Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 94 of 187
Found at i:27488705 original size:14 final size:14
Alignment explanation
Indices: 27488686--27488713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27488676 GATAATGTTT
27488686 TTGAATTTGATAAA
1 TTGAATTTGATAAA
27488700 TTGAATTTGATAAA
1 TTGAATTTGATAAA
27488714 CGAAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGAATTTGATAAA
Found at i:27495286 original size:50 final size:49
Alignment explanation
Indices: 27495210--27495545 Score: 255
Period size: 50 Copynumber: 6.7 Consensus size: 49
27495200 GTGATGTCAG
* * * *
27495210 GGAAGCAAGATTCGCCGCTGTGGCTTTAATCTGTTCCACTGCACTATTTA
1 GGAAGCAAGATTCGCCGATGTAGCTTTAATCTGTT-CACTGCACTGTCTA
* * * * * * * *
27495260 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTCTTAACTACAATGTCGA
1 GGAAGCAAGATTCGCCGATGTAGCTTTAATC-TGTTCACTGCACTGTCTA
* *
27495310 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTGCACTGTCT-
1 GGAAGCAAGATTCGCCGATGTAGCTTTAATCTG-TTCACTGCACTGTCTA
* * * * *
27495359 GGAAGGTAAGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCAATGTC-A
1 GGAA-GCAAGATTCGCCGATGTAGCTTTAATCTGTT-CACTGCACTGTCTA
* * * * * *
27495409 GGGAAGCAAGATTCACCGATATGGCTTTAATTTGTTCCACTGCA-TCGCCTG
1 -GGAAGCAAGATTCGCCGATGTAGCTTTAATCTGTT-CACTGCACT-GTCTA
* * ** * * * *
27495460 GGAGGTAAGATTCGCTAATGTAGCTTTAATCTTTTGAACTGCAATGTCAA
1 GGAAGCAAGATTCGCCGATGTAGCTTTAATCTGTT-CACTGCACTGTCTA
* *
27495510 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTC
1 GGAAGCAAGATTCGCCGATGTAGCTTTAATCTGTTC
27495546 CACTACATCG
Statistics
Matches: 216, Mismatches: 61, Indels: 19
0.73 0.21 0.06
Matches are distributed among these distances:
49 8 0.04
50 200 0.93
51 8 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (49 bp):
GGAAGCAAGATTCGCCGATGTAGCTTTAATCTGTTCACTGCACTGTCTA
Found at i:27495368 original size:100 final size:99
Alignment explanation
Indices: 27495203--27495549 Score: 495
Period size: 100 Copynumber: 3.5 Consensus size: 99
27495193 CATAACTGTG
* * * *
27495203 ATGTCAGGGAAGCAAGATTCGCCGCTGTGGCTTTAATCTGTTCCACTGCACTATTTAGGAA-GTA
1 ATGTCA-GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGTCT-GGAAGGTA
* *
27495267 AGATTCGCTGTTGTAGCTTTAATCTTCTT-AACTACA
64 AGATTCGCTGATGTAGCTTTAATCTT-TTGAACTGCA
27495303 ATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTT-CACTGCACTGTCTGGAAGGTA
1 ATGTC-AGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCACTGCACTGTCTGGAAGGTA
27495367 AGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
64 AGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
* * * *
27495403 ATGTCAGGGAAGCAAGATTCACCGATATGGCTTTAATTTGTTCCACTGCA-TCGCCTGGGAGGTA
1 ATGTCA-GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACT-GTCTGGAAGGTA
*
27495467 AGATTCGCTAATGTAGCTTTAATCTTTTGAACTGCA
64 AGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
27495503 ATGTCAAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACT
1 ATGTC-AGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACT
27495550 ACATCGCTTG
Statistics
Matches: 226, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
99 10 0.04
100 212 0.94
101 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (99 bp):
ATGTCAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGTCTGGAAGGTAAG
ATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
Found at i:27497155 original size:7 final size:8
Alignment explanation
Indices: 27497120--27497154 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
27497110 TCATTTTCCA
27497120 TTTTCATT
1 TTTTCATT
*
27497128 TTTTTATT
1 TTTTCATT
27497136 TTTTCATT
1 TTTTCATT
27497144 TTTTCATT
1 TTTTCATT
27497152 TTT
1 TTT
27497155 CGTCTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCATT
Found at i:27500042 original size:20 final size:21
Alignment explanation
Indices: 27500000--27500043 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
27499990 ATCTTTTGCA
27500000 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
27500021 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
27500041 TTT
1 TTT
27500044 CGACGAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:27510456 original size:28 final size:29
Alignment explanation
Indices: 27510420--27510480 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
27510410 ATCAAAAAAA
*
27510420 TTTTCTTCTCTCAATTTCT-CCAACATCT
1 TTTTCTTCTCTCAATTTCTCCCAACATAT
* *
27510448 TTTTCTTCTCTTATTTTCTCCCAACATAT
1 TTTTCTTCTCTCAATTTCTCCCAACATAT
27510477 TTTT
1 TTTT
27510481 TTCCACTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTCTTCTCTCAATTTCTCCCAACATAT
Found at i:27513356 original size:16 final size:16
Alignment explanation
Indices: 27513332--27513370 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27513322 AAGAAATAAC
* *
27513332 TAAAGTAAATAAACAA
1 TAAAATAAACAAACAA
27513348 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
*
27513364 TTAAATA
1 TAAAATA
27513371 GGTTAAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:27520104 original size:25 final size:25
Alignment explanation
Indices: 27520075--27520235 Score: 76
Period size: 25 Copynumber: 6.4 Consensus size: 25
27520065 AAACCAAACC
*
27520075 AAGCCTTTGTGGTGAATTATATAG-A
1 AAGCCTTTGTGGTGAATCATAT-GTA
* * *
27520100 AAGCCTTCGTGGTGAGTCATCTGTA
1 AAGCCTTTGTGGTGAATCATATGTA
** * *
27520125 AAGCCTTTGTGGCAAATCATTTGGA
1 AAGCCTTTGTGGTGAATCATATGTA
*** * * * *
27520150 AATTTTTTGTGGCGAGTCATCTATA
1 AAGCCTTTGTGGTGAATCATATGTA
* * *
27520175 AAGCTTTTGTGGTGAAT--TGTTTAA
1 AAGCCTTTGTGGTGAATCATATGT-A
* * * *
27520199 TAAGCCTTTGTGGCGAGTCATTTCTA
1 -AAGCCTTTGTGGTGAATCATATGTA
27520225 AAGCCTTTGTG
1 AAGCCTTTGTG
27520236 TCGAATTTTC
Statistics
Matches: 102, Mismatches: 29, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 93 0.91
26 1 0.01
27 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAATCATATGTA
Found at i:27520259 original size:100 final size:99
Alignment explanation
Indices: 27520075--27520461 Score: 303
Period size: 100 Copynumber: 3.9 Consensus size: 99
27520065 AAACCAAACC
* * *
27520075 AAGCCTTTGTGGTGAATTATATAGAAAGCCTTCGTGGTGAGTCATCTGTAAAGCCTTTGTGGCAA
1 AAGCCTTTGTGGTGAATTGTATA-AAAGCCTTTGTGGCGAGTCATCTGTAAAGCCTTTGTGGCAA
*** *
27520140 ATCATTTGGAAATTTTTTGTGGCGAGTCATCTATA
65 ATCATTTGGAAAGCCTTTGTGGCAAGTCATCTATA
* * * * * *
27520175 AAGCTTTTGTGGTGAATTGTTTAATAAGCCTTTGTGGCGAGTCATTTCTAAAGCCTTTGTGTCGA
1 AAGCCTTTGTGGTGAATTGTATAA-AAGCCTTTGTGGCGAGTCATCTGTAAAGCCTTTGTGGCAA
* *
27520240 AT-TTTCTGGGAAGCCTTTGTGGCAAGTCATCTATA
65 ATCATT-TGGAAAGCCTTTGTGGCAAGTCATCTATA
* * * * * *
27520275 AAGCCTTTGTGGCGAATTGTCTAGGAAGCCTTTGCGGCGAGTCATCTGTAAAGCCTTTTTAGCAA
1 AAGCCTTTGTGGTGAATTGTATA-AAAGCCTTTGTGGCGAGTCATCTGTAAAGCCTTTGTGGCAA
** * * * * *
27520340 ATTGTTCAGG-AAGCTTTTGTGGCAATTCATATGTA
65 ATCATT-TGGAAAGCCTTTGTGGCAAGTCATCTATA
* * * ** * * * * * * *
27520375 AATCCTTTGTGCCT-AATTGTTTGGGAAGCTTTTGCGACGAGTCATCTGTAAGGCATTTGGGGCG
1 AAGCCTTTGTG-GTGAATTGTAT-AAAAGCCTTTGTGGCGAGTCATCTGTAAAGCCTTTGTGGCA
** *
27520439 AATTGTTTGGGAAGCCTTTGTGG
64 AATCATTTGGAAAGCCTTTGTGG
27520462 TGAATATTTT
Statistics
Matches: 233, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
99 5 0.02
100 223 0.96
101 5 0.02
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (99 bp):
AAGCCTTTGTGGTGAATTGTATAAAAGCCTTTGTGGCGAGTCATCTGTAAAGCCTTTGTGGCAAA
TCATTTGGAAAGCCTTTGTGGCAAGTCATCTATA
Found at i:27520278 original size:25 final size:25
Alignment explanation
Indices: 27520099--27520332 Score: 107
Period size: 25 Copynumber: 9.4 Consensus size: 25
27520089 AATTATATAG
* ** *
27520099 AAAGCCTTCGTGGTGAGTCATCTGT
1 AAAGCCTTTGTGGCAAGTCATCTAT
* * **
27520124 AAAGCCTTTGTGGCAAATCATTTGG
1 AAAGCCTTTGTGGCAAGTCATCTAT
*** *
27520149 AAATTTTTTGTGGCGAGTCATCTAT
1 AAAGCCTTTGTGGCAAGTCATCTAT
* * ** *
27520174 AAAGCTTTTGTGGTGAA-TTGTTTA-
1 AAAGCCTTTGTGG-CAAGTCATCTAT
* * *
27520198 ATAAGCCTTTGTGGCGAGTCATTTCT
1 A-AAGCCTTTGTGGCAAGTCATCTAT
* ** **
27520224 AAAGCCTTTGTGTCGAA-TTTTCTGG
1 AAAGCCTTTGTGGC-AAGTCATCTAT
*
27520249 GAAGCCTTTGTGGCAAGTCATCTAT
1 AAAGCCTTTGTGGCAAGTCATCTAT
** *
27520274 AAAGCCTTTGTGGCGAA-TTGTCTAG
1 AAAGCCTTTGTGGC-AAGTCATCTAT
* * * *
27520299 GAAGCCTTTGCGGCGAGTCATCTGT
1 AAAGCCTTTGTGGCAAGTCATCTAT
27520324 AAAGCCTTT
1 AAAGCCTTT
27520333 TTAGCAAATT
Statistics
Matches: 149, Mismatches: 52, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
24 5 0.03
25 139 0.93
26 5 0.03
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (25 bp):
AAAGCCTTTGTGGCAAGTCATCTAT
Found at i:27520343 original size:50 final size:49
Alignment explanation
Indices: 27520075--27520461 Score: 274
Period size: 50 Copynumber: 7.7 Consensus size: 49
27520065 AAACCAAACC
* * * * * *
27520075 AAGCCTTTGTGGTGAATTATATAGAAAGCCTTCGTGGTGAGTCATCTGTA
1 AAGCCTTTGT-GCGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
* ** * *** *
27520125 AAGCCTTTGTGGCAAATCAT-TTGGAAATTTTTTGTGGCGAGTCATCTATA
1 AAGCCTTTGT-GCGAATTGTCTAGG-AAGCCTTTGTGGCGAGTCATCTGTA
* * * ** * *
27520175 AAGCTTTTGTGGTGAATTGTTTAATAAGCCTTTGTGGCGAGTCATTTCTA
1 AAGCCTTTGT-GCGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * *
27520225 AAGCCTTTGTGTCGAATTTTCTGGGAAGCCTTTGTGGCAAGTCATCTATA
1 AAGCCTTTGTG-CGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
*
27520275 AAGCCTTTGTGGCGAATTGTCTAGGAAGCCTTTGCGGCGAGTCATCTGTA
1 AAGCCTTTGT-GCGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * * *
27520325 AAGCCTTTTTAGCAAATTGT-TCAGGAAGCTTTTGTGGCAATTCATATGTA
1 AAGCCTTTGT-GCGAATTGTCT-AGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * * * *
27520375 AATCCTTTGTGCCTAATTGTTTGGGAAGCTTTTGCGACGAGTCATCTGTA
1 AAGCCTTTGTG-CGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * *
27520425 AGGCATTTGGGGCGAATTGTTTGGGAAGCCTTTGTGG
1 AAGCCTTT-GTGCGAATTGTCTAGGAAGCCTTTGTGG
27520462 TGAATATTTT
Statistics
Matches: 265, Mismatches: 64, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
49 5 0.02
50 255 0.96
51 5 0.02
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (49 bp):
AAGCCTTTGTGCGAATTGTCTAGGAAGCCTTTGTGGCGAGTCATCTGTA
Found at i:27520505 original size:25 final size:25
Alignment explanation
Indices: 27520488--27520535 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
27520478 CCTTTGTGTC
27520488 GAGTCATCTATAAAGCCTTTATGAT
1 GAGTCATCTATAAAGCCTTTATGAT
*
27520513 GAGTCATCTGTAAAGCCTTTATG
1 GAGTCATCTATAAAGCCTTTATG
27520536 GTGAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGTCATCTATAAAGCCTTTATGAT
Found at i:27521826 original size:27 final size:26
Alignment explanation
Indices: 27521793--27521850 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
27521783 TTTCATTCCT
*
27521793 AAAAGAAGGAAAATAATACAAACTAA
1 AAAAGAAAGAAAATAATACAAACTAA
**
27521819 ACAAAGAAATTAAATAATACAAACTAA
1 A-AAAGAAAGAAAATAATACAAACTAA
27521846 AAAAG
1 AAAAG
27521851 GCATTCAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAAGAAAGAAAATAATACAAACTAA
Found at i:27525648 original size:18 final size:19
Alignment explanation
Indices: 27525605--27525640 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27525595 TTTATTTAAT
27525605 ATATAA-TAATAAAATATA
1 ATATAATTAATAAAATATA
*
27525623 ATATAATTAATATAATAT
1 ATATAATTAATAAAATAT
27525641 GTATAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAATTAATAAAATATA
Found at i:27526894 original size:15 final size:15
Alignment explanation
Indices: 27526874--27526904 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27526864 AAATCTACTG
27526874 AAATAGATGAATTAC
1 AAATAGATGAATTAC
27526889 AAATAGATGAATTAC
1 AAATAGATGAATTAC
27526904 A
1 A
27526905 TACAACATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
AAATAGATGAATTAC
Found at i:27527824 original size:21 final size:23
Alignment explanation
Indices: 27527782--27527824 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
27527772 TAATTAATTA
*
27527782 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
27527805 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
27527825 AAAACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:27530688 original size:69 final size:69
Alignment explanation
Indices: 27530602--27530739 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
27530592 GAAAAGATGT
*
27530602 GTGAACAGGAAAGATTCCTTGCAA-AGAATGATGCATGAATAGAAAAGT-TTCCCTGCAAGAAAA
1 GTGAACAGGAAAGATTCCTTGCAAGA-AATGATGCATGAACAGAAAA-TATTCCCTGCAAGAAAA
27530665 GACAAG
64 GACAAG
* **
27530671 GTGAACAGGAAATATTCCTTGCAAGAAATGATGTGTGAACAGAAAATATTCCCTGCAAGAAAAGA
1 GTGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGAAAATATTCCCTGCAAGAAAAGA
27530736 CAAG
66 CAAG
27530740 AAAAAGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
68 1 0.02
69 61 0.97
70 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (69 bp):
GTGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGAAAATATTCCCTGCAAGAAAAGA
CAAG
Found at i:27530718 original size:34 final size:34
Alignment explanation
Indices: 27530589--27530735 Score: 138
Period size: 34 Copynumber: 4.3 Consensus size: 34
27530579 AGAAATGATA
* * *
27530589 CAAGAAAAGATGTGTGAACAGGAAAGATTCCTTG
1 CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
* ** *
27530623 CAA-AGAATGATGCATGAATAGAAAAGT-TTCCCTG
1 CAAGA-AAAGATGTGTGAACAGAAAA-TATTCCCTG
* * *
27530657 CAAGAAAAGACAAG-GTGAACAGGAAATATTCCTTG
1 CAAGAAAAG--ATGTGTGAACAGAAAATATTCCCTG
*
27530692 CAAGAAATGATGTGTGAACAGAAAATATTCCCTG
1 CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
27530726 CAAGAAAAGA
1 CAAGAAAAGA
27530736 CAAGAAAAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
33 3 0.03
34 59 0.67
35 24 0.27
36 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (34 bp):
CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
Found at i:27530799 original size:19 final size:19
Alignment explanation
Indices: 27530775--27530815 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
27530765 CTGTAATTTG
*
27530775 TATTTTTGTAATTAGAGAA
1 TATTTTTGTAATGAGAGAA
27530794 TATTTTTGTAATGAGAGAA
1 TATTTTTGTAATGAGAGAA
27530813 TAT
1 TAT
27530816 ATTCTCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (19 bp):
TATTTTTGTAATGAGAGAA
Found at i:27531048 original size:13 final size:13
Alignment explanation
Indices: 27531030--27531068 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
27531020 AGTTTCCAAA
27531030 TTTTCAAATTAAG
1 TTTTCAAATTAAG
*
27531043 TTTTCAAACATAAG
1 TTTTCAAA-TTAAG
*
27531057 CTTTCAAATTAA
1 TTTTCAAATTAA
27531069 AAATATCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:27532746 original size:35 final size:34
Alignment explanation
Indices: 27532695--27532809 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 34
27532685 AATGTTTACA
* *
27532695 CATCATTTCTTACAGGGAATCTTTCCTGTTCACCT
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCA-CT
* *
27532730 CGTCTTTTCTTGCAGGGAATCTTTCATGTTCA-T
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
* * *
27532763 GCATC-ATTCTTTGCAGGGAATCTTTCCTATTCACA
1 -CATCTTTTC-TTGCAGGGAATCTTTCCTGTTCACT
27532798 CATCTTTTCTTG
1 CATCTTTTCTTG
27532810 TATCATTTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
33 4 0.06
34 31 0.47
35 31 0.47
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (34 bp):
CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
Found at i:27533949 original size:35 final size:34
Alignment explanation
Indices: 27533866--27534047 Score: 224
Period size: 35 Copynumber: 5.3 Consensus size: 34
27533856 CTTTTTCTTG
* * *
27533866 TCTTTTCTTGCAAGGAATATTTCCTGTTCACGCA
1 TCTTTTCTTGCAGGGAATCTTTCCTGTTCACTCA
* *
27533900 TCATTTCTTGCAGGGAATCTTTCCTGTTCACCTCG
1 TCTTTTCTTGCAGGGAATCTTTCCTGTTCA-CTCA
*
27533935 TCTTTTCTTGCAGGGAATCTTTCCTGTTCACCTCG
1 TCTTTTCTTGCAGGGAATCTTTCCTGTTCA-CTCA
*
27533970 TCTTTTCTTGCAGGGAATCTTTCATGTTCA-TGCA
1 TCTTTTCTTGCAGGGAATCTTTCCTGTTCACT-CA
* * *
27534004 TC-ATTCTTTGCAGGGAATCTTTCCTATTCACACA
1 TCTTTTC-TTGCAGGGAATCTTTCCTGTTCACTCA
27534038 TCTTTTCTTG
1 TCTTTTCTTG
27534048 TATCATTTCT
Statistics
Matches: 130, Mismatches: 13, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
33 4 0.03
34 58 0.45
35 68 0.52
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.43
Consensus pattern (34 bp):
TCTTTTCTTGCAGGGAATCTTTCCTGTTCACTCA
Found at i:27536888 original size:21 final size:22
Alignment explanation
Indices: 27536851--27536895 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27536841 GAACAAATTG
*
27536851 TTGATTCTATTTCTTTTTTTAT
1 TTGATTCTATTTCTTTTTGTAT
27536873 TTGATT-TA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
27536894 TT
1 TT
27536896 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:27536902 original size:20 final size:20
Alignment explanation
Indices: 27536851--27536895 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
27536841 GAACAAATTG
27536851 TTGATTCTATTTCTTTTTTTAT
1 TTGA-TCTA-TTCTTTTTTTAT
*
27536873 TTGATTTATTCTTTTTTGTAT
1 TTGATCTATTCTTTTTT-TAT
27536894 TT
1 TT
27536896 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (20 bp):
TTGATCTATTCTTTTTTTAT
Found at i:27541218 original size:14 final size:14
Alignment explanation
Indices: 27541194--27541232 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
27541184 TGAAATATTT
27541194 TTAAG-TTGAAAAC
1 TTAAGTTTGAAAAC
27541207 TTAAGTTTGAAAAC
1 TTAAGTTTGAAAAC
27541221 TTAA-TTTGAAAA
1 TTAAGTTTGAAAA
27541233 TTTAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (14 bp):
TTAAGTTTGAAAAC
Found at i:27541265 original size:22 final size:21
Alignment explanation
Indices: 27541230--27541272 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27541220 CTTAATTTGA
*
27541230 AAATTTAGAAACTTGAAAATT
1 AAATTTAGAAACTTAAAAATT
*
27541251 AAATTTTGTAAACTTAAAAATT
1 AAATTTAG-AAACTTAAAAATT
27541273 TTGAGAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATTTAGAAACTTAAAAATT
Found at i:27543398 original size:43 final size:43
Alignment explanation
Indices: 27543345--27543432 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
27543335 TTCCCTAGAT
*
27543345 TAAATCCAACAACCTAATATTATCTTCT-CCTCTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCT-TTTTTAAATTC
*
27543388 TAAATTCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
27543431 TA
1 TA
27543433 TTTTTTCTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 39 0.93
44 3 0.07
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (43 bp):
TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
Found at i:27555911 original size:16 final size:17
Alignment explanation
Indices: 27555892--27555924 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27555882 CTTTTTTTTC
27555892 TTTTC-TCCCTTTATTT
1 TTTTCTTCCCTTTATTT
*
27555908 TTTTCTTTCCTTTATTT
1 TTTTCTTCCCTTTATTT
27555925 CCCTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCCCTTTATTT
Found at i:27558721 original size:50 final size:50
Alignment explanation
Indices: 27558644--27558799 Score: 145
Period size: 50 Copynumber: 3.2 Consensus size: 50
27558634 AAAGACTTGC
* **** *
27558644 TTTATCATTTCAATCATCAAAAATCCATCAAATCATGCTGAAAGACTTAT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
* * * * *
27558694 TTTATCATTTCAATCAACGGGCTTCCATCAAATCATGCAGAGAGTCATGT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
* * ** * *
27558744 TTTATCATTTCAGTCATCAGGCTTCTGTCAACTCAT--TCAGAGACTTAT
1 TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
27558792 TTTATCAT
1 TTTATCAT
27558800 CTTATTCTTC
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 15 0.18
50 69 0.82
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (50 bp):
TTTATCATTTCAATCAACAGGCTTCCATCAAATCATGCTGAGAGACTTAT
Found at i:27565526 original size:17 final size:19
Alignment explanation
Indices: 27565481--27565526 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
27565471 ATGTATTGAC
27565481 AATGAATTAAGATTGATAT
1 AATGAATTAAGATTGATAT
*
27565500 AATGTCAATTGAG-TT-ATAT
1 AATG--AATTAAGATTGATAT
27565519 AATGAATT
1 AATGAATT
27565527 CAGAAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 4 0.17
19 12 0.50
20 2 0.08
21 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (19 bp):
AATGAATTAAGATTGATAT
Found at i:27569040 original size:25 final size:25
Alignment explanation
Indices: 27569006--27569056 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27568996 AGAGAGTAAG
*
27569006 CCACTTGTTACTAGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
*
27569031 CCACTAGTTACTGGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
27569056 C
1 C
27569057 TAAGCAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (25 bp):
CCACTAGTTACTAGTCAAAAAGGAA
Found at i:27569566 original size:17 final size:18
Alignment explanation
Indices: 27569539--27569573 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
27569529 CAATTCACTT
27569539 TTTTTTACTTTTTTTTTG
1 TTTTTTACTTTTTTTTTG
27569557 TTTTTT-CTTTTTTTTTG
1 TTTTTTACTTTTTTTTTG
27569574 GGGGGGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTTACTTTTTTTTTG
Found at i:27589584 original size:6 final size:6
Alignment explanation
Indices: 27589575--27589607 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27589565 GTATATATAT
27589575 ACATAC ACATAC ACATAC ACATAC ACATAC ACA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACA
27589608 CCATACTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
ACATAC
Found at i:27591772 original size:13 final size:13
Alignment explanation
Indices: 27591754--27591801 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
27591744 TTTTCATTGT
27591754 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
27591767 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
*
27591780 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
27591793 TTTTGAGAA
1 TTTTGAGAA
27591802 ATTTGAGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:27593737 original size:26 final size:26
Alignment explanation
Indices: 27593701--27593752 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27593691 CTTGGATTTC
27593701 GCCCGAATCTCATTGATGGCCCAAAG
1 GCCCGAATCTCATTGATGGCCCAAAG
27593727 GCCCGAATCTCATTGATGGCCCAAAG
1 GCCCGAATCTCATTGATGGCCCAAAG
27593753 CTTCATCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (26 bp):
GCCCGAATCTCATTGATGGCCCAAAG
Found at i:27594271 original size:30 final size:30
Alignment explanation
Indices: 27594236--27594296 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
27594226 AAGGGCAGAA
*
27594236 CAAAGAACCAGCAGA-AGGCAGAGATGAGGG
1 CAAAGAACCAGCAGAGA-GCAGAGATAAGGG
*
27594266 CAAAGAAGCAGCAGAGAGCAGAGATAAGGG
1 CAAAGAACCAGCAGAGAGCAGAGATAAGGG
27594296 C
1 C
27594297 GTTCGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.36, T:0.03
Consensus pattern (30 bp):
CAAAGAACCAGCAGAGAGCAGAGATAAGGG
Found at i:27594713 original size:14 final size:15
Alignment explanation
Indices: 27594696--27594725 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27594686 AATTACATTT
27594696 TAAATATT-ATTTTA
1 TAAATATTAATTTTA
27594710 TAAATATTAATTTTA
1 TAAATATTAATTTTA
27594725 T
1 T
27594726 TCACAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATATTAATTTTA
Found at i:27605705 original size:44 final size:44
Alignment explanation
Indices: 27605657--27605740 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
27605647 ATGAACTAGT
*
27605657 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAGGATTGTCG
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
* *
27605701 GCTTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATT
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATT
27605741 TGCCATCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
Found at i:27606030 original size:44 final size:43
Alignment explanation
Indices: 27605763--27606045 Score: 126
Period size: 44 Copynumber: 6.5 Consensus size: 43
27605753 TCTGCCTCGT
27605763 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCAC
1 TGCAACTTCAGGAGGATAAGACTTGCTT-ATTAGTCTGCTCCAC
* * * * * *
27605807 TGTAACTTCAGG-GAGATAAAACTAGATT-TGA-TCTGCT-CTC
1 TGCAACTTCAGGAG-GATAAGACTTGCTTATTAGTCTGCTCCAC
* * * * *
27605847 TGCAACTTTA-GAGAGATGAGATCTAAGGTT-TTAATC--CATCCAC
1 TGCAACTTCAGGAG-GATAAGA-CT-TGCTTATTAGTCTGC-TCCAC
* * * * *
27605890 TGCAACTTCAGCGA-GAT-AGAATTGTCGGCT-TTAATTTGTTCCAC
1 TGCAACTTCAG-GAGGATAAGACTTG-C--TTATTAGTCTGCTCCAC
* * * * **
27605934 TGCAACTTCAGG-GAAATAAGATTTGCCATCTTCAGTCTGC-CTCGT
1 TGCAACTTCAGGAG-GATAAGACTTG-CTTATT-AGTCTGCTC-CAC
27605979 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCAC
1 TGCAACTTCAGGAGGATAAGACTTGCTT-ATTAGTCTGCTCCAC
27606023 TGCAACTTCAAGGA-GATAAGACT
1 TGCAACTTC-AGGAGGATAAGACT
27606046 AGATGCGATC
Statistics
Matches: 180, Mismatches: 35, Indels: 48
0.68 0.13 0.18
Matches are distributed among these distances:
39 1 0.01
40 18 0.10
41 10 0.06
42 12 0.07
43 25 0.14
44 71 0.39
45 42 0.23
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
TGCAACTTCAGGAGGATAAGACTTGCTTATTAGTCTGCTCCAC
Found at i:27606177 original size:44 final size:45
Alignment explanation
Indices: 27606071--27606192 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 45
27606061 TCGGCTTTAA
* * *
27606071 TCTGATCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTTCAG
27606116 TCTGC-CTCACTGCAACTTCAG-GAGGATAAGACTTG-C-TTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCCATT--TTCAG
* * *
27606160 TCTGCTCCACTGCAACTTCTGGGAAATAAGACT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT
27606193 AGATGCGATC
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
43 2 0.03
44 32 0.48
45 32 0.48
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTTCAG
Found at i:27606189 original size:147 final size:147
Alignment explanation
Indices: 27605914--27606209 Score: 475
Period size: 147 Copynumber: 2.0 Consensus size: 147
27605904 GATAGAATTG
* * * **
27605914 TCGGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGT
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
*
27605979 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
27606044 CTAGATGCGATCTACTC
131 CTAGATGCGATCTACTC
* * *
27606061 TCGGCTTTAATCTGATCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGTCTGCCTCAC
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
* **
27606126 TGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCTGGGAAATAAGA
66 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
*
27606191 CTAGATGCGATCTGCTC
131 CTAGATGCGATCTACTC
27606208 TC
1 TC
27606210 TGCAACTTCA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 136 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (147 bp):
TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAAGGAAATAAGA
CTAGATGCGATCTACTC
Found at i:27606258 original size:44 final size:44
Alignment explanation
Indices: 27606209--27606320 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
27606199 GATCTGCTCT
* * *
27606209 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAATCCGCTCCA
* * *
27606253 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCA
* *
27606297 TTGCAACTTCAGGGAGACAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
27606321 TGACATCATC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.03
44 56 0.97
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCCGCTCCA
Found at i:27625136 original size:139 final size:139
Alignment explanation
Indices: 27624852--27625443 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
27624842 TGCACGCAAA
* * * *
27624852 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
27624917 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27624982 GGATATGCAT
130 GAATATGCAT
* * *
27624992 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
27625056 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
27625121 GAATATGCAT
130 GAATATGCAT
* * * **
27625131 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
27625192 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
27625251 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
27625257 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
27625322 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27625387 GGATATGCAT
130 GAATATGCAT
* * *
