT
1 GTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGT
*
81 GCATATGGT-GGCACGACCTTATGTGTAATACACTTCGGT
1 GTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGT
120 GTATATGGTGGGCACGACCTTATGT
1 GTATATGGTGGGCACGACCTTATGT
145 TTAGCACTAC
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 38 0.39
40 60 0.61
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (40 bp):
GTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGT
Found at i:319 original size:45 final size:45
Alignment explanation
Indices: 230--440 Score: 318
Period size: 45 Copynumber: 4.7 Consensus size: 45
220 ATGATTATTT
*
230 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
274 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
319 AAATAAGCTTACGAGCTTAT-GAACTAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGTA
* * *
364 AAATAAGCTTAAGAGCTTATAGAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
409 AAATAAGCTTACAAGTTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
441 GACAAATTTT
Statistics
Matches: 152, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
44 26 0.17
45 123 0.81
46 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:6611 original size:20 final size:20
Alignment explanation
Indices: 6586--6646 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
6576 TTTTGGTGCA
*
6586 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
6606 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
6627 GAAGGGAAACCGATTCCCCC
1 G-AGGG-AACCGATACCCCC
6647 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 4 0.11
23 13 0.37
ACGTcount: A:0.26, C:0.33, G:0.25, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:16351 original size:45 final size:45
Alignment explanation
Indices: 16253--16507 Score: 390
Period size: 45 Copynumber: 5.7 Consensus size: 45
16243 GTAATCATGC
* **
16253 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
*
16297 AAATTAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
16342 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
*
16387 AAATAAGCTTACGAGCTTATAGACT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
* * * *
16431 AAATAAGCTTAAGAGCTTATGGAATAAATGATAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
*
16476 AAATAAGCTTACAAGCTTATGGGAC-AAATGGT
1 AAATAAGCTTACGAGCTTAT-GGACTAAATGGT
16508 GAGAAATTTT
Statistics
Matches: 193, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
44 64 0.33
45 126 0.65
46 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTA
Found at i:16360 original size:89 final size:90
Alignment explanation
Indices: 16253--16507 Score: 408
Period size: 89 Copynumber: 2.9 Consensus size: 90
16243 GTAATCATGC
* *
16253 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGTAAAATTAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
16317 GGACTAAATGGTAAGTATATTGGTA
66 GGACTAAATGGTAAGTATATTGGTA
* *
16342 AAATAAGCTTACGAGCTTATGGACTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
16407 AGACT-AATGGTAAGTATATTGGTA
66 GGACTAAATGGTAAGTATATTGGTA
* * *
16431 AAATAAGCTTAAGAGCTTATGGAATAAATGATAAGTATTTTGGTAAAATAAGCTTACAAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
16496 GGGAC-AAATGGT
66 -GGACTAAATGGT
16508 GAGAAATTTT
Statistics
Matches: 152, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
89 103 0.68
90 49 0.32
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGACTAAATGGTAAGTATATTGGTA
Found at i:16440 original size:134 final size:134
Alignment explanation
Indices: 16253--16507 Score: 404
Period size: 134 Copynumber: 1.9 Consensus size: 134
16243 GTAATCATGC
* * *
16253 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGGTAAAATTAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATAGAATAATGACAAGTATATTGGTAAAATAAGCTTAAGAGCTTATG
* * *
16318 GACTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GGACTAAATGGTAAGTATAT
66 GAATAAATGATAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGAC-AAATGGTAAGTATAT
16382 TGGTA
130 TGGTA
* **
16387 AAATAAGCTTACGAGCTTATAGACTAATGGTAAGTATATTGGTAAAATAAGCTTAAGAGCTTATG
1 AAATAAGCTTACGAGCTTATAGAATAATGACAAGTATATTGGTAAAATAAGCTTAAGAGCTTATG
*
16452 GAATAAATGATAAGTATTTTGGTAAAATAAGCTTACAAGCTTATGGGACAAATGGT
66 GAATAAATGATAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGACAAATGGT
16508 GAGAAATTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
134 106 0.96
135 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (134 bp):
AAATAAGCTTACGAGCTTATAGAATAATGACAAGTATATTGGTAAAATAAGCTTAAGAGCTTATG
GAATAAATGATAAGTATATTGGTAAAATAAGCTTACAAGCTTATGGGACAAATGGTAAGTATATT
GGTA
Found at i:18488 original size:26 final size:26
Alignment explanation
Indices: 18441--18491 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18431 TTTTGATTCA
*
18441 AAAAATAAAATGGAAGTAAAAAATTT
1 AAAAATAAAATGAAAGTAAAAAATTT
*
18467 AAAAATAAAAT-AAATGTGAAAAATT
1 AAAAATAAAATGAAA-GTAAAAAATT
18492 AAATCTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (26 bp):
AAAAATAAAATGAAAGTAAAAAATTT
Found at i:20133 original size:17 final size:16
Alignment explanation
Indices: 20095--20130 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
20085 AACAACCAAG
*
20095 TTTTCCTTTCTTTCTT
1 TTTTCCTTTCTCTCTT
20111 TTTTCCTTTCTCTCTT
1 TTTTCCTTTCTCTCTT
20127 TTTT
1 TTTT
20131 TCCGAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCCTTTCTCTCTT
Found at i:21857 original size:30 final size:29
Alignment explanation
Indices: 21777--21864 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 29
21767 ATAAGATATA
* *
21777 ATCTCATGCATATGTCAGAATAGGGAATTT
1 ATCTCATGCAGATGTCAGAA-CGGGAATTT
* *
21807 ATCCCATGTAGATGTCAGAACGGAGAATTT
1 ATCTCATGCAGATGTCAGAACGG-GAATTT
*
21837 ATCTCATACAGATGTCAGAACGAGGAAT
1 ATCTCATGCAGATGTCAGAACG-GGAAT
21865 GAGGTCTCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 2 0.04
30 46 0.94
31 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (29 bp):
ATCTCATGCAGATGTCAGAACGGGAATTT
Found at i:22024 original size:2 final size:2
Alignment explanation
Indices: 22019--22052 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22009 ATATGTCGTG
22019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22053 ATCAGATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24860 original size:215 final size:216
Alignment explanation
Indices: 24146--25071 Score: 1455
Period size: 215 Copynumber: 4.3 Consensus size: 216
24136 ATTTTATGAA
* * * * *
24146 AAATACAAATTTAAGAATTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
* * *
24211 ACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTAAGCTTGAAATTAATAAAA
66 ACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
* * * *
24276 AAAAGTACTAAATTATACACATTTAAAAAGTTACGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
*
24341 GTATGGTTCAATTTCAGATGC
196 GTATGGGTCAATTTCAGATGC
* * * * *
24362 AAATATAATTTTGAGGACTAAATTGAACACATATGAAGTTACAAATAGAAAATTTAAATAAATT-
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAAT-TAAATTTTAAATAAATTA
*
24426 ----A-A-ACATTGACGAGGGATCAAATCGAAATAATTTTAAATT-TGAGGTTTAAATTAAT-AC
65 AACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAA
* * * *
24483 AAAAAGTAATAAATTATACTCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAAT
130 AAAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATT-AAAAAATAGAAATAAGTAAT
24548 AAGTATGGGTCAATTTCAGATGC
194 AAGTATGGGTCAATTTCAGATGC
* *
24571 AAATATAATTTTAAGGACAAAATTGAACAAATACGAAATTACAAATTAAATTTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
*
24636 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
66 ACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
24701 AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
131 AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
24766 GTATGGGTCAATTTCAGATGC
196 GTATGGGTCAATTTCAGATGC
24787 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATT-AATTTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
* * *
24851 ACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
24916 AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
131 AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
*
24981 GTATGGGTCAATTTCAGATAC
196 GTATGGGTCAATTTCAGATGC
* *
25002 AAATATAATTTTAATGACTAAATTGAATAAA-A--AAATTACAAATTAAATTTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
25064 ACAACACA
66 ACAACACA
25072 AAGGGGTCAA
Statistics
Matches: 662, Mismatches: 36, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
208 57 0.09
209 96 0.15
210 37 0.06
211 1 0.00
212 13 0.02
213 26 0.04
214 2 0.00
215 230 0.35
216 142 0.21
217 58 0.09
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (216 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
ACAACACACATTGACGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
AAAAGTACTAAATAATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAA
GTATGGGTCAATTTCAGATGC
Found at i:25178 original size:2 final size:2
Alignment explanation
Indices: 25169--25302 Score: 75
Period size: 2 Copynumber: 67.0 Consensus size: 2
25159 ATGAAACAAC
* *
25169 TA TA -A TA TA TA TA TA TA TA -A TA TA AA CTA TA TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * * *
25211 TA AA GTA TA TG TA T- TA TA TA TA AA CTA TA TA GTT TA TA TT TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
*
25253 TA T- TA T- TA TA TA CTA TA TA TA -A TA TA TA TA T- TA TG TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
