Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 163 of 204
Found at i:48765016 original size:30 final size:30
Alignment explanation
Indices: 48764982--48765039 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
48764972 TGTTCATTAA
48764982 TCTTTTATT-TTTGTT-TGTATTTATATTTCT
1 TCTTTTATTATTT-TTATGTATTT-TATTTCT
48765012 TCTTTTATTATTTTTATGTATTTTATTT
1 TCTTTTATTATTTTTATGTATTTTATTT
48765040 TACTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (30 bp):
TCTTTTATTATTTTTATGTATTTTATTTCT
Found at i:48765627 original size:30 final size:30
Alignment explanation
Indices: 48765570--48765627 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
48765560 TGTTCATCGA
*
48765570 TCTTTTATTTTTGTTTGTATTTATATTTCT
1 TCTTTTATTTTTGTTTATATTTATATTTCT
48765600 TCTTTTATTATTT-TTATATATTT-TATTT
1 TCTTTTATT-TTTGTT-TATATTTATATTT
48765628 TACTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (30 bp):
TCTTTTATTTTTGTTTATATTTATATTTCT
Found at i:48766012 original size:587 final size:588
Alignment explanation
Indices: 48764150--48766500 Score: 4345
Period size: 587 Copynumber: 4.0 Consensus size: 588
48764140 CCTAAAACTA
* *
48764150 AAACAGCTTCCAGAAAGACCCCAGTCATCGCACGTCTCGGAACCGGCCTCCTCCATGCGCGCCGT
1 AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
* *
48764215 ACTCCCATGTTCTCCTACAAAACGGATTCAAAGAGTCCAAATAGTGTAAAAC-A-AAAAAAAAGG
66 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAG
*
48764278 GGAAAATGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGACAA
131 GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGACAA
48764343 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
196 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
*
48764408 GTATTTATATTTCTTCTTTTATTATTTTTATTTATTTTATTTTACTTAAATAAAAAAGAAGAGAA
261 GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
*
48764473 GGAAGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
326 GGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
48764538 TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
391 TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
48764603 TTCAAAAACGTG-AAAAAATGATTTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACA
456 TTCAAAAACGTGAAAAAAATGA-TTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACA
*
48764667 CATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAATAGGGT
520 CATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGGGT
48764732 CCGC
585 CCGC
* *
48764736 AAACAGCTTCCAGAAAGACCCCAGTCATCGCACGTCTCGGAACCGGCCTCCTCCATGCGCGCCGT
1 AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
* *
48764801 ACTCCCATGTTCTCCTACAAAACGGATTCAAAGAGTCCAAATAGTGTAAAACAAAAAAAAAAAAA
66 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAAC--AACAAAAAAAA
48764866 AGGGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGAC
129 AGGGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGAC
* **
48764931 AAGAATACAAAGAAAAACTATAAAAGGCCTAACTTTTGTAGTGTTCATTAATCTTTTATTTTTGT
194 AAGAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGT
*
48764996 TTGTATTTATATTTCTTCTTTTATTATTTTTATGTATTTTATTTTACTTAAATAAAAAAGAAGAG
259 TTGTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAG
*
48765061 AAGGAGGCAAAGCTTACCTTTCGTCGAAGCCGTCGTGCCACCACCATCTCCGTCGCAATCGGAGT
324 AAGGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGT
* *
48765126 TTTGGTGAAGGGACGGATGAACGACGGCCCAAAAAAGGGTTAAGAAAAGCCCTAGCAGAGCAAAC
389 TTTGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAAC
48765191 GTTTCAAAAACGTGAAACAAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAA
454 GTTTCAAAAACGTGAAA-AAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAA
* *
48765256 CACATAAACAAAACGACGCCGTTTAAAGGGGCCAGATCCGTGCGTTGACCCGACCCGCAAACAGG
518 CACATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGG
48765321 GTCCGC
583 GTCCGC
*
48765327 AAACAGCTTCCAGAAAAACCCCAGTCATCGCATGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
1 AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
*
48765392 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAT
66 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAG
48765457 GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGT-AAAAAAAGGAGACAA
131 GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGACAA
48765521 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
196 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
48765586 GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
261 GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
*
48765651 TGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
326 GGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