27625397 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
27625444 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:27625277 original size:126 final size:126
Alignment explanation
Indices: 27625050--27625444 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
27625040 ACACTTTTGG
* * *
27625050 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
27625115 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
27625176 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
27625240 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
27625302 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
27625367 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
27625431 TCCAACACTAT
116 TCCAACACTAT
27625442 GCC
1 GCC
27625445 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:27625395 original size:266 final size:265
Alignment explanation
Indices: 27624955--27625442 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
27624945 CGATATACAC
* *
27624955 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
27625020 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
27625085 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
27625149 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
27625214 ATACGT
260 ATACGT
* *
27625220 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
27625285 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
27625350 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
27625415 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
27625443 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:27625432 original size:140 final size:140
Alignment explanation
Indices: 27625180--27625444 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
27625170 CACTATGTCG
* ** * * *
27625180 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
27625245 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
27625310 TTTTGGGCCA
131 TTTTGGGCCA
* * *
27625320 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
27625384 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
27625445 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:27628506 original size:139 final size:139
Alignment explanation
Indices: 27628222--27628813 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
27628212 TGCACGCAAA
* * * *
27628222 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
27628287 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27628352 GGATATGCAT
130 GAATATGCAT
* * *
27628362 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
27628426 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
27628491 GAATATGCAT
130 GAATATGCAT
* * * **
27628501 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
27628562 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
27628621 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
27628627 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
27628692 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27628757 GGATATGCAT
130 GAATATGCAT
* * *
27628767 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
27628814 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:27628647 original size:126 final size:126
Alignment explanation
Indices: 27628420--27628814 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
27628410 ACACTTTTGG
* * *
27628420 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
27628485 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
27628546 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
27628610 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
27628672 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
27628737 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
27628801 TCCAACACTAT
116 TCCAACACTAT
27628812 GCC
1 GCC
27628815 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:27628765 original size:266 final size:265
Alignment explanation
Indices: 27628325--27628812 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
27628315 CGATATACAC
* *
27628325 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
27628390 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
27628455 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
27628519 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
27628584 ATACGT
260 ATACGT
* *
27628590 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
27628655 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
27628720 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
27628785 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
27628813 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:27628802 original size:140 final size:140
Alignment explanation
Indices: 27628550--27628814 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
27628540 CACTATGTCG
* ** * * *
27628550 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
27628615 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
27628680 TTTTGGGCCA
131 TTTTGGGCCA
* * *
27628690 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
27628754 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
27628815 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:27631876 original size:139 final size:139
Alignment explanation
Indices: 27631592--27632183 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
27631582 TGCACGCAAA
* * * *
27631592 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
27631657 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27631722 GGATATGCAT
130 GAATATGCAT
* * *
27631732 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
27631796 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
27631861 GAATATGCAT
130 GAATATGCAT
* * * **
27631871 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
27631932 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
27631991 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
27631997 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
27632062 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27632127 GGATATGCAT
130 GAATATGCAT
* * *
27632137 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
27632184 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:27632017 original size:126 final size:126
Alignment explanation
Indices: 27631790--27632184 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
27631780 ACACTTTTGG
* * *
27631790 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
27631855 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
27631916 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
27631980 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
27632042 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
27632107 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
27632171 TCCAACACTAT
116 TCCAACACTAT
27632182 GCC
1 GCC
27632185 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:27632135 original size:266 final size:265
Alignment explanation
Indices: 27631695--27632182 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
27631685 CGATATACAC
* *
27631695 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
27631760 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
27631825 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
27631889 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
27631954 ATACGT
260 ATACGT
* *
27631960 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
27632025 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
27632090 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
27632155 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
27632183 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:27632172 original size:140 final size:140
Alignment explanation
Indices: 27631920--27632184 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
27631910 CACTATGTCG
* ** * * *
27631920 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
27631985 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
27632050 TTTTGGGCCA
131 TTTTGGGCCA
* * *
27632060 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
27632124 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
27632185 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:27635246 original size:139 final size:139
Alignment explanation
Indices: 27634962--27635553 Score: 497
Period size: 139 Copynumber: 4.3 Consensus size: 139
27634952 TGCACGCAAA
* * * *
27634962 GCCTAAGGTAACGCTTAAATAAGAGTCAGTTTTATCCAACACTATGCCGACGCTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* *
27635027 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAACTCTTTATATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27635092 GGATATGCAT
130 GAATATGCAT
* * *
27635102 GCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCCAACACTATGCAGACACTTTTGGGCCGAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC-GACACTTTTGGGCCGAC
* *
27635166 ACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAAGAGTTG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
27635231 GAATATGCAT
130 GAATATGCAT
* * * **
27635241 GCCTAAGACAATGA-TTAAATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTT---CAAA
1 GCCTAAGGCAA-CACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGA
*** ** * * ** * *** *** **
27635302 GTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCC---A-ACTCTTTGTATAAGAGTTGGTAT--
64 CACTT-TCCTA-A-GTGTTGGGATA-GACTT-GCCGATATACACTTTGGCCAACCCTTTATATAA
27635361 -A--T-------GCAT
124 GAGTTGGAATATGCAT
* * *
27635367 GCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATACTTTTGGGCCAAC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATG-CGACACTTTTGGGCCGAC
* ** * * * * *
27635432 ACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGGTCG
65 ACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTG
*
27635497 GGATATGCAT
130 GAATATGCAT
* * *
27635507 GCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGC
1 GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGC
27635554 CAACTTGTGT
Statistics
Matches: 356, Mismatches: 67, Indels: 59
0.74 0.14 0.12
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 62 0.17
127 2 0.01
128 17 0.05
129 5 0.01
133 1 0.00
135 1 0.00
137 4 0.01
138 19 0.05
139 126 0.35
140 106 0.30
141 4 0.01
142 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (139 bp):
GCCTAAGGCAACACTTAAATAAGAGTCAGTTTTGTCCAACACTATGCGACACTTTTGGGCCGACA
CTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGCCAACCCTTTATATAAGAGTTGG
AATATGCAT
Found at i:27635387 original size:126 final size:126
Alignment explanation
Indices: 27635160--27635554 Score: 382
Period size: 126 Copynumber: 3.0 Consensus size: 126
27635150 ACACTTTTGG
* * *
27635160 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
27635225 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
27635286 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GCCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
27635350 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
27635412 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 GCCGACACTTTT-------CA-------AAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
27635477 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
27635541 TCCAACACTAT
116 TCCAACACTAT
27635552 GCC
1 GCC
27635555 AACTTGTGTT
Statistics
Matches: 224, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
125 1 0.00
126 117 0.52
127 2 0.01
133 2 0.01
139 2 0.01
140 99 0.44
142 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:27635505 original size:266 final size:265
Alignment explanation
Indices: 27635065--27635552 Score: 753
Period size: 266 Copynumber: 1.8 Consensus size: 265
27635055 CGATATACAC
* *
27635065 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* *
27635130 CTTTGTCCAACACTATGCAGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
27635195 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
27635259 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
27635324 ATACGT
260 ATACGT
* *
27635330 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
27635395 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
27635460 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
27635525 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
27635553 CCAACTTGTG
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 142 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:27635542 original size:140 final size:140
Alignment explanation
Indices: 27635290--27635554 Score: 397
Period size: 140 Copynumber: 1.9 Consensus size: 140
27635280 CACTATGTCG
* ** * * *
27635290 ACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
* * *
27635355 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGCCGATAC
66 CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
27635420 TTTTGGGCCA
131 TTTTGGGCCA
* * *
27635430 ACACTTTCCTAAGTGTTG-GGATAGACTTGCCGACATATGCTTTGACCAACTCTTTGTATAAGGG
1 ACACTTTCCAAAGTGTTGTGG-TAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAG
*
27635494 TCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCC
27635555 AACTTGTGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 2 0.02
140 109 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTCCAAAGTGTTGTGGTAGACTTGCCGACATACGCTTTGACCAACTCTTTGTATAAGAGT
CGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGCCGGTTTTGTCCAACACTATGCCGATAC
TTTTGGGCCA
Found at i:27643028 original size:148 final size:146
Alignment explanation
Indices: 27642705--27643132 Score: 556
Period size: 148 Copynumber: 2.9 Consensus size: 146
27642695 CCTTATACGT
* * * *
27642705 GTCTATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * * *
27642770 TAAACGA-GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTAAAA
66 TAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAA
*
27642834 AGTTGCCTTAGATAAG
131 AGTTGCCTTAGACAAG
* * *
27642850 GTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * * * * *
27642915 TAGACATGGTTTAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTT
66 TAGACAAGGTTTATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTA
* * *
27642979 ATAGGTTGTCTTAGACAAG
128 AAAAGTTGCCTTAGACAAG
* * *
27642998 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCC
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCC
* *
27643062 TTAGACAAGTTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAA
65 TTAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAA
*
27643127 AGGTTG
130 AAGTTG
27643133 GTCTTGATTA
Statistics
Matches: 243, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
145 72 0.30
146 44 0.18
147 2 0.01
148 115 0.47
149 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (146 bp):
GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAA
AGTTGCCTTAGACAAG
Found at i:27643156 original size:73 final size:73
Alignment explanation
Indices: 27642708--27643132 Score: 559
Period size: 73 Copynumber: 5.8 Consensus size: 73
27642698 TATACGTGTC
* * * * * *
27642708 TATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCTTAA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
* *
27642773 ACGA-GTC
66 ACAAGGTT
* * *
27642780 TATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTAAAAAGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
*
27642845 ATAAGGTT
66 ACAAGGTT
*
27642853 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
*
27642918 ACATGGTT
66 ACAAGGTT
* * * * * *
27642926 TAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTTATAGGTTGTCT
1 TATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTTAAAGGTTGCCT
*
27642990 TAGACAAGGTC
63 TAGACAAGGTT
* * * *
27643001 TATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCCTTA
*
27643065 GACAAGTTT
65 GACAAGGTT
27643074 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
27643133 GTCTTGATTA
Statistics
Matches: 304, Mismatches: 42, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
72 69 0.23
73 173 0.57
74 2 0.01
75 51 0.17
76 9 0.03
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (73 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
ACAAGGTT
Found at i:27645672 original size:41 final size:44
Alignment explanation
Indices: 27645627--27645717 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 44
27645617 AGTTGGTTGG
*
27645627 GTTTTCTTTGT-AT-TTAGTGGGAAAG-GTGTCCAGCTAGG-CGC
1 GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCT-GGACGC
*
27645668 GTTTTC-TTGTCATATTAGTAGGAAAGCTTGTCCAGCTGGACGC
1 GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCTGGACGC
27645711 GTTTTCT
1 GTTTTCT
27645718 GTCCACCACC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 4 0.09
41 8 0.19
42 13 0.30
43 18 0.42
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.38
Consensus pattern (44 bp):
GTTTTCTTTGTCATATTAGTAGGAAAGCGTGTCCAGCTGGACGC
Found at i:27647817 original size:27 final size:27
Alignment explanation
Indices: 27647786--27647839 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27647776 CTAGTTGGAA
27647786 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
27647813 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
27647840 CTACATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (27 bp):
AATTGCCCAATTTTTTAAATTAGTCTT
Found at i:27655213 original size:42 final size:42
Alignment explanation
Indices: 27655154--27655262 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
27655144 AGTGAGTTAT
* *
27655154 ACGGCCTGGACACACGCCCATGTCCTTGTCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
27655196 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
* *
27655238 ACAGCTTGGGCACACGCCCATGTCC
1 ACGGCCTGGGCACACGCCCATGTCC
27655263 CTAGCGCTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (42 bp):
ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
Found at i:27657205 original size:28 final size:28
Alignment explanation
Indices: 27657174--27657230 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
27657164 GTAGATTGTA
27657174 AAAG-GTTTCTAGTTAAGCCACAAAAGCT
1 AAAGTGTTT-TAGTTAAGCCACAAAAGCT
*
27657202 AAAGTGTTTTAGTTAAGCCATAAAAGCT
1 AAAGTGTTTTAGTTAAGCCACAAAAGCT
27657230 A
1 A
27657231 GGAAGAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAGTGTTTTAGTTAAGCCACAAAAGCT
Found at i:27663565 original size:9 final size:9
Alignment explanation
Indices: 27663553--27663596 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
27663543 TAAAAAAATG
27663553 TAACCGAAT
1 TAACCGAAT
* *
27663562 TAACTGACT
1 TAACCGAAT
27663571 TAACCGAAT
1 TAACCGAAT
*
27663580 TAATCGAAT
1 TAACCGAAT
27663589 TAACCGAA
1 TAACCGAA
27663597 ATTTAAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (9 bp):
