Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1111368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:586964 original size:21 final size:21
Alignment explanation
Indices: 586924--586964 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
586914 ACTGTAGACC
**
586924 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
586945 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
586965 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:587220 original size:97 final size:97
Alignment explanation
Indices: 587107--587295 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 97
587097 TTCTCTTTTT
* * * *
587107 ATTATTAGTAGCACCACCATCACAAAGACGTCAGACATGCTAAATCATTATTAATAGTAGCACCA
1 ATTAATAGTAGCACCACCATCACAAAGACGTCAAACATGCTAAATCATCATTAATAGTAACACCA
* *
587172 CTGTCACAAAGACGTCAGACGTGCTAATTATC
66 CCGTCACAAAGACGTCAGACATGCTAATTATC
*
587204 ATTAATAGTAGCACCACCGTCACAAAGACGTCAAACATGCTAAATCATCATTAATAGTAACACCA
1 ATTAATAGTAGCACCACCATCACAAAGACGTCAAACATGCTAAATCATCATTAATAGTAACACCA
* *
587269 CCGTCATAAAGACGTTAGACATGCTAA
66 CCGTCACAAAGACGTCAGACATGCTAA
587296 ATGCTACATT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (97 bp):
ATTAATAGTAGCACCACCATCACAAAGACGTCAAACATGCTAAATCATCATTAATAGTAACACCA
CCGTCACAAAGACGTCAGACATGCTAATTATC
Found at i:587227 original size:48 final size:49
Alignment explanation
Indices: 587107--587297 Score: 285
Period size: 49 Copynumber: 3.9 Consensus size: 49
587097 TTCTCTTTTT
* * *
587107 ATTATTAGTAGCACCACCATCACAAAGACGTCAGACATGCTAAATCATT
1 ATTAATAGTAGCACCACCGTCACAAAGACGTCAGACATGCTAAATCATC
* * *
587156 ATTAATAGTAGCACCACTGTCACAAAGACGTCAGACGTGCT-AATTATC
1 ATTAATAGTAGCACCACCGTCACAAAGACGTCAGACATGCTAAATCATC
*
587204 ATTAATAGTAGCACCACCGTCACAAAGACGTCAAACATGCTAAATCATC
1 ATTAATAGTAGCACCACCGTCACAAAGACGTCAGACATGCTAAATCATC
* * *
587253 ATTAATAGTAACACCACCGTCATAAAGACGTTAGACATGCTAAAT
1 ATTAATAGTAGCACCACCGTCACAAAGACGTCAGACATGCTAAAT
587298 GCTACATTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
48 43 0.34
49 84 0.66
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (49 bp):
ATTAATAGTAGCACCACCGTCACAAAGACGTCAGACATGCTAAATCATC
Found at i:592504 original size:5 final size:5
Alignment explanation
Indices: 592494--592520 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
592484 TACCAATGAT
592494 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
592521 TTAGGTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:592768 original size:3 final size:3
Alignment explanation
Indices: 592760--592785 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
592750 TTTTCTATTC
592760 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
592786 ATTCACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:598933 original size:31 final size:31
Alignment explanation
Indices: 598836--598936 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 31
598826 AATTTGACCA
* * *
598836 TATTGCAAACGTACTAAATGTGGAAGGACTG
1 TATTGCAAACGGACTAAATGTGGGAGGAATG
* * * * **
598867 TATTGCAAACGGTCGGT-TACGTCGG-GGAACA
1 TATTGCAAACGGAC--TAAATGTGGGAGGAATG
*
598898 TATTGCAAACGGACTAAATGTGGGAGGATTG
1 TATTGCAAACGGACTAAATGTGGGAGGAATG
598929 TATTGCAA
1 TATTGCAA
598937 TTTTTAAAAG
Statistics
Matches: 50, Mismatches: 16, Indels: 8
0.68 0.22 0.11
Matches are distributed among these distances:
29 1 0.02
30 5 0.10
31 39 0.78
32 4 0.08
33 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.26
Consensus pattern (31 bp):
TATTGCAAACGGACTAAATGTGGGAGGAATG
Found at i:603927 original size:58 final size:59
Alignment explanation
Indices: 603844--604026 Score: 237
Period size: 59 Copynumber: 3.1 Consensus size: 59
603834 ATGACACTTT
603844 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
* * * *** * * * *
603903 GTGTGCT-AAATGATAAGGAAATCATATTAAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
603962 -TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
604020 GTGTGCT
1 GTGTGCT
604027 TGTAACACCC
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
58 46 0.46
59 53 0.54
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
Found at i:604703 original size:31 final size:31
Alignment explanation
Indices: 604665--604820 Score: 244
Period size: 31 Copynumber: 5.0 Consensus size: 31
604655 CCCGAAGGAC
* *
604665 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
604696 CAGTCCATATGTCCCGAATAACA-ATGGTAAA
1 CAGTCCATATGTCCCGAAGAACATA-GGTAAA
*
604727 CAGTCCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
604758 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
604789 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
604820 C
1 C
604821 CCTCGACCCT
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
30 1 0.01
31 113 0.97
32 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:605692 original size:23 final size:22
Alignment explanation
Indices: 605626--605690 Score: 103
Period size: 23 Copynumber: 2.9 Consensus size: 22
605616 TAACAGTGAA
605626 TAGTGGGGGAATCGATTCCCTG
1 TAGTGGGGGAATCGATTCCCTG
605648 TAGCTGGGGGAATCGATTCCCTG
1 TAG-TGGGGGAATCGATTCCCTG
* *
605671 TAGTAGGGGAATCGGTTCCC
1 TAGTGGGGGAATCGATTCCC
605691 CTTTTGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 18 0.45
23 22 0.55
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.26
Consensus pattern (22 bp):
TAGTGGGGGAATCGATTCCCTG
Found at i:606338 original size:36 final size:36
Alignment explanation
Indices: 606291--606404 Score: 165
Period size: 36 Copynumber: 3.0 Consensus size: 36
606281 GTAGTGCTAC
*
606291 ACATAAGGTCGTGTCCACCATATACACCGAGGTATT
1 ACATAAGGTCGTGCCCACCATATACACCGAGGTATT
*
606327 ACATAAGGTCGTGCCCACCATATACACCGAAGTGATT
1 ACATAAGGTCGTGCCCACCATATACACCGAGGT-ATT
606364 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
1 --ACATAAGGTCGTGCCCACCATATACACCG-AG-GTATT
606404 A
1 A
606405 TAAACCTGCA
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
36 31 0.44
37 3 0.04
38 1 0.01
39 29 0.41
40 4 0.06
41 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (36 bp):
ACATAAGGTCGTGCCCACCATATACACCGAGGTATT
Found at i:606381 original size:39 final size:39
Alignment explanation
Indices: 606288--606404 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
606278 ACCGTAGTGC
* *
606288 TACACATAAGGTCGTGTCCACCATATACACCGAGGT-AT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGAT
606326 T--ACATAAGGTCGTGCCCACCATATACACCGAAGTGAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGAT
606363 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTG-AT
606403 TA
1 TA
606405 TAAACCTGCA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
36 31 0.42
37 3 0.04
38 1 0.01
39 34 0.47
40 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGAT
Found at i:609175 original size:75 final size:75
Alignment explanation
Indices: 609024--609233 Score: 251
Period size: 75 Copynumber: 2.8 Consensus size: 75
609014 CAAAGCCAAA
* * * * **
609024 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATG
1 AATTCCAGAATGCTCGGAGGGAACCGATT---CCCCCATAGGAGGAACCGATTCCCCCCTAAACA
609089 GTTTGGCTCCGAG
63 GTTTGGCTCCGAG
* *
609102 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
609167 TTGTTCCGAG
66 TGGCTCCGAG
* * * *
609177 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
609234 GTTCAACGGT
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
75 85 0.73
76 6 0.05
78 25 0.22
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:618070 original size:75 final size:75
Alignment explanation
Indices: 617885--618090 Score: 245
Period size: 74 Copynumber: 2.7 Consensus size: 75
617875 CAAAGCCAAA
* * * * **
617885 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
*
617950 TTTGGCTCTGAG
64 TTTGGCTCCGAG
* * *
617962 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
618026 TTGTTCCGAG
66 TGGCTCCGAG
* * *
618036 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
618091 CTGTTCAACG
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
74 60 0.54
75 27 0.24
76 1 0.01
77 23 0.21
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:622024 original size:40 final size:40
Alignment explanation
Indices: 621969--622090 Score: 244
Period size: 40 Copynumber: 3.0 Consensus size: 40
621959 ATCGTAGTGC
621969 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
622009 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
622049 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
622089 TA
1 TA
622091 TAAACCTGCA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:623541 original size:31 final size:31
Alignment explanation
Indices: 623503--623627 Score: 216
Period size: 31 Copynumber: 4.0 Consensus size: 31
623493 CCCGAATGAC
* *
623503 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
623534 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
623565 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
623596 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
623627 C
1 C
623628 CCTCGACCCT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 90 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:624387 original size:64 final size:64
Alignment explanation
Indices: 624251--624391 Score: 178
Period size: 64 Copynumber: 2.2 Consensus size: 64
624241 TATTATTGCT
* *
624251 GAGATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCACTATTAAT
1 GAGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCACTATTAAA
* ** * * *
624315 GGGATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCTATGTATTTA-TTTTAAA
1 GAGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCACTATTAAA
624379 -AGAGTGCATCGAT
1 GAGA-TGCATCGAT
624392 ACACCTTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.03
64 61 0.92
65 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (64 bp):
GAGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCACTATTAAA
Found at i:624938 original size:3 final size:3
Alignment explanation
Indices: 624930--624979 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