48765716 TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
391 TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
48765781 TTCAAAAACGTGAAACAAAATGA-TTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACA
456 TTCAAAAACGTGAAA-AAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACA
48765845 CATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGGGT
520 CATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGGGT
48765910 CCGC
585 CCGC
48765914 AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
1 AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
*
48765979 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAT
66 ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAG
48766044 GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGT-AAAAAAAGGAGACAA
131 GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGACAA
48766108 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
196 GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
48766173 GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
261 GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
* *
48766238 TGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATTGGAGTTT
326 GGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
*
48766303 TGGTGAAGGGACGAATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
391 TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
48766368 TTCAAAAACGTGAAAAAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACAC
456 TTCAAAAACGTGAAAAAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACAC
* *
48766433 ATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCTGCGCGTTGACCCGACCCGCAAACAGTGTC
521 ATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGGGTC
48766498 CGC
586 CGC
48766501 GCGTTCTGGC
Statistics
Matches: 1724, Mismatches: 34, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
586 124 0.07
587 682 0.40
588 290 0.17
589 61 0.04
590 337 0.20
591 223 0.13
592 7 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (588 bp):
AAACAGCTTCCAGAAAAACCCCAGTCATCGCACGTCTCGGAACCGACCTCCTCCATGCGCGCCGT
ACTCCCATGTTCTCCTACAAAACAGATTCAAAGAGTCCAAATAGTGTAAAACAACAAAAAAAAAG
GGAAAAGGTTGTTCTATTCGGGCTATAAAAGGCCTATGTTTTGTATTGTAAAAAAAAGGAGACAA
GAATACAAAGAAAAACTATAAAAGGCCTATCTTTTGTAGTGTTCATCGATCTTTTATTTTTGTTT
GTATTTATATTTCTTCTTTTATTATTTTTATATATTTTATTTTACTTAAATAAAAAAGAAGAGAA
GGAGGCAAAGCTTACCTTTCGTCGAAGCCGCCGTGCCACCACCATCTCCGTCGCAATCGGAGTTT
TGGTGAAGGGACGGATGAACGACGGCGCAAAAAAGGGTTAAGAAAAGCCCTAGTAGAGCAAACGT
TTCAAAAACGTGAAAAAAATGATTTTTTTAATCCTTTTTTGTTATTTTTGTGTTTAATTTAACAC
ATAAACAAAACGGCGCCGTTTAAAGGGGCCAGATCCGCGCGTTGACCCGACCCGCAAACAGGGTC
CGC
Found at i:48766214 original size:30 final size:30
Alignment explanation
Indices: 48766157--48766214 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
48766147 TGTTCATCGA
*
48766157 TCTTTTATTTTTGTTTGTATTTATATTTCT
1 TCTTTTATTTTTGTTTATATTTATATTTCT
48766187 TCTTTTATTATTT-TTATATATTT-TATTT
1 TCTTTTATT-TTTGTT-TATATTTATATTT
48766215 TACTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (30 bp):
TCTTTTATTTTTGTTTATATTTATATTTCT
Found at i:48766821 original size:3 final size:3
Alignment explanation
Indices: 48766810--48766857 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
48766800 TTCTTCTTTT
* * *
48766810 TTA TCA TTA TTA TTA TTA TTA TTTA TTA TTA ATA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
48766856 TT
1 TT
48766858 TCCACGTACG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48766840 original size:22 final size:22
Alignment explanation
Indices: 48766809--48766854 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
48766799 CTTCTTCTTT
* *
48766809 TTTATCATTATTATTATTATTA
1 TTTATCATTAATATTATAATTA
*
48766831 TTTATTATTAATATTATAATTA
1 TTTATCATTAATATTATAATTA
48766853 TT
1 TT
48766855 ATTTCCACGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTATCATTAATATTATAATTA
Found at i:48768239 original size:21 final size:22
Alignment explanation
Indices: 48768201--48768248 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
48768191 AAATAATCAT
*
48768201 TTTTAGTTACTTCAGGTT-ACA
1 TTTTAGTTACTTCAGGTTGAAA
*
48768222 TTTTAGTTA-TTTATGGTTGAAA
1 TTTTAGTTACTTCA-GGTTGAAA
48768244 TTTTA
1 TTTTA
48768249 CGTTTTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
22 7 0.30
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (22 bp):
TTTTAGTTACTTCAGGTTGAAA
Found at i:48769732 original size:31 final size:30
Alignment explanation
Indices: 48769686--48769751 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
48769676 ATGCCCCTTG
* *
48769686 TGACATAAAAAAAACTTTAGAATAATTCTA
1 TGACTTAAAAAAAACTTTAGAATAATTCAA