TAACCGAAT
Found at i:27674600 original size:16 final size:16
Alignment explanation
Indices: 27674575--27674605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27674565 TAATTTGAGT
27674575 TTTTAAGTTTTGACAA
1 TTTTAAGTTTTGACAA
*
27674591 TTTTAGGTTTTGACA
1 TTTTAAGTTTTGACA
27674606 TTCAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTTAAGTTTTGACAA
Found at i:27680432 original size:16 final size:16
Alignment explanation
Indices: 27680413--27680451 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27680403 TTTTAATAAA
*
27680413 ATTAAAGCTAATTGTT
1 ATTAAAACTAATTGTT
*
27680429 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
27680445 AGTAAAA
1 ATTAAAA
27680452 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:27680434 original size:22 final size:22
Alignment explanation
Indices: 27680385--27680439 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
27680375 TTTAATTAAC
* * *
27680385 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGTT
* *
27680407 AATAAAATTAAAGCTAATTGTT
1 ATTAAAATTAAAACTAATTGTT
27680429 ATTAAAATTAA
1 ATTAAAATTAA
27680440 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGTT
Found at i:27680452 original size:16 final size:16
Alignment explanation
Indices: 27680421--27680454 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27680411 AAATTAAAGC
*
27680421 TAATTGTTATTAAAAT
1 TAATTGTTAGTAAAAT
27680437 TAATTGTTAGTAAAAT
1 TAATTGTTAGTAAAAT
27680453 TA
1 TA
27680455 TCAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TAATTGTTAGTAAAAT
Found at i:27680524 original size:66 final size:67
Alignment explanation
Indices: 27680443--27680585 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
27680433 AAATTAATTG
*
27680443 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
27680507 GA
66 GA
*
27680509 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
27680574 TGA
65 TGA
27680577 TTAGTAAAA
1 TTAGTAAAA
27680586 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:27680539 original size:9 final size:9
Alignment explanation
Indices: 27680527--27680554 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27680517 TTTATCAAAT
27680527 TATTAATTG
1 TATTAATTG
27680536 TATTAATTG
1 TATTAATTG
27680545 TATTAATTG
1 TATTAATTG
27680554 T
1 T
27680555 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:27680691 original size:22 final size:24
Alignment explanation
Indices: 27680651--27680694 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27680641 AAATAAACTT
27680651 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
27680675 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
27680695 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:27685713 original size:13 final size:13
Alignment explanation
Indices: 27685695--27685722 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27685685 GGTGATCACG
27685695 TTGATTCATTAAC
1 TTGATTCATTAAC
27685708 TTGATTCATTAAC
1 TTGATTCATTAAC
27685721 TT
1 TT
27685723 AATTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTGATTCATTAAC
Found at i:27685731 original size:13 final size:13
Alignment explanation
Indices: 27685698--27685731 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27685688 GATCACGTTG
*
27685698 ATTCATTAACTTG
1 ATTCATTAACTTA
27685711 ATTCATTAACTTA
1 ATTCATTAACTTA
*
27685724 ATTTATTA
1 ATTCATTA
27685732 TAAGTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTCATTAACTTA
Found at i:27692712 original size:48 final size:48
Alignment explanation
Indices: 27692645--27692745 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
27692635 GGTAGGCAAC
27692645 TTTTTTTTTGCGCTATTTGC-TTTTTTTTAAAGATTTTTCTCAACTCTT
1 TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACT-TT
* **
27692693 TTTTTTTTTGCGCTGTTTGCTTTTTTTTTTTAGATTTTTCTCAACTTT
1 TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACTTT
27692741 TTTTT
1 TTTTT
27692746 GCGCTTTTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
48 26 0.53
49 23 0.47
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (48 bp):
TTTTTTTTTGCGCTATTTGCTTTTTTTTTAAAGATTTTTCTCAACTTT
Found at i:27692765 original size:44 final size:44
Alignment explanation
Indices: 27692641--27692764 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 44
27692631 GAGAGGTAGG
*
27692641 CAACTTTTTTTTTGCGCTATTTGCTTTTTTTTAAAGATTTTTCT
1 CAACTTTTTTTTTGCGCTATTTGTTTTTTTTTAAAGATTTTTCT
* **
27692685 CAACTCTTTTTTTTTTTGCGCTGTTTGCTTTTTTTTTTTAGATTTTTCT
1 CAA--C--TTTTTTTTTGCGCTATTTG-TTTTTTTTTAAAGATTTTTCT
*
27692734 CAAC-TTTTTTTTGCGCTTTTTGTTTTTTTTT
1 CAACTTTTTTTTTGCGCTATTTGTTTTTTTTT
27692765 TATTAACTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 9 0.13
44 20 0.29
46 1 0.01
47 1 0.01
48 18 0.26
49 21 0.30
ACGTcount: A:0.10, C:0.14, G:0.10, T:0.66
Consensus pattern (44 bp):
CAACTTTTTTTTTGCGCTATTTGTTTTTTTTTAAAGATTTTTCT
Found at i:27693353 original size:31 final size:31
Alignment explanation
Indices: 27693316--27693374 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
27693306 AATAACTCAA
27693316 TGACTTAAATAAAAACTATT-GAATAGTTTTG
1 TGACTTAAATAAAAA-TATTCGAATAGTTTTG
* *
27693347 TGACTTAAATGAAAATTTTCGAATAGTT
1 TGACTTAAATAAAAATATTCGAATAGTT
27693375 CAGTGACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAATATTCGAATAGTTTTG
Found at i:27693381 original size:31 final size:31
Alignment explanation
Indices: 27693316--27693382 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
27693306 AATAACTCAA
**
27693316 TGACTTAAATAAAAACTATTGAATAGTTTTG
1 TGACTTAAATAAAAACTATTGAATAGTTCAG
* *
27693347 TGACTTAAATGAAAA-TTTTCGAATAGTTCAG
1 TGACTTAAATAAAAACTATT-GAATAGTTCAG
27693378 TGACT
1 TGACT
27693383 AACTTGAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTATTGAATAGTTCAG
Found at i:27694820 original size:100 final size:100
Alignment explanation
Indices: 27694712--27694907 Score: 315
Period size: 100 Copynumber: 2.0 Consensus size: 100
27694702 TTAAAAAATA
27694712 TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAAATCATAATAAATTATTTTTT-TAT
1 TTTAAAATTTATATTTCATATATTAAAATATT-AAAAAAAAATCATAATAAATTATTTTTTATAT
*
27694776 TATTACTAACG-TATCATAATATTAACTAATTTATTT
65 TATTACTAA-GATAACATAATATTAACTAATTTATTT
* * *
27694812 TTTAAAATTTATATTTCATATATTAAAATATTAACAACAAATTATAATAAATTATTTTTTATATT
1 TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAATCATAATAAATTATTTTTTATATT
*
27694877 CTTACTAAGATAACATAATATTAACTAATTT
66 ATTACTAAGATAACATAATATTAACTAATTT
27694908 GAACATTATT
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 26 0.29
100 63 0.71
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (100 bp):
TTTAAAATTTATATTTCATATATTAAAATATTAAAAAAAAATCATAATAAATTATTTTTTATATT
ATTACTAAGATAACATAATATTAACTAATTTATTT
Found at i:27696657 original size:27 final size:28
Alignment explanation
Indices: 27696617--27696685 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
27696607 TAATTAATTA
* *
27696617 ATTTTTATAAATTTTATACTTT-T-AAAT
1 ATTTTAAT-AATTTTATAATTTATAAAAT
27696644 ACTTTTAATAA-TTTATAATTTATAAAAT
1 A-TTTTAATAATTTTATAATTTATAAAAT
*
27696672 ATTTTAATATTTTT
1 ATTTTAATAATTTT
27696686 TAGAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 9 0.26
27 12 0.34
28 14 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTAATAATTTTATAATTTATAAAAT
Found at i:27696710 original size:7 final size:8
Alignment explanation
Indices: 27696668--27696714 Score: 58
Period size: 8 Copynumber: 5.4 Consensus size: 8
27696658 ATAATTTATA
27696668 AAATATTTT
1 AAAT-TTTT
27696677 AATATTTTTT
1 AA-A-TTTTT
27696687 AGAATTTTT
1 A-AATTTTT
27696696 AAATTTTT
1 AAATTTTT
27696704 AAATTTTT
1 AAATTTTT
27696712 AAA
1 AAA
27696715 AATTAATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 18 0.51
9 8 0.23
10 7 0.20
11 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
AAATTTTT
Found at i:27711328 original size:24 final size:24
Alignment explanation
Indices: 27711300--27711347 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27711290 TTATTTTATT
27711300 CATTTCTTCATTTTCCCTTACATA
1 CATTTCTTCATTTTCCCTTACATA
27711324 CATTTCTTCATTTTCCCTTACATA
1 CATTTCTTCATTTTCCCTTACATA
27711348 ACAAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (24 bp):
CATTTCTTCATTTTCCCTTACATA
Found at i:27713991 original size:29 final size:29
Alignment explanation
Indices: 27713930--27713993 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
27713920 CAAGTAAAAT
*
27713930 AAAAAAATTTCACTAACCCTATTTCATTC
1 AAAAAAATTTCACGAACCCTATTTCATTC
* *
27713959 -AAAAAATTTGAGGAACCCTATTTCATTC
1 AAAAAAATTTCACGAACCCTATTTCATTC
27713987 AAAAAAA
1 AAAAAAA
27713994 ATTTAGCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAAAATTTCACGAACCCTATTTCATTC
Found at i:27714380 original size:14 final size:13
Alignment explanation
Indices: 27714341--27714382 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27714331 AGCTAACGCT
27714341 ATTTTT-TAATT-
1 ATTTTTATAATTA
*
27714352 GTTTTTATAATTA
1 ATTTTTATAATTA
27714365 ATTTTTATAATCTA
1 ATTTTTATAAT-TA
27714379 ATTT
1 ATTT
27714383 ATGTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 10 0.38
14 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
ATTTTTATAATTA
Found at i:27714882 original size:33 final size:33
Alignment explanation
Indices: 27714819--27714882 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
27714809 AGGGGTTCAA