624920 TCTCGTACAT
*
624930 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
624978 GA
1 GA
624980 GAATATCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:627627 original size:31 final size:31
Alignment explanation
Indices: 627592--627732 Score: 264
Period size: 31 Copynumber: 4.5 Consensus size: 31
627582 CATAGATTCT
*
627592 GAAGAACCTAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
627623 GAAGAACATAGGTAAACAATCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
627654 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
627685 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
627716 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
627733 CCTCGACCCT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:629092 original size:3 final size:3
Alignment explanation
Indices: 629084--629118 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
629074 TCTCGTACAT
*
629084 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
629119 GAATATCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:629722 original size:17 final size:18
Alignment explanation
Indices: 629697--629730 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
629687 ATTGTAGTAT
629697 ATTCATTGGA-ATTAAAG
1 ATTCATTGGAGATTAAAG
*
629714 ATTCCTTGGAGATTAAA
1 ATTCATTGGAGATTAAA
629731 TATCAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
ATTCATTGGAGATTAAAG
Found at i:631757 original size:2 final size:2
Alignment explanation
Indices: 631750--631811 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
631740 TACTAACCGG
* * * * * *
631750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AC AC AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
631792 AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
631812 CTCACTGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (2 bp):
AT
Found at i:647388 original size:20 final size:20
Alignment explanation
Indices: 647360--647407 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
647350 TAGTGTTTTT
*
647360 CATAATTTAAA-AGCTTTAAA
1 CATATTTTAAACA-CTTTAAA
647380 CATATTTTAAACACTTTAAA
1 CATATTTTAAACACTTTAAA
*
647400 CGTATTTT
1 CATATTTT
647408 TATTAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (20 bp):
CATATTTTAAACACTTTAAA
Found at i:647634 original size:20 final size:20
Alignment explanation
Indices: 647609--647651 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
647599 CAATACGCGT
* *
647609 TTTGAAGCGCATTTTCACAA
1 TTTGAAGAGAATTTTCACAA
*
647629 TTTGAAGATAATTTTCACAA
1 TTTGAAGAGAATTTTCACAA
647649 TTT
1 TTT
647652 CAAGTTAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTGAAGAGAATTTTCACAA
Found at i:649688 original size:30 final size:30
Alignment explanation
Indices: 649648--649721 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
649638 TTGAAAAATC
*
649648 ACAAATTGGTCACTAACGTTATCATTTGTT
1 ACAAAATGGTCACTAACGTTATCATTTGTT
* *
649678 ATAAAATGGTCACTAACGTTATCGTTTGTT
1 ACAAAATGGTCACTAACGTTATCATTTGTT
*
649708 ACAAAAAGGTCACT
1 ACAAAATGGTCACT
649722 CGACGTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (30 bp):
ACAAAATGGTCACTAACGTTATCATTTGTT
Found at i:657743 original size:44 final size:44
Alignment explanation
Indices: 657693--657833 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
657683 ATTTTATGGC
*
657693 ATTGAAAAAAATTAGGAGTTTAAATTATAAAGGTAAAAAGTTAG
1 ATTGAAAAAAATTAGGAGTTTCAATTATAAAGGTAAAAAGTTAG
* * *
657737 ATTG-AAAAAATTAGGGGTCTCAATTATAAAGGTAAAAAG-TGG
1 ATTGAAAAAAATTAGGAGTTTCAATTATAAAGGTAAAAAGTTAG
* * * * * * *
657779 AACTAAAAAAAATTA-AAGGCTTCAATTATAAATGTAAAATGTGAG
1 -ATTGAAAAAAATTAGGA-GTTTCAATTATAAAGGTAAAAAGTTAG
657824 ATTGAAAAAA
1 ATTGAAAAAA
657834 GTTAAGGGAT
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.03
43 34 0.44
44 40 0.52
45 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.18, T:0.27
Consensus pattern (44 bp):
ATTGAAAAAAATTAGGAGTTTCAATTATAAAGGTAAAAAGTTAG
Found at i:660699 original size:44 final size:44
Alignment explanation
Indices: 660451--660702 Score: 214
Period size: 43 Copynumber: 5.8 Consensus size: 44
660441 GATACAAGAC
* *
660451 GCCTCATTTATAAAGGTAGAAAATGAGATTAAAAAAATTAG-GG
1 GCCTCAATTATAAAGGTAGAAAATGAGATTAAAAAAATTAGAGA
* ** *
660494 GCTTCACCTATAAAGGTAGAAAGTGAGATTAAAAAAATTAGAG-
1 GCCTCAATTATAAAGGTAGAAAATGAGATTAAAAAAATTAGAGA
* * * *
660537 GCCTCAATTATAAAGGTAGAAAGTTAGATTATAAAAAATTGGGGA
1 GCCTCAATTATAAAGGTAGAAAATGAGATTA-AAAAAATTAGAGA
* * *
660582 -CCTTAATTGT-AAGGTAAAAAAT-ATGATT-AAAAAATTAGA-A
1 GCCTCAATTATAAAGGTAGAAAATGA-GATTAAAAAAATTAGAGA
* * * * * * * *
660622 GCTTCAGTTAGAAAGATAAAAAAATGGGATTAAAAAATTTATAGA
1 GCCTCAATTATAAAGGT-AGAAAATGAGATTAAAAAAATTAGAGA
*
660667 GCCTCAATTATAAAGGTA-AATAATAAGATTAAAAAA
1 GCCTCAATTATAAAGGTAGAA-AATGAGATTAAAAAA
660703 GTTGGGGCCC
Statistics
Matches: 167, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 14 0.08
42 5 0.03
43 91 0.54
44 42 0.25
45 14 0.08
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (44 bp):
GCCTCAATTATAAAGGTAGAAAATGAGATTAAAAAAATTAGAGA
Found at i:683511 original size:16 final size:16
Alignment explanation
Indices: 683490--683535 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
683480 AATATTGAAA
683490 CTTGAACTAAAAAAGG
1 CTTGAACTAAAAAAGG
683506 CTTGAACTAAAAAAGG
1 CTTGAACTAAAAAAGG
683522 CTTGAACTAAAAAA
1 CTTGAACTAAAAAA
683536 AAATTAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (16 bp):
CTTGAACTAAAAAAGG
Found at i:687716 original size:24 final size:24
Alignment explanation
Indices: 687668--687717 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
687658 CAGCTTATAT
* * *
687668 AAATTGCACCAAAGTTCCGCGTAG
1 AAATTGCACCAAAGTGCCACATAG
*
687692 AAATTGTACCAAAGTGCCACATAG
1 AAATTGCACCAAAGTGCCACATAG
687716 AA
1 AA
687718 TGTCCCGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (24 bp):
AAATTGCACCAAAGTGCCACATAG
Found at i:687808 original size:23 final size:23
Alignment explanation
Indices: 687708--687798 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
687698 TACCAAAGTG
*
687708 CCACATAGAA-TGTCCCGAAGAA
1 CCACATAGAATTGTCCCGAAGGA
* *
687730 CCACATAGTATTGTCCCTAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* *
687753 CCACATAGAAATGTCCTGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
***
687776 CCTTGTAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
687799 TCGCGTAGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
22 9 0.16
23 47 0.84
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:688527 original size:21 final size:20
Alignment explanation
Indices: 688493--688532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
688483 GTCAAAGCAA
*
688493 CACTTATAACTCTTATCTCT
1 CACTTATAAATCTTATCTCT
688513 CACTTGATAAATCTTATCTC
1 CACTT-ATAAATCTTATCTC
688533 GTTGACTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.42
Consensus pattern (20 bp):
CACTTATAAATCTTATCTCT
Found at i:691296 original size:21 final size:20
Alignment explanation
Indices: 691262--691301 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
691252 GTCAAAGCAA
*
691262 CACTTATAACTCTTATCTCT
1 CACTTATAAATCTTATCTCT
691282 CACTTGATAAATCTTATCTC
1 CACTT-ATAAATCTTATCTC
691302 GTTGACTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.42
Consensus pattern (20 bp):
CACTTATAAATCTTATCTCT
Found at i:693612 original size:8 final size:8
Alignment explanation
Indices: 693599--693657 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
693589 TATGAGCCAC
693599 TTTGAGAA
1 TTTGAGAA
693607 TTTGAGAA
1 TTTGAGAA
693615 TTTGA-AA
1 TTTGAGAA
* *
693622 GTTTGATAG
1 -TTTGAGAA
* *
693631 TTTCAGAG
1 TTTGAGAA
693639 TTTGAGAA
1 TTTGAGAA
*
693647 TTTAAGAA
1 TTTGAGAA
693655 TTT
1 TTT
693658 AAGAGATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 2 0.05
8 40 0.93
9 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (8 bp):
TTTGAGAA
Found at i:694984 original size:2 final size:2
Alignment explanation
Indices: 694977--695017 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
694967 TCGGATCGTG
694977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
695018 TAAATTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:710984 original size:26 final size:25
Alignment explanation
Indices: 710953--711009 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
710943 GCCAATGACA
*
710953 AAAAAGCAAAGAGAAATAA-ACAAAG
1 AAAAAGCAAAGA-AAAAAACACAAAG
710978 AGAAAAGCAAAGAAAAAAACACAAAG
1 A-AAAAGCAAAGAAAAAAACACAAAG
711004 AAAAAG
1 AAAAAG
711010 AAGACAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.74, C:0.09, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAAGCAAAGAAAAAAACACAAAG
Found at i:710995 original size:12 final size:12
Alignment explanation
Indices: 710952--710995 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
710942 AGCCAATGAC
710952 AAAAAAGCAAAG
1 AAAAAAGCAAAG
*
710964 AGAAATAAACAAAG
1 A-AAA-AAGCAAAG
*
710978 AGAAAAGCAAAG
1 AAAAAAGCAAAG
710990 AAAAAA
1 AAAAAA
710996 ACACAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.50
13 5 0.19
14 8 0.31
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAAGCAAAG
Found at i:710997 original size:24 final size:26
Alignment explanation
Indices: 710954--711007 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
710944 CCAATGACAA
710954 AAAAGCAAAGAGAAATAAACA-AAGAG
1 AAAAGCAAAGAGAAATAAACACAA-AG
710980 AAAAGCAAAGA-AAA-AAACACAAAG
1 AAAAGCAAAGAGAAATAAACACAAAG
711004 AAAA
1 AAAA
711008 AGAAGACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 11 0.41
25 5 0.19
26 11 0.41
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAAGCAAAGAGAAATAAACACAAAG
Found at i:711018 original size:24 final size:25
Alignment explanation
Indices: 710954--711019 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
710944 CCAATGACAA
*
710954 AAAAGCAAAGAGAAATAA-ACAAAGAG
1 AAAAG-AAAGA-AAAAAACACAAAGAG
710980 AAAAGCAAAGAAAAAAACACAAAGA-
1 AAAAG-AAAGAAAAAAACACAAAGAG
*
