Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007912.1 Hibiscus syriacus cultivar Beakdansim tig00110313_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1361188
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 5 of 6
Found at i:1066632 original size:24 final size:24
Alignment explanation
Indices: 1066598--1066644 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1066588 CTGAAACATC
1066598 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1066622 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1066645 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1067354 original size:20 final size:20
Alignment explanation
Indices: 1067326--1067555 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
1067316 AAATTTCAGT
* * *
1067326 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1067346 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1067366 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1067386 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1067406 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1067426 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1067446 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * * *
1067466 GTTGCAATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1067486 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1067506 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1067526 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1067546 GTTGCGATTT
1 GTTGCGATTT
1067556 TAGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1067607 original size:21 final size:21
Alignment explanation
Indices: 1067522--1067619 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
1067512 ATTTATGTGT
* *
1067522 TCGCGTTGCGATTTTC-ATAT
1 TCGCGTTGCGATTTTCAAAAA
1067542 TCGCGTTGCGATTTT-AGAAAA
1 TCGCGTTGCGATTTTCA-AAAA
** * ** **
1067563 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTCAAAAA
* *
1067584 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAAAAA
1067605 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1067620 GGAAACTGAT
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCAAAAA
Found at i:1067615 original size:42 final size:43
Alignment explanation
Indices: 1067522--1067620 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1067512 ATTTATGTGT
*
1067522 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTAGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTAGAAAA
** *
1067563 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTTCA-AGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTT-AGAAAA
*
1067605 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1067621 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 8 0.17
42 35 0.74
43 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTAGAAAA
Found at i:1069116 original size:12 final size:12
Alignment explanation
Indices: 1069095--1069124 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1069085 ACTTTGATCG
*
1069095 AACCTGATCGTT
1 AACCTTATCGTT
1069107 AACCTTATCGTT
1 AACCTTATCGTT
1069119 AACCTT
1 AACCTT
1069125 GACCAGAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (12 bp):
AACCTTATCGTT
Found at i:1073553 original size:44 final size:43
Alignment explanation
Indices: 1073449--1073562 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
1073439 GGAATTGGTA
**
1073449 CCCCTGGGGGGAATCGGT-CTCCCCT--GGG-GGGAATCTGTAC
1 CCCCTGGGGGGAATATGTAC-CCCCTGGGGGAGGGAATCTGTAC
* * *
1073489 CCTCTGGGGGGAATATGTACCCCTTGGGGGAGGGAATCTGTTC
1 CCCCTGGGGGGAATATGTACCCCCTGGGGGAGGGAATCTGTAC
*
1073532 CCCCTAGGGGGGAATCTGTACCCCCTGGGGG
1 CCCCT-GGGGGGAATATGTACCCCCTGGGGG
1073563 GAATATGTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 19 0.31
41 1 0.02
42 3 0.05
43 15 0.25
44 23 0.38
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.21
Consensus pattern (43 bp):
CCCCTGGGGGGAATATGTACCCCCTGGGGGAGGGAATCTGTAC
Found at i:1073571 original size:20 final size:20
Alignment explanation
Indices: 1073435--1073571 Score: 145
Period size: 20 Copynumber: 6.7 Consensus size: 20
1073425 CCGTTAGACA
1073435 GGGGGGAAT-TGGTA-CCCCT
1 GGGGGGAATCT-GTACCCCCT
*
1073454 GGGGGGAATCGGT-CTCCCCT
1 GGGGGGAATCTGTAC-CCCCT
*
1073474 GGGGGGAATCTGTACCCTCT
1 GGGGGGAATCTGTACCCCCT
* *
1073494 GGGGGGAATATGTACCCCTT
1 GGGGGGAATCTGTACCCCCT
*
1073514 GGGGGAGGGAATCTGTTCCCCCT
1 --GGG-GGGAATCTGTACCCCCT
1073537 AGGGGGGAATCTGTACCCCCT
1 -GGGGGGAATCTGTACCCCCT
*
1073558 GGGGGGAATATGTA
1 GGGGGGAATCTGTA
1073572 TCCTTGGACA
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.11
20 51 0.52
21 17 0.17
22 6 0.06
23 14 0.14
ACGTcount: A:0.17, C:0.23, G:0.39, T:0.22
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:1074227 original size:29 final size:30
Alignment explanation
Indices: 1074191--1074285 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 30
1074181 TTTTTGTGCT
1074191 CTTTTATTTTATTTACATTTAAG-TCTTTA
1 CTTTTATTTTATTTACATTTAAGATCTTTA
* *
1074220 CTTTTA-TTCACTTTACATTTCAGTATCTTTA
1 CTTTTATTTTA-TTTACATTTAAG-ATCTTTA
* *
1074251 --TTT-TTTTATTTACATTTTAGAACTTTTA
1 CTTTTATTTTATTTACATTTAAGATC-TTTA
1074279 -TTTTATT
1 CTTTTATT
1074286 CATTTTCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
27 2 0.04
28 18 0.33
29 26 0.48
30 2 0.04
31 6 0.11
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (30 bp):
CTTTTATTTTATTTACATTTAAGATCTTTA
Found at i:1074766 original size:298 final size:288
Alignment explanation
Indices: 1074276--1074857 Score: 808
Period size: 298 Copynumber: 2.0 Consensus size: 288
1074266 TTTAGAACTT
* *
1074276 TTATTTTATTCATTTTCATTTTAGTAGCTTAACTCTATTTATTTAAACTTCATTACCTATCTACT
1 TTATTTTATTCATTTTCATTTTAGTAGCTTAACTCTATTTATTTAAACTTAATTACCTATCTAAT
* * *
1074341 TACTGCCATTTACTTTCATCTTTTTTTTTTTACATGGTTCATTTTCGTCCTTATTTGTTTATTTA
66 TACTGCCATTTACTTCCAGCTTTTTTTTTTTACATGCTTCATTTTCGTCCTTATTTGTTTATTTA
*
1074406 TGCTAATATTTATGATTTTAGGTTCTAACCAAATTTTCTTTCATTTTAGTCCTTTGTGAAAGTTA
131 TGCTAATATTTATGATTTTAGGTTCTAACCAAATTTTCTTTCATTTTAGCCCTTTGTGAAAGTTA
* *
1074471 TAAATATTTATTTATTTCCTTTCTATGTGAGCATTTATTCTCTTATTAATTTAGTCAAAATTTCT
196 TAAATATTTATTTATTTCCTTTCTATGTAAGCATTTATTCTCTTATTAATTTAGTCAAAATTTAT
1074536 AAATTCTTT-ATTTCTTACCTTTTATTTC
261 AAATTCTTTAATTT-TTACCTTTTATTTC
*** * ** *
1074564 TTATTTTATTCATTTTCATTTTAGTAGCTTTGTTTTATTTATTTCCACTTAAGTT-CCTATTTAA
1 TTATTTTATTCATTTTCATTTTAGTAGCTTAACTCTATTTATTTAAACTTAA-TTACCTATCTAA
* * * * *
1074628 TTACTGTCATTTACTTCCAGGTTTTTATTTTTTGTCATGCTTCATTTTTGTTCTTATTTGTTTAT
65 TTACTGCCATTTACTTCCAGCTTTTT-TTTTTT-ACATGCTTCATTTTCGTCCTTATTTG-----
* * * *
1074693 TTATGCATTTATGCTAATATTTATTATTTTAGGTTCTAATCTAATTTTCTTTCATTTTGGCCCTT
123 TT-T--ATTTATGCTAATATTTATGATTTTAGGTTCTAACCAAATTTTCTTTCATTTTAGCCCTT
* *
1074758 TTTGAAAGTTATAGATATTTATTTATTTCCTTTCTATGTAAGCATTTATTCTCTTATTAATTTAG
185 TGTGAAAGTTATAAATATTTATTTATTTCCTTTCTATGTAAGCATTTATTCTCTTATTAATTTAG
1074823 TCAAAATTTATAAATTCTTTAATTTTTACCTTTTA
250 TCAAAATTTATAAATTCTTTAATTTTTACCTTTTA
1074858 CCTTTTGTTT
Statistics
Matches: 256, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
288 74 0.29
289 8 0.03
290 22 0.09
295 2 0.01
296 1 0.00
298 145 0.57
299 4 0.02
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (288 bp):
TTATTTTATTCATTTTCATTTTAGTAGCTTAACTCTATTTATTTAAACTTAATTACCTATCTAAT
TACTGCCATTTACTTCCAGCTTTTTTTTTTTACATGCTTCATTTTCGTCCTTATTTGTTTATTTA
TGCTAATATTTATGATTTTAGGTTCTAACCAAATTTTCTTTCATTTTAGCCCTTTGTGAAAGTTA
TAAATATTTATTTATTTCCTTTCTATGTAAGCATTTATTCTCTTATTAATTTAGTCAAAATTTAT
AAATTCTTTAATTTTTACCTTTTATTTC
Found at i:1075591 original size:31 final size:31
Alignment explanation
Indices: 1075553--1075622 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
1075543 CTTTTAAAAC
*
1075553 TTACAATACAATCCCCCAACATTTAGTCCGT
1 TTACAATACAATCCCCCAACATTTAGTCAGT
* ***
1075584 TTGCAATATGGTCCCCCAACATTTAGTCAGT
1 TTACAATACAATCCCCCAACATTTAGTCAGT
1075615 TTACAATA
1 TTACAATA
1075623 TGGTCCCTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (31 bp):
TTACAATACAATCCCCCAACATTTAGTCAGT
Found at i:1075623 original size:31 final size:31
Alignment explanation
Indices: 1075564--1075629 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
1075554 TACAATACAA
* *
1075564 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCAGTTTACAATATGG
1075595 TCCCCCAACATTTAGTCAGTTTACAATATGG
1 TCCCCCAACATTTAGTCAGTTTACAATATGG
1075626 TCCC
1 TCCC
1075630 TGACGTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCAGTTTACAATATGG
Found at i:1077889 original size:31 final size:31
Alignment explanation
Indices: 1077854--1077923 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
1077844 TTTTTAAAAC
1077854 TTGCAATACAG-CCCTCTAACATTTAATCCGT
1 TTGCAATACAGTCCC-CTAACATTTAATCCGT
** * *
1077885 TTGCAATATGGTCCCCTGACATTTAGTCCGT
1 TTGCAATACAGTCCCCTAACATTTAATCCGT
1077916 TTGCAATA
1 TTGCAATA
1077924 TGATCCCTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (31 bp):
TTGCAATACAGTCCCCTAACATTTAATCCGT
Found at i:1077934 original size:30 final size:31
Alignment explanation
Indices: 1077872--1077934 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1077862 CAGCCCTCTA
*
1077872 ACATTTAATCCGTTTGCAATATGGTCCCCTG
1 ACATTTAATCCGTTTGCAATATGATCCCCTG
*
1077903 ACATTTAGTCCGTTTGCAATATGAT-CCCTG
1 ACATTTAATCCGTTTGCAATATGATCCCCTG
1077933 AC
1 AC
1077935 CTAACTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
ACATTTAATCCGTTTGCAATATGATCCCCTG
Found at i:1078588 original size:36 final size:36
Alignment explanation
Indices: 1078532--1078602 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
1078522 CGAATTAAAC
* * *
1078532 GGGGATGGGGGAAAATCGTTTATGATAAACGGGGAT
1 GGGGACGGGGAAAAACCGTTTATGATAAACGGGGAT
*
1078568 GGGGACGGGGAAAAACCGTTTATGCTAAACGGGGA
1 GGGGACGGGGAAAAACCGTTTATGATAAACGGGGA
1078603 CAAGGACGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.41, T:0.18
Consensus pattern (36 bp):
GGGGACGGGGAAAAACCGTTTATGATAAACGGGGAT
Found at i:1078610 original size:36 final size:36
Alignment explanation
