Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_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: 3165331
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 15
Found at i:704846 original size:31 final size:32
Alignment explanation
Indices: 704796--704870 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
704786 AATAAAAAAT
*
704796 AATACTAATAATATAATATA-ATATAATATATA
1 AATACT-ATAATACAATATACATATAATATATA
*
704828 AATACTATAATACCATATACTATATAATATATA
1 AATACTATAATACAATATAC-ATATAATATATA
* *
704861 TATAATATAA
1 AATACTATAA
704871 ATATAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 11 0.30
32 6 0.16
33 20 0.54
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (32 bp):
AATACTATAATACAATATACATATAATATATA
Found at i:706184 original size:21 final size:21
Alignment explanation
Indices: 706134--706193 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
706124 CGTCAACATC
706134 GTAAATTGTCGTGTTAGTAGA
1 GTAAATTGTCGTGTTAGTAGA
*
706155 G-AGATTGTCGTGTTAGTAGA
1 GTAAATTGTCGTGTTAGTAGA
**
706175 GTAAATTGTCACGTTAGTA
1 GTAAATTGTCGTGTTAGTA
706194 CTATAACAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (21 bp):
GTAAATTGTCGTGTTAGTAGA
Found at i:708441 original size:35 final size:35
Alignment explanation
Indices: 708402--708477 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
708392 GTTAAAATTT
* *
708402 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
708437 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
708472 AATTGA
1 AATTGA
708478 GGACTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:709107 original size:36 final size:38
Alignment explanation
Indices: 709031--709108 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
709021 AATAAGTTGG
* *
709031 AAAATATTAATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAATATTAATATATTTTCTTTAAAAATTGAAAATCAT
709069 AAAAT-TT-ATATAATTTT-TTTACAAAATTGAAAAT-AT
1 AAAATATTAATAT-ATTTTCTTTA-AAAATTGAAAATCAT
709105 AAAA
1 AAAA
709109 AGGTTTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 14 0.39
37 17 0.47
38 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
AAAATATTAATATATTTTCTTTAAAAATTGAAAATCAT
Found at i:723814 original size:52 final size:52
Alignment explanation
Indices: 723744--723846 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
723734 AAATTGGACA
*
723744 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAAAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
723796 CATAAAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAAAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
723847 AATATTATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (52 bp):
CATAAAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:728398 original size:52 final size:52
Alignment explanation
Indices: 728336--728438 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
728326 AAATTGGACA
728336 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
728388 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
728439 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:728939 original size:233 final size:233
Alignment explanation
Indices: 728532--728997 Score: 905
Period size: 233 Copynumber: 2.0 Consensus size: 233
728522 AGCGAAGAAC
728532 ATCTTTGTGCGAGAGGATAAGGGTTTCCCGTCCCAAGGGAAGTGAAGAGGATGGCCATATATTAG
1 ATCTTTGTGCGAGAGGATAAGGGTTTCCCGTCCCAAGGGAAGTGAAGAGGATGGCCATATATTAG
* *
728597 GATAAACTACGTATTTAGTACTTGAATTATTAATTTTGATCTATTTTAGTTTCTAAACTTTTAAT
66 GATAAACTACATATTTAATACTTGAATTATTAATTTTGATCTATTTTAGTTTCTAAACTTTTAAT
728662 AGTTTTAAAACTATGTCTAATGTTTAGCTTTTGTTTATTTTAGTGTCCCGCAGTTAAAACTTTAT
131 AGTTTTAAAACTATGTCTAATGTTTAGCTTTTGTTTATTTTAGTGTCCCGCAGTTAAAACTTTAT
728727 GCGTTTAGCATTTAAACTATAGATTTTGGTCTGTTTTA
196 GCGTTTAGCATTTAAACTATAGATTTTGGTCTGTTTTA
728765 ATCTTTGTGCGAGAGGATAAGGGTTTCCCGTCCCAAGGGAAGTGAAGAGGATGGCCATATATTAG
1 ATCTTTGTGCGAGAGGATAAGGGTTTCCCGTCCCAAGGGAAGTGAAGAGGATGGCCATATATTAG
728830 GATAAACTACATATTTAATACTTGAATTATTAATTTTGATCTATTTTAGTTTCTAAACTTTTAAT
66 GATAAACTACATATTTAATACTTGAATTATTAATTTTGATCTATTTTAGTTTCTAAACTTTTAAT
*
728895 AGTTTTAAAACTATGTTTAATGTTTAGCTTTTGTTTATTTTAGTGTCCCGCAGTTAAAACTTTAT
131 AGTTTTAAAACTATGTCTAATGTTTAGCTTTTGTTTATTTTAGTGTCCCGCAGTTAAAACTTTAT
728960 GCGTTTAGCATTTAAACTATAGATTTTGGTCTGTTTTA
196 GCGTTTAGCATTTAAACTATAGATTTTGGTCTGTTTTA
728998 GTACCTAAAC
Statistics
Matches: 230, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
233 230 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (233 bp):
ATCTTTGTGCGAGAGGATAAGGGTTTCCCGTCCCAAGGGAAGTGAAGAGGATGGCCATATATTAG
GATAAACTACATATTTAATACTTGAATTATTAATTTTGATCTATTTTAGTTTCTAAACTTTTAAT
AGTTTTAAAACTATGTCTAATGTTTAGCTTTTGTTTATTTTAGTGTCCCGCAGTTAAAACTTTAT
GCGTTTAGCATTTAAACTATAGATTTTGGTCTGTTTTA
Found at i:730808 original size:15 final size:15
Alignment explanation
Indices: 730788--730818 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
730778 AGAGACTCAA
730788 ACCTATACCCTTTAT
1 ACCTATACCCTTTAT
730803 ACCTATACCCTTTAT
1 ACCTATACCCTTTAT
730818 A
1 A
730819 ATGGTTTATT
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:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (15 bp):
ACCTATACCCTTTAT
Found at i:731141 original size:2 final size:2
Alignment explanation
Indices: 731136--731160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
731126 TATTCGTGTG
731136 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
731161 GATTGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:731940 original size:20 final size:20
Alignment explanation
Indices: 731915--732039 Score: 178
Period size: 20 Copynumber: 6.2 Consensus size: 20
731905 TTCGTGTTGT
*
731915 GAATTCGGAATTAGCGTCGC
1 GAATTAGGAATTAGCGTCGC
* * *
731935 GAATTCGAAACTAGCGTCGC
1 GAATTAGGAATTAGCGTCGC
* *
731955 GAATTCGGAATTAGCGTCGT
1 GAATTAGGAATTAGCGTCGC
731975 GAATTAGGAATTAGCGTCGC
1 GAATTAGGAATTAGCGTCGC
*
731995 GGATTAGGAATTAGCGTCGC
1 GAATTAGGAATTAGCGTCGC
*
732015 GGATTAGGAATTAGCGTCGC
1 GAATTAGGAATTAGCGTCGC
732035 GAATT
1 GAATT
732040 TGAAAAATCG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 96 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
GAATTAGGAATTAGCGTCGC
Found at i:733860 original size:2 final size:2
Alignment explanation
Indices: 733849--733889 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
733839 CTGAATAAAA
733849 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
733890 CTTATAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:733967 original size:23 final size:23
Alignment explanation
Indices: 733941--734000 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 23
733931 GATTCAACCC
*
733941 ATATATATTATATTTTG--AAAT
1 ATATATATTATATTTAGATAAAT
733962 ATATATGAATTAT-TTTAGATAAAT
1 ATATAT--ATTATATTTAGATAAAT
*
733986 AT-TTTATTATATTTA
1 ATATATATTATATTTA
734001 TATTGATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 11 0.34
22 8 0.25
23 7 0.22
24 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
ATATATATTATATTTAGATAAAT
Found at i:737640 original size:39 final size:39
Alignment explanation
Indices: 737592--737686 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 39
737582 CAAATTATTT
*
737592 CACTTTAACATTCTAAATGT-ATAATTTCTTAAAT-TTTGC
1 CACTATAACATTCTAAAT-TCATAATTTCTTAAATGTTT-C
* * *
737631 CACTATAACATTATAAATTCTTAATTTCTTAAATGTTTT
1 CACTATAACATTCTAAATTCATAATTTCTTAAATGTTTC
737670 CAC-ATTAACATTCTAAA
1 CACTA-TAACATTCTAAA
737687 GTACTTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.04
39 43 0.90
40 3 0.06
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (39 bp):
CACTATAACATTCTAAATTCATAATTTCTTAAATGTTTC
Found at i:737871 original size:16 final size:16
Alignment explanation
Indices: 737837--737873 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
737827 CTTTAAATTT
* *
737837 TAATATTTTTTCTATA
1 TAATATTTTTTCAAAA
737853 TAATATTTTTTCAAAA
1 TAATATTTTTTCAAAA
737869 TAATA
1 TAATA
737874 AGATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATATTTTTTCAAAA
Found at i:740730 original size:13 final size:13
Alignment explanation
Indices: 740704--740738 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
740694 CAATCCTGGC
740704 GACATACG-GGGT
1 GACATACGAGGGT
740716 GACATACGAGGGT
1 GACATACGAGGGT
740729 GACATACGAG
1 GACATACGAG
740739 CCATATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (13 bp):
GACATACGAGGGT
Found at i:740785 original size:22 final size:22
Alignment explanation
