Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 3 of 21
Found at i:189910 original size:33 final size:32
Alignment explanation
Indices: 189791--189911 Score: 90
Period size: 33 Copynumber: 3.8 Consensus size: 32
189781 TTTAAAATAT
* *
189791 TTTATATTTATATAAATT-TTTATATATTATTAA
1 TTTAT-TTTAAAT-AATTATTTATATATTATTTA
* * * *
189824 TTTATATTATATAA--ATTT-TAAAATATTTA
1 TTTATTTTAAATAATTATTTATATATTATTTA
*
189853 TATA-TTTATAATATATTATTTTATATATTATTTA
1 TTTATTTTA-AATA-ATTA-TTTATATATTATTTA
189887 TTTATTTTAAATAATTATATTATAT
1 TTTATTTTAAATAATTAT-TTATAT
189912 TTAATATTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
28 3 0.04
29 14 0.20
30 4 0.06
31 2 0.03
32 8 0.12
33 18 0.26
34 16 0.23
35 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTATTTTAAATAATTATTTATATATTATTTA
Found at i:189912 original size:20 final size:21
Alignment explanation
Indices: 189860--189914 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
189850 TTATATATTT
*
189860 ATAA-TATATTAT-TTTATAT
1 ATAATTATATTATATTTATAA
*
189879 ATTATT-TATT-TATTT-TAA
1 ATAATTATATTATATTTATAA
189897 ATAATTATATTATATTTA
1 ATAATTATATTATATTTA
189915 ATATTATCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 8 0.29
19 14 0.50
20 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATAATTATATTATATTTATAA
Found at i:190647 original size:19 final size:20
Alignment explanation
Indices: 190620--190658 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
190610 CTTTTATTTC
*
190620 AATTAAAAAT-AATTTTTGT
1 AATTAAAAATCAAATTTTGT
*
190639 AATTCAAAATCAAATTTTGT
1 AATTAAAAATCAAATTTTGT
190659 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
AATTAAAAATCAAATTTTGT
Found at i:191795 original size:24 final size:23
Alignment explanation
Indices: 191756--191803 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
191746 ATAGATATAG
*
191756 TAATTTAAATTATTAT-TTAAAA
1 TAATTTAAAATATTATATTAAAA
191778 TAATATTAAAATATTTATATTAAAA
1 TAAT-TTAAAATA-TTATATTAAAA
191803 T
1 T
191804 TTATAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 7 0.32
24 4 0.18
25 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTAAAATATTATATTAAAA
Found at i:191799 original size:14 final size:14
Alignment explanation
Indices: 191780--191843 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 14
191770 ATTTAAAATA
191780 ATATTAAAATATTT
1 ATATTAAAATATTT
191794 ATATT-AAA-ATTT
1 ATATTAAAATATTT
191806 ATAATT--AA-ATTT
1 AT-ATTAAAATATTT
191818 A-ATTAAAAATATTT
1 ATATT-AAAATATTT
*
191832 ATTTTATAAATA
1 ATATTA-AAATA
191844 ATAAAACATA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
10 3 0.07
12 13 0.31
13 8 0.19
14 11 0.26
15 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATTAAAATATTT
Found at i:191807 original size:12 final size:12
Alignment explanation
Indices: 191768--191825 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
191758 ATTTAAATTA
191768 TTAT-TTAAAA-
1 TTATATTAAAAT
*
191778 TAATATTAAAATAT
1 TTATATT-AAA-AT
191792 TTATATTAAAAT
1 TTATATTAAAAT
191804 TTATAATT-AAAT
1 TTAT-ATTAAAAT
191816 TTA-ATTAAAA
1 TTATATTAAAA
191826 ATATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 6 0.15
11 5 0.12
12 16 0.40
13 7 0.17
14 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATATTAAAAT
Found at i:194441 original size:117 final size:116
Alignment explanation
Indices: 194225--194693 Score: 515
Period size: 117 Copynumber: 4.0 Consensus size: 116
194215 GTACAAGCTA
*
194225 CAGCTATAATCGTTCATATATTGGCCTAAGTCATTTATTCGAAAAAAAGGTTGAATAATCTGCTT
1 CAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCG--AAAAAGGTTGAATAATCTGCTT
* * *
194290 CATTTAAGGTTGAGATACAATCTTCCTAATGAAGTGGATAGTTCCCTTTAGTCG
64 CATTTAAGGTTGAGATACAATC-TCCTAATGAAGTAGATAGTTCCCTTTGGCCG
* * * *
194344 CAGCTATAATCGCTCATATATTAGCCTAAGTGATTTATTCGAAAAAGGTTGAATAGTCTGTTTCA
1 CAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCGAAAAAGGTTGAATAATCTGCTTCA
* * * ** *
194409 TTTAATGTTCAGATACAATCTCCTTAATGAAGTAAATAGTTCTTTTTGGCCA
66 TTTAAGGTTGAGATACAATCTCC-TAATGAAGTAGATAGTTCCCTTTGGCCG
* * * * * * *
194461 CAACTATGATCGTTCATTTATTGGCCTAAGTCATTTATTCAAAAAAGGATGAATAATTTGCTTCA
1 CAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCGAAAAAGGTTGAATAATCTGCTTCA
*
194526 TTTAAGGTTGAGATACAATTTCCATAATGAAGTAGATAGTTCCCTTTGGCCG
66 TTTAAGGTTGAGATACAATCTCC-TAATGAAGTAGATAGTTCCCTTTGGCCG
** * * ** * * * * **
194578 CAGCTATAATCGCTCATACGTTGGCTTAAGTCATTTTTTTAAAAAATGTTAAATAATTTACTTTG
1 CAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCGAAAAAGGTTGAATAATCTGCTTCA
* ** * *
194643 TTTTAGGTTGAGATTTAATCTCCCTAATTAAAGTATATAGTTCCCCTTTGG
66 TTTAAGGTTGAGATACAATCT-CCTAA-TGAAGTAGATAGTT-CCCTTTGG
194694 GCACATTCTT
Statistics
Matches: 292, Mismatches: 54, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
116 3 0.01
117 229 0.78
118 14 0.05
119 46 0.16
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (116 bp):
CAGCTATAATCGCTCATATATTGGCCTAAGTCATTTATTCGAAAAAGGTTGAATAATCTGCTTCA
TTTAAGGTTGAGATACAATCTCCTAATGAAGTAGATAGTTCCCTTTGGCCG
Found at i:194665 original size:234 final size:236
Alignment explanation
Indices: 194228--194685 Score: 600
Period size: 234 Copynumber: 1.9 Consensus size: 236
194218 CAAGCTACAG
*
194228 CTATAATCGTTCATATATTGGCCTAAGTCATTTATTCGAAAAAAAGGTTGAATAATCTGCTTCAT
1 CTATAATCGTTCATATATTGGCCTAAGTCATTTATTC-AAAAAAAGGATGAATAATCTGCTTCAT
* *
194293 TTAAGGTTGAGATACAATCTTCCTAATGAAGTGGATAGTTCCCTTTAGTCGCAGCTATAATCGCT
65 TTAAGGTTGAGATACAATCTTCCTAATGAAGTAGATAGTTCCCTTTAGCCGCAGCTATAATCGCT
* * * * * * *
194358 CATATATTAGCCTAAGTGATTTATTCGAAAAAGGTTGAATAGTCTGTTTCATTTAATGTTCAGAT
130 CATACATTAGCCTAAGTCATTTATTCAAAAAAGGTTAAATAATCTCTTTCATTTAAGGTTCAGAT
* *
194423 ACAATCTCCTTAA-TGAAGTAAATAGTTCTTTTTGGCCACAA
195 ACAATCTCCCTAATTAAAGTAAATAGTTCTTTTTGGCCACAA
* * *
194464 CTATGATCGTTCATTTATTGGCCTAAGTCATTTATTC-AAAAAAGGATGAATAATTTGCTTCATT
1 CTATAATCGTTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGGATGAATAATCTGCTTCATT
*
194528 TAAGGTTGAGATACAAT-TTCCATAATGAAGTAGATAGTTCCCTTTGGCCGCAGCTATAATCGCT
66 TAAGGTTGAGATACAATCTTCC-TAATGAAGTAGATAGTTCCCTTTAGCCGCAGCTATAATCGCT
* * * * * * * * * *
194592 CATACGTTGGCTTAAGTCATTTTTTTAAAAAATGTTAAATAATTTACTTT-GTTTTAGGTTGAGA
130 CATACATTAGCCTAAGTCATTTATTCAAAAAAGGTTAAATAATCT-CTTTCATTTAAGGTTCAGA
** *
194656 TTTAATCTCCCTAATTAAAGTATATAGTTC
194 TACAATCTCCCTAATTAAAGTAAATAGTTC
194686 CCCTTTGGGC
Statistics
Matches: 190, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
233 4 0.02
234 135 0.71
235 16 0.08
236 35 0.18
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (236 bp):
CTATAATCGTTCATATATTGGCCTAAGTCATTTATTCAAAAAAAGGATGAATAATCTGCTTCATT
TAAGGTTGAGATACAATCTTCCTAATGAAGTAGATAGTTCCCTTTAGCCGCAGCTATAATCGCTC
ATACATTAGCCTAAGTCATTTATTCAAAAAAGGTTAAATAATCTCTTTCATTTAAGGTTCAGATA
CAATCTCCCTAATTAAAGTAAATAGTTCTTTTTGGCCACAA
Found at i:198403 original size:27 final size:26
Alignment explanation
Indices: 198349--198405 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
198339 GCATTCGTTC
*
198349 AATTTTAAAATTTAAAAATTTAAATA
1 AATTTTAAAATTGAAAAATTTAAATA
* * *
198375 AATTTTAAAAGTTGAATAATTTGATTA
1 AATTTTAAAA-TTGAAAAATTTAAATA
198402 AATT
1 AATT
198406 AAATTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (26 bp):
AATTTTAAAATTGAAAAATTTAAATA
Found at i:198445 original size:7 final size:7
Alignment explanation
Indices: 198433--198462 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
198423 TATATAAAAT
198433 TATTGTA
1 TATTGTA
198440 TATTGTA
1 TATTGTA
198447 TATTGTA
1 TATTGTA
*
198454 TATTATA
1 TATTGTA
198461 TA
1 TA
198463 ATAAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (7 bp):
TATTGTA
Found at i:198491 original size:22 final size:22
Alignment explanation
Indices: 198466--198509 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
198456 TTATATAATA
198466 AAATGAT-ATATAATATAATTTT
1 AAATGATGATATAA-ATAATTTT
* *
198488 AAATTATGATATAAATATTTTT