Indices: 1078538--1078614 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1078528 AAACGGGGAT
* * ***
1078538 GGGGGAAAATCGTTTATGATAAACGGGGATGGGGAC
1 GGGGAAAAACCGTTTATGATAAACGGGGACAAGGAC
*
1078574 GGGGAAAAACCGTTTATGCTAAACGGGGACAAGGAC
1 GGGGAAAAACCGTTTATGATAAACGGGGACAAGGAC
1078610 GGGGA
1 GGGGA
1078615 GAGATTTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.40, T:0.16
Consensus pattern (36 bp):
GGGGAAAAACCGTTTATGATAAACGGGGACAAGGAC
Found at i:1078682 original size:2 final size:2
Alignment explanation
Indices: 1078675--1078709 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1078665 ATTAAAAATA
1078675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1078710 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1078737 original size:30 final size:33
Alignment explanation
Indices: 1078703--1078771 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
1078693 ATATATATAT
1078703 ATATATAATAA-ATTTA-AT-TTAAATTAAAAA
1 ATATATAATAATATTTATATATTAAATTAAAAA
* * *
1078733 ATATAT-ATAATATTTATATATTTAATTTAAAT
1 ATATATAATAATATTTATATATTAAATTAAAAA
1078765 ATATATA
1 ATATATA
1078772 TACCCGGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.12
30 11 0.34
31 2 0.06
32 15 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATATATAATAATATTTATATATTAAATTAAAAA
Found at i:1079143 original size:16 final size:17
Alignment explanation
Indices: 1079124--1079161 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1079114 ACCTGATATG
*
1079124 ATATTTACCTGACTT-T
1 ATATTTAACTGACTTAT
*
1079140 ATATTTAACTTACTTAT
1 ATATTTAACTGACTTAT
1079157 ATATT
1 ATATT
1079162 ACCGTGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTTAACTGACTTAT
Found at i:1079319 original size:13 final size:13
Alignment explanation
Indices: 1079303--1079329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1079293 GACTTATTAT
1079303 ATAAAATTATTTA
1 ATAAAATTATTTA
1079316 ATAAAATTATTTA
1 ATAAAATTATTTA
1079329 A
1 A
1079330 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:1079339 original size:15 final size:14
Alignment explanation
Indices: 1079303--1079345 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
1079293 GACTTATTAT
1079303 ATAAAATTATTT-A
1 ATAAAATTATTTAA
1079316 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
1079330 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
1079345 A
1 A
1079346 AATGATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:1079429 original size:23 final size:24
Alignment explanation
Indices: 1079384--1079437 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
1079374 CAATTATTAA
**
1079384 ATGTAAATTAATATGGTTTAATTT
1 ATGTAAATTAATACCGTTTAATTT
1079408 ATGTAAATT-ATACCGTTTAATTT
1 ATGTAAATTAATACCGTTTAATTT
1079431 ATGTAAA
1 ATGTAAA
1079438 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (24 bp):
ATGTAAATTAATACCGTTTAATTT
Found at i:1083288 original size:7 final size:7
Alignment explanation
Indices: 1083272--1083331 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
1083262 TAAATATATA
1083272 GTTTAAG
1 GTTTAAG
*
1083279 GTTTATG
1 GTTTAAG
1083286 GTTT-AG
1 GTTTAAG
*
1083292 TGTTTAGG
1 -GTTTAAG
*
1083300 GTTTAAA
1 GTTTAAG
1083307 GTTTAAG
1 GTTTAAG
*
1083314 GTTTAAA
1 GTTTAAG
*
1083321 GTTTAGG
1 GTTTAAG
1083328 GTTT
1 GTTT
1083332 GGAGTTTCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
6 1 0.02
7 40 0.95
8 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:1083338 original size:14 final size:14
Alignment explanation
Indices: 1083272--1083331 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
1083262 TAAATATATA
* *
1083272 GTTTAAGGTTTATG
1 GTTTAAAGTTTAGG
**
1083286 GTTTAGTGTTTAGG
1 GTTTAAAGTTTAGG
*
1083300 GTTTAAAGTTTAAG
1 GTTTAAAGTTTAGG
1083314 GTTTAAAGTTTAGG
1 GTTTAAAGTTTAGG
1083328 GTTT
1 GTTT
1083332 GGAGTTTCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (14 bp):
GTTTAAAGTTTAGG
Found at i:1083338 original size:28 final size:28
Alignment explanation
Indices: 1083272--1083331 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1083262 TAAATATATA
* * **
1083272 GTTTAAGGTTTATGGTTTAGTGTTTAGG
1 GTTTAAAGTTTAAGGTTTAAAGTTTAGG
1083300 GTTTAAAGTTTAAGGTTTAAAGTTTAGG
1 GTTTAAAGTTTAAGGTTTAAAGTTTAGG
1083328 GTTT
1 GTTT
1083332 GGAGTTTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (28 bp):
GTTTAAAGTTTAAGGTTTAAAGTTTAGG
Found at i:1083383 original size:2 final size:2
Alignment explanation
Indices: 1083378--1083632 Score: 285
Period size: 2 Copynumber: 129.5 Consensus size: 2
1083368 TAGTTTATGC
1083378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1083420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1083462 AT AT AT AT AT AT AT AT AT ACT AT -T AT AT -T AGT -T AT AC AT AC
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT
* *
1083503 AT AC AT AT AT AT -T AT AT AT -T A- AT AT A- AT -T AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
1083541 AT AT -T TT AT AT ACT TT AT AC AT AT AT AGT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * *
1083584 AT AT AT AT AT AT AT AT AC AT AT AC AT AT AC AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1083626 AC AT AT A
1 AT AT AT A
1083633 CATACATACA
Statistics
Matches: 214, Mismatches: 25, Indels: 28
0.80 0.09 0.10
Matches are distributed among these distances:
1 9 0.04
2 199 0.93
3 6 0.03
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1083639 original size:4 final size:4
Alignment explanation
Indices: 1083610--1084932 Score: 2526
Period size: 4 Copynumber: 333.8 Consensus size: 4
1083600 ACATATACAT
* * * *
1083610 ATAC ATAT ATAC ATAT ACAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083658 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083706 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083754 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083802 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083846 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083894 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083940 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1083986 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084034 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084082 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084130 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084177 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084225 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084273 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084321 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084367 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084415 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084463 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084511 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084559 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084607 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084654 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084702 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084750 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084798 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084846 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1084894 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1084933 TATATATATA
Statistics
Matches: 1301, Mismatches: 6, Indels: 24
0.98 0.00 0.02
Matches are distributed among these distances:
2 10 0.01
3 6 0.00
4 1285 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:1084937 original size:2 final size:2
Alignment explanation
Indices: 1084930--1084955 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1084920 ACATACATAC
1084930 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
1084956 TAATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1084961 original size:10 final size:11
Alignment explanation
Indices: 1084930--1084969 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
1084920 ACATACATAC
1084930 ATATA-TATAT
1 ATATATTATAT
1084940 ATATA-TATAT
1 ATATATTATAT
1084950 ATATATTA-AT
1 ATATATTATAT
*
1084960 ATAAATTATA
1 ATATATTATA
1084970 GTTTATAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 24 0.89
11 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATATTATAT
Found at i:1085010 original size:13 final size:13
Alignment explanation
Indices: 1084996--1085055 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
1084986 CTTTTTATAG
*
1084996 TTTATATACATAG
1 TTTATATACATAA
*
1085009 TTTATATATATAA
1 TTTATATACATAA
*
1085022 TTCATATAAACATAA
1 TT--TATATACATAA
*
1085037 TTTATATATATAA
1 TTTATATACATAA
*
1085050 CTTATA
1 TTTATA
1085056 ATAATTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 27 0.71
15 11 0.29
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (13 bp):
TTTATATACATAA
Found at i:1085018 original size:15 final size:15
Alignment explanation
Indices: 1084998--1085046 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
1084988 TTTTATAGTT
*
1084998 TATATACATAGTTTA
1 TATATACATAATTTA
*
1085013 TATAT--ATAATTCA
1 TATATACATAATTTA
*
1085026 TATAAACATAATTTA
1 TATATACATAATTTA
1085041 TATATA
1 TATATA
1085047 TAACTTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (15 bp):
TATATACATAATTTA
Found at i:1085035 original size:28 final size:28
Alignment explanation
Indices: 1084998--1085079 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
1084988 TTTTATAGTT
*
1084998 TATATACATAGTTTATATATATAA-TTCA
1 TATAAACATAGTTTATATATATAACTT-A
*
1085026 TATAAACATAATTTATATATATAACTTA
1 TATAAACATAGTTTATATATATAACTTA
*
1085054 TAATAATTATATAGTTTATA-ATATAA
1 T-ATAA--ACATAGTTTATATATATAA
1085080 ATATAGTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 24 0.52
29 6 0.13
30 6 0.13
31 10 0.22
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
TATAAACATAGTTTATATATATAACTTA
Found at i:1085083 original size:18 final size:17
Alignment explanation