Indices: 740754--740833 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
740744 TACGAGTCAT
*
740754 ACGAGCCAATGGGGAGGATGCA
1 ACGAGCCAATGGGGAGCATGCA
*
740776 ACGAGGCAATGGGGAGCATGCAGGAA
1 ACGAGCCAATGGGGAGCATGC----A
*
740802 TAGAGAGCCAATGGGGAGCATGCA
1 -A-CGAGCCAATGGGGAGCATGCA
740826 ACGAGCCA
1 ACGAGCCA
740834 TATACGAGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 25 0.53
23 1 0.02
24 1 0.02
26 1 0.02
27 1 0.02
28 18 0.38
ACGTcount: A:0.34, C:0.19, G:0.39, T:0.09
Consensus pattern (22 bp):
ACGAGCCAATGGGGAGCATGCA
Found at i:740814 original size:28 final size:28
Alignment explanation
Indices: 740782--740947 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
740772 TGCAACGAGG
740782 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
740810 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
* *
740843 CCACGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
740871 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
740904 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
740932 CAATGGGGAGCATGCA
1 CAATGGGGAGCATGCA
740948 ACGAGCCATA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 52 0.45
29 10 0.09
30 4 0.03
31 4 0.03
32 10 0.09
33 36 0.31
ACGTcount: A:0.34, C:0.20, G:0.36, T:0.11
Consensus pattern (28 bp):
CAATGGGGAGCATGCAGGAATAGAGAGC
Found at i:740814 original size:50 final size:51
Alignment explanation
Indices: 740756--740981 Score: 213
Period size: 61 Copynumber: 4.1 Consensus size: 51
740746 CGAGTCATAC
* *
740756 GAGCCAATGGGGAGGATGCAACGAGGCA-ATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
740806 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCCACGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATAT----------GGGGAGCATGCAGGAATAGA
740867 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCC--AT--------ATGGGGAGCATGCAGGAATAGA
**
740928 GAGCCAATGGGGAGCATGCAACGAGCCATAT-ACGAGCCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAG-CATGCAGGAATAGA
740979 GAG
1 GAG
740982 GTCGCCATGC
Statistics
Matches: 150, Mismatches: 4, Indels: 43
0.76 0.02 0.22
Matches are distributed among these distances:
50 29 0.19
51 21 0.14
59 2 0.01
61 94 0.63
63 2 0.01
71 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.36, T:0.11
Consensus pattern (51 bp):
GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
Found at i:740871 original size:61 final size:61
Alignment explanation
Indices: 740776--740966 Score: 346
Period size: 61 Copynumber: 3.1 Consensus size: 61
740766 GGAGGATGCA
* *
740776 ACGAGGCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
740837 ACGAGCCCACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
740898 ACGAGCCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
740959 ACGAGCCA
1 ACGAGCCA
740967 TGCAGGAATA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.34, C:0.21, G:0.35, T:0.10
Consensus pattern (61 bp):
ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
Found at i:741030 original size:29 final size:29
Alignment explanation
Indices: 740980--741088 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
740970 AGGAATAGAG
* *
740980 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
741009 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
741038 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
741067 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
741089 CCATTCCATC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:741206 original size:36 final size:37
Alignment explanation
Indices: 741138--741211 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
741128 CATAGATTCC
741138 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
741175 TTCACGTGCTCCCCGCTGCA-TGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
741211 T
1 T
741212 GCATGCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.16, C:0.46, G:0.14, T:0.24
Consensus pattern (37 bp):
TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
Found at i:741239 original size:18 final size:18
Alignment explanation
Indices: 741216--741250 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
741206 CCCAATGCAT
741216 GCATGTGAACCATTTGAG
1 GCATGTGAACCATTTGAG
741234 GCATGTGAACCATTTGA
1 GCATGTGAACCATTTGA
741251 TTATTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GCATGTGAACCATTTGAG
Found at i:741368 original size:23 final size:23
Alignment explanation
Indices: 741340--741385 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
741330 AAAAGAAAGA
741340 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
741363 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
741386 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:741400 original size:25 final size:23
Alignment explanation
Indices: 741340--741400 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
741330 AAAAGAAAGA
**
741340 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
741363 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
741386 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
741401 AGAAAGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:741424 original size:21 final size:21
Alignment explanation
Indices: 741388--741446 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
741378 GATTGCAGCC
741388 GAGAAA-GAAAGAAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
*
741408 GAGAAAGGAAAGGAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
*
741429 GAGAAAGGAAAGTAAGAA
1 GAGAAAGGAAAGAAAGAA
741447 GAAGAAAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (21 bp):
GAGAAAGGAAAGAAAGAAAGG
Found at i:741687 original size:46 final size:48
Alignment explanation
Indices: 741648--741738 Score: 134
Period size: 46 Copynumber: 1.9 Consensus size: 48
741638 TTATATAGTT
741648 AAAAA-TAATTAATTAGTTTGTATT-GTT-AATAGTTAGTTATATAAA
1 AAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATAAA
* *
741693 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTT-AGTTATAT
741739 TTGTTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 5 0.12
46 17 0.43
47 3 0.08
48 7 0.17
49 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (48 bp):
AAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATAAA
Found at i:744064 original size:13 final size:14
Alignment explanation
Indices: 744036--744064 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
744026 ACTCGTTTGC
744036 TATTTATTACAAAT
1 TATTTATTACAAAT
744050 TATTTATTA-AAAT
1 TATTTATTACAAAT
744063 TA
1 TA
744065 GACTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTATTACAAAT
Found at i:744132 original size:14 final size:13
Alignment explanation
Indices: 744113--744155 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
744103 AAATCATTAC
744113 TAGTATCAAATAAT
1 TAGTAT-AAATAAT
*
744127 TAGTATTAAATCAT
1 TAGTA-TAAATAAT
*
744141 TATTATAAATAAT
1 TAGTATAAATAAT
744154 TA
1 TA
744156 CTAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.36
14 15 0.60
15 1 0.04
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (13 bp):
TAGTATAAATAAT
Found at i:744145 original size:17 final size:17
Alignment explanation
Indices: 744095--744145 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
744085 ACAATGATTT
744095 TTAGTATCAAATCATTA
1 TTAGTATCAAATCATTA
*
744112 CTAGTATCAAAT-A--A
1 TTAGTATCAAATCATTA
*
744126 TTAGTATTAAATCATTA
1 TTAGTATCAAATCATTA
744143 TTA
1 TTA
744146 TAAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 1 0.04
17 15 0.54
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (17 bp):
TTAGTATCAAATCATTA
Found at i:744193 original size:14 final size:13
Alignment explanation
Indices: 744174--744416 Score: 103
Period size: 14 Copynumber: 17.8 Consensus size: 13
744164 TAACATAATA
744174 ATTATTATAAAATC
1 ATTATTAT-AAATC
*
744188 ATTATTAT-AATG
1 ATTATTATAAATC
744200 ATTATTATCAAATC
1 ATTATTAT-AAATC
744214 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
744233 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
744249 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
744260 ATTTTTAT-AATG
1 ATTATTATAAATC
744272 ATTATTACTAAATC
1 ATTATTA-TAAATC
* *
744286 ATTACTAT-AATG
1 ATTATTATAAATC
744298 ATTATTATCAAATC
1 ATTATTAT-AAATC
744312 ATTACTAATCATCAAATC
1 ATTA-T--T-AT-AAATC
*
744330 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
744346 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
744357 ATTTTTAT-AATG
1 ATTATTATAAATC
744369 ATTATTACTAAATC