25292 AA CTA TA TA TA
1 TA -TA TA TA TA
25303 AAATGTATAA
Statistics
Matches: 100, Mismatches: 18, Indels: 28
0.68 0.12 0.19
Matches are distributed among these distances:
1 7 0.07
2 85 0.85
3 8 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25181 original size:9 final size:9
Alignment explanation
Indices: 25169--25338 Score: 59
Period size: 9 Copynumber: 18.3 Consensus size: 9
25159 ATGAAACAAC
25169 TATAATATA
1 TATAATATA
25178 TATATATATAA
1 TATA-ATAT-A
25189 TATAA-ACTA
1 TATAATA-TA
*
25198 TATAGTTTATA
1 TATA--ATATA
25209 TATAAAGTATA
1 TAT-AA-TATA
* *
25220 TGTATTATA
1 TATAATATA
25229 TATAA-ACTA
1 TATAATA-TA
*
25238 TATAGT-T-
1 TATAATATA
*
25245 TAT-ATTTA
1 TATAATATA
*
25253 TATTAT-TA
1 TATAATATA
*
25261 TATACTATA
1 TATAATATA
25270 TATAATATA
1 TATAATATA
* *
25279 TATATTATG
1 TATAATATA
25288 TATAAACTATA
1 TAT-AA-TATA
* *
25299 TATAAAATG
1 TATAATATA
25308 TATAACCTATA
1 TATAA--TATA
*
25319 -ATACTATA
1 TATAATATA
25327 TAGT-ATATA
1 TA-TAATATA
25336 TAT
1 TAT
25339 GAACTATTGA
Statistics
Matches: 120, Mismatches: 21, Indels: 41
0.66 0.12 0.23
Matches are distributed among these distances:
6 1 0.01
7 4 0.03
8 16 0.13
9 59 0.49
10 14 0.12
11 24 0.20
12 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (9 bp):
TATAATATA
Found at i:25199 original size:20 final size:19
Alignment explanation
Indices: 25176--25302 Score: 105
Period size: 20 Copynumber: 6.4 Consensus size: 19
25166 AACTATAATA
25176 TATATATATATAATATAAAC
1 TATATATATAT-ATATAAAC
* *
25196 TATATAGTTTATATATAAAG
1 TATATA-TATATATATAAAC
*
25216 TATATGTATTATATATAAAC
1 TATATATA-TATATATAAAC
* * * *
25236 TATATAGTTTATATTTATAT
1 TATATA-TATATATATAAAC
25256 TAT-TATATACTATATATAA-
1 TATATATATA-TATATA-AAC
*
25275 TATATATATTATGTATAAAC
1 TATATATA-TATATATAAAC
25295 TATATATA
1 TATATATA
25303 AAATGTATAA
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
18 3 0.04
19 13 0.15
20 62 0.73
21 7 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:25308 original size:20 final size:20
Alignment explanation
Indices: 25275--25318 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25265 CTATATATAA
**
25275 TATATATATTATGTATAAAC
1 TATATATAAAATGTATAAAC
*
25295 TATATATAAAATGTATAACC
1 TATATATAAAATGTATAAAC
25315 TATA
1 TATA
25319 ATACTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
TATATATAAAATGTATAAAC
Found at i:25480 original size:22 final size:22
Alignment explanation
Indices: 25426--25489 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
25416 TTATAAATAA
*
25426 TATATTGTATAAATTATATAGTT
1 TATA-TGTATAAACTATATAGTT
*
25449 TAT-TAATATAAACTATATAGTT
1 TATAT-GTATAAACTATATAGTT
* *
25471 TATATGTATATAGTATATA
1 TATATGTATAAACTATATA
25490 TGGTTTAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.85
23 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (22 bp):
TATATGTATAAACTATATAGTT
Found at i:25482 original size:15 final size:15
Alignment explanation
Indices: 25462--25491 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25452 TAATATAAAC
*
25462 TATATAGTTTATATG
1 TATATAGTATATATG
25477 TATATAGTATATATG
1 TATATAGTATATATG
25492 GTTTAAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
TATATAGTATATATG
Found at i:25666 original size:22 final size:22
Alignment explanation
Indices: 25636--25689 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
25626 TATAGTTTAC
* *
25636 ATATGAACTATATGTATAAACT
1 ATATAAACTATATATATAAACT
25658 ATATAAACTATATATATAAACT
1 ATATAAACTATATATATAAACT
*
25680 ATGTAAACTA
1 ATATAAACTA
25690 CATAGTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAAACTATATATATAAACT
Found at i:25760 original size:18 final size:18
Alignment explanation
Indices: 25734--25768 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25724 TAGTGAACTA
*
25734 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
25752 TATATACTATATATATA
1 TATAAACTATATATATA
25769 AATTATAGTT
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:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:25792 original size:33 final size:34
Alignment explanation
Indices: 25732--26046 Score: 110
Period size: 33 Copynumber: 9.4 Consensus size: 34
25722 ATTAGTGAAC
25732 TATATAAAC--TA-TTTATATAGTATATACTATA
1 TATATAAACTATAGTTTATATAGTATATACTATA
* *
25763 TATATAAATTATAGTTTATAT-TTATATACTATA
1 TATATAAACTATAGTTTATATAGTATATACTATA
* * * *
25796 TATATGAACTATAGTTTACATATAAACTATATAGTTTA
1 TATATAAACTATAGTTT--ATAT--AGTATATACTATA
*
25834 TATACT-AACTATAGTTTACATA-TA-A-ACTATA
1 TATA-TAAACTATAGTTTATATAGTATATACTATA
** ** *
25865 GTTGATATTTAC-ATATGAACTATATA-TATAAACTATA
1 --T-ATATAAACTATA-G-TTTATATAGTATATACTATA
* ** * *
25902 TAGT-T-TAC-ATA-TGAACTATA-TATATAGTTTA
1 TA-TATAAACTATAGTTTA-TATAGTATATACTATA
* * *
25933 T-TAGTGAACTATTA-TTTATATAGCATATTCTATA
1 TATA-TAAACTA-TAGTTTATATAGTATATACTATA
* *
25967 TATATAAACTATAGTTTATAT-TTATATACTACA
1 TATATAAACTATAGTTTATATAGTATATACTATA
*** * * *
26000 TACTATAGTTTATA-TTTATATACTATATATTTTA
1 TA-TATAAACTATAGTTTATATAGTATATACTATA
26034 TATATAAACTATA
1 TATATAAACTATA
26047 TATACTATAT
Statistics
Matches: 213, Mismatches: 42, Indels: 56
0.68 0.14 0.18
Matches are distributed among these distances:
29 1 0.00
30 1 0.00
31 26 0.12
32 3 0.01
33 73 0.34
34 59 0.28
35 15 0.07
36 4 0.02
37 6 0.03
38 24 0.11
39 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (34 bp):
TATATAAACTATAGTTTATATAGTATATACTATA
Found at i:25795 original size:20 final size:20
Alignment explanation
Indices: 25741--25797 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
25731 CTATATAAAC
*
25741 TATTTATATAGTATATACTA
1 TATTTATATACTATATACTA
* * * *
25761 TATATATAAATTATAGT-TTA
1 TATTTATATACTATA-TACTA
25781 TATTTATATACTATATA
1 TATTTATATACTATATA
25798 TATGAACTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTTATATACTATATACTA
Found at i:25818 original size:20 final size:18
Alignment explanation
Indices: 25797--25867 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
25787 TATACTATAT
*
25797 ATATGAACTATAGTTTAC
1 ATATAAACTATAGTTTAC
*
25815 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAC
25835 ATACT-AACTATAGTTTAC
1 ATA-TAAACTATAGTTTAC
25853 ATATAAACTATAGTT
1 ATATAAACTATAGTT
25868 GATATTTACA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.02
18 29 0.63
20 15 0.33
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (18 bp):
ATATAAACTATAGTTTAC
Found at i:25836 original size:38 final size:38
Alignment explanation
Indices: 25797--25921 Score: 145
Period size: 38 Copynumber: 3.3 Consensus size: 38
25787 TATACTATAT
*
25797 ATATGAACTATAGTTTACATATAAACTATATAGTTTAT
1 ATATGAACTATAGTTTACATATAAACTATATAGTTTAC
*
25835 ATACT-AACTATAGTTTACATATAAACTATAGTTGATATTTAC
1 ATA-TGAACTATAGTTTACATATAAACTATA--T-A-GTTTAC
25877 ATATGAACTATA---T--ATATAAACTATATAGTTTAC
1 ATATGAACTATAGTTTACATATAAACTATATAGTTTAC
25910 ATATGAACTATA
1 ATATGAACTATA
25922 TATATAGTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
33 17 0.22
34 1 0.01
35 1 0.01
37 12 0.15
38 28 0.36
39 2 0.03
40 1 0.01
41 2 0.03
42 14 0.18
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (38 bp):
ATATGAACTATAGTTTACATATAAACTATATAGTTTAC
Found at i:25918 original size:20 final size:20
Alignment explanation
Indices: 25797--25923 Score: 89
Period size: 20 Copynumber: 6.7 Consensus size: 20
25787 TATACTATAT
25797 ATATGAAC--TATAGTTTAC
1 ATATGAACTATATAGTTTAC
* *
25815 ATATAAACTATATAGTTTAT
1 ATATGAACTATATAGTTTAC
25835 ATACT-AAC--TATAGTTTAC
1 ATA-TGAACTATATAGTTTAC
* *
25853 ATATAAACTATAGTTGATATTTAC
1 ATATGAACTATA--T-A-GTTTAC
25877 ATATGAACTATATA---T--
1 ATATGAACTATATAGTTTAC
25892 ATA--AACTATATAGTTTAC
1 ATATGAACTATATAGTTTAC
25910 ATATGAACTATATA
1 ATATGAACTATATA
25924 TATAGTTTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.10
15 3 0.03
16 1 0.01
17 2 0.02
18 25 0.29
20 26 0.30
21 2 0.02
22 2 0.02
23 1 0.01
24 16 0.18
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
ATATGAACTATATAGTTTAC
Found at i:25987 original size:27 final size:27
Alignment explanation
Indices: 25957--26026 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
25947 TTTATATAGC
25957 ATATTCTATATA-TATAAACTATAGTTT
1 ATATT-TATATACTATAAACTATAGTTT
* *
25984 ATATTTATATACTACATACTATAGTTT
1 ATATTTATATACTATAAACTATAGTTT
26011 ATATTTATATACTATA
1 ATATTTATATACTATA
26027 TATTTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTATATACTATAAACTATAGTTT
Found at i:26046 original size:11 final size:11
Alignment explanation
Indices: 26032--26097 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
26022 CTATATATTT
26032 TATATATAAAC
1 TATATATAAAC
26043 TATATAT--AC
1 TATATATAAAC
*
26052 TATATAGTATAATT
1 TATATA-TA-AA-C
* *
26066 TACATATGAAC
1 TATATATAAAC
*
26077 TATATATGAAC
1 TATATATAAAC
26088 TATATATAAA
1 TATATATAAA
26098 AATCCTAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.18
10 1 0.02
11 26 0.59
12 2 0.05
13 2 0.05
14 5 0.11
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (11 bp):
TATATATAAAC
Found at i:26049 original size:20 final size:21
Alignment explanation
Indices: 25965--26046 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 21
25955 GCATATTCTA
25965 TATATATAAACTATAGTTTATATT
1 TATATATAAACTATAG--TAT-TT
*
25989 TATATACTACATACTATAGT-TTA
1 TATATA-TA-A-ACTATAGTATTT
* *
26012 TATTTATATACTATA-TATTT
1 TATATATAAACTATAGTATTT
26032 TATATATAAACTATA
1 TATATATAAACTATA
