Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002637.1 Hibiscus syriacus cultivar Beakdansim tig00005377_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: 3156206
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:1626 original size:20 final size:20
Alignment explanation
Indices: 1589--1631 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1579 TGTATTGGGC
* *
1589 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
* *
1609 TATTTTCTATGGTATATGTT
1 TATTGTCTATGGTATATGGT
1629 TAT
1 TAT
1632 GGAATAATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:2231 original size:6 final size:6
Alignment explanation
Indices: 2215--2283 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
2205 GTTTATGTAT
* * * *
2215 TGTTCAC TGTTAC TGTTAAC GGATAC TGTTTAC TGTTAC TGTTCAC GGATAC
1 TGTT-AC TGTTAC TGTT-AC TGTTAC TG-TTAC TGTTAC TGTT-AC TGTTAC
2267 TGTTTAC TGTTAC TGTT
1 TG-TTAC TGTTAC TGTT
2284 CACGGGTACT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
6 28 0.56
7 22 0.44
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (6 bp):
TGTTAC
Found at i:2241 original size:13 final size:13
Alignment explanation
Indices: 2215--2299 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
2205 GTTTATGTAT
* *
2215 TGTTCACTGTTAC
1 TGTTCACGGATAC
*
2228 TGTTAACGGATAC
1 TGTTCACGGATAC
* * *
2241 TGTTTACTGTTAC
1 TGTTCACGGATAC
2254 TGTTCACGGATAC
1 TGTTCACGGATAC
* * *
2267 TGTTTACTGTTAC
1 TGTTCACGGATAC
*
2280 TGTTCACGGGTAC
1 TGTTCACGGATAC
2293 TGTTCAC
1 TGTTCAC
2300 TATTCATAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (13 bp):
TGTTCACGGATAC
Found at i:2249 original size:26 final size:26
Alignment explanation
Indices: 2215--2296 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
2205 GTTTATGTAT
* *
2215 TGTTCACTGTTACTGTTAACGGATAC
1 TGTTTACTGTTACTGTTCACGGATAC
2241 TGTTTACTGTTACTGTTCACGGATAC
1 TGTTTACTGTTACTGTTCACGGATAC
*
2267 TGTTTACTGTTACTGTTCACGGGTAC
1 TGTTTACTGTTACTGTTCACGGATAC
2293 TGTT
1 TGTT
2297 CACTATTCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (26 bp):
TGTTTACTGTTACTGTTCACGGATAC
Found at i:2268 original size:39 final size:38
Alignment explanation
Indices: 2202--2299 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 38
2192 TCGATTCCCC
* * *
2202 ACTGTTTA-TGTATTGTTCACTGTTACTGTTAACGGAT
1 ACTGTTTACTGTACTGTTCACGGATACTGTTAACGGAT
* * *
2239 ACTGTTTACTGTTACTGTTCACGGATACTGTTTACTGTT
1 ACTGTTTACTG-TACTGTTCACGGATACTGTTAACGGAT
* *
2278 ACTGTTCACGGGTACTGTTCAC
1 ACTGTTTAC-TGTACTGTTCAC
2300 TATTCATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 8 0.16
38 2 0.04
39 39 0.78
40 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.43
Consensus pattern (38 bp):
ACTGTTTACTGTACTGTTCACGGATACTGTTAACGGAT
Found at i:4557 original size:30 final size:31
Alignment explanation
Indices: 4521--4578 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4511 AGTTGTATGG
* *
4521 ATTATTTAAAT-TTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
4551 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
4579 TTTTTAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:4627 original size:16 final size:15
Alignment explanation
Indices: 4596--4638 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 15
4586 GATTAAAAAA
4596 TTAGTTTA-TTTATT
1 TTAGTTTATTTTATT
4610 TTAGTTTATTTATATT
1 TTAGTTTATTT-TATT
4626 TTAGTTTATTTTA
1 TTAGTTTATTTTA
4639 GCAGTCTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 15 0.56
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTAGTTTATTTTATT
Found at i:9736 original size:22 final size:21
Alignment explanation
Indices: 9678--9748 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 21
9668 ATGCAAAATT
*
9678 GTATCGGTACCATA--ATAGA
1 GTATCGATACCATAGTATAGA
*
9697 GTATCGATACCCTAGTATAGTA
1 GTATCGATACCATAGTATAG-A
*
9719 GTATCGATACCATGGTAT-GA
1 GTATCGATACCATAGTATAGA
*
9739 GCATCGATAC
1 GTATCGATAC
9749 TAATGAGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.27
20 10 0.23
21 5 0.11
22 17 0.39
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (21 bp):
GTATCGATACCATAGTATAGA
Found at i:10136 original size:54 final size:54
Alignment explanation
Indices: 10073--10403 Score: 491
Period size: 54 Copynumber: 6.1 Consensus size: 54
10063 TTACCAAATA
*
10073 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
10127 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* ** *
10181 GGTACTAAGTGTGCAAATCACATAATTCATCATATGTTAATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * **
10235 GGCACTAAGTGTGCAAACCACGAAATTCATCATATGTTGATGAATAATTGTTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
** * * * *
10289 GATACTAAGTGTGCAATTCACGAAATTCATCATATGTTAATGAATAACCGTTTT
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * **
10343 GGTACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACAATTTC
1 GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
10397 GGCACTA
1 GGCACTA
10404 TGTACAAACC
Statistics
Matches: 248, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 248 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:16046 original size:2 final size:2
Alignment explanation
Indices: 16039--16102 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
16029 AAGACTATTT
16039 TA TA TA TA 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 TA TA TA TA
16081 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
16103 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18487 original size:22 final size:23
Alignment explanation
Indices: 18457--18507 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
18447 GAGTAAGTGG
*
18457 AATATTTAAAAATA-TTA-TTTAA
1 AATAATTAAAAA-ACTTATTTTAA
18479 AATAATTAAAAAACTTATTTTAA
1 AATAATTAAAAAACTTATTTTAA
18502 AGATAA
1 A-ATAA
18508 AAAAAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 14 0.56
23 6 0.24
24 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATAATTAAAAAACTTATTTTAA
Found at i:19928 original size:224 final size:223
Alignment explanation
Indices: 19532--19975 Score: 757
Period size: 224 Copynumber: 2.0 Consensus size: 223
19522 GTAAATTATC
* *
19532 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
**
19597 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
19662 TGTGTAAATGAAATTATTAAATTAATATTGTAGTTGGAAAACATGAAACACTATTAAAAAAAATT
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
19727 GAAACATAAA-TACATAACTTTCAAAAAGTA
194 GAAACATAAATTACATAACTTT-AAAAAGTA
*
19757 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTACTTTAGT
*
19821 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
* *
19886 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
19951 AAACATAAATTACATAACTTTAAAA
195 AAACATAAATTACATAACTTTAAAA
19976 GCAGTTATAA
Statistics
Matches: 208, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
223 22 0.11
224 131 0.63
225 36 0.17
226 19 0.09
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (223 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAGTA
Found at i:20064 original size:20 final size:19
Alignment explanation
Indices: 20041--20086 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
20031 CGATATACCA
20041 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
20061 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
20081 GGTAAA
1 GGTAAA
20087 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:20231 original size:20 final size:19
Alignment explanation
Indices: 20208--20254 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
20198 CGATATAACA
20208 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
20228 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
20248 GGTAAAA
1 GGTAAAA
20255 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:20256 original size:17 final size:19
Alignment explanation
Indices: 20217--20259 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
20207 AGGTAAAAAT
20217 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
20237 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
20254 ATGATA
1 ATGATA
20260 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:22528 original size:21 final size:21
Alignment explanation
Indices: 22481--22545 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
22471 AAGACAATCA
* *
22481 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
22503 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
22523 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
22544 AG
1 AG
22546 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:22621 original size:33 final size:33
Alignment explanation
Indices: 22579--22644 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
22569 AAATAGATGG
*
22579 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
22612 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
22645 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:24460 original size:19 final size:19
Alignment explanation
Indices: 24436--24484 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
24426 AATGTAGGGT
24436 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
24455 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
24474 T-ATTTTCGTAT
1 TAATTTT-GTAT
24485 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:25180 original size:197 final size:197
Alignment explanation
Indices: 24609--25885 Score: 2457
Period size: 197 Copynumber: 6.5 Consensus size: 197
24599 GGCCAAAAGG
*
24609 ATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
24674 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
24739 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
24804 AAT
195 AAT
24807 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTTATGTGAGAATATGTCTAAATAAT
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGTGAGAATATGTCTAAATAAT
24872 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
65 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
*
24937 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
25002 AAT
195 AAT
25005 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25070 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