1 AAATGATGATATAAATAATTTT
198510 TATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
AAATGATGATATAAATAATTTT
Found at i:198653 original size:9 final size:9
Alignment explanation
Indices: 198639--198666 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
198629 TAAAATCAAA
198639 TTAATTAAT
1 TTAATTAAT
198648 TTAATTAAT
1 TTAATTAAT
198657 TTAATTAAT
1 TTAATTAAT
198666 T
1 T
198667 AAATCAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATTAAT
Found at i:199702 original size:13 final size:13
Alignment explanation
Indices: 199684--199726 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
199674 ATTAAAATAA
199684 TTAATAATTATTT
1 TTAATAATTATTT
*
199697 TTAATAATAATTTT
1 TTAATAATTA-TTT
*
199711 TTAA-AATTATAT
1 TTAATAATTATTT
199723 TTAA
1 TTAA
199727 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 6 0.23
13 13 0.50
14 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATAATTATTT
Found at i:201196 original size:11 final size:10
Alignment explanation
Indices: 201185--201246 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
201175 AATAATTTAT
201185 TTTTTATATA
1 TTTTTATATA
*
201195 TTTTTA-ACA
1 TTTTTATATA
**
201204 CGTTTATATA
1 TTTTTATATA
201214 TTTTTAT-TA
1 TTTTTATATA
* *
201223 TATTTATATT
1 TTTTTATATA
201233 TTTTTATCATA
1 TTTTTAT-ATA
201244 TTT
1 TTT
201247 ATATTATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
9 14 0.36
10 20 0.51
11 5 0.13
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTTATATA
Found at i:201225 original size:13 final size:13
Alignment explanation
Indices: 201220--201268 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
201210 TATATTTTTA
201220 TTATATT-TATAT
1 TTATATTATATAT
*
201232 TT-TTTTATCATAT
1 TTATATTAT-ATAT
*
201245 TTATATTATATAA
1 TTATATTATATAT
201258 TTATATTATAT
1 TTATATTATAT
201269 CTAAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.10
12 3 0.10
13 20 0.65
14 5 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:201245 original size:30 final size:30
Alignment explanation
Indices: 201206--201264 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
201196 TTTTAACACG
*
201206 TTTATATATTTTTATTATAT-TTATATTTT
1 TTTATATATTTATATTATATATTATATTTT
201235 TTTATCATATTTATATTATATAATTATATT
1 TTTAT-ATATTTATATTATAT-ATTATATT
201265 ATATCTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
32 7 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTATATATTTATATTATATATTATATTTT
Found at i:201251 original size:19 final size:19
Alignment explanation
Indices: 201187--201250 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
201177 TAATTTATTT
* **
201187 TTTATATATTTTTAACACG
1 TTTATATATTTTTATCATA
*
201206 TTTATATATTTTTATTATA
1 TTTATATATTTTTATCATA
*
201225 TTTATATTTTTTTATCATA
1 TTTATATATTTTTATCATA
201244 TTTATAT
1 TTTATAT
201251 TATATAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATATATTTTTATCATA
Found at i:201809 original size:23 final size:24
Alignment explanation
Indices: 201778--201824 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
201768 TGTTATAATA
*
201778 TAATTTATTGATGATGT-TTAAAT
1 TAATATATTGATGATGTATTAAAT
**
201801 TAATATATTTTTGATGTATTAAAT
1 TAATATATTGATGATGTATTAAAT
201825 ATAAACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (24 bp):
TAATATATTGATGATGTATTAAAT
Found at i:204124 original size:12 final size:12
Alignment explanation
Indices: 204107--204131 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
204097 ATATATTTAA
204107 TAATTATTTATT
1 TAATTATTTATT
204119 TAATTATTTATT
1 TAATTATTTATT
204131 T
1 T
204132 TATATGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:204169 original size:20 final size:20
Alignment explanation
Indices: 204146--204184 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
204136 TGTGAATTTA
* *
204146 TTTACCTATAATTATTTATT
1 TTTACATATAATTAATTATT
*
204166 TTTATATATAATTAATTAT
1 TTTACATATAATTAATTAT
204185 ATATAATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTACATATAATTAATTATT
Found at i:204186 original size:14 final size:14
Alignment explanation
Indices: 204167--204211 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
204157 TTATTTATTT
204167 TTATATATAATTAA
1 TTATATATAATTAA
204181 TTATATATAATT-A
1 TTATATATAATTAA
* * *
204194 TTTTATGTCATTAA
1 TTATATATAATTAA
204208 TTAT
1 TTAT
204212 TAAATAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (14 bp):
TTATATATAATTAA
Found at i:204199 original size:35 final size:32
Alignment explanation
Indices: 204106--204196 Score: 103
Period size: 35 Copynumber: 2.7 Consensus size: 32
204096 CATATATTTA
*
204106 ATAATTATTTATTTAATTATTTA-TTTTATAT
1 ATAATTATTTATATAATTATTTATTTTTATAT
*
204137 GTGAATTTATTTACCTATAATTATTTATTTTTATAT
1 AT-AA-TTATTTA--TATAATTATTTATTTTTATAT
204173 ATAATTAATTATATATAATTATTT
1 ATAATT-ATT-TATATAATTATTT
204197 TATGTCATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
31 1 0.02
32 2 0.04
33 7 0.14
34 13 0.26
35 16 0.32
36 11 0.22
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (32 bp):
ATAATTATTTATATAATTATTTATTTTTATAT
Found at i:205096 original size:2 final size:2
Alignment explanation
Indices: 205089--205118 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
205079 AACTGACCAT
205089 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
205119 GTTAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:205403 original size:24 final size:24
Alignment explanation
Indices: 205348--205403 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
205338 AATAATATTA
* *
205348 AAAAATTTAAAATCATTTTTATAT
1 AAAAATTTAAAATCAATTTTAAAT
* * * *
205372 TAATATTTATAATTAATTTTAAAT
1 AAAAATTTAAAATCAATTTTAAAT
205396 AAAAATTT
1 AAAAATTT
205404 TTATTATAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAAATTTAAAATCAATTTTAAAT
Found at i:205555 original size:2 final size:2
Alignment explanation
Indices: 205548--205584 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
205538 CAAAATATAA
205548 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
205585 AGGGTTTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:205937 original size:19 final size:18
Alignment explanation
Indices: 205913--205948 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
205903 TAACTTGAAG
205913 TTTATTAGTAGTTTTTTTT
1 TTTATTAGTA-TTTTTTTT
*
205932 TTTATTATTATTTTTTT
1 TTTATTAGTATTTTTTT
205949 ACTTTACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTATTAGTATTTTTTTT
Found at i:205954 original size:19 final size:19
Alignment explanation
Indices: 205913--205954 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
205903 TAACTTGAAG
*
205913 TTTATTAGTAGTTTTTTTT
1 TTTATTAGTAGTTTTTTTC
*
205932 TTTATTATTA-TTTTTTTAC
1 TTTATTAGTAGTTTTTTT-C
205951 TTTA
1 TTTA
205955 CCTTTCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTATTAGTAGTTTTTTTC
Found at i:206965 original size:16 final size:15
Alignment explanation
Indices: 206935--206986 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
206925 TAACACATCG
206935 TATAA-TATAAATTTT
1 TATAATTAT-AATTTT
*
206950 AATAATTATAATTTT
1 TATAATTATAATTTT
206965 TA-AATTATAATTTT
1 TATAATTATAATTTT
*
206979 TTTAATTA
1 TATAATTA
206987 AAAAAAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 13 0.41
15 16 0.50
16 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATAATTTT
Found at i:206980 original size:15 final size:14
Alignment explanation
Indices: 206953--206979 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
206943 AAATTTTAAT
206953 AATTATAATTTTTA
1 AATTATAATTTTTA
206967 AATTATAATTTTT
1 AATTATAATTTTT
206980 TTAATTAAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATAATTTTTA
Found at i:207337 original size:12 final size:13
Alignment explanation
Indices: 207315--207345 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
207305 TTTCTATTAG
207315 ATTTTTCCTTTTT
1 ATTTTTCCTTTTT
207328 ATTTTT-CTTTTT
1 ATTTTTCCTTTTT