26047 TATACTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 21 0.44
22 2 0.04
23 6 0.12
24 7 0.15
25 3 0.06
26 1 0.02
27 7 0.15
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (21 bp):
TATATATAAACTATAGTATTT
Found at i:26113 original size:7 final size:7
Alignment explanation
Indices: 26101--26135 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
26091 ATATAAAAAT
26101 CCTAAAC
1 CCTAAAC
26108 CCTAAAC
1 CCTAAAC
**
26115 TATAAAC
1 CCTAAAC
26122 CCTAAAC
1 CCTAAAC
26129 CCTAAAC
1 CCTAAAC
26136 TATACATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:26182 original size:18 final size:18
Alignment explanation
Indices: 26159--26321 Score: 113
Period size: 18 Copynumber: 8.9 Consensus size: 18
26149 GTTTATTAGA
*
26159 ATATATAAACTATATAAT
1 ATATATAAACTATATAGT
* *
26177 ATATATAGACTATATGGT
1 ATATATAAACTATATAGT
* * *
26195 ATATATAAGCTATACATT
1 ATATATAAACTATATAGT
**
26213 ATATAT-AGTTCAT-TAGT
1 ATATATAAACT-ATATAGT
26230 ATATATAAACTATATAGTAT
1 ATATATAAACTATATAG--T
26250 ATGGTATATACAAACTATATA-T
1 A---TATAT--AAACTATATAGT
**
26272 -TATAT-AGTTCAT-TAGT
1 ATATATAAACT-ATATAGT
26288 ATATATAAACTATATAGT
1 ATATATAAACTATATAGT
26306 ATATATAAACTATATA
1 ATATATAAACTATATA
26322 TTAATTTATT
Statistics
Matches: 113, Mismatches: 17, Indels: 30
0.71 0.11 0.19
Matches are distributed among these distances:
15 4 0.04
16 3 0.03
17 20 0.18
18 68 0.60
20 2 0.02
22 1 0.01
23 5 0.04
25 10 0.09
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
ATATATAAACTATATAGT
Found at i:26233 original size:51 final size:52
Alignment explanation
Indices: 26177--26324 Score: 156
Period size: 58 Copynumber: 2.7 Consensus size: 52
26167 ACTATATAAT
* *
26177 ATATATAGACTATATGGTATATATAAGCTATACATTA-TATATAGTTCATTAG
1 ATATATAAACTATATAGTATATATAA-CTATACATTATTATATAGTTCATTAG
*
26229 TATATATAAACTATATAGTATATGGTATATAC-AAACTATATATTATATAGTTCATTAG
1 -ATATATAAACTATATAGTATA---TATA-ACTATAC-AT-TATTATATAGTTCATTAG
*
26287 TATATATAAACTATATAGTATATATAAACTATATATTA
1 -ATATATAAACTATATAGTATATAT-AACTATACATTA
26325 ATTTATTAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 17
0.79 0.05 0.17
Matches are distributed among these distances:
53 19 0.23
54 2 0.02
55 10 0.12
56 10 0.12
57 3 0.04
58 37 0.46
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (52 bp):
ATATATAAACTATATAGTATATATAACTATACATTATTATATAGTTCATTAG
Found at i:26264 original size:25 final size:25
Alignment explanation
Indices: 26228--26276 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
26218 TAGTTCATTA
*
26228 GTATATATAAACTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
26253 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
26277 AGTTCATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:26269 original size:71 final size:69
Alignment explanation
Indices: 26135--26271 Score: 159
Period size: 71 Copynumber: 2.0 Consensus size: 69
26125 AAACCCTAAA
* * ***
26135 CTATACATTATATAGTTTATTAGAATATATAAACTATATAATATATATAGACTATATGGTATATA
1 CTATACATTATATAGTTCATTAGAATATATAAACTATATAATATATATAGACTACAAACTATATA
26200 TAAG
66 TAAG
* * * *
26204 CTATACATTATATATAGTTCATTAGTATATATAAACTATATAGTATATGGTATA-TACAAACTAT
1 CTATACA-T-TATATAGTTCATTAGAATATATAAACTATATAATATAT-ATAGACTACAAACTAT
26268 ATAT
63 ATAT
26272 TATATAGTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
69 7 0.12
70 1 0.02
71 45 0.80
72 3 0.05
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (69 bp):
CTATACATTATATAGTTCATTAGAATATATAAACTATATAATATATATAGACTACAAACTATATA
TAAG
Found at i:26286 original size:58 final size:60
Alignment explanation
Indices: 26169--26309 Score: 207
Period size: 58 Copynumber: 2.4 Consensus size: 60
26159 ATATATAAAC
* *
26169 TATATAATA-TATATAGACTATATGGTATATATAAGCTATACATTATATATAGTTCATTAGTA
1 TATATAA-ACTATATAG--TATATGGTATATACAAACTATACATTATATATAGTTCATTAGTA
*
26231 TATATAAACTATATAGTATATGGTATATACAAACTATATA-T-TATATAGTTCATTAGTA
1 TATATAAACTATATAGTATATGGTATATACAAACTATACATTATATATAGTTCATTAGTA
26289 TATATAAACTATATAGTATAT
1 TATATAAACTATATAGTATAT
26310 ATAAACTATA
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
58 38 0.51
59 1 0.01
60 21 0.28
61 1 0.01
62 14 0.19
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (60 bp):
TATATAAACTATATAGTATATGGTATATACAAACTATACATTATATATAGTTCATTAGTA
Found at i:26345 original size:51 final size:51
Alignment explanation
Indices: 26232--26345 Score: 117
Period size: 51 Copynumber: 2.3 Consensus size: 51
26222 TCATTAGTAT
* * * *
26232 ATATAAAC-TATATAGTATATGGTATATACAAACTATATATTATATAGTTC
1 ATATAAACATATAAACTATATAGTATATACAAACTATATATTATATAGTTA
* * * *
26282 AT-TAGTATATATAAACTATATAGTATATATAAACTATATATTAATTTA-TTA
1 ATATA-AACATATAAACTATATAGTATATACAAACTATATATT-ATATAGTTA
26333 ATATAAACATATA
1 ATATAAACATATA
26346 TATTAATTGA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.04
50 3 0.06
51 39 0.78
52 6 0.12
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (51 bp):
ATATAAACATATAAACTATATAGTATATACAAACTATATATTATATAGTTA
Found at i:26373 original size:129 final size:129
Alignment explanation
Indices: 26132--26374 Score: 276
Period size: 129 Copynumber: 1.9 Consensus size: 129
26122 CCTAAACCCT
* * *
26132 AAACTATACATTATATAGTTTATTAGAATATATAAACTATATAATATATATAGACTATATGGTAT
1 AAACTATACATTATATAGTTCATTAGAATATATAAACTATATAATATATATAAACTATATAGTAT
* * * * * * *
26197 ATATAAGCTATACATTATATATAGTTCATTAGTATATATAAACTATATAGTATATGGTATATAC
66 ATATAAGATAAACATTATATATAATTCATAAGAATATAGAAAATATATAGTATATGGTATATAC
* * * *
26261 AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATATTAA
1 AAACTATACATTATATAGTTCATTAGAATATATAAACTATATAATATATATAAACTATATAGT-A
* * * *
26326 TTTATTAATATAAACA-TATATATTAATTGA-AAGAAT-TGGAAAATATATA
65 TATA-TAAGATAAACATTATATA-TAATTCATAAGAATATAGAAAATATATA
26375 AAGATCAAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
129 66 0.71
130 14 0.15
131 13 0.14
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (129 bp):
AAACTATACATTATATAGTTCATTAGAATATATAAACTATATAATATATATAAACTATATAGTAT
ATATAAGATAAACATTATATATAATTCATAAGAATATAGAAAATATATAGTATATGGTATATAC
Found at i:29369 original size:18 final size:17
Alignment explanation
Indices: 29346--29381 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
29336 ACCAAATTTA
*
29346 TAATATACAAATTATAAT
1 TAATATAAAAATTA-AAT
29364 TAATATAAAAATTAAAT
1 TAATATAAAAATTAAAT
29381 T
1 T
29382 TCAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATAAAAATTAAAT
Found at i:35138 original size:14 final size:15
Alignment explanation
Indices: 35121--35162 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
35111 TTTTACCCTC
35121 AAAATATTTTATT-T
1 AAAATATTTTATTAT
**
35135 AAAATATAATATTAT
1 AAAATATTTTATTAT
35150 AAATATATTTTAT
1 AAA-ATATTTTAT
35163 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTTTATTAT
Found at i:35165 original size:21 final size:21
Alignment explanation
Indices: 35139--35197 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
35129 TTATTTAAAA
35139 TATAATATTATAAATATATTT
1 TATAATATTATAAATATATTT
35160 TATAAT-TT-TAAAT-TAATTT
1 TATAATATTATAAATAT-ATTT
*
35179 T-TATATATTA-AAAAATATT
1 TATA-ATATTATAAATATATT
35198 ATAACAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 10 0.31
21 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATAATATTATAAATATATTT
Found at i:40654 original size:30 final size:30
Alignment explanation
Indices: 40613--40672 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
40603 CAGATAAGAT
*
40613 CTGGTATTTACAAGAATTAGCATTCCAATC
1 CTGGGATTTACAAGAATTAGCATTCCAATC
40643 CTGGGATTTACAAGAATTAGCATTCCAATC
1 CTGGGATTTACAAGAATTAGCATTCCAATC
40673 AGTCCAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (30 bp):
CTGGGATTTACAAGAATTAGCATTCCAATC
Found at i:42293 original size:21 final size:21
Alignment explanation
Indices: 42264--42310 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
42254 ATTCTGACTA
42264 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
42285 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
42306 TCGCA
1 TCGCA
42311 ATGTGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:42331 original size:20 final size:20
Alignment explanation
Indices: 42306--42419 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
42296 TTTTCCTAAT
*
42306 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
42326 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
42347 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
42367 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
42387 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
42407 TCGCAATGCGAAT
1 TCGCAATGCGAAT
42420 CTGACTATCG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 66 0.81
21 15 0.19
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:42380 original size:61 final size:60
Alignment explanation
Indices: 42306--42419 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 60
42296 TTTTCCTAAT
* *
42306 TCGCAATGTGAATACGTAAATCGCAACGCGAATTTGGAAAATCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATAT-GAAAATCACAATGCGAATACGTAAA
* * *
42367 TCGCAATGCGAATACGTAAATCGCAATGCGAATATGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATATGAAAATCACAATGCGAAT
42420 CTGACTATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 16 0.33
61 32 0.67
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATATGAAAATCACAATGCGAATACGTAAA
Found at i:42429 original size:20 final size:20