25135 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
25200 AT
196 AT
*
25202 ATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
25267 TGTCGATACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
*
25332 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
25397 AT
196 AT
25399 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25464 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
25529 TAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
25593 AT
196 AT
25595 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
25660 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
25725 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
25790 AT
196 AT
*
25792 ATGTAATTTTTCAATCTAAACGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25857 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
25886 CTAATTTAAA
Statistics
Matches: 1065, Mismatches: 12, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
196 194 0.18
197 640 0.60
198 174 0.16
199 57 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:25826 original size:393 final size:394
Alignment explanation
Indices: 24609--25885 Score: 2466
Period size: 393 Copynumber: 3.2 Consensus size: 394
24599 GGCCAAAAGG
*
24609 ATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
24674 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
24739 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
24804 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTTATGTGAGAATATGTCTAAAT
195 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGTGAGAATATGTCTAAAT
24869 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGC
259 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGC
24934 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAA
324 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAA
24999 TGTAAT
389 TGTAAT
25005 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25070 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
25135 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
*
25200 ATATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
196 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
*
25265 TGTGTCGATACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
261 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
25330 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATG
326 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATG
25395 TAAT
391 TAAT
25399 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25464 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
25529 TAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
25593 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
196 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
*
25658 TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCAC
261 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
*
25723 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
326 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATG
25788 TAAT
391 TAAT
*
25792 ATGTAATTTTTCAATCTAAACGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
25857 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
25886 CTAATTTAAA
Statistics
Matches: 872, Mismatches: 9, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
393 333 0.38
394 308 0.35
395 138 0.16
396 93 0.11
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (394 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATG
TAAT
Found at i:27366 original size:18 final size:18
Alignment explanation
Indices: 27345--27406 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
27335 AGCGGTCGCA
27345 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
27363 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
27381 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
27399 GAAGATGA
1 GAAGATGA
27407 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:27369 original size:6 final size:6
Alignment explanation
Indices: 27345--27430 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
27335 AGCGGTCGCA
* * * * * *
27345 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
27393 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
27431 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:27380 original size:3 final size:3
Alignment explanation
Indices: 27360--27434 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
27350 TGAAGCTGAC
* * * * * ** *
27360 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
27408 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
27435 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:27399 original size:36 final size:36
Alignment explanation
Indices: 27348--27426 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
27338 GGTCGCAGAA
*
27348 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
27384 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
27420 GATGAAG
1 GATGAAG
27427 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:27434 original size:12 final size:12
Alignment explanation
Indices: 27348--27430 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
27338 GGTCGCAGAA
*
27348 GATGAAGCTGAC
1 GATGAAGATGAC
27360 GATGAAGATGAC
1 GATGAAGATGAC
*
27372 GATGATGATGAC
1 GATGAAGATGAC
* *
27384 GATGAAGCTGGC
1 GATGAAGATGAC
*
27396 GATGAAGATGAT
1 GATGAAGATGAC
* * *
27408 GACGATGATGAT
1 GATGAAGATGAC
27420 GATGAAGATGA
1 GATGAAGATGA
27431 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:29212 original size:183 final size:183
Alignment explanation
Indices: 28904--29530 Score: 1128
Period size: 183 Copynumber: 3.4 Consensus size: 183
28894 CTTTCAACAT
** * * * * * *
28904 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
28969 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
29034 AATGTGTCGATACGATTTAAAAAAGTGTCGACTTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
29087 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
29152 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
29217 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
29270 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
29335 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
29400 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* * * *
29453 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
29518 TGTCTACAACCTA
66 GGTCTACAACCTA
29531 AAATGTGTCG
Statistics
Matches: 430, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 430 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:32071 original size:28 final size:23
Alignment explanation
Indices: 32015--32068 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
32005 TAACTACAAG
*
32015 TATATAATGTAATAGGTATCGTT
1 TATATAATGTAATAGGTAACGTT
*
32038 TATATAATGTAATAGGTAACGCT
1 TATATAATGTAATAGGTAACGTT
32061 TATATAAT
1 TATATAAT
32069 ATATTGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (23 bp):
TATATAATGTAATAGGTAACGTT
Found at i:32520 original size:18 final size:18
Alignment explanation
Indices: 32499--32535 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32489 GTAATTGGAG
32499 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
32517 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
32535 T
1 T
32536 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:32543 original size:24 final size:24
Alignment explanation
Indices: 32491--32537 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
32481 TTTCATATGT
* *
32491 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
32515 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
32538 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:32835 original size:39 final size:39
Alignment explanation
Indices: 32792--32878 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
32782 TCCGATGCTC
*
32792 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
32831 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
32870 ATCAAAATC
1 ATCAAAATC
32879 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:33330 original size:23 final size:23
Alignment explanation
Indices: 33299--33371 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
33289 ATAGGTAAAA
*
33299 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
33322 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
33345 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
33368 ATAT
1 ATAT
33372 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:33764 original size:23 final size:23
Alignment explanation
Indices: 33733--33805 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
33723 ATAGGTAAAA
*
33733 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
33756 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
33779 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
33802 ATAT
1 ATAT
33806 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:33895 original size:434 final size:432
Alignment explanation
Indices: 33088--34147 Score: 2027
Period size: 434 Copynumber: 2.5 Consensus size: 432
33078 TTATCTTTGG
33088 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
33153 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
*
33218 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTTC
131 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
33283 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
196 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
*
33348 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATGAAAGTGTCCATACTTTT
261 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
33413 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAA
326 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAA
33478 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
391 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
33520 TTTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTT
1 -TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTT
33585 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
