Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 65 of 105
Found at i:11475499 original size:3 final size:3
Alignment explanation
Indices: 11475491--11475587 Score: 81
Period size: 3 Copynumber: 31.3 Consensus size: 3
11475481 ATAAAAAATG
*
11475491 ATA ATA ATA ATA ATA ATA A-A ATAA ATA ATG ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT-A
* * * * *
11475537 ATA AAA ATAA ATA ATA A-A CGAGA AAA AAA ATA ATA ATA CTA ATA ATA
1 ATA ATA AT-A ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA
11475584 ATA A
1 ATA A
11475588 ATAAATAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
2 3 0.04
3 65 0.82
4 10 0.13
5 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:11475510 original size:30 final size:31
Alignment explanation
Indices: 11475476--11475547 Score: 119
Period size: 30 Copynumber: 2.3 Consensus size: 31
11475466 TGAAAAAATG
11475476 ATAAAATAAAAAATGATAATAATAATAAT-A
1 ATAAAATAAAAAATGATAATAATAATAATAA
*
11475506 ATAAAATAAATAATGATAATAATAATAATAA
1 ATAAAATAAAAAATGATAATAATAATAATAA
11475537 ATAAAAATAAA
1 AT-AAAATAAA
11475548 TAATAAACGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 28 0.72
31 3 0.08
32 8 0.21
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (31 bp):
ATAAAATAAAAAATGATAATAATAATAATAA
Found at i:11476360 original size:18 final size:18
Alignment explanation
Indices: 11476337--11476419 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 18
11476327 GCATGCAAAG
11476337 AAGAAAAAAAAAAGAGAA
1 AAGAAAAAAAAAAGAGAA
*
11476355 AAGAAAAGAAAAAG-GAAA
1 AAGAAAAAAAAAAGAG-AA
*
11476373 AATGAAAGAAAAAAA-TGAA
1 AA-GAAA-AAAAAAAGAGAA
* * *
11476392 ATG-AAAAGAAATGA-AA
1 AAGAAAAAAAAAAGAGAA
11476408 AAGAAAAAAAAA
1 AAGAAAAAAAAA
11476420 TTTATTATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
16 9 0.18
17 10 0.20
18 18 0.35
19 7 0.14
20 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (18 bp):
AAGAAAAAAAAAAGAGAA
Found at i:11476374 original size:7 final size:6
Alignment explanation
Indices: 11476337--11476419 Score: 54
Period size: 5 Copynumber: 14.2 Consensus size: 6
11476327 GCATGCAAAG
11476337 AAGAAA AA-AAA AAGAGAA AAG-AA AAGAAA AAGGAAA AATGAAA GAA-AAA
1 AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA AA-GAAA AA-GAAA -AAGAAA
* *
11476386 AATG-AA ATG-AA AAG-AA ATGAAA AAGAAA AA-AAA A
1 AA-GAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
11476420 TTTATTATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
5 25 0.39
6 22 0.34
7 15 0.23
8 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:11479488 original size:49 final size:48
Alignment explanation
Indices: 11479361--11479704 Score: 257
Period size: 49 Copynumber: 6.9 Consensus size: 48
11479351 GCACAAAGAT
* * * *
11479361 GAGATTTTAAAAGTTTGTTGCCTATCTCTATAGAAGTCTTTTTCAAAAA
1 GAGATTTTTAAAGTTTGTTGCCTATCTTTATAGAAGACCTTTTC-AAAA
* * *
11479410 GAAATTTTTTTAAAGTTTGTTACCTATCTTTATAGGAGACCTTTTCAAACA
1 GAGA--TTTTTAAAGTTTGTTGCCTATCTTTATAGAAGACCTTTTCAAA-A
* * * *
11479461 GAGATTTTTAAAGTTTATTGTCTATCTTTATAGAAGTCTTTTTCAAAA
1 GAGATTTTTAAAGTTTGTTGCCTATCTTTATAGAAGACCTTTTCAAAA
* * * * *
11479509 AAAATTTTTTTAAGTTTGTTGCCTATATTTATAAAAG-CCTTTTTCAAAA
1 GAGA-TTTTTAAAGTTTGTTGCCTATCTTTATAGAAGACC-TTTTCAAAA
* * *
11479558 TGAGATTTTTAAAGTTTGTTACCTATCTTTATAGGAA-CCCTTTCCAAAAAAA
1 -GAGATTTTTAAAGTTTGTTGCCTATCTTTATA-GAAGACCTTTTC---AAAA
* * *
11479610 AAAACTTTTAAAGTTTGTTGTTGCCTATCTTTAT--AAGAGCCATTTTCAAAA
1 GAGATTTTTAAAG--T-TTGTTGCCTATCTTTATAGAAGA-CC-TTTTCAAAA
* * * *
11479661 TAAGA-TTTAAAAGTATGTTGCCTATCTTTATAAAAGCACCTTTT
1 -GAGATTTTTAAAGTTTGTTGCCTATCTTTATAGAAG-ACCTTTT
11479705 TCTAAAAAAA
Statistics
Matches: 236, Mismatches: 38, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
48 20 0.08
49 110 0.47
50 14 0.06
51 62 0.26
52 7 0.03
53 3 0.01
54 20 0.08
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (48 bp):
GAGATTTTTAAAGTTTGTTGCCTATCTTTATAGAAGACCTTTTCAAAA
Found at i:11479568 original size:98 final size:99
Alignment explanation
Indices: 11479354--11479716 Score: 378
Period size: 98 Copynumber: 3.6 Consensus size: 99
11479344 TTAGCTAGCA
* * * *
11479354 CAAAGATGAGATTTTAAAAGTTTGTTGCCTATCTCTATAGAAGTCTTTTTCAAAAAGAAATTTTT
1 CAAACATGAGATTTTAAAAGTTTGTTGCCTATCTTTATAGAAGCCTTTTTCAAAAAAAAATTTTT
* *
11479419 TTAAAGTTTGTTACCTATCTTTATAGGAGACCTTTT
66 TT-AAGTTTGTTGCCTATCTTTATAAGAG-CCTTTT
* * * *
11479455 CAAACA-GAGATTTTTAAAGTTTATTGTCTATCTTTATAGAAGTCTTTTTC-AAAAAAAATTTTT
1 CAAACATGAGATTTTAAAAGTTTGTTGCCTATCTTTATAGAAGCCTTTTTCAAAAAAAAATTTTT
* *
11479518 TTAAGTTTGTTGCCTATATTTATAAAAGCCTTTTT
66 TTAAGTTTGTTGCCTATCTTTATAAGAGCC-TTTT
* * * * **
11479553 CAAA-ATGAGATTTTTAAAGTTTGTTACCTATCTTTATAGGAA-CCCTTTCCAAAAAAAAAAACT
1 CAAACATGAGATTTTAAAAGTTTGTTGCCTATCTTTATA-GAAGCCTTTTTC-AAAAAAAAATTT
*
11479616 TTTAAAGTTTGTTGTTGCCTATCTTTATAAGAGCCATTTT
64 TTTTAAG--T-TTGTTGCCTATCTTTATAAGAGCC-TTTT
* * *
11479656 CAAA-ATAAGA-TTTAAAAGTATGTTGCCTATCTTTATAAAAGCACCTTTTTCTAAAAAAAAA
1 CAAACATGAGATTTTAAAAGTTTGTTGCCTATCTTTATAGAAG--CCTTTTTC-AAAAAAAAA
11479717 AAAAAAAACT
Statistics
Matches: 221, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
97 3 0.01
98 64 0.29
99 17 0.08
100 55 0.25
101 7 0.03
102 25 0.11
103 35 0.16
104 15 0.07
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (99 bp):
CAAACATGAGATTTTAAAAGTTTGTTGCCTATCTTTATAGAAGCCTTTTTCAAAAAAAAATTTTT
TTAAGTTTGTTGCCTATCTTTATAAGAGCCTTTT
Found at i:11479703 original size:103 final size:104
Alignment explanation
Indices: 11479524--11479718 Score: 261
Period size: 103 Copynumber: 1.9 Consensus size: 104
11479514 TTTTTTAAGT
* * * *
11479524 TTGTTGCCTATATTTATAAAAGCCTTTTTCAAAATGAGATTTTTAAAGTTTGTTACCTATCTTTA
1 TTGTTGCCTATATTTATAAAAGCCATTTTCAAAATAAGATTTTAAAAGTATGTTACCTATCTTTA
*
11479589 TAGGAACCC-TTTCCAAAAAAAAAAACTTTTAAAGTTTG
66 TAGAAACCCTTTTCCAAAAAAAAAAACTTTTAAAGTTTG
* * *
11479627 TTGTTGCCTATCTTTATAAGAGCCATTTTCAAAATAAGA-TTTAAAAGTATGTTGCCTATCTTTA
1 TTGTTGCCTATATTTATAAAAGCCATTTTCAAAATAAGATTTTAAAAGTATGTTACCTATCTTTA
*
11479691 TA-AAAGCACCTTTTTCTAAAAAAAAAAA
66 TAGAAA-C-CC-TTTTCCAAAAAAAAAAA
11479719 AAAAAACTAC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 2 0.03
102 25 0.32
103 37 0.47
105 15 0.19
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (104 bp):
TTGTTGCCTATATTTATAAAAGCCATTTTCAAAATAAGATTTTAAAAGTATGTTACCTATCTTTA
TAGAAACCCTTTTCCAAAAAAAAAAACTTTTAAAGTTTG
Found at i:11488113 original size:25 final size:24
Alignment explanation
Indices: 11488051--11488118 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
11488041 TTTTATCATC
* *
11488051 AAATTTACTTTATTCTTA-TTCCA
1 AAATTTATTTTATTATTATTTCCA
* *
11488074 AATTTTATTTT-TTATTATTTCTA
1 AAATTTATTTTATTATTATTTCCA
11488097 AAATTTATTTGTATTATTATTT
1 AAATTTATTT-TATTATTATTT
11488119 TTACTATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.14
23 22 0.59
24 1 0.03
25 9 0.24
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (24 bp):
AAATTTATTTTATTATTATTTCCA
Found at i:11489724 original size:18 final size:18
Alignment explanation
Indices: 11489690--11489770 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
11489680 AGGTTCAAAT
11489690 ATTCACAAAAA--TTTAG
1 ATTCACAAAAATTTTTAG
*
11489706 ATTCATAAAAATTTTTAG
1 ATTCACAAAAATTTTTAG
* *
11489724 ATTCACAAGAATTTTCA-
1 ATTCACAAAAATTTTTAG
** *
11489741 ATTTTGCAAAAATTTTTCAT
1 A-TTCACAAAAATTTTT-AG
11489761 ATTCACAAAA
1 ATTCACAAAA
11489771 GCTTGAGATT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
16 10 0.20
17 1 0.02
18 30 0.60
19 8 0.16
20 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTCACAAAAATTTTTAG
Found at i:11489780 original size:54 final size:54
Alignment explanation
Indices: 11489722--11489845 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
11489712 AAAAATTTTT
* * *
11489722 AGATTCACAAGAATTTTCAATTTTGCAAAAA-TTTTTCATATTCACAA-AAGCTTG
1 AGATTCGCAAGAATTTTCAAGTTCGCAAAAATTTTTTCA-ATTCACAAGAA-CTTG
** *
11489776 AGATTCGCAAGAATAATCAAGTTCGCAAAAATTTTTTGAATTCACAAGAACTTG
1 AGATTCGCAAGAATTTTCAAGTTCGCAAAAATTTTTTCAATTCACAAGAACTTG
*
11489830 AGATTCGCAAGGATTT
1 AGATTCGCAAGAATTT
11489846 AAAAACTTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 51 0.86
55 8 0.14
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (54 bp):
AGATTCGCAAGAATTTTCAAGTTCGCAAAAATTTTTTCAATTCACAAGAACTTG
Found at i:11489982 original size:21 final size:20
Alignment explanation
Indices: 11489890--11489984 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
11489880 TTTAATGCAG
* *
11489890 AGATTCGCATCAAAATTCAA
1 AGATTCACATCAAAATTTAA
*
11489910 AGATTCACATTTTAAAATTTTAA
1 AGATTCACA--TCAAAA-TTTAA
** *
11489933 AGATTCACATCCAAAGCTTCA
1 AGATTCACAT-CAAAATTTAA
**
11489954 AGGCTCACATGCAAAATTTAA
1 AGATTCACAT-CAAAATTTAA
11489975 AGATTCACAT
1 AGATTCACAT
11489985 TCGAAAAATT
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
20 8 0.14
21 27 0.48
22 8 0.14
23 13 0.23
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (20 bp):
AGATTCACATCAAAATTTAA
Found at i:11489994 original size:23 final size:22
Alignment explanation
Indices: 11489901--11489994 Score: 57
Period size: 21 Copynumber: 4.3 Consensus size: 22
11489891 GATTCGCATC
* **
11489901 AAAATTCAAAGATTCACATTTTA
1 AAAATTTAAAGATTCACA-TCGA
* *
11489924 AAATTTTAAAGATTCACATC-C
1 AAAATTTAAAGATTCACATCGA
** * ** *
11489945 AAAGCTTCAAGGCTCACAT-GC
1 AAAATTTAAAGATTCACATCGA
11489966 AAAATTTAAAGATTCACATTCGA
1 AAAATTTAAAGATTCACA-TCGA
11489989 AAAATT
1 AAAATT
11489995 CAGGGGTTCA
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
21 28 0.53
22 2 0.04
23 23 0.43
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAATTTAAAGATTCACATCGA
Found at i:11490065 original size:46 final size:44
Alignment explanation
Indices: 11489958--11490141 Score: 110
Period size: 45 Copynumber: 4.1 Consensus size: 44
11489948 GCTTCAAGGC
* * * * * *
11489958 TCACATGCAAAA-TTTAAAGATTCACATTCGAAAAA-TTCAGGGGT
1 TCACATCCAAAACTTCAAAGATTCTCATT-AAAAAACTT-TGGGTT
* ** *
11490002 TCACATCCACAGTTTCAAAGCTTCTCATTAAAAAAACTTTGGTGTT
1 TCACATCCAAAACTTCAAAGATTCTCATT-AAAAAACTTTGG-GTT
* *
11490048 TCACATCCAATACTTCAAAGGA-TCTCATT-CAAAACTTCTAGGGTT
1 TCACATCCAAAACTTCAAA-GATTCTCATTAAAAAACTT-T-GGGTT
* * *
11490093 T--CATCCAAAATTTCAAAGATTCTAATTTAAAAAACTTTGGAGAT
1 TCACATCCAAAACTTCAAAGATTCTCA-TTAAAAAACTTTGG-GTT
11490137 TCACA
1 TCACA
11490142 AATTTTCAAG
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 20 0.19
44 22 0.21
45 32 0.30
46 30 0.28
47 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (44 bp):
TCACATCCAAAACTTCAAAGATTCTCATTAAAAAACTTTGGGTT
Found at i:11491421 original size:9 final size:8
Alignment explanation
Indices: 11491410--11491478 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
11491400 CTTTTTCTTT
11491410 TTTTTTCA
1 TTTTTTCA
11491418 TTTTTTCA
1 TTTTTTCA
**
11491426 CATTTTCA
1 TTTTTTCA
11491434 TTTTTTTCA
1 -TTTTTTCA
11491443 TTTTTTCA
1 TTTTTTCA
**
11491451 CATTTTCA
1 TTTTTTCA
11491459 TTCTTTTCA
1 TT-TTTTCA
11491468 TTTTTT-A
1 TTTTTTCA
11491475 TTTT
1 TTTT
11491479 CTTACTTCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
7 5 0.10
8 32 0.63
9 14 0.27
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11491443 original size:25 final size:25
Alignment explanation
Indices: 11491409--11491473 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
11491399 TCTTTTTCTT
11491409 TTTTTTTCATTTTTTCACATTTTCA
1 TTTTTTTCATTTTTTCACATTTTCA
11491434 TTTTTTTCATTTTTTCACATTTTCA
1 TTTTTTTCATTTTTTCACATTTTCA
*
11491459 TTCTTTTCATTTTTT
1 TTTTTTTCATTTTTT
11491474 ATTTTCTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.14, C:0.15, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTTTTCATTTTTTCACATTTTCA
Found at i:11491447 original size:16 final size:16
Alignment explanation
Indices: 11491411--11491473 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
11491401 TTTTTCTTTT
11491411 TTTTTCATTTTTTCAC
1 TTTTTCATTTTTTCAC
* *
11491427 ATTTTCATTTTTTTCAT
1 TTTTTCA-TTTTTTCAC
** *
11491444 TTTTTCACATTTTCAT
1 TTTTTCATTTTTTCAC
11491460 TCTTTTCATTTTTT
1 T-TTTTCATTTTTT
11491474 ATTTTCTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.37
17 24 0.63
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTCATTTTTTCAC
Found at i:11496993 original size:36 final size:36
Alignment explanation
Indices: 11496950--11497069 Score: 170
Period size: 36 Copynumber: 3.3 Consensus size: 36
11496940 GTAAGAATTT
11496950 TTTTCATACCATCAAGATCATCAATCAAATAAAAAA
1 TTTTCATACCATCAAGATCATCAATCAAATAAAAAA
* * * **
11496986 TTTTCATACCACCAAGATTATTAATCAAATAAAATG
1 TTTTCATACCATCAAGATCATCAATCAAATAAAAAA
*
11497022 TTTTCATACCATCAAGATCATCAATCAAAT-AGAAA
1 TTTTCATACCATCAAGATCATCAATCAAATAAAAAA
11497057 TTTTGCATACCAT
1 TTTT-CATACCAT
11497070 TTCCTCTCCC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
35 6 0.08
36 66 0.92
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
TTTTCATACCATCAAGATCATCAATCAAATAAAAAA
Found at i:11497253 original size:14 final size:15
Alignment explanation
Indices: 11497219--11497254 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
11497209 GCAATATACC
11497219 AATTTCACAAGCCAT
1 AATTTCACAAGCCAT
11497234 AATTTCACAAGCCA-
1 AATTTCACAAGCCAT
11497248 AATTTCA
1 AATTTCA
11497255 AAGTGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (15 bp):
AATTTCACAAGCCAT
Found at i:11505906 original size:26 final size:26
Alignment explanation
Indices: 11505857--11505906 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11505847 CCATTCTGAC
* * * *
11505857 AAAATTTTTAAAAGATTTATCATTTA
1 AAAATTATTAAAAAATTAACCATTTA
11505883 AAAATTATTAAAAAATTAACCATT
1 AAAATTATTAAAAAATTAACCATT
11505907 CTTGACTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAATTATTAAAAAATTAACCATTTA
Found at i:11507038 original size:23 final size:22
Alignment explanation
Indices: 11506993--11507038 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11506983 TCAATAAAAC
*
11506993 AAAATAAGATAAAGAATAGATA
1 AAAATAAAATAAAGAATAGATA
* *
11507015 AAAATAAAAATAAAGTATATATA
1 AAAAT-AAAATAAAGAATAGATA
11507038 A
1 A
11507039 TTAATAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.22
Consensus pattern (22 bp):
AAAATAAAATAAAGAATAGATA
Found at i:11508011 original size:2 final size:2
Alignment explanation
Indices: 11508006--11508036 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11507996 TCTCTCTCTC