1 ATTATTA-TAAATC
*
744383 ATTA-T-T-AATG
1 ATTATTATAAATC
744393 ATTATTATCAAATC
1 ATTATTAT-AAATC
*
744407 ATTACTATAA
1 ATTATTATAA
744417 TGATTATCAA
Statistics
Matches: 181, Mismatches: 19, Indels: 59
0.70 0.07 0.23
Matches are distributed among these distances:
10 7 0.04
11 20 0.11
12 44 0.24
13 8 0.04
14 50 0.28
15 2 0.01
16 16 0.09
17 3 0.02
18 16 0.09
19 12 0.07
20 2 0.01
21 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATTATAAATC
Found at i:744197 original size:26 final size:25
Alignment explanation
Indices: 744121--744315 Score: 104
Period size: 26 Copynumber: 7.8 Consensus size: 25
744111 ACTAGTATCA
*
744121 AATAATTAGTATTAAATCATTATTAT
1 AATAATTATTA-TAAATCATTATTAT
* * **
744147 AAATAATTA--CTAAAT-AATAACAT
1 -AATAATTATTATAAATCATTATTAT
744170 AATAATTATTATAAAATCATTATTAT
1 AATAATTATTAT-AAATCATTATTAT
* *
744196 AATGATTATTATCAAATCATTACTA-
1 AATAATTATTAT-AAATCATTATTAT
* * *
744221 AATCATCAAATCATTAAAT-A-T-TTA-
1 AATAAT--TATTA-TAAATCATTATTAT
* *
744245 AATCATTA-T-TAAATCATTTTTAT
1 AATAATTATTATAAATCATTATTAT
* *
744268 AATGATTATTACTAAATCATTACTAT
1 AATAATTATTA-TAAATCATTATTAT
*
744294 AATGATTATTATCAAATCATTA
1 AATAATTATTAT-AAATCATTA
744316 CTAATCATCA
Statistics
Matches: 133, Mismatches: 20, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
19 5 0.04
20 1 0.01
21 1 0.01
22 12 0.09
23 12 0.09
24 15 0.11
25 11 0.08
26 60 0.45
27 15 0.11
28 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (25 bp):
AATAATTATTATAAATCATTATTAT
Found at i:744205 original size:12 final size:12
Alignment explanation
Indices: 744130--744207 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 12
744120 AAATAATTAG
*
744130 TATTA-AATCAT
1 TATTATAATAAT
744141 TATTATAAATAAT
1 TATTAT-AATAAT
*
744154 TACTA-AATAA-
1 TATTATAATAAT
**
744164 TAACATAATAAT
1 TATTATAATAAT
*
744176 TATTATAAAATCAT
1 TATTAT--AATAAT
*
744190 TATTATAATGAT
1 TATTATAATAAT
744202 TATTAT
1 TATTAT
744208 CAAATCATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
10 3 0.06
11 15 0.28
12 15 0.28
13 9 0.17
14 11 0.21
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (12 bp):
TATTATAATAAT
Found at i:744223 original size:11 final size:11
Alignment explanation
Indices: 744209--744442 Score: 51
Period size: 11 Copynumber: 21.6 Consensus size: 11
744199 GATTATTATC
744209 AAATCATTACT
1 AAATCATTACT
744220 AAATCA-T-C-
1 AAATCATTACT
744228 AAATCA-T--T
1 AAATCATTACT
744236 AAAT-ATT--T
1 AAATCATTACT
*
744244 AAATCATTATT
1 AAATCATTACT
**
744255 AAATCATTTTT
1 AAATCATTACT
*
744266 ATAATGATTATTACT
1 A-AATCA-T--TACT
744281 AAATCATTACT
1 AAATCATTACT
* *
744292 ATAATGATTATTAT
1 A-AATCATTA--CT
744306 CAAATCATTACT
1 -AAATCATTACT
744318 -AATCA-T-C-
1 AAATCATTACT
744325 AAATCA-T--T
1 AAATCATTACT
744333 AAAT-ATT--T
1 AAATCATTACT
*
744341 AAATCATTATT
1 AAATCATTACT
**
744352 AAATCATTTTT
1 AAATCATTACT
*
744363 ATAATGATTATTACT
1 A-AATCA-T-T-ACT
*
744378 AAATCATTATT
1 AAATCATTACT
*
744389 AATGATTATTA-T
1 AA--ATCATTACT
744401 CAAATCATTACT
1 -AAATCATTACT
*
744413 ATAATGATTA-T
1 A-AATCATTACT
744424 CAAATCATTACT
1 -AAATCATTACT
744436 AAATCAT
1 AAATCAT
744443 CAAATCATTA
Statistics
Matches: 174, Mismatches: 19, Indels: 60
0.69 0.08 0.24
Matches are distributed among these distances:
7 2 0.01
8 34 0.20
9 8 0.05
10 6 0.03
11 61 0.35
12 28 0.16
13 12 0.07
14 17 0.10
15 6 0.03
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATCATTACT
Found at i:744316 original size:26 final size:26
Alignment explanation
Indices: 744249--744436 Score: 145
Period size: 26 Copynumber: 7.7 Consensus size: 26
744239 TATTTAAATC
* **
744249 ATTATTAAATCATTTTTATAATGATT
1 ATTATCAAATCATTACTATAATGATT
744275 ATTA-CTAAATCATTACTATAATGATT
1 ATTATC-AAATCATTACTATAATGATT
* * *
744301 ATTATCAAATCATTACTAATCATCA-A
1 ATTATCAAATCATTACT-ATAATGATT
* * *
744327 ATCATTAAAT-ATT--TA-AATCATT
1 ATTATCAAATCATTACTATAATGATT
**
744349 A-T-T-AAATCATTTTTATAATGATT
1 ATTATCAAATCATTACTATAATGATT
744372 ATTA-CTAAATCATTA-T-TAATGATT
1 ATTATC-AAATCATTACTATAATGATT
744396 ATTATCAAATCATTACTATAATG---
1 ATTATCAAATCATTACTATAATGATT
744419 ATTATCAAATCATTACTA
1 ATTATCAAATCATTACTA
744437 AATCATCAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 33
0.74 0.07 0.18
Matches are distributed among these distances:
19 4 0.03
20 4 0.03
21 4 0.03
22 4 0.03
23 26 0.19
24 22 0.16
25 6 0.04
26 58 0.43
27 6 0.04
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.44
Consensus pattern (26 bp):
ATTATCAAATCATTACTATAATGATT
Found at i:744349 original size:97 final size:96
Alignment explanation
Indices: 744168--744413 Score: 433
Period size: 97 Copynumber: 2.5 Consensus size: 96
744158 AAATAATAAC
*
744168 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTA-TATAATGATTATTATCAAATCATTACT-AATCATCAAAT
744232 CATTAAATATTTAAATCATTATTAAATCATTTTT
63 CATTAAATATTTAAATCATTATTAAATCATTTTT
744266 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAATCATCAAATCA
1 ATAATGATTATTACTAAATCATTA-TATAATGATTATTATCAAATCATTACTAATCATCAAATCA
744331 TTAAATATTTAAATCATTATTAAATCATTTTT
65 TTAAATATTTAAATCATTATTAAATCATTTTT
744363 ATAATGATTATTACTAAATCATTAT-TAATGATTATTATCAAATCATTACTA
1 ATAATGATTATTACTAAATCATTATATAATGATTATTATCAAATCATTACTA
744414 TAATGATTAT
Statistics
Matches: 145, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
95 26 0.18
96 1 0.01
97 69 0.48
98 48 0.33
99 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (96 bp):
ATAATGATTATTACTAAATCATTATATAATGATTATTATCAAATCATTACTAATCATCAAATCAT
TAAATATTTAAATCATTATTAAATCATTTTT
Found at i:744470 original size:119 final size:121
Alignment explanation
Indices: 744249--744491 Score: 404
Period size: 119 Copynumber: 2.0 Consensus size: 121
744239 TATTTAAATC
* *
744249 ATTATTAAATCATTTTTATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTACTAAATCATTTATATAATGATTATTACTAAATCATTACTATAATG--TATTATCAAATCAT
744314 TACTAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
64 TACTAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
744372 ATTACTAAATCA-TTAT-TAATGATTATTA-TCAAATCATTACTATAATG-ATTATCAAATCATT
1 ATTACTAAATCATTTATATAATGATTATTACT-AAATCATTACTATAATGTATTATCAAATCATT
744433 ACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
65 ACT-AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
744491 A
1 A
744492 ATAAATACAT
Statistics
Matches: 116, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
118 17 0.15
119 55 0.47
120 1 0.01
121 29 0.25
122 3 0.03
123 11 0.09
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (121 bp):
ATTACTAAATCATTTATATAATGATTATTACTAAATCATTACTATAATGTATTATCAAATCATTA
CTAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
Found at i:744496 original size:23 final size:23
Alignment explanation
Indices: 744338--744497 Score: 62
Period size: 23 Copynumber: 6.8 Consensus size: 23
744328 TCATTAAATA
* *
744338 TTTA-AATCATTATTAAATCATT
1 TTTATAATGATTAATAAATCATT
744360 TTTATAATGATTATTACTAAATCA-T
1 TTTATAATGATTA--A-TAAATCATT
*
744385 TAT-TAATGATTATTATCAAATCATT
1 TTTATAATGATTA--AT-AAATCATT
**
744410 ACTATAATGATT-ATCAAATCATT
1 TTTATAATGATTAAT-AAATCATT
** * * * * * *
744433 ACTA-AATCATCAAATCATTAAATA
1 TTTATAATGAT-TAATAAAT-CATT
* *
744457 TTTA-AATCATTATTAAATCATT
1 TTTATAATGATTAATAAATCATT
744479 TTTATAATGATTAATAAAT
1 TTTATAATGATTAATAAAT
744498 ACATAGAAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
22 15 0.14
23 41 0.39
24 30 0.28
25 5 0.05
26 15 0.14
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (23 bp):
TTTATAATGATTAATAAATCATT
Found at i:744497 original size:58 final size:58
Alignment explanation
Indices: 744318--744497 Score: 195
Period size: 58 Copynumber: 3.1 Consensus size: 58
744308 AATCATTACT
744318 AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTA
1 AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTA--A-TA
* * * * * * * * * *
744379 AATCATTATTAATGATT-ATTA-TCAAATCATTACTATAATGATTATCA-AATCATTACTA
1 AATCATCA--AATCATTAAATATTTAAATCATTATTA-AATCATTTTTATAATGATTAATA
744437 AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTAATA
1 AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTAATA
744495 AAT
1 AAT
744498 ACATAGAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 15
0.73 0.16 0.12
Matches are distributed among these distances:
56 6 0.06
57 11 0.12
58 33 0.35
61 26 0.28
62 11 0.12
63 6 0.06
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (58 bp):
AATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTAATA
Found at i:747361 original size:26 final size:24
Alignment explanation
Indices: 747303--747361 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
747293 CTAATAAACC
*
747303 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
747327 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
747355 TAATAAT
1 TAATAAT
747362 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:748223 original size:28 final size:28
Alignment explanation
Indices: 748156--748216 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
748146 TAATTTTTTA
*
748156 TAATATAATATAACTTAAACTAATAAAC
1 TAATATAATATAACTTAAACTAACAAAC
748184 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
748212 TAATA
1 TAATA
748217 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:748226 original size:21 final size:21
Alignment explanation
Indices: 748193--748241 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
748183 CTAATATAAT
748193 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
748214 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
748235 ATTAACT
1 A-TAACT
748242 AGATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:748877 original size:29 final size:29
Alignment explanation
Indices: 748845--748924 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
748835 TATACCTTGG
*
748845 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
748874 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
748903 AGGTCGCCTGGATTGCATGGCG
1 AGGTCGCCTGGATTGCATGGCG
748925 TCCTATGGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:749366 original size:29 final size:29
Alignment explanation
Indices: 749280--749359 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
749270 CGCCATAGGA
749280 CGCCATGCAATCCAGGCGACCTTGGAGGT
1 CGCCATGCAATCCAGGCGACCTTGGAGGT
749309 CGCCATGCAATCCAGGCGACCTTGGAGGT
1 CGCCATGCAATCCAGGCGACCTTGGAGGT
*
749338 CGCCATGCAATCCGGGCGACCT
1 CGCCATGCAATCCAGGCGACCT
749360 CCAAGGTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (29 bp):
CGCCATGCAATCCAGGCGACCTTGGAGGT
Found at i:749993 original size:21 final size:21
Alignment explanation
Indices: 749968--750011 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
749958 AATCTAGTTA
749968 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
749989 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
750010 AT
1 AT
750012 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:750021 original size:28 final size:30
Alignment explanation
Indices: 749988--750050 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
749978 TAGTATAAAT
*
749988 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
750016 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
750046 TATTA
1 TATTA
750051 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:750880 original size:26 final size:25
Alignment explanation
Indices: 750851--750909 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
750841 AAATCATATT
*
750851 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
750877 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
750903 ATTATTA
1 ATTATTA
750910 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:753751 original size:22 final size:19
Alignment explanation
Indices: 753719--753767 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
753709 TATTTCTATG
*
753719 TATTTATTAATCATTATAAAA
1 TATTTAATAATCATT-T-AAA
*
753740 TGATTTAATAATGATTTAAA
1 T-ATTTAATAATCATTTAAA
753760 TATTTAAT
1 TATTTAAT
753768 GATTTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.28
20 4 0.16
21 2 0.08
22 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TATTTAATAATCATTTAAA
Found at i:753809 original size:26 final size:25
Alignment explanation
Indices: 753780--754054 Score: 200
Period size: 26 Copynumber: 11.0 Consensus size: 25
753770 TTTGATGATT
753780 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
753806 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
753832 TAATAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
753858 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
753880 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
753904 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
753930 TAGTAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
753956 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
753978 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
754002 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
* *
754028 TAATAATGATTTTATAATAATTATTA
1 TAGTAATGA-TTTATAATAATCATTA
754054 T
1 T
754055 GTTATTATTT
Statistics
Matches: 208, Mismatches: 20, Indels: 42
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.01
20 10 0.05
22 6 0.03
23 22 0.11
24 18 0.09
25 18 0.09
26 117 0.56
27 15 0.07
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (25 bp):
TAGTAATGATTTATAATAATCATTA
Found at i:753914 original size:98 final size:98
Alignment explanation
Indices: 753806--754054 Score: 464
Period size: 98 Copynumber: 2.5 Consensus size: 98
753796 ATAATCATTA
753806 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
753871 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
*
753904 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
753969 ATAATGATTTAAATATTTAATGATTTGATGATT
66 ATAATGATTTAAATATTTAATGATTTGATGATT
*
754002 TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA-TAATAATTATTAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGA-TTTAGTAATAATCATTAT
754055 GTTATTATTT
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 143 0.97
99 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (98 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
ATAATGATTTAAATATTTAATGATTTGATGATT
Found at i:753956 original size:124 final size:123
Alignment explanation
Indices: 753726--753973 Score: 453
Period size: 124 Copynumber: 2.0 Consensus size: 123
753716 ATGTATTTAT
753726 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
1 TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
* *
753791 TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAAAATGATTTAATAA
753849 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
753914 TTGATAATAATCATTATAGTAATGATTT-AGTAATAATCATTATAAAAATGATTTAATAA
65 TTGATAATAATCATTATAGTAATGATTTGA-TAATAATCATTATAAAAATGATTTAATAA
753973 T
1 T
753974 GATTTAAATA
Statistics
Matches: 121, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
123 11 0.09
124 110 0.91
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (123 bp):
TAATCATTATAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
TGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAAAATGATTTAATAA
Found at i:754114 original size:17 final size:17
Alignment explanation
Indices: 754094--754126 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
754084 GATTTAATAC
*
754094 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
754111 TAATGATTTGATACTA
1 TAATGATTTGATACTA
754127 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:756581 original size:43 final size:43
Alignment explanation
Indices: 756493--756613 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
756483 AAATATAACT
*
756493 TAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTTATA
1 TAACTA-TTAACTAACACAAACTAATTAAATAATTTTTTCTATA
* *
756537 TAACTATTAAC-AATACAAACTAATT-AATTATTTTTTAACTATA
1 TAACTATTAACTAACACAAACTAATTAAATAATTTTTT--CTATA
* * *
756580 TAACTA-T--CAAACATATACTAATTAAATAATTTTT
1 TAACTATTAACTAACACAAACTAATTAAATAATTTTT
756614 AATTTATGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
40 1 0.02
41 21 0.32
42 23 0.35
43 15 0.23
44 6 0.09
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (43 bp):
TAACTATTAACTAACACAAACTAATTAAATAATTTTTTCTATA
Found at i:756641 original size:41 final size:40
Alignment explanation
Indices: 756553--756641 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
756543 TTAACAATAC
* * * *
756553 AAACTAATTAATTATTTTTTAA-CTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAATTTATATAACTAT--AACTT
* *
756594 ATACTAATTAAATAATTTTTAATTTATGTATACTATAACTT
1 AAACTAATTAAATAATTTTTAATTTATATA-ACTATAACTT
756635 AAACTAA
1 AAACTAA
756642 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAATTTATATAACTATAACTT
Found at i:756806 original size:21 final size:21
Alignment explanation
Indices: 756776--756834 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
756766 CCCTTTCTTC