65 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
33650 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
129 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
33715 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
194 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
33780 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTT
259 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTT
*
33845 TTTTCACTGTTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
324 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
33910 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
389 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
* *
33954 TT-A--TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
*
34016 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTCAAAAAATT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
34081 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
131 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
34146 AA
196 AA
34148 CATATTATAA
Statistics
Matches: 620, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
429 75 0.12
430 113 0.18
432 1 0.00
433 123 0.20
434 308 0.50
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (432 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAA
TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:34643 original size:20 final size:20
Alignment explanation
Indices: 34618--34662 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34608 TGGTTCACTG
34618 AATATAAGATTACCAGTGGA
1 AATATAAGATTACCAGTGGA
* *
34638 AATATAAGATTACTAGTGGG
1 AATATAAGATTACCAGTGGA
34658 AATAT
1 AATAT
34663 GATTACCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (20 bp):
AATATAAGATTACCAGTGGA
Found at i:34668 original size:18 final size:19
Alignment explanation
Indices: 34618--34669 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
34608 TGGTTCACTG
34618 AATATAAGATTACCAGTGGA
1 AATAT-AGATTACCAGTGGA
* *
34638 AATATAAGATTACTAGTGGG
1 AATAT-AGATTACCAGTGGA
34658 AATAT-GATTACC
1 AATATAGATTACC
34670 GAAATGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
20 23 0.79
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (19 bp):
AATATAGATTACCAGTGGA
Found at i:34854 original size:15 final size:15
Alignment explanation
Indices: 34836--34869 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34826 GTGAAATTTT
34836 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
34851 AATTATTTATATAAA
1 AATTATTTAAATAAA
34866 AATT
1 AATT
34870 TATCGACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:34949 original size:20 final size:22
Alignment explanation
Indices: 34912--34956 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
34902 ATTCATCTAT
*
34912 AATATATTATTTTATTA-TTTA
1 AATATATTATTGTATTATTTTA
34933 AATATATTA-TGTATTATTTTA
1 AATATATTATTGTATTATTTTA
34954 AAT
1 AAT
34957 TTAATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AATATATTATTGTATTATTTTA
Found at i:34967 original size:28 final size:28
Alignment explanation
Indices: 34916--34969 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
34906 ATCTATAATA
*
34916 TATTATTTTATTATTTAAATATATTATG
1 TATTATTTTATAATTTAAATATATTATG
*
34944 TATTATTTTA-AATTTAATTAATATTA
1 TATTATTTTATAATTTAAAT-ATATTA
34970 AATTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TATTATTTTATAATTTAAATATATTATG
Found at i:39124 original size:42 final size:41
Alignment explanation
Indices: 39023--39311 Score: 283
Period size: 42 Copynumber: 6.8 Consensus size: 41
39013 GAGAATAAAA
* *
39023 AACGCCGCAATAGGTCAAGATCTATAGCGGC-TCTTTTGGAACC
1 AACGTCGCAATAGGTC-AGATCTATAGCGGCGT-TTTTAGAA-C
39066 AACGTCGCAATAGGTCGAGATCTATAGCGGCGTTTTTAGAAC
1 AACGTCGCAATAGGTC-AGATCTATAGCGGCGTTTTTAGAAC
*
39108 AACGTCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
1 AACGTCGCAATAGGTC-AGATCTATAGCGGCGTTTTTAGAAC
* * * * *
39150 AACGTCGCAATAGGTTGAGATCTATAGCAGCATTTTTGGAATA
1 AACGTCGCAATAGG-TCAGATCTATAGCGGCGTTTTTAGAA-C
* * * ****
39193 AAAGCCGCAAAAGGTCAGATCTATAGTTTTGTTTTTAGAAC
1 AACGTCGCAATAGGTCAGATCTATAGCGGCGTTTTTAGAAC
* * * *
39234 AAACGCCGTAAAAGGTCAGATCTATAACGGCGTTTTTTAGAAC
1 -AACGTCGCAATAGGTCAGATCTATAGCGGCG-TTTTTAGAAC
* *
39277 AAACATCACAAATAGGTCAGATCTATAGCGGCGTT
1 -AACGTCGC-AATAGGTCAGATCTATAGCGGCGTT
39312 AATTACCTTT
Statistics
Matches: 208, Mismatches: 32, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
42 121 0.58
43 65 0.31
44 22 0.11
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (41 bp):
AACGTCGCAATAGGTCAGATCTATAGCGGCGTTTTTAGAAC
Found at i:39227 original size:84 final size:84
Alignment explanation
Indices: 39019--39311 Score: 263
Period size: 85 Copynumber: 3.4 Consensus size: 84
39009 GTTTGAGAAT
* *
39019 AAAAAACGCCGCAATAGGTCAAGATCTATAGCGGC-TCTTTTGGAACCAACGTCGCAATAGGTCG
1 AAAAAA-GCCGCAAAAGGTCGAGATCTATAGCGGCGT-TTTTGGAA-CAACGTCGCAATAGGTCG
* *
39083 AGATCTATAGCGGCGTTTTTAG
63 AGATCTATAGCAGCATTTTTAG
* * * * *
39105 AACAACGTCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAACAACGTCGCAATAGGTTGAGA
1 AAAAAAGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAACGTCGCAATAGGTCGAGA
*
39170 TCTATAGCAGCATTTTTGG
66 TCTATAGCAGCATTTTTAG
**** * * * *
39189 AATAAAAGCCGCAAAAGGTC-AGATCTATAGTTTTGTTTTTAGAACAAACGCCGTAAAAGGTC-A
1 AA-AAAAGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC-AACGTCGCAATAGGTCGA
* * *
39252 GATCTATAACGGCGTTTTTTAG
64 GATCTATAGCAGC-ATTTTTAG
* *
39274 AACAAACA-TCACAAATAGGTC-AGATCTATAGCGGCGTT
1 AA-AAA-AGCCGCAAA-AGGTCGAGATCTATAGCGGCGTT
39312 AATTACCTTT
Statistics
Matches: 169, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
84 70 0.41
85 75 0.44
86 24 0.14
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (84 bp):
AAAAAAGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAACGTCGCAATAGGTCGAGA
TCTATAGCAGCATTTTTAG
Found at i:43986 original size:24 final size:24
Alignment explanation
Indices: 43944--43989 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
43934 TATATCAACT
* *
43944 GGCTGGTGAACCTCTTCACTGGCG
1 GGCTGGTGAACATCGTCACTGGCG
*
43968 GGCTGGTGAGCATCGTCACTGG
1 GGCTGGTGAACATCGTCACTGG
43990 TGGGATGAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (24 bp):
GGCTGGTGAACATCGTCACTGGCG
Found at i:51073 original size:13 final size:13
Alignment explanation
Indices: 51055--51079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51045 CTATATATAA
51055 AAGAAAAATAAAC
1 AAGAAAAATAAAC
51068 AAGAAAAATAAA
1 AAGAAAAATAAA
51080 AATGCTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAGAAAAATAAAC
Found at i:52924 original size:20 final size:20
Alignment explanation
Indices: 52899--52941 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
52889 ATTCCACCAC
*
52899 ATGCATCTATATGCTCTTAA
1 ATGCATCTATATGCTCCTAA
*
52919 ATGCATCTATATGGTCCTAA
1 ATGCATCTATATGCTCCTAA
52939 ATG
1 ATG
52942 AGCACTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGCATCTATATGCTCCTAA
Found at i:57563 original size:20 final size:19
Alignment explanation
Indices: 57519--57571 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
57509 TGATTCAATT
* *
57519 AGTATCGATACTGAAAGGGG
1 AGTATCGATAC-CAAAGGGA
57539 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
*
57558 AGGTATCAATACCA
1 A-GTATCGATACCA
57572 TTCCAAGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:57983 original size:43 final size:43
Alignment explanation
Indices: 57922--58016 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
57912 GCATTTAACT
* *
57922 ATGTATGTACATGCTATAATAGTAATAGTTGTAGGAATTATTG
1 ATGTATGTAAATGCTATAATAGTAATAGTTGTAGAAATTATTG
57965 ATGTATGTAAATGCTATAATAGTAATAGTTGTAGAAATTATTG
1 ATGTATGTAAATGCTATAATAGTAATAGTTGTAGAAATTATTG
58008 ATGTATGTA
1 ATGTATGTA
58017 TGGTGATTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (43 bp):
ATGTATGTAAATGCTATAATAGTAATAGTTGTAGAAATTATTG
Found at i:58128 original size:59 final size:59
Alignment explanation
Indices: 58040--58498 Score: 719
Period size: 59 Copynumber: 7.8 Consensus size: 59
58030 ATGGTACTAA
*
58040 GTGTGCAAAAA-GCTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
58098 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
58157 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
58216 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
58275 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGGATTTCCGTATTGAGCACTCT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
58334 GTGTGCAAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCTGTATTGGGCACTCTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACT-TT
* * *
58394 AT-TGCAAAAATGTTAACAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCATTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
58452 ATGCGTAAAAA-GATAAGAAATT-ATACTAAGTGTATGAATTTCCGTAT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
58499 GGGAAATATA
Statistics
Matches: 370, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
57 25 0.07
58 24 0.06
59 319 0.86
60 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:64725 original size:20 final size:19
Alignment explanation
Indices: 64700--64752 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
64690 TGATTCAATT
* *
64700 AGTATCGATACCGAAGGGGG
1 AGTATCGATACC-AAAGGGA
64720 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
64739 AGGTATCGATACCA
1 A-GTATCGATACCA
64753 TTCCAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:64802 original size:19 final size:20
Alignment explanation
Indices: 64775--64846 Score: 92
Period size: 19 Copynumber: 3.5 Consensus size: 20
64765 ATGCAAAAAT
64775 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTAGG
*
64794 GGTAACGATACCATAGTATGG
1 GGTATCGATACCATAGTA-GG
* *
64815 TAGTATCGATACCATGGTAGG
1 -GGTATCGATACCATAGTAGG
64836 GGTATCGATAC
1 GGTATCGATAC
64847 TGAAGAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.38
20 10 0.22
21 3 0.07
22 15 0.33
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:65261 original size:59 final size:59
Alignment explanation
Indices: 65176--65752 Score: 919
Period size: 59 Copynumber: 9.8 Consensus size: 59
65166 ATGACACTAA