207340 ATTTTT
1 ATTTTT
207346 TCTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTCCTTTTT
Found at i:207731 original size:18 final size:18
Alignment explanation
Indices: 207704--207758 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
207694 TAATCATAAA
*
207704 AAAATTTAAAATATTTTT
1 AAAATATAAAATATTTTT
* *
207722 AAAATATAAAAAATTTTA
1 AAAATATAAAATATTTTT
* * *
207740 AAAAAATTAAATATATTT
1 AAAATATAAAATATTTTT
207758 A
1 A
207759 TATCAAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATAAAATATTTTT
Found at i:208009 original size:2 final size:2
Alignment explanation
Indices: 208004--208043 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
207994 TCTTAAAAGA
*
208004 AT AT AT AT AG 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
208044 TTTCTGGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:208353 original size:21 final size:20
Alignment explanation
Indices: 208306--208344 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
208296 AGAATCAGGT
* *
208306 AAAAATAAAAAGAAAAAAGC
1 AAAAAAAAAAAGAAAAAACC
208326 AAAAAAAAAAA-AAAAAACC
1 AAAAAAAAAAAGAAAAAACC
208345 CAGAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAACC
Found at i:212215 original size:12 final size:12
Alignment explanation
Indices: 212198--212228 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
212188 GTCTTATAAT
*
212198 TATTATCTTGCA
1 TATTATATTGCA
212210 TATTATATTGCA
1 TATTATATTGCA
212222 TATTATA
1 TATTATA
212229 GGAAATCAGT
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:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (12 bp):
TATTATATTGCA
Found at i:213875 original size:6 final size:6
Alignment explanation
Indices: 213864--213937 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
213854 ATTAAAATTT
* * * *
213864 ATATAA ATATAA ACATAA ATAT-A CTTTACA A-ATAA TTAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA ATATAA ATATAA
*
213910 TTA-AA TATATAA ATAT-A ATATAA ATATA
1 ATATAA -ATATAA ATATAA ATATAA ATATA
213938 TAAATTTTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
5 15 0.29
6 33 0.65
7 3 0.06
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:213911 original size:11 final size:11
Alignment explanation
Indices: 213895--213937 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
213885 TACTTTACAA
*
213895 ATAATTATAAT
1 ATAAATATAAT
* *
213906 ATAATTAAATAT
1 ATAAATATA-AT
213918 ATAAATATAAT
1 ATAAATATAAT
213929 ATAAATATA
1 ATAAATATA
213938 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:213933 original size:19 final size:18
Alignment explanation
Indices: 213903--213942 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
213893 AAATAATTAT
213903 AATATAATTAAATATATA
1 AATATAATTAAATATATA
213921 AATATAATATAAATATATA
1 AATATAAT-TAAATATATA
213940 AAT
1 AAT
213943 TTTTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAATTAAATATATA
Found at i:213960 original size:14 final size:14
Alignment explanation
Indices: 213938--213971 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
213928 TATAAATATA
*
213938 TAAATTTTTAAATT
1 TAAAATTTTAAATT
*
213952 TAAAATTTTATATT
1 TAAAATTTTAAATT
213966 TAAAAT
1 TAAAAT
213972 AATCTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAAATTTTAAATT
Found at i:214333 original size:4 final size:4
Alignment explanation
Indices: 214316--214345 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
214306 AGACATTGAC
*
214316 AAGA AAGA ATGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
214346 AATGATGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:214333 original size:12 final size:12
Alignment explanation
Indices: 214316--214350 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
214306 AGACATTGAC
214316 AAGAAAGAATGA
1 AAGAAAGAATGA
*
214328 AAGAAAGAAAGA
1 AAGAAAGAATGA
214340 AAGAAA-AATGA
1 AAGAAAGAATGA
214351 TGTGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (12 bp):
AAGAAAGAATGA
Found at i:215186 original size:14 final size:14
Alignment explanation
Indices: 215169--215196 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
215159 AACATTATTA
215169 AATAATTTATTGAT
1 AATAATTTATTGAT
215183 AATAATTTATTGAT
1 AATAATTTATTGAT
215197 GATGTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATTTATTGAT
Found at i:215748 original size:17 final size:17
Alignment explanation
Indices: 215712--215762 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
215702 ATATTTTATA
215712 ATTTAAATATAATTAAT
1 ATTTAAATATAATTAAT
*
215729 ATTTTAATA-AATTAAT
1 ATTTAAATATAATTAAT
*
215745 -TATTAAATTTAA-TAAT
1 AT-TTAAATATAATTAAT
215761 AT
1 AT
215763 AATTATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.04
16 16 0.57
17 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAAATATAATTAAT
Found at i:216404 original size:16 final size:16
Alignment explanation
Indices: 216377--216423 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
216367 CTATAATGAT
*
216377 CTAAATTTAAAATAAA
1 CTAAAATTAAAATAAA
* *
216393 CTGAACTTAAAATAAA
1 CTAAAATTAAAATAAA
216409 CTAAAATTAAAATAA
1 CTAAAATTAAAATAA
216424 CTCAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (16 bp):
CTAAAATTAAAATAAA
Found at i:221447 original size:24 final size:25
Alignment explanation
Indices: 221420--221466 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
221410 GTTTGAATTA
*
221420 TTATTTAA-TAAATAAAAAATATTT
1 TTATTAAATTAAATAAAAAATATTT
* *
221444 TTATTAAATTTAATTAAAAATAT
1 TTATTAAATTAAATAAAAAATAT
221467 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTATTAAATTAAATAAAAAATATTT
Found at i:221478 original size:21 final size:23
Alignment explanation
Indices: 221448--221501 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
221438 ATATTTTTAT
221448 TAAA-TTTAATTA-AAAATA-TA
1 TAAATTTTAATTATAAAATATTA
*
221468 TAAATTTTAA-TATAAAATATTT
1 TAAATTTTAATTATAAAATATTA
221490 TAATATTTTAAT
1 TAA-ATTTTAAT
221502 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 4 0.14
23 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATTTTAATTATAAAATATTA
Found at i:221481 original size:14 final size:15
Alignment explanation
Indices: 221462--221495 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
221452 TTTAATTAAA
*
221462 AATATATAA-ATTTT
1 AATATAAAATATTTT
221476 AATATAAAATATTTT
1 AATATAAAATATTTT
221491 AATAT
1 AATAT
221496 TTTAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATAAAATATTTT
Found at i:221969 original size:34 final size:34
Alignment explanation
Indices: 221892--221970 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 34
221882 TTATAATTTT
* * *
221892 ATTTAAAATAT-TTTATATTTTATATTTATATAA
1 ATTTAAAATATATTAATAATTCATATTTATATAA
*
221925 ATTT-TAATATATTAATAATTCATA-TTATATAA
1 ATTTAAAATATATTAATAATTCATATTTATATAA
221957 ATTATAAAATATAT
1 ATT-TAAAATATAT
221971 ATATTCGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 16 0.42
33 15 0.39
34 7 0.18
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (34 bp):
ATTTAAAATATATTAATAATTCATATTTATATAA
Found at i:223091 original size:21 final size:21
Alignment explanation
Indices: 223066--223105 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
223056 TTAAAATTTA
223066 TTTTTATTAAAC-ATTTTAACT
1 TTTTTATT-AACGATTTTAACT
223087 TTTTTATTAACGATTTTAA
1 TTTTTATTAACGATTTTAA
223106 TCAAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTATTAACGATTTTAACT
Found at i:224561 original size:21 final size:21
Alignment explanation
Indices: 224535--224578 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
224525 AGGAAAAGAT
* *
224535 TTTTTTATCTTTTAAAGATAA
1 TTTTTTATATTTTAAAAATAA
224556 TTTTTTATATTTTAAAAATAA
1 TTTTTTATATTTTAAAAATAA
224577 TT
1 TT
224579 ATTAATCGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTTATATTTTAAAAATAA
Found at i:225901 original size:48 final size:48
Alignment explanation
Indices: 225801--225901 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