11508006 TA 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 TA T
11508037 TCCTTACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11508298 original size:22 final size:22
Alignment explanation
Indices: 11508271--11508324 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
11508261 ATAAACTTGA
* *
11508271 AACTAATGCAGCATACTTCATT
1 AACTAAAGCACCATACTTCATT
11508293 AACTAAAAAGCACCATACTTCATT
1 AACT--AAAGCACCATACTTCATT
11508317 ATACTAAA
1 A-ACTAAA
11508325 ATTTGACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
24 17 0.63
25 3 0.11
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (22 bp):
AACTAAAGCACCATACTTCATT
Found at i:11521783 original size:12 final size:13
Alignment explanation
Indices: 11521766--11521794 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11521756 ATTTCACCTC
11521766 TTGAAAT-AGAAT
1 TTGAAATAAGAAT
11521778 TTGAAATAAGAAT
1 TTGAAATAAGAAT
11521791 TTGA
1 TTGA
11521795 GCCTTCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (13 bp):
TTGAAATAAGAAT
Found at i:11523571 original size:40 final size:39
Alignment explanation
Indices: 11523527--11523653 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
11523517 TAGGTAGGAA
11523527 ATTTAGGGTTTAAGTTGCATTTTAGAGAGAAGAGACTATG
1 ATTTAGGGTTTAAGTTG-ATTTTAGAGAGAAGAGACTATG
* * ** *
11523567 ATTTAGGGTTTAGGTTGTAATTTAGAGA-AATGAGGTTGTG
1 ATTTAGGGTTTAAGTTG-ATTTTAGAGAGAA-GAGACTATG
* *
11523607 ATTT-GGGATTTAAGATTGATATTTAGAGAGAAGAGTCTAGG
1 ATTTAGGG-TTTAAG-TTGAT-TTTAGAGAGAAGAGACTATG
11523648 ATTTAG
1 ATTTAG
11523654 AGAAATCGAG
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.07
40 41 0.59
41 20 0.29
42 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.37
Consensus pattern (39 bp):
ATTTAGGGTTTAAGTTGATTTTAGAGAGAAGAGACTATG
Found at i:11529078 original size:14 final size:14
Alignment explanation
Indices: 11529059--11529087 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11529049 TTGCTTAACA
11529059 TTTTTTTG-TGTTT
1 TTTTTTTGTTGTTT
11529072 TTTTTTTGTTGTTT
1 TTTTTTTGTTGTTT
11529086 TT
1 TT
11529088 GTTGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
TTTTTTTGTTGTTT
Found at i:11529089 original size:22 final size:25
Alignment explanation
Indices: 11529061--11529105 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11529051 GCTTAACATT
11529061 TTTTTG-TGTTTT-T-TTTTTGTTG
1 TTTTTGTTGTTTTATATTTTTGTTG
11529083 TTTTTGTTGTTTTATATTTTTGT
1 TTTTTGTTGTTTTATATTTTTGT
11529106 GTAAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 1 0.05
25 7 0.35
ACGTcount: A:0.04, C:0.00, G:0.16, T:0.80
Consensus pattern (25 bp):
TTTTTGTTGTTTTATATTTTTGTTG
Found at i:11529885 original size:27 final size:27
Alignment explanation
Indices: 11529832--11529889 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11529822 GAATGCAACA
** * *
11529832 CATGAAATGAATGTGATGCATATAATG
1 CATGAAATGAATGCAATGAATACAATG
*
11529859 CATGAAATGCATGCAATGAATACAATG
1 CATGAAATGAATGCAATGAATACAATG
11529886 CATG
1 CATG
11529890 CAATCTATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (27 bp):
CATGAAATGAATGCAATGAATACAATG
Found at i:11529893 original size:9 final size:9
Alignment explanation
Indices: 11529855--11529893 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
11529845 TGATGCATAT
*
11529855 AATGCATGA
1 AATGCATGC
11529864 AATGCATGC
1 AATGCATGC
* *
11529873 AATGAATAC
1 AATGCATGC
11529882 AATGCATGC
1 AATGCATGC
11529891 AAT
1 AAT
11529894 CTATACTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (9 bp):
AATGCATGC
Found at i:11529899 original size:18 final size:18
Alignment explanation
Indices: 11529864--11529899 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11529854 TAATGCATGA
*
11529864 AATGCATGCAATGAATAC
1 AATGCATGCAATCAATAC
*
11529882 AATGCATGCAATCTATAC
1 AATGCATGCAATCAATAC
11529900 TATATGTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (18 bp):
AATGCATGCAATCAATAC
Found at i:11530996 original size:14 final size:14
Alignment explanation
Indices: 11530967--11531009 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
11530957 AACCATGCCT
11530967 TTCACCTTTCTTTTTC
1 TTCA-CTTT-TTTTTC
11530983 TT-ATCTTTTTTTTC
1 TTCA-CTTTTTTTTC
11530997 TTCACTTTTTTTT
1 TTCACTTTTTTTT
11531010 GGCATAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 17 0.68
15 6 0.24
16 2 0.08
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCACTTTTTTTTC
Found at i:11532880 original size:10 final size:11
Alignment explanation
Indices: 11532863--11532888 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11532853 TCATCTTTAC
11532863 TTATTTTTCAA
1 TTATTTTTCAA
11532874 TTATTTTTCAA
1 TTATTTTTCAA
11532885 TTAT
1 TTAT
11532889 CAAATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTTTCAA
Found at i:11534945 original size:145 final size:144
Alignment explanation
Indices: 11534685--11535038 Score: 435
Period size: 145 Copynumber: 2.4 Consensus size: 144
11534675 AAATTTTTTT
* ** * *
11534685 TGAAAATCCAAGCTCGAAAAGGTCAAATTA-AGAAAATATCCTTATAGGGCATTTTAGTAATTTA
1 TGAAAATCCAAGCTTGAAAAGACCAAATTACA-AAAATACCCTTATAGGGCATTTTAGTAATTTT
* * * * *
11534749 ACACTTCTTGGGGTACTACTATGATTTTAAATGCACAAAAAATCATGAAATATTATGAAATTTAT
65 ACACTTCTTAGGGTACTACTATAATTTTAAATGCACAAAAAATCATAAAATATTATGAAATTAAG
* *
11534814 ATCTAAAGAGTTTCA
130 ATATAAAAAGTTTCA
* * *
11534829 TGAAAATCCAAGCTTGAGAAGACCAAATTACAAAAATACCCTTATAGGGGTATTTTGGTAATTTT
1 TGAAAATCCAAGCTTGAAAAGACCAAATTACAAAAATACCCTTATA-GGGCATTTTAGTAATTTT
* * *
11534894 ACACTT-TTCAGGGTATTACTATAATTTTAAATGCACCAAAAATCATAAAATATTATGAAGTTAA
65 ACACTTCTT-AGGGTACTACTATAATTTTAAATGCACAAAAAATCATAAAATATTATGAAATTAA
11534958 GATATAAAAAGTTTCA
129 GATATAAAAAGTTTCA
* * * * *
11534974 TAAAAATCCTAGC-TCAAAAAAGCCAAATTACAAAAATACCCCTTAAAGGGCATTTTAGTAATTT
1 TGAAAATCCAAGCTTGAAAAGA-CCAAATTACAAAAATA-CCCTTATAGGGCATTTTAGTAATTT
11535038 T
64 T
11535039 GTATTTCTCC
Statistics
Matches: 179, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
144 46 0.26
145 126 0.70
146 7 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (144 bp):
TGAAAATCCAAGCTTGAAAAGACCAAATTACAAAAATACCCTTATAGGGCATTTTAGTAATTTTA
CACTTCTTAGGGTACTACTATAATTTTAAATGCACAAAAAATCATAAAATATTATGAAATTAAGA
TATAAAAAGTTTCA
Found at i:11535538 original size:10 final size:9
Alignment explanation
Indices: 11535523--11535565 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
11535513 TTTTGAAAGA
11535523 GTTTTTTTGT
1 GTTTTTTT-T
11535533 GTTTTTTTAT
1 GTTTTTTT-T
11535543 GTTTTTTTT
1 GTTTTTTTT
11535552 -TTTTTTTT
1 GTTTTTTTT
11535560 -TTTTTT
1 GTTTTTT
11535566 GTAAATGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 14 0.44
9 1 0.03
10 17 0.53
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.88
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:11535800 original size:74 final size:74
Alignment explanation
Indices: 11535722--11535878 Score: 217
Period size: 74 Copynumber: 2.1 Consensus size: 74
11535712 AAATATAGGT
*
11535722 TTTGAAACTTTGAAAATGGCTCCTCC-TAAAAAAAAGCTTTGAAAATTTGAAAATGGTTCCCCCT
1 TTTGAAACTTTGAAAATGGCTCC-CCTTAAAAAAAAGCTTTGAAAATTTGAAAATGGCTCCCCCT
11535786 AAACAGAAGC
65 AAACAGAAGC
* * * * * *
11535796 TTTGAAACATTGAAGATGGCTCCCCTTAAATAAAGGCTTTGAAACTTTGAAAATGGCTCCCTCTA
1 TTTGAAACTTTGAAAATGGCTCCCCTTAAAAAAAAGCTTTGAAAATTTGAAAATGGCTCCCCCTA
*
11535861 AACAGAGGC
66 AACAGAAGC
*
11535870 TTCGAAACT
1 TTTGAAACT
11535879 CTTTTATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 2 0.03
74 70 0.97
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (74 bp):
TTTGAAACTTTGAAAATGGCTCCCCTTAAAAAAAAGCTTTGAAAATTTGAAAATGGCTCCCCCTA
AACAGAAGC
Found at i:11535870 original size:37 final size:37
Alignment explanation
Indices: 11535693--11535878 Score: 189
Period size: 37 Copynumber: 5.0 Consensus size: 37
11535683 TAAAATGTGG
* * * * *
11535693 TTTGAAAATTGCTCCTTCTAAATATAGGTTTTGAAAC
1 TTTGAAAATGGCTCCCTCTAAACAAAGGCTTTGAAAC
* * *
11535730 TTTGAAAATGGCT-CCTCCTAAAAAAAAGCTTTGAAAA
1 TTTGAAAATGGCTCCCT-CTAAACAAAGGCTTTGAAAC
* *
11535767 TTTGAAAATGGTTCCCCCTAAACAGAA-GCTTTGAAAC
1 TTTGAAAATGGCTCCCTCTAAACA-AAGGCTTTGAAAC
* * *
11535804 ATTGAAGATGGCTCCC-CTTAAATAAAGGCTTTGAAAC
1 TTTGAAAATGGCTCCCTC-TAAACAAAGGCTTTGAAAC
* *
11535841 TTTGAAAATGGCTCCCTCTAAACAGAGGCTTCGAAAC
1 TTTGAAAATGGCTCCCTCTAAACAAAGGCTTTGAAAC
11535878 T
1 T
11535879 CTTTTATTAT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
36 5 0.04
37 113 0.92
38 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (37 bp):
TTTGAAAATGGCTCCCTCTAAACAAAGGCTTTGAAAC
Found at i:11535890 original size:3 final size:3
Alignment explanation
Indices: 11535882--11535918 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11535872 CGAAACTCTT
11535882 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11535919 AAATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11536108 original size:22 final size:23
Alignment explanation
Indices: 11536083--11536131 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
11536073 AAATTAAAAT
*
11536083 AAATTC-AACTCAAAAGACTTAC
1 AAATTCTAACCCAAAAGACTTAC
**
11536105 AAA-TCTTGCCCAAAAGACTTAC
1 AAATTCTAACCCAAAAGACTTAC
11536127 AAATT
1 AAATT
11536132 ATGCCCGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 19 0.86
23 1 0.05
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (23 bp):
AAATTCTAACCCAAAAGACTTAC
Found at i:11536110 original size:62 final size:62
Alignment explanation
Indices: 11536003--11536124 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 62
11535993 AAGGTCTTAC
* * *** * ** * *
11536003 AAATCTCAAAATTAAAATAGATTCAGCTTGGAAGATTTATGAATCTTGTCTAAAAGACTTGT
1 AAATCTCAAAATTAAAATAAATTCAACTCAAAAGACTTACAAATCTTGCCCAAAAGACTTGT
11536065 AAATCTCAAAATTAAAATAAATTCAACTCAAAAGACTTACAAATCTTGCCCAAAAGACTT
1 AAATCTCAAAATTAAAATAAATTCAACTCAAAAGACTTACAAATCTTGCCCAAAAGACTT
11536125 ACAAATTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (62 bp):
AAATCTCAAAATTAAAATAAATTCAACTCAAAAGACTTACAAATCTTGCCCAAAAGACTTGT
Found at i:11536237 original size:62 final size:63
Alignment explanation
Indices: 11536171--11536294 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
11536161 GAGGTCTCAA
*
11536171 AAATCTCAAAATT-AAAATAGTTTCAGCAT-AGAAA-ACTTATGAATCTTGCCC-AGAGGACTTA
1 AAATCTCAAAATTAAAAATAGATTCAGC-TCA-AAAGACTTATGAATCTTGCCCGA-AGGACTTA
11536232 C
63 C
*
11536233 AAATCTCAAAATTAAAAATAGATTCAGCTCAAAAGACTTATGAATTTTGCCCGAAGGACTTA
1 AAATCTCAAAATTAAAAATAGATTCAGCTCAAAAGACTTATGAATCTTGCCCGAAGGACTTA
11536295 AAGATTATGC
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
62 17 0.30
63 38 0.68
64 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (63 bp):
AAATCTCAAAATTAAAAATAGATTCAGCTCAAAAGACTTATGAATCTTGCCCGAAGGACTTAC
Found at i:11537602 original size:13 final size:13
Alignment explanation
Indices: 11537568--11537594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11537558 TTTTATTCTC
11537568 TTTATTTTTTTAT
1 TTTATTTTTTTAT
11537581 TTTATTTTTTTAT
1 TTTATTTTTTTAT
11537594 T
1 T
11537595 GTTTTTTTCT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:11543518 original size:22 final size:22
Alignment explanation
Indices: 11543486--11543532 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11543476 AAGATATCTC
*
11543486 TTCCTTCAATGACTTTTAGTAT
1 TTCCTTAAATGACTTTTAGTAT
* *
11543508 TTCCTTAAATGGCTTTTAGTCT
1 TTCCTTAAATGACTTTTAGTAT
11543530 TTC
1 TTC
11543533 TTCTAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (22 bp):
TTCCTTAAATGACTTTTAGTAT
Found at i:11550957 original size:146 final size:145
Alignment explanation
Indices: 11550506--11551045 Score: 579
Period size: 145 Copynumber: 3.7 Consensus size: 145
11550496 TTAAAACACT
* ** * * * * * * * *
11550506 AAAAAT-ATGAAATATTATAAAATTGGGATCTGAAAATTTTCTTGAAAAACCGAGCTCGAGATGT
1 AAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCTGAGCTTGAGAAGG
** * * * *
11550570 C-AAATTACAAAAATACC-CCTATAGGGTATTTTAGTAATTTCACACTTCTT-AGGGTACAACTA
66 CTAAATTACAAAAATACCTTTTATAGGGTATTTTGGTAATTTCATACTT-TTCAGGGTACTACTG
* *
11550632 TGATTTCAATTGCACA
130 TGATTTCAAATGCACC
* * * * * *
11550648 AAAAATCATGAAATATTATGAAATTAAGAGCTGAAGAGTTTCATGACAATCCGAGCTTGAAAAGG
1 AAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCTGAGCTTGAGAAGG
*
11550713 CTAAATTACAAAAATACTCTTATATA-GGTATTTTGGTAATTTCATACTTTTCAGGGTACTACTG
66 CTAAATTACAAAAATAC-CTTTTATAGGGTATTTTGGTAATTTCATACTTTTCAGGGTACTACTG
*
11550777 TGATTTCAAATGCATC
130 TGATTTCAAATGCACC
* * *
11550793 AAAAATTATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATAAAAATCTGAGCTTGGGAAGG
1 AAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCTGAGCTTGAGAAGG
* ** *
11550858 CTAAATTACAAAAATACCTTTTTTAGGGGTATTTTGGTAATTTCATACTTTTCATAGTATTACTG
66 CTAAATTACAAAAATACCTTTTATA-GGGTATTTTGGTAATTTCATACTTTTCAGGGTACTACTG
11550923 TGATTTCAAATGCACC
130 TGATTTCAAATGCACC
* * * * *
11550939 AAAAGTCATGAAACATTATAAAATTAAAATTTAAAAAGTTTCATGAAAA-CTAGAGCTTGAGAAG
1 AAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCT-GAGCTTGAGAAG
* ** * * ** *
11551003 GCCAAATTATGAAAATAACTTTTAAAATGTATTTTAGTAATTT
65 GCTAAATTACAAAAATACCTTTTATAGGGTATTTTGGTAATTT
11551046 TGTACATCCC
Statistics
Matches: 336, Mismatches: 54, Indels: 13
0.83 0.13 0.03
Matches are distributed among these distances:
142 6 0.02
143 46 0.14
144 23 0.07
145 134 0.40
146 127 0.38
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (145 bp):
AAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCTGAGCTTGAGAAGG
CTAAATTACAAAAATACCTTTTATAGGGTATTTTGGTAATTTCATACTTTTCAGGGTACTACTGT
GATTTCAAATGCACC
Found at i:11556850 original size:12 final size:12
Alignment explanation
Indices: 11556810--11556860 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11556800 ACCTCTAATA
*
11556810 AAAATAAAAATT
1 AAAATCAAAATT
* *
11556822 AGAATTAAAATAAT
1 AAAATCAAAAT--T
11556836 AAAATCAAAATT
1 AAAATCAAAATT
11556848 AAAATC-AAATT
1 AAAATCAAAATT
11556859 AA
1 AA
11556861 GATTATCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 7 0.21
12 16 0.48
14 10 0.30
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:11559818 original size:2 final size:2
Alignment explanation
Indices: 11559811--11559838 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11559801 GACCAAAACA
11559811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11559839 TAGTAACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11562726 original size:19 final size:19