65176 GTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
65234 GTGTGTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
**
65293 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
**
65352 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTATATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
65411 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTATATAAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
65470 GTGTACAAAAATGTTAAAAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
65529 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATCTT-CATATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAAT-TTCCGTATTGGGCACTTT
* * *
65588 GTGTGCAAAAATGTTAATAAATTCACACTAAGTGTATGAATTTCCGTATTGGGCACTAT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
** *
65647 GTACGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTACGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
65705 ATGTGCAAAAAT-ATAAGAAATTCATACTAAGTGTATAAATTTCTGTAT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
65753 GGGAAATATG
Statistics
Matches: 479, Mismatches: 36, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
58 95 0.20
59 382 0.80
60 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:76514 original size:22 final size:22
Alignment explanation
Indices: 76488--76535 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
76478 TAATATCCTT
76488 ATCAATTCTTCTTTATAGTCGA
1 ATCAATTCTTCTTTATAGTCGA
*
76510 ATCAATTTTTCTTTATAGTCGA
1 ATCAATTCTTCTTTATAGTCGA
76532 ATCA
1 ATCA
76536 GTTTAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (22 bp):
ATCAATTCTTCTTTATAGTCGA
Found at i:79123 original size:6 final size:6
Alignment explanation
Indices: 79114--79158 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
79104 TCATCAACAC
**
79114 CATTAT CATTAT CATTAT CAACAT CATTAT CATTAT CATTAT CAT
1 CATTAT CATTAT CATTAT CATTAT CATTAT CATTAT CATTAT CAT
79159 GCAATGTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (6 bp):
CATTAT
Found at i:79127 original size:24 final size:24
Alignment explanation
Indices: 79100--79157 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
79090 TATACATATA
*
79100 ATCATCATCAACACCATTATCATT
1 ATCATTATCAACACCATTATCATT
*
79124 ATCATTATCAACATCATTATCATT
1 ATCATTATCAACACCATTATCATT
79148 ATCATTATCA
1 ATCATTATCA
79158 TGCAATGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (24 bp):
ATCATTATCAACACCATTATCATT
Found at i:79345 original size:23 final size:22
Alignment explanation
Indices: 79318--79394 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
79308 CCCACGTAGA
79318 AATGTCCCAAATGACCATATAG
1 AATGTCCCAAATGACCATATAG
* *
79340 ATATGTCTCGAA-GAACCACGTATA-
1 A-ATGTCCCAAATG-ACCA--TATAG
*
79364 AATGTCCCAAATGACCACATAG
1 AATGTCCCAAATGACCATATAG
79386 AATTGTCCC
1 AA-TGTCCC
79395 GAAGGACTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
21 3 0.07
22 4 0.09
23 30 0.70
24 2 0.05
25 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (22 bp):
AATGTCCCAAATGACCATATAG
Found at i:79398 original size:46 final size:46
Alignment explanation
Indices: 79309--79398 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
79299 CACCGAAGTC
* *
79309 CCACGTAGAAATGTCCCAAATGACCATATAGATATGTCTCGAAGAA
1 CCACGTAGAAATGTCCCAAATGACCACATAGATATGTCCCGAAGAA
*
79355 CCACGTATAAATGTCCCAAATGACCACATAGA-ATTGTCCCGAAG
1 CCACGTAGAAATGTCCCAAATGACCACATAGATA-TGTCCCGAAG
79399 GACTGCGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 1 0.03
46 39 0.98
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (46 bp):
CCACGTAGAAATGTCCCAAATGACCACATAGATATGTCCCGAAGAA
Found at i:80139 original size:20 final size:18
Alignment explanation
Indices: 80116--80176 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
80106 AAATGGTACT
80116 GATACTTATCCATTGGTATC
1 GATAC-TATCC-TTGGTATC
80136 GATAC---CCTTGGTATC
1 GATACTATCCTTGGTATC
*
80151 GATGCTACTCCTTTGGTATC
1 GATACTA-TCC-TTGGTATC
80171 GATACT
1 GATACT
80177 GATTAAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 12 0.35
16 2 0.06
19 2 0.06
20 18 0.53
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (18 bp):
GATACTATCCTTGGTATC
Found at i:84848 original size:45 final size:46
Alignment explanation
Indices: 84764--84850 Score: 149
Period size: 45 Copynumber: 1.9 Consensus size: 46
84754 AAAAGCCTGG
* *
84764 GTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTGA
1 GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTGA
84810 GTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
84851 TTCGATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (46 bp):
GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTGA
Found at i:85288 original size:18 final size:18
Alignment explanation
Indices: 85267--85302 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
85257 CACTTCTCCC
85267 CTTTAAAACATTTTAACA
1 CTTTAAAACATTTTAACA
85285 CTTTAAAACATTTTAACA
1 CTTTAAAACATTTTAACA
85303 ACACTTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
CTTTAAAACATTTTAACA
Found at i:93622 original size:20 final size:20
Alignment explanation
Indices: 93597--93634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93587 TAAAAAATTA
*
93597 ATTGGTGCATCGATGCATAG
1 ATTGGTGAATCGATGCATAG
*
93617 ATTGGTGAATCGGTGCAT
1 ATTGGTGAATCGATGCAT
93635 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGAATCGATGCATAG
Found at i:93634 original size:91 final size:91
Alignment explanation
Indices: 93463--93636 Score: 210
Period size: 91 Copynumber: 1.9 Consensus size: 91
93453 GGTGCACTTA
* * ** *
93463 GAGTGCATCGATGCATAAAATGCATTCGATATTTGGAAAAAGCCTGAGTGCATCGATGCATGGTC
1 GAGTGCATCGATGCATAAAATGCATTCAATATTTGAAAAAAAACTGAGTGCATCGATGCATGATC
* *
93528 TTGTGCATCGATGCATCAAATGCAAT
66 TGGTGAATCGATGCATCAAATGCAAT
* *
93554 GAGTGCATCGATGCATAAAATGCATTCAATGTTT-AAAAAATTAATTG-GTGCATCGATGCATAG
1 GAGTGCATCGATGCATAAAATGCATTCAATATTTGAAAAAA--AACTGAGTGCATCGATGCAT-G
*
93617 AT-TGGTGAATCGGTGCATCA
63 ATCTGGTGAATCGATGCATCA
93637 CTTTGAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
90 5 0.07
91 61 0.87
92 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (91 bp):
GAGTGCATCGATGCATAAAATGCATTCAATATTTGAAAAAAAACTGAGTGCATCGATGCATGATC
TGGTGAATCGATGCATCAAATGCAAT
Found at i:96096 original size:6 final size:6
Alignment explanation
Indices: 96081--96187 Score: 205
Period size: 6 Copynumber: 17.8 Consensus size: 6
96071 CATATAATTA
*
96081 TCATTA TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
96129 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
1 TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG TCATTG
96177 TCATTG TCATT
1 TCATTG TCATT
96188 ACCATTACCA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 100 1.00
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
TCATTG
Found at i:96193 original size:6 final size:6
Alignment explanation
Indices: 96184--96432 Score: 326
Period size: 6 Copynumber: 42.2 Consensus size: 6
96174 TTGTCATTGT
96184 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
* * * *
96232 CATTAC CATTAC CATTAC CATTAG CATTAC CATTAG CATTAG CATTAG
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
* * * *
96280 CATTAG CATTAC CATTAC CATTAC CATTA- C-TTAT CATTAT CATTAG
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
* * *
96326 CATTAC CATTAT CATTAG CATTAC CATTAG CATTAC CATTAC CATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
* * *
96374 CATTAC CATTAC CATTA- C-TTAT CATTAT CATTAG CATTAC CATTAC
1 CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC CATTAC
* *
96420 CGTTAC CGTTAC C
1 CATTAC CATTAC C
96433 GTTAGCGTTA
Statistics
Matches: 225, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
4 6 0.03
5 4 0.02
6 215 0.96
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (6 bp):
CATTAC
Found at i:96193 original size:18 final size:18
Alignment explanation
Indices: 96077--96411 Score: 191
Period size: 18 Copynumber: 18.8 Consensus size: 18
96067 TATACATATA
*
96077 ATTATCATTATCATTGTC
1 ATTACCATTATCATTGTC
** *
96095 ATTGTCATTGTCATTGTC
1 ATTACCATTATCATTGTC
** *
96113 ATTGTCATTGTCATTGTC
1 ATTACCATTATCATTGTC
** *
96131 ATTGTCATTGTCATTGTC
1 ATTACCATTATCATTGTC
** *
96149 ATTGTCATTGTCATTGTC
1 ATTACCATTATCATTGTC
** *
96167 ATTGTCATTGTCATTGTC
1 ATTACCATTATCATTGTC
* **
96185 ATTACCATTACCATTACC
1 ATTACCATTATCATTGTC
* **
96203 ATTACCATTACCATTACC
1 ATTACCATTATCATTGTC
* **
96221 ATTACCATTACCATTACC
1 ATTACCATTATCATTGTC
*
96239 ATTACCATTACCATTAG-C
1 ATTACCATTATCATT-GTC
*
96257 ATTACCATTAGCATTAG-C
1 ATTACCATTATCATT-GTC
* * **
96275 ATTAGCATTAGCATTACC
1 ATTACCATTATCATTGTC
* *
96293 ATTACCATTACCATT-AC
1 ATTACCATTATCATTGTC
*
96310 -TTATCATTATCATTAG-C
1 ATTACCATTATCATT-GTC
96327 ATTACCATTATCATTAG-C
1 ATTACCATTATCATT-GTC
* **
96345 ATTACCATTAGCATTACC
1 ATTACCATTATCATTGTC
* **
96363 ATTACCATTACCATTACC
1 ATTACCATTATCATTGTC
*
96381 ATTACCATTA-C-TTATC
1 ATTACCATTATCATTGTC
* *
96397 ATTATCATTAGCATT
1 ATTACCATTATCATT
96412 ACCATTACCG
Statistics
Matches: 286, Mismatches: 23, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
16 25 0.09
17 4 0.01
18 257 0.90
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.41
Consensus pattern (18 bp):
ATTACCATTATCATTGTC
Found at i:96433 original size:6 final size:6
Alignment explanation
Indices: 96410--96500 Score: 110
Period size: 6 Copynumber: 15.2 Consensus size: 6
96400 ATCATTAGCA
* * * * *
96410 TTACCA TTACCG TTACCG TTACCG TTAGCG TTAGCG TTAGCG TTAGCG
1 TTACCG TTACCG TTACCG TTACCG TTACCG TTACCG TTACCG TTACCG
* * *
96458 TTAGCG TTACCG TTATCG TTACTG TTACCG TTACCG TTACCG T
1 TTACCG TTACCG TTACCG TTACCG TTACCG TTACCG TTACCG T
96501 CATCATCATC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (6 bp):
TTACCG
Found at i:96508 original size:3 final size:3
Alignment explanation
Indices: 96500--96551 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
96490 ACCGTTACCG
* * * * *
96500 TCA TCA TCA TCA TCA TCA TCA ACA TCA TTA TCA TTA TCA TTA TCA TTA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
96548 TCA T
1 TCA T
96552 GCTCTGTTCA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:102676 original size:16 final size:16