* * *
27714819 TTGAACTTGAGTTAAATGGTGAGGGTGTTAGGC
1 TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
*
27714852 TTGAACCTGAGTTAGAGGGAGAGAGG-GTTAG
1 TTGAACCTGAGTTAAAGGGAGAG-GGTGTTAG
27714883 TGGTCCTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.28
Consensus pattern (33 bp):
TTGAACCTGAGTTAAAGGGAGAGGGTGTTAGGC
Found at i:27715058 original size:3 final size:3
Alignment explanation
Indices: 27715050--27715074 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27715040 TGGGTTAGTA
27715050 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
27715075 GATAGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:27721284 original size:21 final size:21
Alignment explanation
Indices: 27721245--27721286 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27721235 AGGGGAACTC
27721245 AATATTTCAATAATTTTAAGTA
1 AATATTTCAAT-ATTTTAAGTA
27721267 AATATTTTCAAT-TTTTAAGT
1 AATA-TTTCAATATTTTAAGT
27721287 GAACACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
AATATTTCAATATTTTAAGTA
Found at i:27722944 original size:27 final size:27
Alignment explanation
Indices: 27722914--27723019 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
27722904 TTCTATTTTG
27722914 TAGATCGCAACAAAGGCTTTCATCTCT
1 TAGATCGCAACAAAGGCTTTCATCTCT
* * *
27722941 TAGATCACCAA-GAAGGCTTTCATTTCT
1 TAGATC-GCAACAAAGGCTTTCATCTCT
*
27722968 TAGATCGTC-ACAAAGTCTTTCATCTCT
1 TAGATCG-CAACAAAGGCTTTCATCTCT
* * * *
27722995 TAGGTCGCCACAAAGACTTTTATCT
1 TAGATCGCAACAAAGGCTTTCATCT
27723020 TTCTGGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 60 0.92
28 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (27 bp):
TAGATCGCAACAAAGGCTTTCATCTCT
Found at i:27724234 original size:43 final size:43
Alignment explanation
Indices: 27724180--27724299 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 43
27724170 ATAATAAGAG
*
27724180 GAACATATAATAAATCAATACATATATAGAAT-ATAAT-TA-TGAT
1 GAACATGTAATAAATCAATA-ATATAT--AATCATAATATATTGAT
*
27724223 GAACATGTAATAAATCAAT-ATATATAATCATTATATATTGAT
1 GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
27724265 GAACATGTAATAAATCAAT-ATATATAATCATAATA
1 GAACATGTAATAAATCAATAATATATAATCATAATA
27724300 AGGGGGAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 8 0.11
42 38 0.54
43 18 0.25
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (43 bp):
GAACATGTAATAAATCAATAATATATAATCATAATATATTGAT
Found at i:27734682 original size:8 final size:8
Alignment explanation
Indices: 27734669--27734706 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
27734659 TATATTGTAG
27734669 AATATATA
1 AATATATA
27734677 AATATATA
1 AATATATA
*
27734685 AATAT-GA
1 AATATATA
27734692 AATATA-A
1 AATATATA
27734699 AATATATA
1 AATATATA
27734707 CAGAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATATA
Found at i:27734738 original size:22 final size:22
Alignment explanation
Indices: 27734676--27734741 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
27734666 TAGAATATAT
* * * *
27734676 AAATATATAAATATGAAATATA
1 AAATATATACAGAAGAAAAATA
27734698 AAATATATACAGAAGAAAAATA
1 AAATATATACAGAAGAAAAATA
27734720 AAATATATACAGAAGAAAAATA
1 AAATATATACAGAAGAAAAATA
27734742 TGGATTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (22 bp):
AAATATATACAGAAGAAAAATA
Found at i:27734843 original size:24 final size:26
Alignment explanation
Indices: 27734800--27734860 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
27734790 GTATGAAAAT
27734800 ATGTGTATATATGTACATAAATTA-AA
1 ATGTGTATATA-GTACATAAATTATAA
*
27734826 ATGTGTATATA-TATATAAATTATAA
1 ATGTGTATATAGTACATAAATTATAA
*
27734851 A-GTATATATA
1 ATGTGTATATA
27734861 AAAAAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 18 0.56
25 3 0.09
26 11 0.34
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
ATGTGTATATAGTACATAAATTATAA
Found at i:27737477 original size:131 final size:131
Alignment explanation
Indices: 27737023--27737465 Score: 593
Period size: 131 Copynumber: 3.4 Consensus size: 131
27737013 GGAAGACAAT
* * * * *
27737023 ATCTACAATCTTCGACCTACTTCACTACTGCTCAGGGAGATAAGG-CTAGTGGCTCAAATCTACT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCT
* * * * * * *
27737087 TCTTACTATATTGGGAAGATAAGATTCGCAATCTTCGATCTGCTCCACTACTGTTTCGGGATATA
65 TCCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATA
27737152 AG
130 AG
* * * *
27737154 ATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGAACTGGTGGCTTAAATTTGTTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
*
27737219 CCTACTATCTCGGAAAGATAAGATTCG-CAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
66 CCTACTATCTCGGAAAGATAAGATTCGCCA-TCTTCGATCTGCTCCACTACTGTTTAGGGAGATA
27737283 AG
130 AG
27737285 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
* ** * * * * *
27737350 CCTACTATCTCGGGATTATAAGATTCGCCATGTTCGATCTGCTTCACTACTGTTTAGAGAGACAG
66 CCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
27737415 G
131 G
* * * *
27737416 ATCTATAATCTCCAACCTACTCCACTACTGTTCAAGGAGATAGGACTGGT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGT
27737466 TTCACCAATC
Statistics
Matches: 275, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
130 3 0.01
131 270 0.98
132 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT
CCTACTATCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA
G
Found at i:27737760 original size:24 final size:24
Alignment explanation
Indices: 27737728--27737782 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
27737718 CGGATTGCCC
27737728 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
27737752 CCACTGTAATCTTTAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
27737776 CCACTGT
1 CCACTGT
27737783 CATTTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:27738659 original size:43 final size:42
Alignment explanation
Indices: 27738593--27738691 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
27738583 CCCTAATCTA
** * *
27738593 ATCAAAATTTGAGTTGCTCTGATCACCTCATGCCCCATTTTG
1 ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
* *
27738635 ATCCAAAATTTGAGCCGCTTTGATCACCTCATATCCAATTTTG
1 AT-CAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
*
27738678 GTCAAAATTTGAGC
1 ATCAAAATTTGAGC
27738692 TGCCCTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 14 0.29
43 35 0.71
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (42 bp):
ATCAAAATTTGAGCCGCTCTGATCACCTCATACCCAATTTTG
Found at i:27738783 original size:11 final size:11
Alignment explanation
Indices: 27738767--27738835 Score: 74
Period size: 10 Copynumber: 6.5 Consensus size: 11
27738757 TTGGCCTCTG
27738767 CTTTTCTTTTT
1 CTTTTCTTTTT
27738778 CTTTTC-TTTT
1 CTTTTCTTTTT
27738788 CTTCTTCTTTCTT
1 CTT-TTCTTT-TT
27738801 -TTTTCTTTTT
1 CTTTTCTTTTT
*
27738811 CCTTT-TTTTT
1 CTTTTCTTTTT
27738821 CTTTT-TTTTT
1 CTTTTCTTTTT
*
27738831 GTTTT
1 CTTTT
27738836 TTTAAACAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
10 27 0.53
11 18 0.35
12 4 0.08
13 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.81
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:27738805 original size:33 final size:33
Alignment explanation
Indices: 27738768--27738837 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
27738758 TGGCCTCTGC
27738768 TTTTCTTTTT-CTTTTCTTTTCTTCTTCTTTCTT
1 TTTTCTTTTTCCTTTT-TTTTCTTCTTCTTTCTT
* * *
27738801 TTTTCTTTTTCCTTTTTTTTCTTTTTTTTTGTT
1 TTTTCTTTTTCCTTTTTTTTCTTCTTCTTTCTT
27738834 TTTT
1 TTTT
27738838 TAAACAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (33 bp):
TTTTCTTTTTCCTTTTTTTTCTTCTTCTTTCTT
Found at i:27738836 original size:16 final size:16
Alignment explanation
Indices: 27738768--27738836 Score: 86
Period size: 16 Copynumber: 4.2 Consensus size: 16
27738758 TGGCCTCTGC
*
27738768 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTT
*
27738784 TTTTCTTCTTCTTTCTT
1 TTTTCTTTTTCTTT-TT
*
27738801 TTTTCTTTTTCCTTTT
1 TTTTCTTTTTCTTTTT
27738817 TTTTCTTTTT-TTTTGT
1 TTTTCTTTTTCTTTT-T
27738833 TTTT
1 TTTT
27738837 TTAAACAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 3 0.07
16 30 0.65
17 13 0.28
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTT
Found at i:27743575 original size:20 final size:24
Alignment explanation
Indices: 27743530--27743580 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 24
27743520 TATTATGTAT
27743530 ATATATATATTGTAGAATATATAA
1 ATATATATATTGTAGAATATATAA
27743554 ATATATATA-TG-A-AATATA-AA
1 ATATATATATTGTAGAATATATAA
27743574 ATATATA
1 ATATATA
27743581 CATAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 1 0.04
23 2 0.07
24 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
ATATATATATTGTAGAATATATAA
Found at i:27743684 original size:26 final size:27
Alignment explanation
Indices: 27743652--27743714 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
27743642 GTATGAAAAT
*
27743652 ATGTGTATATATGTACATAAATTA-AA
1 ATGTGTATATATATACATAAATTATAA
* *
27743678 ATGTGTATATGTATATATAAATTATAA
1 ATGTGTATATATATACATAAATTATAA
*
27743705 A-GTATATATA
1 ATGTGTATATA
27743715 AAAAAAGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (27 bp):
ATGTGTATATATATACATAAATTATAA
Found at i:27743800 original size:3 final size:3
Alignment explanation
Indices: 27743786--27743838 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
27743776 GGTATAAATG
27743786 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27743832 AAT AAT A