Indices: 1085062--1085095 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1085052 TATAATAATT
1085062 ATATAGTTTATAATATAA
1 ATATAGTTTAT-ATATAA
1085080 ATATAGTTTATATATA
1 ATATAGTTTATATATA
1085096 CACTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
ATATAGTTTATATATAA
Found at i:1091201 original size:15 final size:15
Alignment explanation
Indices: 1091181--1091283 Score: 100
Period size: 15 Copynumber: 6.4 Consensus size: 15
1091171 TACTAGCATT
1091181 AAAAAAAAGAAAAGG
1 AAAAAAAAGAAAAGG
* *
1091196 AAAAAAATGAAAGGG
1 AAAAAAAAGAAAAGG
1091211 AAAAGAGAAAAGAGAAAAGAG
1 --AA-A-AAAA-AGAAAAG-G
1091232 AAAAAAAAGAAAAAAGG
1 AAAAAAAAG--AAAAGG
1091249 AAAAAAAAGAAAAGG
1 AAAAAAAAGAAAAGG
*
1091264 AAAGAAAAGAAAA-G
1 AAAAAAAAGAAAAGG
1091278 AAAAAA
1 AAAAAA
1091284 GGAAAAAGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
14 6 0.08
15 31 0.42
16 2 0.03
17 16 0.22
18 7 0.09
19 6 0.08
20 5 0.07
21 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (15 bp):
AAAAAAAAGAAAAGG
Found at i:1091215 original size:7 final size:7
Alignment explanation
Indices: 1091205--1091294 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
1091195 GAAAAAAATG
*
1091205 AAAGGGA
1 AAAGAGA
1091212 AAAGAGA
1 AAAGAGA
1091219 AAAGAGA
1 AAAGAGA
1091226 AAAGAG-
1 AAAGAGA
1091232 AAA-A-A
1 AAAGAGA
*
1091237 AAAGAAA
1 AAAGAGA
*
1091244 AAAGGAAA
1 AAA-GAGA
*
1091252 AAAAAGA
1 AAAGAGA
1091259 AAAG-GAA
1 AAAGAG-A
*
1091266 AGAAAAGA
1 A-AAGAGA
*
1091274 AAAGAAA
1 AAAGAGA
1091281 AAAG-GAA
1 AAAGAG-A
1091288 AAAGAGA
1 AAAGAGA
1091295 GAGAAGGAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
5 4 0.06
6 5 0.08
7 44 0.67
8 12 0.18
9 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:1091261 original size:5 final size:5
Alignment explanation
Indices: 1091181--1091281 Score: 70
Period size: 5 Copynumber: 20.8 Consensus size: 5
1091171 TACTAGCATT
* * * *
1091181 AAAA- AAAAG AAAAGG AAAA- AAATG AAAGGG AAAAG AGAA- AAGAG AAAAG
1 AAAAG AAAAG AAAA-G AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG
* * *
1091230 AGAAAA AAAAG -AAA- AAAGG AAAA- AAAAG AAAAG GAAAG AAAAG AAAAG
1 A-AAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1091278 AAAA
1 AAAA
1091282 AAGGAAAAAG
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
4 18 0.24
5 44 0.59
6 13 0.17
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:1091266 original size:53 final size:52
Alignment explanation
Indices: 1091181--1091310 Score: 147
Period size: 53 Copynumber: 2.4 Consensus size: 52
1091171 TACTAGCATT
* * * *
1091181 AAAAAAAAGAAAAGGAAAAAAATG-AAAGGGAA-AAGAGAAAAGAGAAAAGAG
1 AAAAAAAAGAAAAGGAAAAAAAAGAAAAGGAAAGAAAAGAAAAGAAAAAAG-G
1091232 AAAAAAAAGAAAAAAGGAAAAAAAAGAAAAGGAAAGAAAAGAAAAGAAAAAAGG
1 AAAAAAAAG--AAAAGGAAAAAAAAGAAAAGGAAAGAAAAGAAAAGAAAAAAGG
* *
1091286 AAAAAGAGAGAGAAGGAAAATAAAA
1 AAAAA-AAAGAAAAGGAAAA-AAAA
1091311 AGGTGGTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
51 9 0.13
53 23 0.34
54 17 0.25
55 18 0.27
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (52 bp):
AAAAAAAAGAAAAGGAAAAAAAAGAAAAGGAAAGAAAAGAAAAGAAAAAAGG
Found at i:1091283 original size:37 final size:37
Alignment explanation
Indices: 1091230--1091304 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
1091220 AAGAGAAAAG
1091230 AGAAAAAAAAGAAAAAAGGAAAAA-AAAGAAAAGGAA
1 AGAAAAAAAAGAAAAAAGGAAAAAGAAAGAAAAGGAA
* *
1091266 AGAAAAGAAAAGAAAAAAGGAAAAAGAGAGAGAAGGAA
1 AGAAAA-AAAAGAAAAAAGGAAAAAGAAAGAAAAGGAA
1091304 A
1 A
1091305 ATAAAAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 6 0.17
37 18 0.51
38 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (37 bp):
AGAAAAAAAAGAAAAAAGGAAAAAGAAAGAAAAGGAA
Found at i:1091290 original size:9 final size:9
Alignment explanation
Indices: 1091218--1091283 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
1091208 GGGAAAAGAG
*
1091218 AAAAGAGAA
1 AAAAGAAAA
*
1091227 AAGAGAAAA
1 AAAAGAAAA
1091236 AAAAG-AAA
1 AAAAGAAAA
*
1091244 AAAGGAAAA
1 AAAAGAAAA
1091253 AAAAGAAAA
1 AAAAGAAAA
*
1091262 GGAAAGAAAA
1 -AAAAGAAAA
1091272 GAAAAGAAAA
1 -AAAAGAAAA
1091282 AA
1 AA
1091284 GGAAAAAGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
8 7 0.15
9 24 0.50
10 17 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:1091290 original size:14 final size:14
Alignment explanation
Indices: 1091190--1091292 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 14
1091180 TAAAAAAAAG
1091190 AAAAGGAAAAA-AA
1 AAAAGGAAAAAGAA
* * *
1091203 TGAAAGGGAAAAGAG
1 -AAAAGGAAAAAGAA
1091218 AAAAGAGAAAAGAGAAAA
1 AAAAG-GAAAA-AG--AA
*
1091236 AAAAGAAAAAAGGAAA
1 AAAAGGAAAAA-G-AA
* *
1091252 AAAAAGAAAAGGAA
1 AAAAGGAAAAAGAA
*
1091266 AGAAAAG-AAAAGAA
1 A-AAAGGAAAAAGAA
1091280 AAAAGGAAAAAGA
1 AAAAGGAAAAAGA
1091293 GAGAGAAGGA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
13 4 0.06
14 29 0.42
15 11 0.16
16 14 0.20
17 5 0.07
18 6 0.09
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (14 bp):
AAAAGGAAAAAGAA
Found at i:1091304 original size:29 final size:28
Alignment explanation
Indices: 1091185--1091311 Score: 84
Period size: 28 Copynumber: 4.5 Consensus size: 28
1091175 AGCATTAAAA
* *
1091185 AAAAGAAAAGGAAAAAAATG-AAAGGGAA-
1 AAAAGAAAA-GAAAAAAA-GAAAAAGAAAG
* *
1091213 AAGAGAAAAGAGAAAAGAGAAAAA-AAAG
1 AAAAGAAAAGA-AAAAAAGAAAAAGAAAG
* *
1091241 -AAA-AAAGGAAAAAAAAGAAAAGGAAAG
1 AAAAGAAAAG-AAAAAAAGAAAAAGAAAG
* *
1091268 AAAAGAAAAGAAAAAAGGAAAAAGAGAG
1 AAAAGAAAAGAAAAAAAGAAAAAGAAAG
* *
1091296 AGAAGGAAAATAAAAA
1 A-AAAGAAAAGAAAAA
1091312 GGTGGTTTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
26 14 0.18
27 12 0.16
28 35 0.45
29 16 0.21
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (28 bp):
AAAAGAAAAGAAAAAAAGAAAAAGAAAG
Found at i:1091647 original size:116 final size:116
Alignment explanation
Indices: 1091438--1091689 Score: 283
Period size: 116 Copynumber: 2.2 Consensus size: 116
1091428 CCCTTTCAAT
* * * * * *
1091438 AGTCTAGTACTTTGGGATAAGCTTCACATCTACATACATTCTGGAAACATTGGAGTCTTTTTAGA
1 AGTCTAATATTTTGGGATGAGCTTCACATCTACATACATTATGGAAACATTGAAGTCTTTTAAGA
** * *
1091503 AAAAAGCTTACCTCTACGTTTCGGGATTATATCCGTTTGATTAGTTCAG-G
66 AAAAAGCTTACCTCTACACTTCGAGATTATATCCGGTTGATTAGTTCAGAG
* * * *
1091553 AAGTCTAATATTTTGGGATGAGCTTCGCATCTACATATATTATGGTAATATTTGAAGTC-TTTAA
1 -AGTCTAATATTTTGGGATGAGCTTCACATCTACATACATTATGGAAACA-TTGAAGTCTTTTAA
* * * * *
1091617 GATAAAAGTTTACCTCTCCACTTCGAGATTATATTCGGTTGATTATTTCAGAG
64 GAAAAAAGCTTACCTCTACACTTCGAGATTATATCCGGTTGATTAGTTCAGAG
* *
1091670 AGTATGATATTTTGGGATGA
1 AGTCTAATATTTTGGGATGA
1091690 ACTTTAAATA
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
116 105 0.93
117 8 0.07
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (116 bp):
AGTCTAATATTTTGGGATGAGCTTCACATCTACATACATTATGGAAACATTGAAGTCTTTTAAGA
AAAAAGCTTACCTCTACACTTCGAGATTATATCCGGTTGATTAGTTCAGAG
Found at i:1093044 original size:44 final size:44
Alignment explanation
Indices: 1092986--1093571 Score: 234
Period size: 44 Copynumber: 13.3 Consensus size: 44
1092976 GCTCAAACCT
* *
1092986 ATCACATAATGAGGTAGATCAACATCAACATTTTGTTCGATTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
* * ** **
1093030 ATAACAGAAGGAGGTGGAT-----T-GTCATTCCGTTCGATTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
* * * * *
1093068 ATCACAAAAGAAGGTGGATCAACAT-AACCTTATTTTGGTCGATTCT
1 ATCACAGAAGGAGGTAGATCAACATCAA-C--ATTTTGTTCGATTCC
*
1093114 ATCAC-GAAGGAGGTAGATCAACATCAACATTTTGTTTGATTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
* * *** * *
1093157 ATCACAGAATGAGGTGGATCAACATTTTCATTTCGGTCGATTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
* * * * *
1093201 ATCACAAAAGGAGGTGGATCAATAT-AACCTTATT-TTACTTGATTCA
1 ATCACAGAAGGAGGTAGATCAACATCAACATT-TTGTT-C--GATTCC
*** * * *
1093247 ATCACAGAATCTGGTAGATCAATATCAACATTTTGCAT-GATTCT
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTG-TTCGATTCC
* * * * *** * * **
1093291 ATTATAGGAGGAGGTAAATCTGTATCGATATTTTGTTCTTTTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
* * * *** * *
1093335 ATCATAGAAGGAGAT-GAATTAACATTGCCATTATGCTCGATTCC
1 ATCACAGAAGGAGGTAG-ATCAACATCAACATTTTGTTCGATTCC
* * ** * *
1093379 ATTATAGAAGGATTTAGATCAACAT-AACTTTATTTTGCTCGATTCT
1 ATCACAGAAGGAGGTAGATCAACATCAAC---ATTTTGTTCGATTCC
* * * * *
1093425 ATCACAAAATGAGGTAGATCAACACCGAA-ATTTTGTTAGATTTC
1 ATCACAGAAGGAGGTAGATCAACATC-AACATTTTGTTCGATTCC
* * * * * *
1093469 ATCACAAAAGGAGGTTGATCAACATTATCATTTCGCTT-AATTCC
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTG-TTCGATTCC
* * * * *
1093513 ATCACAGAAGG-GGTTGGATCAGCGTCACCACTTTGTTCGACTT-C
1 ATCACAGAAGGAGG-TAGATCAACATCAACATTTTGTTCGA-TTCC
* *
1093557 ATCATAGAATGAGGT
1 ATCACAGAAGGAGGT
1093572 GGGTCAATAT
Statistics
Matches: 395, Mismatches: 116, Indels: 62
0.69 0.20 0.11
Matches are distributed among these distances:
38 30 0.08
39 1 0.00
43 29 0.07
44 227 0.57
45 24 0.06
46 76 0.19
47 5 0.01
48 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCC
Found at i:1093148 original size:127 final size:129
Alignment explanation
Indices: 1092986--1093281 Score: 371
Period size: 133 Copynumber: 2.3 Consensus size: 129
1092976 GCTCAAACCT
* *
1092986 ATCACATAATGAGGTAGATCAACATCAACATTTTGTTCGATTCCATAACAGAAGGAGGTGG-ATT
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCCATAACAGAAGGAGGTGGAATT
* ** *
1093050 GTCATTCCGTTCGATTCCATCACAAAAGAAGGTGGATCAACATAACCTTATTTTGGTCGATTCT
66 GTCATTCCGGTCGATTCCATCACAAAAGAAGGTGGATCAACATAACCTTATTTTACTCGATTCA
* * *
1093114 ATCAC-GAAGGAGGTAGATCAACATCAACATTTTGTTTGATTCCATCACAGAATGAGGTGGATCA
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCCATAACAGAAGGAGGTGG----
* * * * *
1093178 ACATTTTCATTTCGGTCGATTCCATCACAAAAGGAGGTGGATCAATATAACCTTATTTTACTTGA
62 A-ATTGTCATTCCGGTCGATTCCATCACAAAAGAAGGTGGATCAACATAACCTTATTTTACTCGA
1093243 TTCA
126 TTCA
*** *
1093247 ATCACAGAATCTGGTAGATCAATATCAACATTTTG
1 ATCACAGAAGGAGGTAGATCAACATCAACATTTTG
1093282 CATGATTCTA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
127 50 0.35
128 5 0.03
133 63 0.44
134 25 0.17
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (129 bp):