Alignment explanation
Indices: 11562659--11562726 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 19
11562649 TTATTAAAAT
*
11562659 TATTAATATTAAAAAAATTA
1 TATTAATA-TAAAAATATTA
* *
11562679 TATT--T-TAATAATAATA
1 TATTAATATAAAAATATTA
* *
11562695 T-TTTATATTAAAATATTA
1 TATTAATATAAAAATATTA
11562713 TATTAATATAAAAA
1 TATTAATATAAAAA
11562727 ATACTTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
15 2 0.06
16 9 0.25
17 1 0.03
18 10 0.28
19 10 0.28
20 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAATATAAAAATATTA
Found at i:11562864 original size:21 final size:21
Alignment explanation
Indices: 11562818--11562877 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
11562808 ATTTTTATTA
*
11562818 ATATTAAAATAGTA-ATA-TTT
1 ATATTAAAA-AATATATATTTT
11562838 ATTATTAAAAAATATATATTTT
1 A-TATTAAAAAATATATATTTT
* *
11562860 ATATT-GAAAATATCTATT
1 ATATTAAAAAATATATATT
11562878 ATTGAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.44
21 15 0.44
22 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
ATATTAAAAAATATATATTTT
Found at i:11562864 original size:24 final size:24
Alignment explanation
Indices: 11562800--11562864 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
11562790 TACTATTCTT
*
11562800 AAAATAT-TATTTTTATTAATATT
1 AAAATATATATTTTTATTAATATA
* *
11562823 AAAATAGTA-ATATTTATTATTA-A
1 AAAATA-TATATTTTTATTAATATA
11562846 AAAATATATATTTTATATT
1 AAAATATATATTTT-TATT
11562865 GAAAATATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 2 0.06
23 16 0.47
24 16 0.47
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAAATATATATTTTTATTAATATA
Found at i:11563327 original size:8 final size:8
Alignment explanation
Indices: 11563295--11563336 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
11563285 AATCTTGAGC
11563295 AAAATTATT
1 AAAA-TATT
*
11563304 CAAATATT
1 AAAATATT
*
11563312 TAAA-ATT
1 AAAATATT
11563319 AAAATATT
1 AAAATATT
11563327 AAAATATT
1 AAAATATT
11563335 AA
1 AA
11563337 TATTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
7 6 0.21
8 20 0.69
9 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATATT
Found at i:11566182 original size:14 final size:14
Alignment explanation
Indices: 11566163--11566189 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11566153 ATTTTCTAAT
11566163 TGGATTACAAGAAG
1 TGGATTACAAGAAG
11566177 TGGATTACAAGAA
1 TGGATTACAAGAA
11566190 ATGGTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
TGGATTACAAGAAG
Found at i:11567145 original size:3 final size:3
Alignment explanation
Indices: 11567139--11567165 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11567129 AAGAGAGAAA
11567139 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
11567166 ATCTGAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11568876 original size:18 final size:18
Alignment explanation
Indices: 11568853--11568936 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
11568843 GAATTGGTTG
11568853 ATTGTTGTTGTTGATGTT
1 ATTGTTGTTGTTGATGTT
*
11568871 ATTGTTTATGTTGTTGATATTGGT
1 ATTG--T-TGTTGTTG--A-TGTT
* * *
11568895 AATGTTGTTATTGATCTT
1 ATTGTTGTTGTTGATGTT
* *
11568913 ATTTTTGTTGTTGTTGTT
1 ATTGTTGTTGTTGATGTT
11568931 ATTGTT
1 ATTGTT
11568937 ACAGGAGTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
18 24 0.49
19 1 0.02
20 1 0.02
21 15 0.31
22 1 0.02
23 1 0.02
24 6 0.12
ACGTcount: A:0.14, C:0.01, G:0.23, T:0.62
Consensus pattern (18 bp):
ATTGTTGTTGTTGATGTT
Found at i:11568901 original size:42 final size:42
Alignment explanation
Indices: 11568855--11568934 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
11568845 ATTGGTTGAT
* *
11568855 TGTTGTTGTTGATGTTATTGTTT-ATGTTGTTGATATTGGTAA
1 TGTTGTTATTGATCTTATT-TTTGATGTTGTTGATATTGGTAA
* *
11568897 TGTTGTTATTGATCTTATTTTTGTTGTTGTTGTTATTG
1 TGTTGTTATTGATCTTATTTTTGATGTTGTTGATATTG
11568935 TTACAGGAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.14, C:0.01, G:0.24, T:0.61
Consensus pattern (42 bp):
TGTTGTTATTGATCTTATTTTTGATGTTGTTGATATTGGTAA
Found at i:11568929 original size:9 final size:9
Alignment explanation
Indices: 11568853--11568936 Score: 50
Period size: 9 Copynumber: 9.7 Consensus size: 9
11568843 GAATTGGTTG
11568853 ATTGTTGTT
1 ATTGTTGTT
* *
11568862 GTTGATGTT
1 ATTGTTGTT
11568871 ATTG-T-TT
1 ATTGTTGTT
11568878 A-TGTTGTT
1 ATTGTTGTT
* *
11568886 GA-TATTGGT
1 -ATTGTTGTT
*
11568895 AATGTTGTT
1 ATTGTTGTT
* *
11568904 ATTGATCTT
1 ATTGTTGTT
*
11568913 ATTTTTGTT
1 ATTGTTGTT
*
11568922 GTTGTTGTT
1 ATTGTTGTT
11568931 ATTGTT
1 ATTGTT
11568937 ACAGGAGTGA
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
6 2 0.04
7 4 0.07
8 4 0.07
9 45 0.82
ACGTcount: A:0.14, C:0.01, G:0.23, T:0.62
Consensus pattern (9 bp):
ATTGTTGTT
Found at i:11576280 original size:22 final size:22
Alignment explanation
Indices: 11576230--11576281 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11576220 TTTCTTTTAA
11576230 AATATT-TAATAAAATATTTTT
1 AATATTATAATAAAATATTTTT
* *
11576251 AACAATTATAA-AAATTATTTGTT
1 AA-TATTATAATAAAATATTT-TT
11576274 AATATTAT
1 AATATTAT
11576282 TTTTTTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATATTATAATAAAATATTTTT
Found at i:11576331 original size:15 final size:15
Alignment explanation
Indices: 11576310--11576352 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11576300 CACTTATATC
11576310 AAATTTTTTTAGTTT
1 AAATTTTTTTAGTTT
* *
11576325 CAATTTTTTATATTTT
1 AAATTTTTT-TAGTTT
11576341 AAACTTTTTTTA
1 AAA-TTTTTTTA
11576353 AAAAATGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 8 0.35
16 9 0.39
17 6 0.26
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (15 bp):
AAATTTTTTTAGTTT
Found at i:11577099 original size:24 final size:25
Alignment explanation
Indices: 11577046--11577102 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
11577036 AAATAATTTC
*
11577046 ATTTTCTTAGTTTTTTTGTTACGATT
1 ATTTT-TTAGTTTTTTTGTTACAATT
11577072 -TTTTTTA-TTTTTTTGTTA-AATT
1 ATTTTTTAGTTTTTTTGTTACAATT
11577094 AATTTTTTA
1 -ATTTTTTA
11577103 CAGAAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 11 0.39
24 10 0.36
25 4 0.14
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (25 bp):
ATTTTTTAGTTTTTTTGTTACAATT
Found at i:11578039 original size:125 final size:126
Alignment explanation
Indices: 11577838--11578070 Score: 292
Period size: 125 Copynumber: 1.9 Consensus size: 126
11577828 AAAAATATGG
* ** * * *
11577838 AATGGATTTTTGAAGGCATTTTTAGCTGAAAGCACCTTCAATAATTCAATCAATAAATTTTCATG
1 AATGGATTTTTGAAAGCATTTTTAGCCCAAAACACCTTCAATAATCCAATCAATAAATTTTCAAG
11577903 AGCAATCATTGAAACG-A-TTTTGATCAAAAACACCTTCAATAATTCATACAAAAAAGTTGA
66 AGCAATCATTG-AACGCAGTTTTGATCAAAAACACCTTCAATAATTCATACAAAAAAGTTGA
* *
11577963 AATGGATTTTTGAAAGCATTTTTAGCCCAAAACACCTTTAATAATCCACAT-AATAAATTTTTAA
1 AATGGATTTTTGAAAGCATTTTTAGCCCAAAACACCTTCAATAATCCA-ATCAATAAATTTTCAA
* ** * * * *
11578027 GTGGGATTATTGAAGGCAGTTTTGGTCAAAAATACCTTCAATAA
65 GAGCAATCATTGAACGCAGTTTTGATCAAAAACACCTTCAATAA
11578071 CATTTTGTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
124 3 0.03
125 62 0.69
126 25 0.28
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (126 bp):
AATGGATTTTTGAAAGCATTTTTAGCCCAAAACACCTTCAATAATCCAATCAATAAATTTTCAAG
AGCAATCATTGAACGCAGTTTTGATCAAAAACACCTTCAATAATTCATACAAAAAAGTTGA
Found at i:11578095 original size:52 final size:53
Alignment explanation
Indices: 11578029--11578132 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
11578019 ATTTTTAAGT
* *
11578029 GGGATTATTGAAGGCAGTTTTGGT-C-AAAAATACCTTCAATAACATTTTGTTA
1 GGGATTATTCAAGGC-GTTTTCGTGCTAAAAATACCTTCAATAACATTTTGTTA
* *
11578081 GGGATTATTCAAGGCGTTTTCTTGCTAAAAATGCCTTCAATAACATTTTGTT
1 GGGATTATTCAAGGCGTTTTCGTGCTAAAAATACCTTCAATAACATTTTGTT
11578133 TAATTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 6 0.13
52 15 0.33
53 25 0.54
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (53 bp):
GGGATTATTCAAGGCGTTTTCGTGCTAAAAATACCTTCAATAACATTTTGTTA
Found at i:11582502 original size:175 final size:175
Alignment explanation
Indices: 11582288--11582630 Score: 501
Period size: 175 Copynumber: 2.0 Consensus size: 175
11582278 ATTTTGTACA
** * * * * *
11582288 AAAATTATTGAAGGTGTATGATGCAGAAAATGCCTTCAATAAATTCTTTCAAAATATTATAACGA
1 AAAATTATTGAAGCCGTATAATGCAAAAAATGCCTTCAATAAATTCTTT-AAAAAATTAGAACAA
* * *
11582353 ATTAATGAAGGCATTTTTT-TGGAATAAATGCCTTCAATAACCCCCTTAAAATTTTAGTAGT-AT
65 ATTAATGAAGGCATTTTTTGTAGAATAAATACCTTCAATAACCACCTTAAAATTTTAGTAGTGA-
*
11582416 AATATTGAAGGCGTTTTCTACTAAAAGACACCTTTAATAAAGTTCAC
129 AATATTGAAAGCGTTTTCTACTAAAAGACACCTTTAATAAAGTTCAC
*
11582463 AAAATTATTGAAGCCGTATAATGGAAAAAATGCCTTCAATAAATTCTTTAAAAAATTAGAACAAA
1 AAAATTATTGAAGCCGTATAATGCAAAAAATGCCTTCAATAAATTCTTTAAAAAATTAGAACAAA
* * * * *
11582528 TTATTGAAGGTATTTTTTGTAGAATAAATACCTTTAATAACCATCTTAAAATTTTAGTAGTGAGA
66 TTAATGAAGGCATTTTTTGTAGAATAAATACCTTCAATAACCACCTTAAAATTTTAGTAGTGAAA
11582593 TATTGAAAGCGTTTTCTACTAAAAGACACCTTTAATAA
131 TATTGAAAGCGTTTTCTACTAAAAGACACCTTTAATAA
11582631 TCCCAAATAA
Statistics
Matches: 149, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
174 29 0.19
175 119 0.80
176 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (175 bp):
AAAATTATTGAAGCCGTATAATGCAAAAAATGCCTTCAATAAATTCTTTAAAAAATTAGAACAAA
TTAATGAAGGCATTTTTTGTAGAATAAATACCTTCAATAACCACCTTAAAATTTTAGTAGTGAAA
TATTGAAAGCGTTTTCTACTAAAAGACACCTTTAATAAAGTTCAC
Found at i:11583001 original size:241 final size:238
Alignment explanation
Indices: 11582463--11583415 Score: 1111
Period size: 240 Copynumber: 4.0 Consensus size: 238
11582453 TAAAGTTCAC
* * * * * * *
11582463 AAAATTATTGAAGCCGTATAATGGAAAAAA-TGCCTTCAATAAATTCTTTAAAAAATTAGAACAA
1 AAAATTATTAAAGGCATATAATGCAAAAAACT-CATTCAATAAATTCCTTCAAAAATTAGAACAA
* * * * * *
11582527 ATTATTGAAGGTATTTTTTGTAGAATAAATACCTTTAATAACCATCTTAAAATTTTAGTAGT-GA
65 ATTAGTAAAGGCA-TTTTTCTAGAATAAATGCCTTTAATAACCATATTAAAATTTTAGTAGTGGA
* *
11582591 GATATTGAAAGCGTTTTCTACTAAAAGACACCTTTAATAATCCCAAATAATTTTTAAAAGAAAAT
129 -ATATT-AAAGCGTTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTTTAAAAGAAAAT
* *
11582656 TATTGAAAGCATTTTTTCTCAAGAAACACCTTCAATAATTCTTTACA
192 TATTGAAAGCATTTTTTCTCAAGAAACACCTTCAATAATTCTCTATA
* *
11582703 AAAAATATTGAAGGCATATAATGCAAAAAACGTC-TTCAATAAATTCCTTCAAAAATTAGAACGA
1 AAAATTATTAAAGGCATATAATGCAAAAAAC-TCATTCAATAAATTCCTTCAAAAATTAGAAC-A
* ** *
11582767 AA-TAGTAAAGGCATTTTTCTGGAATTATTTGCCTTTAATAACCATATTAAAATTTTAATAGTGG
64 AATTAGTAAAGGCATTTTTCTAGAA-TAAATGCCTTTAATAACCATATTAAAATTTTAGTAGTGG
* ** * * * *
11582831 AGTATTGAAAGCG-TTTCTACTAGAAGATGCCTTTAATAATTCTAAACAATTTTCAAAA-AACAT
128 AATATT-AAAGCGTTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTTTAAAAGAAAAT
* * * *
11582894 TACTGAAGGCATTTTTTTTTTTCAAGAAACACCTTTAATAATTCTCTATA
192 TATTGAAAGCA---TTTTTTCTCAAGAAACACCTTCAATAATTCTCTATA
* * * * * *
11582944 AAAATTATTAAAGGCGTATACTACAAAAAACTCATTCAATAAATTCTTTTAAAAATTAGAACGAA
1 AAAATTATTAAAGGCATATAATGCAAAAAACTCATTCAATAAATTCCTTCAAAAATTAGAACAAA
* * *
11583009 TTAGTAAAGGCATTTTTCTAGAATAAATGCCTTCAATAACCATCTTAAAATTTTAGTAGTAGAAT
66 TTAGTAAAGGCATTTTTCTAGAATAAATGCCTTTAATAACCATATTAAAATTTTAGTAGTGGAAT
* * *
11583074 ATTAAATGTGTTTTCTACTAGAAGACAACTTTAGTAATCCCAAACAATTTTTAAAAGAAAATTAT
131 ATTAAA-GCGTTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTTTAAAAGAAAATTAT
**
11583139 T-AAATGCATTTTTTCTCAAGAAATGCCTTCAATAATTCTCTATA
195 TGAAA-GCATTTTTTCTCAAGAAACACCTTCAATAATTCTCTATA
*
11583183 AAAATTATTAAAGGCATATAATGCAAAAAAATACCA-TCAATAAATTCCTTCAAAAATTAGAACA
1 AAAATTATTAAAGGCATATAATGCAAAAAACT--CATTCAATAAATTCCTTCAAAAATTAGAACA
11583247 AATTAGTGAAA-GCATTTTTCTAGAATAAATG-CTTTCAATAACCATATTAAAATTTTAGTAGTG
64 AATTAGT-AAAGGCATTTTTCTAGAATAAATGCCTTT-AATAACCATATTAAAATTTTAGTAGTG
* * * * * * *
11583310 AAATATTATAGGCATTTTCTACTAGAAGACGCCTTCAATAATCCTAAACAATTTTTAAAAGGAAA
127 GAATATTA-AAGCGTTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTTTAAAAGAAAA
* **
11583375 TTATT-AAAG-ATGTTTTTTCTCAAAAAATGCCTTCAATAATT
191 TTATTGAAAGCA--TTTTTTCTCAAGAAACACCTTCAATAATT
11583416 TTCTCTTAAA
Statistics
Matches: 609, Mismatches: 83, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
238 14 0.02
239 114 0.19
240 313 0.51
241 157 0.26
242 11 0.02
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (238 bp):
AAAATTATTAAAGGCATATAATGCAAAAAACTCATTCAATAAATTCCTTCAAAAATTAGAACAAA
TTAGTAAAGGCATTTTTCTAGAATAAATGCCTTTAATAACCATATTAAAATTTTAGTAGTGGAAT
ATTAAAGCGTTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTTTAAAAGAAAATTATT
GAAAGCATTTTTTCTCAAGAAACACCTTCAATAATTCTCTATA
Found at i:11583117 original size:480 final size:481
Alignment explanation
Indices: 11582497--11583369 Score: 1289
Period size: 480 Copynumber: 1.8 Consensus size: 481
11582487 AAAAAATGCC
* * * *
11582497 TTCAATAAATTCTTTAAAAAATTAGAACAAATTATTGAAGGTATTTTTTGTAGAATAAATACCTT
1 TTCAATAAATTCTTTAAAAAATTAGAACAAATTAGTAAAGGCATTTTTTCTAGAATAAATACCTT
* *
11582562 TAATAACCATCTTAAAATTTTAGTAGTGAGATATTGAAAGCGTTTTCTACTAAAAGACACCTTTA
66 CAATAACCATCTTAAAATTTTAGTAGTGAGATATTGAAAGCGTTTTCTACTAAAAGACAACTTTA
*
11582627 ATAATCCCAAATAATTTTTAAAAGAAAATTATTGAAA-GCATTTTTTCTCAAGAAACACCTTCAA
131 ATAATCCCAAACAATTTTTAAAAGAAAATTATT-AAATGCATTTTTTCTCAAGAAACACCTTCAA
* * * *
11582691 TAATTCTTTACAAAAAATATTGAAGGCATATAATGCAAAAAACGT-CTTCAATAAATTCCTTCAA
195 TAATTCTCTACAAAAAATATTAAAGGCATATAATGCAAAAAA-ATACATCAATAAATTCCTTCAA
* **
11582755 AAATTAGAACGAAA-TAGT-AAAGGCATTTTTCTGGAATTATTTGCCTTT-AATAACCATATTAA
259 AAATTAGAAC-AAATTAGTGAAA-GCATTTTTCTAGAA-TAAATG-CTTTCAATAACCATATTAA
* * * * *
11582817 AATTTTAATAGTGGAGTATTGA-AAGC-GTTTCTACTAGAAGATGCCTTTAATAATTCTAAACAA
320 AATTTTAATAGTGAAATATT-ATAAGCAGTTTCTACTAGAAGACGCCTTCAATAATCCTAAACAA
11582880 TTTTCAAAAAACATTACTGAAGGCATTTTTTTTTTTCAAGAAACACCTTTAATAATTCTCTATAA
384 TTTTCAAAAAACATTACTGAAGGCATTTTTTTTTTTCAAGAAACACCTTTAATAATTCTCTATAA
11582945 AAATTATTAAAGGCGTATACTACAAAAAACTCA
449 AAATTATTAAAGGCGTATACTACAAAAAACTCA
* * *
11582978 TTCAATAAATTCTTTTAAAAATTAGAACGAATTAGTAAAGGCA-TTTTTCTAGAATAAATGCCTT
1 TTCAATAAATTCTTTAAAAAATTAGAACAAATTAGTAAAGGCATTTTTTCTAGAATAAATACCTT
* *
11583042 CAATAACCATCTTAAAATTTTAGTAGT-AGAATATT-AAATGTGTTTTCTACTAGAAGACAACTT
66 CAATAACCATCTTAAAATTTTAGTAGTGAG-ATATTGAAA-GCGTTTTCTACTAAAAGACAACTT
* **
11583105 TAGTAATCCCAAACAATTTTTAAAAGAAAATTATTAAATGCATTTTTTCTCAAGAAATGCCTTCA
129 TAATAATCCCAAACAATTTTTAAAAGAAAATTATTAAATGCATTTTTTCTCAAGAAACACCTTCA