Alignment explanation
Indices: 42306--42437 Score: 149
Period size: 20 Copynumber: 6.5 Consensus size: 20
42296 TTTTCCTAAT
* *
42306 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
* * *
42326 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATAT-GTAAA
* *
42347 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
*
42367 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
42387 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* *
42407 TCGCAATGCGAATCTG-ACTA
1 TCGCAATGCGAATATGTA-AA
42427 TCGCAATGCGA
1 TCGCAATGCGA
42438 TTTACATAGC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 80 0.83
21 15 0.16
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:42642 original size:22 final size:22
Alignment explanation
Indices: 42617--42671 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
42607 GGCGACATCC
42617 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
42639 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
**
42661 GTATCCATCTC
1 GTCCCCATCTC
42672 GGGCAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.24, C:0.40, G:0.13, T:0.24
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:43055 original size:33 final size:33
Alignment explanation
Indices: 43007--43120 Score: 95
Period size: 40 Copynumber: 3.2 Consensus size: 33
42997 ACTATCGCAA
43007 TGCGATTC-TGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTTG-CGTTGCGATTTTCATTTCGCGT
** *
43040 TGCGATTCTTGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTTGCGTTGCGATTTTC-ATTTCGCGT
* *
43074 TGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGT
1 TGCGAT--TC---TT-GCGTTGCGATTTTCA-TTTCGCGT
43114 TGCGATT
1 TGCGATT
43121 TAAAGTTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
33 19 0.30
34 16 0.25
36 2 0.03
38 1 0.02
39 3 0.05
40 23 0.36
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTCTTGCGTTGCGATTTTCATTTCGCGT
Found at i:43075 original size:20 final size:20
Alignment explanation
Indices: 43050--43099 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
43040 TGCGATTCTT
43050 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
43070 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
43090 GTGTTGCGAT
1 GCGTTGCGAT
43100 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:43076 original size:34 final size:33
Alignment explanation
Indices: 43007--43079 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
42997 ACTATCGCAA
** *
43007 TGCGATTCTGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
43040 TGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGTTGCGATAGTC-AATTCGCGT
43074 TGCGAT
1 TGCGAT
43080 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.57
34 14 0.40
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (33 bp):
TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
Found at i:43105 original size:20 final size:20
Alignment explanation
Indices: 43067--43121 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
43057 GATAGTCAAA
* **
43067 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
43087 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
43107 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
43122 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:43129 original size:20 final size:20
Alignment explanation
Indices: 43086--43129 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
43076 CGATAGTCAT
** *
43086 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
43106 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
43126 TTTC
1 TTTC
43130 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:45019 original size:20 final size:20
Alignment explanation
Indices: 44996--45224 Score: 201
Period size: 20 Copynumber: 12.4 Consensus size: 20
44986 AATAGTTTAT
*
44996 TATCGCAATGCGAAAATGAT
1 TATCGCAATGCGAAAATGAC
*
45016 TATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
45036 TATCGCAAT--G-AGA-GA-
1 TATCGCAATGCGAAAATGAC
45051 -ATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
45070 TATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
45090 TATCGCAAT--G-AGA-GA-
1 TATCGCAATGCGAAAATGAC
*
45105 -ATCGCAATGCG-AAATGAA
1 TATCGCAATGCGAAAATGAC
*
45123 AATCGCAA--C-AACAA--A-
1 TATCGCAATGCGAA-AATGAC
*
45138 -ATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
45157 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
45177 TATTGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
** *
45197 TATCGCAATGCGAATTTGAT
1 TATCGCAATGCGAAAATGAC
45217 TATCGCAA
1 TATCGCAA
45225 CGAAAGAATC
Statistics
Matches: 174, Mismatches: 15, Indels: 40
0.76 0.07 0.17
Matches are distributed among these distances:
14 23 0.13
16 12 0.07
17 12 0.07
18 7 0.04
19 7 0.04
20 113 0.65
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
TATCGCAATGCGAAAATGAC
Found at i:45079 original size:54 final size:54
Alignment explanation
Indices: 44997--45206 Score: 259
Period size: 54 Copynumber: 3.9 Consensus size: 54
44987 ATAGTTTATT
*
44997 ATCGCAATGCGAAAATGATTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
45051 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
** * * * **
45105 ATCGCAATGCG-AAATGAAAATCGCAACAAC-AAAATCG-C-AACGCGAA-AATGACT
1 ATCGCAATGCGAAAATGACTATCGCAAC-GCGAAAAT-GACTATCGC-AATGA-GAGA
* *
45158 ATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGACTATCGCAATG
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATG
45207 CGAATTTGAT
Statistics
Matches: 132, Mismatches: 15, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
52 5 0.04
53 37 0.28
54 86 0.65
55 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
Found at i:45128 original size:87 final size:88
Alignment explanation
Indices: 45017--45186 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 88
45007 GAAAATGATT
** ** * * *
45017 ATCGCAACGCGAAAATGACTATCGCAATGAGAGAATCGCAATGCGAAAATGACTATCGCAACGCG
1 ATCGCAACGCGAAAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGACTATCGCAACGCG
45082 AAAATGACTATCGCAATGAGAGA
66 AAAATGACTATCGCAATGAGAGA
* *
45105 ATCGCAATGCG-AAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGACTATCGCAATGCG
1 ATCGCAACGCGAAAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGACTATCGCAACGCG
*
45169 AAAATGACTATTGCAATG
66 AAAATGACTATCGCAATG
45187 CGAAAATGAC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 62 0.86
88 10 0.14
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (88 bp):
ATCGCAACGCGAAAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGACTATCGCAACGCG
AAAATGACTATCGCAATGAGAGA
Found at i:45223 original size:127 final size:121
Alignment explanation
Indices: 45017--45256 Score: 345
Period size: 127 Copynumber: 1.9 Consensus size: 121
45007 GAAAATGATT
*
45017 ATCGCAACGCGAAAATGACTATCGCAATGAGAGAATCGCAATGCGAAAATGACTATCGCAACGCG
1 ATCGCAACGCGAAAATGACTATCGCAATGAAAGAATCGCAATGCGAAAATGACTATCGCAACGCG
* * *
45082 AAAATGACTATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCGCAACAACAAA
66 AAAATGACTATCGCAACGAAAGAATCGCAACGCGAAATGAAAATCGCAACAACAAA
*
45138 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAAT--G-AAA-GA--ATCGCAATGCGAAAATGACTATCGC
* ** *
45203 AATGCGAATTTGATTATCGCAACGAAAGAATCGCAACGCGAAATGAAAATCGCA
60 AACGCGAAAATGACTATCGCAACGAAAGAATCGCAACGCGAAATGAAAATCGCA
45257 TTGCGATTCT
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
121 28 0.27
123 1 0.01
124 2 0.02
125 2 0.02
127 71 0.68
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (121 bp):
ATCGCAACGCGAAAATGACTATCGCAATGAAAGAATCGCAATGCGAAAATGACTATCGCAACGCG
AAAATGACTATCGCAACGAAAGAATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:45363 original size:20 final size:20
Alignment explanation
Indices: 45271--45398 Score: 159
Period size: 20 Copynumber: 6.3 Consensus size: 20
45261 GATTCTCTCG
* **
45271 TTGCGATAGTTAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
45291 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
45311 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
45331 TTGCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
45351 TTGCGATAGTCATTTTC-AA
1 TTGCGATAGTCATTTTCGCA
*
45370 GTTGCGATAGTCATTTTTCGCG
1 -TTGCGATAGTCA-TTTTCGCA
45392 TTGCGAT
1 TTGCGAT
45399 TTTAAGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 84 0.87
21 12 0.12
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:47587 original size:20 final size:19
Alignment explanation
Indices: 47530--47596 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
47520 GGAAATGACT
47530 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
47549 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
47563 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
*
47583 ATCGCAAAGCGAAA
1 ATCGCAATGCGAAA
47597 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
19 11 0.28
20 13 0.33
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:47663 original size:33 final size:33
Alignment explanation
Indices: 47606--47701 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
47596 ACTAAATTCG
*
47606 CGTTGCGATTTTCATTTTCGCATTGTGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
47640 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
47673 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
47702 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 32 0.57
34 24 0.43