Alignment explanation
Indices: 102630--102669 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
102620 AGAGAGTAAT
102630 ATTATTTTAAGAACTC
1 ATTATTTTAAGAACTC
102646 ATTATTTTAAGAACTC
1 ATTATTTTAAGAACTC
102662 ATTATTTT
1 ATTATTTT
102670 CTTAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTATTTTAAGAACTC
Found at i:107070 original size:3 final size:3
Alignment explanation
Indices: 107058--107129 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
107048 TTATATTAAA
* * * *
107058 ATT A-T ATT ATT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
107102 ATT ATT ATT ATT ATT ATT ACT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
107130 ATGTATTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:107905 original size:13 final size:13
Alignment explanation
Indices: 107887--107911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107877 GGGGTCCTTC
107887 ATTTTTATTTTTA
1 ATTTTTATTTTTA
107900 ATTTTTATTTTT
1 ATTTTTATTTTT
107912 TTCTAGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTATTTTTA
Found at i:110840 original size:55 final size:54
Alignment explanation
Indices: 110751--110892 Score: 194
Period size: 55 Copynumber: 2.6 Consensus size: 54
110741 ACATTCAAGT
* * * *
110751 GATTAATGAAGAATGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAG-ATGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
*
110806 GATTCATGAAGATGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGACC
1 GATTCATGAAGAT-GACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
* *
110861 GATCCATGAAGAAAGACATCCGATGAATGAAG
1 GATTCATGAAG-ATGACATCCGATGAATGAAG
110893 TTTGAAGTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.03
55 75 0.96
56 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (54 bp):
GATTCATGAAGATGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
Found at i:111300 original size:6 final size:6
Alignment explanation
Indices: 111253--111311 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
111243 ACACCTTTTT
* *
111253 CATTTG CATTTAG CATTTA TATTTAG CATTTTG -ATTTAG CATTTG CATTTG
1 CATTTG CATTT-G CATTTG CATTT-G CA-TTTG CATTT-G CATTTG CATTTG
111304 CA-TTG CAT
1 CATTTG CAT
111312 GTATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 20 0.47
7 12 0.28
8 3 0.07
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (6 bp):
CATTTG
Found at i:111302 original size:13 final size:13
Alignment explanation
Indices: 111253--111311 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
111243 ACACCTTTTT
111253 CATTTGCATTTAG
1 CATTTGCATTTAG
**
111266 CATTTATATTTAG
1 CATTTGCATTTAG
111279 CATTTTG-ATTTAG
1 CA-TTTGCATTTAG
111292 CATTTGCATTT-G
1 CATTTGCATTTAG
111304 CA-TTGCAT
1 CATTTGCAT
111312 GTATTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.15
12 7 0.17
13 25 0.61
14 3 0.07
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (13 bp):
CATTTGCATTTAG
Found at i:116511 original size:37 final size:37
Alignment explanation
Indices: 116469--116747 Score: 280
Period size: 37 Copynumber: 7.6 Consensus size: 37
116459 CAAAGTTAAA
*
116469 CTTAAGCCTTCATCGAAGAGTAGTGAAGCAAATCAAT
1 CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* *
116506 CTTAAGCCTTCA-CTAAGGAGATAG-G-AGAAAAGTCAAT
1 CTTAAGCCTTCACCGAA-GAG-TAGTGAAGCAAA-TCAAT
* * *
116543 CTTAAGCCTTCCCCGAAGAGTAGTGAAGAAAATAAAT
1 CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* * *
116580 CTTAAGCCTTCACCAAAGAGTAGTGAAGCAAGTCGAT
1 CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* * * *
116617 CTTAAGCCTTCACCAAAGAGTAGTGAAACTAATC-TT
1 CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* * *
116653 TTATAAGCCTTCACCGAAGAGTAATGAAGCAAA-CCAT
1 CT-TAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* * **
116690 CTTAAGCCTTCACTGAAGAGTAATGAAGCAAATCCTT
1 CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
* * *
116727 TTTAAGCCTTCTCAGAAGAGT
1 CTTAAGCCTTCACCGAAGAGT
116748 GTTGGAGCAA
Statistics
Matches: 206, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
36 43 0.21
37 151 0.73
38 12 0.06
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (37 bp):
CTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAAT
Found at i:116547 original size:74 final size:74
Alignment explanation
Indices: 116447--116643 Score: 245
Period size: 74 Copynumber: 2.7 Consensus size: 74
116437 ACTTGCACAC
* * * * * * *
116447 AGGAGATTGGAGCAAAGTTAAACTTAAGCCTTCATCGAAGAGTAGTGAAGCAAATCAATCTTAAG
1 AGGAGATAGGAGAAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAAATAAATCTTAAG
*
116512 CCTTCACTA
66 CCTTCACCA
*
116521 AGGAGATAGGAGAAAAGTCAATCTTAAGCCTTCCCCGAAGAGTAGTGAAGAAAATAAATCTTAAG
1 AGGAGATAGGAGAAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAAATAAATCTTAAG
116586 CCTTCACCA
66 CCTTCACCA
* * * *
116595 AAGAG-TAGTGA-AGCAAGTCGATCTTAAGCCTTCACCAAAGAGTAGTGAA
1 AGGAGATAG-GAGA-AAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAA
116644 ACTAATCTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
73 4 0.04
74 103 0.96
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (74 bp):
AGGAGATAGGAGAAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAAATAAATCTTAAG
CCTTCACCA
Found at i:117246 original size:56 final size:56
Alignment explanation
Indices: 117131--117656 Score: 661
Period size: 56 Copynumber: 9.4 Consensus size: 56
117121 GTGAGGCAAA
* * * ** ** *
117131 AGAAGATTGTTCGAGTTCCATACTTCCT-AAAGAAACAGGGAGCGAACCTATAGGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* * *
117186 AGAAGATTATTCGATTTCTATACTTTCTGAAAGAAAGATGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* *
117242 AGAAGATTATTCGAGTTCTATACTTCTTGAAAGAAAGAGGAAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* * *
117298 AGAAGATTATTCAAGTTCTATATTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* *
117354 AGAAGATTATTCGAGTTCTATACTTCCTGAGA-AAAGAGGAAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* * * * *
117409 ---AGATTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAATCCATTTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* *
117461 AGAAGATTATTCGAGTTTTATACTTCCTGAAAGAAAGAAATAGGGAGCGAACCCATTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAG----AGGGAGCGAACCCGTTTGC
*
117521 AGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* * * * *
117577 AGAAGATTATTCGAGTTTTATACTTCCTGAAAGAAAGAGGGAGTGGACCCGATTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
* *
117633 TGAAGATTGTTCGA-TTCTTATACT
1 AGAAGATTATTCGAGTTC-TATACT
117657 CTCTGAATGA
Statistics
Matches: 412, Mismatches: 48, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.00
52 42 0.10
55 69 0.17
56 246 0.60
60 53 0.13
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (56 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
Found at i:117640 original size:279 final size:275
Alignment explanation
Indices: 117134--117656 Score: 773
Period size: 279 Copynumber: 1.9 Consensus size: 275
117124 AGGCAAAAGA
*
117134 AGATTGTTCGAGTTCCATACTTCCTAAAGAAACAGGGAGCGAACCTATAGGAAGAAGATTATTCG
1 AGATTGTTCGAGTTCCATACTCCCTAAAGAAACAGGGAGCGAACCTATAGGAAGAAGATTATTCG
* * *
117199 ATTTCTATACTTTCTGAAAGAAAGATGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATA
66 ATTTCTATACTTCCTGAAAGAAAGATGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTATATA
* *
117264 CTTCTTGAAAGAAAGAGGAAGCGAACCCGTTTGCAGAAGATTATTCAAGTTCTATATTTCCTGAA
131 CTTCCTGAAAGAAAGAGGAAGCGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAA
*
117329 AGAAAGAGGGAGCAAACCCGTTTGCAGAAGATTATTCGAGTTC-TATACTTCCTGAGAAAAGAGG
196 AGAAAGAGGGAGCAAACCCGATTGCAGAAGATTATTCGA-TTCTTATACTTCCTGAGAAAAGAGG
117393 AAGCGAACCCGTTTGC
260 AAGCGAACCCGTTTGC
* * ** *
117409 AGATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAATCC-ATTTGTAGAAGATTATTC
1 AGATTGTTCGAGTTCCATACTCCCTAAAGAAACAGGGAGCGAA-CCTATAGGAAGAAGATTATTC
117473 GAGTTT-TATACTTCCTGAAAGAAAGAAATAGGGAGCGAACCCATTTGCAGAAGATTATTCGAGT
65 GA-TTTCTATACTTCCTGAAAGAAAG--AT--GGAGCGAACCCATTTGCAGAAGATTATTCGAGT
* * *
117537 TATATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTTTATACTT
125 TATATACTTCCTGAAAGAAAGAGGAAGCGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTT
*** ** *
117602 CCTGAAAGAAAGAGGGAGTGGACCCGATTGTTGAAGATTGTTCGATTCTTATACT
190 CCTGAAAGAAAGAGGGAGCAAACCCGATTGCAGAAGATTATTCGATTCTTATACT
117657 CTCTGAATGA
Statistics
Matches: 220, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
275 75 0.34
276 5 0.02
277 2 0.01
278 3 0.01
279 135 0.61
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (275 bp):
AGATTGTTCGAGTTCCATACTCCCTAAAGAAACAGGGAGCGAACCTATAGGAAGAAGATTATTCG
ATTTCTATACTTCCTGAAAGAAAGATGGAGCGAACCCATTTGCAGAAGATTATTCGAGTTATATA
CTTCCTGAAAGAAAGAGGAAGCGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAA
AGAAAGAGGGAGCAAACCCGATTGCAGAAGATTATTCGATTCTTATACTTCCTGAGAAAAGAGGA
AGCGAACCCGTTTGC
Found at i:117663 original size:56 final size:56
Alignment explanation
Indices: 117187--117980 Score: 420
Period size: 56 Copynumber: 14.5 Consensus size: 56
117177 CCTATAGGAA
* * * **
117187 GAAGATTATTCGATT-TCTATACTTTCTGAAAGAAAGATGGAGCGAACCCGTTTGCA
1 GAAGATTATTCGATTCT-TATACTCTCTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* * **
117243 GAAGATTATTCGAGTTC-TATACT-TCTTGAAAGAAAGAGGAAGCGAACCCGTTTGCA
1 GAAGATTATTCGA-TTCTTATACTCTC-TGAAAGAAAGAGGGAGCGAACCCGATTGTT
* * * * **
117299 GAAGATTATTCAAGTTC-TATA-TTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTGCA
1 GAAGATTATTCGA-TTCTTATACTCT-CTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* *
117355 GAAGATTATTCGAGTTC-TATACT-TCCTGAGA-AAAGAGGAAGCGAACCCG--T-TT
1 GAAGATTATTCGA-TTCTTATACTCT-CTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* * * * *
117407 GCAGATTGTTCGAGTTC-TATACTCCCT-AAAGAAAGAGGGAGCGAATCC-ATTTGTA
1 GAAGATTATTCGA-TTCTTATACTCTCTGAAAGAAAGAGGGAGCGAACCCGA-TTGTT
**
117462 GAAGATTATTCGAGTT-TTATACT-TCCTGAAAGAAAGAAATAGGGAGCGAACCC-ATTTGCA
1 GAAGATTATTCGA-TTCTTATACTCT-CTGAAAGAAAG----AGGGAGCGAACCCGA-TTGTT
* * **
117522 GAAGATTATTCGAGTT-ATATACT-TCCTGAAAGAAAGAGGGAGCGAACCCGTTTGCA
1 GAAGATTATTCGA-TTCTTATACTCT-CTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* *