711005 AAAAG-AAGACAAAAA
1 AAAAGAAAGAAAAAAA
711020 GTACAGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 9 0.24
25 10 0.27
26 18 0.49
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAAGAAAGAAAAAAACACAAAGAG
Found at i:712208 original size:16 final size:16
Alignment explanation
Indices: 712184--712223 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
712174 ATTGAGAAAA
*
712184 ACATACATCAATACAT
1 ACATACATCAACACAT
*
712200 ACATGCATCAACACAT
1 ACATACATCAACACAT
712216 ACATACAT
1 ACATACAT
712224 GTTACATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:712933 original size:103 final size:105
Alignment explanation
Indices: 712603--713020 Score: 511
Period size: 103 Copynumber: 4.0 Consensus size: 105
712593 GCTTGAGATA
* * * **
712603 ATTTCTCTCAAAAACAAACTTT-GTCACGCTTGAGACATTTTTTCTTTGAGATACAAATTTTGAA
1 ATTTCTTTC-AAAACAAA-TTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAA
712667 TTTGATTCACTTGAAACAAAATTAATCTCACTTGAGATTGTT
64 TTTGATTCACTTGAAACAAAATTAATCTCACTTGAGATTGTT
* * *
712709 ATTTCTTTCAAAAACAAATTTCGTCTTGCTTGAGACATTTTATTCTTTGAGATACAACTTTCAAA
1 ATTTCTTTC-AAAACAAATTTCGTCTCGCTTGAGACATTTT-TCCTTTGAGATACAAATTTCAAA
*
712774 TTTGATTCACTTGAAAAAAAATTAATCTCACTTGAGATTGTT
64 TTTGATTCACTTGAAACAAAATTAATCTCACTTGAGATTGTT
* * * * * **
712816 ATTTCTTTCTAAACATATTTCTTCTCGCTCGAGACA-TTTTCCTTTGATATACAAATTTTGAATT
1 ATTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATT
* * *
712880 TGCTTTACTT-TAACAAAATTAATCTCACTTGAGATTGTT
66 TGATTCACTTGAAACAAAATTAATCTCACTTGAGATTGTT
* * * * **
712919 GTTTATTTCAAAACAAATTTCGTCTCACTTGAGACATTTTCCCTCAGA-ATACAAATTTCAAATT
1 ATTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATT
* * * *
712983 TGTTTTACTTAAAACAAAATTAATTTCACTTGAGATTG
66 TGATTCACTTGAAACAAAATTAATCTCACTTGAGATTG
713021 ACAAAATCGA
Statistics
Matches: 272, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
103 79 0.29
104 61 0.22
105 6 0.02
106 56 0.21
107 70 0.26
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (105 bp):
ATTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATT
TGATTCACTTGAAACAAAATTAATCTCACTTGAGATTGTT
Found at i:713540 original size:129 final size:130
Alignment explanation
Indices: 713381--713617 Score: 377
Period size: 129 Copynumber: 1.8 Consensus size: 130
713371 GACATAATCT
* * * * * *
713381 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTGAGACAGTTTCTTTTGAGAAAA
1 ATCTTCGAGTCTATTTCTTTCGAAACAAAATTTTGTCTCTCTTAAGACAGCTTCTTTTGAGAAAA
* *
713446 ATC-TGAGTCTTTTTCTTTGGAAACAAAATTTATCATCTTTGAGTCATTTCTTTTAAAACAAAAG
66 ATCTTGAGTCTGTTTCTTTGGAAACAAAATTTACCATCTTTGAGTCATTTCTTTTAAAACAAAAG
*
713510 ATCTTCGAGTCTATTTCTTTCGAAATAAAATTTTGTCTCTCTTAAGACAGCTTCTTTTGAGAAAA
1 ATCTTCGAGTCTATTTCTTTCGAAACAAAATTTTGTCTCTCTTAAGACAGCTTCTTTTGAGAAAA
*
713575 ATCTTTAGTCTGTTTCTTTGGAAACAAAATTTACCATCTTTGA
66 ATCTTGAGTCTGTTTCTTTGGAAACAAAATTTACCATCTTTGA
713618 CTATGTTTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
129 61 0.63
130 36 0.37
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (130 bp):
ATCTTCGAGTCTATTTCTTTCGAAACAAAATTTTGTCTCTCTTAAGACAGCTTCTTTTGAGAAAA
ATCTTGAGTCTGTTTCTTTGGAAACAAAATTTACCATCTTTGAGTCATTTCTTTTAAAACAAAAG
Found at i:713842 original size:29 final size:28
Alignment explanation
Indices: 713812--713876 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
713802 AGTTTTGTCT
*
713812 TTTTGAAACAAATCTTTGAGTCTGTTTC
1 TTTTGAAACAAATCTTTGAGTCGGTTTC
*
713840 TTTTAAAACAAATCTTTGAGTCGGTTTC
1 TTTTGAAACAAATCTTTGAGTCGGTTTC
*
713868 TCTTGAAAC
1 TTTTGAAAC
713877 CATAATACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (28 bp):
TTTTGAAACAAATCTTTGAGTCGGTTTC
Found at i:714391 original size:134 final size:133
Alignment explanation
Indices: 713905--714380 Score: 575
Period size: 135 Copynumber: 3.6 Consensus size: 133
713895 CTAGCCGTCC
* * * * * *
713905 TCATCACGTAAGAACCGTGTCATCCCCTAACCAGACCTCCTCATCACGTAGGAGCCGCGTTAACC
1 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTG-TCACC
* * * * * *
713970 TTAGATAACCAGTTGTCCTCATCACGTAAGAACCATGTTATCA---CTCCTAAAGATGGCCAGAG
65 TAAGATAACCAGTCGTCCTCATCGCGTAAGAACCGTGTTATCACCCCTCCTAAAGATGGCAAGAA
714032 CTCT
130 CTCT
** * * *
714036 TCATCACGTATGAGTTGTGTCATCCACAGACCATACCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTGTCA--C
* * *
714101 CT-AGATAACCAGTCGTCCTCATCGCGTAAGAATCGAGTTATCACCCTTCCTAAAGATGGCCAAG
64 CTAAGATAACCAGTCGTCCTCATCGCGTAAGAACCGTGTTATCACCCCTCCTAAAGATGG-CAAG
714165 AACTCT
128 AACTCT
* * * *
714171 TCATCATGTACGAGCAGTGTAAT-CCCTCGACCAGACCTACTCATCACGTAGGAGCCGTGTCACC
1 TCATCACGTATGAGCAGTGTCATCCCCT-GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACC
* * *
714235 CATAGATAACCAGTCGTCTTCATCGCGTAGGAACCGTGTTATCACCCCTCCTAAAGATGGCAAGA
65 TA-AGATAACCAGTCGTCCTCATCGCGTAAGAACCGTGTTATCACCCCTCCTAAAGATGGCAAGA
*
714300 ATTCT
129 ACTCT
* *
714305 TAATCACGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACTC
1 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTGTCAC-C
*
714370 TAAGACAACCA
65 TAAGATAACCA
714381 TACCTCTTCA
Statistics
Matches: 292, Mismatches: 42, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
130 2 0.01
131 86 0.29
132 3 0.01
133 2 0.01
134 83 0.28
135 116 0.40
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (133 bp):
TCATCACGTATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCT
AAGATAACCAGTCGTCCTCATCGCGTAAGAACCGTGTTATCACCCCTCCTAAAGATGGCAAGAAC
TCT
Found at i:719296 original size:33 final size:33
Alignment explanation
Indices: 719259--719329 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
719249 AAACGCGGAA
719259 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
1 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
719292 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
1 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
719325 GACGA
1 GACGA
719330 TGATGAGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.37, T:0.17
Consensus pattern (33 bp):
GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
Found at i:719529 original size:33 final size:33
Alignment explanation
Indices: 719492--719562 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
719482 AAACGCGGAA
719492 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
1 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
719525 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
1 GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
719558 GACGA
1 GACGA
719563 TGATGAGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.37, T:0.17
Consensus pattern (33 bp):
GACGAGACTGAGGAGATTGGCGAACCCGTGTAT
Found at i:719627 original size:233 final size:234
Alignment explanation
Indices: 719220--719690 Score: 917
Period size: 233 Copynumber: 2.0 Consensus size: 234
719210 GCCTGCTAGT
719220 CAAAAGGGCAAAATTTTGTTGATTGAGGAAAACGCGGAAGACGAGACTGAGGAGATTGGCGAACC
1 CAAAAGGGCAAAATTTTGTTGATTGAGGAAAACGCGGAAGACGAGACTGAGGAGATTGGCGAACC
719285 CGTGTATGACGAGACTGAGGAGATTGGCGAACCCGTGTATGACGATGATGAGACTGATGATGTGC
66 CGTGTATGACGAGACTGAGGAGATTGGCGAACCCGTGTATGACGATGATGAGACTGATGATGTGC
719350 TGTATGGAGATGGTCATGAGACTCTGGTCGTTCGCAAGAGTCTACTTA-CCAAGGGCGATTCAGG
131 TGTATGGAGATGGTCATGAGACTCTGGTCGTTCGCAAGAGTCTACTTACCCAAGGGCGATTCAGG
719414 GGACGATTGGTTGAGAACCAATATTTTTCACACGACCTG
196 GGACGATTGGTTGAGAACCAATATTTTTCACACGACCTG
719453 CAAAAGGGCAAAATTTTGTTGATTGAGGAAAACGCGGAAGACGAGACTGAGGAGATTGGCGAACC
1 CAAAAGGGCAAAATTTTGTTGATTGAGGAAAACGCGGAAGACGAGACTGAGGAGATTGGCGAACC
719518 CGTGTATGACGAGACTGAGGAGATTGGCGAACCCGTGTATGACGATGATGAGACTGATGATGTGC
66 CGTGTATGACGAGACTGAGGAGATTGGCGAACCCGTGTATGACGATGATGAGACTGATGATGTGC
719583 TGTATGGAGATGGTCATGAGACTCTGGTCGTTCGCAAGAGTCTACTTACTCCCAAGGGCGATTCA
131 TGTATGGAGATGGTCATGAGACTCTGGTCGTTCGCAAGAGTCTACTTA--CCCAAGGGCGATTCA
719648 GGGGACGATTGGTTGAGAACCAATATTTTTCACACGACCTG
194 GGGGACGATTGGTTGAGAACCAATATTTTTCACACGACCTG
719689 CA
1 CA
719691 CAGTTGCAGA
Statistics
Matches: 235, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
233 178 0.76
236 57 0.24
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (234 bp):
CAAAAGGGCAAAATTTTGTTGATTGAGGAAAACGCGGAAGACGAGACTGAGGAGATTGGCGAACC
CGTGTATGACGAGACTGAGGAGATTGGCGAACCCGTGTATGACGATGATGAGACTGATGATGTGC
TGTATGGAGATGGTCATGAGACTCTGGTCGTTCGCAAGAGTCTACTTACCCAAGGGCGATTCAGG
GGACGATTGGTTGAGAACCAATATTTTTCACACGACCTG
Found at i:726600 original size:16 final size:16
Alignment explanation
Indices: 726579--726639 Score: 95
Period size: 16 Copynumber: 3.7 Consensus size: 16
726569 CCGGTCTGAC
726579 CCGACCCGACCATTGA
1 CCGACCCGACCATTGA
726595 CCGACCCGACCATTGA
1 CCGACCCGACCATTGA
*
726611 CCGACCCGACTCGTTGA
1 CCGACCCGAC-CATTGA
726628 CCCGACCCGACC
1 -CCGACCCGACC
726640 GGTGACATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 26 0.62
17 6 0.14
18 10 0.24
ACGTcount: A:0.21, C:0.48, G:0.20, T:0.11
Consensus pattern (16 bp):
CCGACCCGACCATTGA
Found at i:726704 original size:30 final size:30
Alignment explanation
Indices: 726641--726807 Score: 200
Period size: 29 Copynumber: 5.7 Consensus size: 30
726631 GACCCGACCG
* * *
726641 GTGACATTTTGGGAATTATTATG-AAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAAT
*
726670 GTGACATTTTGGGAATTATTTTGAAAAAAT
1 GTGACATTCTGGGAATTATTTTGAAAAAAT
*
726700 GTGACATTCTGGGAATTATTTT-AAAAGA-
1 GTGACATTCTGGGAATTATTTTGAAAAAAT
* *
726728 GTGATATTTTGGGAATTATTTT-AAAAAAT
1 GTGACATTCTGGGAATTATTTTGAAAAAAT
* *
726757 GTGACATTCTCGGAATTATTTTGAAAAAAA
1 GTGACATTCTGGGAATTATTTTGAAAAAAT
* *
726787 GTGATATTCTGGAAATT-TTTT
1 GTGACATTCTGGGAATTATTTT
726808 AATGTGGACT
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 25 0.21
29 50 0.41
30 46 0.38
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (30 bp):
GTGACATTCTGGGAATTATTTTGAAAAAAT
Found at i:726796 original size:87 final size:86
Alignment explanation
Indices: 726641--726809 Score: 248
Period size: 87 Copynumber: 2.0 Consensus size: 86
726631 GACCCGACCG
* * * *
726641 GTGACATTTTGGGAATTATTATGAAAAAGGTGACATTTTGGGAATTATTTTGAAAAAATGTGACA