756776 TTCTTACTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
756797 TTCTTCCTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
756818 TTCTTTCTTT-CTTTCTC
1 TTCTTACTTTCCTTTCTC
756835 GGCTGCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTTACTTTCCTTTCTCCCT
Found at i:756867 original size:23 final size:23
Alignment explanation
Indices: 756837--756882 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
756827 TCTTTCTCGG
756837 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
756860 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
756883 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:756995 original size:18 final size:18
Alignment explanation
Indices: 756972--757006 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
756962 GTACCAATAA
756972 TCAAATGGTTCACATGCC
1 TCAAATGGTTCACATGCC
756990 TCAAATGGTTCACATGC
1 TCAAATGGTTCACATGC
757007 ATGCATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TCAAATGGTTCACATGCC
Found at i:757058 original size:36 final size:37
Alignment explanation
Indices: 757011--757084 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
757001 ACATGCATGC
757011 ATTGGGAGGTGTAGGC-ATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
757047 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
757084 A
1 A
757085 GGAATCTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
Found at i:757167 original size:29 final size:29
Alignment explanation
Indices: 757134--757242 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
757124 GATGGAATGG
757134 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
757163 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
757192 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
757221 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
757243 CTCTATTCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:757315 original size:28 final size:28
Alignment explanation
Indices: 757275--757440 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
757265 TATGGCTCGT
757275 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* *
757303 TGCATGCTCCCCATTGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
757336 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* * * *
757364 TGCATGCTCCCCGTGGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
757397 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
757425 TGCATGCTCCCCATTG
1 TGCATGCTCCCCATTG
757441 CCTCGTTGCA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 54 0.47
29 12 0.10
32 12 0.10
33 38 0.33
ACGTcount: A:0.11, C:0.36, G:0.20, T:0.34
Consensus pattern (28 bp):
TGCATGCTCCCCATTGGCTCTCTATTCC
Found at i:757331 original size:61 final size:61
Alignment explanation
Indices: 757256--757446 Score: 355
Period size: 61 Copynumber: 3.1 Consensus size: 61
757246 TATTCCTGCA
757256 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
757317 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCGT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
757378 GGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
757439 TGCCTCGT
1 TGGCTCGT
757447 TGCATCCTCC
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.10, C:0.35, G:0.21, T:0.34
Consensus pattern (61 bp):
TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
Found at i:757414 original size:22 final size:22
Alignment explanation
Indices: 757389--757468 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
757379 GGCTCGTATA
757389 TGGCTCGTTGCATGCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
*
757411 TGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGG--CTC--GT--TGCATGCTCCCCAT
* *
757439 TGCCTCGTTGCATCCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
757461 TGGCTCGT
1 TGGCTCGT
757469 ATGACTCGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 23 0.49
24 4 0.09
26 4 0.09
28 16 0.34
ACGTcount: A:0.09, C:0.39, G:0.19, T:0.34
Consensus pattern (22 bp):
TGGCTCGTTGCATGCTCCCCAT
Found at i:757516 original size:12 final size:13
Alignment explanation
Indices: 757484--757518 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
757474 TCGTATATGG
757484 CTCGTATGTCACC
1 CTCGTATGTCACC
757497 CTCGTATGTCACC
1 CTCGTATGTCACC
757510 C-CGTATGTC
1 CTCGTATGTC
757519 GCCAGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (13 bp):
CTCGTATGTCACC
Found at i:765165 original size:17 final size:19
Alignment explanation
Indices: 765143--765179 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
765133 TGGGTTAGGG
765143 TTAGGGATTT-AG-ATTTT
1 TTAGGGATTTGAGAATTTT
765160 TTAGGGATTTGAGAATTTT
1 TTAGGGATTTGAGAATTTT
765179 T
1 T
765180 GCAATTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (19 bp):
TTAGGGATTTGAGAATTTT
Found at i:765895 original size:29 final size:29
Alignment explanation
Indices: 765866--765923 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
765856 TAAAGAAAAT
765866 AAAATACCTAAAG-AAAATAAAATCCTAATA
1 AAAAT-CCT-AAGCAAAATAAAATCCTAATA
* *
765896 AAAATCCTTAGCAAACTAAAATCCTAAT
1 AAAATCCTAAGCAAAATAAAATCCTAAT
765924 TAATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 18 0.72
30 5 0.20
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAATCCTAAGCAAAATAAAATCCTAATA
Found at i:765900 original size:17 final size:18
Alignment explanation
Indices: 765855--765893 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
765845 TTGAGAAAGT
765855 CTAAAGAAAATAAAATAC
1 CTAAAGAAAATAAAATAC
765873 CTAAAGAAAATAAAAT-C
1 CTAAAGAAAATAAAATAC
765890 CTAA
1 CTAA
765894 TAAAAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (18 bp):
CTAAAGAAAATAAAATAC
Found at i:771455 original size:2 final size:2
Alignment explanation
Indices: 771448--771522 Score: 136
Period size: 2 Copynumber: 38.5 Consensus size: 2
771438 GTCTTGAGTC
771448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
771490 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
771523 ATTTTAAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 69 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:771535 original size:21 final size:21
Alignment explanation
Indices: 771488--771556 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
771478 ATATATATAT
* * *
771488 ATATATATATATAATATATATAT
1 ATATATAT-TATAAT-TTTAAAA
771511 ATATATATTATAATTTTAAAA
1 ATATATATTATAATTTTAAAA
* *
771532 ATATTTTTTAT-ATTTTAAAA
1 ATATATATTATAATTTTAAAA
771552 A-ATAT
1 ATATAT
771557 TAAAATATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.08
20 10 0.25
21 13 0.32
22 6 0.15
23 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATATTATAATTTTAAAA
Found at i:771548 original size:20 final size:22
Alignment explanation
Indices: 771518--771557 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
771508 TATATATATA
771518 TTATAATTTT-AAAAATATTTT
1 TTATAATTTTAAAAAATATTTT
771539 TTAT-ATTTTAAAAAATATT
1 TTATAATTTTAAAAAATATT
771558 AAAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATAATTTTAAAAAATATTTT
Found at i:776784 original size:9 final size:9
Alignment explanation
Indices: 776770--776863 Score: 71
Period size: 10 Copynumber: 9.8 Consensus size: 9
776760 GGCTGCTGGA
776770 AACCGGTTT
1 AACCGGTTT
776779 AACCGGTTTT
1 AACCGG-TTT
776789 CAACCGGTTCT
1 -AACCGGTT-T
*
776800 GACCGGTTT
1 AACCGGTTT
*
776809 GACCGGTTT
1 AACCGGTTT
*
776818 CAACCGGTTCG
1 -AACCGGTT-T
776829 AACCGGTTT
1 AACCGGTTT
* *
776838 GACCGGTCT
1 AACCGGTTT
*
776847 GACTCGGTTT
1 AAC-CGGTTT
*
776857 GACCGGT
1 AACCGGT
776864 CTGACCGACC
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
9 30 0.42
10 35 0.49
11 7 0.10
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:776806 original size:10 final size:9
Alignment explanation
Indices: 776771--776870 Score: 92
Period size: 9 Copynumber: 10.4 Consensus size: 9
776761 GCTGCTGGAA
*
776771 ACCGGTTTA
1 ACCGGTTTG
*
776780 ACCGGTTTTCA
1 ACCGG-TTT-G
776791 ACCGGTTCTG
1 ACCGGTT-TG
776801 ACCGGTTTG
1 ACCGGTTTG
*
776810 ACCGGTTTCA
1 ACCGGTTT-G
*
776820 ACCGGTTCG
1 ACCGGTTTG
776829 AACCGGTTTG
1 -ACCGGTTTG
*
776839 ACCGGTCTG
1 ACCGGTTTG
776848 ACTCGGTTTG
1 AC-CGGTTTG
*
776858 ACCGGTCTG
1 ACCGGTTTG
776867 ACCG
1 ACCG
776871 ACCGACCGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 35 0.45
10 35 0.45
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:776815 original size:19 final size:19
Alignment explanation
Indices: 776772--776870 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