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:47698 original size:20 final size:20
Alignment explanation
Indices: 47673--47761 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
47663 GCGATTCTCT
47673 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
47693 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
47713 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
47733 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
47753 CGTTGCGAT
1 CGTTGCGAT
47762 TTCTGCGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:50006 original size:3 final size:3
Alignment explanation
Indices: 49998--50030 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49988 CTTTGGGGAT
49998 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
50031 AGGGTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:50239 original size:24 final size:24
Alignment explanation
Indices: 50212--50258 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
50202 ATCATTAAAA
50212 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
50236 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
50259 TTTCGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:50272 original size:24 final size:24
Alignment explanation
Indices: 50212--50272 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
50202 ATCATTAAAA
* *
50212 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAATACTGACCAAGATCAAAG
** * *
50236 TCCGGGTATTGACCAAGATCAAAT
1 TCCGAATACTGACCAAGATCAAAG
*
50260 TTCGAATACTGAC
1 TCCGAATACTGAC
50273 TAGTACTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (24 bp):
TCCGAATACTGACCAAGATCAAAG
Found at i:51125 original size:20 final size:20
Alignment explanation
Indices: 51100--51153 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
51090 AAATTCAGTA
51100 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
51120 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
51140 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
51154 TTCGCATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:51163 original size:20 final size:20
Alignment explanation
Indices: 51099--51166 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
51089 GAAATTCAGT
51099 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
*
51119 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
* * *
51139 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCTC
51159 ATTGCGAT
1 ATTGCGAT
51167 TTACGTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCTC
Found at i:51180 original size:20 final size:20
Alignment explanation
Indices: 51153--51252 Score: 128
Period size: 20 Copynumber: 5.0 Consensus size: 20
51143 CGATAGTCAG
51153 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
51173 ATTTGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
51193 AATCGCATTGCGATTTTTCAA
1 ATTCGCATTGCGA-TTTACGT
*
51214 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
51234 ATTCGCATTGCGAATTACG
1 ATTCGCATTGCGATTTACG
51253 AAAATCGCAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
20 51 0.77
21 15 0.23
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:51267 original size:21 final size:21
Alignment explanation
Indices: 51243--51288 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
51233 TATTCGCATT
51243 GCGAATTACGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
51264 GCGAATTTCGAAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
51285 GCGA
1 GCGA
51289 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:55549 original size:29 final size:30
Alignment explanation
Indices: 55505--55571 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
55495 ATTATTTGTT
*
55505 GCAACAACCCAGTAGTA-TTTACGAAA-AAA
1 GCAACAACCCAATAGTATTTTAC-AAAGAAA
*
55534 GCAATAACCCAATAGTATTTTACAAAGAAA
1 GCAACAACCCAATAGTATTTTACAAAGAAA
55564 GCAACAAC
1 GCAACAAC
55572 ATAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.18
Consensus pattern (30 bp):
GCAACAACCCAATAGTATTTTACAAAGAAA
Found at i:71896 original size:46 final size:46
Alignment explanation
Indices: 71829--71972 Score: 270
Period size: 46 Copynumber: 3.1 Consensus size: 46
71819 GGTGCAGACG
*
71829 TAAAAAAGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
1 TAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
71875 TAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
1 TAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
*
71921 AAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
1 TAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
71967 TAAAAA
1 TAAAAA
71973 GTTCGTCTCT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.41
Consensus pattern (46 bp):
TAAAAATGGTGTGAACTCTTTGATTATATATTATTATATTATAAGA
Found at i:77645 original size:38 final size:38
Alignment explanation
Indices: 77603--77681 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
77593 AAAGCCTAAT
*
77603 ATTATGTCTTCCCAGCCCAAGACTGAGAATGTGAGGGA
1 ATTATGCCTTCCCAGCCCAAGACTGAGAATGTGAGGGA
*
77641 ATTATGCCTTCCCAGCCCAATACTGAGAATGTGAGGGA
1 ATTATGCCTTCCCAGCCCAAGACTGAGAATGTGAGGGA
77679 ATT
1 ATT
77682 TACGGCTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (38 bp):
ATTATGCCTTCCCAGCCCAAGACTGAGAATGTGAGGGA
Found at i:81523 original size:2 final size:2
Alignment explanation
Indices: 81516--81557 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
81506 TCTTCATTTC
81516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81558 TTTACATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94386 original size:15 final size:15
Alignment explanation
Indices: 94358--94411 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
94348 TGGATTGCCC
* *
94358 GATGGATGACTACTA
1 GATGGAGGAATACTA
*
94373 GATGGAGGAATACTC
1 GATGGAGGAATACTA
* * *
94388 GACGGAGGAATGCCA
1 GATGGAGGAATACTA
94403 GATGGAGGA
1 GATGGAGGA
94412 CTGCCCGAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.37, T:0.17
Consensus pattern (15 bp):
GATGGAGGAATACTA
Found at i:97463 original size:42 final size:42
Alignment explanation
Indices: 97415--97515 Score: 148
Period size: 42 Copynumber: 2.4 Consensus size: 42
97405 AAAAGTATTG
* *
97415 TCGTCACAAATCACCAACTATGAATGATGACAAAAACAATTA
1 TCGTCACAAATCACCAACTAAGAATAATGACAAAAACAATTA
* *
97457 TCGTCACAAATCACCAACTAAGACTAATGATAAAAACAATTA
1 TCGTCACAAATCACCAACTAAGAATAATGACAAAAACAATTA
* *
97499 ACGTCACAAAACACCAA
1 TCGTCACAAATCACCAA
97516 GACTAGAGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.19
Consensus pattern (42 bp):
TCGTCACAAATCACCAACTAAGAATAATGACAAAAACAATTA
Found at i:98835 original size:17 final size:17
Alignment explanation
Indices: 98813--98858 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
98803 GGACTGATCC
* *
98813 TTGACTGTTGACGGTCG
1 TTGACTGTTGACCGCCG
98830 TTGACTGTTGACCGCCG
1 TTGACTGTTGACCGCCG
*
98847 TTGACCGTTGAC
1 TTGACTGTTGAC
98859 TGACCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (17 bp):
TTGACTGTTGACCGCCG
Found at i:99631 original size:27 final size:27
Alignment explanation
Indices: 99601--99677 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
99591 TGGAATTATA
99601 AAAATAGCCTTAAAGTGTAAAATGACC
1 AAAATAGCCTTAAAGTGTAAAATGACC
*
99628 AAAATACCCTTAAAGTGTAAAATGACC
1 AAAATAGCCTTAAAGTGTAAAATGACC
*
99655 AAAAT-GTCCCTAAAGTGTAAAAT
1 AAAATAG-CCTTAAAGTGTAAAAT
99678 AGCCTAAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (27 bp):
AAAATAGCCTTAAAGTGTAAAATGACC
Found at i:101163 original size:43 final size:43
Alignment explanation
Indices: 101073--101589 Score: 489
Period size: 43 Copynumber: 12.3 Consensus size: 43
101063 CTATGACTTA
* * *
101073 TAAGTCCTTACCGTTACGCAGGCTCCT-TACTATGTGCAAGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
*
101115 TAAGTCCTTACCATTTCCCAGGCTCCTCTGCTATGTGCAAGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
* * * *
101158 TAAGTCCTTACCGTTTCCCAAGCTCCTCTACTTTGTGCACAGGA
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCA-AGGG
* * * ***
101202 TAAGACCTTACCG-----CAGGATCCTCTACTATGTGCAATTA
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
** * *
101240 TAAGTCCTTACTATTTCCCAGGCTCCTCTTCT-T-TGCACGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
* * *
101281 ATAAGACCTTACCG-----CAGGCACCTCTACTATGTGCAAGGG
1 -TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
* * *
101320 TAAGTCTTTACCGTTACTGCAGGCTCCTCTGCTATGTGCAAGGG
1 TAAGTCCTTACCGTTTC-CCAGGCTCCTCTGCTATGTGCAAGGG
* * *
101364 TAAGTCCTTACCGTTTCCCAGGCTTCTATTCTATGTGCAAGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
* * *
101407 TAAGTCCTTACCGTTTTCCTAGGCTCCTC-GACTTTGTGCATAGGA
1 TAAGTCCTTACCG-TTTCCCAGGCTCCTCTG-CTATGTGCA-AGGG
* *
101452 TAAGACCTTACCG-----CAGGCTCCTCTGCTATATGCAAGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
*
101490 TAAGTCCTTACCATTTCCCAGGCTCCTCTGCTATGTGCAAGGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
* * * *
101533 TAAGTCCTTATCGTTTTCCAGGCTCCT-TGCTTTGTGCATAGGA
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCA-AGGG
*
101576 TAAGACCTTACCGT
1 TAAGTCCTTACCGT
101590 AGACTCCTCT
Statistics
Matches: 388, Mismatches: 61, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
37 12 0.03
38 38 0.10
39 41 0.11
40 1 0.00
41 4 0.01
42 45 0.12
43 159 0.41
44 73 0.19
45 15 0.04
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (43 bp):
TAAGTCCTTACCGTTTCCCAGGCTCCTCTGCTATGTGCAAGGG
Found at i:101244 original size:82 final size:81