117578 GAAGATTATTCGAGTT-TTATACT-TCCTGAAAGAAAGAGGGAGTGGACCCGATTGTT
1 GAAGATTATTCGA-TTCTTATACTCT-CTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* * * *
117634 GAAGATTGTTCGATTCTTATACTCTCTGAATG-AATAGGGAGC-AGACACGATTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGA-ACCCGATTGTT
* * * *
117689 ---CA--A---G--TCTTATACTCTCTG-AAGGAATAGGGAGC-ATACACGATTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGA-ACCCGATTGTT
* * * * * * *
117734 GAAGATTGTTCGAGTCTTATACTCTCT-TAAGGAATAGGGAGC-AGACACAATTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGA-ACCCGATTGTT
* * * * *
117789 GAAGATTGTTCGAGTCTTATACTCTCTGAATG-AATAGGGAGC-AGACACGATTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGA-ACCCGATTGTT
* * * * * * * *
117844 GAAGATTGTTCGAGTCATATTCTCTCTG-AAGAAATAGGGAGCTAACACGTTTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGAACCCGATTGTT
* * * * * *
117899 GAAG---A-TCGAGTCCTATACTCTCTG-AAGGAATAGGGAGC-AGACACGTTTGTT
1 GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGA-ACCCGATTGTT
* * * *
117950 GAAGATTTGTTCAAGTCCTATACTCTCTGAA
1 GAAGA-TTATTCGATTCTTATACTCTCTGAA
117981 GGAATAGGGA
Statistics
Matches: 635, Mismatches: 58, Indels: 89
0.81 0.07 0.11
Matches are distributed among these distances:
44 2 0.00
45 36 0.06
47 1 0.00
48 1 0.00
50 1 0.00
51 47 0.07
52 39 0.06
53 2 0.00
54 3 0.00
55 199 0.31
56 245 0.39
57 6 0.01
60 53 0.08
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (56 bp):
GAAGATTATTCGATTCTTATACTCTCTGAAAGAAAGAGGGAGCGAACCCGATTGTT
Found at i:117766 original size:55 final size:55
Alignment explanation
Indices: 117682--118041 Score: 497
Period size: 55 Copynumber: 6.7 Consensus size: 55
117672 GAGCAGACAC
* * *
117682 GATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTGAA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * *
117737 GATTGTTCGAGTCTTATACTCTCTTAAGGAATAGGGAGCAGACACAATTGTTGAA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* *
117792 GATTGTTCGAGTCTTATACTCTCTGAATGAATAGGGAGCAGACACGATTGTTGAA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
* * * *
117847 GATTGTTCGAGTCATATTCTCTCTGAAGAAATAGGGAGCTA-ACACGTTTGTTGAA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGC-AGACACGATTGTTGAA
*
117902 GA----TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
*
117953 GATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAC-ATTTGTTGAA
1 GA-TTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGA-TTGTTGAA
118009 GA----TCGAGTCCTATACTCTCTGAAGGAATAGGGA
1 GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGA
118042 ATTGACCTGT
Statistics
Matches: 279, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.00
51 76 0.27
55 153 0.55
56 49 0.18
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
GATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAA
Found at i:117825 original size:110 final size:106
Alignment explanation
Indices: 117626--118041 Score: 569
Period size: 110 Copynumber: 3.9 Consensus size: 106
117616 GGAGTGGACC
* * * *
117626 CGATTGTTGAAGATTGTTCGATTCTTATACTCTCTGAATGAATAGGGAGCAGACACGA-TTGTTC
1 CGATTGTTGAAGATTGTTCGAGTCATATACTCTCTGAAGGAATAGGGAGCAGACAC-ATTTGTTG
*
117690 AAG-TC---T--TATACTCTCTGAAGGAATAGGGAGCATACA
65 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
117726 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTTAAGGAATAGGGAGCAGACACAATTGTTGA
1 CGATTGTTGAAGATTGTTCGAGTCATATACTCTCTGAAGGAATAGGGAGCAGACACATTTGTTGA
* *
117791 AGATTGTTCGAGTCTTATACTCTCTGAATGAATAGGGAGCAGACA
66 AGA----TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
117836 CGATTGTTGAAGATTGTTCGAGTCATATTCTCTCTGAAGAAATAGGGAGCTA-ACACGTTTGTTG
1 CGATTGTTGAAGATTGTTCGAGTCATATACTCTCTGAAGGAATAGGGAGC-AGACACATTTGTTG
117900 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
65 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
117942 CGTTTGTTGAAGATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACATTTGTTG
1 CGATTGTTGAAGA-TTGTTCGAGTCATATACTCTCTGAAGGAATAGGGAGCAGACACATTTGTTG
118007 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGA
65 AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGA
118042 ATTGACCTGT
Statistics
Matches: 282, Mismatches: 20, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.00
100 61 0.22
105 2 0.01
106 49 0.17
107 79 0.28
108 1 0.00
110 88 0.31
111 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (106 bp):
CGATTGTTGAAGATTGTTCGAGTCATATACTCTCTGAAGGAATAGGGAGCAGACACATTTGTTGA
AGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
Found at i:118270 original size:3 final size:3
Alignment explanation
Indices: 118258--118351 Score: 102
Period size: 3 Copynumber: 31.3 Consensus size: 3
118248 TTATATTAAA
*
118258 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
118305 ACT ATT A-T ATT GTA ATAC ATT ATT ATT ATT ATTT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT ATT ATT ATT
118351 A
1 A
118352 ATGTTACATA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.05
3 67 0.88
4 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:126510 original size:28 final size:28
Alignment explanation
Indices: 126472--126546 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
126462 AACCCATTCT
* *
126472 TTTTTATAAATTTCAATAAAGGCCAAAA
1 TTTTTACAAATTACAATAAAGGCCAAAA
*
126500 TTTTTACAAATTACAATAAAGGCCAAAC
1 TTTTTACAAATTACAATAAAGGCCAAAA
*
126528 TTTTTACAAATTATAATAA
1 TTTTTACAAATTACAATAA
126547 CAACCCAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (28 bp):
TTTTTACAAATTACAATAAAGGCCAAAA
Found at i:127459 original size:26 final size:27
Alignment explanation
Indices: 127409--127459 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
127399 TTTAAATTAA
* **
127409 TAACAAAGAAAAGTAAATATTTTTTCC
1 TAACAAAGAAAAGAAAATACATTTTCC
127436 TAACAAAGAAAA-AAAATACATTTT
1 TAACAAAGAAAAGAAAATACATTTT
127460 AATGTAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (27 bp):
TAACAAAGAAAAGAAAATACATTTTCC
Found at i:133788 original size:2 final size:2
Alignment explanation
Indices: 133783--133807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
133773 TAACTGTGTG
133783 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
133808 CATTGCCTAA
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:137938 original size:35 final size:34
Alignment explanation
Indices: 137865--137935 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
137855 TAATATCTGT
* * * *
137865 AAATATCTTATAACTATAATCATTTGATATATTT
1 AAATATCTAATAACTAAAATCATATGATATATTA
137899 AAATATCTAATAACTGAAAATCATATGATA-ATTA
1 AAATATCTAATAACT-AAAATCATATGATATATTA
137933 AAA
1 AAA
137936 ATAATCTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 20 0.62
35 12 0.38
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.38
Consensus pattern (34 bp):
AAATATCTAATAACTAAAATCATATGATATATTA
Found at i:145353 original size:15 final size:15
Alignment explanation
Indices: 145333--145363 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
145323 GCATATTGAA
145333 ATTAGACATCATTTC
1 ATTAGACATCATTTC
*
145348 ATTAGAGATCATTTC
1 ATTAGACATCATTTC
145363 A
1 A
145364 CAAAAGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (15 bp):
ATTAGACATCATTTC
Found at i:146507 original size:2 final size:2
Alignment explanation
Indices: 146500--146567 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
146490 GTTTTACTAT
* *
146500 TA TA TA TA -A TA TA TA TG TA T- TG T- 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
146539 TA 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 TA T
146568 GACTTTTAGG
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:146517 original size:33 final size:31
Alignment explanation
Indices: 146465--146567 Score: 104
Period size: 30 Copynumber: 3.3 Consensus size: 31
146455 ACATATTTTT
* * *
146465 TATATATATACTATTTATGTAAATTGTTTTACTA
1 TATATATATAATATATATGT--ATTGTTATA-TA
146499 T-TATATATAATATATATGTATTGTTATATA
1 TATATATATAATATATATGTATTGTTATATA
* *
146529 TATATATAT-ATATATATATATAT-ATATATA
1 TATATATATAATATATATGTAT-TGTTATATA
146559 TATATATAT
1 TATATATAT
146568 GACTTTTAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
30 29 0.47
31 16 0.26
33 16 0.26
34 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (31 bp):
TATATATATAATATATATGTATTGTTATATA
Found at i:148341 original size:23 final size:24
Alignment explanation
Indices: 148301--148350 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
148291 CAAAAATAAA
148301 TATTTTTAAATAAATTTT-AAGAT
1 TATTTTTAAATAAATTTTCAAGAT
* ** *
148324 TATTTTTTAATAGTTTTTCAAGTT
1 TATTTTTAAATAAATTTTCAAGAT
148348 TAT
1 TAT
148351 ATTTGATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TATTTTTAAATAAATTTTCAAGAT
Found at i:150581 original size:14 final size:14
Alignment explanation
Indices: 150562--150593 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
150552 GCTTATCTTC
*
150562 TCTTCATTTTTTCT
1 TCTTCATTTTATCT
150576 TCTTCATTTTATCT
1 TCTTCATTTTATCT
150590 TCTT
1 TCTT
150594 TCAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTCATTTTATCT
Found at i:155930 original size:24 final size:25
Alignment explanation
Indices: 155898--155947 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
155888 GACCATCGAA
*
155898 CTTTCAATTGAATCAATCAGACCAC
1 CTTTCAATTGAATCAATCAAACCAC
*
155923 CTTT-AATTGATTCAATCAAACCAC
1 CTTTCAATTGAATCAATCAAACCAC
155947 C
1 C
155948 CTCCGTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (25 bp):
CTTTCAATTGAATCAATCAAACCAC
Found at i:156620 original size:26 final size:27
Alignment explanation
Indices: 156584--156638 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
156574 TATGGGTCAT
*
156584 AAGATTTGTGTTAGAAA-TGAAGAAGC
1 AAGAGTTGTGTTAGAAATTGAAGAAGC
*
156610 AAGAGTTGTGTTAGAAATTGAAGATGC
1 AAGAGTTGTGTTAGAAATTGAAGAAGC
156637 AA
1 AA
156639 TGTATGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (27 bp):
AAGAGTTGTGTTAGAAATTGAAGAAGC
Found at i:157390 original size:16 final size:16
Alignment explanation
Indices: 157332--157466 Score: 100
Period size: 16 Copynumber: 8.6 Consensus size: 16
157322 ACTGTAATAA
*
157332 AAAAACAAATACAATC