*
48769716 TGACTTAAATAAAAACTTTTGAATAATTCAA
1 TGACTTAAA-AAAAACTTTAGAATAATTCAA
48769747 TGACT
1 TGACT
48769752 ATTTTACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (30 bp):
TGACTTAAAAAAAACTTTAGAATAATTCAA
Found at i:48771750 original size:25 final size:25
Alignment explanation
Indices: 48771722--48771772 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48771712 AAATTCTAAG
48771722 ATGATATTTTTTATGCTAGGATCTT
1 ATGATATTTTTTATGCTAGGATCTT
48771747 ATGATATTTTTTATGCTAGGATCTT
1 ATGATATTTTTTATGCTAGGATCTT
48771772 A
1 A
48771773 CTTCGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (25 bp):
ATGATATTTTTTATGCTAGGATCTT
Found at i:48777323 original size:10 final size:10
Alignment explanation
Indices: 48777308--48777340 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
48777298 GAAGAGAATG
48777308 AAAAAAATTT
1 AAAAAAATTT
*
48777318 AAAAAAATAT
1 AAAAAAATTT
48777328 AAAAAAATTT
1 AAAAAAATTT
48777338 AAA
1 AAA
48777341 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:48778798 original size:3 final size:3
Alignment explanation
Indices: 48778790--48778843 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
48778780 TTAAAAGAGT
*
48778790 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48778838 ATA ATA
1 ATA ATA
48778844 TGAAATTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48784741 original size:9 final size:9
Alignment explanation
Indices: 48784727--48784763 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48784717 TATAGTTTGA
48784727 TATTCGAAT
1 TATTCGAAT
48784736 TATTCGAAT
1 TATTCGAAT
*
48784745 TATTCGAGT
1 TATTCGAAT
48784754 TATTCGAAT
1 TATTCGAAT
48784763 T
1 T
48784764 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48785457 original size:5 final size:5
Alignment explanation
Indices: 48785443--48785473 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48785433 AATGAATATG
*
48785443 AAATT AAATT GAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT AAATT A
48785474 GGAGTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:48786566 original size:114 final size:114
Alignment explanation
Indices: 48786383--48787126 Score: 905
Period size: 114 Copynumber: 6.5 Consensus size: 114
48786373 AAAAAAAGCA
* * * * * * * *
48786383 TTAGCGGCGTTATCCAGAAAGCGCCGC--AAATACCTAAGCCCAATGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
48786446 TCGGGGATTTAGCGGCTTTTTTAATAAAGCGCCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCAGGTCT
* *
48786495 TTAGCGGCGTTTTCGAGGAAGTGCCACAAAAAAACCAAAGCCAAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
48786560 TAGGGGATTTAGCGGCGTTTTT-GATAAAGCACCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTAG-TAAAGCGCCGCTAATGCTCAGGTCT
* *
48786609 TTAGCGGCGTTTTTGAGGAAGCGCCACAAAAAAAACCAAAGCCCAACGACGCCGTTTTTTGAGCT
1 TTAGCGGCGTTTTCGAGGAAGCGCCAC-AAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
48786674 TTCGAGGATTCAGCGGCGTTTTTGGTAAAGCGACGCTAATGCTCAGGTCT
65 TTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCAGGTCT
* *
48786724 TTAGCGGCGTTTTTGAGGAAGCGCTACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
48786789 TCGGGGATTTAGTGGCGCTTTTAGTAAAGTGCCGCTAATGTTCAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCAGGTCT
* * *
48786838 TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACGAAAGCCCAACGGCACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
48786903 TCGGGGATTTAGCGGCGCTTTTAGTAAAGGGCCGCTAATG-TCCAGGTTT
66 TCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCT-CAGGTCT
*
48786952 TTAGCGGCGTTTTCTG-GAAAGCGCCAC-AAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTC-GAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGC-
* * * * * * *
48787015 TTTTGGGTG-TTTAGTGGTGTTTTTAAGT-AAGCACCGCTAATG-TAAAGTGGT
64 TTTCGGG-GATTTAGCGGCGTTTTT-AGTAAAGCGCCGCTAATGCTCAGGT-CT
* * * * * * * *
48787066 TTGGTGGCGTTTTTGAAGATGCGCCGCAACAAAAA-CTAAGCCCAACGACACCGTTTTCTGA
1 TTAGCGGCGTTTTCGAGGAAGCGCCACAA-AAAAACCAAAGCCCAACGACGCCGTTTTCTGA
48787127 CAATTCGTGG
Statistics
Matches: 555, Mismatches: 63, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
112 22 0.04
113 37 0.07
114 356 0.64
115 134 0.24
116 6 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTCGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCAGGTCT
Found at i:48786826 original size:229 final size:227
Alignment explanation
Indices: 48786418--48787126 Score: 919
Period size: 229 Copynumber: 3.1 Consensus size: 227
48786408 GCAAATACCT
* ** * *
48786418 AAGCCCAATGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCTTTTTTAATAAAGCGCCGCTA
1 AAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTA
* * *