ATCACAGAAGGAGGTAGATCAACATCAACATTTTGTTCGATTCCATAACAGAAGGAGGTGGAATT
GTCATTCCGGTCGATTCCATCACAAAAGAAGGTGGATCAACATAACCTTATTTTACTCGATTCA
Found at i:1093267 original size:90 final size:87
Alignment explanation
Indices: 1093099--1093268 Score: 198
Period size: 90 Copynumber: 1.9 Consensus size: 87
1093089 ACATAACCTT
* * * ** *
1093099 ATTTTGGTCGATTCTATCACGAAGGAGGTAGATCAACATCAACATTTTGTTTGATTCCATCACAG
1 ATTTCGGTCGATTCCATCACAAAGGAGGTAGATCAACATCAACATTTTACTTGATTCAATCACAG
* *
1093164 AATGAGGTGGATCAACATTTTC
66 AATCAGGTAGATCAACATTTTC
* *
1093186 ATTTCGGTCGATTCCATCACAAAAGGAGGTGGATCAATAT-AACCTTATTTTACTTGATTCAATC
1 ATTTCGGTCGATTCCATCAC-AAAGGAGGTAGATCAACATCAA-C--ATTTTACTTGATTCAATC
*
1093250 ACAGAATCTGGTAGATCAA
62 ACAGAATCAGGTAGATCAA
1093269 TATCAACATT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
87 20 0.29
88 17 0.25
90 31 0.46
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (87 bp):
ATTTCGGTCGATTCCATCACAAAGGAGGTAGATCAACATCAACATTTTACTTGATTCAATCACAG
AATCAGGTAGATCAACATTTTC
Found at i:1093954 original size:3 final size:3
Alignment explanation
Indices: 1093948--1093990 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
1093938 ATTTTTAACC
**
1093948 ATT ATT ATT ATT ATT GGT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1093991 CTACTACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1093995 original size:3 final size:3
Alignment explanation
Indices: 1093989--1094023 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1093979 TTATTATTAT
* *
1093989 TAC TAC TAC TAC TAC TAC TAC TAC CAC TAC CAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1094024 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (3 bp):
TAC
Found at i:1101564 original size:40 final size:39
Alignment explanation
Indices: 1101505--1101609 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 39
1101495 AGGACACTAA
* *
1101505 GTGTATATGGTAGGCACGACCTTATGCGTAATACATTTCG
1 GTGTATATGGT-GGTACGACCTTATGCGTAATACACTTCG
* *
1101545 GTGTATATGGTGGGTACGACCATATGTGTAATACACTTCG
1 GTGTATATGGT-GGTACGACCTTATGCGTAATACACTTCG
*
1101585 ATGTATATGGTGGTCACGACCTTAT
1 GTGTATATGGTGGT-ACGACCTTAT
1101610 ATGTAGCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (39 bp):
GTGTATATGGTGGTACGACCTTATGCGTAATACACTTCG
Found at i:1102216 original size:31 final size:31
Alignment explanation
Indices: 1102169--1102230 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1102159 TGCTGAAATT
* *
1102169 ACTGTAGCATTTACTGTAGCAGTGGATAGTA
1 ACTGCAGCATTTACTGTAGCAGTGAATAGTA
* *
1102200 ACTGCAGCGTTTACTGTAGTAGTGAATAGTA
1 ACTGCAGCATTTACTGTAGCAGTGAATAGTA
1102231 CCAAGGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (31 bp):
ACTGCAGCATTTACTGTAGCAGTGAATAGTA
Found at i:1109063 original size:40 final size:40
Alignment explanation
Indices: 1108992--1109101 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
1108982 AGGAGACTAA
* * * *
1108992 GTGTATATGGTGGGCACAACCTTATGCGTAATACATTTTG
1 GTGTATATGGTGGTCACGACCTTATGTGTAATACACTTTG
*
1109032 GTGTATATGGTGGTCACGACCATATGTGTAATACACTTTG
1 GTGTATATGGTGGTCACGACCTTATGTGTAATACACTTTG
* *
1109072 ATGTATATGGTGGTCACGACCTTATATGTA
1 GTGTATATGGTGGTCACGACCTTATGTGTA
1109102 GCACTACGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
GTGTATATGGTGGTCACGACCTTATGTGTAATACACTTTG
Found at i:1113496 original size:180 final size:182
Alignment explanation
Indices: 1113192--1113553 Score: 710
Period size: 180 Copynumber: 2.0 Consensus size: 182
1113182 AATCAAAATT
1113192 GAGCGAAATCATTAAAACCCTAGCTTTAGGACTTTGGAACATTCGACCATGGCTTGTATGGGTGA
1 GAGCGAAATCATTAAAACCCTAGCTTTAGGACTTTGGAACATTCGACCATGGCTTGTATGGGTGA
1113257 GAAAAATTATGGAAAATTTATGTAAGGGATGGAAATAATGTTGGAATTATTCTACAATCTATAGA
66 GAAAAATTATGGAAAATTTATGTAAGGGATGGAAATAATGTTGGAATTATTCTACAATCTATAGA
1113322 AAAATATAGGGACCATTTGGTAATTTTCAAAAAGTTGGGGGACCAAATCAAA
131 AAAATATAGGGACCATTTGGTAATTTTCAAAAAGTTGGGGGACCAAATCAAA
1113374 GAGCGAAATCATTAAAACCCTAGCTTTAGGACTTTGGAACATTCGACCATGGC-T-TATGGGTGA
1 GAGCGAAATCATTAAAACCCTAGCTTTAGGACTTTGGAACATTCGACCATGGCTTGTATGGGTGA
1113437 GAAAAATTATGGAAAATTTATGTAAGGGATGGAAATAATGTTGGAATTATTCTACAATCTATAGA
66 GAAAAATTATGGAAAATTTATGTAAGGGATGGAAATAATGTTGGAATTATTCTACAATCTATAGA
1113502 AAAATATAGGGACCATTTGGTAATTTTCAAAAAGTTGGGGGACCAAATCAAA
131 AAAATATAGGGACCATTTGGTAATTTTCAAAAAGTTGGGGGACCAAATCAAA
1113554 AATTTTGGAA
Statistics
Matches: 180, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
180 126 0.70
181 1 0.01
182 53 0.29
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (182 bp):
GAGCGAAATCATTAAAACCCTAGCTTTAGGACTTTGGAACATTCGACCATGGCTTGTATGGGTGA
GAAAAATTATGGAAAATTTATGTAAGGGATGGAAATAATGTTGGAATTATTCTACAATCTATAGA
AAAATATAGGGACCATTTGGTAATTTTCAAAAAGTTGGGGGACCAAATCAAA
Found at i:1117160 original size:6 final size:6
Alignment explanation
Indices: 1117149--1117383 Score: 186
Period size: 6 Copynumber: 39.3 Consensus size: 6
1117139 CTATACATAC
* * * *
1117149 ATATAT ATATAT ATATGT ATATGT ATATAA ATATAT GTATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
1117197 ATATGT ATATGT ATATGT ATATAC ATATAC ATATAT ATA-AC ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
1117244 ATATAT ATATACT ATA-AT ATATAT ATATAT ATATAT GTTTAT ATATGT
1 ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* ** * * * * * *
1117292 ATGTAT ATATAT ATGCAT ACATAT ACATAC ATATAC ATACAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * *
1117340 ACATAT ACATAC ATATAC ATACAT ATACAT ATACAT ATATAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
1117384 GTTTACCGTC
Statistics
Matches: 190, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
5 8 0.04
6 178 0.94
7 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:1117162 original size:10 final size:10
Alignment explanation
Indices: 1117149--1117383 Score: 186
Period size: 10 Copynumber: 23.6 Consensus size: 10
1117139 CTATACATAC
1117149 ATATATATAT
1 ATATATATAT
*
1117159 ATATATGTAT
1 ATATATATAT
* *
1117169 ATGTATATAA
1 ATATATATAT
*
1117179 ATATATGTAT
1 ATATATATAT
1117189 ATATATATAT
1 ATATATATAT
* *
1117199 ATGTATATGT
1 ATATATATAT
*
1117209 ATATGTATAT
1 ATATATATAT
* *
1117219 ACATATACAT
1 ATATATATAT
*
1117229 ATATATA-AC
1 ATATATATAT
1117238 ATATATATAT
1 ATATATATAT
1117248 ATATATACTAT
1 ATATATA-TAT
1117259 A-ATATATAT
1 ATATATATAT
1117268 ATATATATAT
1 ATATATATAT
* *
1117278 ATGTTTATAT
1 ATATATATAT
* *
1117288 ATGTATGTAT
1 ATATATATAT
**
1117298 ATATATATGC
1 ATATATATAT
* *
1117308 ATACATATAC
1 ATATATATAT
* *
1117318 ATACATATAC
1 ATATATATAT
* *
1117328 ATACATATAC
1 ATATATATAT
* *
1117338 ATACATATAC
1 ATATATATAT
* *
1117348 ATACATATAC
1 ATATATATAT
* *
1117358 ATACATATAC
1 ATATATATAT
*
1117368 ATATACATAT
1 ATATATATAT
1117378 ATATAT
1 ATATAT
1117384 GTTTACCGTC
Statistics
Matches: 189, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
9 12 0.06
10 173 0.92
11 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (10 bp):
ATATATATAT
Found at i:1118391 original size:29 final size:28
Alignment explanation
Indices: 1118346--1118509 Score: 102
Period size: 29 Copynumber: 5.7 Consensus size: 28
1118336 CCGGTGATAT
*
1118346 TTTGGGAATT-TTCTTTAAAATAGTGACA
1 TTTGGTAATTATT-TTTAAAATAGTGACA
* *
1118374 TTCTGGCAATTATTTTTAAAAT-GATAACA
1 TT-TGGTAATTATTTTTAAAATAG-TGACA
* ** *
1118403 TTTTGGGAATT-TTTTTAAAACGGTGATA
1 -TTTGGTAATTATTTTTAAAATAGTGACA
* *
1118431 TTTAGGTAATT-TTTTTTAAATCTGTGACA
1 TTT-GGTAATTATTTTTAAAAT-AGTGACA
* * * * *
1118460 TTTTAGTAACTATTTTTAAAACAATGATAA
1 -TTTGGTAATTATTTTTAAAATAGTGA-CA
1118490 TTTGGTAATTATTTTTAAAA
1 TTTGGTAATTATTTTTAAAA
1118510 AGGATATATT
Statistics
Matches: 106, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
27 3 0.03
28 29 0.27
29 58 0.55
30 16 0.15
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (28 bp):
TTTGGTAATTATTTTTAAAATAGTGACA
Found at i:1118494 original size:86 final size:86
Alignment explanation
Indices: 1118337--1118531 Score: 205
Period size: 86 Copynumber: 2.3 Consensus size: 86
1118327 CGACTCGACC
* * * **
1118337 CGGTGATATTTTGGGAATTTTCTTTAAAATAGTGACATTCTGGCAATTATTTTTAAAATGATAAC
1 CGGTGATATTTTGGTAATTTT-TTTAAAATAGTGACATTCTAGCAACTATTTTTAAAACAATAAC
*
1118402 ATTTTGGGAATT-TTTTTAAAA
65 AATTTGGGAATTATTTTTAAAA
* * * * * * *
1118423 CGGTGATATTTAGGTAATTTTTTTTAAATCTGTGACATTTTAGTAACTATTTTTAAAACAATGAT
1 CGGTGATATTTTGGTAATTTTTTTAAAAT-AGTGACATTCTAGCAACTATTTTTAAAACAATAAC
*
1118488 AATTTGGTAATTATTTTTAAAA
65 AATTTGGGAATTATTTTTAAAA
* *
1118510 AGGAT-ATATTTTTGTAATTTTT
1 CGG-TGATATTTTGGTAATTTTT
1118532 GAATGTGAAC
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
85 7 0.08
86 55 0.62
87 26 0.29
88 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (86 bp):
CGGTGATATTTTGGTAATTTTTTTAAAATAGTGACATTCTAGCAACTATTTTTAAAACAATAACA
ATTTGGGAATTATTTTTAAAA
Found at i:1119955 original size:18 final size:21
Alignment explanation
Indices: 1119934--1119971 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
1119924 TTTTTATAGT
1119934 ATAAAT-T-ATTT-TAATATC
1 ATAAATGTCATTTATAATATC
1119952 ATAAATGTCATTTATAATAT
1 ATAAATGTCATTTATAATAT
1119972 GATTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 1 0.06
20 4 0.24
21 6 0.35
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
ATAAATGTCATTTATAATATC
Found at i:1125907 original size:29 final size:29
Alignment explanation
Indices: 1125792--1126004 Score: 238
Period size: 29 Copynumber: 7.4 Consensus size: 29
1125782 ACTCGATGAC
* * * *
1125792 ATTTTGGGAATT-TTCTTAAAAATAGTGAC
1 ATTTTGGTAATTATT-TTTAAAACAGTGAT
* *
1125821 ATTATGGTAATTATTTTTAAAAC-GATGAC
1 ATTTTGGTAATTATTTTTAAAACAG-TGAT
* * *
1125850 ATTTTGGGAA-T-TTTTTAAAACGGTTAT
1 ATTTTGGTAATTATTTTTAAAACAGTGAT
*
1125877 ATTTTGGTAATTATTTTTAAATCAGTGAT
1 ATTTTGGTAATTATTTTTAAAACAGTGAT
*
1125906 ATTTTGGTAATTATTTTTAAATCAGTGAT
1 ATTTTGGTAATTATTTTTAAAACAGTGAT
* *
1125935 ATTTTAGTAATTATTTTTAAAACAATGAT
1 ATTTTGGTAATTATTTTTAAAACAGTGAT
1125964 ATTTTGGTAATTATTTTTAAAA-AGGTGAT
1 ATTTTGGTAATTATTTTTAAAACA-GTGAT
*
1125993 ATTTTTGTAATT
1 ATTTTGGTAATT