* *
11583170 ATAATTCTCTATAAAAATTATTAAAGGCATATAATGCAAAAAAATACCATCAATAAATTCCTTCA
194 ATAATTCTCTACAAAAAATATTAAAGGCATATAATGCAAAAAAATA-CATCAATAAATTCCTTCA
11583235 AAAATTAGAACAAATTAGTGAAAGCATTTTTCTAGAATAAATGCTTTCAATAACCATATTAAAAT
258 AAAATTAGAACAAATTAGTGAAAGCATTTTTCTAGAATAAATGCTTTCAATAACCATATTAAAAT
* * *
11583300 TTTAGTAGTGAAATATTATAGGCATTTTCTACTAGAAGACGCCTTCAATAATCCTAAACAATTTT
323 TTTAATAGTGAAATATTATAAGCAGTTTCTACTAGAAGACGCCTTCAATAATCCTAAACAATTTT
*
11583365 TAAAA
388 CAAAA
11583370 GGAAATTATT
Statistics
Matches: 349, Mismatches: 33, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
479 14 0.04
480 208 0.60
481 124 0.36
482 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (481 bp):
TTCAATAAATTCTTTAAAAAATTAGAACAAATTAGTAAAGGCATTTTTTCTAGAATAAATACCTT
CAATAACCATCTTAAAATTTTAGTAGTGAGATATTGAAAGCGTTTTCTACTAAAAGACAACTTTA
ATAATCCCAAACAATTTTTAAAAGAAAATTATTAAATGCATTTTTTCTCAAGAAACACCTTCAAT
AATTCTCTACAAAAAATATTAAAGGCATATAATGCAAAAAAATACATCAATAAATTCCTTCAAAA
ATTAGAACAAATTAGTGAAAGCATTTTTCTAGAATAAATGCTTTCAATAACCATATTAAAATTTT
AATAGTGAAATATTATAAGCAGTTTCTACTAGAAGACGCCTTCAATAATCCTAAACAATTTTCAA
AAAACATTACTGAAGGCATTTTTTTTTTTCAAGAAACACCTTTAATAATTCTCTATAAAAATTAT
TAAAGGCGTATACTACAAAAAACTCA
Found at i:11595973 original size:80 final size:80
Alignment explanation
Indices: 11595865--11596035 Score: 211
Period size: 79 Copynumber: 2.1 Consensus size: 80
11595855 ACTATTAAGA
* *
11595865 AAACCATTCAGCCATATGATTTAACCCCCCAATATCATACAAAATC-ATTCAACAAAACAATATC
1 AAACCATTCAGACATATGATTCAACCCCCCAATATCATAC--AATCTATTCAACAAAACAATATC
* *
11595929 AGACAACAAGGTTTAGC
64 AAACAACAAGGTTCAGC
* * *** * *
11595946 AAACCATTCA-ACATATGATTCAGCCCCCCAATATTATACAATCTATTTGGCAATATAATATCAA
1 AAACCATTCAGACATATGATTCAACCCCCCAATATCATACAATCTATTCAACAAAACAATATCAA
11596010 ACAACAAGGTTCAGC
66 ACAACAAGGTTCAGC
11596025 AAACCATTCAG
1 AAACCATTCAG
11596036 CATCCCAATA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 4 0.05
79 38 0.49
80 25 0.32
81 10 0.13
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.24
Consensus pattern (80 bp):
AAACCATTCAGACATATGATTCAACCCCCCAATATCATACAATCTATTCAACAAAACAATATCAA
ACAACAAGGTTCAGC
Found at i:11605707 original size:134 final size:134
Alignment explanation
Indices: 11605548--11605869 Score: 412
Period size: 134 Copynumber: 2.4 Consensus size: 134
11605538 TATTTTTTTA
* * * *
11605548 TACAAATGCCACCAAAGCAACGGCGTTTTTTTCATAAAAATATCACTAAATTAGT-AGCGTCTCA
1 TACAAATGCCACCAAAGCAATGGCGTTTTTCTCATAAAAATACCACTAAATTAGTGA-CATCTCA
* ** ** * * *
11605612 AATATACAAACGTCGCTAATATAAAGGTGTTTTCAAATACAAATGCCTTTAAAGCAGTGGCATTT
65 AAAATACAAACACCGCTAATATAAAGGCATTTTCAAATACAAATGCCTCTAAAGCAATGACATTT
*
11605677 TTAGC
130 TCAGC
*
11605682 TACAAATGCCAGCAAAGCAATGGCGTTTTTCTCATAAAAATACCACTAAATTAGTGACATCTCAA
1 TACAAATGCCACCAAAGCAATGGCGTTTTTCTCATAAAAATACCACTAAATTAGTGACATCTCAA
* * * * *
11605747 AAATATAAACACCGCTAATATAGAGGCATTTTCATATACAAATGCCTCTAAAGTAATGACGTTTT
66 AAATACAAACACCGCTAATATAAAGGCATTTTCAAATACAAATGCCTCTAAAGCAATGACATTTT
*
11605812 CAGT
131 CAGC
* * * *
11605816 TACAAATGCCACCAAAGTAATGACGTTTTTCTCATAAAAATGCCACTAATTTAG
1 TACAAATGCCACCAAAGCAATGGCGTTTTTCTCATAAAAATACCACTAAATTAG
11605870 CGTCGTCTCA
Statistics
Matches: 162, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
134 161 0.99
135 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (134 bp):
TACAAATGCCACCAAAGCAATGGCGTTTTTCTCATAAAAATACCACTAAATTAGTGACATCTCAA
AAATACAAACACCGCTAATATAAAGGCATTTTCAAATACAAATGCCTCTAAAGCAATGACATTTT
CAGC
Found at i:11605812 original size:33 final size:33
Alignment explanation
Indices: 11605775--11605844 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
11605765 TATAGAGGCA
* *
11605775 TTTTCA-TATACAAATGCCTCTAAAGTAATGACG
1 TTTTCAGT-TACAAATGCCACCAAAGTAATGACG
11605808 TTTTCAGTTACAAATGCCACCAAAGTAATGACG
1 TTTTCAGTTACAAATGCCACCAAAGTAATGACG
11605841 TTTT
1 TTTT
11605845 TCTCATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
TTTTCAGTTACAAATGCCACCAAAGTAATGACG
Found at i:11605857 original size:34 final size:33
Alignment explanation
Indices: 11605775--11605861 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
11605765 TATAGAGGCA
* * * *
11605775 TTTTCATATACAAATGCCTCTAAAGTAATGACG
1 TTTTCACATAAAAATGCCACCAAAGTAATGACG
** *
11605808 TTTTCAGTTACAAATGCCACCAAAGTAATGACG
1 TTTTCACATAAAAATGCCACCAAAGTAATGACG
*
11605841 TTTTTCTCATAAAAATGCCAC
1 -TTTTCACATAAAAATGCCAC
11605862 TAATTTAGCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 29 0.64
34 16 0.36
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (33 bp):
TTTTCACATAAAAATGCCACCAAAGTAATGACG
Found at i:11606460 original size:14 final size:14
Alignment explanation
Indices: 11606442--11606483 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
11606432 ATAGTTATAA
* *
11606442 AGTTTTTATTATTT
1 AGTTTTTATGATGT
*
11606456 TGTTTTTATGATGT
1 AGTTTTTATGATGT
11606470 AGTTTTTATGATGT
1 AGTTTTTATGATGT
11606484 GCTCTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (14 bp):
AGTTTTTATGATGT
Found at i:11609521 original size:20 final size:20
Alignment explanation
Indices: 11609463--11609521 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
11609453 ATCGTCTCTC
*
11609463 TTTTTTATTT-TTTTATTAAA
1 TTTTTTATTTATTTT-TAAAA
* * *
11609483 TTTATATATTTAATATTAAAA
1 TTT-TTTATTTATTTTTAAAA
11609504 TTTTTTATTTATTTTTAA
1 TTTTTTATTTATTTTTAA
11609522 TTTTTAAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 15 0.50
21 13 0.43
22 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTATTTATTTTTAAAA
Found at i:11610223 original size:3 final size:3
Alignment explanation
Indices: 11610215--11610263 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
11610205 TATATCATTG
11610215 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11610263 T
1 T
11610264 CACAGGGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11610875 original size:21 final size:20
Alignment explanation
Indices: 11610851--11610892 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11610841 TCACAAAACA
11610851 AAAACATAGTGGATTTTTGGG
1 AAAA-ATAGTGGATTTTTGGG
* *
11610872 AAAAATGGTTGATTTTTGGG
1 AAAAATAGTGGATTTTTGGG
11610892 A
1 A
11610893 GAATGGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (20 bp):
AAAAATAGTGGATTTTTGGG
Found at i:11611438 original size:14 final size:15
Alignment explanation
Indices: 11611414--11611456 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
11611404 GGTTTTTCTT
11611414 TTTTCATTTTATTT-A
1 TTTT-ATTTTATTTCA
11611429 TATTTA-TTTATTTCA
1 T-TTTATTTTATTTCA
11611444 TTTTATTTTATTT
1 TTTTATTTTATTT
11611457 TTCTAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.44
15 11 0.44
16 3 0.12
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:11615309 original size:60 final size:59
Alignment explanation
Indices: 11615220--11615332 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
11615210 CTTTTTGTTG
*
11615220 AAAAAAGAAAAAAAATTGATTAGGCAAAATGCCAATATGCTCCACCAAAAAAACAAAAA
1 AAAAAAGAAAAAAAATTGATTAGGCAAAATGCCAATATGCTACACCAAAAAAACAAAAA
* * * * * *
11615279 AAAAAATGAAAAGAAATTG-TTGGGGTAAAATGCTAGTATGCTATACCAAAAAAA
1 AAAAAA-GAAAAAAAATTGATT-AGGCAAAATGCCAATATGCTACACCAAAAAAA
11615333 AAATTGATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 8 0.18
60 37 0.82
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.18
Consensus pattern (59 bp):
AAAAAAGAAAAAAAATTGATTAGGCAAAATGCCAATATGCTACACCAAAAAAACAAAAA
Found at i:11615657 original size:21 final size:20
Alignment explanation
Indices: 11615619--11615656 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11615609 AAGATGTGCA
11615619 AAAAAAAAAAAAGAAAAAGC
1 AAAAAAAAAAAAGAAAAAGC
*
11615639 AAAAAAAAATAAGAAAAA
1 AAAAAAAAAAAAGAAAAA
11615657 AAATAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAAGAAAAAGC
Found at i:11615668 original size:20 final size:18
Alignment explanation
Indices: 11615618--11615659 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
11615608 AAAGATGTGC
11615618 AAAAAAAAAAA-AAGAAA
1 AAAAAAAAAAATAAGAAA
11615635 AAGCAAAAAAAAATAAGAAA
1 AA--AAAAAAAAATAAGAAA
11615655 AAAAA
1 AAAAA
11615660 TAAACAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 3 0.14
19 9 0.41
20 8 0.36
ACGTcount: A:0.88, C:0.02, G:0.07, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAATAAGAAA
Found at i:11616713 original size:119 final size:119
Alignment explanation
Indices: 11616429--11616948 Score: 475
Period size: 119 Copynumber: 4.4 Consensus size: 119
11616419 TTTTAGTTTA
* * * * *
11616429 TGGTTTCATCTCGATCATTTATCTTCAACCTCGACTCAATCTTGGTTGC-TTT-ATTTTGACT-A
1 TGGTTTCATCTCGGTCATTTATTTTCGACCTCGACTCAGTCTTGG-T-CATTTCATTTTGATTCA
* * * * * * *
11616491 -GTAGTTTCATCTCGATCACCTGATCTTGGCTTAGTCCATATCACTTT--T-TAACTTA
64 TG-A-TTTTATCTCGATCACTTGATCTTGGCTTAGTCTAGATCA-TTTCATATGATTTG
* * * * *
11616546 TGGTTTCATCTCGATCGTTTATCTTCGACCTCGATTCAATCTTGGTCATTTCATTTTGATTCATG
1 TGGTTTCATCTCGGTCATTTATTTTCGACCTCGACTCAGTCTTGGTCATTTCATTTTGATTCATG
* *
11616611 GTTTTGTCTCGATCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTTG
66 ATTTTATCTCGATCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTTG
* * * *
11616665 TGGTTTCATCTGGGTTATTTATTTTTGACCTCGACTCAGCCTTGGTCATTTCATTTTGATTCATG
1 TGGTTTCATCTCGGTCATTTATTTTCGACCTCGACTCAGTCTTGGTCATTTCATTTTGATTCATG
* * * * *
11616730 ATTTCATCCCAATCACTTGATCTTGGCTCAGT-TCAAATCATTTCATATGATTTG
66 ATTTTATCTCGATCACTTGATCTTGGCTTAGTCT-AGATCATTTCATATGATTTG
* * * ** * *
11616784 TGG-TTCATCTTGGTCATTTATTTTCAATCTCGACTTGGTCTTGATCATTTCATTTTGACTCATG
1 TGGTTTCATCTCGGTCATTTATTTTCGACCTCGACTCAGTCTTGGTCATTTCATTTTGATTCATG
* * * * * *
11616848 ATTTTATCTCGATCACTTGATCTTGGCTTAATCTAGATTATTTTATACGACTTA
66 ATTTTATCTCGATCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTTG
* ** ** * *
11616902 TGGTTT-AGCTCCAATCATTTACCTTCGACCTCGACTCGGTCCTGGTC
1 TGGTTTCATCT-CGGTCATTTATTTTCGACCTCGACTCAGTCTTGGTC
11616949 GTTTTATCTT
Statistics
Matches: 331, Mismatches: 61, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
115 1 0.00
116 7 0.02
117 84 0.25
118 101 0.31
119 138 0.42
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (119 bp):
TGGTTTCATCTCGGTCATTTATTTTCGACCTCGACTCAGTCTTGGTCATTTCATTTTGATTCATG
ATTTTATCTCGATCACTTGATCTTGGCTTAGTCTAGATCATTTCATATGATTTG
Found at i:11617581 original size:3 final size:3
Alignment explanation
Indices: 11617575--11617797 Score: 169
Period size: 3 Copynumber: 76.0 Consensus size: 3
11617565 AATTTTCATC
* * * *
11617575 ATT ATT ACT ACT ATT ATT -TT CTTT ATT ATT ATT AGT ATT ATT -TAT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T
* * * * * * *
11617620 ATT A-T AGT ATA ATT -TG CTT ATC ATT ATT ATT GTT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11617666 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * **
11617714 ATT A-T AGT ATGG CTT AGT ATT A-T AGT A-T AGA ATT ATAT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
11617758 A-T AGTT -TT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11617798 CAATTTTCTT
Statistics
Matches: 179, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
2 18 0.10
3 153 0.85
4 8 0.04
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:11617593 original size:24 final size:24
Alignment explanation
Indices: 11617566--11617617 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11617556 TCCGAGGTCA
11617566 ATTTTCATCATTATTACTACTATT
1 ATTTTCATCATTATTACTACTATT
* * * *
11617590 ATTTTCTTTATTATTATTAGTATT
1 ATTTTCATCATTATTACTACTATT
11617614 ATTT
1 ATTT
11617618 ATATTATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTCATCATTATTACTACTATT
Found at i:11618583 original size:9 final size:8
Alignment explanation
Indices: 11618565--11618619 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
11618555 TGATCGTAGG
11618565 TTTTT-TT
1 TTTTTATT
*
11618572 TTTCTATT
1 TTTTTATT
11618580 TTTTTATT
1 TTTTTATT
11618588 TTTTTGATT
1 TTTTT-ATT
11618597 TTATTTGATT
1 TT-TTT-ATT
*
11618607 TTATT-TT
1 TTTTTATT
11618614 TTTTTA
1 TTTTTA
11618620 AAACTCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 10 0.25
8 14 0.35
9 7 0.17
10 9 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:11618749 original size:16 final size:16
Alignment explanation
Indices: 11618725--11618763 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
11618715 AAATGATTCG
11618725 ATAACAAAATATTTTCAA
1 ATAA-AAAA-ATTTTCAA
11618743 ATAAAAAAATTTTCAA
1 ATAAAAAAATTTTCAA
11618759 ATAAA
1 ATAAA
11618764 GCTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 4 0.19
18 4 0.19
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAAAAATTTTCAA
Found at i:11618858 original size:24 final size:22
Alignment explanation
Indices: 11618811--11618869 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 22
11618801 TTTAAGTTTT
*
11618811 AAAAAAATATTT--ATAAAAAG
1 AAAAAAATCTTTCAATAAAAAG
*
11618831 AAAAAAATTTCTTTCAATAAAAAT
1 AAAAAAA--TCTTTCAATAAAAAG
11618855 AAAAAAATCTTTCAA
1 AAAAAAATCTTTCAA
11618870 AATAAATCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 7 0.21
22 12 0.36
24 14 0.42
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAAATCTTTCAATAAAAAG
Found at i:11618875 original size:24 final size:23
Alignment explanation
Indices: 11618823--11618869 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
11618813 AAAAATATTT
11618823 ATAAAAAGAAAAAAATTTCTTTCA
1 ATAAAAAGAAAAAAA-TTCTTTCA
*
11618847 ATAAAAATAAAAAAA-TCTTTCA
1 ATAAAAAGAAAAAAATTCTTTCA
11618869 A
1 A
11618870 AATAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
24 14 0.64
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAAAAAGAAAAAAATTCTTTCA
Found at i:11618876 original size:22 final size:21
Alignment explanation
Indices: 11618810--11618876 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
11618800 TTTTAAGTTT
* *
11618810 TAAAAAAATATTT-ATAAAAA
1 TAAAAAAATCTTTCAAAAAAA
*
11618830 GAAAAAAATTTCTTTCAATAAAAA
1 TAAAAAAA--TCTTTCAA-AAAAA
11618854 TAAAAAAATCTTTCAAAATAAA
1 TAAAAAAATCTTTCAAAA-AAA
11618876 T
1 T
11618877 CCATGAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 2 0.05
22 16 0.42
23 1 0.03
24 12 0.32
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (21 bp):
TAAAAAAATCTTTCAAAAAAA
Found at i:11621899 original size:20 final size:20
Alignment explanation