1 GTGACATTTTGGGAATTATTATAAAAAAGGTGACATTCTCGGAATTATTTTGAAAAAAAGTGACA
*
726706 TTCTGGGAATTATTTTAAAAGA
66 TTCTGGAAATT-TTTTAAAAGA
* * * *
726728 GTGATATTTTGGGAATTATTTTAAAAAATGTGACATTCTCGGAATTATTTTGAAAAAAAGTGATA
1 GTGACATTTTGGGAATTATTATAAAAAAGGTGACATTCTCGGAATTATTTTGAAAAAAAGTGACA
726793 TTCTGGAAATTTTTTAA
66 TTCTGGAAATTTTTTAA
726810 TGTGGACTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 6 0.08
87 67 0.92
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (86 bp):
GTGACATTTTGGGAATTATTATAAAAAAGGTGACATTCTCGGAATTATTTTGAAAAAAAGTGACA
TTCTGGAAATTTTTTAAAAGA
Found at i:733971 original size:29 final size:29
Alignment explanation
Indices: 733918--733973 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
733908 ATTATAATTG
* *
733918 ATCGGCTTGACCGGTCCAAATCGGTCTGA
1 ATCGGCTTAACCGGTCCAAACCGGTCTGA
**
733947 ATCGGCTTAACCGGTCTGAACCGGTCT
1 ATCGGCTTAACCGGTCCAAACCGGTCT
733974 AACCTGACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.25
Consensus pattern (29 bp):
ATCGGCTTAACCGGTCCAAACCGGTCTGA
Found at i:734105 original size:59 final size:57
Alignment explanation
Indices: 733991--734152 Score: 220
Period size: 59 Copynumber: 2.8 Consensus size: 57
733981 CCCGACCCGA
*
733991 TGACATT-TTGGGAATTATTTTTAAAAAGATGACATTTTGAGAATTATTTTGAAAAAATG
1 TGACATTCTT-GGAATTATTTTGAAAAAG-TGACATTTTGAGAATTATTTTGAAAAAA-G
* *
734050 TGACATTCTTGGAATTATTTTGAAAATGTGACATTTTGTGAATTATTTTGAAAAAAG
1 TGACATTCTTGGAATTATTTTGAAAAAGTGACATTTTGAGAATTATTTTGAAAAAAG
*
734107 TGATATTC-TGGAAATTATTTTGAAAAAAGGTGACATTTTGAGAATT
1 TGACATTCTTGG-AATTATTTTG-AAAAA-GTGACATTTTGAGAATT
734153 TTTGAATGTG
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
56 3 0.03
57 18 0.19
58 31 0.33
59 39 0.42
60 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (57 bp):
TGACATTCTTGGAATTATTTTGAAAAAGTGACATTTTGAGAATTATTTTGAAAAAAG
Found at i:734140 original size:87 final size:87
Alignment explanation
Indices: 733991--734152 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 87
733981 CCCGACCCGA
* * *
733991 TGACATTTTGGGAATTATTTTTAAAAAGATGACATTTTGAGAATTATTTTGAAAAAATGTGACAT
1 TGACATTTTGGGAATTATTTTAAAAAAGATGACATTTGGAGAATTATTTTGAAAAAAGGTGACAT
734056 TCTTG-GAATTATTTTGAAAATG
66 T-TTGAGAATTATTTTGAAAATG
* *
734078 TGACATTTTGTGAATTATTTTGAAAAAAG-TGATATTCTGGA-AATTATTTTGAAAAAAGGTGAC
1 TGACATTTTGGGAATTATTTT-AAAAAAGATGACATT-TGGAGAATTATTTTGAAAAAAGGTGAC
734141 ATTTTGAGAATT
64 ATTTTGAGAATT
734153 TTTGAATGTG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
86 3 0.04
87 55 0.82
88 9 0.13
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (87 bp):
TGACATTTTGGGAATTATTTTAAAAAAGATGACATTTGGAGAATTATTTTGAAAAAAGGTGACAT
TTTGAGAATTATTTTGAAAATG
Found at i:734158 original size:28 final size:29
Alignment explanation
Indices: 733991--734152 Score: 188
Period size: 29 Copynumber: 5.5 Consensus size: 29
733981 CCCGACCCGA
* *
733991 TGACATTTTGGGAATTATTTT-TAAAAAGA
1 TGACATTTT-GGAATTATTTTGAAAAAAGG
*
734020 TGACATTTTGAGAATTATTTTGAAAAAATG
1 TGACATTTTG-GAATTATTTTGAAAAAAGG
*
734050 TGACATTCTTGGAATTATTTTG--AAAATG
1 TGACATT-TTGGAATTATTTTGAAAAAAGG
734078 TGACATTTTGTGAATTATTTTGAAAAAA-G
1 TGACATTTTG-GAATTATTTTGAAAAAAGG
* *
734107 TGATATTCTGGAAATTATTTTGAAAAAAGG
1 TGACATTTTGG-AATTATTTTGAAAAAAGG
734137 TGACATTTTGAGAATT
1 TGACATTTTG-GAATT
734153 TTTGAATGTG
Statistics
Matches: 117, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
27 3 0.03
28 26 0.22
29 44 0.38
30 40 0.34
31 4 0.03
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (29 bp):
TGACATTTTGGAATTATTTTGAAAAAAGG
Found at i:735124 original size:32 final size:31
Alignment explanation
Indices: 735088--735172 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
735078 TAGGCCCTGT
735088 GGCCCTAAGATGTGTTCTTAGGTAGGC-CCCA
1 GGCCCTAAGATGT-TTCTTAGGTAGGCTCCCA
* * * * * *
735119 CGGCCCCAAAATCTATCTTGGGTAGGCTCTCA
1 -GGCCCTAAGATGTTTCTTAGGTAGGCTCCCA
735151 GGCCCTAAGATGTTTCCTTAGG
1 GGCCCTAAGATGTTT-CTTAGG
735173 GTAACTCTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
31 22 0.55
32 18 0.45
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (31 bp):
GGCCCTAAGATGTTTCTTAGGTAGGCTCCCA
Found at i:736289 original size:25 final size:26
Alignment explanation
Indices: 736256--736323 Score: 129
Period size: 25 Copynumber: 2.7 Consensus size: 26
736246 TAATTTCTTT
736256 CATTTTTCATTATATATTTTAAAGTC
1 CATTTTTCATTATATATTTTAAAGTC
736282 CA-TTTTCATTATATATTTTAAAGTC
1 CATTTTTCATTATATATTTTAAAGTC
736307 CATTTTTCATTATATAT
1 CATTTTTCATTATATAT
736324 ACTTTTACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.61
26 16 0.39
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (26 bp):
CATTTTTCATTATATATTTTAAAGTC
Found at i:738548 original size:18 final size:18
Alignment explanation
Indices: 738525--738559 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
738515 TCAGCCTATC
738525 CAACCTGATTTTGACCAA
1 CAACCTGATTTTGACCAA
*
738543 CAACCTGTTTTTGACCA
1 CAACCTGATTTTGACCA
738560 GCCTACCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (18 bp):
CAACCTGATTTTGACCAA
Found at i:740599 original size:2 final size:2
Alignment explanation
Indices: 740592--740621 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
740582 AATCCTACAA
740592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
740622 GAGTTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:742904 original size:21 final size:21
Alignment explanation
Indices: 742880--742935 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
742870 ATCAATGGTT
*
742880 AATTTGAAAAATTAAAAGGTC
1 AATTTGAAAAATTAAAAGGCC
*
742901 AATTTGAAAAATTAAATGGCC
1 AATTTGAAAAATTAAAAGGCC
742922 AATTTGAAAAATTA
1 AATTTGAAAAATTA
742936 GTGGGCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.30
Consensus pattern (21 bp):
AATTTGAAAAATTAAAAGGCC
Found at i:744943 original size:23 final size:23
Alignment explanation
Indices: 744881--744966 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
744871 ATATTTATCT
*
744881 CGAAGGACCATATAGGATTGTCC
1 CGAAGGACCATATAGGTTTGTCC
* *
744904 CGAAAGAGACCACATAGTTTTG-CC
1 CG-AAG-GACCATATAGGTTTGTCC
*
744928 ATGAAGGACCATATAGGTTTGTCC
1 -CGAAGGACCATATAGGTTTGTCC
744952 CGAAGGACCATATAG
1 CGAAGGACCATATAG
744967 AACCCTCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 29 0.56
24 10 0.19
25 13 0.25
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (23 bp):
CGAAGGACCATATAGGTTTGTCC
Found at i:751442 original size:22 final size:22
Alignment explanation
Indices: 751398--751459 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
751388 ATTAATATTT
***
751398 TATTTTAAATAATTTACGTTTA
1 TATTTTAAATAATTTATACTTA
*
751420 TATTTTAACTAATTTATACTTA
1 TATTTTAAATAATTTATACTTA
* * *
751442 TATGTTAAGTACTTTATA
1 TATTTTAAATAATTTATA
751460 ATTTTATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (22 bp):
TATTTTAAATAATTTATACTTA
Found at i:752063 original size:23 final size:24
Alignment explanation
Indices: 752037--752097 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
752027 TTTTTTTAAT
*
752037 CATA-TAAGCTAAAAATTGTTTAC
1 CATATTAAGATAAAAATTGTTTAC
752060 CATATTAAGATAAAAATTGTTTAC
1 CATATTAAGATAAAAATTGTTTAC
752084 CATATTAAGATAAA
1 CATATTAAGATAAA
752098 TTAAATAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (24 bp):
CATATTAAGATAAAAATTGTTTAC
Found at i:761295 original size:18 final size:18
Alignment explanation
Indices: 761266--761325 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
761256 TTTGAATATT
761266 TTTAGG-ATTTTATTTTC
1 TTTAGGTATTTTATTTTC
* *
761283 TTTAGGTATTTTAATCTC
1 TTTAGGTATTTTATTTTC
* * *
761301 ATTAAGAATTTTATTTTC
1 TTTAGGTATTTTATTTTC
761319 TTTAGGT
1 TTTAGGT
761326 TTTCTCAAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.58
Consensus pattern (18 bp):
TTTAGGTATTTTATTTTC
Found at i:769112 original size:65 final size:65
Alignment explanation
Indices: 768914--769123 Score: 243
Period size: 65 Copynumber: 3.2 Consensus size: 65
768904 TACACTAAGA
* * * *
768914 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCA-GAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATCCATG-GTGCATCGATGCATGGTT
768977 G
65 G
* * *
768978 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTTAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAATCCATGGTGCATCGATGCATGGT-
769042 T-
64 TG
* * *
769043 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATCCATGGTGCATCGATGCATGG-TT
769107 G
65 G
769108 GTGCATC-AGTGCATCA
1 GTGCATCGA-TGCATCA
769124 CTCTAAAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.02
64 55 0.44
65 65 0.52
66 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATCCATGGTGCATCGATGCATGGTTG
Found at i:776978 original size:28 final size:28
Alignment explanation
Indices: 776945--777002 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
776935 TGCATCGGTA
776945 CACTAAGAGTGAATCGATGCATCAAGTG
1 CACTAAGAGTGAATCGATGCATCAAGTG
* *
776973 CACTAAGAGTGCATCGATTCATCAAGTG
1 CACTAAGAGTGAATCGATGCATCAAGTG
777001 CA
1 CA
777003 TTCGATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (28 bp):
CACTAAGAGTGAATCGATGCATCAAGTG
Found at i:777180 original size:65 final size:64
Alignment explanation
Indices: 776981--777190 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 64
776971 TGCACTAAGA
* * * * *
776981 GTGCATCGATTCATCAAGTGCATTCGATGTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTG
* * *
777045 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTTACTGCATCGATACATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGT-T
777110 -
64 G
* * * ** * *
777110 ATGCATTGATGCATGAAATGCATTCGATG-TTCATTTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCA-TAAAATCCATAGTGCATCGATGCATGG-TT
777174 G
64 G
*
777175 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
777191 CTCTCAAAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
63 4 0.03
64 48 0.41
65 62 0.53
66 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTG
Found at i:782079 original size:20 final size:20
Alignment explanation
Indices: 782054--782096 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
782044 AATAATAGAA
*
782054 GTATCGATACCATGGTAGGG
1 GTATCGATACCAGGGTAGGG
782074 GTATCGATACCAGGGTAGGG
1 GTATCGATACCAGGGTAGGG
782094 GTA
1 GTA
782097 CCAATACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.37, T:0.23
Consensus pattern (20 bp):
GTATCGATACCAGGGTAGGG
Found at i:782103 original size:20 final size:20
Alignment explanation
Indices: 782060--782103 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
782050 AGAAGTATCG
* * *
782060 ATACCATGGTAGGGGTATCG
1 ATACCAGGGTAGGGGTACCA
782080 ATACCAGGGTAGGGGTACCA
1 ATACCAGGGTAGGGGTACCA
782100 ATAC
1 ATAC
782104 TATTAAGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
ATACCAGGGTAGGGGTACCA
Found at i:782734 original size:52 final size:51
Alignment explanation
Indices: 782583--782953 Score: 402
Period size: 52 Copynumber: 7.0 Consensus size: 51
782573 TCAGTTAAAT
* * *
782583 GCCTAACTGTGCATACTGGCATAAAGGTGTCAATAATGCATGTTAGATGAAAG
1 GCCTAACTGTGCAT-TTGGCAGAAAGG-GTCAATAATGCAAGTTAGATGAAAG
* * * * *
782636 GCCTAACTGTGCCTATTGGTAGAAATGTGTCAATAATGTATGTTAGATGAAAG
1 GCCTAACTGTGCAT-TTGGCAGAAA-GGGTCAATAATGCAAGTTAGATGAAAG
*
782689 GCCTAAATGTGCATTTGGCAGAAATGGGTCAATAATGCAAGTTAGATGAAAG
1 GCCTAACTGTGCATTTGGCAGAAA-GGGTCAATAATGCAAGTTAGATGAAAG
* *
782741 GCCTAACTGTGCATTTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAG
1 GCCTAACTGTGCATTTGGCAGAAA-GGGTCAATAATGCAAGTTAGATGAAAG
* * *
782793 ACCTAACTGTGCATTTGGCA-AAAGATGCCAATAATGCAAGTTAGATGAAAG
1 GCCTAACTGTGCATTTGGCAGAAAG-GGTCAATAATGCAAGTTAGATGAAAG
* * * *
782844 GCCTAACTGTGCATATGGCATAAAGGTGTCAATAACGTAAGTTAGATGAAATG
1 GCCTAACTGTGCATTTGGCAGAAAGG-GTCAATAATGCAAGTTAGATGAAA-G
* * *
782897 TTAAATACCTAACTGTGCATTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGAAA
1 ------GCCTAACTGTGCATTTGGCAGAAAGG-GTCAATAATGCAAGTTAGATGAAA
782954 AACAATGTAT
Statistics
Matches: 278, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.00
51 47 0.17
52 127 0.46
53 58 0.21
54 1 0.00
59 44 0.16
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (51 bp):
GCCTAACTGTGCATTTGGCAGAAAGGGTCAATAATGCAAGTTAGATGAAAG
Found at i:782877 original size:103 final size:105
Alignment explanation
Indices: 782523--782953 Score: 492
Period size: 103 Copynumber: 4.0 Consensus size: 105
782513 AAAGTTAAAT
* * *
782523 GCCTAACTGTGCATATTGGCAGAAAAGTGCCATTAATGCAAGTTAGATGATCAGTTAAATGCCTA
1 GCCTAACTGTGCATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGA--A---AGA--CCTA
* * *
782588 ACTGTGCATACTGGCATAAAGGTGTCAATAATGCATGTTAGATGAAAG
59 ACTGTGCAT-TTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* * * * * * *
782636 GCCTAACTGTGCCTATTGGTAGAAATGTGTCAATAATGTATGTTAGATGAAAGGCCTAAATGTGC
1 GCCTAACTGTGCATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGACCTAACTGTGC
782701 ATTTGGCAGAAATGG-GTCAATAATGCAAGTTAGATGAAAG
66 ATTTGGCAGAAA-GGTGTCAATAATGCAAGTTAGATGAAAG
782741 GCCTAACTGTGCAT-TTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGACCTAACTGTGC
1 GCCTAACTGTGCATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGACCTAACTGTGC
* *
782805 ATTTGGCA-AAAGATGCCAATAATGCAAGTTAGATGAAAG
66 ATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* * * * *
782844 GCCTAACTGTGCATA-TGGCATAAAGGTGTCAATAACGTAAGTTAGATGAAATGTTAAATACCTA
1 GCCTAACTGTGCATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAA-G------ACCTA
* *
782908 ACTGTGCATTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGAAA
59 ACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAA
782954 AACAATGTAT
Statistics
Matches: 276, Mismatches: 31, Indels: 24
0.83 0.09 0.07
Matches are distributed among these distances:
102 1 0.00
103 72 0.26
104 53 0.19
105 45 0.16
106 14 0.05
108 1 0.00
110 19 0.07
111 28 0.10
113 43 0.16
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (105 bp):
GCCTAACTGTGCATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGACCTAACTGTGC
ATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
Found at i:782886 original size:155 final size:159
Alignment explanation
Indices: 782583--782953 Score: 457
Period size: 155 Copynumber: 2.3 Consensus size: 159
782573 TCAGTTAAAT
* * * *
782583 GCCTAACTGTGCATACTGGCATAAAGGTGTCAATAATGCATGTTAGATGAAAGGCCTAACTGTGC
1 GCCTAACTGTGCAT-TTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAGACCTAACTGTGC
* * * * * *
782648 CTATTGGTAGAAATGTGTCAATAATGTATGTTAGATGAAAGGCCTAAATGTGCATTTGGCAGAAA
65 ATATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGGCCTAAATGTGCATATGGCAGAAA
*
782713 TGGGTCAATAATGCAAGTTAGATGAAA-G-
130 TGGGTCAATAACGCAAGTTAGATGAAATGA
* *
782741 GCCTAACTGTGCATTTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGACCTAACTGTGCA
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAGACCTAACTGTGCA
* *
782806 T-TTGGCA-AAA-GATGCCAATAATGCAAGTTAGATGAAAGGCCTAACTGTGCATATGGCATAAA
66 TATTGGCAGAAATG-TGCCAATAATGCAAGTTAGATGAAAGGCCTAAATGTGCATATGGCAGAAA
*
782868 -GGTGTCAATAACGTAAGTTAGATGAAATGTTAAA
130 TGG-GTCAATAACGCAAGTTAGATGAAATG----A
* * *
782902 TACCTAACTGTGCATTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGAAA
1 -GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAA
782954 AACAATGTAT
Statistics
Matches: 183, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
154 3 0.02
155 69 0.38
156 6 0.03
157 45 0.25
158 14 0.08
162 46 0.25
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (159 bp):
GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAGACCTAACTGTGCA
TATTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAGGCCTAAATGTGCATATGGCAGAAAT
GGGTCAATAACGCAAGTTAGATGAAATGA
Found at i:788051 original size:19 final size:20
Alignment explanation
Indices: 788004--788056 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
787994 TACTGAAAGG
*
788004 GAGTATCGATACCATAGTATA
1 GAGTATCGATACCA-AGGATA
*
788025 GAAGTATCGATACC-AGGGTA
1 G-AGTATCGATACCAAGGATA
788045 GAGTATCGATAC
1 GAGTATCGATAC
788057 TATTGAGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 1 0.03
22 12 0.41
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACCAAGGATA
Found at i:789274 original size:60 final size:60
Alignment explanation
Indices: 789181--789555 Score: 235
Period size: 52 Copynumber: 6.8 Consensus size: 60
789171 TGAAGAAAAG
* * *
789181 TTAAATGCCTATCTGTGCATATTGGCAGAAAGGTGACATTAATGCAAGTTAGATGATCAA
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
* * *
789241 TTAAATGCCTAACTGTGCATACTGGCATAAAGGTGTCAATAATGTAAGTTAGATG-----
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
* * * * *
789296 --AAATGCCTAACTGTGCATATTGGCAGGAAGCTGTCAATAATGTAAGTTAGATG-----
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
* * * *
789349 --AAAGGCCTAACTGTGCAT-TTGGCAGAAATGTGTCAATAATGCAAGTT--A-GAT--A
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
* * * *
789401 --AAAGGCCTAACTGTGTAT-TTGGCAGAAAGGTGCCAATAATGCAAGTTAGATG-----
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
* * * *
789453 --AAAGGCCTAACTTTGCAT-TTGGCATAAAGGTG-CTAATAATGCAAGTTAGATGA--AA
1 TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGAC-AATAATGCAAGTTAGATGATCAA
* * * *
789508 TGTTAAATACCTAACTGTGCAT-TTGGCAGAAAGGTGCCACTAATGCAA
1 --TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAA
789556 AGTGTATTTC
Statistics
Matches: 274, Mismatches: 26, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 1 0.00
52 116 0.42
53 66 0.24
54 1 0.00
55 1 0.00
59 37 0.14
60 50 0.18
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (60 bp):
TTAAATGCCTAACTGTGCATACTGGCAGAAAGGTGACAATAATGCAAGTTAGATGATCAA
Found at i:789395 original size:52 final size:52
Alignment explanation
Indices: 789247--789555 Score: 377
Period size: 52 Copynumber: 5.8 Consensus size: 52
789237 TCAATTAAAT
* * * *
789247 GCCTAACTGTGCATACTGGCATAAAGGTGTCAATAATGTAAGTTAGATGAAAT
1 GCCTAACTGTGCAT-TTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* * *
789300 GCCTAACTGTGCATATTGGCAGGAAGCTGTCAATAATGTAAGTTAGATGAAAG
1 GCCTAACTGTGCAT-TTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* *
789353 GCCTAACTGTGCATTTGGCAGAAATGTGTCAATAATGCAAGTTAGATAAAAG
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* *
789405 GCCTAACTGTGTATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
* *
789457 GCCTAACTTTGCATTTGGCATAAAGGTG-CTAATAATGCAAGTTAGATGAAATG
1 GCCTAACTGTGCATTTGGCAGAAAGGTGTC-AATAATGCAAGTTAGATGAAA-G
* * *
789510 TTAAATACCTAACTGTGCATTTGGCAGAAAGGTGCCACTAATGCAA
1 ------GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAA
789556 AGTGTATTTC
Statistics
Matches: 226, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
51 1 0.00
52 127 0.56
53 63 0.28
59 34 0.15
60 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (52 bp):
GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
Found at i:789464 original size:104 final size:105
Alignment explanation
Indices: 789183--789555 Score: 419
Period size: 104 Copynumber: 3.4 Consensus size: 105
789173 AAGAAAAGTT
* * * *
789183 AAATGCCTATCTGTGCATATTGGCAGAAAGGTGACATTAATGCAAGTTAGATGATCAATTAAATG
1 AAATGCCTAACTGTGCATATTGGCAGAAAGGTGCCAATAATGCAAGTTAGATG-------AAAGG
* * *
789248 CCTAACTGTGCATACTGGCATAAAGGTGTCAATAATGTAAGTTAGATG
59 CCTAACTGTGCAT-TTGGCATAAAGGTGTCAATAATGCAAGTTAGATA
* * * *
789296 AAATGCCTAACTGTGCATATTGGCAGGAAGCTGTCAATAATGTAAGTTAGATGAAAGGCCTAACT
1 AAATGCCTAACTGTGCATATTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCCTAACT
* *
789361 GTGCATTTGGCAGAAATGTGTCAATAATGCAAGTTAGATA
66 GTGCATTTGGCATAAAGGTGTCAATAATGCAAGTTAGATA
* *
789401 AAAGGCCTAACTGTGTAT-TTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCCTAACT
1 AAATGCCTAACTGTGCATATTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCCTAACT
*
789465 TTGCATTTGGCATAAAGGTG-CTAATAATGCAAGTTAGATGAAA
66 GTGCATTTGGCATAAAGGTGTC-AATAATGCAAGTTAGAT---A
* *
789508 TGTTAAATACCTAACTGTGCAT-TTGGCAGAAAGGTGCCACTAATGCAA
1 ----AAATGCCTAACTGTGCATATTGGCAGAAAGGTGCCAATAATGCAA