1 AAAAACAAATGCAATC
* * *
157348 GAAAACAAATTCAATG
1 AAAAACAAATGCAATC
* *
157364 TAAAACAAATGCATTC
1 AAAAACAAATGCAATC
* *
157380 AAAAACAAATGTAAGC
1 AAAAACAAATGCAATC
*
157396 TAAAAACAAATTCAATC
1 -AAAAACAAATGCAATC
* *
157413 TAAAA-AAATGCAATA
1 AAAAACAAATGCAATC
157428 AAAAACAAACT-CAAT-
1 AAAAACAAA-TGCAATC
*
157443 -TAAA-AAATGCAATC
1 AAAAACAAATGCAATC
*
157457 AATAACAAAT
1 AAAAACAAAT
157467 TCAACTACAA
Statistics
Matches: 91, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.01
13 7 0.08
14 3 0.03
15 14 0.15
16 52 0.57
17 14 0.15
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAACAAATGCAATC
Found at i:157449 original size:48 final size:49
Alignment explanation
Indices: 157331--157436 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 49
157321 AACTGTAATA
* * * * *
157331 AAAAAACAAATACAATC-GAAAACAAATTCAATGTAAAACAAATGCATT
1 AAAAAACAAATGCAAGCTAAAAACAAATTCAATCTAAAACAAATGCAAT
* *
157379 CAAAAACAAATGTAAGCTAAAAACAAATTCAATCTAAAA-AAATGCAAT
1 AAAAAACAAATGCAAGCTAAAAACAAATTCAATCTAAAACAAATGCAAT
157427 AAAAAACAAA
1 AAAAAACAAA
157437 CTCAATTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 30 0.61
49 19 0.39
ACGTcount: A:0.63, C:0.14, G:0.06, T:0.17
Consensus pattern (49 bp):
AAAAAACAAATGCAAGCTAAAAACAAATTCAATCTAAAACAAATGCAAT
Found at i:159149 original size:21 final size:22
Alignment explanation
Indices: 159124--159168 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
159114 TCTGTTTTAT
159124 TTTATTT-TAATTTAG-TCATTG
1 TTTATTTCTAATTTAGCT-ATTG
159145 TTTATTTCTAATTTAGCTATTG
1 TTTATTTCTAATTTAGCTATTG
159167 TT
1 TT
159169 GTTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 14 0.64
23 1 0.05
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (22 bp):
TTTATTTCTAATTTAGCTATTG
Found at i:164475 original size:9 final size:9
Alignment explanation
Indices: 164443--164502 Score: 66
Period size: 10 Copynumber: 6.3 Consensus size: 9
164433 GCTGCTGGAA
164443 ACCGGTTTCG
1 ACCGGTTT-G
*
164453 ACCGGTTCG
1 ACCGGTTTG
164462 AACCGGTTTG
1 -ACCGGTTTG
*
164472 ACCGGTCTG
1 ACCGGTTTG
164481 AACCGGTTTG
1 -ACCGGTTTG
*
164491 ACCGGTCTG
1 ACCGGTTTG
164500 ACC
1 ACC
164503 CGACCGACCG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
9 20 0.47
10 23 0.53
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:164476 original size:19 final size:20
Alignment explanation
Indices: 164442--164500 Score: 88
Period size: 19 Copynumber: 3.0 Consensus size: 20
164432 GGCTGCTGGA
164442 AACCGGTTTCGACCGGTTC-G
1 AACCGGTTT-GACCGGTTCTG
164462 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
164481 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
164500 A
1 A
164501 CCCGACCGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 2 0.05
19 27 0.71
20 9 0.24
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTCTG
Found at i:164533 original size:17 final size:17
Alignment explanation
Indices: 164508--164545 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
164498 TGACCCGACC
*
164508 GACCGGACCCGACCGTT
1 GACCCGACCCGACCGTT
164525 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
164542 GACC
1 GACC
164546 GTTGACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.26, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:166363 original size:18 final size:18
Alignment explanation
Indices: 166325--166366 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
166315 TAATAATATA
* * *
166325 TGTATGTATGTGTGTGTG
1 TGTATGTATGTATGGGAG
166343 TGTATGTATGTATGGGAG
1 TGTATGTATGTATGGGAG
166361 TGTATG
1 TGTATG
166367 GAGTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (18 bp):
TGTATGTATGTATGGGAG
Found at i:170063 original size:183 final size:183
Alignment explanation
Indices: 169755--170105 Score: 702
Period size: 183 Copynumber: 1.9 Consensus size: 183
169745 TTTTTCAGAC
169755 ATTTGTATAGAATCAGTAGGGCTGGAAATGGTTCACCTGTAAAGATATTTTTTTGTTGGTTTCTC
1 ATTTGTATAGAATCAGTAGGGCTGGAAATGGTTCACCTGTAAAGATATTTTTTTGTTGGTTTCTC
169820 TTGTCTAGTATTTGGAGCTATATTTGCTGCTGGAAAACCTTTACTTGGTTTTTTGCATGTATATT
66 TTGTCTAGTATTTGGAGCTATATTTGCTGCTGGAAAACCTTTACTTGGTTTTTTGCATGTATATT
169885 TGGAATATATTCCAGATGAGGGCCATAAAAGAGGAGCTATTTTTTTGGAATAT
131 TGGAATATATTCCAGATGAGGGCCATAAAAGAGGAGCTATTTTTTTGGAATAT
169938 ATTTGTATAGAATCAGTAGGGCTGGAAATGGTTCACCTGTAAAGATATTTTTTTGTTGGTTTCTC
1 ATTTGTATAGAATCAGTAGGGCTGGAAATGGTTCACCTGTAAAGATATTTTTTTGTTGGTTTCTC
170003 TTGTCTAGTATTTGGAGCTATATTTGCTGCTGGAAAACCTTTACTTGGTTTTTTGCATGTATATT
66 TTGTCTAGTATTTGGAGCTATATTTGCTGCTGGAAAACCTTTACTTGGTTTTTTGCATGTATATT
170068 TGGAATATATTCCAGATGAGGGCCATAAAAGAGGAGCT
131 TGGAATATATTCCAGATGAGGGCCATAAAAGAGGAGCT
170106 TGGAGACAAT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 168 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (183 bp):
ATTTGTATAGAATCAGTAGGGCTGGAAATGGTTCACCTGTAAAGATATTTTTTTGTTGGTTTCTC
TTGTCTAGTATTTGGAGCTATATTTGCTGCTGGAAAACCTTTACTTGGTTTTTTGCATGTATATT
TGGAATATATTCCAGATGAGGGCCATAAAAGAGGAGCTATTTTTTTGGAATAT
Found at i:177819 original size:13 final size:13
Alignment explanation
Indices: 177803--177837 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
177793 AAGATTTTTT
177803 TTTTTGAAAATCA
1 TTTTTGAAAATCA
177816 TTTTTG-AAATCA
1 TTTTTGAAAATCA
*
177828 ATTTTGAAAA
1 TTTTTGAAAA
177838 ATTACTCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAATCA
Found at i:180462 original size:17 final size:17
Alignment explanation
Indices: 180442--180475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
180432 AATTAAATAA
*
180442 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
180459 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
180476 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:181158 original size:42 final size:42
Alignment explanation
Indices: 181106--181296 Score: 134
Period size: 42 Copynumber: 4.6 Consensus size: 42
181096 AATCCTAATT
181106 AAAACTATTTAAACTAAAATACCTAAA-ACAAATATAAAATA-
1 AAAACTATTTAAACTAAAATACCTAAATACAAAT-TAAAATAC
* * *
181147 AAATACTATTTAAAATAATAT-CCTAAATCCAAATTAAAATAC
1 AAA-ACTATTTAAACTAAAATACCTAAATACAAATTAAAATAC
* *
181189 TAAAACCTATTTAAACTAAAATA-CAAAGATA-AAA-TATAAT--
1 -AAAA-CTATTTAAACTAAAATACCTAA-ATACAAATTAAAATAC
* * ** *
181229 ATAA-TATTTAAAATATTAT-CCTAAA-ACTTAATTAAAATAC
1 AAAACTATTTAAACTAAAATACCTAAATAC-AAATTAAAATAC
* *
181269 TAAAAATATTTAAATTAAAATACCTAAA
1 -AAAACTATTTAAACTAAAATACCTAAA
181297 ACTAAGATAA
Statistics
Matches: 115, Mismatches: 19, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 17 0.15
38 5 0.04
39 3 0.03
41 19 0.17
42 38 0.33
43 29 0.25
44 2 0.02
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (42 bp):
AAAACTATTTAAACTAAAATACCTAAATACAAATTAAAATAC
Found at i:181263 original size:80 final size:77
Alignment explanation
Indices: 181133--181291 Score: 219
Period size: 80 Copynumber: 2.0 Consensus size: 77
181123 AATACCTAAA
* * * *
181133 ACAAATATAAAATAAAATACTATTTAAAATAATATCCTAAATCCAAATTAAAATACTAAAACCTA
1 ACAAAGATAAAATAAAATAATATTTAAAATAATATCCTAAAACCAAATTAAAATACTAAAA-ATA
181198 TTTAAACTAAAAT
65 TTTAAACTAAAAT
* **
181211 ACAAAGATAAAATATAATATAATATTTAAAATATTATCCTAAAACTTAATTAAAATACTAAAAAT
1 ACAAAGATAAAATA-AA-ATAATATTTAAAATAATATCCTAAAACCAAATTAAAATACTAAAAAT
*
181276 ATTTAAATTAAAAT
64 ATTTAAACTAAAAT
181290 AC
1 AC
181292 CTAAAACTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
78 13 0.18
79 18 0.25
80 40 0.56
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (77 bp):
ACAAAGATAAAATAAAATAATATTTAAAATAATATCCTAAAACCAAATTAAAATACTAAAAATAT
TTAAACTAAAAT
Found at i:181295 original size:43 final size:43
Alignment explanation
Indices: 181111--181299 Score: 107
Period size: 43 Copynumber: 4.6 Consensus size: 43
181101 TAATTAAAAC
* * *
181111 TATTTAAACTAAAATACCTAAAAC-AAATATAAAATA-AA-ATAC
1 TATTTAAAATAAAAT-CCTAAAACTTAAT-TAAAATATAATATAA
* * ** *
181153 TATTTAAAATAATATCCTAAATCCAAATTAAAATACTAA-A-ACC
1 TATTTAAAATAAAATCCTAAAACTTAATTAAAATA-TAATATA-A
* * *
181196 TATTTAAACTAAAATAC--AAA---GA-TAAAATATAATATAA
1 TATTTAAAATAAAATCCTAAAACTTAATTAAAATATAATATAA
**
181233 TATTTAAAATATTATCCTAAAACTTAATTAAAATACTAA-A-AA
1 TATTTAAAATAAAATCCTAAAACTTAATTAAAATA-TAATATAA
*
181275 TATTTAAATTAAAATACCTAAAACT
1 TATTTAAAATAAAAT-CCTAAAACT
181300 AAGATAAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 27
0.73 0.11 0.17
Matches are distributed among these distances:
36 3 0.03
37 21 0.18
38 2 0.02
39 3 0.03
41 16 0.14
42 33 0.28
43 35 0.30
44 3 0.03
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (43 bp):
TATTTAAAATAAAATCCTAAAACTTAATTAAAATATAATATAA
Found at i:181308 original size:43 final size:44
Alignment explanation
Indices: 181214--181308 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
181204 CTAAAATACA
**
181214 AAGATAAAATATAATATAATATTTAAAATATTATCCTAAAACTT
1 AAGATAAAATATAATATAATATTTAAAATAAAATCCTAAAACTT
* *
181258 AA-TTAAAATACTAA-A-AATATTTAAATTAAAATACCTAAAAC-T
1 AAGATAAAATA-TAATATAATATTTAAAATAAAAT-CCTAAAACTT
181300 AAGATAAAA
1 AAGATAAAA
181309 AATATTATCC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
42 17 0.40
43 21 0.49
44 5 0.12
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (44 bp):
AAGATAAAATATAATATAATATTTAAAATAAAATCCTAAAACTT
Found at i:184129 original size:17 final size:17
Alignment explanation
Indices: 184104--184137 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
184094 AATTAAATAA
*
184104 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
184121 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
184138 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:184806 original size:80 final size:79
Alignment explanation
Indices: 184742--184986 Score: 264
Period size: 80 Copynumber: 3.0 Consensus size: 79
184732 AAATAATTCC
* * *
184742 TAAAATAATAACTTAAATCCTAATTAAAACTATTAAAACTATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTAAAA-TACTAAAACTATTTAAACTAAAATACCTAAAACAA
184807 ATATAAAATAAAATACTATT
65 ATATAAAAT---A-A-TATT
*
184827 TAAAATACTATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAGGATA
1 TAAAATAATATCCTAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAA--A-A
*
184890 -AAATATAATATAATATT