225791 AATTTAAATT
* * *
225801 AATTTAATTTAAATTATTATTTAATAATAAAAAAATTATTTTTACTTA
1 AATTTAATTTAAATTATTAATAAATAATAAAAAAATTATGTTTACTTA
** * *
225849 AATTTAATTATAAA-TATTAATAAATAATAAAAATTTTATGTTTATTTG
1 AATTTAATT-TAAATTATTAATAAATAATAAAAAAATTATGTTTACTTA
225897 AATTT
1 AATTT
225902 TTTATTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (48 bp):
AATTTAATTTAAATTATTAATAAATAATAAAAAAATTATGTTTACTTA
Found at i:227205 original size:2 final size:2
Alignment explanation
Indices: 227200--227243 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
227190 ACACACATAC
227200 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
227242 AT
1 AT
227244 GAATAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:227488 original size:20 final size:20
Alignment explanation
Indices: 227460--227534 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
227450 TCATACCCTG
227460 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
227480 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
227500 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
227520 ATGTATCGATACATT
1 ATGTATCGATACATT
227535 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:227527 original size:40 final size:39
Alignment explanation
Indices: 227460--227537 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
227450 TCATACCCTG
* *
227460 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
227500 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
227538 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:234627 original size:15 final size:17
Alignment explanation
Indices: 234591--234633 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
234581 AAAGTCAAAA
*
234591 GCAAAAGCACAAAAGAT
1 GCAAAAGCAAAAAAGAT
234608 G-AAAAG-AAAAAAG-T
1 GCAAAAGCAAAAAAGAT
234622 GCAAAAGCAAAA
1 GCAAAAGCAAAA
234634 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 9 0.39
17 1 0.04
ACGTcount: A:0.65, C:0.12, G:0.19, T:0.05
Consensus pattern (17 bp):
GCAAAAGCAAAAAAGAT
Found at i:234640 original size:23 final size:23
Alignment explanation
Indices: 234614--234665 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
234604 AGATGAAAAG
*
234614 AAAAAAGTGCAA-AAGC-AAAATA
1 AAAAAAATGCAACAA-CAAAAATA
*
234636 AAAAAAATGGAACAACAAAAATA
1 AAAAAAATGCAACAACAAAAATA
234659 AAAAAAA
1 AAAAAAA
234666 CGAGGACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAAAAATGCAACAACAAAAATA
Found at i:235981 original size:27 final size:27
Alignment explanation
Indices: 235942--237143 Score: 1981
Period size: 27 Copynumber: 44.0 Consensus size: 27
235932 AGTGTGACCT
* *
235942 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
235969 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
235996 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236023 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
236051 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
236078 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
236106 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236133 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236160 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236188 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236215 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
236242 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
236270 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236297 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
236325 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
236352 CTTTTAAGTCCATAACTTCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236379 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236407 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236434 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
236461 CTTTTAAGTCCACAACTCCGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236489 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236516 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
236544 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236571 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236598 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236626 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236653 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236680 CTTTTAAGTCCACAACTCCGGGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236707 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236734 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236762 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236789 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236816 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236843 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
236871 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236898 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236925 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
236952 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
236979 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
237006 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
237033 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
237060 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
237088 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
237115 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
237143 C
1 C
237144 ATTTCAAAGC
Statistics
Matches: 1105, Mismatches: 57, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
27 777 0.70
28 328 0.30
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:236081 original size:82 final size:81
Alignment explanation
Indices: 235942--237143 Score: 1981
Period size: 82 Copynumber: 14.7 Consensus size: 81
235932 AGTGTGACCT
* *
235942 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
236007 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
236023 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
236088 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
236106 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
236171 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
*
236188 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
236253 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCA-CC
236270 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
236335 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
236352 CTTTTAAGTCCATAACTTCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
236417 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* **
236434 CTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
236499 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
236516 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
236581 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
236598 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
236663 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
236680 CTTTTAAGTCCACAACTCCGGGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
236745 ATAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
236762 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
236827 ACAACTCCGCGGCACC
66 ACAACTCCGTGGCACC
*
236843 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
236908 CACAACTCCATGGCACC
65 CACAACTCCGTGGCACC
* *
236925 CTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
236990 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
237006 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
237071 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCA-CC
* * *
237088 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
237144 ATTTCAAAGC
Statistics
Matches: 1051, Mismatches: 59, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
81 292 0.28
82 598 0.57
83 161 0.15