48786483 ATGCTCAGGTCTTTAGCGGCGTTTTCGAGGAAGTGCCACAAAAAAACCAAAGCCAAACGACGCCG
66 ATGCTCAGGTCTTTAGCGGCGTTTTTGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCG
* *
48786548 TTTTCTGAGCTTTAGGGGATTTAGCGGCGTTTTTGATAAAGCACCGCTAATGCTCAGGTCTTTAG
131 TTTTCTGAGCTTTAGGGGATTTAGTGGCGTTTTAG-TAAAGCACCGCTAATG-TCAGGTCTTTAG
48786613 CGGCGTTTTTGAGGAAGCGCCACAAAAAAAACCA
194 CGGCGTTTTTGAGGAAGCGCCACAAAAAAAACCA
* * * * * *
48786647 AAGCCCAACGACGCCGTTTTTTGAGCTTTCGAGGATTCAGCGGCGTTTTTGGTAAAGCGACGCTA
1 AAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTA
*
48786712 ATGCTCAGGTCTTTAGCGGCGTTTTTGAGGAAGCGCTACAAAAAAACCAAAGCCCAACGACGCCG
66 ATGCTCAGGTCTTTAGCGGCGTTTTTGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCG
* **
48786777 TTTTCTGAGCTTTCGGGGATTTAGTGGCGCTTTTAGTAAAGTGCCGCTAATGTTCAGGTCTTTAG
131 TTTTCTGAGCTTTAGGGGATTTAGTGGCG-TTTTAGTAAAGCACCGCTAATG-TCAGGTCTTTAG
* *
48786842 CGGCGTTTTCGAGGAAGCGCCAC-AAAAAAACGA
194 CGGCGTTTTTGAGGAAGCGCCACAAAAAAAACCA
* * *
48786875 AAGCCCAACGGCACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGCTTTTAGTAAAGGGCCGCTA
1 AAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTA
* *
48786940 ATG-TCCAGGTTTTTAGCGGCGTTTTCTG-GAAAGCGCCAC-AAAAAACCAAAGCCCAACGACGC
66 ATGCT-CAGGTCTTTAGCGGCGTTTT-TGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGC
* * * * *
48787002 CGTTTTCTGAGCTTTTTGGGTG-TTTAGTGGTGTTTTTAAGT-AAGCACCGCTAATGTAAAGTGG
129 CGTTTTCTGAGC-TTTAGGG-GATTTAGTGGCG-TTTT-AGTAAAGCACCGCTAATGTCAGGT-C
* * * * * * *
48787065 TTTGGTGGCGTTTTTGAAGATGCGCCGCAACAAAAA-CT
189 TTTAGCGGCGTTTTTGAGGAAGCGCCACAAAAAAAACCA
48787103 AAGCCCAACGACACCGTTTTCTGA
1 AAGCCCAACGACACCGTTTTCTGA
48787127 CAATTCGTGG
Statistics
Matches: 421, Mismatches: 51, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
227 40 0.10
228 172 0.41
229 204 0.48
230 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (227 bp):
AAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTA
ATGCTCAGGTCTTTAGCGGCGTTTTTGAGGAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCG
TTTTCTGAGCTTTAGGGGATTTAGTGGCGTTTTAGTAAAGCACCGCTAATGTCAGGTCTTTAGCG
GCGTTTTTGAGGAAGCGCCACAAAAAAAACCA
Found at i:48787596 original size:14 final size:15
Alignment explanation
Indices: 48787568--48787600 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48787558 AACGTTTATA
48787568 GATTATGGAATTAGG
1 GATTATGGAATTAGG
48787583 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
48787597 GATT
1 GATT
48787601 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:48787766 original size:20 final size:20
Alignment explanation
Indices: 48787733--48787773 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48787723 TAAGGTTTAA
*
48787733 GGGTTAGGGGTTAGGGATTT
1 GGGTTAGGAGTTAGGGATTT
* *
48787753 GGGTTAGGATTTAGGGTTTT
1 GGGTTAGGAGTTAGGGATTT
48787773 G
1 G
48787774 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (20 bp):
GGGTTAGGAGTTAGGGATTT
Found at i:48788842 original size:146 final size:147
Alignment explanation
Indices: 48788650--48789098 Score: 380
Period size: 146 Copynumber: 3.1 Consensus size: 147
48788640 TACGTTGCTA
* * ** * **
48788650 TTAGTGGCGCTTTACAT-AAAACGCCGCAAAAATGTAATTATGTTTATTGAAA-TGTTGTCGTTT
1 TTAGTGGCGCTTTAC-TCAAAACGCCGCAAAAATGTTATAACATTTATTGAAACT-CTACCGTTT
** * * * *
48788713 TGTCTATGGTATTTGTGGCGTTTTTATGAAAACGCCTCAGGCTTGAGTTAACTGTTG-TGAAACG
64 TGTAAATGGTATTAGTGGCGTTTTTATGAAAACGCCACAGGCTTGAGGTAAATGTTGATGAAACG
48788777 ACT-TCG-TTTGAGCTTATAG
129 ACTGT-GTTTTGA-CTTATAG
* * *
48788796 TTAGTGGCGCTTTACTCAAAACGCCGCAAAATTGTTCTAACATTTATAGAAACTCTACCGTTTTG
1 TTAGTGGCGCTTTACTCAAAACGCCGCAAAAATGTTATAACATTTATTGAAACTCTACCGTTTTG
* * * * * *
48788861 TAAATGTTATTAGTGGCGTTTTTTTGGAAACGCCACGGGTTTGAGGTAAATGTTGATGAAGCGAC
66 TAAATGGTATTAGTGGCGTTTTTATGAAAACGCCACAGGCTTGAGGTAAATGTTGATGAAACGAC
* *
48788926 TGTGTTTTGATTTATAT
131 TGTGTTTTGACTTATAG
** * * * ***
48788943 TTAGTGGCGCTTTGGTTC-AAACGCCACAAAAATGTTTTAACATTTATTGATACGAGACCGTTTT
1 TTAGTGGCGCTTT-ACTCAAAACGCCGCAAAAATGTTATAACATTTATTGAAACTCTACCGTTTT
** * * **
48789007 GCTGTAT--TATTAGTGGCGTTTATTCA--AAAACGCCACAGGCGTGAGCTATTTGTTGATGAAA
65 G-TAAATGGTATTAGTGGCGTTT-TT-ATGAAAACGCCACAGGCTTGAGGTAAATGTTGATGAAA
* *
48789068 CGGCT-TCGTTTTGATTTATAG
127 CGACTGT-GTTTTGACTTATAG
48789089 TTAGTGGCGC
1 TTAGTGGCGC
48789099 ATATTTATAA
Statistics
Matches: 246, Mismatches: 47, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
145 2 0.01
146 163 0.66
147 70 0.28
148 11 0.04
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (147 bp):
TTAGTGGCGCTTTACTCAAAACGCCGCAAAAATGTTATAACATTTATTGAAACTCTACCGTTTTG
TAAATGGTATTAGTGGCGTTTTTATGAAAACGCCACAGGCTTGAGGTAAATGTTGATGAAACGAC
TGTGTTTTGACTTATAG