776762 CTGCTGGAAA
* * *
776772 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
776792 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
776811 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
776831 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
776849 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
776868 CCG
1 CCG
776871 ACCGACCGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 7 0.10
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.29
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:776833 original size:29 final size:30
Alignment explanation
Indices: 776770--776844 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
776760 GGCTGCTGGA
*
776770 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
776801 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
776829 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
776845 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:776854 original size:29 final size:28
Alignment explanation
Indices: 776771--776870 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
776761 GCTGCTGGAA
* *
776771 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
776801 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
776829 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
776858 ACCGGTCTGACCG
1 ACCGGTTTGACCG
776871 ACCGACCGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 15 0.24
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:776891 original size:5 final size:5
Alignment explanation
Indices: 776881--776921 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
776871 ACCGACCGTT
*
776881 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
776922 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:776899 original size:22 final size:22
Alignment explanation
Indices: 776868--776928 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
776858 ACCGGTCTGA
776868 CCGA-CCGACCGTTGACCCGAC
1 CCGACCCGACCGTTGACCCGAC
776889 CCGACCCGACCGTTGACCCGAC
1 CCGACCCGACCGTTGACCCGAC
776911 CCGACCCGACCGTTGACC
1 CCGACCCGACCGTTGACC
776929 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.10
Consensus pattern (22 bp):
CCGACCCGACCGTTGACCCGAC
Found at i:776930 original size:7 final size:7
Alignment explanation
Indices: 776918--776955 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
776908 GACCCGACCC
776918 GACCGTT
1 GACCGTT
776925 GACCGTT
1 GACCGTT
776932 GACCGTT
1 GACCGTT
776939 GACCGTT
1 GACCGTT
776946 GACCGTT
1 GACCGTT
776953 GAC
1 GAC
776956 TTTCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:784140 original size:10 final size:9
Alignment explanation
Indices: 784105--784203 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
784095 GCTGCTGGAA
*
784105 ACCGGTTTA
1 ACCGGTTTG
*
784114 ACCGGTTTTCA
1 ACCGG-TTT-G
784125 ACCGGTTCTG
1 ACCGGTT-TG
784135 ACCGGTTTG
1 ACCGGTTTG
*
784144 ACCGGTTTCA
1 ACCGGTTT-G
*
784154 ACCGGTTCG
1 ACCGGTTTG
784163 AACCGGTTTG
1 -ACCGGTTTG
*
784173 ACCGGTCTG
1 ACCGGTTTG
784182 ACTCGGTTTG
1 AC-CGGTTTG
*
784192 ACCGGTCTG
1 ACCGGTTTG
784201 ACC
1 ACC
784204 CGACCCGACC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:784149 original size:19 final size:19
Alignment explanation
Indices: 784106--784203 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
784096 CTGCTGGAAA
* * *
784106 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
784126 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
784145 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
784165 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
784183 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
784202 CC
1 CC
784204 CGACCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:784167 original size:29 final size:30
Alignment explanation
Indices: 784104--784178 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
784094 GGCTGCTGGA
*
784104 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
784135 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
784163 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
784179 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:784188 original size:29 final size:28
Alignment explanation
Indices: 784105--784203 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
784095 GCTGCTGGAA
* *
784105 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
784135 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
784163 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
784192 ACCGGTCTGACC
1 ACCGGTTTGACC
784204 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 14 0.23
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:784210 original size:5 final size:5
Alignment explanation
Indices: 784200--784254 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
784190 TGACCGGTCT
* *
784200 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
784249 GACCC G
1 GACCC G
784255 TTGACCGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 34 0.81
7 8 0.19
ACGTcount: A:0.18, C:0.51, G:0.24, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:784221 original size:17 final size:17
Alignment explanation
Indices: 784199--784260 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 17
784189 TTGACCGGTC
784199 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
784216 TGACCCGACCCGACCCGACCGT
1 T-----GACCCGACCCGACCGT
784238 TGACCCGACCCGACCCGT
1 TGACCCGACCCGA-CCGT
784256 TGACC
1 TGACC
784261 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
17 13 0.33
18 9 0.23
22 17 0.44
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:784226 original size:22 final size:22
Alignment explanation
Indices: 784200--784254 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
784190 TGACCGGTCT
784200 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
784222 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
784244 GACCCGACCCG
1 GACCCGACCCG
784255 TTGACCGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.51, G:0.24, T:0.07
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:784264 original size:7 final size:7
Alignment explanation
Indices: 784252--784286 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
784242 CCGACCCGAC
784252 CCGTTGA
1 CCGTTGA
784259 CCGTTGA
1 CCGTTGA
784266 CCGTTGA
1 CCGTTGA
784273 -CGTTGA
1 CCGTTGA
784279 CCGTTGA
1 CCGTTGA
784286 C
1 C
784287 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
CCGTTGA
Found at i:784276 original size:13 final size:13
Alignment explanation
Indices: 784252--784286 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
784242 CCGACCCGAC
784252 CCGTTGACCGTTGA
1 CCGTTGA-CGTTGA
784266 CCGTTGACGTTGA
1 CCGTTGACGTTGA
784279 CCGTTGAC
1 CCGTTGAC
784287 TTTCTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (13 bp):
CCGTTGACGTTGA
Found at i:788104 original size:17 final size:17
Alignment explanation
Indices: 788073--788105 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
788063 AAATAGTATT
788073 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
788090 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
788106 TAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:789231 original size:60 final size:60
Alignment explanation
Indices: 789163--789279 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
789153 TAAAGTACAC
* * *
789163 AAATGGTCCATCGATTATGGGAAACTACTTTATTGAGTCTTATAACTATTAAAAGTTTTA
1 AAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTAAAAGTTTTA
** * * *
789223 AAATGGTCCATCGATTATAGGATGCTACTTTGTTGAGTCATCCGACTATTAAAAGTT
1 AAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTAAAAGTT
789280 ACAAAATAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (60 bp):
AAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTAAAAGTTTTA
Found at i:789286 original size:60 final size:60
Alignment explanation
Indices: 789154--789286 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
789144 AAATTTGGAT
* * *
789154 AAAG-TACACAAATGGTCCATCGATTATGGGAAACTACTTTATTGAGTCTTATAACTATTA
1 AAAGTTACA-AAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTA
** ** * * *
789214 AAAGTTTTAAAATGGTCCATCGATTATAGGATGCTACTTTGTTGAGTCATCCGACTATTA
1 AAAGTTACAAAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTA
789274 AAAGTTACAAAAT
1 AAAGTTACAAAAT
789287 AGTCACCCGA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 58 0.97