Alignment explanation
Indices: 101073--101542 Score: 469
Period size: 82 Copynumber: 5.7 Consensus size: 81
101063 CTATGACTTA
* * * * *
101073 TAAGTCCTTACCGTTACGCAGGCTCCT-TACTATGTGCAAGGGTAAGTCCTTACCATTTCCCAGG
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTACTATGTGCAAGGATAAGACCTTA-C----CGCAGG
*
101137 CTCCTCTGCTATGTGCAAGGG
61 CTCCTCTACTATGTGCAAGGG
* * *
101158 TAAGTCCTTACCGTTTCCCAAGCTCCTCTACTTTGTGCACAGGATAAGACCTTACCGCAGGATCC
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTACTATGTGCA-AGGATAAGACCTTACCGCAGGCTCC
***
101223 TCTACTATGTGCAATTA
65 TCTACTATGTGCAAGGG
** * * *
101240 TAAGTCCTTACTATTTCCCAGGCTCCTCTTCT-T-TGCACGGGATAAGACCTTACCGCAGGCACC
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTACTATGTGCA-AGGATAAGACCTTACCGCAGGCTCC
101303 TCTACTATGTGCAAGGG
65 TCTACTATGTGCAAGGG
* * * * * *
101320 TAAGTCTTTACCGTTACTGCAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAG
1 TAAGTCCTTACCGTTTC-CCAGGCTCCTCTACTATGTGCAAGGATAAGACCTTACCG-----CAG
* * *
101385 GCTTCTATTCTATGTGCAAGGG
60 GCTCCTCTACTATGTGCAAGGG
* * *
101407 TAAGTCCTTACCGTTTTCCTAGGCTCCTCGACTTTGTGCATAGGATAAGACCTTACCGCAGGCTC
1 TAAGTCCTTACCG-TTTCCCAGGCTCCTCTACTATGTGCA-AGGATAAGACCTTACCGCAGGCTC
* *
101472 CTCTGCTATATGCAAGGG
64 CTCTACTATGTGCAAGGG
* * * *
101490 TAAGTCCTTACCATTTCCCAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTA
1 TAAGTCCTTACCGTTTCCCAGGCTCCTCTACTATGTGCAAGGATAAGACCTTA
101543 TCGTTTTCCA
Statistics
Matches: 318, Mismatches: 55, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
80 54 0.17
81 26 0.08
82 86 0.27
83 37 0.12
85 24 0.08
86 11 0.03
87 62 0.19
88 18 0.06
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (81 bp):
TAAGTCCTTACCGTTTCCCAGGCTCCTCTACTATGTGCAAGGATAAGACCTTACCGCAGGCTCCT
CTACTATGTGCAAGGG
Found at i:101599 original size:250 final size:247
Alignment explanation
Indices: 101072--101627 Score: 685
Period size: 250 Copynumber: 2.2 Consensus size: 247
101062 TCTATGACTT
* *
101072 ATAAGTCCTTACCGTTACGCAGGCTCCT-TACTATGTGCAAGGGTAAGTCCTTACCATTTCCCAG
1 ATAAGACCTTACCGTTACGCA-GCTCCTCTACTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAG
* *
101136 GCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAAGCTCCTCTACTTTGTGCACAGG
65 GCTCCTATGCTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAAGCTCCTCGACTTTGTGCACAGG
* ** *
101201 ATAAGACCTTACCGCAGGATCCTCTACTATGTGCAATTATAAGTCCTTACTATTTCCCAGGCTCC
130 ATAAGACCTTACCGCAGGATCCTCTACTATATGCAAGGATAAGTCCTTACCATTTCCCAGGCTCC
* *
101266 TCTTCTTTGCACGGGATAAGACCTTACCGCAGGCACCTCTACTATGTGCAAGG
195 TCTGCTTTGCAAGGGATAAGACCTTACCGCAGGCACCTCTACTATGTGCAAGG
* * * *
101319 GTAAGTCTTTACCGTTACTGCAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTCCCA
1 ATAAGACCTTACCGTTAC-GCA-GCTCCTCTACTATGTGCAAGGGTAAGTCCTTACCGTTTCCCA
* * * * *
101384 GGCTTCTATTCTATGTGCAAGGGTAAGTCCTTACCGTTTTCCTAGGCTCCTCGACTTTGTGCATA
64 GGCTCCTATGCTATGTGCAAGGGTAAGTCCTTACCG-TTTCCCAAGCTCCTCGACTTTGTGCACA
* * *
101449 GGATAAGACCTTACCGCAGGCTCCTCTGCTATATGCAAGGGTAAGTCCTTACCATTTCCCAGGCT
128 GGATAAGACCTTACCGCAGGATCCTCTACTATATGCAAGGATAAGTCCTTACCATTTCCCAGGCT
* * * * *
101514 CCTCTGCTATGTGCAAGGG-TAAGTCCTTATCGTTTTCCAGGCTCCT-TGCTTTGTGCATAGG
193 CCTCTGCT-T-TGCAAGGGATAAGACCTTACCG-----CAGGCACCTCTACTATGTGCA-AGG
* *
101575 ATAAGACCTTACCG-TA-G-A-CTCCTCTACTTTGTGCACAGGGTAAGCCCTTACCG
1 ATAAGACCTTACCGTTACGCAGCTCCTCTACTATGTGCA-AGGGTAAGTCCTTACCG
101628 GGTGTACAGG
Statistics
Matches: 266, Mismatches: 31, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
247 16 0.06
248 10 0.04
249 66 0.25
250 104 0.39
251 28 0.11
252 8 0.03
253 1 0.00
255 11 0.04
256 22 0.08
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (247 bp):
ATAAGACCTTACCGTTACGCAGCTCCTCTACTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAGG
CTCCTATGCTATGTGCAAGGGTAAGTCCTTACCGTTTCCCAAGCTCCTCGACTTTGTGCACAGGA
TAAGACCTTACCGCAGGATCCTCTACTATATGCAAGGATAAGTCCTTACCATTTCCCAGGCTCCT
CTGCTTTGCAAGGGATAAGACCTTACCGCAGGCACCTCTACTATGTGCAAGG
Found at i:103135 original size:45 final size:47
Alignment explanation
Indices: 103036--103128 Score: 154
Period size: 45 Copynumber: 2.0 Consensus size: 47
103026 TTGGTTAATT
103036 TTTGTAATTAATCATTATATATACGTAATTTTAACTTAAAAACTGGAAA
1 TTTGTAATTAATCATTATATATA--TAATTTTAACTTAAAAACTGGAAA
103085 TTTGTAATTAATCATTATAT-T-TAATTTTAACTTAAAAACTGGAA
1 TTTGTAATTAATCATTATATATATAATTTTAACTTAAAAACTGGAA
103129 TATTGTAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
45 23 0.52
48 1 0.02
49 20 0.45
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (47 bp):
TTTGTAATTAATCATTATATATATAATTTTAACTTAAAAACTGGAAA
Found at i:107017 original size:62 final size:62
Alignment explanation
Indices: 106947--107071 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
106937 TTGTCTTCAG
106947 CAGTTGACTTTTTAAGCCGGCCTGGTTAGCTGTATCATATTATACATATTATATCGTACCAT
1 CAGTTGACTTTTTAAGCCGGCCTGGTTAGCTGTATCATATTATACATATTATATCGTACCAT
107009 CAGTTGACTTTTTAAGCCGGCCTGGTTAGCTGTATCATATTATACATATTATATCGTACCAT
1 CAGTTGACTTTTTAAGCCGGCCTGGTTAGCTGTATCATATTATACATATTATATCGTACCAT
107071 C
1 C
107072 TGTATTTTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (62 bp):
CAGTTGACTTTTTAAGCCGGCCTGGTTAGCTGTATCATATTATACATATTATATCGTACCAT
Found at i:111080 original size:21 final size:21
Alignment explanation
Indices: 111056--111098 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
111046 CAATTATGTT
111056 ACAATAAAGTACAATGTAATG
1 ACAATAAAGTACAATGTAATG
111077 ACAATAAAGTACAATGTAATG
1 ACAATAAAGTACAATGTAATG
111098 A
1 A
111099 ACACTAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.23
Consensus pattern (21 bp):
ACAATAAAGTACAATGTAATG
Found at i:119534 original size:5 final size:5
Alignment explanation
Indices: 119524--119561 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
119514 CCACGACCAT
*
119524 GAGCC GAGCC GAGCC GAGCC GTGCC GAGCC GAGCC GAG
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAG
119562 ACAGACGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.42, T:0.03
Consensus pattern (5 bp):
GAGCC
Found at i:124706 original size:5 final size:5
Alignment explanation
Indices: 124698--124731 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
124688 ACGAGCCAAG
* *
124698 CCGTA CCGTA CCGTA CCGTA CCGTG CCGTG CCGT
1 CCGTA CCGTA CCGTA CCGTA CCGTA CCGTA CCGT
124732 GCCGAGCCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.12, C:0.41, G:0.26, T:0.21
Consensus pattern (5 bp):
CCGTA
Found at i:128372 original size:139 final size:139
Alignment explanation
Indices: 128134--128408 Score: 514
Period size: 139 Copynumber: 2.0 Consensus size: 139
128124 CGAGAGCGAA
*
128134 AAATTATTATTTTTTGTGTGTTTAGTTATGTCGTTAACTTTAGAACAATTTAGTAATTATTTAAA
1 AAATTATTAATTTTTGTGTGTTTAGTTATGTCGTTAACTTTAGAACAATTTAGTAATTATTTAAA
* *
128199 TTAATTTGTAGGAATTGATTCGTGTCGAACCACTGCTTGAGTTGATGTTGATAAGCTTTACAACC
66 TTAATTTGTAGGAATTGATTCGAGTCGAACCACTGCTCGAGTTGATGTTGATAAGCTTTACAACC
128264 GATGTTTTT
131 GATGTTTTT
128273 AAATTATTAATTTTTGTGTGTTTAGTTATGTCGTTAACTTTAGAACAATTTAGTAATTATTTAAA
1 AAATTATTAATTTTTGTGTGTTTAGTTATGTCGTTAACTTTAGAACAATTTAGTAATTATTTAAA
*
128338 TTAATTTGTAGGAATTGATTCGAGTCGAACCACTGCTCGAGTTGATGTTGATAAGCTTTATAACC
66 TTAATTTGTAGGAATTGATTCGAGTCGAACCACTGCTCGAGTTGATGTTGATAAGCTTTACAACC
128403 GATGTT
131 GATGTT
128409 AGCTATTCTA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 132 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (139 bp):
AAATTATTAATTTTTGTGTGTTTAGTTATGTCGTTAACTTTAGAACAATTTAGTAATTATTTAAA
TTAATTTGTAGGAATTGATTCGAGTCGAACCACTGCTCGAGTTGATGTTGATAAGCTTTACAACC
GATGTTTTT
Found at i:130310 original size:7 final size:7
Alignment explanation
Indices: 130295--130341 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
130285 ATCTTGTTTC
130295 TTTAT-T
1 TTTATAT
130301 TTTATAT
1 TTTATAT
*
130308 TTTTTATT
1 TTTATA-T
130316 TTTATAT
1 TTTATAT
130323 TTTATAT
1 TTTATAT
130330 TTTAT-T
1 TTTATAT
130336 TTTATA
1 TTTATA
130342 GATTTATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 11 0.31
7 19 0.53
8 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATAT
Found at i:130315 original size:15 final size:15
Alignment explanation
Indices: 130295--130332 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
130285 ATCTTGTTTC
130295 TTTATTTTTATATTT
1 TTTATTTTTATATTT
130310 TTTATTTTTATATTT
1 TTTATTTTTATATTT
*
130325 TATATTTT
1 TTTATTTT
130333 ATTTTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATATTT
Found at i:130346 original size:22 final size:21
Alignment explanation
Indices: 130295--130341 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
130285 ATCTTGTTTC
130295 TTTAT-TTTTATATTTTTTATT
1 TTTATATTTTATA-TTTTTATT
130316 TTTATATTTTATA-TTTTATT
1 TTTATATTTTATATTTTTATT
130336 TTTATA
1 TTTATA
130342 GATTTATTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.52
21 5 0.20
22 7 0.28
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTATATTTTATATTTTTATT
Found at i:136556 original size:3 final size:3
Alignment explanation
Indices: 136548--136581 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
136538 ATATATAAAA
136548 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
136582 ATTTCGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:136569 original size:17 final size:17
Alignment explanation
Indices: 136547--136581 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
136537 AATATATAAA