Found at i:48790430 original size:15 final size:15
Alignment explanation
Indices: 48790410--48790441 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48790400 AGGGTTGAAG
48790410 TATTTGGTACTAATT
1 TATTTGGTACTAATT
48790425 TATTTGGTACTAATT
1 TATTTGGTACTAATT
48790440 TA
1 TA
48790442 CTGTTATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TATTTGGTACTAATT
Found at i:48791234 original size:20 final size:19
Alignment explanation
Indices: 48791189--48791244 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
48791179 AAATAACTTA
*
48791189 TTAATATATATTTTAA-AG
1 TTAATATATATTTTAATAT
48791207 TTAATATATATTTTCAATAT
1 TTAATATATATTTT-AATAT
*
48791227 TTATTATAT-TTTTAATAT
1 TTAATATATATTTTAATAT
48791245 ATTTTTACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 19 0.56
19 6 0.18
20 9 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTAATATATATTTTAATAT
Found at i:48791411 original size:13 final size:13
Alignment explanation
Indices: 48791395--48791559 Score: 118
Period size: 13 Copynumber: 12.5 Consensus size: 13
48791385 TTACTAACAT
*
48791395 TTACTTTAATATA
1 TTACTTAAATATA
*
48791408 TTACTTGAATATA
1 TTACTTAAATATA
*
48791421 TTACTTAAATAAA
1 TTACTTAAATATA
*
48791434 TTACTTAAATACA
1 TTACTTAAATATA
*
48791447 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
48791461 TTGGTTAAATTTA
1 TTACTTAAATATA
*
48791474 TTACTTAAATATG
1 TTACTTAAATATA
*
48791487 TTACTTAAATACA
1 TTACTTAAATATA
*
48791500 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
48791514 TTGTTTAAATTTA
1 TTACTTAAATATA
*
48791527 TTACTTAAATATG
1 TTACTTAAATATA
* * *
48791540 TTTCCTAAATACA
1 TTACTTAAATATA
48791553 TTACTTA
1 TTACTTA
48791560 CTAAAATTTA
Statistics
Matches: 114, Mismatches: 32, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
12 6 0.05
13 92 0.81
14 10 0.09
15 6 0.05
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:48791476 original size:27 final size:27
Alignment explanation
Indices: 48791437--48791568 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 27
48791427 AAATAAATTA
**
48791437 CTTAAATACATTACTTACTAAAATTTG
1 CTTAAATTTATTACTTACTAAAATTTG
* * *
48791464 GTTAAATTTATTACTTA--AATATGTTA
1 CTTAAATTTATTACTTACTAAAAT-TTG
**
48791490 CTTAAATACATTACTTACTAAAATTTG
1 CTTAAATTTATTACTTACTAAAATTTG
* * *
48791517 TTTAAATTTATTACTTA--AATATGTTT
1 CTTAAATTTATTACTTACTAAAAT-TTG
* **
48791543 CCTAAATACATTACTTACTAAAATTT
1 CTTAAATTTATTACTTACTAAAATTT
48791569 AAGTATATAT
Statistics
Matches: 79, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
25 8 0.10
26 31 0.39
27 32 0.41
28 8 0.10
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (27 bp):
CTTAAATTTATTACTTACTAAAATTTG
Found at i:48791476 original size:53 final size:53
Alignment explanation
Indices: 48791419--48791568 Score: 255
Period size: 53 Copynumber: 2.8 Consensus size: 53
48791409 TACTTGAATA
**
48791419 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
*
48791472 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
* *
48791525 TATTACTTAAATATGTTTCCTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
48791569 AAGTATATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 92 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:48791750 original size:29 final size:32
Alignment explanation
Indices: 48791701--48791773 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
48791691 TATGTACAAG
*
48791701 AACTTACATAACTTATTAAT-A-TT-TATATA
1 AACTTACATAACTTATAAATAACTTGTATATA
*
48791730 AACTTACATAAC-TATCAAATAAACTTGTATGTA
1 AACTTACATAACTTAT-AAAT-AACTTGTATATA
48791763 AACTTACATAA
1 AACTTACATAA
48791774 TACATAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 3 0.08
29 15 0.41
31 1 0.03
32 2 0.05
33 16 0.43
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.37
Consensus pattern (32 bp):
AACTTACATAACTTATAAATAACTTGTATATA
Found at i:48791784 original size:16 final size:16
Alignment explanation
Indices: 48791763--48791870 Score: 71
Period size: 16 Copynumber: 6.6 Consensus size: 16
48791753 CTTGTATGTA
48791763 AACTTACATAATACAT
1 AACTTACATAATACAT
*
48791779 AACTTACAT-GT---T
1 AACTTACATAATACAT
48791791 AACTTACATAATACAT
1 AACTTACATAATACAT
* ** *
48791807 AACTTATAATTTTTTTTATAT
1 AACTTA-CA----TAATACAT
48791828 AAACTTACATAATACAT
1 -AACTTACATAATACAT
*
48791845 TACTTACATAATACAT
1 AACTTACATAATACAT
*
48791861 TACTTACATA
1 AACTTACATA
48791871 TTAACTTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
12 10 0.14
13 1 0.01
15 1 0.01
16 41 0.58
17 6 0.08
21 6 0.08
22 6 0.08
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.40
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:48791789 original size:28 final size:28
Alignment explanation