Indices: 11621862--11621899 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11621852 TATAAATCTC
*
11621862 TTTTACTTTTTTAGATTTCA
1 TTTTACTTTTTTACATTTCA
11621882 TTTTA-TTTTTTATCATTT
1 TTTTACTTTTTTA-CATTT
11621900 TAATAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTACTTTTTTACATTTCA
Found at i:11622515 original size:46 final size:46
Alignment explanation
Indices: 11622438--11622528 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
11622428 AAAAAAAGGA
*
11622438 AAAAAATAAAGAGAAATTGTTGGGGCAAAATGCCAATA-TGCTCCAC
1 AAAAAATAAAGAGAAATTGATGGGGCAAAATGCCAA-AGTGCTCCAC
*
11622484 AAAAAA-AAAGAGAATATTGATGGGGTC-AAATGTCAAAGTGCTCCA
1 AAAAAATAAAGAGAA-ATTGATGGGG-CAAAATGCCAAAGTGCTCCA
11622529 TATAAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
45 9 0.22
46 30 0.75
47 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (46 bp):
AAAAAATAAAGAGAAATTGATGGGGCAAAATGCCAAAGTGCTCCAC
Found at i:11623768 original size:117 final size:117
Alignment explanation
Indices: 11623585--11624040 Score: 341
Period size: 117 Copynumber: 3.9 Consensus size: 117
11623575 AGTCCAAATC
11623585 ACCTCATAACTTATGGTTTCATCTCAATCATTTATCTTCGACCTCGACTCAATCTTGATCACTTC
1 ACCTCATAACTTATGGTTTCATCTCAATCATTTATCTTCGACCTCGACTCAATCTTGATCACTTC
*
11623650 ATTTTGACTCGTGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATT
66 ATTTTGACTCATGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATT
* * * * * * * * * * *
11623702 ACCTCCTAACTTGTGGTTTCATCTTAGTCGTTTATCTTTGACCTTGACTTAGTCTTGGTCGCTTC
1 ACCTCATAACTTATGGTTTCATCTCAATCATTTATCTTCGACCTCGACTCAATCTTGATCACTTC
* * * * * *
11623767 ATTTTGATTCATGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCATATC
66 ATTTTGACTCATGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATT
** * ** *
11623819 ATTTCATATGA-TTCATGGTTTCATC-CTAATCATTTAT-TT-GTTACCTTGACTCGGTCTTGGT
1 ACCTCATA--ACTT-ATGGTTTCATCTC-AATCATTTATCTTCG--ACCTCGACTCAATCTTGAT
* * * * * * * *
11623880 CATTTCATTTTGATTCATGGTTTTAT-CTGATCACTTGATCTTGGCTTAGTCTAGATC
60 CACTTCATTTTGACTCATGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATT
** * * * * ** * ** *
11623937 ATTTTATATGA-TTCATGGTTTCATCCCGATCATTTATTTTTTACCTTGACTCGGTCTTGGTCAC
1 ACCTCATA--ACTT-ATGGTTTCATCTCAATCATTTATCTTCGACCTCGACTCAATCTTGATCAC
** * *
11624001 TTCATTTTGACT-AGTGGTTTTGTCCTAGTCATTTGATCTT
63 TTCATTTTGACTCA-TGGTTTCATCCTAATCACTTGATCTT
11624041 GGCTTAGTCC
Statistics
Matches: 285, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
117 106 0.37
118 104 0.36
119 75 0.26
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (117 bp):
ACCTCATAACTTATGGTTTCATCTCAATCATTTATCTTCGACCTCGACTCAATCTTGATCACTTC
ATTTTGACTCATGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATT
Found at i:11623832 original size:56 final size:56
Alignment explanation
Indices: 11623771--11623968 Score: 175
Period size: 56 Copynumber: 3.4 Consensus size: 56
11623761 CGCTTCATTT
*
11623771 TGATTCATGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCATATCATTTCATA
1 TGATTCATGGTTTCATCCTGATCACTTGATCTTGGCTCAGTCCATATCATTTCATA
* * * * * * * *
11623827 TGATTCATGGTTTCATCCTAATCATTTATTTGTTACCTTGACTCGGT-CTTGGTCATTTCATTT
1 TGATTCATGGTTTCATCCTGATC----ACTTG--ATCTTGGCTCAGTCCAT-ATCATTTCA-TA
* * * * *
11623890 TGATTCATGGTTTTAT-CTGATCACTTGATCTTGGCTTAGTCTAGATCATTTTATA
1 TGATTCATGGTTTCATCCTGATCACTTGATCTTGGCTCAGTCCATATCATTTCATA
*
11623945 TGATTCATGGTTTCATCCCGATCA
1 TGATTCATGGTTTCATCCTGATCA
11623969 TTTATTTTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
55 16 0.15
56 44 0.41
58 4 0.04
60 4 0.04
61 2 0.02
62 22 0.20
63 16 0.15
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.45
Consensus pattern (56 bp):
TGATTCATGGTTTCATCCTGATCACTTGATCTTGGCTCAGTCCATATCATTTCATA
Found at i:11623890 original size:119 final size:120
Alignment explanation
Indices: 11623597--11624146 Score: 498
Period size: 119 Copynumber: 4.6 Consensus size: 120
11623587 CTCATAACTT
* * *
11623597 ATGGTTTCAT-CTCAATCATTTATCTTCG--ACCTCGACTCAATCTTGATCACTTCATTTTGACT
1 ATGGTTTCATCCT-AATCATTTATCTT-GTTACCTTGACTCAGTCTTGGTCACTTCATTTTGACT
* * * * * ** *
11623659 CGTGGTTTCATCCTAATCACTTGATCTTAGCTCAATCTAGATTACCTCCTA--ACTT-
64 CATGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCAGATCATTTCATATGA-TTC
* * * * * * * *
11623714 GTGGTTTCATCTTAGTCGTTTATCTT-TGACCTTGACTTAGTCTTGGTCGCTTCATTTTGATTCA
1 ATGGTTTCATCCTAATCATTTATCTTGTTACCTTGACTCAGTCTTGGTCACTTCATTTTGACTCA
*
11623778 TGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCATATCATTTCATATGATTC
66 TGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCAGATCATTTCATATGATTC
* * *
11623833 ATGGTTTCATCCTAATCATTTAT-TTGTTACCTTGACTCGGTCTTGGTCATTTCATTTTGATTCA
1 ATGGTTTCATCCTAATCATTTATCTTGTTACCTTGACTCAGTCTTGGTCACTTCATTTTGACTCA
* * * * *
11623897 TGGTTTTAT-CTGATCACTTGATCTTGGCTTAGTCTAGATCATTTTATATGATTC
66 TGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCAGATCATTTCATATGATTC
** * *
11623951 ATGGTTTCATCCCGATCATTTAT-TTTTTACCTTGACTCGGTCTTGGTCACTTCATTTTGACT-A
1 ATGGTTTCATCCTAATCATTTATCTTGTTACCTTGACTCAGTCTTGGTCACTTCATTTTGACTCA
** * * * *
11624014 GTGGTTTTGTCCT-AGTCATTTGATCTTGGCTTAGTCCAGATCATTTCATATGATTT
66 -TGGTTTCATCCTGA-TCACTTGATCTTGGCTCAATCCAGATCATTTCATATGATTC
** * * * * * *
11624070 ATGGTTTCA-CCTTGGTCATTTACCTT-TAACCTTGACTTAGTTTTGGTCGCTTTATCTTCTAGA
1 ATGGTTTCATCC-TAATCATTTATCTTGTTACCTTGACTCAGTCTTGGTCACTTCAT-TT-T-GA
*
11624133 CTCGTGGTTTCATC
62 CTCATGGTTTCATC
11624147 TCAGTCATTC
Statistics
Matches: 361, Mismatches: 56, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
117 91 0.25
118 113 0.31
119 140 0.39
120 4 0.01
121 1 0.00
122 12 0.03
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (120 bp):
ATGGTTTCATCCTAATCATTTATCTTGTTACCTTGACTCAGTCTTGGTCACTTCATTTTGACTCA
TGGTTTCATCCTGATCACTTGATCTTGGCTCAATCCAGATCATTTCATATGATTC
Found at i:11624780 original size:3 final size:3
Alignment explanation
Indices: 11624760--11624862 Score: 56
Period size: 3 Copynumber: 34.7 Consensus size: 3
11624750 GATAATTTGC
* * * *
11624760 TTA TCA TTA TTA TCA TTA TTA TTG TTA TTA TTA TTA TTA -TA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
11624806 GCTT- TGTA TTA -TA GTA -TA GCA TTA TATA TTA TTA -TA CTTA TTA
1 --TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA
11624849 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
11624863 TGATTTTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
2 11 0.14
3 62 0.77
4 6 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:11625114 original size:21 final size:21
Alignment explanation
Indices: 11625090--11625135 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11625080 TCATAGAACA
11625090 AAAACAAAATGGATTTTTGGG
1 AAAACAAAATGGATTTTTGGG
** *
11625111 AAAA-ACGATTGATTTTTGGG
1 AAAACAAAATGGATTTTTGGG
11625131 AAAAC
1 AAAAC
11625136 GAGTGTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (21 bp):
AAAACAAAATGGATTTTTGGG
Found at i:11625726 original size:6 final size:6
Alignment explanation
Indices: 11625717--11625757 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
11625707 GATTTTTCTT
11625717 TTTTTA -TTTTA TTTTTA TTTTTA TATTTTGA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTT-A TTTTTA TTTTT
11625758 TTAAAACTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 6 0.19
6 20 0.65
7 4 0.13
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11625732 original size:19 final size:20
Alignment explanation
Indices: 11625707--11625760 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
11625697 TCCGATCGCA
*
11625707 GATTTTTCTTTTTTTATTTT
1 GATTTTTATTTTTTTATTTT
*
11625727 -ATTTTTATTTTTATATTTT
1 GATTTTTATTTTTTTATTTT
11625746 GA-TTTTATTTTTTTA
1 GATTTTTATTTTTTTA
11625761 AAACTCATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 29 0.97
20 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (20 bp):
GATTTTTATTTTTTTATTTT
Found at i:11625736 original size:25 final size:25
Alignment explanation
Indices: 11625708--11625757 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11625698 CCGATCGCAG
* * *
11625708 ATTTTTCTTTTTTTATTTTATTTTT
1 ATTTTTATATTTTGATTTTATTTTT
11625733 ATTTTTATATTTTGATTTTATTTTT
1 ATTTTTATATTTTGATTTTATTTTT
11625758 TTAAAACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (25 bp):
ATTTTTATATTTTGATTTTATTTTT
Found at i:11625977 original size:19 final size:21
Alignment explanation
Indices: 11625953--11625996 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
11625943 AAATATTTAT
11625953 AAAAAAAATC-CTTTC-AATA
1 AAAAAAAATCACTTTCAAATA
* *
11625972 AAAAAATATCATTTTCAAATA
1 AAAAAAAATCACTTTCAAATA
11625993 AAAA
1 AAAA
11625997 TCTTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAAAATCACTTTCAAATA
Found at i:11625987 original size:20 final size:19
Alignment explanation
Indices: 11625951--11625996 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
11625941 AAAAATATTT
11625951 ATAAAAAAAATCCTTTC-A
1 ATAAAAAAAATCCTTTCAA
*
11625969 ATAAAAAAATATCATTTTCAA
1 ATAAAAAAA-ATC-CTTTCAA
11625990 ATAAAAA
1 ATAAAAA
11625997 TCTTTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 4 0.17
21 8 0.33
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAAAAAATCCTTTCAA
Found at i:11626693 original size:26 final size:26
Alignment explanation
Indices: 11626644--11626693 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11626634 CGTTATGACA
* * *
11626644 TTTTTATCCATTTATTTTAGTGGATG
1 TTTTTATCCACTTATTTAAATGGATG
*
11626670 TTTTTATCTACTTATTTAAATGGA
1 TTTTTATCCACTTATTTAAATGGA
11626694 CATTTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (26 bp):
TTTTTATCCACTTATTTAAATGGATG
Found at i:11635270 original size:21 final size:21
Alignment explanation
Indices: 11635244--11635294 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
11635234 AAACATCAAG
*
11635244 ATCACCAACGTCAATATTAGT
1 ATCACCAACATCAATATTAGT
*
11635265 ATCACCGACATCAATATTAGT
1 ATCACCAACATCAATATTAGT
11635286 ATCACCAAC
1 ATCACCAAC
11635295 TTGCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.25
Consensus pattern (21 bp):
ATCACCAACATCAATATTAGT
Found at i:11638253 original size:186 final size:185
Alignment explanation
Indices: 11638038--11638812 Score: 941
Period size: 186 Copynumber: 4.1 Consensus size: 185
11638028 ACGATTAATG
11638038 AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTTTTAAAATTTTTGGGATTATTAAAGG
1 AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTTTTAAAATTTTTGGGATTATTAAAGG
* *
11638103 CATTTTCCAGTGAAAAACACCTTCAATATTT-CACAACTC-AAATTTAACATGTATAGTGAAGGC
66 CATCTTCCAATGAAAAACACCTTCAAT-TTTCCACAACTCTAAATTTAACATGT-TAGTGAAGGC
* * *
11638166 GTTTACTCTAGAAAAATGCCTTTTACTAATTCCTTCTAATTTACGTACATAATAATTA
129 ATTTATTCTAGAAAAATGCC-TTCACTAATTCCTTCTAATTTACGTACATAATAATTA
* * ** * * *
11638224 AATGCATTTTTTAAGAACAAATGCCTTTAATAATTT-TTTCTTAAAATTTTTGAGATTATTAAAA
1 AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTT-TTAAAATTTTTGGGATTATTAAAG
* * * * * *
11638288 GCATCTTCCAATGAAAAATAGCTTTAATTTTCCACAACTCTAACTTATAAC-GGTTAGTGAAAGC
65 GCATCTTCCAATGAAAAACACCTTCAATTTTCCACAACTCTAAATT-TAACATGTTAGTGAAGGC
*
11638352 ATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTA
129 ATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
** * * *
11638409 AAGAAATTTTTTTAGAACAAACGCCTTTAATAATTTTCTCTTAAAA-TTTTGGGATTATTAAAGG
1 AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTTTTAAAATTTTTGGGATTATTAAAGG
** * * *
11638473 CATCTTCCAATGAAAAATGCCTTCAATTTTCCATAACTCTAATTTTAAGATGGTTAGTGAAGGCA
66 CATCTTCCAATGAAAAACACCTTCAATTTTCCACAACTCTAAATTTAACAT-GTTAGTGAAGGCA
* * * * *
11638538 TTTATTTTAGAAAAGCACAAATGCCTTCACTAATTCCCTCTAATTTACATACATAACAATTG
130 TTTATTCTAG---A--A-AAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
** *
11638600 AAGGTGTTTTTTTAGAACAAACACCTTTAATAATTCCCTTTTAAAATTTTTGGGATTATTAAAGG
1 AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTTTTAAAATTTTTGGGATTATTAAAGG
* * ** * *
11638665 CATCTTTCAATAAAAAACGTCTTTAATTTTCCACAACTC-AAATTTTAAGATGTTAAGTGAAGGC
66 CATCTTCCAATGAAAAACACCTTCAATTTTCCACAACTCTAAA-TTTAACATGTT-AGTGAAGGC
* ** *
11638729 GTTTATTCTAGAAAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTG
129 ATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
* *
11638786 AAGGTATTTTTTGAGAACAAACACCTT
1 AAGGCATTTTTTTAGAACAAACACCTT
11638813 CACTGATTCC
Statistics
Matches: 508, Mismatches: 65, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
183 3 0.01
184 56 0.11
185 98 0.19
186 177 0.35
187 7 0.01
188 5 0.01
189 1 0.00
190 1 0.00
191 83 0.16
192 77 0.15
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (185 bp):
AAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTTTTAAAATTTTTGGGATTATTAAAGG
CATCTTCCAATGAAAAACACCTTCAATTTTCCACAACTCTAAATTTAACATGTTAGTGAAGGCAT
TTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
Found at i:11638812 original size:62 final size:61
Alignment explanation
Indices: 11638722--11638886 Score: 224
Period size: 62 Copynumber: 2.7 Consensus size: 61
11638712 AGATGTTAAG
*
11638722 TGAAGGCGTTTATTCTAGAA-AAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAAT
1 TGAAGGCATTT-TT-TAGAACAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAAT
* * *
11638784 TGAAGGTATTTTTTGAGAACAAACACCTTCACTGATTCCTTCTAATTTATGTACATAATAAT
1 TGAAGGCATTTTTT-AGAACAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAAT
** *
11638846 TGAAGGCATTTTTTAGAACAAATGCCTTCAATAATTTCCTT
1 TGAAGGCATTTTTTAGAACAAACACCTTCACTAA-TTCCTT
11638887 TTAAAATTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
60 1 0.01
61 22 0.24
62 68 0.75
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (61 bp):
TGAAGGCATTTTTTAGAACAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAAT
Found at i:11638894 original size:247 final size:248
Alignment explanation
Indices: 11638561--11639067 Score: 696
Period size: 247 Copynumber: 2.0 Consensus size: 248
11638551 AGCACAAATG
**
11638561 CCTTCACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTGTTTTTTTAGAACAAACACCT
1 CCTTCACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTCATTTTTTAGAACAAACACCT
* * ** *
11638626 TTAATAATTCCCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTT-CAATAAAAAACGTCTTTA
66 TCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCAT-TTTCCAATAAAAAACACCTTCA
*
11638690 ATTTTCCACAACTCAAATTTTAAGAT-GTTAAGTGAAGGCGTTTATTCTAGAAAAACACCTTCAC
130 ATTTTCCACAACTCAAATTTTAAGATGGTT-AGTGAAGGCATTTATTCTAGAAAAACACCTTCAC