789556 AGTGTATTTC
Statistics
Matches: 227, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
103 1 0.00
104 76 0.33
105 45 0.20
106 17 0.07
107 1 0.00
111 40 0.18
113 47 0.21
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (105 bp):
AAATGCCTAACTGTGCATATTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCCTAACT
GTGCATTTGGCATAAAGGTGTCAATAATGCAAGTTAGATA
Found at i:795707 original size:24 final size:24
Alignment explanation
Indices: 795675--795736 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
795665 GAGCCAAAAT
*
795675 TATTATTTTATCAAACGTTAGAGG
1 TATTGTTTTATCAAACGTTAGAGG
795699 TATTGTTTTATCAAACGTTAGAGG
1 TATTGTTTTATCAAACGTTAGAGG
795723 TATTGTTTTTATCA
1 TATTG-TTTTATCA
795737 TTATAACTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 28 0.78
25 8 0.22
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (24 bp):
TATTGTTTTATCAAACGTTAGAGG
Found at i:798199 original size:2 final size:2
Alignment explanation
Indices: 798192--798239 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
798182 ATTTGGCAAG
798192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
798234 CA TA TA
1 TA TA TA
798240 AATTAGCGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:799910 original size:12 final size:11
Alignment explanation
Indices: 799881--799915 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
799871 CTTTAGATAA
799881 AATATTTTTTT
1 AATATTTTTTT
*
799892 TATATTTTTTT
1 AATATTTTTTT
*
799903 AATAATTTTTT
1 AATATTTTTTT
799914 AA
1 AA
799916 CTATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:800552 original size:4 final size:4
Alignment explanation
Indices: 800530--800750 Score: 55
Period size: 4 Copynumber: 54.2 Consensus size: 4
800520 ATATGTTTAC
* * * *
800530 TATT TTTT TATT T-TT TATT TATTT TATA TATA TATT ATTTT TACTT T-TT
1 TATT TATT TATT TATT TATT TA-TT TATT TATT TATT -TATT TA-TT TATT
* * * * *
800579 TA-T TA-T TATTT TATT TATT TGTTT TATT TCTA TATT T-TT TCTT CTTTT
1 TATT TATT TA-TT TATT TATT T-ATT TATT TATT TATT TATT TATT -TATT
* * * * * *
800627 TCTT TATT T-TT TATT TTTT ATATT TATTT TACT TACT AATT TATC T-TT
1 TATT TATT TATT TATT TATT -TATT TA-TT TATT TATT TATT TATT TATT
** * * * * * *
800675 GCTT TCTT TATCT TATC T-TT TATT TAATT TGTT T-TC TCTT CATTT TAATTT
1 TATT TATT TAT-T TATT TATT TATT T-ATT TATT TATT TATT TA-TT T-A-TT
800726 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
800751 CTTACCTTTT
Statistics
Matches: 163, Mismatches: 34, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
3 23 0.14
4 98 0.60
5 37 0.23
6 5 0.03
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:800554 original size:9 final size:9
Alignment explanation
Indices: 800530--800657 Score: 51
Period size: 9 Copynumber: 14.2 Consensus size: 9
800520 ATATGTTTAC
800530 TATTT-TTT
1 TATTTATTT
800538 TA-TT-TTT
1 TATTTATTT
800545 TATTTATTT
1 TATTTATTT
* *
800554 TATATA-TA
1 TATTTATTT
800562 TA-TTATTTT
1 TATTTA-TTT
*
800571 TACTT-TTT
1 TATTTATTT
800579 TATTATTATTT
1 TA-T-TTATTT
800590 TATTTATTT
1 TATTTATTT
800599 GT-TTTATTT
1 -TATTTATTT
800608 CTATATT-TTT
1 -TAT-TTATTT
*
800618 TCTTCT-TTT
1 TATT-TATTT
*
800627 TCTTTATTTTT
1 TATTTA--TTT
800638 TATTT-TTT
1 TATTTATTT
800646 ATATTTATTT
1 -TATTTATTT
800656 TA
1 TA
800658 CTTACTAATT
Statistics
Matches: 95, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
7 9 0.09
8 17 0.18
9 42 0.44
10 13 0.14
11 14 0.15
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.76
Consensus pattern (9 bp):
TATTTATTT
Found at i:800562 original size:45 final size:45
Alignment explanation
Indices: 800513--800598 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
800503 TTGATTAATT
800513 TATATATA-TATGTTTACTATTTTT-TTATT-TTTTATTTATTTTA
1 TATATATATTATGTTTACT-TTTTTATTATTATTTTATTTATTTTA
*
800556 TATATATATTATTTTTACTTTTTTATTATTATTTTATTTATTT
1 TATATATATTATGTTTACTTTTTTATTATTATTTTATTTATTT
800599 GTTTTATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 13 0.33
44 14 0.36
45 12 0.31
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (45 bp):
TATATATATTATGTTTACTTTTTTATTATTATTTTATTTATTTTA
Found at i:800565 original size:24 final size:23
Alignment explanation
Indices: 800540--800618 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 23
800530 TATTTTTTTA
800540 TTTTTTATTTATTTTATATATATAT
1 TTTTTTATTT-TTTTAT-TATATAT
*
800565 TATTTTTACTTTTTTATTAT-TAT
1 T-TTTTTATTTTTTTATTATATAT
*
800588 TTTATTTATTTGTTTTATTTCTATAT
1 TTT-TTTATTT-TTTTA-TTATATAT
800614 TTTTT
1 TTTTT
800619 CTTCTTTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.04
23 10 0.22
24 8 0.17
25 12 0.26
26 14 0.30
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.75
Consensus pattern (23 bp):
TTTTTTATTTTTTTATTATATAT
Found at i:800613 original size:49 final size:48
Alignment explanation
Indices: 800543--800655 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 48
800533 TTTTTTATTT
*
800543 TTTATTTATTTTATATATATATTATTTT-TACTTTTT-TATTATTATTTTA
1 TTTATTTATTTTATTTATATATT-TTTTCTACTTTTTCT-TTATT-TTTTA
* * *
800592 TTTATTTGTTTTATTTCTATATTTTTTCTTCTTTTTCTTTATTTTTTA
1 TTTATTTATTTTATTTATATATTTTTTCTACTTTTTCTTTATTTTTTA
800640 TTT-TTTATATTTATTT
1 TTTATTTAT-TTTATTT
800656 TACTTACTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
47 4 0.07
48 19 0.34
49 32 0.57
50 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (48 bp):
TTTATTTATTTTATTTATATATTTTTTCTACTTTTTCTTTATTTTTTA
Found at i:800616 original size:13 final size:13
Alignment explanation
Indices: 800543--800616 Score: 50
Period size: 13 Copynumber: 5.9 Consensus size: 13
800533 TTTTTTATTT
*
800543 TTTATTTATTTTA
1 TTTATATATTTTA
*
800556 TATATATATTATT-
1 TTTATATATT-TTA
800569 TTTACT-T-TTTTA
1 TTTA-TATATTTTA
800581 -TTAT-TATTTTA
1 TTTATATATTTTA
* *
800592 TTTATTTGTTTTA
1 TTTATATATTTTA
*
800605 TTTCTATATTTT
1 TTTATATATTTT
800617 TTCTTCTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 6 0.12
13 27 0.56
14 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:800634 original size:20 final size:19
Alignment explanation
Indices: 800533--800656 Score: 74
Period size: 20 Copynumber: 6.2 Consensus size: 19
800523 TGTTTACTAT
*
800533 TTTTTTA-TTTTTTATTTA
1 TTTTTTATTTTTTTCTTTA
*
800551 TTTTATATATATATTATT-TTTA
1 TTTT-T-TAT-T-TTTTTCTTTA
* *
800573 CTTTTTTATTATTAT-TTTA
1 -TTTTTTATTTTTTTCTTTA
* *
800592 TTTATTTGTTTTATTTCTATA
1 TTT-TTTATTTT-TTTCTTTA
*
800613 TTTTTTCTTCTTTTTCTTTA
1 TTTTTTATT-TTTTTCTTTA
*
800633 TTTTTTATTTTTTATATTTA
1 TTTTTTATTTTTT-TCTTTA
800653 TTTT
1 TTTT
800657 ACTTACTAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
18 7 0.08
19 17 0.20
20 34 0.41
21 11 0.13
22 6 0.07
23 8 0.10
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTTTCTTTA
Found at i:803811 original size:11 final size:11
Alignment explanation
Indices: 803792--803860 Score: 77
Period size: 11 Copynumber: 5.9 Consensus size: 11
803782 AGATTCAATC
*
803792 AGAACAAAAAG
1 AGAAAAAAAAG
803803 AG-AAAAAAAG
1 AGAAAAAAAAG
803813 AGAAAAAAAAG
1 AGAAAAAAAAG
803824 AGAAAAAAACAAAG
1 AG--AAAAA-AAAG
803838 AGAAAATAAAAAG
1 AG-AAA-AAAAAG
803851 AGAAAAAAAA
1 AGAAAAAAAA
803861 AGGAAAATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
10 9 0.17
11 17 0.33
12 3 0.06
13 15 0.29
14 8 0.15
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:803812 original size:10 final size:10
Alignment explanation
Indices: 803792--803832 Score: 64
Period size: 10 Copynumber: 3.9 Consensus size: 10
803782 AGATTCAATC
803792 AGAACAAAAAG
1 AGAA-AAAAAG
803803 AGAAAAAAAG
1 AGAAAAAAAG
803813 AGAAAAAAAAG
1 AG-AAAAAAAG
803824 AGAAAAAAA
1 AGAAAAAAA
803833 CAAAGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:803816 original size:21 final size:21
Alignment explanation
Indices: 803792--803859 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
803782 AGATTCAATC
*
803792 AGAACAAAAAGAGAAAAAAAG
1 AGAAAAAAAAGAGAAAAAAAG
803813 AGAAAAAAAAGAGAAAAAAACAAAG
1 AGAAAAAAAAGAG---AAAA-AAAG
803838 AGAAAATAAAAAGAGAAAAAAA
1 AG-AAA-AAAAAGAGAAAAAAA
803860 AAGGAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 12 0.30
23 3 0.08
24 8 0.20
25 6 0.15
26 3 0.08
27 8 0.20
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.01
Consensus pattern (21 bp):
AGAAAAAAAAGAGAAAAAAAG
Found at i:803854 original size:27 final size:24
Alignment explanation
Indices: 803805--803861 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 24
803795 ACAAAAAGAG
803805 AAAAAAAGAGAAAAAAAAGAGAAA
1 AAAAAAAGAGAAAAAAAAGAGAAA
803829 AAAACAAAGAGAAAATAAAAAGAGAAA
1 AAAA-AAAGAG-AAA-AAAAAGAGAAA
803856 AAAAAA
1 AAAAAA
803862 GGAAAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.13
25 6 0.20
26 5 0.17
27 15 0.50
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (24 bp):
AAAAAAAGAGAAAAAAAAGAGAAA
Found at i:803866 original size:11 final size:12
Alignment explanation
Indices: 803797--803867 Score: 87
Period size: 13 Copynumber: 6.0 Consensus size: 12
803787 CAATCAGAAC
803797 AAAAAGAG--AA
1 AAAAAGAGAAAA
803807 AAAAAGAG-AAA
1 AAAAAGAGAAAA
803818 AAAAAGAGAAAAA
1 AAAAAGAG-AAAA
803831 AACAAAGAGAAAA
1 AA-AAAGAGAAAA
803844 TAAAAAGAGAAAA
1 -AAAAAGAGAAAA
803857 AAAAAG-GAAAA
1 AAAAAGAGAAAA
803868 TTGAAGAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.14
11 15 0.27
12 6 0.11
13 19 0.34
14 8 0.14
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:804013 original size:69 final size:69
Alignment explanation
Indices: 803920--804052 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 69
803910 TTCAAACTAT
* *
803920 GAGATTGATCAAGCACAATTATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATC
1 GAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCATC
803985 AAAC
66 AAAC
* *
803989 GAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAATATCATAGAGCAT
1 GAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCAT
804053 TAAGAGAGAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (69 bp):
GAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTCCACTCGAAGATCATAGAGCATC
AAAC
Found at i:804467 original size:25 final size:25
Alignment explanation
Indices: 804439--804493 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
804429 TTGGGCAGCA
804439 GAGGCGATCACACGAATTCCTTGAT
1 GAGGCGATCACACGAATTCCTTGAT
*
804464 GAGGTGATCACACGAATTCCTTGAT
1 GAGGCGATCACACGAATTCCTTGAT
*
804489 AAGGC
1 GAGGC
804494 ATCGCACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (25 bp):
GAGGCGATCACACGAATTCCTTGAT
Found at i:805057 original size:32 final size:32
Alignment explanation
Indices: 805010--805122 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
805000 TGAGGGCATC
*
805010 TTTGAAGATTCAACATCAAATGTTGGAGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
* * *
805043 TTTTAGATTTAACATCAAATGTTGGGGTATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * *
805075 TTTGAGATTCAACATCGAATATTGGGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
805106 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
805123 CTGATGCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 6 0.09
32 59 0.87
33 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:806857 original size:2 final size:2
Alignment explanation
Indices: 806852--806884 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
806842 TTTTTTAGAT
806852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
806885 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:806916 original size:52 final size:52
Alignment explanation
Indices: 806851--807018 Score: 191
Period size: 52 Copynumber: 3.2 Consensus size: 52
806841 TTTTTTTAGA
* * *
806851 TTATATATATATATATATATATATATATATATATTA-TTTTTTATTATCACTT
1 TTATTTATTTATATATATATATATATATATATATTACTTTTTTATTATTA-TT
* *
806903 TTATTAATTTATATATATATATAGATATATAT-TTACTATTTTT-TTATT-TT
1 TTATTTATTTATATATATATATATATATATATATTACT-TTTTTATTATTATT
* *
806953 TATTTTTATTTATTATATATATATATATATATTATTTTTACTTTTTTATTATTATT
1 T-TATTTATTTA-TATATATATATATATATA-TA-TATTACTTTTTTATTATTATT
807009 TTATTTATTT
1 TTATTTATTT
807019 GTTTTATTTA
Statistics
Matches: 98, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
50 3 0.03
51 11 0.11
52 50 0.51
53 7 0.07
54 6 0.06
55 18 0.18
56 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (52 bp):
TTATTTATTTATATATATATATATATATATATATTACTTTTTTATTATTATT
Found at i:806958 original size:5 final size:6
Alignment explanation
Indices: 806943--807067 Score: 58
Period size: 6 Copynumber: 19.7 Consensus size: 6
806933 ATTTACTATT
* * * * *
806943 TTTTTA TTTTTA TTTTTA TTTATTA TATATA TATATA TATATTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA T-TTTTA TTTTTA
*
806993 CTTTTTTA TTATTA -TTTTA TTTATT- TGTTTTA TTTATATA TTTTT-
1 --TTTTTA TTTTTA TTTTTA TTT-TTA T-TTTTA TTT-T-TA TTTTTA
* * *
807038 TTCTTTT TTTTCTT TTTTTA TATTTA TTTT
1 TT-TTTA TTTT-TA TTTTTA TTTTTA TTTT
807068 ACTTACTATT
Statistics
Matches: 95, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
5 6 0.06
6 55 0.58
7 23 0.24
8 11 0.12
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:806988 original size:32 final size:30
Alignment explanation
Indices: 806953--807033 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 30
806943 TTTTTATTTT
806953 TATTTTTATTTATTATATATATATATATATAT
1 TATTTTTATTTATTATATATATAT-TATAT-T
* *
806985 TATTTTTACTTTTTTAT-TAT-TATTTTATT
1 TATTTTTA-TTTATTATATATATATTATATT
*
807014 TATTTGT-TTTATT-TATATAT
1 TATTTTTATTTATTATATATAT
807034 TTTTTTCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.02
27 8 0.19
28 1 0.02
29 7 0.17
30 4 0.10
31 3 0.07
32 11 0.26
33 7 0.17
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (30 bp):
TATTTTTATTTATTATATATATATTATATT
Found at i:806999 original size:46 final size:47
Alignment explanation
Indices: 806864--807060 Score: 143
Period size: 46 Copynumber: 4.1 Consensus size: 47
806854 TATATATATA
* ** *
806864 TATATATATATATATATATATTATTTTTTATTATCACTTTTATTAATTTATA
1 TATATATATATATATATATA-TATTATTT-TTA-CTTTTTTATT--TTTATT
* * * *
806916 TATATATATAGATATATATTTACTATTTTT-TTATTTTTATTTTTATT
1 TATATATATATATATATATATATTATTTTTACT-TTTTTATTTTTATT
*
806963 TAT-TATATATATATATATATATTATTTTTACTTTTTTATTATTATTT
1 TATATATATATATATATATATATTATTTTTACTTTTTTATTTTTA-TT
* * * * * *
807010 TATTTATTTGTTTTATTTATATATT-TTTTT-CTTTTTT-TTCTTTTTT
1 TATATATAT-ATATATATATATATTATTTTTACTTTTTTATT-TTTATT
807056 TATAT
1 TATAT
807061 TTATTTTACT
Statistics
Matches: 119, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
46 42 0.35
47 23 0.19
48 9 0.08
49 19 0.16
50 2 0.02
51 6 0.05
52 18 0.15
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (47 bp):
TATATATATATATATATATATATTATTTTTACTTTTTTATTTTTATT
Found at i:807034 original size:17 final size:16
Alignment explanation
Indices: 806939--807039 Score: 54
Period size: 15 Copynumber: 6.6 Consensus size: 16
806929 ATATATTTAC
*
806939 TATTTTTTTATTTTTA
1 TATTTTTTTATTTATA
806955 T-TTTTATTTA-TTATA
1 TATTTT-TTTATTTATA
* * * *
806970 TATATATATATATAT-
1 TATTTTTTTATTTATA
*
806985 TATTTTTACTTTTTTAT-
1 TATTTTT--TTATTTATA
*
807002 TATTATTTTA-TT-TA
1 TATTTTTTTATTTATA
*
807016 T-TTGTTTTATTTATA
1 TATTTTTTTATTTATA
807031 TATTTTTTT
1 TATTTTTTT
807040 CTTTTTTTTC
Statistics
Matches: 62, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
13 8 0.13
14 5 0.08
15 22 0.35
16 16 0.26
17 11 0.18
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (16 bp):
TATTTTTTTATTTATA
Found at i:814471 original size:30 final size:30
Alignment explanation
Indices: 814414--814515 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
814404 TATGGGTTTT
* * * *
814414 AGTTTTTGTTTTTACT-GTTTAGCCCTTTA
1 AGTTTCTGTTTTTACTATTTTGGACCTTTA
* *
814443 AGTTTATGTTTTTTCTATTTTGGACCTTTA
1 AGTTTCTGTTTTTACTATTTTGGACCTTTA
* * * * *
814473 AATTCCTGTTTGTACTATTTTGGTCCATTA
1 AGTTTCTGTTTTTACTATTTTGGACCTTTA
814503 AGTTTCTGTTTTT
1 AGTTTCTGTTTTT
814516 CCATTCTGGT
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
29 14 0.25
30 43 0.75
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.58
Consensus pattern (30 bp):
AGTTTCTGTTTTTACTATTTTGGACCTTTA
Found at i:814896 original size:5 final size:5
Alignment explanation
Indices: 814882--814918 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
814872 GTTTTTCATC
* *
814882 TTTAT TTTGT TTTGT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
814919 CATCTTTGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:819512 original size:14 final size:15
Alignment explanation
Indices: 819490--819522 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
819480 GGAAAGAGAA
819490 GAAAGATTT-GTGGG
1 GAAAGATTTGGTGGG
*
819504 GAAATATTTGGTGGG
1 GAAAGATTTGGTGGG
819519 GAAA
1 GAAA
819523 AGAAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.27
Consensus pattern (15 bp):
GAAAGATTTGGTGGG
Found at i:819666 original size:16 final size:16
Alignment explanation
Indices: 819644--819683 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
819634 GATCGAGAAA
*
819644 ACATACATCAATACA-
1 ACATACATCAACACAT
819659 AGCATACATCAACACAT
1 A-CATACATCAACACAT
819676 ACATACAT
1 ACATACAT
819684 GACACATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:820400 original size:67 final size:68
Alignment explanation
Indices: 820297--820470 Score: 214
Period size: 67 Copynumber: 2.6 Consensus size: 68
820287 TAAAACGAAT
* * * *
820297 TTTGTCTCTTTTGAGACAATTTCTTTTGAAGGAAAATCTTTGAGTTTATTTCTTTGGAAACAAAT
1 TTTGTCTC-TTTGAGACAATTTATTTTAAAGAAAAATCTTTGAGTATATTTCTTTGGAAACAAAT
820362 CAAA
65 CAAA
*
820366 TTTGTCTC-TTGGGACAATTTATTTTAAAGAAAAATCTTTGAGTATATTTCTTTGGAAAC-AA--
1 TTTGTCTCTTTGAGACAATTTATTTTAAAGAAAAATCTTTGAGTATATTTCTTTGGAAACAAATC
*
820427 AAT
66 AAA
* *
820430 TTTGTCTCTCTTGAGACAATATCTTTTGAAAG-AAAATCTTT
1 TTTGTCTCT-TTGAGACAATTTATTTT-AAAGAAAAATCTTT
820471 TAGTCTGCTT
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
64 10 0.11
66 25 0.27
67 50 0.54
69 8 0.09
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (68 bp):
TTTGTCTCTTTGAGACAATTTATTTTAAAGAAAAATCTTTGAGTATATTTCTTTGGAAACAAATC
AAA
Found at i:820496 original size:66 final size:64
Alignment explanation
Indices: 820294--820496 Score: 191
Period size: 67 Copynumber: 3.1 Consensus size: 64
820284 TCTTAAAACG
* *
820294 AATTTTGTCTCTTTTGAGACAATTTCTTTTGAAGGAAAATCTTTGAGTTTATTTCTTTGGAAA-C
1 AATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAGAAAATCTTTGAG-TTATTTCTTT-GAAACC
820358 A
64 A
* *
820359 AATCAAATTTG--TCTCTTGGGACAATTTATTTT-AAAGAAAAATCTTTGAGTATATTTCTTTGG
1 AAT----TTTGTCTCTCTTGAGACAATTTCTTTTGAAAG-AAAATCTTTGAGT-TATTTCTTT-G
*
820421 AAACAA
59 AAACCA
* * *
820427 AATTTTGTCTCTCTTGAGACAATATCTTTTGAAAGAAAATCTTTTAGTCTGCTTCTCTTT-AAAC
1 AATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAGAAAATCTTTGAGT-T-ATT-TCTTTGAAAC
820491 CA
63 CA
820493 AATT
1 AATT
820497 CTTTAAGTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
64 4 0.04
65 3 0.03
66 44 0.39
67 50 0.44
68 9 0.08
69 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (64 bp):
AATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAGAAAATCTTTGAGTTATTTCTTTGAAACCA
Found at i:820530 original size:30 final size:30
Alignment explanation
Indices: 820462--820530 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
820452 CTTTTGAAAG
* * *
820462 AAAATCTTTTAGTCTGCTTCTCTTTAAACC
1 AAAATCTTTAAGTATGCTTCTCTTTAAAAC
* *
820492 AAATTCTTTAAGTATGTTTCTC-TTAAAAC
1 AAAATCTTTAAGTATGCTTCTCTTTAAAAC
820521 AAACATCTTT
1 AAA-ATCTTT
820531 GAGATCGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATCTTTAAGTATGCTTCTCTTTAAAAC
Found at i:820779 original size:48 final size:48
Alignment explanation
Indices: 820724--820842 Score: 220
Period size: 48 Copynumber: 2.5 Consensus size: 48
820714 TAACCAGTCG
*
820724 TCCTCATCGCGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCA
1 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCA
820772 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCA
1 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCA
*
820820 TCCTCATCACGTAGGAACTGTGT
1 TCCTCATCACGTAGGAACCGTGT
820843 CATCCCCCGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCA
Found at i:820907 original size:131 final size:131
Alignment explanation
Indices: 820772--821153 Score: 396
Period size: 131 Copynumber: 2.9 Consensus size: 131
820762 TGGCCTTCCA
* * *
820772 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAGGATGGCCTTCCATCCTCATCACGTAGGAA
1 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAA
* * * * *
820837 CTGTGTCATCCCCCGTCCAGACGTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATAA-CATGT
66 CTGTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGCCGCGTCAACCCTAGATAATCA-GC
820901 CG
130 CG
* * * *
820903 TCCTCATCACGTAGGCACCATGTTATCATTCCTAAAGATGGCCTGCCGTCCTCATCACGTAGAAA
1 TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAA
* * * * *
820968 CTGTGTCATCCATCGACCAGACCTTCTCATCATGTAGGAGCCGTGTCACCCCTAGATAATCAGCC
66 CTGTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGCCGCGTCAACCCTAGATAATCAGCC
821033 G
131 G
* * * * * *
821034 TCCTCATCGCGTAAGAACCGTGTTATCACCCTTCCTAAAGATGGCCAG-AACTCTTCATCACGTA
1 TCCTCATCACGTAGGAACCGTGTTATCA---TCCCTAAAGATGGCCTGCCA-TCCTCATCACGTA
* * ** * * *
821098 TG-AGCCGTGTCATCC-CCTGGTCATATCTCCTCATCACGTAGGAGCCGTGTC-ACCCT
62 -GAAACTGTGTCATCCACC-GACCAGACCTCCTCATCACGTAGGAGCCGCGTCAACCCT
821154 TAGACGACCA
Statistics
Matches: 209, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
131 135 0.65
132 2 0.01
133 5 0.02
134 66 0.32
135 1 0.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (131 bp):
TCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAA
CTGTGTCATCCACCGACCAGACCTCCTCATCACGTAGGAGCCGCGTCAACCCTAGATAATCAGCC
G
Found at i:820929 original size:179 final size:179
Alignment explanation
Indices: 820620--820973 Score: 458
Period size: 179 Copynumber: 2.0 Consensus size: 179
820610 TGAAACCATT
* ** * *
820620 ATCCCTAAAGATGGCCTACCATCCTCATCGCGTAGGAACCGTGTCATCCCTTGACCATACCTCTT
1 ATCCCTAAAGATGGCCTACCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
* * * * * * *
820685 TATCACGTAGGGGTAATGTCACCCTTAGATAACCAGTCGTCCTCATCGCGTAGGAACCGTGTTAT
66 CATCACGTAGGAGCAACGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTAT
* * *
820750 CATCCCTAAGGATGGCCTTCCATCCTCATCACGTAGGAACCGTGTTATC
131 CATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAACCGTGTTATC
* * * * *
820799 ATCCCTAAGGATGGCCTTCCATCCTCATCACGTAGGAACTGTGTCATCCCCCGTCCAGACGTCCT
1 ATCCCTAAAGATGGCCTACCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
** *
820864 CATCACGTAGGAGCCGCGTCAACCTTAGATAA-CATGTCGTCCTCATCACGTAGGCACCATGTTA
66 CATCACGTAGGAGCAACGTCAACCTTAGATAACCA-GTCGTCCTCATCACGTAGGAACCATGTTA
* * *
820928 TCATTCCTAAAGATGGCCTGCCGTCCTCATCACGTAGAAACTGTGT
130 TCATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAACCGTGT
820974 CATCCATCGA
Statistics
Matches: 148, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
178 2 0.01
179 146 0.99
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (179 bp):
ATCCCTAAAGATGGCCTACCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
CATCACGTAGGAGCAACGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTAT
CATCCCTAAAGATGGCCTGCCATCCTCATCACGTAGAAACCGTGTTATC
Found at i:823329 original size:19 final size:16
Alignment explanation
Indices: 823279--823323 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
823269 CAACATTCCA
823279 GTAATCTTATTCCCTG
1 GTAATCTTATTCCCTG
823295 GTAATCTTTTATTTCCACTG
1 GTAATC--TTA-TTCC-CTG
823315 GTAATCTTA
1 GTAATCTTA
823324 CATTCCGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.24
18 6 0.24
19 4 0.16
20 9 0.36
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (16 bp):
GTAATCTTATTCCCTG
Found at i:824794 original size:23 final size:23
Alignment explanation
Indices: 824734--824799 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
824724 TTTTATATGG
*
824734 CACTTCGGTGCATTGCTACGCGA
1 CACTTCGGTGCATTTCTACGCGA
*
824757 CACTTCGGTGCATTTCTACGTGGA
1 CACTTCGGTGCATTTCTACG-CGA
* *
824781 -ACTTTGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
824800 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:825511 original size:30 final size:30
Alignment explanation
Indices: 825448--825555 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
825438 CTGTTTTATT
* * * * *
825448 CCTTTTAGTTTTTGTTTTTACT-GTTTAGC
1 CCTTTAAGTTTATGTTTTTACTATTTTGGA
*
825477 CCTTTAAGTTTATGTTTTTTCTATTTTGGA
1 CCTTTAAGTTTATGTTTTTACTATTTTGGA
* * * *
825507 CCTTTAAATTCATGTTTGTACTATTTTGGT
1 CCTTTAAGTTTATGTTTTTACTATTTTGGA
*
825537 CCATTAAGTTTATGTTTTT
1 CCTTTAAGTTTATGTTTTT
825556 CCATTCTGGT
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 19 0.30
30 44 0.70
ACGTcount: A:0.17, C:0.12, G:0.13, T:0.58
Consensus pattern (30 bp):
CCTTTAAGTTTATGTTTTTACTATTTTGGA
Found at i:825567 original size:29 final size:29
Alignment explanation
Indices: 825480--825567 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 29
825470 GTTTAGCCCT
* *
825480 TTAAGTTTATGTTTTTTCTATTTTGGACCT
1 TTAAGTTTATG-TTTTTCTATTTTGGTCCA
* * *
825510 TTAAATTCATGTTTGTACTATTTTGGTCCA
1 TTAAGTTTATGTTT-TTCTATTTTGGTCCA
* *
825540 TTAAGTTTATGTTTTTCCATTCTGGTCC
1 TTAAGTTTATGTTTTTCTATTTTGGTCC
825568 TTGTAATTCT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 14 0.30
30 33 0.70
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (29 bp):
TTAAGTTTATGTTTTTCTATTTTGGTCCA
Found at i:826915 original size:25 final size:26
Alignment explanation
Indices: 826867--826915 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
826857 TTTCATCATC
* * *
826867 CTAAAATTTTATAAATTTATTCCTTT
1 CTAAAATTTAAAAAATTTAGTCCTTT
826893 CTAAAATTTAAAAAATTT-GTCCT
1 CTAAAATTTAAAAAATTTAGTCCT
826916 AACATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
CTAAAATTTAAAAAATTTAGTCCTTT
Found at i:828539 original size:28 final size:28
Alignment explanation
Indices: 828508--828596 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
828498 TGGATAATGG
828508 AAGAATTGAAATTGTATTTGGAAGTGTT
1 AAGAATTGAAATTGTATTTGGAAGTGTT
* * *
828536 AAG-ATTGACATTGATGATATTGG-A-TAATA
1 AAGAATTGAAATTG-T-AT-TTGGAAGT-GTT
*
828565 AGAGAATTGAACTTGTATTTGGAAGTGTT
1 A-AGAATTGAAATTGTATTTGGAAGTGTT
828594 AAG
1 AAG
828597 GTTGACATGG
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
27 9 0.20
28 11 0.24
29 10 0.22
30 8 0.17
31 8 0.17
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (28 bp):
AAGAATTGAAATTGTATTTGGAAGTGTT
Found at i:828633 original size:58 final size:58
Alignment explanation
Indices: 828496--828608 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
828486 TATTCTTTGA
* *
828496 ATTGGATAAT-GGAAGAATTGAAATTGTATTTGGAAGTGTTAAGATTGACATTGATGAT
1 ATTGGATAATAAG-AGAATTGAAATTGTATTTGGAAGTGTTAAGATTGACATGGATGAT
* *
828554 ATTGGATAATAAGAGAATTGAACTTGTATTTGGAAGTGTTAAGGTTGACATGGAT
1 ATTGGATAATAAGAGAATTGAAATTGTATTTGGAAGTGTTAAGATTGACATGGAT
828609 ATTATGAGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
ATTGGATAATAAGAGAATTGAAATTGTATTTGGAAGTGTTAAGATTGACATGGATGAT
Found at i:834793 original size:2 final size:2
Alignment explanation
Indices: 834786--834811 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
834776 TCTCATTACC
834786 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
834812 CTTATGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:838497 original size:21 final size:20
Alignment explanation
Indices: 838460--838512 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
838450 TTTAAGAGAG
838460 AAAATCAAGAAAAAGGAACA
1 AAAATCAAGAAAAAGGAACA
* *
838480 AAAATCAATAACAAAGGAATA
1 AAAATCAAGAA-AAAGGAACA
*
838501 TAAAATGAAGAA
1 -AAAATCAAGAA
838513 GAAGAGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 8 0.30
22 9 0.33
ACGTcount: A:0.68, C:0.08, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAATCAAGAAAAAGGAACA
Found at i:846794 original size:30 final size:30
Alignment explanation
Indices: 846760--846842 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
846750 TTGTAAATAA
*
846760 TATTTTAGTCATTTGAGTTTTTGTTTATT-T
1 TATTTTAGTCCTTTGAGTTTTTGTTT-TTGT
*
846790 TA-TTTAGGTCCTTTGAGTTTCTGTTTTTGT
1 TATTTTA-GTCCTTTGAGTTTTTGTTTTTGT
* *
846820 TATTTTTGTCCTTTAAGTTTTTG
1 TATTTTAGTCCTTTGAGTTTTTG
846843 AAATTACTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.13
30 36 0.80
31 3 0.07
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (30 bp):
TATTTTAGTCCTTTGAGTTTTTGTTTTTGT
Found at i:846957 original size:30 final size:30
Alignment explanation
Indices: 846881--846959 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
846871 TGTTTTTGCC
*
846881 ATTTTAGTCTTTTAAATTTCATCTTGTCAT
1 ATTTTAGTCTTTTAAATTTCATATTGTCAT
* ** * *
846911 A-TTTGGTCTTCAAAATTT-ATATTTTTACT
1 ATTTTAGTCTTTTAAATTTCATATTGTCA-T
846940 ATTTTAGTCTTTTAAATTTC
1 ATTTTAGTCTTTTAAATTTC
846960 TGCTTGTGTC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
28 6 0.16
29 16 0.43
30 15 0.41
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.57
Consensus pattern (30 bp):
ATTTTAGTCTTTTAAATTTCATATTGTCAT
Found at i:847004 original size:30 final size:30
Alignment explanation
Indices: 846939--847004 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
846929 ATATTTTTAC
* *
846939 TATTTTAGTCTTTTAAATTTCTGCTTGTGT
1 TATTTTAGTCCTTTAAATTTCTGATTGTGT
* * * *
846969 CATTTTAGTCCTTTAATTTTTTGATTTTGT
1 TATTTTAGTCCTTTAAATTTCTGATTGTGT
846999 TATTTT
1 TATTTT
847005 GATTCTTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.11, T:0.64
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATTTCTGATTGTGT
Found at i:858531 original size:18 final size:17
Alignment explanation
Indices: 858508--858546 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
858498 GCTTGAAGAA
858508 AAAAAAATGAAAGAAATG
1 AAAAAAATGAAA-AAATG
858526 AAAAAAATGAAAAAATG
1 AAAAAAATGAAAAAATG
858543 AAAA
1 AAAA
858547 GAGAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (17 bp):
AAAAAAATGAAAAAATG
Done.