Indices: 48791758--48791812 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
48791748 ATAAACTTGT
48791758 ATGTAAACTTACATAATACATAACTTAC
1 ATGTAAACTTACATAATACATAACTTAC
*
48791786 ATGTTAACTTACATAATACATAACTTA
1 ATGTAAACTTACATAATACATAACTTA
48791813 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (28 bp):
ATGTAAACTTACATAATACATAACTTAC
Found at i:48791879 original size:16 final size:16
Alignment explanation
Indices: 48791830--48791870 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
48791820 TTTTATATAA
48791830 ACTTACATAATACATT
1 ACTTACATAATACATT
48791846 ACTTACATAATACATT
1 ACTTACATAATACATT
48791862 ACTTACATA
1 ACTTACATA
48791871 TTAACTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (16 bp):
ACTTACATAATACATT
Found at i:48794126 original size:21 final size:21
Alignment explanation
Indices: 48794100--48794149 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
48794090 CTACAACTTA
* *
48794100 AAGCAGAGG-TGGCAGCGAGGG
1 AAGCAGAGGCT-GCAACGAGAG
48794121 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAACGAGAG
48794142 AAGCAGAG
1 AAGCAGAG
48794150 CAGAGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACGAGAG
Found at i:48794477 original size:42 final size:42
Alignment explanation
Indices: 48794430--48794697 Score: 403
Period size: 42 Copynumber: 6.4 Consensus size: 42
48794420 AAAAATTTAA
* *
48794430 CATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGAT
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* * *
48794472 AATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGTTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
48794514 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCTGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
48794556 CATGTTCTTTAGCGGCGCTTAGAAAGAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* * *
48794598 CATGTTCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAAAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
48794640 CATGTTCTTTAGCGGCGCTTA-ATAAAAAACGCCGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAC
* *
48794682 CACGATCTTTAGCGGC
1 CATGTTCTTTAGCGGC
48794698 TTTTTTGTTT
Statistics
Matches: 206, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 1 0.00
42 205 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
Found at i:48803964 original size:26 final size:26
Alignment explanation
Indices: 48803912--48803964 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
48803902 CACCAATATC
* *
48803912 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
*
48803938 GCAGCAGAGCTGCCAGTAGTCAGAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
48803964 G
1 G
48803965 GCTAAGAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (26 bp):
GCAGCAGAGCTGCCAGTAGTAAGAAT
Found at i:48804083 original size:32 final size:32
Alignment explanation
Indices: 48804041--48804248 Score: 195
Period size: 32 Copynumber: 6.5 Consensus size: 32
48804031 AAGTGATTGA
* *
48804041 CACAAAGCCATCAGTAGCAATGATATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGG
* ** * *
48804073 CACACAGCCATCAGTAATGGTAATATGACCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGG
** *
48804105 CACAAAGCCATCAGTAGTAGTGATATGATTGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGG
* * *
48804137 CATACAA-CCATCAGTAACAGTGAAATGATCGA
1 CACA-AAGCCATCAGTAACAGTGATATGATCGG
* * * *
48804169 CACACAGCCATCGGCAAC-GATAATATGATCGG
1 CACAAAGCCATCAGTAACAG-TGATATGATCGG
* ** *
48804201 CACAAAGCCATCAGTAACGGTTCTATGATCCG
1 CACAAAGCCATCAGTAACAGTGATATGATCGG
48804233 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
48804249 GCATCGCAGC
Statistics
Matches: 140, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
31 2 0.01
32 135 0.96
33 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGG
Found at i:48804119 original size:64 final size:64
Alignment explanation
Indices: 48804041--48804251 Score: 228
Period size: 64 Copynumber: 3.3 Consensus size: 64
48804031 AAGTGATTGA
*
48804041 CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATATGACCGG
1 CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGACCGG
* * * * * * * *
48804105 CACAAAGCCATCAGTAGTAGTGATATGATTGGCATACAACCATCAGTAACAGTGAA-ATGATCGA
1 CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGT-AATATGACCGG
* * * * * * * **
48804169 CACACAGCCATCGGCAACGATAATATGATCGGCACAAAGCCATCAGTAACGGTTCTATGATCC-G
1 CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGA-CCGG
48804233 CACAAAGCCATCAGTAGCA
1 CACAAAGCCATCAGTAGCA
48804252 TCGCAGCAAA
Statistics
Matches: 113, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
64 110 0.97
65 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGACCGG
Found at i:48804244 original size:96 final size:96
Alignment explanation
Indices: 48804041--48804248 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 96
48804031 AAGTGATTGA
* * * * * *
48804041 CACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATATGACCGGC
1 CACAAAGCCATCAGTAACAATGAAATGATCGACACACAGCCATCAGCAACGATAATATGACCGGC
** **
48804106 ACAAAGCCATCAGTAGTAGTGATATGATTGG
66 ACAAAGCCATCAGTAACAGTGATATGATCCG
* * * *
48804137 CATACAA-CCATCAGTAACAGTGAAATGATCGACACACAGCCATCGGCAACGATAATATGATCGG
1 CACA-AAGCCATCAGTAACAATGAAATGATCGACACACAGCCATCAGCAACGATAATATGACCGG
* **
48804201 CACAAAGCCATCAGTAACGGTTCTATGATCCG
65 CACAAAGCCATCAGTAACAGTGATATGATCCG
48804233 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
48804249 GCATCGCAGC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
95 2 0.02
96 88 0.96
97 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAATGAAATGATCGACACACAGCCATCAGCAACGATAATATGACCGGC
ACAAAGCCATCAGTAACAGTGATATGATCCG
Found at i:48804336 original size:27 final size:27
Alignment explanation
Indices: 48804292--48804351 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
48804282 AACAAAGCTG
*
48804292 CCAGTAATAGTATATGTGGCCA-AACCA
1 CCAGTAACAGTATATGTGG-CAGAACCA
*
48804319 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAACCA
48804346 CCAGTA
1 CCAGTA
48804352 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAACCA
Found at i:48804452 original size:24 final size:23
Alignment explanation
Indices: 48804420--48804501 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
48804410 CCATGCTCAG
48804420 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
*
48804444 AATCAGTCATACCAAACACAAACA
1 AATCAGTCAT-TCAAACACAAACA
* * *
48804468 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAAACA
* *
48804491 AAACAATCATT
1 AATCAGTCATT
48804502 TGACCTCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.36
24 28 0.56
25 4 0.08
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:48804578 original size:27 final size:27
Alignment explanation
Indices: 48804538--48804693 Score: 154
Period size: 27 Copynumber: 5.8 Consensus size: 27
48804528 TTACCCACCA
** *
48804538 GGGCATTATGGTCATTTTACCCTATAG
1 GGGCATTACAGTCATTTTACCCTATGG
*
48804565 GGGCATTACAGTCATTTTACCCTATAG
1 GGGCATTACAGTCATTTTACCCTATGG
*
48804592 GGGCATTACAGTCATTTTATCCTATGG
1 GGGCATTACAGTCATTTTACCCTATGG
* * * * **
48804619 GGGTATTTC-GGCATTCTACCCTGCGG
1 GGGCATTACAGTCATTTTACCCTATGG
* * *
48804645 GGGTATTTC-GATCATTTTACCCTACGG
1 GGGCATTACAG-TCATTTTACCCTATGG
*
48804672 GGGCATTTCAGTCATTTTACCC
1 GGGCATTACAGTCATTTTACCC
48804694 ATCGTGGGTA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 22 0.20
27 89 0.79
28 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGCATTACAGTCATTTTACCCTATGG
Found at i:48804606 original size:54 final size:53
Alignment explanation
Indices: 48804522--48804693 Score: 163
Period size: 53 Copynumber: 3.2 Consensus size: 53
48804512 AGGCAAAAAT
* * *
48804522 AGTCA-TTTACCC-ACCA-GGGCATTATGGTCATTTTACCCTATAGGGGCATTAC
1 AGTCATTTTACCCTA-CAGGGGCATTA-CGTCATTTTACCCTATGGGGGCATTTC
* * *
48804574 AGTCATTTTACCCTATAGGGGCATTACAGTCATTTTATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTACAGGGGCATTAC-GTCATTTTACCCTATGGGGGCATTTC
* * * * * * *
48804628 -GGCATTCTACCCTGCGGGGGTATTTCGATCATTTTACCCTACGGGGGCATTTC
1 AGTCATTTTACCCTACAGGGGCATTACG-TCATTTTACCCTATGGGGGCATTTC
48804681 AGTCATTTTACCC
1 AGTCATTTTACCC
48804694 ATCGTGGGTA
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
52 6 0.06
53 49 0.51
54 41 0.43
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (53 bp):
AGTCATTTTACCCTACAGGGGCATTACGTCATTTTACCCTATGGGGGCATTTC
Found at i:48804675 original size:80 final size:81
Alignment explanation
Indices: 48804576--48804735 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 81
48804566 GGCATTACAG
* *
48804576 TCATTTTACCCTATAGGGGCATTACAGTCATTTTATCCTAT-GGGGGTATTTCG-GCATTCTACC
1 TCATTTTACCCTACAGGGGCATTACAGTCATTTTA-CCCATCGGGGGTATTTCGAGCATTCTACC
*
48804639 C-TGCGGGGGTATTTCGA
65 CAT-CGAGGGTATTTCGA
* * * * *
48804656 TCATTTTACCCTACGGGGGCATTTCAGTCATTTTACCCATCGTGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCATCGGGGGTATTTCGAGCATTCTACCC
48804721 ATCGAGGGTATTTCG
66 ATCGAGGGTATTTCG
48804736 GTCCAGATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 4 0.06
80 43 0.62
81 21 0.30
82 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCATCGGGGGTATTTCGAGCATTCTACCC
ATCGAGGGTATTTCGA
Found at i:48804706 original size:27 final size:26
Alignment explanation
Indices: 48804548--48804735 Score: 143
Period size: 27 Copynumber: 7.0 Consensus size: 26