11638754 TAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAACAAACA
194 TAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAACAAACA
* * ** * **
11638809 CCTTCACTGATTCCTTCTAATTTATGTACATAATAATTGAAGG-CATTTTTTAGAACAAATGCCT
1 CCTTCACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTCATTTTTTAGAACAAACACCT
* * * * *
11638873 TCAATAATTTCCTTTTAAAATTTTTTAGATTATTAAAGGCGTTTTCCAGTAAAAAATACCTTCAA
66 TCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCATTTTCCAATAAAAAACACCTTCAA
* * ***
11638938 TTTTCCACAACTCTAATTTTAAGATGGTTAGTGAATGCATTTATTCTAGAAAAATGTCTTCACTA
131 TTTTCCACAACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAACACCTTCACTA
* * * * *
11639003 ATTCTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGAACAAACG
196 ATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAACAAACA
*
11639056 CCTTCAATAATT
1 CCTTCACTAATT
11639068 ATCTCTTAAA
Statistics
Matches: 225, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
246 3 0.01
247 181 0.80
248 41 0.18
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (248 bp):
CCTTCACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTCATTTTTTAGAACAAACACCT
TCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCATTTTCCAATAAAAAACACCTTCAA
TTTTCCACAACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAACACCTTCACTA
ATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAACAAACA
Found at i:11639079 original size:186 final size:184
Alignment explanation
Indices: 11638810--11639431 Score: 861
Period size: 186 Copynumber: 3.4 Consensus size: 184
11638800 GAACAAACAC
* *
11638810 CTTCACTGATTCCTTCTAATTTATGTACATAATAATTGAAGGCA-TTTTTTAGAACAAATGCCTT
1 CTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATTTTTTTAGAACAAATGCCTT
* * * *
11638874 CAATAATTTCCTTTTAAAATTTTTTAGATTATTAAAGGCGTTTTCCAGTAAAAAATACCTTCAAT
66 CAATAATTT-CTCTTAAAATTTTTTAGATTATTAAAGGCATTTTCTAGTGAAAAATACCTTCAAT
* *
11638939 TTTCCACAACTCTAATTTTAAGATGGTTAGTGAATGCATTTATTCTAGAAAAATG
130 TTTTCACAACTCTAATTTTAAGACGGTTAGTGAATGCATTTATTCTAGAAAAATG
* * * * *
11638994 TCTTCACTAATTCTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGAACAAACGCCT
1 -CTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATTTTTTTAGAACAAATGCCT
**
11639059 TCAATAATTATCTCTTAAAATTTTTTAGATTATTAAAGGCATCTTT-TAGTGAAAAATGTCTTCA
65 TCAATAATT-TCTCTTAAAATTTTTTAGATTATTAAAGGCAT-TTTCTAGTGAAAAATACCTTCA
* * **
11639123 ATTTTTTACAACTCTAATTTTAATACGGTTAGTGAATGTGTTTATTCTAGAAAAATG
128 ATTTTTCACAACTCTAATTTTAAGACGGTTAGTGAATGCATTTATTCTAGAAAAATG
* * * *
11639180 CATTCACTAATTTCTTTTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAATGCCT
1 C-TTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATTTTTTTAGAACAAATGCCT
** * *
11639245 TCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCTAGTGAAAAATACCTTTAA
65 TCAATAA-TTTCTCTTAAAATTTTTTAGATTATTAAAGGCATTTTCTAGTGAAAAATACCTTCAA
* * *
11639310 TTTTTCACAACTCTAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGAAAAACG
129 TTTTTCACAACTCTAATTTTAAGACGGTTAGTGAATGCATTTATTCTAGAAAAATG
* * * *
11639366 CCATCACTAATTCCTTCTAATTTATGTACATAATAATTGAAGGCATATTTTGAGAACAAATGCCT
1 -CTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATTTTTTTAGAACAAATGCCT
11639431 T
65 T
11639432 TACTAATTCC
Statistics
Matches: 383, Mismatches: 47, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
185 41 0.11
186 335 0.87
187 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (184 bp):
CTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATTTTTTTAGAACAAATGCCTT
CAATAATTTCTCTTAAAATTTTTTAGATTATTAAAGGCATTTTCTAGTGAAAAATACCTTCAATT
TTTCACAACTCTAATTTTAAGACGGTTAGTGAATGCATTTATTCTAGAAAAATG
Found at i:11639124 original size:247 final size:246
Alignment explanation
Indices: 11638609--11639124 Score: 630
Period size: 247 Copynumber: 2.1 Consensus size: 246
11638599 GAAGGTGTTT
** * *
11638609 TTTTAGAACAAACACCTTTAATAATTCCCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTTCA
1 TTTTAGAACAAATGCCTTCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCATCTTTCA
** * *
11638674 ATAAAAAACGTCTTTAATTTTCCACAACTCAAATTTTAAGATGTTAAGTGAAGGCGTTTATTCTA
66 ATAAAAAACACCTTCAATTTTCCACAACTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTA
11638739 GAAAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAAC
131 GAAAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAAC
* * ** * *
11638804 AAACACCTTCACTGATTCCTTCTAATTTATGTACATAATAATTGAAGGCATT
196 AAACACCTTCAATAATTCCTTAAAATTTATGTACAT-ATAATTAAAGGCATC
* * *
11638856 TTTTAGAACAAATGCCTTCAATAATTTCCTTTTAAAATTTTTTAGATTATTAAAGGCGT-TTTCC
1 TTTTAGAACAAATGCCTTCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCATCTTT-C
* * * *
11638920 AGTAAAAAATACCTTCAATTTTCCACAACTCTAATTTTAAGATGGTT-AGTGAATGCATTTATTC
65 AATAAAAAACACCTTCAATTTTCCACAACTCAAATTTTAAGAT-GTTAAGTGAAGGCATTTATTC
*** * * * *
11638984 TAGAAAAATGTCTTCACTAATTCTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGA
129 TAGAAAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGA
* * *
11639049 ACAAACGCCTTCAATAATTATCTCTTAAAATTT-TTTAGAT-T-ATTAAAGGCATC
194 ACAAACACCTTCAATAA-T-TC-CTTAAAATTTATGTACATATAATTAAAGGCATC
*
11639102 TTTTAGTGAA-AAATGTCTTCAAT
1 TTTTA--GAACAAATGCCTTCAAT
11639125 TTTTTACAAC
Statistics
Matches: 230, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
246 18 0.08
247 190 0.83
248 7 0.03
249 7 0.03
250 8 0.03
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (246 bp):
TTTTAGAACAAATGCCTTCAATAATTCCCTTTTAAAATTTTTGAGATTATTAAAGGCATCTTTCA
ATAAAAAACACCTTCAATTTTCCACAACTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTA
GAAAAACACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAAC
AAACACCTTCAATAATTCCTTAAAATTTATGTACATATAATTAAAGGCATC
Found at i:11639188 original size:433 final size:436
Alignment explanation
Indices: 11638370--11639253 Score: 1157
Period size: 433 Copynumber: 2.0 Consensus size: 436
11638360 TAGAAAAATG
*
11638370 CCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGAAATTTTTTTAGAACAAACGCCT
1 CCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGAAATTTTTTTAGAACAAACGCCT
* * * * *
11638435 TTAATAATTTTCTCTTAAAATTTTGGGATTATTAAAGGCATCTTCCAATGAAAAATGCCTTCAAT
66 TCAATAATTTCCTCTTAAAATTTTGAGATTATTAAAGGCATCTTCCAATAAAAAATACCTTCAAT
* *
11638500 TTTCCATAACTCTAATTTTAAGATGGTTAGTGAAGGCATTTATTTTAGAAAAGCACAAATGCCTT
131 TTTCCACAACTCTAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAG--AA-CACAAATGCCTT
* *
11638565 CACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTGTTTTTTTAGAACAAACACCTTTAA
193 CACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTATTTTTTTAGAACAAACACCTTCAA
* * * *
11638630 TAATTCCCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTTCAATAAAAAACGTCTTTAATTTT
258 TAATTACCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTTCAATAAAAAACGTCTTCAATTTT
* *
11638695 CCACAACTCAAATTTTAAGATGTTAAGTGAAGGCGTTTATTCTAGAAAAACACCTTCACTAATTC
323 CCACAACTCAAATTTTAAGAGGTTAAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTC
* *
11638760 CTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTGAGAACAAACA
388 CTTCTAATTTACATACATAATAATTGAAGGCATTTTTTGAGAACAAACA
* * * ** *
11638809 CCTTCACTGATTCCTTCTAATTTATGTACATAATAATTGAAGGCA-TTTTTTAGAACAAATGCCT
1 CCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGAAATTTTTTTAGAACAAACGCCT
* * * * *
11638873 TCAATAATTTCCTTTTAAAATTTTTTAGATTATTAAAGGCGTTTTCCAGTAAAAAATACCTTCAA
66 TCAATAATTTCCTCTTAAAA-TTTTGAGATTATTAAAGGCATCTTCCAATAAAAAATACCTTCAA
* *
11638938 TTTTCCACAACTCTAATTTTAAGATGGTTAGTGAATGCATTTATTCTAG-A-A-AAATGTCTTCA
130 TTTTCCACAACTCTAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAACACAAATGCCTTCA
** * * ** *
11639000 CTAATTCTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGAACAAACGCCTTCAATA
195 CTAATTCCCTCTAATTTACATACATAACAATTGAAGGTATTTTTTTAGAACAAACACCTTCAATA
* * * * * * **
11639065 ATTATCTCTTAAAATTTTTTAGATTATTAAAGGCATCTTTTAGTGAAAAATGTCTTCAATTTTTT
260 ATTACCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTTCAATAAAAAACGTCTTCAATTTTCC
* * * * ** *
11639130 ACAACTCTAATTTTAATACGGTT-AGTGAATGTGTTTATTCTAGAAAAATGCATTCACTAATTTC
325 ACAACTCAAATTTTAAGA-GGTTAAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCC
* * * **
11639194 TTTTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAATG
389 TTCTAATTTACATACATAATAATTGAAGGCATTTTTTGAGAACAAACA
*
11639242 CCTTCAATAATT
1 CCTTCACTAATT
11639254 TTCTCTTAAA
Statistics
Matches: 383, Mismatches: 60, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
433 221 0.58
434 4 0.01
436 1 0.00
438 35 0.09
439 122 0.32
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (436 bp):
CCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGAAATTTTTTTAGAACAAACGCCT
TCAATAATTTCCTCTTAAAATTTTGAGATTATTAAAGGCATCTTCCAATAAAAAATACCTTCAAT
TTTCCACAACTCTAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAACACAAATGCCTTCAC
TAATTCCCTCTAATTTACATACATAACAATTGAAGGTATTTTTTTAGAACAAACACCTTCAATAA
TTACCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTTCAATAAAAAACGTCTTCAATTTTCCA
CAACTCAAATTTTAAGAGGTTAAGTGAAGGCGTTTATTCTAGAAAAACACATTCACTAATTCCTT
CTAATTTACATACATAATAATTGAAGGCATTTTTTGAGAACAAACA
Found at i:11639486 original size:62 final size:62
Alignment explanation
Indices: 11639371--11639487 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 62
11639361 AAACGCCATC
* * *
11639371 ACTAATTCCTTCTAATTTATGTACATAATAATTGAAGGCATATTTTGAGAACAAATGCCTTT
1 ACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAATGCCTTT
* * * *
11639433 ACTAATTCCTTTTAATTTACGTACATAATAATTAAAGGCGTTTTTTTAAAACAAA
1 ACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAA
11639488 CACCTTCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (62 bp):
ACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAATGCCTTT
Found at i:11639501 original size:62 final size:62
Alignment explanation
Indices: 11639373--11639501 Score: 159
Period size: 62 Copynumber: 2.1 Consensus size: 62
11639363 ACGCCATCAC
* * * ** * *
11639373 TAATTCCTTCTAATTTATGTACATAATAATTGAAGGCATATTTTGAGAACAAATGCCTTTAC
1 TAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAACACCTTCAA
* * * *
11639435 TAATTCCTTTTAATTTACGTACATAATAATTAAAGGCGTTTTTTTAAAACAAACACCTTCAA
1 TAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAACACCTTCAA
11639497 TAATT
1 TAATT
11639502 TTCTCTTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.40
Consensus pattern (62 bp):
TAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATATTTTGAAAACAAACACCTTCAA
Found at i:11639550 original size:434 final size:432
Alignment explanation
Indices: 11638985--11639882 Score: 1226
Period size: 434 Copynumber: 2.1 Consensus size: 432
11638975 CATTTATTCT
* * * * * * *
11638985 AGAAAAATGTCTTCACTAATTCTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGAA
1 AGAAAAATGCCTTTACTAATTCTTT-TAATTTACGTACATAATAATTAAAGGCATTTTTTTAAAA
* * * ** * *
11639050 CAAACGCCTTCAATAATTATCTCTTAAAATTTTTTAGATTATTAAAGGCATCTTTTAGTGAAAAA
65 CAAACACCTTCAATAATTATCTCTTAAAAATTTTGAGATTATTAAAGGCATCTTCCAATAAAAAA
* * * * * * *
11639115 TGTCTTCAATTTTTTACAACTCTAATTTTAATACGGTTAGTGAATGTGTTTATTCTAGAAAAATG
130 TGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTAAAAAAATA
* * * * *
11639180 CATTCACTAATTTCTTTTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAATGCCT
195 CATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGCATTTTCTGAGAACAAATGCCT
** * * *
11639245 TCAAT-AATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCTAGTGAAAAATACCTTTA
260 TCAATAAATCCT-TCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAACACCTTTA
* *
11639309 ATTTTTCACAAC-TCTAATTTTAAGACAG-TTAGTGAAGGCATTTATTCTAGAAAAACGCCATCA
324 ATTTTTCACAACTTC-AAATTTAAGAC-GTTTAATGAAGGCATTTATTCTAGAAAAACGCCATCA
* *
11639372 CTAATTCCTTCTAATTTATGTACATAATAATTGAAGGCATATTTTG
387 CTAATTCCTTCTAATTTACGTACATAATAATTGAAGGCATATTTTA
*
11639418 AGAACAAATGCCTTTACTAATTCCTTTTAATTTACGTACATAATAATTAAAGGCGTTTTTTTAAA
1 AGAA-AAATGCCTTTACTAATT-CTTTTAATTTACGTACATAATAATTAAAGGCATTTTTTTAAA
* *
11639483 ACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAATAAAAA
64 ACAAACACCTTCAATAATTATCTCTTAAAAATTTTGAGATTATTAAAGGCATCTTCCAATAAAAA
11639548 ATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTAAAAAAAT
129 ATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTAAAAAAAT
** *
11639613 ACATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGTGTTTTCTGATAACAAATGCC
194 ACATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGCATTTTCTGAGAACAAATGCC
* *
11639678 TTCAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAACGCCTTTC
259 TTCAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAACACCTTTA
* * *
11639743 ATTTTTCACAACTTCAAATTTAAGACGTTTAATGAAGGCATTTATTTTAGAAAAATGCCTTCACT
324 ATTTTTCACAACTTCAAATTTAAGACGTTTAATGAAGGCATTTATTCTAGAAAAACGCCATCACT
* ** *
11639808 AATTCTTTCTAATTTACGTACATAATTTTTGAAGGCATTTTTTA
389 AATTCCTTCTAATTTACGTACATAATAATTGAAGGCATATTTTA
* *
11639852 AGAATAAATACCTTTAATAATTTCTTCTTAA
1 AGAA-AAATGCCTTTACTAA-TTCTT-TTAA
11639883 AATTTTTGGG
Statistics
Matches: 405, Mismatches: 53, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
433 5 0.01
434 384 0.95
435 16 0.04
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (432 bp):
AGAAAAATGCCTTTACTAATTCTTTTAATTTACGTACATAATAATTAAAGGCATTTTTTTAAAAC
AAACACCTTCAATAATTATCTCTTAAAAATTTTGAGATTATTAAAGGCATCTTCCAATAAAAAAT
GCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTAAAAAAATAC
ATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGCATTTTCTGAGAACAAATGCCTT
CAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAACACCTTTAAT
TTTTCACAACTTCAAATTTAAGACGTTTAATGAAGGCATTTATTCTAGAAAAACGCCATCACTAA
TTCCTTCTAATTTACGTACATAATAATTGAAGGCATATTTTA
Found at i:11639623 original size:248 final size:248
Alignment explanation
Indices: 11639167--11639696 Score: 699
Period size: 248 Copynumber: 2.1 Consensus size: 248
11639157 AATGTGTTTA
* * * *
11639167 TTCT-AGAA-AAATGCATTCACTAATTTCTTTTAATTTACATACATAATTATTGAAGGCATTTTT
1 TTCTGAGAACAAATGCCTTCACTAATTCCTTTTAATTTACATACATAATAATTAAAGGCATTTTT
* ** * * *
11639230 TTAGAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCTAGT
66 TTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAAT
* * *
11639295 GAAAAATACCTTTAATTTTTCACAACTCTAATTTTAAGACAGTTAGTGAAGGCATTTATTCTAGA
131 AAAAAATACCTTCAATTTTTCACAACTCTAACTTTAAGACAGTTAGTGAAGGCATTTATTCTAGA
* * * ** *