136547 ATATTATTATTATTATT
1 ATATTATTATTATTATT
136564 ATATTATTATTATTATT
1 ATATTATTATTATTATT
136581 A
1 A
136582 ATTTCGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTATTATTATTATT
Found at i:136570 original size:14 final size:14
Alignment explanation
Indices: 136551--136579 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
136541 TATAAAATAT
136551 TATTATTATTATTA
1 TATTATTATTATTA
136565 TATTATTATTATTA
1 TATTATTATTATTA
136579 T
1 T
136580 TAATTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:137436 original size:13 final size:13
Alignment explanation
Indices: 137414--137458 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
137404 GTCATAAATC
137414 TATGACGCGCATT
1 TATGACGCGCATT
*
137427 TATGAAGCGCATT
1 TATGACGCGCATT
*
137440 TATGACGCGCATG
1 TATGACGCGCATT
137453 TATGAC
1 TATGAC
137459 TTACATTGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:137582 original size:19 final size:19
Alignment explanation
Indices: 137558--137597 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
137548 ATTGCGCGTC
*
137558 ATTAAAGCCCCCGTCATAA
1 ATTAAAGCCCCCATCATAA
*
137577 ATTAAATCCCCCATCATAA
1 ATTAAAGCCCCCATCATAA
137596 AT
1 AT
137598 CTGTTTGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.25
Consensus pattern (19 bp):
ATTAAAGCCCCCATCATAA
Found at i:137738 original size:2 final size:2
Alignment explanation
Indices: 137726--137788 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
137716 TTTCAGAAAT
* * *
137726 TA TA TA CA TA TA TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
137768 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
137789 TGTAGATTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:139277 original size:12 final size:12
Alignment explanation
Indices: 139260--139290 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
139250 ATATATTGAT
139260 AATCAAATGAAA
1 AATCAAATGAAA
139272 AATCAAATGAAA
1 AATCAAATGAAA
*
139284 AAACAAA
1 AATCAAA
139291 CCCGGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:143798 original size:15 final size:15
Alignment explanation
Indices: 143773--143814 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
143763 GATTCTTTGT
*
143773 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTAGACG
143789 TTTTCTTCTTAGACG
1 TTTTCTTCTTAGACG
*
143804 TTGTCTTCTTA
1 TTTTCTTCTTA
143815 CCCCATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.10, C:0.21, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTTCTTCTTAGACG
Found at i:147830 original size:23 final size:24
Alignment explanation
Indices: 147795--147865 Score: 135
Period size: 23 Copynumber: 3.0 Consensus size: 24
147785 GGTTTGACTG
147795 GAGGTTATAAGGTACCATTATGTT
1 GAGGTTATAAGGTACCATTATGTT
147819 GAGGTT-TAAGGTACCATTATGTT
1 GAGGTTATAAGGTACCATTATGTT
147842 GAGGTTATAAGGTACCATTATGTT
1 GAGGTTATAAGGTACCATTATGTT
147866 CTTATTGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
23 23 0.50
24 23 0.50
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (24 bp):
GAGGTTATAAGGTACCATTATGTT
Found at i:150552 original size:21 final size:21
Alignment explanation
Indices: 150522--150588 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
150512 GGTTCTACGC
*
150522 GGTCCTTCAGGATATATATGT
1 GGTCCTTCAGGACATATATGT
* * *
150543 GGTTCTTCAGGACATCTATAT
1 GGTCCTTCAGGACATATATGT
150564 GGTCCTTCAGGACATATATGT
1 GGTCCTTCAGGACATATATGT
150585 GGTC
1 GGTC
150589 TTTTGGGACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (21 bp):
GGTCCTTCAGGACATATATGT
Found at i:150630 original size:24 final size:23
Alignment explanation
Indices: 150578--150630 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
150568 CTTCAGGACA
* *
150578 TATATGTGGTCTTTTGGGACATT
1 TATATGTGGTCTTTCGGAACATT
*
150601 TCTATGTGGT-TCTTCGGAACATTT
1 TATATGTGGTCT-TTCGGAACA-TT
150625 TATATG
1 TATATG
150631 GAACTCAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (23 bp):
TATATGTGGTCTTTCGGAACATT
Found at i:156152 original size:40 final size:40
Alignment explanation
Indices: 156108--156188 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
156098 GTTTGAAGTG
*
156108 GGTATATGCTTTATCTAGGAGTTTTATCCTTGAAAACTAT
1 GGTATATGCTTTATCTAGGAGTTTCATCCTTGAAAACTAT
156148 GGTATATGCTTTATCTAGGAGTTTCATCCTTGAAAACTAT
1 GGTATATGCTTTATCTAGGAGTTTCATCCTTGAAAACTAT
156188 G
1 G
156189 CTCCTCATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.41
Consensus pattern (40 bp):
GGTATATGCTTTATCTAGGAGTTTCATCCTTGAAAACTAT
Found at i:157489 original size:17 final size:17
Alignment explanation
Indices: 157467--157502 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
157457 GTATACTAAT
157467 ATTAAAAATATGAAAAC
1 ATTAAAAATATGAAAAC
157484 ATTAAAAATATGAAAAC
1 ATTAAAAATATGAAAAC
157501 AT
1 AT
157503 AATATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (17 bp):
ATTAAAAATATGAAAAC
Found at i:159495 original size:27 final size:28
Alignment explanation
Indices: 159442--159497 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
159432 GTTTTATGTT
* * * *
159442 TTATATATTTATTTTGTTTGTATTATTA
1 TTATATATTTACTTTGTATATAATATTA
159470 TTATATA-TTACTTTGTATATAATATTA
1 TTATATATTTACTTTGTATATAATATTA
159497 T
1 T
159498 AGCATGATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (28 bp):
TTATATATTTACTTTGTATATAATATTA
Found at i:165714 original size:23 final size:22
Alignment explanation
Indices: 165661--165714 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
165651 ACAACCTAGA
165661 TTTGAAATTCTAATAAATACCCT
1 TTTG-AATTCTAATAAATACCCT
* * *
165684 CTTCAATTCTTAATAAATACCTT
1 TTTGAATTC-TAATAAATACCCT
165707 TTTGAATT
1 TTTGAATT
165715 GTAAGCAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTGAATTCTAATAAATACCCT
Found at i:167055 original size:20 final size:20
Alignment explanation
Indices: 167026--167067 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
167016 GGTGATATGA
167026 TACATATCACATCATCGTCT
1 TACATATCACATCATCGTCT
*
167046 TACATGTCACATCATCGTCT
1 TACATATCACATCATCGTCT
167066 TA
1 TA
167068 GAAGACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (20 bp):
TACATATCACATCATCGTCT
Found at i:167735 original size:15 final size:14
Alignment explanation
Indices: 167717--167788 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
167707 TTTTGAAAAA
167717 TGAATTACTGAAATT
1 TGAATTA-TGAAATT
*
167732 TGAATTATTAGAATT
1 TGAATTATGA-AATT
* **
167747 TGAATTAATAAAAAA
1 TGAATT-ATGAAATT
*
167762 TGAATTATTATAATT
1 TGAATTATGA-AATT
*
167777 TGAATTCTGAAA
1 TGAATTATGAAA
167789 AATTAATTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
14 7 0.16
15 35 0.78
16 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (14 bp):
TGAATTATGAAATT
Found at i:167751 original size:30 final size:30
Alignment explanation
Indices: 167717--167797 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
167707 TTTTGAAAAA
**
167717 TGAATTACTGAAATTTGAATTATTAGAATT
1 TGAATTACTGAAAAATGAATTATTAGAATT
* * *
167747 TGAATTAATAAAAAATGAATTATTATAATT
1 TGAATTACTGAAAAATGAATTATTAGAATT
*
167777 TGAATT-CTGAAAAATTAATTA
1 TGAATTACTGAAAAATGAATTA
167798 CATTTCTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 12 0.28
30 31 0.72
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (30 bp):
TGAATTACTGAAAAATGAATTATTAGAATT
Found at i:168179 original size:23 final size:23
Alignment explanation
Indices: 168130--168180 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
168120 GTGTTATATT
**
168130 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
168153 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
168176 ATATT
1 ATATT
168181 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:168192 original size:19 final size:19
Alignment explanation
Indices: 168168--168238 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
168158 TTAAATATCT
*
168168 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* * *
168187 TTATTATATTAATATTAAA
1 TTATTAAAATATTATTAAA
* *
168206 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
168226 TTATTAAATATAT
1 TTATTAAA-ATAT
168239 AAACAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.03
19 25 0.64
20 6 0.15
21 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:168219 original size:24 final size:26
Alignment explanation
Indices: 168192--168249 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
168182 TTAGATTATT
168192 ATATTA-A-TATTAAATATATAAATA
1 ATATTATATTATTAAATATATAAATA
*
168216 ATATTATTCATTATTAAATATATAAACA
1 ATATTA-T-ATTATTAAATATATAAATA
168244 AT-TTAT
1 ATATTAT
168250 TATATATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 6 0.21
26 1 0.03
27 4 0.14
28 18 0.62
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATTATATTATTAAATATATAAATA
Found at i:168339 original size:17 final size:16
Alignment explanation
Indices: 168313--168351 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
168303 ATTATTTTAT
168313 TATAATATTAAAAATA
1 TATAATATTAAAAATA
*
168329 TATATATATTATAAATA
1 TATA-ATATTAAAAATA
168346 T-TAATA
1 TATAATA
168352 AATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 6 0.29
17 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATATTAAAAATA
Found at i:168341 original size:9 final size:9
Alignment explanation
Indices: 168310--168356 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
168300 TTGATTATTT
168310 TATTAT-AA
1 TATTATAAA
*
168318 TATTAAAAA