62 CAAATATAAAATAATATT
* * * *
184907 TAAAATATTATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAA-TA
1 TAAAATAATATCCTAAATCCTAATTAAAATACTAAAAC-TATTTAAACTAAAATACCTAAAACAA
*
184971 ATGATAAAAAAATATT
65 AT-ATAAAATAATATT
184987 ATCCTAAAAC
Statistics
Matches: 141, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
79 5 0.04
80 66 0.47
81 2 0.01
82 3 0.02
83 2 0.01
84 8 0.06
85 54 0.38
86 1 0.01
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.31
Consensus pattern (79 bp):
TAAAATAATATCCTAAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAA
TATAAAATAATATT
Found at i:184844 original size:85 final size:83
Alignment explanation
Indices: 184755--184968 Score: 276
Period size: 80 Copynumber: 2.6 Consensus size: 83
184745 AATAATAACT
*
184755 TAAATCCTAATTAAAACTATTAAAACTATTTAAACTAAAATACCTAAAACAAATATAAA-ATAAA
1 TAAATCCTAATTAAAA-TACTAAAACTATTTAAACTAAAATACCTAAAA-AAATA-AAATATAAA
*
184819 ATACTATTTAAAATACTATCC
63 ATAATATTTAAAATACTATCC
** *
184840 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C---AAGGATAAAATATAATAT
1 TAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAAAAATAAAATATAAAAT
*
184901 AATATTTAAAATATTATCC
65 AATATTTAAAATACTATCC
* *
184920 TAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAA
1 TAAATCCTAATTAAAATACTAAAAC-TATTTAAACTAAAATACCTAAAA
184969 TAATGATAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
79 4 0.04
80 64 0.56
81 3 0.03
84 10 0.09
85 33 0.29
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (83 bp):
TAAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAAAAATAAAATATAAAATA
ATATTTAAAATACTATCC
Found at i:186447 original size:38 final size:36
Alignment explanation
Indices: 186394--186479 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 36
186384 ACATATTTCG
*
186394 TCTCTCTTGAGATAGTTTCTCTCAAAATGAAAATTTTA
1 TCTCACTTGAGATAGTTTCTCTCAAAAT--AAATTTTA
* * * *
186432 TCTCACTTTAGATAGTTTCTCTTAAAATAATTTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAATAAATTTTA
186468 TCTCACTTGAGA
1 TCTCACTTGAGA
186480 CAATTTCCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 17 0.40
38 25 0.60
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (36 bp):
TCTCACTTGAGATAGTTTCTCTCAAAATAAATTTTA
Found at i:186768 original size:39 final size:37
Alignment explanation
Indices: 186670--186804 Score: 94
Period size: 36 Copynumber: 3.6 Consensus size: 37
186660 GAAATAAAAA
* * *
186670 TTTTATCTCACTTGAAATAGTTTCTCTTGAAACAAAT
1 TTTTATCTCACTTGAGATAATTTCGCTTGAAACAAAT
* * * * * *
186707 TTAT-TCTCACTAGAGGTCATTTCGCTTGAAATAATTTT
1 TTTTATCTCACTTGAGATAATTTCGCTTGAAACAA--AT
* *
186745 TTTTATCTCACTTGAGATAATTTC-TTTAGAAACAAAA
1 TTTTATCTCACTTGAGATAATTTCGCTT-GAAACAAAT
* * * *
186782 GTTCATCTCTCTTGAGATCATTT
1 TTTTATCTCACTTGAGATAATTT
186805 TTATGTCACC
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
36 23 0.32
37 22 0.30
38 6 0.08
39 22 0.30
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTTATCTCACTTGAGATAATTTCGCTTGAAACAAAT
Found at i:193037 original size:22 final size:22
Alignment explanation
Indices: 192968--193038 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 22
192958 AGAGTTAATT
*
192968 AAATATATGTTTTAA-TAATTCTG
1 AAATATA-GATTTAATTAATT-TG
*
192991 AATATTTA-ATTTCAATTAA-TT-
1 AA-ATATAGATTT-AATTAATTTG
193012 AAATATAGATTTAATTAATTTG
1 AAATATAGATTTAATTAATTTG
193034 AAATA
1 AAATA
193039 ATAAAATCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
20 10 0.26
21 8 0.21
22 9 0.23
23 5 0.13
24 7 0.18
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (22 bp):
AAATATAGATTTAATTAATTTG
Found at i:199611 original size:18 final size:18
Alignment explanation
Indices: 199590--199627 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
199580 AGTGTGACTG
*
199590 TTCCAAGGCTTGTGCGTA
1 TTCCAAGGCTTGTGCCTA
199608 TTCCAAGGCTTGTGCCTA
1 TTCCAAGGCTTGTGCCTA
199626 TT
1 TT
199628 ATAGATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (18 bp):
TTCCAAGGCTTGTGCCTA
Found at i:200982 original size:54 final size:54
Alignment explanation
Indices: 200577--200967 Score: 507
Period size: 54 Copynumber: 7.3 Consensus size: 54
200567 TTACCAAATA
* *
200577 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAGGTGGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* * * *
200631 GGCACTAAATGTGCATTTCACAGAATTCATCCTAGGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* * * *
200685 GGCACTAAATGTGCATTT--TGGAATTCATCCTTTGTGGATGAATAACCTTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* *
200737 GGCACTAAATGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* * * * * * *
200791 AGTACTAAGTATGCATTCCACGAAATTCATCCTTTGTGGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* *
200845 GGCACTAAGTGTGCATTTCACGGAATTCATCCTAGGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* * ** *
200899 AGTACTAAGTGTGCATTTCACGTTATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
* **
200953 AGCACTCTGTGTGCA
1 GGCACTAAGTGTGCA
200968 ACCCACGAAA
Statistics
Matches: 298, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
52 47 0.16
54 251 0.84
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
Found at i:201013 original size:162 final size:160
Alignment explanation
Indices: 200578--201023 Score: 534
Period size: 162 Copynumber: 2.8 Consensus size: 160
200568 TACCAAATAG
* ** *
200578 GCACTAAGTGTGCATTTCACGGAATTCATCCTAGGTGGATGAATAACCATTTTGGCACTAAATGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCAGCACTAAGTGT
* * * *
200643 GCATTTCAC-AGAATTCATCCTAGGTGGATGAATAACCGTTTCGGCACTAAATGTGCATTTTGGA
66 GCATTCCACGA-AATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCGGA
** * *
200707 ATTCATCCTTTGTGGATGAATAACCTTTTCG
130 ATTCATCCTAGGTGGATGAATAACCGTTTCA
* * * *
200738 GCACTAAATGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCATTTCAGTACTAAGTAT
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCAGCACTAAGTGT
* * *
200803 GCATTCCACGAAATTCATCCTTTGTGGATGAATAACCATTTTGGCACTAAGTGTGCATTTCACGG
66 GCATTCCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTT--CGG
200868 AATTCATCCTAGGTGGATGAATAACCGTTTCA
129 AATTCATCCTAGGTGGATGAATAACCGTTTCA
* ** * **
200900 GTACTAAGTGTGCATTTCACGTTATTCATCCTATGTGGATGAATAACCGTTTCAGCACTCTGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCAGCACTAAGTGT
** ** ** * * * * *
200965 GCAACCCACGAAATTCATAATATGTTTATGAATAACTGTATGGGCACTAGGGGTGCATT
66 GCATTCCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATT
201024 ATAAAGAAAT
Statistics
Matches: 241, Mismatches: 42, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
160 109 0.45
161 1 0.00
162 131 0.54
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (160 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCAGCACTAAGTGT
GCATTCCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCGGAA
TTCATCCTAGGTGGATGAATAACCGTTTCA
Found at i:201968 original size:21 final size:22
Alignment explanation
Indices: 201939--201979 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
201929 AATAAATTTG
201939 AATTGTAAAAAATTAA-GAATAA
1 AATTGT-AAAAATTAATGAATAA
201961 AATT-TAAAAATTAATGAAT
1 AATTGTAAAAATTAATGAAT
201980 CATTGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AATTGTAAAAATTAATGAATAA
Found at i:203821 original size:25 final size:25
Alignment explanation
Indices: 203793--203842 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
203783 TATATTGATT
*
203793 TTAAATTATTCTTTA-CATTAACTTA
1 TTAAA-TATACTTTATCATTAACTTA
*
203818 TTAAATATACTTTATTATTAACTTA
1 TTAAATATACTTTATCATTAACTTA
203843 ATTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAAATATACTTTATCATTAACTTA
Found at i:203855 original size:22 final size:22
Alignment explanation
Indices: 203830--203873 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
203820 AAATATACTT
203830 TATTATTAACTTAATTTAAAAA
1 TATTATTAACTTAATTTAAAAA
* ** *
203852 TATTTTTATTTTCATTTAAAAA
1 TATTATTAACTTAATTTAAAAA
203874 CATATATCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTATTAACTTAATTTAAAAA
Found at i:203860 original size:25 final size:25
Alignment explanation
Indices: 203809--203861 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
203799 TATTCTTTAC
*
203809 ATTAACTTATTAAATATACTTTATT
1 ATTAACTTATTAAAAATACTTTATT
203834 ATTAACTTAATTTAAAAATA-TTT-TT
1 ATTAACTT-A-TTAAAAATACTTTATT
203859 ATT
1 ATT
203862 TTCATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 13 0.52
26 4 0.16
27 8 0.32
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAACTTATTAAAAATACTTTATT
Found at i:204080 original size:31 final size:31
Alignment explanation
Indices: 204017--204084 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
204007 TGATGGTCAC
* *
204017 ATCTTAATTAAATAAAAATAAAAGTGATTAT
1 ATCTTAATTAAATAAAAACAAAAGTGACTAT
* * *
204048 ATCTTAATTAAATAAAAACGAAATTGGCTAT
1 ATCTTAATTAAATAAAAACAAAAGTGACTAT
204079 ATCTTA
1 ATCTTA
204085 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAGTGACTAT
Found at i:208561 original size:13 final size:13
Alignment explanation
Indices: 208529--208555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
208519 TTTAGAAGAA
208529 AGAAGGAAATTAT
1 AGAAGGAAATTAT
208542 AGAAGGAAATTAT
1 AGAAGGAAATTAT
208555 A
1 A
208556 TTAGGATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
AGAAGGAAATTAT
Found at i:212777 original size:5 final size:5
Alignment explanation
Indices: 212767--212796 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
212757 TCGTATCCCT
212767 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
212797 ATTTTTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTCTC
Found at i:220382 original size:21 final size:21
Alignment explanation
Indices: 220327--220390 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
220317 GATTCCCCTG
220327 TGGGGGGAATCGGTTCCCATTCA
1 TGGGGGGAATCGGTTCCC--TCA
**
220350 AAGGGGGAATCGGTTCCCTCA
1 TGGGGGGAATCGGTTCCCTCA
* *
220371 TGGGGGGGATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
220391 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.54
23 16 0.46
ACGTcount: A:0.17, C:0.23, G:0.36, T:0.23
Consensus pattern (21 bp):
TGGGGGGAATCGGTTCCCTCA
Done.