11639360 AAAACGCCATCACTAATTCCTTCTAATTTATGTACATAATAATTGAAGGCATAT
196 AAAAAGACATCACTAATTCCTTCTAATCTACATACATAATAATTAAAGGCAT-T
* * *
11639414 TT-TGAGAACAAATGCCTTTACTAATTCCTTTTAATTTACGTACATAATAATTAAAGGCGTTTTT
1 TTCTGAGAACAAATGCCTTCACTAATTCCTTTTAATTTACATACATAATAATTAAAGGCATTTTT
11639478 TTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAAT
66 TTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAAT
* * **
11639543 AAAAAATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTA-A
131 AAAAAATACCTTCAATTTTTCACAACTCTAACTTTAAGACAGTTAGTGAAGGCATTTATTCTAGA
* * * **
11639607 AAAAATACATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGTGTT
196 AAAAAGACA-TCACTAATTCCTTCTAATCTACATACATAATAATTAAAGGCATT
* * *
11639661 TTCTGATAACAAATGCCTTCAATAAATCCTTCTTAA
1 TTCTGAGAACAAATGCCTTCACTAATTCCTT-TTAA
11639697 AATTTTTAGG
Statistics
Matches: 243, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
246 1 0.00
247 16 0.07
248 222 0.91
249 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (248 bp):
TTCTGAGAACAAATGCCTTCACTAATTCCTTTTAATTTACATACATAATAATTAAAGGCATTTTT
TTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAAT
AAAAAATACCTTCAATTTTTCACAACTCTAACTTTAAGACAGTTAGTGAAGGCATTTATTCTAGA
AAAAAGACATCACTAATTCCTTCTAATCTACATACATAATAATTAAAGGCATT
Found at i:11639749 original size:186 final size:185
Alignment explanation
Indices: 11639418--11640088 Score: 735
Period size: 186 Copynumber: 3.6 Consensus size: 185
11639408 GCATATTTTG
* * * *
11639418 AGAACAAATGCCTTTACTAATTCCTTT-TAATTTACGTACATAATAATTAAAGGCGTTTTTTTAA
1 AGAA-AAATACCTTCACTAATT-CTTTCTAATTTACATACATAATAATTAAAGGCG-TTTTTTGA
* * * * *
11639482 AACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAATAAAA
63 AACAAATACCTTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTGAAA
* * *
11639547 AATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCT
128 AACGCCTTCAATTTTTCACAACTCTAAATTTAAGACGGTTAGTGAAGGTATTTATTCT
* * * * * *
11639605 AAAAAAATACATTCACTAATTCCTTT-TAATCTACATACATAATTATTAAAGGTGTTTTCTGATA
1 AGAAAAATACCTTCACTAATT-CTTTCTAATTTACATACATAATAATTAAAGGCGTTTTTTGA-A
* * *
11639669 ACAAATGCCTTCAATAAATC-CTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAA
64 ACAAATACCTTCAATAATTCTC-TCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTGAAA
* * * *
11639733 AACGCCTTTC-ATTTTTCACAACT-TCAAATTTAAGACGTTTAATGAAGGCATTTATTTT
128 AACGCC-TTCAATTTTTCACAACTCT-AAATTTAAGACGGTTAGTGAAGGTATTTATTCT
* * ** * * *
11639791 AGAAAAATGCCTTCACTAATTCTTTCTAATTTACGTACATAATTTTTGAAGGCATTTTTTAAGAA
1 AGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATAATTAAAGGCGTTTTTTGA-AA
* * * * **
11639856 TAAATACCTTTAATAATT-TCTTCTTAAAATTTTTGGGATTACTAAATGTGTCTTCCAGTGAAAA
65 CAAATACCTTCAATAATTCTC-TCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTGAAAA
* * *
11639920 ACGCCTTCAATTTTTCATAACTCAAAATTTAAGA-TGTTAAGTGAAGGTATTTATTCT
129 ACGCCTTCAATTTTTCACAACTCTAAATTTAAGACGGTT-AGTGAAGGTATTTATTCT
* * * *
11639977 AGAAAAACACCTTCACTAATTCTTTCTAATTTACATACATAACAATTGAAGGCATTTTTTAAGAA
1 AGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATAATTAAAGGCGTTTTTT--GAA
* * * *
11640042 AAAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
64 ACAAATACCTTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAA
11640089 AGTATTTTTC
Statistics
Matches: 407, Mismatches: 65, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
185 17 0.04
186 341 0.84
187 46 0.11
188 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (185 bp):
AGAAAAATACCTTCACTAATTCTTTCTAATTTACATACATAATAATTAAAGGCGTTTTTTGAAAC
AAATACCTTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAGTGAAAAAC
GCCTTCAATTTTTCACAACTCTAAATTTAAGACGGTTAGTGAAGGTATTTATTCT
Found at i:11639833 original size:620 final size:618
Alignment explanation
Indices: 11638175--11640678 Score: 2869
Period size: 620 Copynumber: 4.0 Consensus size: 618
11638165 CGTTTACTCT
* *
11638175 AGAA-AAATGCCTTTTACTAATTCCTTCTAATTTACGTACATAATAATTAAATGCATTTTTTAAG
1 AGAACAAATGCC-TTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATTTTTTAA-
* * * * *
11638239 AACAAATGCCTTTAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAAGCATCTTCCAATGAAA
64 AACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTCCAATAAAA
* *
11638304 AATAGCTTTAATTTTCCACAACTCTAAC-TTATA-ACGGTTAGTGAAAGCATTTATTCTAGAAAA
129 AAT-GCTTCAATTTTCCACAACTCTAACTTTA-AGACGGTTAGTGAAGGCATTTATTCTAGAAAA
* **
11638367 ATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGAAATTTTTTTAGAACAAACG
192 ATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGTATTTTTTTAGAACAAACG
* ** * *
11638432 CCTTTAAT-AATTTTCTCTTAAAA-TTTTGGGATTATTAAAGGCATCTTCCAATGAAAAATGCCT
257 CCTTCAATAAATCCT-TCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAATGCCT
* * * *
11638495 TCAATTTTCCATAACTCTAATTTTAAGATGGTTAGTGAAGGCATTTATTTTAGAAAAGCACAAAT
321 TCAATTTTTCACAACTCTAAATTTAAGACGGTTAGTGAAGGCATTTATTTTAG---A--A-AAAT
* ** **
11638560 GCCTTCACTAATTCCCTCTAATTTACATACATAACAATTGAAGGTGTTTTTTTAGAACAAACACC
380 GCCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAACACC
** * * * **
11638625 TTTAATAATTCCCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTTCAATAAAAAACGTCTTTA
445 TTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAATGAAAAACACCTTTA
* *
11638690 ATTTTCCACAACTCAAATTTTAAGATGTTAAGTGAAGGCGTTTATTCTAGAAAAACACCTTCACT
510 ATTTTTCACAACTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTAGAAAAACACCTTCACT
* *
11638755 AATTCCTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTG
575 AATTCCTTCTAATTTACATACATAATAATTGAAGGCATTTTTTG
** * * * *
11638799 AGAACAAACACCTTCACTGATTCCTTCTAATTTATGTACATAATAATTGAAGGCATTTTTTAGAA
1 AGAACAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATTTTTTAAAA
* * * * * * *
11638864 CAAATGCCTTCAATAATTTCCTTTTAAAATTTTTTAGATTATTAAAGGCGTTTTCCAGTAAAAAA
66 CAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTCCAATAAAAAA
* * * *
11638929 TACCTTCAATTTTCCACAACTCTAATTTTAAGATGGTTAGTGAATGCATTTATTCTAGAAAAATG
131 T-GCTTCAATTTTCCACAACTCTAACTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATG
* * *
11638994 TCTTCACTAATT-CTTTCTAATTTGCGTACATAATTATTGAAGGTATTTTTTTAGAACAAACGCC
195 CCTTCACTAATTCCTTT-TAATTTACGTACATAATTATTAAAGGTATTTTTTTAGAACAAACGCC
** *
11639058 TTCAATAATTAT-C-TCTTAAAATTTTTTA-GATTATTAAAGGCATCTTTTAGTGAAAAATGTCT
259 TTCAATAA--ATCCTTCTTAAAA-TTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAATGCCT
* * * * ** * *
11639120 TCAATTTTTTACAACTCTAATTTTAATACGGTTAGTGAATGTGTTTATTCTAGAAAAATGCATTC
321 TCAATTTTTCACAACTCTAAATTTAAGACGGTTAGTGAAGGCATTTATTTTAGAAAAATGCCTTC
* * ** *
11639185 ACTAATTTCTTTTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAATGCCTTCAAT
386 ACTAATTCCTTCTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAACACCTTTAAT
* * *
11639250 AATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCTAGTGAAAAATACCTTTAATTTTT
451 AATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAATGAAAAACACCTTTAATTTTT
* * * *
11639315 CACAACTCTAATTTTAAGACAGTT-AGTGAAGGCATTTATTCTAGAAAAACGCCATCACTAATTC
516 CACAACTCAAATTTTAAGA-TGTTAAGTGAAGGCATTTATTCTAGAAAAACACCTTCACTAATTC
** *
11639379 CTTCTAATTTATGTACATAATAATTGAAGGCATATTTTG
580 CTTCTAATTTACATACATAATAATTGAAGGCATTTTTTG
* * *
11639418 AGAACAAATGCCTTTACTAATTCCTTTTAATTTACGTACATAATAATTAAAGGCGTTTTTTTAAA
1 AGAACAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGC-ATTTTTTAAA
* * *
11639483 ACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGCATCTTCCAATAAAAA
65 ACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTCCAATAAAAA
* ** *
11639548 ATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTTAGTGAAGGTGTTTATTCTAAAAAAAT
130 ATG-CTTCAATTTTCCACAACTCTAACTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAAT
* * * * * * * * *
11639613 ACATTCACTAATTCCTTTTAATCTACATACATAATTATTAAAGGTGTTTTCTGATAACAAATGCC
194 GCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGTATTTTTTTAGAACAAACGCC
*
11639678 TTCAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAACGCCTTTC
259 TTCAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAATGCC-TTC
* *
11639743 -ATTTTTCACAACT-TCAAATTTAAGACGTTTAATGAAGGCATTTATTTTAGAAAAATGCCTTCA
323 AATTTTTCACAACTCT-AAATTTAAGACGGTTAGTGAAGGCATTTATTTTAGAAAAATGCCTTCA
* * * * * *
11639806 CTAATTCTTTCTAATTTACGTACATAATTTTTGAAGGCATTTTTTAAGAATAAATACCTTTAATA
387 CTAATTCCTTCTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAACACCTTTAATA
* * ** * * *
11639871 A-TTTCTTCTTAAAATTTTTGGGATTACTAAATGTGTCTTCCAGTGAAAAACGCCTTCAATTTTT
452 ATTTTC-TCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAATGAAAAACACCTTTAATTTTT
* * * *
11639935 CATAACTCAAAATTTAAGATGTTAAGTGAAGGTATTTATTCTAGAAAAACACCTTCACTAATTCT
516 CACAACTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTAGAAAAACACCTTCACTAATTCC
* *
11640000 TTCTAATTTACATACATAACAATTGAAGGCATTTTTTA
581 TTCTAATTTACATACATAATAATTGAAGGCATTTTTTG
* * ** ** * * *
11640038 AGAAAAAAATGCCTTCAATAATTTTCTCTTAAAATTTTTG-AGAT--T-ATTAAAAGTA-TTTTT
1 AG-AACAAATGCCTTCACTAA--TTC-CTTCTAATTTACGTACATAATAATTAAAGGCATTTTTT
* ** * * * * *
11640098 CACTCAAACGCCTTTAATAATTTTCTCTTAAAATTTTT-AGAATTATTGAAGGTATCTTCTAGTG
62 AAAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAG-ATTATTAAAGGCATCTTCCAAT-
* * * * *
11640162 AAAAACAT-CTTCAATTTTTCACAACTCTAATTTTAAGATGATTAGTGAAGGCGTTTATTCTAGA
125 AAAAA-ATGCTTCAATTTTCCACAACTCTAACTTTAAGACGGTTAGTGAAGGCATTTATTCTAGA
* *
11640226 AAAATGCCTTTACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGCA-TTTTTTATGAACA
189 AAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGTATTTTTTTA-GAACA
* * * * * **
11640290 AATGCCTTCAATAATTCCCTCTTAAAATTTTTGGGATTATTAAAGGTGA-CTTTTAGTGAAAAAT
253 AACGCCTTCAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGG-CATCTTCCAGTGAAAAAT
* * * *
11640354 GCCTTTAAATTTTCACAACTC-AAATTTTAAAACGGTTAGTGCAA-GCATTTATTGTAGAAAAAT
317 GCCTTCAATTTTTCACAACTCTAAA-TTTAAGACGGTTAGTG-AAGGCATTTATTTTAGAAAAAT
* * * * * *
11640417 GCCTTCATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAGCAAACGCT
380 GCCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAACACC
** * * *
11640482 TTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAGCGTATTCCAATGAAAAACACCTTTA
445 TTTAATAATTTTCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAATGAAAAACACCTTTA
** * * * * ** *
11640547 ATTTTTCACAACTTTAATTTTAAAATGGTCAGTGAAGGCGTTTATTCTAGAAAAATGCCTTTACT
510 ATTTTTCACAACTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTAGAAAAACACCTTCACT
** **
11640612 AATTCCTTCTAATTTACATACATAATTTTTGAAGGTGTTTTTTTG
575 AATTCCTTCTAATTTACATACATAATAATTGAAGG-CATTTTTTG
* *
11640657 AGAACAAATGCTTTCAATAATT
1 AGAACAAATGCCTTCACTAATT
11640679 TTCTCTTAAA
Statistics
Matches: 1597, Mismatches: 248, Indels: 78
0.83 0.13 0.04
Matches are distributed among these distances:
616 2 0.00
617 11 0.01
618 463 0.29
619 291 0.18
620 471 0.29
621 23 0.01
622 1 0.00
623 90 0.06
624 159 0.10
625 80 0.05
626 4 0.00
627 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (618 bp):
AGAACAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATAATTAAAGGCATTTTTTAAAA
CAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTCCAATAAAAAA
TGCTTCAATTTTCCACAACTCTAACTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATGC
CTTCACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGTATTTTTTTAGAACAAACGCCTT
CAATAAATCCTTCTTAAAATTTTTAGGATTATTAAAGGCATCTTCCAGTGAAAAATGCCTTCAAT
TTTTCACAACTCTAAATTTAAGACGGTTAGTGAAGGCATTTATTTTAGAAAAATGCCTTCACTAA
TTCCTTCTAATTTACATACATAATTATTGAAGGCATTTTTTTAGAACAAACACCTTTAATAATTT
TCTCTTAAAATTTTTGGGATTATTAAAGGCATCTTCCAATGAAAAACACCTTTAATTTTTCACAA
CTCAAATTTTAAGATGTTAAGTGAAGGCATTTATTCTAGAAAAACACCTTCACTAATTCCTTCTA
ATTTACATACATAATAATTGAAGGCATTTTTTG
Found at i:11639912 original size:372 final size:372
Alignment explanation
Indices: 11639403--11640088 Score: 897
Period size: 372 Copynumber: 1.8 Consensus size: 372
11639393 ACATAATAAT
*
11639403 TGAAGGCATATTTTGAGAACAAATGCCTTTACTAATTCCTTTTAATTTACGTACATAATAATTAA
1 TGAAGGCATATTTTGAGAACAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATAATTAA
* *
11639468 AGGCGTTTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTATTAAAGGC
66 AGGCGATTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTACTAAAGGC
* * * *
11639533 ATCTTCCAATAAAAAATGCCTTCAATTTTTCACAACTCTAACTTTAAGACGGTT-AGTGAAGGTG
131 ATCTTCCAATAAAAAACGCCTTCAATTTTTCACAACTCAAAATTTAAGA-GGTTAAGTGAAGGTA
* **
11639597 TTTATTCTAAAAAAATACATTCACTAATTCCTTT-TAATCTACATACATAATTATTAAAGG-TGT
195 TTTATTCTAAAAAAACACATTCACTAATT-CTTTCTAATCTACATACATAACAATTAAAGGATGT
** *
11639660 TTTCTGATAACAAATGCCTTCAATAAATCCT-TCTTAAAATTTTT-AGGATTATTAAAGGCATCT
259 TTTAAGA-AAAAAATGCCTTCAAT-AATCCTCTCTTAAAATTTTTGA-GATTATTAAAGGCATCT
11639723 TCCAGTGAAAAACGCCTTTCATTTTTCACAACTTCAAATTTAAGACGTTTAA
321 TCCAGTGAAAAACGCCTTTCATTTTTCACAACTTCAAATTTAAGACGTTTAA
**
11639775 TGAAGGCATTTATTTT-AGAA-AAATGCCTTCACTAATT-CTTTCTAATTTACGTACATAATTTT
1 TGAAGGCA--TATTTTGAGAACAAATGCCTTCACTAATTCCTTT-TAATTTACGTACATAATAAT
* * * * *
11639837 TGAAGGC-ATTTTTTAAGAATAAATACCTTTAATAA-TTTCTTCTTAAAATTTTTGGGATTACTA
63 TAAAGGCGATTTTTTAA-AACAAACACCTTCAATAATTTTC-TCTTAAAAATTTTGGGATTACTA
* ** * * * *
11639900 AATGTGTCTTCCAGTGAAAAACGCCTTCAATTTTTCATAACTCAAAATTTAAGATGTTAAGTGAA
126 AAGGCATCTTCCAATAAAAAACGCCTTCAATTTTTCACAACTCAAAATTTAAGAGGTTAAGTGAA
* * * *
11639965 GGTATTTATTCTAGAAAAACACCTTCACTAATTCTTTCTAATTTACATACATAACAATTGAAGGC
191 GGTATTTATTCTAAAAAAACACATTCACTAATTCTTTCTAATCTACATACATAACAATTAAAGG-
* **
11640030 ATTTTTTAAGAAAAAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
255 ATGTTTTAAGAAAAAAATGCCTTCAATAATCCTCTCTTAAAATTTTTGAGATTATTAAA
11640089 AGTATTTTTC
Statistics
Matches: 269, Mismatches: 34, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
371 23 0.09
372 190 0.71
373 42 0.16
374 14 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (372 bp):
TGAAGGCATATTTTGAGAACAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAATAATTAA
AGGCGATTTTTTAAAACAAACACCTTCAATAATTTTCTCTTAAAAATTTTGGGATTACTAAAGGC
ATCTTCCAATAAAAAACGCCTTCAATTTTTCACAACTCAAAATTTAAGAGGTTAAGTGAAGGTAT
TTATTCTAAAAAAACACATTCACTAATTCTTTCTAATCTACATACATAACAATTAAAGGATGTTT
TAAGAAAAAAATGCCTTCAATAATCCTCTCTTAAAATTTTTGAGATTATTAAAGGCATCTTCCAG
TGAAAAACGCCTTTCATTTTTCACAACTTCAAATTTAAGACGTTTAA
Found at i:11640129 original size:246 final size:245
Alignment explanation
Indices: 11639862--11640333 Score: 653