1126005 TTTGATTGTG
Statistics
Matches: 160, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
27 21 0.13
28 5 0.03
29 132 0.82
30 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTTTGGTAATTATTTTTAAAACAGTGAT
Found at i:1129255 original size:9 final size:10
Alignment explanation
Indices: 1129230--1129258 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1129220 ATAAATCAAA
1129230 TATTTTTAGT
1 TATTTTTAGT
1129240 TATTTTTAGT
1 TATTTTTAGT
1129250 TATTTTTAG
1 TATTTTTAG
1129259 AATTAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (10 bp):
TATTTTTAGT
Found at i:1135288 original size:45 final size:45
Alignment explanation
Indices: 1135215--1135338 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
1135205 TATAGACCTT
**
1135215 CTTACCATTTA-TCACATAAGCTAATAAGCTTATTTTACCAATATA
1 CTTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAATATA
* * **
1135260 TTTTCCATTTATTCCATAAGCTCGTAAGCTTATTTTACCCGTATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
1135305 CTTACCATTT-TTTCTTAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1135339 GCATGCTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.32
45 44 0.65
46 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:1135498 original size:40 final size:40
Alignment explanation
Indices: 1135443--1135551 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 40
1135433 ACCTTAGTGC
*
1135443 TACACATAAGGTCGTGCCCACCATATATA-CTAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACATC-AAAGTGTAT
1135483 TACACATAAGGTCGTGCCCACCATATACATCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACATCAAAGTGTAT
* ** *
1135523 TGCACATAATATCGTGCCCACCATGTACA
1 TACACATAAGGTCGTGCCCACCATATACA
1135552 CTTAGTGTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 62 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACATCAAAGTGTAT
Found at i:1142074 original size:12 final size:12
Alignment explanation
Indices: 1142049--1142087 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1142039 GCATCGATGC
1142049 GCTACAGT-ACT
1 GCTACAGTAACT
1142060 GCTACAGTAACT
1 GCTACAGTAACT
*
1142072 GCTACAGAAACT
1 GCTACAGTAACT
1142084 GCTA
1 GCTA
1142088 TATTTTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (12 bp):
GCTACAGTAACT
Found at i:1142513 original size:45 final size:45
Alignment explanation
Indices: 1142441--1142565 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
1142431 TATAGACTTT
* *
1142441 CTTACCATTTA-TCATATAAGCTAATAAGCTTATTTTACCAATATA
1 CTTACCATTTATTC-CATAAGCTCATAAGCTTATTTTACCAATATA
* **
1142486 CTTGCCATTTATTCCATAAGCTCATAAGCTTATTTTACCCGTATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATA
* * * *
1142531 CTTACCGTTTATTTCTTAAGCTCTTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
1142566 GCATGCTTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 67 0.97
46 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATA
Found at i:1142795 original size:40 final size:40
Alignment explanation
Indices: 1142670--1142779 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
1142660 ACCTTAGTGC
* * *
1142670 TACACTTAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
* * * * *
1142710 TACACATAAGGTCGTGTCCGCTATATACATCAAAGTGTAA
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
1142750 TACACATAAGGTCGTGCCCACCATGTACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
1142780 TTAGTGTCCT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:1145991 original size:27 final size:27
Alignment explanation
Indices: 1145961--1146047 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
1145951 GATAATGCCT
1145961 CTAAAGTATAAAATGACCAAAATACCC
1 CTAAAGTATAAAATGACCAAAATACCC
*
1145988 CTAAAGTATAAAATGACCAAAATACTC
1 CTAAAGTATAAAATGACCAAAATACCC
* * * *
1146015 CTAAAGTGTAAAATGGCCTAAAGTACCT
1 CTAAAGTATAAAATGACC-AAAATACCC
1146043 CTAAA
1 CTAAA
1146048 CCCTGGAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 42 0.79
28 11 0.21
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (27 bp):
CTAAAGTATAAAATGACCAAAATACCC
Found at i:1149504 original size:27 final size:28
Alignment explanation
Indices: 1149474--1149533 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
1149464 GATTATGCCC
1149474 CTAAAGTATAAAAT-GACAAAAATACCT
1 CTAAAGTATAAAATGGACAAAAATACCT
* * * * *
1149501 CTAAGGTGTAAAATGGCCTAAAGTACCT
1 CTAAAGTATAAAATGGACAAAAATACCT
1149529 CTAAA
1 CTAAA
1149534 CCCTAGAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (28 bp):
CTAAAGTATAAAATGGACAAAAATACCT
Found at i:1150386 original size:24 final size:24
Alignment explanation
Indices: 1150359--1150421 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 24
1150349 CTGATTTTTG
1150359 TTATAATTTCTGATCCGGATTCTA
1 TTATAATTTCTGATCCGGATTCTA
* ** *
1150383 TTATGATATT-TGATATGGATTCTG
1 TTATAAT-TTCTGATCCGGATTCTA
* *
1150407 TTCTAATATCTGATC
1 TTATAATTTCTGATC
1150422 TAAATTCTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (24 bp):
TTATAATTTCTGATCCGGATTCTA
Found at i:1150631 original size:31 final size:32
Alignment explanation
Indices: 1150578--1150649 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
1150568 AAGGTGACCC
*
1150578 TTGGGTAGG-CTCGGCGGCCCTGAG-ATTTTA
1 TTGGGTAGGCCTCCGCGGCCCTGAGAATTTTA
* *
1150608 TTGGGTAGGCCTCCGTGGCCCTGAGAATTTTC
1 TTGGGTAGGCCTCCGCGGCCCTGAGAATTTTA
1150640 TTGGGTAGGC
1 TTGGGTAGGC
1150650 TCGCAGGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 9 0.24
31 13 0.35
32 15 0.41
ACGTcount: A:0.12, C:0.21, G:0.36, T:0.31
Consensus pattern (32 bp):
TTGGGTAGGCCTCCGCGGCCCTGAGAATTTTA
Found at i:1150659 original size:31 final size:29
Alignment explanation
Indices: 1150577--1150659 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 29
1150567 TAAGGTGACC
1150577 CTTGGGTAGGCTCGGCGGCCCTGAGATTTT
1 CTTGGGTAGGCTC-GCGGCCCTGAGATTTT
* *
1150607 ATTGGGTAGGCCTCCGTGGCCCTGAGAATTTT
1 CTTGGGTAGG-CT-CGCGGCCCTGAG-ATTTT
1150639 CTTGGGTAGGCTCGCAGGCCC
1 CTTGGGTAGGCTCGC-GGCCC
1150660 CAAGGTACTC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 11 0.24
31 19 0.42
32 15 0.33
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28
Consensus pattern (29 bp):
CTTGGGTAGGCTCGCGGCCCTGAGATTTT
Found at i:1151833 original size:54 final size:54
Alignment explanation
Indices: 1151776--1152035 Score: 299
Period size: 54 Copynumber: 4.8 Consensus size: 54
1151766 TATATGACCG
* ** ** * * *
1151776 TTCATCAACTTATGATGAATTCCATGGGTAACACACATAGAGCCGAAACGGTTG
1 TTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCCGAAACGGTTA
* * * * *
1151830 TTCATTAACATATGATGAATTTCGTGAATTGCATACTTAGTGCTGAAACGGTTA
1 TTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCCGAAACGGTTA
*
1151884 TTCATCAACATATGATGAATTTCGA-GAATTGCACACTTAGTGCCGAAACGGTTA
1 TTCATCAACATATGATGAA-TTCCATGAATTGCACACTTAGTGCCGAAACGGTTA
* **
1151938 TTCATCAATATATGATGAATT-CAGTGAATTGCACACTTAGTGCCGAAAATGTTA
1 TTCATCAACATATGATGAATTCCA-TGAATTGCACACTTAGTGCCGAAACGGTTA
* * * *
1151992 TTCATCAACATATGATGAACTCCGTGAATCGCAGACTTAGTGCC
1 TTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCC
1152036 TATTTGGTAA
Statistics
Matches: 174, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 2 0.01
54 168 0.97
55 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCCGAAACGGTTA
Found at i:1152661 original size:327 final size:327
Alignment explanation
Indices: 1152061--1152693 Score: 1108
Period size: 327 Copynumber: 1.9 Consensus size: 327
1152051 ATACACATAT
1152061 TAAGCAATCATACATCTATAACTATTATAACATATAGTTACACCATTAAATGCACTCACCTGGCT
1 TAAGCAATCATACATCTATAACTATTATAACATATAGTTACACCATTAAATGCACTCACCTGGCT
1152126 TGCCTCGCTATTATACCCAATACACCAATCTGATTATGCAGCTGTATCGACTTTGCCTTTAGTTT
66 TGCCTCGCTATTATACCCAATACACCAATCTGATTATGCAGCTGTATCGACTTTGCCTTTAGTTT
* *
1152191 TGCTTGACTCGGAGTATGATTTCAATCTACTCAAGCATTCATTAAAGACACGTACAATATCAATT
131 TGCTTGACTCGGAGTATGATTTCAATATACTCAAGCATTCATTAAAGACACATACAATATCAATT
* *
1152256 GTTGGTATATTCACTAACATTTATACTTAAAAAATACTCAATATTACTATTATTATATTTTCTAT
196 GTTAGTATATTCACTAACATTTATACTTAAAAAATACTCAAAATTACTATTATTATATTTTCTAT
* *
1152321 AACAATCTTATCCTATTTCCACATTTCTAGCTCATGAGTATCGATACCCCTACCATGGTATCGAT
261 AACAATATTATCCTATTTCAACATTTCTAGCTCATGAGTATCGATACCCCTACCATGGTATCGAT
1152386 AC
326 AC
* * *
1152388 TAAGCTATCATACATCTATAACTTTTATAACATATAGTTATACCATTAAATGCACTCACCTGGCT
1 TAAGCAATCATACATCTATAACTATTATAACATATAGTTACACCATTAAATGCACTCACCTGGCT
* * *
1152453 TGCCTCGCTATTATACCCAATACGCCAATCTGATTACT-TAGCTGCT-TTGACTTTGCCTTTAGT
66 TGCCTCGCTATTATACCCAATACACCAATCTGATTA-TGCAGCTG-TATCGACTTTGCCTTTAGT
1152516 TTTGCTTGACTCGGAGTATGATTTCAATATACTCAAGCATTCATTAAAGACACATACAATATCAA
129 TTTGCTTGACTCGGAGTATGATTTCAATATACTCAAGCATTCATTAAAGACACATACAATATCAA
1152581 TTGTTAGTATATTCACTAACATTTATACTTAAAAAATACTCAAAATTACTATTATTATATTTTCT
194 TTGTTAGTATATTCACTAACATTTATACTTAAAAAATACTCAAAATTACTATTATTATATTTTCT
* *
1152646 ATAACAATATTATCCTATTTTAACATTTCTGGCTCATGAGTATCGATA
259 ATAACAATATTATCCTATTTCAACATTTCTAGCTCATGAGTATCGATA
1152694 GTACTATACC
Statistics
Matches: 290, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
327 288 0.99
328 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (327 bp):
TAAGCAATCATACATCTATAACTATTATAACATATAGTTACACCATTAAATGCACTCACCTGGCT
TGCCTCGCTATTATACCCAATACACCAATCTGATTATGCAGCTGTATCGACTTTGCCTTTAGTTT
TGCTTGACTCGGAGTATGATTTCAATATACTCAAGCATTCATTAAAGACACATACAATATCAATT
GTTAGTATATTCACTAACATTTATACTTAAAAAATACTCAAAATTACTATTATTATATTTTCTAT
AACAATATTATCCTATTTCAACATTTCTAGCTCATGAGTATCGATACCCCTACCATGGTATCGAT
AC
Found at i:1153523 original size:46 final size:46
Alignment explanation
Indices: 1153457--1153549 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
1153447 AACCATATTT
** *
1153457 TTTTCATTTATTTCATCCTTTCATGTCAATGATGCACTGTTACACA
1 TTTTCATTTATGGCATCCTTTCATGCCAATGATGCACTGTTACACA
* * *
1153503 TTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGTTATACA
1 TTTTCATTTATGGCATCCTTTCATGCCAATGATGCACTGTTACACA
1153549 T
1 T
1153550 CTAACTTGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (46 bp):