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:236229 original size:109 final size:108
Alignment explanation
Indices: 235942--237143 Score: 1981
Period size: 109 Copynumber: 11.0 Consensus size: 108
235932 AGTGTGACCT
* *
235942 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
236007 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * **
236051 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
236116 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
236160 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
236225 CACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
236270 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
236335 CACAACTCCGTGGCACCCTTTTAAGTCCATAACTTCGCGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
236379 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* **
236444 CACAACTCCGTGACACCCTTTTAAGTCCACAACTCCGTGGCATAT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
236489 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
236554 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
236598 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
236663 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGGGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
236707 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
236772 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
236816 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
236881 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
236925 CTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
236990 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
237033 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* * *
237098 CACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACC
65 CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
237143 C
1 C
237144 ATTTCAAAGC
Statistics
Matches: 1031, Mismatches: 51, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
108 129 0.13
109 596 0.58
110 306 0.30
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (108 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:237181 original size:32 final size:32
Alignment explanation
Indices: 237126--237716 Score: 707
Period size: 32 Copynumber: 18.8 Consensus size: 32
237116 TTTTAAAATC
* *
237126 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
237157 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
237189 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
237221 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
237253 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
237285 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
237317 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
237349 CACAAGTCGGTGTGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTC-----GGTGGCAACCCATTTCAAAGCCCA
237386 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
* *
237418 CACAAGTCGGTGGCAACCCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
237450 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
237482 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
237514 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
237546 CACAAGTCAGTGG-TA-CCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
237574 CACAAGTCAGTGGC-ACTC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
237602 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* ** **
237630 CACGAGTTAGTGGC-ATTC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
237660 CGCAAGTCAGTGGC-ACCC-TTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** * *
237690 TGCAAGTCAATGACAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
237717 TCACCACTGT
Statistics
Matches: 511, Mismatches: 33, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
28 73 0.14
29 5 0.01
30 46 0.09
31 22 0.04
32 329 0.64
33 4 0.01
37 32 0.06
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:238258 original size:20 final size:20
Alignment explanation
Indices: 238230--238304 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
238220 TCATACCCTG
238230 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
238250 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
238270 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
238290 ATGTATCGATACATT
1 ATGTATCGATACATT
238305 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:238297 original size:40 final size:39
Alignment explanation
Indices: 238230--238307 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
238220 TCATACCCTG
* *
238230 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
238270 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
238308 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:244678 original size:3 final size:3
Alignment explanation
Indices: 244670--244701 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
244660 CAGTCCTACA
244670 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
244702 CCAAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:245068 original size:19 final size:19
Alignment explanation
Indices: 245041--245102 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
245031 ATTTAATAAT
245041 AAATATTAATATAATTTTAA
1 AAAT-TTAATATAATTTTAA
* *
245061 AAATTTAATGTTATTTTAA
1 AAATTTAATATAATTTTAA
*
245080 AAA-TTAATATAAATTTTTA
1 AAATTTAATAT-AATTTTAA
245099 AAAT
1 AAAT
245103 AGCCAGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.17
19 25 0.71
20 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTTAATATAATTTTAA
Found at i:245303 original size:5 final size:5
Alignment explanation
Indices: 245290--245319 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
245280 TAAATTTTAA
*
245290 AAATA AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
245320 TTAAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:245313 original size:35 final size:35
Alignment explanation
Indices: 245263--245334 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
245253 AATTTAATTT
* *
245263 TTAATTTATATTAAATTTAAATTTTAAA-AATAAAA
1 TTAAATTAAATTAAA-TTAAATTTTAAATAATAAAA
*
245298 TTAAATTAAATTAAATTAAATTTTAAATATTAAAA
1 TTAAATTAAATTAAATTAAATTTTAAATAATAAAA
245333 TT
1 TT
245335 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 12 0.36
35 21 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
TTAAATTAAATTAAATTAAATTTTAAATAATAAAA
Found at i:246146 original size:10 final size:10
Alignment explanation
Indices: 246119--246186 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
246109 TTTAATCATG
246119 ATTTAAATTA
1 ATTTAAATTA
* *
246129 AATCAAATTA
1 ATTTAAATTA
246139 ATTTAAATT-
1 ATTTAAATTA
* *
246148 ATTAAATATCTT
1 ATTTAA-AT-TA
246160 ATTTAAATTTA
1 ATTTAAA-TTA
*
246171 A-TTAAAATA
1 ATTTAAATTA
246180 ATTTAAA
1 ATTTAAA
246187 CCCAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
9 8 0.18
10 27 0.60
11 4 0.09
12 6 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTTAAATTA
Found at i:246253 original size:2 final size:2
Alignment explanation
Indices: 246246--246270 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
246236 AAAATTCAAT
246246 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
246271 CTTTTGCTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:246515 original size:37 final size:37
Alignment explanation
Indices: 246422--246520 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
246412 TTATTTATCA
** *
246422 AATAATTAAATATTAATTTATGTAAAATTTAATATAT
1 AATAATTAAATATTAATAAATATAAAATTTAATATAT
* **
246459 -ATAATT-TATACAAAGTAAATATAAAATATTAATATAT
1 AATAATTAAATATTAA-TAAATATAAAAT-TTAATATAT
246496 AATAATTAAAT-TTAATAAATATAAA
1 AATAATTAAATATTAATAAATATAAA
246521 TTATATAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
35 5 0.10
36 15 0.31
37 19 0.39
38 8 0.16
39 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (37 bp):