1 AAT AAT A
27743839 GTAAAAGAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27744584 original size:5 final size:5
Alignment explanation
Indices: 27744574--27744611 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
27744564 AAAAAAATCG
* *
27744574 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAC AAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
27744612 AACGGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:27744591 original size:14 final size:14
Alignment explanation
Indices: 27744574--27744600 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27744564 AAAAAAATCG
27744574 AAAATAAAATAAAT
1 AAAATAAAATAAAT
27744588 AAAATAAAATAAA
1 AAAATAAAATAAA
27744601 ACAAGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:27746877 original size:25 final size:25
Alignment explanation
Indices: 27746841--27746888 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27746831 TAAATGCGAA
27746841 AGGCAAAATGTGTTCAACTGGTTGT
1 AGGCAAAATGTGTTCAACTGGTTGT
* * *
27746866 AGGCAAAGTGTGTTTAATTGGTT
1 AGGCAAAATGTGTTCAACTGGTT
27746889 ATAGCCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (25 bp):
AGGCAAAATGTGTTCAACTGGTTGT
Found at i:27746963 original size:13 final size:13
Alignment explanation
Indices: 27746945--27746989 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
27746935 CTAGATTTTT
27746945 TTAAATATTATCA
1 TTAAATATTATCA
*
27746958 TTAAATAAT-TCA
1 TTAAATATTATCA
27746970 --AAATATTATCA
1 TTAAATATTATCA
27746981 TTAAATATT
1 TTAAATATT
27746990 TCAAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 3 0.11
13 15 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATATTATCA
Found at i:27746977 original size:23 final size:23
Alignment explanation
Indices: 27746947--27746996 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
27746937 AGATTTTTTT
27746947 AAATATTATCATTAAATAATTCA
1 AAATATTATCATTAAATAATTCA
*
27746970 AAATATTATCATTAAATATTTCA
1 AAATATTATCATTAAATAATTCA
27746993 AAAT
1 AAAT
27746997 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCATTAAATAATTCA
Found at i:27759397 original size:21 final size:21
Alignment explanation
Indices: 27759373--27759412 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27759363 TCCTAAGATG
*
27759373 TGAATTGGATTAAATTGAGTA
1 TGAATTAGATTAAATTGAGTA
*
27759394 TGAATTATATTAAATTGAG
1 TGAATTAGATTAAATTGAG
27759413 CTAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
TGAATTAGATTAAATTGAGTA
Found at i:27760005 original size:74 final size:75
Alignment explanation
Indices: 27759874--27760047 Score: 171
Period size: 74 Copynumber: 2.4 Consensus size: 75
27759864 AGTGTCCGTC
* * * * * * *
27759874 ATATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCCTGATATGGCTTGCTTGA
1 ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
27759939 ACTTCCCAAT
66 ACTTCCCAAT
* *
27759949 ATATGGCTATTCG-GAGTTTCCCGATTAATA-GCTCTTCG-GAGCTACCCGTTATTGGCTCGCAT
1 ATATGGCTATTCGTGAGCTTCCCGATTAA-AGGCTCTTCGTGAGCTACCCGATA-TGGCTCGCAT
* *
27760011 GAGCTTCCTAAT
64 GAACTTCCCAAT
* *
27760023 -TATGGCTCTT-ATGAGCTTCCC-ATTA
1 ATATGGCTATTCGTGAGCTTCCCGATTA
27760048 TACAGCCCCG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
72 4 0.05
73 27 0.33
74 39 0.48
75 12 0.15
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (75 bp):
ATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATGA
ACTTCCCAAT
Found at i:27764932 original size:15 final size:15
Alignment explanation
Indices: 27764912--27764940 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27764902 GTGAAATAAA
27764912 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
27764927 CTGAAATAATAAAA
1 CTGAAATAATAAAA
27764941 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:27765808 original size:25 final size:25
Alignment explanation
Indices: 27765755--27765808 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
27765745 TTTTTTAAAA
* *
27765755 TTAAAAAAAAATTTTCTATATTTTC
1 TTAAAAAAAAAGTTTCTATATATTC
27765780 TTAAAAAATAAAGTTT-TATATCATT-
1 TTAAAAAA-AAAGTTTCTATAT-ATTC
27765805 TTAA
1 TTAA
27765809 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (25 bp):
TTAAAAAAAAAGTTTCTATATATTC
Found at i:27766434 original size:22 final size:18
Alignment explanation
Indices: 27766390--27766431 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
27766380 AATTTTAGGT
27766390 CAATTATACATACACCAA
1 CAATTATACATACACCAA
27766408 CAATTATACATACACCAA
1 CAATTATACATACACCAA
27766426 CAATTA
1 CAATTA
27766432 ATTTTAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:27766458 original size:51 final size:51
Alignment explanation
Indices: 27766364--27766464 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
27766354 CTTGAAGTAC
* * * * *
27766364 ACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
*
27766415 ACATACACCAACAATTAATTTTAGGGT-AAATAAAAATAAACCAAGAATTA
1 ACATACACCAACAATTAATTTTA-GGTCAAATAAAAATAAACCAACAATTA
27766465 ATTTTAGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (51 bp):
ACATACACCAACAATTAATTTTAGGTCAAATAAAAATAAACCAACAATTAT
Found at i:27766510 original size:33 final size:33
Alignment explanation
Indices: 27766408--27766517 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
27766398 CATACACCAA
27766408 CAATTATACATACACCAACAATTAATTTTAGGGT
1 CAATTATACATACACCAACAATTAATTTTA-GGT
* * * * *
27766442 -AAATAAAAATAAACCAAGAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
27766474 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
27766507 CAATTATACAT
1 CAATTATACAT
27766518 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 3 0.05
33 62 0.95
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:27769743 original size:120 final size:120
Alignment explanation
Indices: 27769546--27769928 Score: 739
Period size: 120 Copynumber: 3.2 Consensus size: 120
27769536 TTTTCAAGTT
*
27769546 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
27769611 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
27769666 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
27769731 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATTTTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
27769786 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
27769851 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
27769906 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
27769929 TAAATATGAT
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 259 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:27769749 original size:66 final size:66
Alignment explanation
Indices: 27769674--27769871 Score: 208
Period size: 66 Copynumber: 3.2 Consensus size: 66
27769664 AAATATATTT
27769674 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
27769739 G
66 G
* * * * *
27769740 AATATTAATTAT-TAAGAATTT-TA--TTA-A--AT--TATATT-T--TTTAATTAAAAT-ATAT
1 AATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATAT
**
27769792 -TT
64 AAG
27769794 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
27769859 G
66 G
*
27769860 AATATTAATTAT
1 AATAATAATTAT
27769872 TAAGAATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 12 0.12
57 1 0.01
58 1 0.01
59 8 0.08
61 8 0.08
62 1 0.01
63 1 0.01
64 12 0.12
65 5 0.05
66 24 0.24
67 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (66 bp):
AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
G
Found at i:27769778 original size:17 final size:18
Alignment explanation
Indices: 27769758--27769793 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27769748 TTATTAAGAA
*
27769758 TTTT-ATTAAATTATATT
1 TTTTAATTAAAATATATT
27769775 TTTTAATTAAAATATATT
1 TTTTAATTAAAATATATT
27769793 T
1 T
27769794 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATTAAAATATATT
Found at i:27769905 original size:18 final size:17
Alignment explanation
Indices: 27769877--27769911 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27769867 ATTATTAAGA
*
27769877 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27769894 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27769912 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27770141 original size:44 final size:45
Alignment explanation
Indices: 27770076--27770166 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27770066 ACCTCTATTC
* * *
27770076 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27770120 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27770165 CA
1 CA
27770167 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27770181 original size:17 final size:16
Alignment explanation
Indices: 27770147--27770215 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
27770137 GATTAGCTAT
27770147 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27770163 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
27770180 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
27770196 TACGCCTCTAATCTAA
1 TACACCTCTAATCCAA
27770212 TACA
1 TACA
27770216 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27771817 original size:3 final size:3
Alignment explanation
Indices: 27771809--27771838 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
27771799 TATAGCTACC
*
27771809 AGA AGA AGA AGA AGA AGA AGA AGA TGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
27771839 TGTAAGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AGA
Done.