TTTTCATTTATGGCATCCTTTCATGCCAATGATGCACTGTTACACA
Found at i:1154029 original size:54 final size:54
Alignment explanation
Indices: 1153872--1154151 Score: 361
Period size: 54 Copynumber: 5.2 Consensus size: 54
1153862 ATTTTTTTGG
* * *
1153872 TTGCACA-TATAGTGCCGAAACGGTTGTTTATCAACATATGATGAATTTCGTGAA
1 TTGCACACT-TAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
* * *** * *
1153926 TTACGCACTTAGT-ATGAAATGGTTATTCATTAACATATGATGAATTTCGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
* *
1153979 TTGTACACTTAGTGCCAAAACTGTTATTCATCAACATATGATGAATTTCGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
*
1154033 TTGTACACTTAGTGCCAAAACGGTTATTCATCAACATATGATGAA-TTCTGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTC-GTGAA
* * *
1154087 TTGCACACTTAGTGCCGAAAA-GGTTATTCATCAACATATAATGAACTCCGTGAA
1 TTGCACACTTAGTGCC-AAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
1154141 TTGCACACTTA
1 TTGCACACTTA
1154152 CTGTGTATTT
Statistics
Matches: 200, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
53 47 0.23
54 146 0.73
55 7 0.04
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (54 bp):
TTGCACACTTAGTGCCAAAACGGTTATTCATCAACATATGATGAATTTCGTGAA
Found at i:1154530 original size:22 final size:21
Alignment explanation
Indices: 1154495--1154535 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1154485 ATACCCCTAT
*
1154495 CATGGTATCAATACTACTATAC
1 CATGGTACCAATACT-CTATAC
*
1154517 CATGGTACCCATACTCTAT
1 CATGGTACCAATACTCTAT
1154536 TACAACACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
CATGGTACCAATACTCTATAC
Found at i:1154599 original size:20 final size:19
Alignment explanation
Indices: 1154574--1154643 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
1154564 AATATCAATG
1154574 GTATCGATACCATCCTCATA
1 GTATCGATACCA-CCTCATA
* * * *
1154594 GTATCGTTAACACCTCTTG
1 GTATCGATACCACCTCATA
* *
1154613 GTATCGATACTACTTGCATCA
1 GTATCGATACCACCT-CAT-A
1154634 GTATCGATAC
1 GTATCGATAC
1154644 TATTCTATCA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
19 16 0.42
20 12 0.32
21 10 0.26
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (19 bp):
GTATCGATACCACCTCATA
Found at i:1154655 original size:20 final size:21
Alignment explanation
Indices: 1154613--1154662 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1154603 ACACCTCTTG
1154613 GTATCGATACTACTTGCATCA
1 GTATCGATACTACTTGCATCA
1154634 GTATCGATACTA-TT-CTATCA
1 GTATCGATACTACTTGC-ATCA
*
1154654 GTACCGATA
1 GTATCGATA
1154663 TCCTTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 12 0.44
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (21 bp):
GTATCGATACTACTTGCATCA
Found at i:1159373 original size:46 final size:46
Alignment explanation
Indices: 1159307--1159399 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
1159297 CCGCCATATT
*
1159307 TTTTCATTTATGTCATCATTTCATGCCAATGATGCACTATTATACA
1 TTTTCATTTATGGCATCATTTCATGCCAATGATGCACTATTATACA
* * *
1159353 TTTTCATTTATGGCATCATTTCATGCCAATTATGCATTGTTATACA
1 TTTTCATTTATGGCATCATTTCATGCCAATGATGCACTATTATACA
1159399 T
1 T
1159400 CTAACTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (46 bp):
TTTTCATTTATGGCATCATTTCATGCCAATGATGCACTATTATACA
Found at i:1159883 original size:54 final size:54
Alignment explanation
Indices: 1159703--1159960 Score: 276
Period size: 54 Copynumber: 4.8 Consensus size: 54
1159693 TATAAGATCG
* * * * *
1159703 TTCATCAACCTATGATGAATTTTGTTG-GTTGCACA-TATAGTGCCGAAACGGTTG
1 TTCATCAACATATGATGAATTTCG-TGAATTGCACACT-TAGTGCCAAAACGGTTA
* * * * *
1159757 TTCATCATCATATGATGAATTCCGTGAATTGCGA-ACTTAGT-ACGAAATGGTTA
1 TTCATCAACATATGATGAATTTCGTGAATTGC-ACACTTAGTGCCAAAACGGTTA
* *
1159810 TTCATCAACATATGATGAATTTCGTGAATTGTACACTTAGTGCCAAAACGATTA
1 TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAAAACGGTTA
* *
1159864 TTCATCAACATATGATGAA-TTCTGTGAATTGCACACGTAGTGTCGAAAA-GGTTA
1 TTCATCAACATATGATGAATTTC-GTGAATTGCACACTTAGTG-CCAAAACGGTTA
* * *
1159918 TTCATCAACATATAATGAACTCCGTGAATTGCACACTTAGTGC
1 TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGC
1159961 GTATTTTGTA
Statistics
Matches: 174, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 51 0.29
54 113 0.65
55 9 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAAAACGGTTA
Found at i:1159891 original size:107 final size:108
Alignment explanation
Indices: 1159703--1159960 Score: 326
Period size: 107 Copynumber: 2.4 Consensus size: 108
1159693 TATAAGATCG
* * * * * * *
1159703 TTCATCAACCTATGATGAATTTTGTTG-GTTGCACA-TATAGTGCCGAAACGGTTGTTCATCATC
1 TTCATCAACATATGATGAATTTCG-TGAATTGCACACT-TAGTGCCAAAACGATTATTCATCAAC
* *
1159766 ATATGATGAATTCCGTGAATTGCGA-ACTTAGT-ACGAAATGGTTA
64 ATATGATGAATTCCGTGAATTGC-ACACGTAGTGACGAAAAGGTTA
*
1159810 TTCATCAACATATGATGAATTTCGTGAATTGTACACTTAGTGCCAAAACGATTATTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAAAACGATTATTCATCAACAT
* *
1159875 ATGATGAATTCTGTGAATTGCACACGTAGTGTCGAAAAGGTTA
66 ATGATGAATTCCGTGAATTGCACACGTAGTGACGAAAAGGTTA
* * *
1159918 TTCATCAACATATAATGAACTCCGTGAATTGCACACTTAGTGC
1 TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGC
1159961 GTATTTTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
106 3 0.02
107 78 0.60
108 50 0.38
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAAAACGATTATTCATCAACAT
ATGATGAATTCCGTGAATTGCACACGTAGTGACGAAAAGGTTA
Found at i:1160335 original size:22 final size:21
Alignment explanation
Indices: 1160297--1160340 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1160287 TCGATACCCC
*
1160297 TACCATGGTATCAATACTACTA
1 TACCATGGTACCAATACT-CTA
*
1160319 TACCATGGTACCCATACTCTA
1 TACCATGGTACCAATACTCTA
1160340 T
1 T
1160341 TACAGCACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (21 bp):
TACCATGGTACCAATACTCTA
Found at i:1162322 original size:14 final size:16
Alignment explanation
Indices: 1162293--1162324 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1162283 TTATTGTACG
1162293 ACAACATTATAATTTA
1 ACAACATTATAATTTA
1162309 ACAACA-TA-AATTTA
1 ACAACATTATAATTTA
1162323 AC
1 AC
1162325 CACCATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (16 bp):
ACAACATTATAATTTA
Found at i:1164460 original size:30 final size:30
Alignment explanation
Indices: 1164424--1164489 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
1164414 AGTGAACCGG
* *
1164424 CGGTTCAAACAGGTTTTGCCGGTTTTTAGC
1 CGGTTCAAACAGGTTTTACCGGTTTTCAGC
** *
1164454 CGGTTCACCCCGGTTTTACCGGTTTTCAGC
1 CGGTTCAAACAGGTTTTACCGGTTTTCAGC
*
1164484 TGGTTC
1 CGGTTC
1164490 TACCGGTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.36
Consensus pattern (30 bp):
CGGTTCAAACAGGTTTTACCGGTTTTCAGC
Found at i:1164501 original size:30 final size:29
Alignment explanation
Indices: 1164435--1164508 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
1164425 GGTTCAAACA
* *
1164435 GGTTTTGCCGGTTTTTAGCCGGTTCACCCC
1 GGTTTTACCGGTTTTCAGCCGGTTCA-CCC
*
1164465 GGTTTTACCGGTTTTCAGCTGGTTCTA-CC
1 GGTTTTACCGGTTTTCAGCCGGTTC-ACCC
1164494 GGTTTTTAGCCGGTT
1 GG-TTTTA-CCGGTT
1164509 CATTGCCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 4 0.11
30 27 0.71
31 7 0.18
ACGTcount: A:0.08, C:0.24, G:0.27, T:0.41
Consensus pattern (29 bp):
GGTTTTACCGGTTTTCAGCCGGTTCACCC
Found at i:1164508 original size:20 final size:20
Alignment explanation
Indices: 1164463--1164509 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1164453 CCGGTTCACC
*
1164463 CCGGTTTTACCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAG
* *
1164483 CTGGTTCTACCGGTTTTTAG
1 CCGGTTCTACCGGTTTTCAG
1164503 CCGGTTC
1 CCGGTTC
1164510 ATTGCCATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.40
Consensus pattern (20 bp):
CCGGTTCTACCGGTTTTCAG
Found at i:1171475 original size:61 final size:61
Alignment explanation
Indices: 1171391--1171505 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
1171381 TAAGGTGGAT
* *
1171391 ACGACCTAATGTATCATGTCCGGATTAGCACTATAGCATAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGTGGTGGGC
* * *
1171452 ACGACCTTATGTGTCATATCCGGATTAGCACTATGGCATAAGCTTAGTGAAGGT
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGT
1171506 TTAGCACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGTGGTGGGC
Found at i:1171628 original size:47 final size:47
Alignment explanation
Indices: 1171575--1171916 Score: 531
Period size: 47 Copynumber: 7.3 Consensus size: 47
1171565 GGCTATTGTC
* *
1171575 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGGT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
* *
1171622 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGAT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
* * *
1171669 TACGAGCTTATGGAATATAAATGGTAAGTATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
* *
1171716 TACAAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
* * *
1171763 TACAAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
*
1171810 TACGAGCTTATGGAATTTAAATGGTAATTATATTGATAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
* * * *
1171857 TACGAGCTTATGGAATTTAAATGGTATGCATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
1171904 TACGAGCTTATGG
1 TACGAGCTTATGG
1171917 GACAAATGGT
Statistics
Matches: 272, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 272 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (47 bp):
TACGAGCTTATGGAATTTAAATGGTAAGTATATTGATAAAATAAGCT
Found at i:1173626 original size:6 final size:5
Alignment explanation
Indices: 1173616--1173705 Score: 74
Period size: 5 Copynumber: 16.4 Consensus size: 5
1173606 AATAGAAATG
*
1173616 AAGAA ACAGAAA AAGAA AAGAA AAGAAA ATAGAA AAAAA AAGAAA AAGAA
1 AAGAA A-AG-AA AAGAA AAGAA AAG-AA A-AGAA AAGAA AAG-AA AAGAA
*
1173666 AATGAAA AAAAA ATAGAA AATGAA AAGAA AAGAA AA-AA AA
1 AA-G-AA AAGAA A-AGAA AA-GAA AAGAA AAGAA AAGAA AA
1173706 AAAGAGATGA
Statistics
Matches: 72, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.06
5 34 0.47
6 25 0.35
7 9 0.12
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.04
Consensus pattern (5 bp):
AAGAA
Found at i:1173649 original size:23 final size:23