AATAATTAAATATTAATAAATATAAAATTTAATATAT
Found at i:248035 original size:24 final size:24
Alignment explanation
Indices: 247997--248057 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
247987 CAAAAAGAAA
247997 ATTAA-AA-TTAT-TTATAAAAAT
1 ATTAATAATTTATATTATAAAAAT
*
248018 ATTAATAATTTATATTATATAAAT
1 ATTAATAATTTATATTATAAAAAT
*
248042 TTTAATAAATTTATAT
1 ATTAAT-AATTTATAT
248058 ATTCGTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 5 0.15
22 2 0.06
23 4 0.12
24 14 0.41
25 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAATAATTTATATTATAAAAAT
Found at i:248521 original size:14 final size:14
Alignment explanation
Indices: 248504--248554 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
248494 ATTATAATTT
248504 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
248518 TTAAAATATTAATA
1 TTAAAATATAAAAA
*
248532 -TAATAATATATAAA
1 TTAA-AATATAAAAA
*
248546 CTAAAATAT
1 TTAAAATAT
248555 TTTTTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 3 0.10
14 24 0.80
15 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:248769 original size:26 final size:21
Alignment explanation
Indices: 248718--248777 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
248708 TATTTAAAAG
248718 TTAAATTATTTATTAAATAAA
1 TTAAATTATTTATTAAATAAA
*
248739 ATAAATTAATTTACTTAAAGTTAAA
1 TTAAATT-ATTTA-TTAAA--TAAA
248764 TTTAAA-TATTTATT
1 -TTAAATTATTTATT
248778 TTTATATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 6 0.19
22 5 0.16
23 7 0.22
24 5 0.16
25 5 0.16
26 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAAATTATTTATTAAATAAA
Found at i:249688 original size:3 final size:3
Alignment explanation
Indices: 249680--249709 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
249670 TAGAAATATA
249680 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
249710 TTAAGTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:250181 original size:3 final size:3
Alignment explanation
Indices: 250173--250217 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
250163 ATATCAACAC
250173 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
250218 CGACTTGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:252856 original size:15 final size:14
Alignment explanation
Indices: 252808--252859 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
252798 AATTTAATTT
*
252808 AATTA-ATTTATAT
1 AATTATATTTATAA
252821 AATTATTATTTA-AA
1 AATTA-TATTTATAA
*
252835 GATTATATTTAATAA
1 AATTATATTT-ATAA
252850 AATTATATTT
1 AATTATATTT
252860 TATTTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 10 0.31
14 6 0.19
15 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
AATTATATTTATAA
Found at i:252886 original size:17 final size:17
Alignment explanation
Indices: 252864--252931 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 17
252854 ATATTTTATT
252864 TTTATATTATAATTTAA
1 TTTATATTATAATTTAA
*
252881 TTTATAAT-TAA-TTAA
1 TTTATATTATAATTTAA
*
252896 TTTTTATTAATAATTATAA
1 TTTATATT-ATAATT-TAA
* *
252915 TTAATTTATATAATTTA
1 TTTATAT-TATAATTTA
252932 TATAATTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 10 0.25
16 3 0.08
17 10 0.25
18 3 0.08
19 13 0.32
20 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATATTATAATTTAA
Found at i:252918 original size:23 final size:22
Alignment explanation
Indices: 252889--252964 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
252879 AATTTATAAT
252889 TAATTAATTTTTATTAATA-ATTA
1 TAATTAATTTTTA-TAATATA-TA
* *
252912 TAATTAATTTATATAATTTATA
1 TAATTAATTTTTATAATATATA
* *
252934 TAATT-ATTTTTA-AAAATATC
1 TAATTAATTTTTATAATATATA
*
252954 TAATAAATTTT
1 TAATTAATTTT
252965 AATCTTAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 9 0.20
21 11 0.25
22 11 0.25
23 13 0.30
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATTAATTTTTATAATATATA
Found at i:255439 original size:23 final size:23
Alignment explanation
Indices: 255364--255441 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
255354 TGAATTACTG
*
255364 TTTAAATAAT-TTTTTATATTTTT
1 TTTAAATAATATTTTAATA-TTTT
* * **
255387 ATTTAAAT-TTAATTATAATATTAA
1 -TTTAAATAAT-ATTTTAATATTTT
*
255411 TATAAATAATATTTTAATATTTT
1 TTTAAATAATATTTTAATATTTT
255434 TTTAAATA
1 TTTAAATA
255442 GCGAAATAGG
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
23 24 0.60
24 10 0.25
25 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAATAATATTTTAATATTTT
Found at i:256567 original size:15 final size:15
Alignment explanation
Indices: 256543--256581 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
256533 GATTCACTTG
256543 AAAAAA-AAAAAAAA
1 AAAAAAGAAAAAAAA
*
256557 AAAAAAGAAAAGAAA
1 AAAAAAGAAAAAAAA
*
256572 AGAAAAGAAA
1 AAAAAAGAAA
256582 GAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAA
Found at i:256578 original size:5 final size:5
Alignment explanation
Indices: 256542--256589 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 5
256532 TGATTCACTT
256542 GAAAA -AAAA -AAAA -AAAA -AAAA GAAAA GAAAA GAAAA G-AAA G-AAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
256586 GAAA
1 GAAA
256590 GAGGGGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 24 0.59
5 17 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:256730 original size:10 final size:11
Alignment explanation
Indices: 256707--256734 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
256697 TATTTCTCCC
256707 TTTTTATGATT
1 TTTTTATGATT
256718 TTTTTATGATT
1 TTTTTATGATT
256729 TTTTTA
1 TTTTTA
256735 ATAAAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (11 bp):
TTTTTATGATT
Found at i:258513 original size:2 final size:2
Alignment explanation
Indices: 258506--258536 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
258496 ACAGCAAAGC
*
258506 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
258537 AAGAAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:261863 original size:13 final size:13
Alignment explanation
Indices: 261845--261874 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
261835 AAATTTATAT
261845 TAAATATTAATAA
1 TAAATATTAATAA
*
261858 TAAATATTGATAA
1 TAAATATTAATAA
261871 TAAA
1 TAAA
261875 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAATATTAATAA
Found at i:262050 original size:2 final size:2
Alignment explanation
Indices: 262043--262071 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
262033 GCCATGTTTC
262043 AT AT 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 AT AT A
262072 CACCAATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:268405 original size:15 final size:15
Alignment explanation
Indices: 268382--268420 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
268372 AATATCAGAA
*
268382 TTAAATAAAGATCAT
1 TTAAATAAAGATAAT
*
268397 TTAATTAAAGATAAT
1 TTAAATAAAGATAAT
268412 TTAAGATAA
1 TTAA-ATAA
268421 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (15 bp):
TTAAATAAAGATAAT
Found at i:273785 original size:14 final size:15
Alignment explanation
Indices: 273761--273793 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
273751 TTTAATTTTT
*
273761 TATTAAATATATAAA
1 TATTAAATATAAAAA
273776 TATT-AATATAAAAA
1 TATTAAATATAAAAA
273790 TATT
1 TATT
273794 TTTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATTAAATATAAAAA
Found at i:274186 original size:13 final size:12
Alignment explanation
Indices: 274144--274193 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 12
274134 TAATAATAAA
274144 TATAATAAATAT
1 TATAATAAATAT
* *
274156 TATTATAATTAAT
1 TATAATAAAT-AT
274169 TATAATAAATAT
1 TATAATAAATAT
274181 TGATAATAAATAT
1 T-ATAATAAATAT
274194 CGATAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TATAATAAATAT
Found at i:274198 original size:13 final size:13
Alignment explanation
Indices: 274170--274199 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
274160 ATAATTAATT
*
274170 ATAATAAATATTG
1 ATAATAAATATCG