61 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCATCGATTATAGGAAACTACTTTATTGAGTCATACAACTATTA
Found at i:796290 original size:20 final size:20
Alignment explanation
Indices: 796275--796313 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
796265 TCTTTTATTT
796275 CATTTTTTTAGATTTTTTTA
1 CATTTTTTTAGATTTTTTTA
*
796295 GATTTTTTT--ATTTTTTTA
1 CATTTTTTTAGATTTTTTTA
796313 C
1 C
796314 TAACCCGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
CATTTTTTTAGATTTTTTTA
Found at i:796291 original size:11 final size:10
Alignment explanation
Indices: 796276--796312 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
796266 CTTTTATTTC
796276 ATTTTTTTAG
1 ATTTTTTTAG
796286 ATTTTTTTAG
1 ATTTTTTTAG
796296 ATTTTTTT--
1 ATTTTTTTAG
796304 ATTTTTTTA
1 ATTTTTTTA
796313 CTAACCCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (10 bp):
ATTTTTTTAG
Found at i:797860 original size:17 final size:17
Alignment explanation
Indices: 797806--797881 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
797796 AAGTAGTTTA
*
797806 TTAAAT-AAATAGATGC
1 TTAAATGAAATACATGC
* * * *
797822 ATAAATGAACTACTTCC
1 TTAAATGAAATACATGC
*
797839 CTAAATGAAATACATGC
1 TTAAATGAAATACATGC
*
797856 TTAAATGCAATACATGC
1 TTAAATGAAATACATGC
*
797873 TTTAATGAA
1 TTAAATGAA
797882 CAACATACTT
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
16 5 0.11
17 41 0.89
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (17 bp):
TTAAATGAAATACATGC
Found at i:813512 original size:18 final size:21
Alignment explanation
Indices: 813473--813513 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
813463 GATTTATAGG
813473 ATAAGACGTTAAATATTTTAA
1 ATAAGACGTTAAATATTTTAA
813494 ATAAGA-GTTAAA-A-TTTAA
1 ATAAGACGTTAAATATTTTAA
813512 AT
1 AT
813514 TAATAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 6 0.30
21 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (21 bp):
ATAAGACGTTAAATATTTTAA
Found at i:828738 original size:4 final size:4
Alignment explanation
Indices: 828729--828755 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
828719 TTTTTGGACC
828729 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
828756 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:831860 original size:24 final size:24
Alignment explanation
Indices: 831829--831893 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
831819 AAGAAAGACA
*
831829 AAAAGGAAAAAGACAGAGATAAA-
1 AAAAGGAAAAGGACAGAGATAAAG
* *
831852 AAGAAGGAAAAGGGCCGAGATAAAG
1 AA-AAGGAAAAGGACAGAGATAAAG
*
831877 AAAAAGAAAAGGACAGA
1 AAAAGGAAAAGGACAGA
831894 AGTAATAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.06
24 30 0.88
25 2 0.06
ACGTcount: A:0.63, C:0.06, G:0.28, T:0.03
Consensus pattern (24 bp):
AAAAGGAAAAGGACAGAGATAAAG
Found at i:836375 original size:22 final size:23
Alignment explanation
Indices: 836349--836395 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
836339 ATCTATTTTT
* *
836349 AACCCTAA-AATTTTAGATGTTC
1 AACCCCAAGAATTTTAGAAGTTC
836371 AACCCCAAGAATTTTAGAAGTTC
1 AACCCCAAGAATTTTAGAAGTTC
836394 AA
1 AA
836396 GTTTGCCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (23 bp):
AACCCCAAGAATTTTAGAAGTTC
Found at i:838207 original size:2 final size:2
Alignment explanation
Indices: 838202--838252 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
838192 ATGAATAGAA
838202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
838244 AT AT AT AT A
1 AT AT AT AT A
838253 ACTTTATACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:838643 original size:17 final size:18
Alignment explanation
Indices: 838603--838643 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
838593 TATAATGTGG
838603 CATAAATAATAATCATTAA
1 CATAAATAATAAT-ATTAA
838622 CATAAATCAATAAT-TT-A
1 CATAAAT-AATAATATTAA
838639 CATAA
1 CATAA
838644 CAATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 7 0.33
20 6 0.29
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (18 bp):
CATAAATAATAATATTAA
Found at i:838893 original size:23 final size:23
Alignment explanation
Indices: 838867--838911 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
838857 GTAAATATGA
*
838867 AATGGGAATAATTTAAGAGATTC
1 AATGAGAATAATTTAAGAGATTC
838890 AATGAGAATAATTTAAGAGATT
1 AATGAGAATAATTTAAGAGATT
838912 TGAGACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (23 bp):
AATGAGAATAATTTAAGAGATTC
Found at i:840205 original size:18 final size:18
Alignment explanation
Indices: 840182--840218 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
840172 CTTGTCTATA
840182 TATCCGCATCCGACACAT
1 TATCCGCATCCGACACAT
* *
840200 TATCCGTATCCGACTCAT
1 TATCCGCATCCGACACAT
840218 T
1 T
840219 CACATACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (18 bp):
TATCCGCATCCGACACAT
Found at i:842556 original size:45 final size:44
Alignment explanation
Indices: 842506--842686 Score: 248
Period size: 45 Copynumber: 4.2 Consensus size: 44
842496 CTTCCTCTGT
*
842506 GATGCTTGCCATCAGCAGATCTTGACCTTGACCGCTTTCTATCAC
1 GATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTATC-C
*
842551 AATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTATCGC
1 GATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTATC-C
842596 GATGCTTGCCATCAGCAGATCT----C--GACCGCTTTCTATCC
1 GATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTATCC
* *
842634 TGATGCTTGCCATCAGCAGATCTCGACCTCGACCGCCTTCTATCCC
1 -GATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTAT-CC
842680 GATGCTT
1 GATGCTT
842687 AGATTTCTTA
Statistics
Matches: 123, Mismatches: 5, Indels: 16
0.85 0.03 0.11
Matches are distributed among these distances:
38 1 0.01
39 36 0.29
41 1 0.01
43 1 0.01
45 82 0.67
46 2 0.02
ACGTcount: A:0.19, C:0.34, G:0.18, T:0.29
Consensus pattern (44 bp):
GATGCTTGCCATCAGCAGATCTCGACCTTGACCGCTTTCTATCC
Found at i:842649 original size:84 final size:87
Alignment explanation
Indices: 842506--842686 Score: 262
Period size: 84 Copynumber: 2.1 Consensus size: 87
842496 CTTCCTCTGT
842506 GATGCTTGCCATCAGCAGATCTTGACCTTGACCGCTTTCTATCACAATGCTTGCCATCAGCAGAT
1 GATGCTTGCCATCAGCAGATCTT-A-C-TGACCGCTTTCTATCACAATGCTTGCCATCAGCAGAT
* * *
842571 CTCGACCTTGACCGCTTTCTATCGC
63 CTCGACCTCGACCGCCTTCTATCCC
*
842596 GATGCTTGCCATCAGCAGATC-T-C-GACCGCTTTCTATC-CTGATGCTTGCCATCAGCAGATCT
1 GATGCTTGCCATCAGCAGATCTTACTGACCGCTTTCTATCAC-AATGCTTGCCATCAGCAGATCT
842657 CGACCTCGACCGCCTTCTATCCC
65 CGACCTCGACCGCCTTCTATCCC
842680 GATGCTT
1 GATGCTT
842687 AGATTTCTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
83 1 0.01
84 62 0.72
86 1 0.01
89 1 0.01
90 21 0.24
ACGTcount: A:0.19, C:0.34, G:0.18, T:0.29
Consensus pattern (87 bp):
GATGCTTGCCATCAGCAGATCTTACTGACCGCTTTCTATCACAATGCTTGCCATCAGCAGATCTC
GACCTCGACCGCCTTCTATCCC
Found at i:843432 original size:42 final size:42
Alignment explanation
Indices: 843386--843471 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
843376 ATAAGAGCGA
** * *
843386 GACCTCCTTCTTCGCCTATAACTGATTGGTGATCTTGACTTG
1 GACCTCCACCTTCGCCTATAAATAATTGGTGATCTTGACTTG
** *
843428 GACCTTGACCTTCTCCTATAAATAATTGGTGATCTTGACTTG
1 GACCTCCACCTTCGCCTATAAATAATTGGTGATCTTGACTTG
843470 GA
1 GA
843472 TCTTGATCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (42 bp):
GACCTCCACCTTCGCCTATAAATAATTGGTGATCTTGACTTG
Found at i:843477 original size:42 final size:42
Alignment explanation
Indices: 843395--843523 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 42
843385 AGACCTCCTT
* * *
843395 CTTCGCCTATAACTGATTGGTGATCTTGACTTGGACCTTGAC
1 CTTCTCCTATAACTAATTGGTGATCTTGACTTGGATCTTGAC
* *
843437 CTTCTCCTATAAATAATTGGTGATCTTGACTTGGATCTTGAT
1 CTTCTCCTATAACTAATTGGTGATCTTGACTTGGATCTTGAC
** ** * *
843479 CTTCTCCGGTAACTAAGGGGTGATTTTGATTTGGATCTTGAC
1 CTTCTCCTATAACTAATTGGTGATCTTGACTTGGATCTTGAC
843521 CTT
1 CTT
843524 GCACGGGAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (42 bp):
CTTCTCCTATAACTAATTGGTGATCTTGACTTGGATCTTGAC
Found at i:849616 original size:18 final size:18
Alignment explanation
Indices: 849574--849618 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
849564 AACATTTCCA
*
849574 GTAATCTTATTCCCGCCG
1 GTAATCTTATTACCGCCG
* * *
849592 GTGATCTTATTATCGCTG
1 GTAATCTTATTACCGCCG
849610 GTAATCTTA
1 GTAATCTTA
849619 CATTCCGTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTACCGCCG
Found at i:855541 original size:18 final size:18
Alignment explanation
Indices: 855518--855554 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
855508 TTCTGGCCAC