1 TATTATAAA
*
168327 TA-TATATA
1 TATTATAAA
168335 TATTATAAA
1 TATTATAAA
168344 TATTAATAAA
1 TATT-ATAAA
168354 TAT
1 TAT
168357 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 11 0.34
9 13 0.41
10 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TATTATAAA
Found at i:168627 original size:42 final size:42
Alignment explanation
Indices: 168580--168669 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
168570 TTCCTCCAAC
* *
168580 CAAACACCGAAAAAT-ATTTTTCGGAAAACGAATTACGTGAAA
1 CAAACACCG-AAAATCATTTTTCGAAAAACGAATTACATGAAA
*
168622 CAAACA-CGGAAATCATTTTTCGAAAAACGAATTACATGAAA
1 CAAACACCGAAAATCATTTTTCGAAAAACGAATTACATGAAA
168663 CAAACAC
1 CAAACAC
168670 GAGATTTCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 4 0.09
41 33 0.77
42 6 0.14
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.20
Consensus pattern (42 bp):
CAAACACCGAAAATCATTTTTCGAAAAACGAATTACATGAAA
Found at i:168642 original size:41 final size:40
Alignment explanation
Indices: 168591--168670 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 40
168581 AAACACCGAA
* *
168591 AAATATTTTTCGGAAAACGAATTACGTGAAACAAACACGG
1 AAATATTTTTCGAAAAACGAATTACATGAAACAAACACGG
168631 AAATCATTTTTCGAAAAACGAATTACATGAAACAAACACG
1 AAAT-ATTTTTCGAAAAACGAATTACATGAAACAAACACG
168671 AGATTTCGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (40 bp):
AAATATTTTTCGAAAAACGAATTACATGAAACAAACACGG
Found at i:168819 original size:14 final size:14
Alignment explanation
Indices: 168802--168828 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
168792 CTAGAAAACG
168802 TTTTTCGTAAAATA
1 TTTTTCGTAAAATA
168816 TTTTTCGTAAAAT
1 TTTTTCGTAAAAT
168829 GAATTACATT
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:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTTTCGTAAAATA
Found at i:169183 original size:23 final size:23
Alignment explanation
Indices: 169134--169184 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
169124 GTGTTATATT
**
169134 ATATTTTAAAAATATTAATTATT
1 ATATTTTAAAAATATTAATTAAA
* * *
169157 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
169180 ATATT
1 ATATT
169185 ATATTAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:169216 original size:27 final size:27
Alignment explanation
Indices: 169178--169250 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
169168 ATCTTTATTA
*
169178 AAATATTA-TATTAATATTAAATATAT
1 AAATAATATTATTAATATTAAATATAT
* *
169204 AAATAATATTATTCATTATTACATATAT
1 AAATAATATTATT-AATATTAAATATAT
*
169232 AAA-AAAATTATTATATATT
1 AAATAATATTATTA-ATATT
169251 TATTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.21
27 16 0.41
28 15 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATAATATTATTAATATTAAATATAT
Found at i:169331 original size:22 final size:23
Alignment explanation
Indices: 169303--169349 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
169293 TTGATTATTT
169303 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
169325 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
169348 TA
1 TA
169350 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:169336 original size:30 final size:34
Alignment explanation
Indices: 169276--169355 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 34
169266 ATAATATCTT
* *
169276 ATATTATTATAATATAATTGATTATTTTATTAT-A
1 ATATTAATA-AATATAATTGATTATATTATTATAA
169310 ATATTAA-AAATATAA-T-ATTATATTATTATAA
1 ATATTAATAAATATAATTGATTATATTATTATAA
169341 ATATTAATAAATATA
1 ATATTAATAAATATA
169356 TTTTAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 12 0.29
31 9 0.21
32 14 0.33
33 1 0.02
34 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
ATATTAATAAATATAATTGATTATATTATTATAA
Found at i:169354 original size:22 final size:22
Alignment explanation
Indices: 169310--169366 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
169300 TTTTATTATA
* *
169310 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
169331 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
169353 ATATTTTAAATATT
1 ATATTATAAATATT
169367 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:169626 original size:42 final size:42
Alignment explanation
Indices: 169579--169662 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
169569 TTTCTCCAAC
* *
169579 CAAACAC-TAGAAAACATTTTCCGGAAAACAAATTACGTGAAA
1 CAAACACGT-GAAAACATTTTCCGAAAAACAAATTACATGAAA
*
169621 CAAACACGTGAAAACATTTTCCGAAAAACGAATTACATGAAA
1 CAAACACGTGAAAACATTTTCCGAAAAACAAATTACATGAAA
169663 TTAACATGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (42 bp):
CAAACACGTGAAAACATTTTCCGAAAAACAAATTACATGAAA
Found at i:170812 original size:12 final size:13
Alignment explanation
Indices: 170795--170823 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
170785 TTTAATTACG
170795 AAAATTAAAA-TT
1 AAAATTAAAATTT
170807 AAAATTAAAATTT
1 AAAATTAAAATTT
170820 AAAA
1 AAAA
170824 AATTGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:171832 original size:84 final size:84
Alignment explanation
Indices: 171648--172038 Score: 502
Period size: 84 Copynumber: 4.7 Consensus size: 84
171638 AGTTGAATGG
* ** *
171648 AATCGAACTCGAAGGT-ATTTACTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATTGG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAA-T-G
** * *
171712 ATACAACTTAGAGCTGAATGT
64 ATACTCCTTTGAGCTGAGTGT
* * *
171733 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
*
171798 GCTCCTTTGAGCTGAGTGT
66 ACTCCTTTGAGCTGAGTGT
* * * *
171817 AATCAAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
* *
171882 ACGCCTTCGAGCTGAGTGT
66 ACTCCTTTGAGCTGAGTGT
* * *
171901 AATCGAACTCGAAGGT-TTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
* *
171965 -GTGCCTTTGAGCTGAGTAT
66 ACT-CCTTTGAGCTGAGTGT
* *
171984 AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTGGAGTTATGCT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCT
172039 TTACTTGACT
Statistics
Matches: 271, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
83 108 0.40
84 109 0.40
85 17 0.06
86 37 0.14
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
ACTCCTTTGAGCTGAGTGT
Found at i:171955 original size:83 final size:83
Alignment explanation
Indices: 171648--172038 Score: 503
Period size: 83 Copynumber: 4.7 Consensus size: 83
171638 AGTTGAATGG
* ** *
171648 AATCGAACTCGAAGGTATTTACTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATTGGA
1 AATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAA-T-GA
** * *
171713 TACAACTTAGAGCTGAATGT
64 TACGCCTTTGAGCTGAGTGT
* * *
171733 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGAT
1 AATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
* *
171798 GCTCCTTTGAGCTGAGTGT
65 ACGCCTTTGAGCTGAGTGT
* * * *
171817 AATCAAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
*
171882 ACGCCTTCGAGCTGAGTGT
65 ACGCCTTTGAGCTGAGTGT
* * * *
171901 AATCGAACTCGAAGGTTTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 AATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATA
* *
171966 TGCCTTTGAGCTGAGTAT
66 CGCCTTTGAGCTGAGTGT
* * *
171984 AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTGGAGTTATGCT
1 AATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCT
172039 TTACTTGACT
Statistics
Matches: 272, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
83 109 0.40
84 109 0.40
85 17 0.06
86 37 0.14
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (83 bp):
AATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATA
CGCCTTTGAGCTGAGTGT
Found at i:171964 original size:167 final size:169
Alignment explanation
Indices: 171605--172038 Score: 534
Period size: 167 Copynumber: 2.6 Consensus size: 169
171595 AAAACCTCGA
* * * * * ** * * * **
171605 CTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGAATGGAATCGAACTCGAAGGTATTTAC
1 CTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTATAATCAAACTCAAAGGTCTTTGT
*
171670 TGACAGATAACCCTTCTTGCCTTGAGTTATGCTGTAAATTGGATACAACTTAGAGCTGAATGTAA
64 TGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTGGATACAACTTAGAGCTGAATGTAA
* *
171735 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGC
129 TCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGC
* *
171776 CTTGAGCTATGTTGCAAATGATGCT-CCTTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTTGT
1 CTTGAGCTATGCTGCAAATGATG-TGCCTTTGAGCTGAGTATAATCAAACTCAAAGGTC-TTTGT
* * ** * *
171840 TGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAA-T-GATACGCCTTCGAGCTGAGTGTAA
64 TGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTGGATACAACTTAGAGCTGAATGTAA
*
171903 TCGAACTCGAAGGT-TTTTGTTGATAGATAACCCTTCTAGC
129 TCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGC
* * * *
171943 CTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTG
1 CTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTATAATCAAACTCAAAGGTCTTTGTTG
* *
172008 ACAGATAACCCTTCTCGCCTGGAGTTATGCT
66 ACAGATAACCCTTCTTGCCTTGAGTTATGCT
172039 TTACTTGACT
Statistics
Matches: 228, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
166 35 0.15
167 73 0.32
168 34 0.15
169 31 0.14
170 39 0.17
171 16 0.07
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (169 bp):
CTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTATAATCAAACTCAAAGGTCTTTGTTG
ACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTGGATACAACTTAGAGCTGAATGTAATC
GAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAGC
Done.