Alignment explanation
Indices: 1173623--1173706 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
1173613 ATGAAGAAAC
1173623 AGAAAAAGAAAAGAAAAGAAAAT
1 AGAAAAAGAAAAGAAAAGAAAAT
1173646 AGAAAAA-AAAAGAAAAAGAAAAT
1 AGAAAAAGAAAAG-AAAAGAAAAT
*
1173669 -GAAAAAAAAATAGAAAATG-AAA-
1 AGAAAAAGAAA-AGAAAA-GAAAAT
*
1173691 AG-AAAAGAAAAAAAAA
1 AGAAAAAGAAAAGAAAA
1173707 AAGAGATGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.09
22 18 0.33
23 28 0.52
24 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (23 bp):
AGAAAAAGAAAAGAAAAGAAAAT
Found at i:1173679 original size:34 final size:33
Alignment explanation
Indices: 1173601--1173708 Score: 130
Period size: 34 Copynumber: 3.2 Consensus size: 33
1173591 TATATTGTAT
1173601 AAAAAAATAGAAATGAAGAAACAGAAAAAGAAAAGAA
1 AAAAAAATAGAAA--AA-AAA-AGAAAAAGAAAAGAA
*
1173638 AAGAAAATAGAAAAAAAAAGAAAAAGAAAATGAA
1 AAAAAAATAGAAAAAAAAAGAAAAAGAAAA-GAA
*
1173672 AAAAAAATAGAAAATGAAAAG-AAAAGAAAA-AA
1 AAAAAAATAGAAAA-AAAAAGAAAAAGAAAAGAA
1173704 AAAAA
1 AAAAA
1173709 GAGATGAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
32 7 0.11
33 12 0.18
34 28 0.42
35 7 0.11
37 12 0.18
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.06
Consensus pattern (33 bp):
AAAAAAATAGAAAAAAAAAGAAAAAGAAAAGAA
Found at i:1175788 original size:29 final size:30
Alignment explanation
Indices: 1175747--1175809 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
1175737 AAGACTTAGA
* *
1175747 AAAAATTGGAGATCATTTCAT-AATTTTTG
1 AAAAATTGGAGATCAGTTCATAAATTTTGG
* *
1175776 AAAAGTTGGAGATCAGTTCGTAAATTTTGG
1 AAAAATTGGAGATCAGTTCATAAATTTTGG
1175806 AAAA
1 AAAA
1175810 TTGATGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAAATTGGAGATCAGTTCATAAATTTTGG
Found at i:1176873 original size:61 final size:61
Alignment explanation
Indices: 1176789--1176903 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
1176779 TAAGGTGGAT
* *
1176789 ACGACCTAATGTATCATGTCCGGATTAGCACTATAGCATAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGTGGTGGGC
* * *
1176850 ACGACCTTATGTGTCATATCCGGATTAGCACTATGGCATAAGCTTAGTGAAGGT
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGT
1176904 TTAGCACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGAAGGTGGTGGGC
Found at i:1177030 original size:47 final size:47
Alignment explanation
Indices: 1176973--1177310 Score: 541
Period size: 47 Copynumber: 7.2 Consensus size: 47
1176963 GGCTATTGTC
*
1176973 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGGT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
**
1177020 TAAAAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
* * *
1177067 TACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
1177114 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
* * * *
1177161 TACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
*
1177208 TACGAGCTTATGGAATTTAAATGGCAAGTATATTAATAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
* * * *
1177255 TACTAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCT
1 TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
1177302 TACGAGCTT
1 TACGAGCTT
1177311 TTGGGATAAA
Statistics
Matches: 265, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 265 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.34
Consensus pattern (47 bp):
TACGAGCTTATGGAATTTAAATGGCAAGTATATTGATAAAATAAGCT
Found at i:1180200 original size:25 final size:26
Alignment explanation
Indices: 1180172--1180272 Score: 69
Period size: 24 Copynumber: 4.1 Consensus size: 26
1180162 AACAGAAATG
*
1180172 AAGAAACAGAAAA-ATAA-AGAAGAAA
1 AAGAAACAGAAAAGAAAATAGAA-AAA
*
1180197 AAG-AAGAGAAAAGAAAATAGAAAAA
1 AAGAAACAGAAAAGAAAATAGAAAAA
1180222 AAG--A-AGAAAATGAAAAT-GAAAAAA
1 AAGAAACAGAAAA-GAAAATAG-AAAAA
1180246 ATAGAAA-ATGAAAAG-AAA-AGAAAAA
1 A-AGAAACA-GAAAAGAAAATAGAAAAA
1180271 AA
1 AA
1180273 TGAGAGATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
23 7 0.11
24 22 0.34
25 20 0.31
26 8 0.12
27 3 0.05
28 5 0.08
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (26 bp):
AAGAAACAGAAAAGAAAATAGAAAAA
Found at i:1180210 original size:16 final size:16
Alignment explanation
Indices: 1180191--1180269 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 16
1180181 AAAAATAAAG
1180191 AAGAAAAAGAAGAGAA
1 AAGAAAAAGAAGAGAA
1180207 AAGAAAATAGAA-A-AA
1 AAGAAAA-AGAAGAGAA
*
1180222 AAGAAGAAA-ATGA-AA
1 AAGAA-AAAGAAGAGAA
* *
1180237 ATGAAAAA-AATAGAA
1 AAGAAAAAGAAGAGAA
*
1180252 AATG-AAAAGAAAAGAA
1 AA-GAAAAAGAAGAGAA
1180268 AA
1 AA
1180270 AAATGAGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.12
15 22 0.43
16 19 0.37
17 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
AAGAAAAAGAAGAGAA
Found at i:1180225 original size:22 final size:23
Alignment explanation
Indices: 1180192--1180259 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
1180182 AAAATAAAGA
1180192 AGAAAAAGAAGAGAAAA-GAAAAT
1 AGAAAAA-AAGAGAAAATGAAAAT
1180215 AGAAAAAAAGAAGAAAATGAAAAT
1 AGAAAAAAAG-AGAAAATGAAAAT
*
1180239 -GAAAAAAATAGAAAATGAAAA
1 AGAAAAAAAGAGAAAATGAAAA
1180260 GAAAAGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 15 0.36
23 21 0.50
24 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AGAAAAAAAGAGAAAATGAAAAT
Found at i:1180230 original size:34 final size:34
Alignment explanation
Indices: 1180182--1180269 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
1180172 AAGAAACAGA
*
1180182 AAAATAAAGAAGAAAAAGAAGA-GAAAAGAAAATAG
1 AAAATAAAGAAGAAAAAGAAAATG-AAA-AAAATAG
*
1180217 AAAA-AAAGAAGAAAATGAAAATGAAAAAAATAG
1 AAAATAAAGAAGAAAAAGAAAATGAAAAAAATAG
*
1180250 AAAATGAA-AAG-AAAAGAAAA
1 AAAATAAAGAAGAAAAAGAAAA
1180270 AAATGAGAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 8 0.17
33 14 0.30
34 20 0.43
35 5 0.11
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (34 bp):
AAAATAAAGAAGAAAAAGAAAATGAAAAAAATAG
Found at i:1180273 original size:41 final size:41
Alignment explanation
Indices: 1180208--1180290 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
1180198 AGAAGAGAAA
*
1180208 AGAAAATAGAAAAAAAGAAGAAAATGA-AAATGAAAAAAAT
1 AGAAAATAGAAAAAAAGAAAAAAATGAGAAATGAAAAAAAT
*
1180248 AGAAAAT-GAAAAGAAAAGAAAAAAATGAGAGATGAAAAAAAT
1 AGAAAATAG-AAA-AAAAGAAAAAAATGAGAAATGAAAAAAAT
1180290 A
1 A
1180291 TATATATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.03
40 10 0.26
41 14 0.37
42 13 0.34
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (41 bp):
AGAAAATAGAAAAAAAGAAAAAAATGAGAAATGAAAAAAAT
Found at i:1180286 original size:27 final size:28
Alignment explanation
Indices: 1180205--1180286 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 28
1180195 AAAAGAAGAG
1180205 AAAAGAAAAT-AGAAAAAA-AG--AA-GA
1 AAAAGAAAATGA-AAAAAATAGAAAATGA
*
1180229 AAATGAAAATGAAAAAAATAGAAAATG-
1 AAAAGAAAATGAAAAAAATAGAAAATGA
*
1180256 AAAAGAAAA-GAAAAAAAT-GAGAGATGA
1 AAAAGAAAATGAAAAAAATAGA-AAATGA
1180283 AAAA
1 AAAA
1180287 AATATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 15 0.31
25 5 0.10
26 13 0.27
27 14 0.29
28 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (28 bp):
AAAAGAAAATGAAAAAAATAGAAAATGA
Found at i:1181188 original size:24 final size:24
Alignment explanation
Indices: 1181164--1181243 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
1181154 AAATCAAAAT
* *
1181164 AGAATTCAGAACATATATCAGAAT
1 AGAATTCAGATCATATATCAGAAC
* * * *
1181188 AGAATCCAGATCAGAAATAAGAAC
1 AGAATTCAGATCATATATCAGAAC
*
1181212 AGAATTCAGGTCATATATCAGAAC
1 AGAATTCAGATCATATATCAGAAC
*
1181236 ATAATTCA
1 AGAATTCA
1181244 AGTTGGAAAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (24 bp):
AGAATTCAGATCATATATCAGAAC
Found at i:1189752 original size:24 final size:24
Alignment explanation
Indices: 1189725--1189812 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
1189715 GAAATCAAAA
* *
1189725 ATCAAAACAGAATTCAGAACATAT
1 ATCAGAACAGAATTCAGATCATAT
* * *
1189749 ATCAGAATAGAATCCAGATCAGAT
1 ATCAGAACAGAATTCAGATCATAT
*
1189773 ATCAGAACAGAATTCAGGTCATAT
1 ATCAGAACAGAATTCAGATCATAT
* *
1189797 AGCAGAATAGAATTCA
1 ATCAGAACAGAATTCA
1189813 AGTCAGAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCATAT
Found at i:1189786 original size:48 final size:48
Alignment explanation
Indices: 1189723--1189826 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
1189713 GAGAAATCAA
* *
1189723 AAATCAAAACAGAATTCAGAACATATATCAGAATAGAATCC-AGATCAG
1 AAATCAGAACAGAATTCAGAACATATAGCAGAATAGAATCCAAG-TCAG
* ** *
1189771 ATATCAGAACAGAATTCAGGTCATATAGCAGAATAGAATTCAAGTCAG
1 AAATCAGAACAGAATTCAGAACATATAGCAGAATAGAATCCAAGTCAG
1189819 AAATCAGA
1 AAATCAGA
1189827 TAAAATATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 46 0.96
49 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (48 bp):
AAATCAGAACAGAATTCAGAACATATAGCAGAATAGAATCCAAGTCAG
Found at i:1189789 original size:12 final size:12
Alignment explanation
Indices: 1189730--1189789 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
1189720 CAAAAATCAA
1189730 AACAGAATTCAG
1 AACAGAATTCAG
*
1189742 AACA-TATATCAG
1 AACAGAAT-TCAG
* *
1189754 AATAGAATCCAG
1 AACAGAATTCAG
*
1189766 ATCAG-ATATCAG
1 AACAGAAT-TCAG
1189778 AACAGAATTCAG
1 AACAGAATTCAG
1189790 GTCATATAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
11 4 0.11
12 28 0.78
13 4 0.11
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:1189817 original size:24 final size:24
Alignment explanation
Indices: 1189744--1189826 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
1189734 GAATTCAGAA
*
1189744 CATATATCAGAATAGAA-TCCAGAT
1 CATATATCAGAATAGAATTCAAG-T
* * *
1189768 CAGATATCAGAACAGAATTCAGGT
1 CATATATCAGAATAGAATTCAAGT
*
1189792 CATATAGCAGAATAGAATTCAAGT
1 CATATATCAGAATAGAATTCAAGT
* *
1189816 CAGAAATCAGA
1 CATATATCAGA
1189827 TAAAATATTC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 44 0.94
25 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22
Consensus pattern (24 bp):
CATATATCAGAATAGAATTCAAGT
Found at i:1193461 original size:112 final size:112
Alignment explanation
Indices: 1193264--1193487 Score: 342