274183 ATAATAAATATCG
1 ATAATAAATATCG
274196 ATAA
1 ATAA
274200 AGAAGAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
ATAATAAATATCG
Found at i:275757 original size:17 final size:19
Alignment explanation
Indices: 275727--275761 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
275717 AATTTTTAAT
275727 ATTTTTAATAATTTATATC
1 ATTTTTAATAATTTATATC
275746 ATTTTT-AT-ATTTATAT
1 ATTTTTAATAATTTATAT
275762 AATTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTAATAATTTATATC
Found at i:276061 original size:13 final size:14
Alignment explanation
Indices: 276043--276071 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
276033 AGGGGCAGAA
276043 CTTAATTATT-CCT
1 CTTAATTATTACCT
276056 CTTAATTATTACCT
1 CTTAATTATTACCT
276070 CT
1 CT
276072 AAGTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTAATTATTACCT
Found at i:279214 original size:1 final size:1
Alignment explanation
Indices: 279208--279263 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
279198 AAATCTTCAC
* * ** * *
279208 TTTTTTTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTTGTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
279264 CCAATTGCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:279248 original size:28 final size:29
Alignment explanation
Indices: 279209--279265 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
279199 AATCTTCACT
279209 TTTTTTTTTGTTTT-TTTTTTCTTTTTCC
1 TTTTTTTTTGTTTTGTTTTTTCTTTTTCC
*
279237 TTTTTTTTTGTTTTGTTTTTTTTTTTTCC
1 TTTTTTTTTGTTTTGTTTTTTCTTTTTCC
279266 AATTGCCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (29 bp):
TTTTTTTTTGTTTTGTTTTTTCTTTTTCC
Found at i:287965 original size:2 final size:2
Alignment explanation
Indices: 287958--287995 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
287948 TTAAAACAAT
* *
287958 TA TA TA TA TA TA TA TA TA TA TA TA T- TA CA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
287996 TTGACTTAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:290452 original size:17 final size:16
Alignment explanation
Indices: 290430--290476 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
290420 ATCATAAAAT
*
290430 TTTAATTTTTTTAGGGA
1 TTTAATTTTTTTA-GCA
290447 TTTAATATTTTTTAGCA
1 TTTAAT-TTTTTTAGCA
290464 TTTAATTTTTTTA
1 TTTAATTTTTTTA
290477 TTTCATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.25
17 14 0.50
18 7 0.25
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (16 bp):
TTTAATTTTTTTAGCA
Found at i:291003 original size:13 final size:14
Alignment explanation
Indices: 290974--291007 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
290964 TTAAAATTTA
290974 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
290988 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
291001 TTAATAA
1 TTAATAA
291008 AATTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:291363 original size:18 final size:19
Alignment explanation
Indices: 291337--291380 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
291327 TATATTTGTG
*
291337 TTAAAAATTTTAA-AATAT
1 TTAAAAATTATAATAATAT
* *
291355 TTAATAATTATAATTATAT
1 TTAAAAATTATAATAATAT
291374 TTAAAAA
1 TTAAAAA
291381 ATTAACGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAAAATTATAATAATAT
Found at i:293158 original size:2 final size:2
Alignment explanation
Indices: 293151--293177 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
293141 TCGGATTAAT
293151 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
293178 GGTCTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:293364 original size:19 final size:21
Alignment explanation
Indices: 293340--293389 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
293330 TTTTAAATAA
*
293340 AAATAAT-TTTTAA-TTATTT
1 AAATAATATTTAAACTTATTT
293359 AAATAATAGTTTAAACTTATTT
1 AAATAATA-TTTAAACTTATTT
*
293381 AAATTATAT
1 AAATAATAT
293390 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
21 6 0.23
22 13 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATAATATTTAAACTTATTT
Found at i:293365 original size:39 final size:40
Alignment explanation
Indices: 293275--293366 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 40
293265 AAGTCATATC
293275 ATTATTTAAAGTAA-AATTATAAAGTAAAAAAATTTTTATA
1 ATTATTTAAA-TAATAATTATAAAGTAAAAAAATTTTTATA
* *
293315 AATATTT--ATAATTAATTTTAAA-TAAAAATAA-TTTT-TA
1 ATTATTTAAATAA-TAATTATAAAGTAAAAA-AATTTTTATA
293352 ATTATTTAAATAATA
1 ATTATTTAAATAATA
293367 GTTTAAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
37 11 0.25
38 13 0.30
39 14 0.32
40 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (40 bp):
ATTATTTAAATAATAATTATAAAGTAAAAAAATTTTTATA
Found at i:293372 original size:37 final size:39
Alignment explanation
Indices: 293275--293373 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 39
293265 AAGTCATATC
*
293275 ATTATTTAAAGTAAAATTATAAAGTAAAAAAATTTTTATA
1 ATTATTTAAAGTAATATT-TAAAGTAAAAAAATTTTTATA
* *
293315 AATATTTATAATTAAT-TTTAAA-TAAAAATAA-TTTT-TA
1 ATTATTTA-AAGTAATATTTAAAGTAAAAA-AATTTTTATA
293352 ATTATTTAAA-TAATAGTTTAAA
1 ATTATTTAAAGTAATA-TTTAAA
293374 CTTATTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
35 4 0.08
36 2 0.04
37 15 0.29
38 10 0.20
39 6 0.12
40 9 0.18
41 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (39 bp):
ATTATTTAAAGTAATATTTAAAGTAAAAAAATTTTTATA
Found at i:298928 original size:6 final size:6
Alignment explanation
Indices: 298898--298952 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
298888 TACCATAATG
* * *
298898 TTATAT TT-TAT TTATGT TCATAT TTATAT TTGTAT TTATATT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATA-T TTATAT
298946 TTATAT T
1 TTATAT T
298953 AATTAATCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 5 0.12
6 30 0.73
7 6 0.15
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (6 bp):
TTATAT
Found at i:298949 original size:25 final size:23
Alignment explanation
Indices: 298898--298952 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
298888 TACCATAATG
298898 TTATATTTTATTTATGTTCATAT
1 TTATATTTTATTTATGTTCATAT
* *
298921 TTATATTTGTATTTATATTTTATAT
1 TTATATTT-TATTTAT-GTTCATAT
298946 TTATATT
1 TTATATT
298953 AATTAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 8 0.29
24 7 0.25
25 13 0.46
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTATATTTTATTTATGTTCATAT
Found at i:299775 original size:4 final size:4
Alignment explanation
Indices: 299766--299800 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
299756 TTTCAATTTG
299766 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
299801 TATATAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:299964 original size:18 final size:18
Alignment explanation
Indices: 299941--299994 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
299931 TGATATAAAT
299941 AAAATAAATATAATATAA
1 AAAATAAATATAATATAA
*
299959 AAAAT-AATACGAATATAA
1 AAAATAAATA-TAATATAA
*
299977 AAATATAAAAATAA-ATAA
1 AAA-ATAAATATAATATAA
299995 TATAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 19 0.63
19 4 0.13
20 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATAAATATAATATAA
Found at i:299967 original size:17 final size:17
Alignment explanation
Indices: 299933--299984 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
299923 TCGAAACATG
*
299933 ATATAA-ATAAAATA-A
1 ATATAATATAAAAAATA
299948 ATATAATATAAAAAATA
1 ATATAATATAAAAAATA
*
299965 ATACGAATATAAAAATATA
1 ATA-TAATATAAAAA-ATA
299984 A
1 A
299985 AAATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.19
16 7 0.23
17 4 0.13
18 10 0.32
19 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
ATATAATATAAAAAATA
Found at i:301151 original size:21 final size:21
Alignment explanation
Indices: 301104--301151 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
301094 AATATTTTAA
* *
301104 AAATATTTTATATTAATATTT
1 AAATAATTTATATTAATAATT
*
301125 ATATAATTTATAATTAA-AATT