*
855518 AACCACTACGGCCGATGT
1 AACCACTACCGCCGATGT
*
855536 AACCACTGCCGCCGATGT
1 AACCACTACCGCCGATGT
855554 A
1 A
855555 GTCTCTGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (18 bp):
AACCACTACCGCCGATGT
Found at i:856188 original size:20 final size:19
Alignment explanation
Indices: 856156--856201 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
856146 GGAAAGCCTA
856156 AAAAGGAAAAATTACATAC
1 AAAAGGAAAAATTACATAC
* *
856175 AAAAGAGAAGAATTTCATAC
1 AAAAG-GAAAAATTACATAC
*
856195 AAGAGGA
1 AAAAGGA
856202 TTTTAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.59, C:0.09, G:0.17, T:0.15
Consensus pattern (19 bp):
AAAAGGAAAAATTACATAC
Found at i:859346 original size:75 final size:75
Alignment explanation
Indices: 859039--859353 Score: 551
Period size: 75 Copynumber: 4.2 Consensus size: 75
859029 AAATCTTGTC
*
859039 GAGCTTGATATTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
1 GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
*
859104 GATTCTCGAA
66 GAGTCTCGAA
*
859114 GAGCTAGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
1 GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
*
859179 GATTCTCGAA
66 GAGTCTCGAA
*
859189 GAGCTAGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
1 GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
859254 GAGTCTCGAA
66 GAGTCTCGAA
859264 GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
1 GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
859329 GAGTCTC-ACA
66 GAGTCTCGA-A
* *
859339 CATCTTGATCTTTCA
1 GAGCTTGATCTTTCA
859354 AATAACAAGT
Statistics
Matches: 233, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
74 1 0.00
75 232 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (75 bp):
GAGCTTGATCTTTCATCAAATAATTTCAGTGGTGTCATCAAGTTAGATGAGCTATCCAAACTGAA
GAGTCTCGAA
Found at i:861581 original size:14 final size:15
Alignment explanation
Indices: 861562--861590 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
861552 AAAATAAATT
861562 ATATTTTC-GGAAAA
1 ATATTTTCTGGAAAA
861576 ATATTTTCTGGAAAA
1 ATATTTTCTGGAAAA
861591 CGTTTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
ATATTTTCTGGAAAA
Found at i:861782 original size:32 final size:34
Alignment explanation
Indices: 861746--861819 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
861736 AATAATATAT
861746 TTATTATTTTAGTA-ATTTTATT-AATAAAAATA
1 TTATTATTTTAGTATATTTTATTAAATAAAAATA
*
861778 TTATTA--TTGGTATATTTTATTGAAATAAAAATA
1 TTATTATTTTAGTATATTTTATT-AAATAAAAATA
*
861811 TTATAATTT
1 TTATTATTT
861820 ATATGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 5 0.14
31 8 0.23
32 6 0.17
33 15 0.43
35 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (34 bp):
TTATTATTTTAGTATATTTTATTAAATAAAAATA
Found at i:862774 original size:15 final size:15
Alignment explanation
Indices: 862754--862836 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
862744 TTGAGACCTT
862754 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
862769 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* *
862784 GCCCGCCCCACATCC
1 ACCCGCCCCGCATCC
862799 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* * *
862814 GCCCGCCTCACATCC
1 ACCCGCCCCGCATCC
*
862829 GCCCGCCC
1 ACCCGCCC
862837 AACTAAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 60 1.00
ACGTcount: A:0.12, C:0.66, G:0.14, T:0.07
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:862791 original size:30 final size:30
Alignment explanation
Indices: 862755--862836 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
862745 TGAGACCTTA
*
862755 CCCGCCCCGCATCCACCCGCCCCGCATCCG
1 CCCGCCCCACATCCACCCGCCCCGCATCCG
862785 CCCGCCCCACATCCACCCGCCCCGCATCCG
1 CCCGCCCCACATCCACCCGCCCCGCATCCG
* *
862815 CCCGCCTCACATCCGCCCGCCC
1 CCCGCCCCACATCCACCCGCCC
862837 AACTAAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.11, C:0.67, G:0.15, T:0.07
Consensus pattern (30 bp):
CCCGCCCCACATCCACCCGCCCCGCATCCG
Found at i:869720 original size:31 final size:31
Alignment explanation
Indices: 869685--869753 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
869675 AATAGTCCTC
*
869685 CAACTATAGAATGTTGTTTTGTTAAGTCCAT
1 CAACTATAAAATGTTGTTTTGTTAAGTCCAT
869716 CAACTATAAAATGTTGTTTTGTTAAGTCCAT
1 CAACTATAAAATGTTGTTTTGTTAAGTCCAT
*
869747 CGACTAT
1 CAACTAT
869754 TATACGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (31 bp):
CAACTATAAAATGTTGTTTTGTTAAGTCCAT
Found at i:874618 original size:9 final size:9
Alignment explanation
Indices: 874586--874683 Score: 106
Period size: 9 Copynumber: 10.3 Consensus size: 9
874576 CTGCTGGAAA
874586 ACCGGTTTG
1 ACCGGTTTG
*
874595 ACCAGTTTTG
1 ACC-GGTTTG
874605 AACCGGTTTG
1 -ACCGGTTTG
*
874615 ACCGGTCTG
1 ACCGGTTTG
874624 AACCGGTTTG
1 -ACCGGTTTG
874634 ACCGGTTTG
1 ACCGGTTTG
*
874643 ACCGGTCTG
1 ACCGGTTTG
874652 AACCGGTTTG
1 -ACCGGTTTG
*
874662 ACCGGTCTG
1 ACCGGTTTG
*
874671 AACCGGGTTG
1 -ACCGGTTTG
874681 ACC
1 ACC
874684 CGACCCGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
9 39 0.52
10 33 0.44
11 3 0.04
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:874627 original size:19 final size:18
Alignment explanation
Indices: 874586--874683 Score: 97
Period size: 19 Copynumber: 5.2 Consensus size: 18
874576 CTGCTGGAAA
* *
874586 ACCGGTTTGACCAGTTTTG
1 ACCGGTCTGACC-GGTTTG
* *
874605 AACCGGTTTGACCGGTCTG
1 -ACCGGTCTGACCGGTTTG
*
874624 AACCGGTTTGACCGGTTTG
1 -ACCGGTCTGACCGGTTTG
874643 ACCGGTCTGAACCGGTTTG
1 ACCGGTCTG-ACCGGTTTG
*
874662 ACCGGTCTGAACCGGGTTG
1 ACCGGTCTG-ACCGGTTTG
874681 ACC
1 ACC
874684 CGACCCGACT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
18 8 0.11
19 52 0.72
20 12 0.17
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.28
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:874644 original size:28 final size:28
Alignment explanation
Indices: 874601--874676 Score: 125
Period size: 28 Copynumber: 2.6 Consensus size: 28
874591 TTTGACCAGT
874601 TTTGAACCGGTTTGACCGGTCTGAACCGG
1 TTTG-ACCGGTTTGACCGGTCTGAACCGG
874630 TTTGACCGGTTTGACCGGTCTGAACCGG
1 TTTGACCGGTTTGACCGGTCTGAACCGG
*
874658 TTTGACCGGTCTGAACCGG
1 TTTGACCGGTTTG-ACCGG
874677 GTTGACCCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 36 0.80
29 9 0.20
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.28
Consensus pattern (28 bp):
TTTGACCGGTTTGACCGGTCTGAACCGG
Found at i:874699 original size:17 final size:17
Alignment explanation
Indices: 874677--874734 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
874667 TCTGAACCGG
*
874677 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
874694 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
874711 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
874728 GTTGACC
1 GTTGACC
874735 GTTGACCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:874734 original size:7 final size:7
Alignment explanation
Indices: 874724--874760 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
874714 GACCCGACCC
874724 GACCGTT
1 GACCGTT
874731 GACCGTT
1 GACCGTT
874738 GACCG-T
1 GACCGTT
874744 GACCGTT
1 GACCGTT
874751 GACCGTT
1 GACCGTT
874758 GAC
1 GAC
874761 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:874748 original size:13 final size:13
Alignment explanation
Indices: 874724--874756 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
874714 GACCCGACCC
874724 GACCGTTGACCGTT
1 GACCG-TGACCGTT
874738 GACCGTGACCGTT
1 GACCGTGACCGTT
874751 GACCGT
1 GACCGT
874757 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:881947 original size:10 final size:10
Alignment explanation
Indices: 881918--881986 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
881908 GCTACTGGAA
881918 AACCGGTTTG
1 AACCGGTTTG
*
881928 -ACCAGTTTTG
1 AACC-GGTTTG
881938 AACCGGTTTG
1 AACCGGTTTG
*
881948 -ACCGGTTCG
1 AACCGGTTTG
881957 AACCGGTTTG
1 AACCGGTTTG
*
881967 -ACCGGTCTG
1 AACCGGTTTG
*
881976 AACCGGGTTG
1 AACCGGTTTG
881986 A
1 A
881987 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:881961 original size:19 final size:19
Alignment explanation
Indices: 881918--881988 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
881908 GCTACTGGAA
* *
881918 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
881938 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
881957 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
881976 AACCGGGTTGACC
1 AACCGGTTTGACC
881989 CGACCCGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Done.