Period size: 112 Copynumber: 2.0 Consensus size: 112
1193254 ACCGATACGG
* * * ** *
1193264 ATAACCCGGTCCGATCTGGAGTTTCACATTATGGCCACCAGAGCGACCCGTTGTAAAAATAGCGA
1 ATAACCCGATCCGATCTAGAGTTTCACATTAGGGCCACCAGAGCGACCCACTGTAAAAATAGCAA
*
1193329 AAAATATAAAACTTTTTATCAGAACATGTAAACTTATAAAATCATTT
66 AAAATATAAAACTTTTTATCAGAACATGTAAACTTACAAAATCATTT
* **
1193376 ATAACCCGATCCGATCTAGAGTTTCACATTAGGGCCACCGGATTGACCCACTGTAAAAATAGCAA
1 ATAACCCGATCCGATCTAGAGTTTCACATTAGGGCCACCAGAGCGACCCACTGTAAAAATAGCAA
1193441 AAAA-ATTAAAACTTTTTATCAGAACATGTAAACTTACAAAATCATTT
66 AAAATA-TAAAACTTTTTATCAGAACATGTAAACTTACAAAATCATTT
1193488 GTCACTATTT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 1 0.01
112 100 0.99
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (112 bp):
ATAACCCGATCCGATCTAGAGTTTCACATTAGGGCCACCAGAGCGACCCACTGTAAAAATAGCAA
AAAATATAAAACTTTTTATCAGAACATGTAAACTTACAAAATCATTT
Found at i:1193927 original size:2 final size:2
Alignment explanation
Indices: 1193920--1193944 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1193910 TTTTAAAAAC
1193920 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1193945 CCCCCATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1194136 original size:12 final size:12
Alignment explanation
Indices: 1194111--1194202 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 12
1194101 ACAGAGATAT
* *
1194111 CAGAAATCAAAA
1 CAGAATTCAGAA
1194123 CAGAATTCAGAA
1 CAGAATTCAGAA
1194135 CA-AATATCAGAA
1 CAGAAT-TCAGAA
* * * *
1194147 TATAATCCAGAT
1 CAGAATTCAGAA
*
1194159 CAGAAATCAGAA
1 CAGAATTCAGAA
**
1194171 CAGAA-TCAGGT
1 CAGAATTCAGAA
*
1194182 CA-TATATCAGAA
1 CAGAAT-TCAGAA
1194194 CAGAATTCA
1 CAGAATTCA
1194203 AGTCGGAAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
10 1 0.02
11 9 0.15
12 44 0.75
13 5 0.08
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:1194177 original size:24 final size:24
Alignment explanation
Indices: 1194109--1194216 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
1194099 AAACAGAGAT
*
1194109 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
1194133 AACA-AATATCAGAATATAATCCAG
1 ATCAGAA-ATCAGAACAGAATTCAG
1194157 ATCAGAAATCAGAACAGAA-TCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
1194180 GTCATATATCAGAACAGAATTCA-
1 ATCAGAAATCAGAACAGAATTCAG
*
1194203 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
1194217 CAAAATATTT
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 21 0.33
24 41 0.64
25 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:1196707 original size:12 final size:13
Alignment explanation
Indices: 1196690--1196725 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1196680 GCCGGTTAAT
1196690 GGTCAACGGGTC-
1 GGTCAACGGGTCA
*
1196702 GGTCAACAGGTCA
1 GGTCAACGGGTCA
1196715 GGTCAACGGGT
1 GGTCAACGGGT
1196726 TGGGTCGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCA
Found at i:1198282 original size:112 final size:112
Alignment explanation
Indices: 1198085--1198308 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
1198075 ACCGATGCGG
* * *
1198085 ATAACCTGATCCGATCTGGAGTGTCACATTAGGGCCACCAGAGCGACCCACTGTAAAAATAGCGG
1 ATAACCCGATCCGATCTGGAGTGTCACATTAGGGCCAACAGAGCGACCCACTGTAAAAATAGCAG
*
1198150 AAAATTTAAAACTTTTTATCAGAACATGTAAACTTATAAAATCATTT
66 AAAATTTAAAACTTTTTATCAGAACATATAAACTTATAAAATCATTT
* *
1198197 ATAACCCGATCCGATCTGGAGTGTCACATTAGGGTCAACGGAGCGACCCACTGTAAAAATAGCAG
1 ATAACCCGATCCGATCTGGAGTGTCACATTAGGGCCAACAGAGCGACCCACTGTAAAAATAGCAG
1198262 AAAATTTAAAACTTTTTATCAGAACATATAAACTTATAAAATCATTT
66 AAAATTTAAAACTTTTTATCAGAACATATAAACTTATAAAATCATTT
1198309 GTCACTATTT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (112 bp):
ATAACCCGATCCGATCTGGAGTGTCACATTAGGGCCAACAGAGCGACCCACTGTAAAAATAGCAG
AAAATTTAAAACTTTTTATCAGAACATATAAACTTATAAAATCATTT
Found at i:1199022 original size:24 final size:24
Alignment explanation
Indices: 1198967--1199024 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1198957 AATCCATATC
* *
1198967 AGAAATCAGAACATAATTCAGGTC
1 AGAAATCAGAACATAATTCAAGTA
* *
1198991 ATATATCAGAACATAATTCAAGTA
1 AGAAATCAGAACATAATTCAAGTA
1199015 AGAAATCAGA
1 AGAAATCAGA
1199025 TAAAATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (24 bp):
AGAAATCAGAACATAATTCAAGTA
Found at i:1199694 original size:20 final size:21
Alignment explanation
Indices: 1199669--1199761 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
1199659 TTTTCCCAAT
1199669 TCGCAATGCGAA-TAAGAAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1199689 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
1199710 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* * **
1199730 TCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1199751 TCGCAATGCGA
1 TCGCAATGCGA
1199762 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1199775 original size:20 final size:20
Alignment explanation
Indices: 1199750--1199864 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
1199740 AATTGGGAAA
*
1199750 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1199770 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
1199791 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1199811 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1199831 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1199851 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1199865 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1199776 original size:41 final size:41
Alignment explanation
Indices: 1199669--1199761 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
1199659 TTTTCCCAAT
*
1199669 TCGCAATGCGAATAAGAAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
1199710 TCGCAATGCGAATAAGTAAATCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1199751 TCGCAATGCGA
1 TCGCAATGCGA
1199762 TACTGACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:1199792 original size:41 final size:41
Alignment explanation
Indices: 1199747--1199884 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
1199737 GTGAATTGGG
* * *
1199747 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
1199788 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
1199830 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
1199869 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
1199885 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:1200080 original size:22 final size:22
Alignment explanation
Indices: 1200052--1200095 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1200042 CACTCTCTCA
1200052 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1200074 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1200096 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1200384 original size:20 final size:20
Alignment explanation
Indices: 1200359--1200396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1200349 CGATTCTCTC
1200359 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1200379 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1200397 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1201742 original size:18 final size:18
Alignment explanation
Indices: 1201716--1201760 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1201706 TCCACTTCGG
*
1201716 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1201734 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1201752 GAGCCATCA
1 GAGCCATCA
1201761 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1202296 original size:19 final size:20
Alignment explanation
Indices: 1202242--1202287 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1202232 TAGTTTACTT
* *
1202242 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1202262 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
1202282 TCGCAA
1 TCGCAA
1202288 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1202316 original size:14 final size:14
Alignment explanation
Indices: 1202297--1202354 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1202287 ATGTGAAATG
*
1202297 AAAATCGCAACGAC
1 AAAATCGCAACGAA
1202311 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
1202327 ATGAAATCTCAACGAA
1 A--AAATCGCAACGAA
1202343 AAAATCGCAACG
1 AAAATCGCAACG
1202355 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 9 0.24
18 8 0.22
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:1202328 original size:33 final size:33
Alignment explanation
Indices: 1202281--1202371 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
1202271 GGAAATGGCT
* *
1202281 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
1202314 ATCGCAATGCGAAATG-AAATCTCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
1202346 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1202372 TGCGATTTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:1202417 original size:19 final size:19
Alignment explanation
Indices: 1202395--1202490 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
1202385 TCGCGTTGCG
1202395 ATTTTGTCGTTGCGA-TTTC
1 ATTTTG-CGTTGCGATTTTC
1202414 ATTTTGCGTTGCGATTTTC
1 ATTTTGCGTTGCGATTTTC
* * ***
1202433 ATTTCGCATTGCGATAGCC
1 ATTTTGCGTTGCGATTTTC
* **
1202452 ATTTCCGCGTTGCGATAGTC
1 ATTT-TGCGTTGCGATTTTC
*
1202472 ATTTTCACGTTGCGATTTT
1 ATTTT-GCGTTGCGATTTT
1202491 AAGTTTCGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
18 8 0.13
19 28 0.44
20 27 0.43
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTTGCGTTGCGATTTTC
Found at i:1202466 original size:20 final size:19
Alignment explanation
Indices: 1202413--1202487 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
1202403 GTTGCGATTT
* ***
1202413 CATTTTGCGTTGCGATTTT
1 CATTTCGCGTTGCGATAGC
*
1202432 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1202451 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1202471 CATTTTCACGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1202488 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 19 0.41
20 24 0.52
21 3 0.07
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Done.