1 AAATAATTTAT-ATTAATAATT
301146 AAATAA
1 AAATAA
301152 AAATATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATAATTTATATTAATAATT
Found at i:301529 original size:18 final size:18
Alignment explanation
Indices: 301506--301562 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
301496 TCTTGGGGAC
301506 TAGAAAAAGACTATGGAA
1 TAGAAAAAGACTATGGAA
** *
301524 TAGAAATGGA--A-AGAA
1 TAGAAAAAGACTATGGAA
*
301539 AAGAAAAAGACTATGGAA
1 TAGAAAAAGACTATGGAA
301557 TAGAAA
1 TAGAAA
301563 TGGAAAGAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 10 0.36
16 1 0.04
17 1 0.04
18 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.23, T:0.14
Consensus pattern (18 bp):
TAGAAAAAGACTATGGAA
Found at i:301549 original size:33 final size:33
Alignment explanation
Indices: 301507--301577 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
301497 CTTGGGGACT
301507 AGAAAAAGACTATGGAATAGAAATGGAAAGAAA
1 AGAAAAAGACTATGGAATAGAAATGGAAAGAAA
301540 AGAAAAAGACTATGGAATAGAAATGGAAAGAAA
1 AGAAAAAGACTATGGAATAGAAATGGAAAGAAA
301573 A-AAAA
1 AGAAAA
301578 TCAATTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.11
33 34 0.89
ACGTcount: A:0.63, C:0.03, G:0.23, T:0.11
Consensus pattern (33 bp):
AGAAAAAGACTATGGAATAGAAATGGAAAGAAA
Found at i:301698 original size:11 final size:11
Alignment explanation
Indices: 301663--301725 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 11
301653 AACACAACAA
*
301663 AATTAAGAATTT
1 AATTAA-AATAT
301675 AATATAAAA-AT
1 AAT-TAAAATAT
301686 AATTAAAATAT
1 AATTAAAATAT
301697 AA-TAAAATAT
1 AATTAAAATAT
*
301707 AA-AAATAATAT
1 AATTAA-AATAT
301718 -ATTAAAAT
1 AATTAAAAT
301726 TTATATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 21 0.48
11 15 0.34
12 5 0.11
13 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATTAAAATAT
Found at i:302917 original size:15 final size:17
Alignment explanation
Indices: 302899--302932 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
302889 ATATTATAAA
302899 ATATAATT-TT-AATAT
1 ATATAATTCTTCAATAT
302914 ATATAATTCTTCAATAT
1 ATATAATTCTTCAATAT
302931 AT
1 AT
302933 TTATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAATTCTTCAATAT
Found at i:303191 original size:41 final size:43
Alignment explanation
Indices: 303103--303194 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 43
303093 AAAAGAAATC
* * * *
303103 GAATTTTATTTTTTAAAATATTACTTAATAAATTTGATATTTA
1 GAATTTTAATTTTTAAAATAATACTTAATAAATTTAATATGTA
*
303146 -AATTTTAATTTTT-AAATAATATTTAATAAATTTAATA-GTA
1 GAATTTTAATTTTTAAAATAATACTTAATAAATTTAATATGTA
303186 GAATTTTAA
1 GAATTTTAA
303195 AAATGGTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 2 0.05
41 29 0.67
42 12 0.28
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (43 bp):
GAATTTTAATTTTTAAAATAATACTTAATAAATTTAATATGTA
Found at i:304423 original size:25 final size:25
Alignment explanation
Indices: 304377--304424 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
304367 GAATCACGAT
*
304377 TTAATATTAAATAATTATTTTTATA
1 TTAATATTAAATAATTAATTTTATA
*
304402 TTAATATT-TATAATTAAATTTTA
1 TTAATATTAAATAATT-AATTTTA
304425 AAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATATTAAATAATTAATTTTATA
Found at i:304645 original size:16 final size:16
Alignment explanation
Indices: 304624--304659 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
304614 CTTATCTAGT
304624 TTATGAGTAAATTTAG
1 TTATGAGTAAATTTAG
* *
304640 TTATGATTAAATTTAT
1 TTATGAGTAAATTTAG
304656 TTAT
1 TTAT
304660 CGACTAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TTATGAGTAAATTTAG
Found at i:305544 original size:22 final size:22
Alignment explanation
Indices: 305518--305581 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
305508 AAAAAATTAA
305518 TTTTATATTAATATTAATATAT
1 TTTTATATTAATATTAATATAT
305540 TTTTATAATTAA-ATTTAAATAATAT
1 TTTTAT-ATTAATA-TT-AAT-ATAT
*
305565 TATTATA-TAAT-TTAATA
1 TTTTATATTAATATTAATA
305582 AATAGTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 9 0.25
23 10 0.28
24 4 0.11
25 9 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTATATTAATATTAATATAT
Found at i:305816 original size:57 final size:58
Alignment explanation
Indices: 305723--305831 Score: 132
Period size: 59 Copynumber: 1.9 Consensus size: 58
305713 TTTTATAATT
* * * * *
305723 AAATTTAAATAAAAATTTTTATTATTAAATAATAATTTAAATCAAGTTAAATTAATTTA
1 AAATTAAAATAAAAAATTATATTATAAAATAATAATTTAAAT-AAATTAAATTAATTTA
* *
305782 AAATTAAAATAAAAAATTATATT-TAAAAT-CTAATTTATATAAATTAAATT
1 AAATTAAAATAAAAAATTATATTATAAAATAATAATTTAAATAAATTAAATT
305832 TACCAGATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
56 9 0.21
57 9 0.21
58 5 0.12
59 20 0.47
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTAAAATAAAAAATTATATTATAAAATAATAATTTAAATAAATTAAATTAATTTA
Found at i:306761 original size:38 final size:35
Alignment explanation
Indices: 306719--306796 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
306709 TATAATATTG
*
306719 AATTAAATATGATAATGGTTATATTTTTAAAAAATTA
1 AATTAAATAT-ATAATAGTTATATTTTT-AAAAATTA
* * *
306756 TAATT-AATATATAATATTTTTATTTTTTAAAATTA
1 -AATTAAATATATAATAGTTATATTTTTAAAAATTA
306791 AATTAA
1 AATTAA
306797 TTTAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.11
35 8 0.23
36 14 0.40
37 5 0.14
38 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (35 bp):
AATTAAATATATAATAGTTATATTTTTAAAAATTA
Found at i:307307 original size:14 final size:14
Alignment explanation
Indices: 307281--307323 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
307271 TTTATTAATT
307281 TTAATATTTTTATTA
1 TTAATA-TTTTATTA
*
307296 TTAATATTTTATAA
1 TTAATATTTTATTA
307310 TTAATA-TTTATTA
1 TTAATATTTTATTA
307323 T
1 T
307324 ATTTATAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAATATTTTATTA
Found at i:307339 original size:21 final size:24
Alignment explanation
Indices: 307259--307340 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 24
307249 TAACATAATA
*
307259 TTATAATTATTATTTATTAAT-TT
1 TTATAATTAATATTTATTAATATT
* **
307282 TAAT-ATTTTTA-TTATTAATATT
1 TTATAATTAATATTTATTAATATT
307304 TTATAATTAATATTTATT-ATA-T
1 TTATAATTAATATTTATTAATATT
*
307326 TTATAA-TCATATTTA
1 TTATAATTAATATTTA
307341 CAGCATTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 16 0.32
22 18 0.36
23 11 0.22
24 5 0.10
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATAATTAATATTTATTAATATT
Found at i:311577 original size:32 final size:32
Alignment explanation
Indices: 311541--311639 Score: 146
Period size: 32 Copynumber: 3.1 Consensus size: 32
311531 GTAGTTTATA
* *
311541 TTTATATAAATTTTGATACATTAATAATTCGT
1 TTTATATAAATTTTAATACATTAATAATTCAT
311573 TTTATATAAATTTTAATACATTAATAATTCAT
1 TTTATATAAATTTTAATACATTAATAATTCAT
*
311605 TTTATATAAATTTTAATATACTT-ATATATTCAT
1 TTTATATAAATTTTAATACA-TTAATA-ATTCAT
311638 TT
1 TT
311640 ATGTTATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 52 0.84
33 10 0.16
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (32 bp):
TTTATATAAATTTTAATACATTAATAATTCAT
Found at i:312532 original size:38 final size:38
Alignment explanation
Indices: 312490--312566 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
312480 TGTTATCATC
312490 TATCTCGCTAATAAAGATTTTGTGAACAAATCATGAAT
1 TATCTCGCTAATAAAGATTTTGTGAACAAATCATGAAT
*
312528 TATCTCGCTGATAAAGATTTTGTGAACAAATCATGAAT
1 TATCTCGCTAATAAAGATTTTGTGAACAAATCATGAAT
312566 T
1 T
312567 TTCACTCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (38 bp):
TATCTCGCTAATAAAGATTTTGTGAACAAATCATGAAT
Found at i:315245 original size:21 final size:21
Alignment explanation
Indices: 315219--315262 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
315209 AATAATATTT
* *
315219 ATAATAAAATTAATTATTATA
1 ATAATAAAATTAAATATGATA
315240 ATAATAAAATTAAATATGATA
1 ATAATAAAATTAAATATGATA
315261 AT
1 AT
315263 GGTTAGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAATAAAATTAAATATGATA
Done.