Period size: 246 Copynumber: 1.9 Consensus size: 245
11639852 AGAATAAATA
* * * * *
11639862 CCTTTAATAATTTCTTCTTAAAATTTTTGGGATTACTAAATGTGTCTTCCAGTGAAAAACGCCTT
1 CCTTTAATAATTTCTTCTTAAAATTTTTAGAATTACTAAAGGTATCTTCCAGTGAAAAACACCTT
* *
11639927 CAATTTTTCATAACTCAAAATTTAAGATG-TTAAGTGAAGGTATTTATTCTAGAAAAACACCTTC
66 CAATTTTTCACAACTCAAAATTTAAGATGATT-AGTGAAGGCATTTATTCTAGAAAAACACCTTC
*
11639991 ACTAATT-CTTTCTAATTTACATACATAACAATTGAAGGCATTTTTTAAGAAAAAAATGCCTTCA
130 ACTAATTCCTTT-TAATTTACATACATAACAATTAAAGGCATTTTTTAAG-AAAAAATGCCTTCA
**
11640055 ATAATTTTCTCTTAAAATTTTTGAGATTATTAAAAGTATTTTTCACTCAAACG
193 ATAATTCCCTCTTAAAATTTTTGAGATTATTAAAAGTATTTTTCACTCAAACG
* * * *
11640108 CCTTTAATAATTT-TCTCTTAAAATTTTTAGAATTATTGAAGGTATCTTCTAGTGAAAAACATCT
1 CCTTTAATAATTTCT-TCTTAAAATTTTTAGAATTACTAAAGGTATCTTCCAGTGAAAAACACCT
* * * ** *
11640172 TCAATTTTTCACAACTCTAATTTTAAGATGATTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTT
65 TCAATTTTTCACAACTCAAAATTTAAGATGATTAGTGAAGGCATTTATTCTAGAAAAACACCTTC
* ** * *
11640237 ACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAACAAATGCCTTCAAT
130 ACTAATTCCTTTTAATTTACATACATAACAATTAAAGGCATTTTTTAAGAAAAAATGCCTTCAAT
*
11640302 AATTCCCTCTTAAAATTTTTGGGATTATTAAA
195 AATTCCCTCTTAAAATTTTTGAGATTATTAAA
11640334 GGTGACTTTT
Statistics
Matches: 197, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
245 45 0.23
246 146 0.74
247 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (245 bp):
CCTTTAATAATTTCTTCTTAAAATTTTTAGAATTACTAAAGGTATCTTCCAGTGAAAAACACCTT
CAATTTTTCACAACTCAAAATTTAAGATGATTAGTGAAGGCATTTATTCTAGAAAAACACCTTCA
CTAATTCCTTTTAATTTACATACATAACAATTAAAGGCATTTTTTAAGAAAAAATGCCTTCAATA
ATTCCCTCTTAAAATTTTTGAGATTATTAAAAGTATTTTTCACTCAAACG
Found at i:11640320 original size:186 final size:185
Alignment explanation
Indices: 11640102--11641235 Score: 1316
Period size: 186 Copynumber: 6.1 Consensus size: 185
11640092 ATTTTTCACT
* * *
11640102 CAAACGCCTTTAATAATTTTCTCTTAAAATTTTTAGAATTATTGAAGGTATCTTCTAGTGAAAAA
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTT-GAATTATTAAAGGTATCTTCTAGTGAAAAA
* * * * *
11640167 CATCTTCAATTTTTCACAACTCTAATTTTAAGATGATTAGTGAAGGCGTTTATTCTAGAAAAATG
65 CACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATG
* *
11640232 CCTTTACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAA
130 CCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAA
** * *
11640288 CAAATGCCTTCAATAATTCCCTCTTAAAATTTTTGGGATTATTAAAGGTGA-CTTTTAGTGAAAA
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTT-GAATTATTAAAGGT-ATCTTCTAGTGAAAA
** * * * *
11640352 ATGCCTTTAAATTTTCACAACTCAAATTTTAAAACGGTTAGTGCAA-GCATTTATTGTAGAAAAA
64 ACACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTG-AAGGCATTTATTCTAGAAAAA
* * * *
11640416 TGCCTTCATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTT-TAGAG
128 TGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTAT-GAA
* * * * *
11640474 CAAACGCTTTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAGCGTA--TTCCAATGAAA
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTTG-AATTATT-AAAG-GTATCTTCTAGTGAAA
* ** * * * *
11640537 AACACCTTTAATTTTTCACAACTTTAATTTTAAAATGGTCAGTGAAGGCGTTTATTCTAGAAAAA
63 AACACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAA
* * * * **
11640602 TGCCTTTACTAATTCCTTCTAATTTACATACATAATTTTTGAAGGTGTTTTTT-TGAGAA
128 TGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTAT--GAA
* * * *
11640661 CAAATGCTTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAGTGAAAAT
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGA-ATTATTAAAGGTATCTTCTAGTGAAAAA
11640726 CACCTTCAATTTTTCACAACTCAAATTTTAAGAC-GTTAAGTGAAGGCATTTATTCTAGAAAAAT
65 CACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTT-AGTGAAGGCATTTATTCTAGAAAAAT
* * * * *
11640790 GCCTTCACTAATTTCTTCTAATTTATGTACATAATAATTGATGGCATTTTTTGA-GAA
129 GCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTT-ATGAA
* * * *
11640847 TAAATGCCTTAAATAATTTCCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTT-TAAGTGAAAA
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGA-ATTATTAAAGGTATCTTCT-AGTGAAAA
* * * * *
11640911 ATACCTTCAATTTTTCACAATTCTAATTTTAAGAGGGTTAGTGAAGGCATTTATTTTAGAAAAAT
64 ACACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAAT
* *
11640976 GCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAAGCATTTTTTAAGAA
129 GCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAA
* * * ** * *
11641033 CAAACGCCTTTAATAATTCTCTCTTAAAATTTTTGGGGTTATTAAAGGTGTCTTCTAGTAAAAAA
1 CAAATGCCTTCAATAATTTTCTCTTAAAATTTTT-GAATTATTAAAGGTATCTTCTAGTGAAAAA
* * * * ** *
11641098 CGCCTTCAATTTCTCACAACTCAAATTTTAAGACAGTTAATGAAGGTGTTTATTCTAAAAAAATG
65 CACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATG
* * * *
11641163 CC-TCACTAATTCCTTTTAATTTACATACATATTTATTAAAGGCATTTTTTAAGAA
130 CCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAA
* *
11641218 CAAATGCTTTCACTAATT
1 CAAATGCCTTCAATAATT
11641236 CCTTTTAATT
Statistics
Matches: 814, Mismatches: 115, Indels: 39
0.84 0.12 0.04
Matches are distributed among these distances:
185 70 0.09
186 579 0.71
187 163 0.20
188 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (185 bp):
CAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGAATTATTAAAGGTATCTTCTAGTGAAAAAC
ACCTTCAATTTTTCACAACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATGC
CTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAA
Found at i:11640864 original size:373 final size:371
Alignment explanation
Indices: 11640102--11641224 Score: 1467
Period size: 373 Copynumber: 3.0 Consensus size: 371
11640092 ATTTTTCACT
* * *
11640102 CAAACGCCTTTAATAATTTTCTCTTAAAATTTTT-AGAATTATT-GAAGGTATCTTCTAGTGAAA
1 CAAATGCCTTTAATAATTTTCTCTTAAAATTTTTGA-AATTATTAAAAGGTA--TTCTAATGAAA
* * *
11640165 AACATCTTCAATTTTTCACAACTCTAATTTTAAGATGATTAGTGAAGGCGTTTATTCTAGAAAAA
63 AACACCTTCAATTTTTCACAACTTTAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAA
*
11640230 TGCCTTTACTAATTCCTTTTAATTTACGTACATAATTATTAAAGGCATTTTTTATGAACAAATGC
128 TGCCTTTACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTA-GAACAAATGC
* * * *
11640295 CTTCAATAATTCCCTCTTAAAATTTTTGGGATTATTAAAGGTGACTTTTAGTGAAAAAT-GCCTT
192 TTTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTG-AAAATCGCCTT
* * * * *
11640359 TAAATTTTCACAACTCAAATTTTAAAACGGTT-AGTGCAA-GCATTTATTGTAGAAAAATGCCTT
256 CAATTTTTCACAACTCAAATTTTAAGACAGTTAAGTG-AAGGCATTTATTCTAGAAAAATGCCTT
* * * *
11640422 CATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTTTAGAG
320 CACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAA
* * *
11640474 CAAACGCTTTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAGCGTATTCCAATGAAAAA
1 CAAATGCCTTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAG-GTATTCTAATGAAAAA
* * *
11640539 CACCTTTAATTTTTCACAACTTTAATTTTAAAATGGTCAGTGAAGGCGTTTATTCTAGAAAAATG
65 CACCTTCAATTTTTCACAACTTTAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATG
* * * **
11640604 CCTTTACTAATTCCTTCTAATTTACATACATAATTTTTGAAGGTGTTTTTTTGAGAACAAATGCT
130 CCTTTACTAATTCCTTCTAATTTACGTACATAATTATTAAAGG-CATTTTTT-AGAACAAATGCT
* * * *
11640669 TTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGGTGTCTTCCAGTGAAAATCACCTTCA
193 TTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAATCGCCTTCA
11640734 ATTTTTCACAACTCAAATTTTAAGAC-GTTAAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAC
258 ATTTTTCACAACTCAAATTTTAAGACAGTTAAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAC
* * * * *
11640798 TAATTTCTTCTAATTTATGTACATAATAATTGATGGCATTTTTTGAGAA
323 TAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAA
* * * * * *
11640847 TAAATGCCTTAAATAATTTCCTCTTAAAATTTTTGAGATTATT-AAAGGTGTCTTTAAGTGAAAA
1 CAAATGCCTTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAGGTAT-TCTAA-TGAAAA
* * * *
11640911 ATACCTTCAATTTTTCACAA-TTCTAATTTTAAGAGGGTTAGTGAAGGCATTTATTTTAGAAAAA
64 ACACCTTCAATTTTTCACAACTT-TAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAA
* * *
11640975 TGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTAAAAGCATTTTTTAAGAACAAACGC
128 TGCCTTTACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTT-AGAACAAATG-
* * *
11641040 CTTT-AATAATTCTCTCTTAAAATTTTTGGGGTTATTAAAGGTGTCTTCTAGTAAAAAACGCCTT
191 CTTTCAATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAATCGCCTT
* ** *
11641104 CAATTTCTCACAACTCAAATTTTAAGACAGTTAA-TGAAGGTGTTTATTCTAAAAAAATGCC-TC
256 CAATTTTTCACAACTCAAATTTTAAGACAGTTAAGTGAAGGCATTTATTCTAGAAAAATGCCTTC
* * * *
11641167 ACTAATTCCTTTTAATTTACATACATATTTATTAAAGGCATTTTTTAAGAA
321 ACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAA
11641218 CAAATGC
1 CAAATGC
11641225 TTTCACTAAT
Statistics
Matches: 656, Mismatches: 82, Indels: 27
0.86 0.11 0.04
Matches are distributed among these distances:
371 53 0.08
372 287 0.44
373 312 0.48
374 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (371 bp):
CAAATGCCTTTAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAAGGTATTCTAATGAAAAAC
ACCTTCAATTTTTCACAACTTTAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATGC
CTTTACTAATTCCTTCTAATTTACGTACATAATTATTAAAGGCATTTTTTAGAACAAATGCTTTC
AATAATTCTCTCTTAAAATTTTTGGGATTATTAAAGGTGTCTTCTAGTGAAAATCGCCTTCAATT
TTTCACAACTCAAATTTTAAGACAGTTAAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAA
TTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAA
Found at i:11641800 original size:12 final size:12
Alignment explanation
Indices: 11641783--11641854 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
11641773 CTGAATCATA
11641783 GCTGAATGGTTT
1 GCTGAATGGTTT
11641795 GCTGAATGGTGTT
1 GCTGAATGGT-TT
* * *
11641808 TCTAAATAGTTT
1 GCTGAATGGTTT
*
11641820 GTTGAATGGTGTT
1 GCTGAATGGT-TT
* *
11641833 TCTGAGTGGTTT
1 GCTGAATGGTTT
*
11641845 GCTAAATGGT
1 GCTGAATGGT
11641855 GTGTCTGAGC
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
12 27 0.60
13 18 0.40
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (12 bp):
GCTGAATGGTTT
Found at i:11641863 original size:25 final size:25
Alignment explanation
Indices: 11641784--11641862 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
11641774 TGAATCATAG
11641784 CTGAATGGTTTGCTGAATGGTGTTT
1 CTGAATGGTTTGCTGAATGGTGTTT
* * *
11641809 CTAAATAGTTTGTTGAATGGTGTTT
1 CTGAATGGTTTGCTGAATGGTGTTT
* * *
11641834 CTGAGTGGTTTGCTAAATGGTGTGT
1 CTGAATGGTTTGCTGAATGGTGTTT
11641859 CTGA
1 CTGA
11641863 GCACATTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.19, C:0.08, G:0.30, T:0.43
Consensus pattern (25 bp):
CTGAATGGTTTGCTGAATGGTGTTT
Found at i:11647605 original size:18 final size:18
Alignment explanation
Indices: 11647569--11647606 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11647559 TTATGGATGG
*
11647569 ATTTTTATGCCTATCACA
1 ATTTTTATGCCAATCACA
11647587 ATTTTTATG-CAATCTACA
1 ATTTTTATGCCAATC-ACA
11647605 AT
1 AT
11647607 GTTGTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTTTTATGCCAATCACA
Found at i:11649613 original size:4 final size:4
Alignment explanation
Indices: 11649604--11649648 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
11649594 TTTTATGCTT
*
11649604 TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
11649649 TATTATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:11649654 original size:3 final size:3
Alignment explanation
Indices: 11649646--11649695 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11649636 TGTATGTATG
11649646 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11649694 TA
1 TA
11649696 CGAGGTGCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11660228 original size:12 final size:12
Alignment explanation
Indices: 11660194--11660236 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
11660184 TTTGCTTGAG
* *
11660194 AAAAAGAAAAAA
1 AAAAACAAAAAT
11660206 AAAAGAGCAAAAAT
1 AAAA-A-CAAAAAT
11660220 AAAAACAAAAAT
1 AAAAACAAAAAT
11660232 AAAAA
1 AAAAA
11660237 AAAGATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.59
13 2 0.07
14 9 0.33
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (12 bp):
AAAAACAAAAAT
Found at i:11661493 original size:35 final size:35
Alignment explanation
Indices: 11661446--11661532 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
11661436 AGCAGTTATC
*
11661446 TTTATTTTTTGACTTGTGGCTTCATCCCAATCATA
1 TTTATTTCTTGACTTGTGGCTTCATCCCAATCATA
* * *
11661481 TTTATTTGTTGACTTGTGGCTTCATCCTAATCATT
1 TTTATTTCTTGACTTGTGGCTTCATCCCAATCATA
*
11661516 TTTATTTCTTAACTTGT
1 TTTATTTCTTGACTTGT
11661533 AATTTTGTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.18, C:0.17, G:0.11, T:0.53
Consensus pattern (35 bp):
TTTATTTCTTGACTTGTGGCTTCATCCCAATCATA
Found at i:11661758 original size:104 final size:104
Alignment explanation
Indices: 11661564--11661814 Score: 258
Period size: 104 Copynumber: 2.4 Consensus size: 104
11661554 ATTTCTCAAC
* * * * *
11661564 TTCATCCT-AGTCATATTTATTTCATGACTTGTGACTTTATCCTAGTAATCTTTGTTCTTGACTT
1 TTCATCCTGA-TCATCTTTATTTCTTGACTTGTGACTTTGTCCTAGTAATCCTTGTTCTTGACCT
* * * **
11661628 ACAGTTTTGTCTCAGTCATCTCTATTTTTTGACTTGTGGT
65 ACAGTTTTGTCTCAATCATCTCTATTTTTTAACTTATAAT
* * *
11661668 TTCATCCTGATCATCTTTATTTTTTGACTTGTGACTTTGTCCTTGTCATCCTTGTTCTTGACCTA
1 TTCATCCTGATCATCTTTATTTCTTGACTTGTGACTTTGTCCTAGTAATCCTTGTTCTTGACCTA
* * *
11661733 TAGCTTTAT-TC-CAATCATTTTTATTTTTTAACTTATAAT
66 CAG-TTT-TGTCTCAATCATCTCTATTTTTTAACTTATAAT
* * * *
11661772 TAT-ATCATGATCATCTTTGTTTCTTAACTTGTGACTTAGTCCT
1 T-TCATCCTGATCATCTTTATTTCTTGACTTGTGACTTTGTCCT
11661815 GATAGCTTTT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
104 114 0.93
105 7 0.06
106 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (104 bp):
TTCATCCTGATCATCTTTATTTCTTGACTTGTGACTTTGTCCTAGTAATCCTTGTTCTTGACCTA
CAGTTTTGTCTCAATCATCTCTATTTTTTAACTTATAAT
Found at i:11667128 original size:17 final size:17
Alignment explanation
Indices: 11667106--11667173 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 17
11667096 TACCCAAATA
11667106 ATTTTTTTTCCTTTTTT
1 ATTTTTTTTCCTTTTTT
*
11667123 A--TTTTTT-ATTTTTT
1 ATTTTTTTTCCTTTTTT
**
11667137 AACTTTTTTCCTTTTTT
1 ATTTTTTTTCCTTTTTT
* * *
11667154 GTTTTTATGCCTTTTTT
1 ATTTTTTTTCCTTTTTT
11667171 ATT
1 ATT
11667174 AAATTAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
14 7 0.17
15 6 0.15
16 6 0.15
17 21 0.52
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTTTTTCCTTTTTT
Done.