48804538 GGGCATTATG
* * *
48804548 GTCATTTTACCCTAT-AGGGGCATTAC
1 GTCATTTTACCC-ATCGGGGGTATTTC
* * *
48804574 AGTCATTTTACCCTAT-AGGGGCATTAC
1 -GTCATTTTACCC-ATCGGGGGTATTTC
*
48804601 AGTCATTTTATCCTAT-GGGGGTATTTC
1 -GTCATTTTA-CCCATCGGGGGTATTTC
* *
48804628 GGCATTCTACCC-TGCGGGGGTATTTC
1 GTCATTTTACCCAT-CGGGGGTATTTC
*
48804654 GATCATTTTACCC-TACGGGGGCATTTC
1 G-TCATTTTACCCAT-CGGGGGTATTTC
*
48804681 AGTCATTTTACCCATCGTGGGTATTTC
1 -GTCATTTTACCCATCGGGGGTATTTC
*
48804708 GATCATTTTACCCATCGAGGGTATTTC
1 G-TCATTTTACCCATCGGGGGTATTTC
48804735 G
1 G
48804736 GTCCAGATAT
Statistics
Matches: 140, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.01
25 2 0.01
26 20 0.14
27 113 0.81
28 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCCATCGGGGGTATTTC
Found at i:48804711 original size:54 final size:53
Alignment explanation
Indices: 48804549--48804720 Score: 188
Period size: 54 Copynumber: 3.2 Consensus size: 53
48804539 GGCATTATGG
* * * * *
48804549 TCATTTTACCCTATAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTAC-A
1 TCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCC-ATCGGGGTATTTCGA
* * * *
48804602 GTCATTTTATCCTATGGGGGTATTTC-GGCATTCTACCC-TGCGGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCCAT-C-GGGGTATTTCGA
*
48804656 TCATTTTACCCTACGGGGGCATTTCAGTCATTTTACCCATCGTGGGTATTTCGA
1 TCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCCATCG-GGGTATTTCGA
48804710 TCATTTTACCC
1 TCATTTTACCC
48804721 ATCGAGGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
51 1 0.01
53 41 0.42
54 55 0.56
55 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCCATCGGGGTATTTCGA
Found at i:48805257 original size:19 final size:18
Alignment explanation
Indices: 48805221--48805259 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
48805211 AATTTTAAAA
**
48805221 TATTTTAAAATACTTTTT
1 TATTTTAAAATAAATTTT
48805239 TATTTATAAAATAAATTTT
1 TATTT-TAAAATAAATTTT
48805258 TA
1 TA
48805260 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTAAAATAAATTTT
Found at i:48811275 original size:7 final size:7
Alignment explanation
Indices: 48811265--48811309 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
48811255 CAAACTTTCT
*
48811265 TTTACCT
1 TTTACCA
48811272 TTTACCA
1 TTTACCA
48811279 TTTACCA
1 TTTACCA
48811286 TTTACCA
1 TTTACCA
48811293 TTTACCA
1 TTTACCA
48811300 TTTACCA
1 TTTACCA
48811307 TTT
1 TTT
48811310 GAAAAGCATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (7 bp):
TTTACCA
Found at i:48812396 original size:16 final size:17
Alignment explanation
Indices: 48812369--48812414 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
48812359 AAAAAATAAT
48812369 AAATAATA-AATATATA
1 AAATAATATAATATATA
*
48812385 AAATTAT-TAATAT-TA
1 AAATAATATAATATATA
48812400 AAATAATATAATATA
1 AAATAATATAATATA
48812415 AATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATAATATAATATATA
Found at i:48812397 original size:14 final size:15
Alignment explanation
Indices: 48812354--48812416 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 15
48812344 TAAGATGACT
48812354 ATATAAAA-AA-ATA
1 ATATAAAATAATATA
48812367 ATA-AATAATAA-AT-
1 ATATAA-AATAATATA
*
48812380 ATATAAAATTAT-TA
1 ATATAAAATAATATA
48812394 ATATTAAAATAATATA
1 ATA-TAAAATAATATA
48812410 ATATAAA
1 ATATAAA
48812417 TATTTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
12 2 0.05
13 13 0.32
14 9 0.22
15 12 0.29
16 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATAATATA
Found at i:48812401 original size:23 final size:25
Alignment explanation
Indices: 48812363--48812415 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 25
48812353 TATATAAAAA
48812363 AATAATAAATAAT-AAAT-ATATAA
1 AATAATAAATAATAAAATAATATAA
* * *
48812386 AATTATTAATATTAAAATAATATAA
1 AATAATAAATAATAAAATAATATAA
*
48812411 TATAA
1 AATAA
48812416 ATATTTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
23 10 0.43
24 4 0.17
25 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AATAATAAATAATAAAATAATATAA
Found at i:48815381 original size:54 final size:54
Alignment explanation
Indices: 48815259--48815396 Score: 143
Period size: 54 Copynumber: 2.6 Consensus size: 54
48815249 TCGAAGTTAG
* * *
48815259 GACACACAGCCGTGTCCTAGCTCGTGTCTCTACCCATGTAACTCACTAACTTAA
1 GACACACAGCCATGTCCCAGCCCGTGTCTCTACCCATGTAACTCACTAACTTAA
** * **
48815313 GACACACAATCATGTCCCAGCCCGTGTCTCTACCCGA-GTAACTCACTGACTTGG
1 GACACACAGCCATGTCCCAGCCCGTGTCTCTACCC-ATGTAACTCACTAACTTAA
* * ** *
48815367 GTCACACGGCCATGTGACAGACCGTGTCTC
1 GACACACAGCCATGTCCCAGCCCGTGTCTC
48815397 AGGCTGTATG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (54 bp):
GACACACAGCCATGTCCCAGCCCGTGTCTCTACCCATGTAACTCACTAACTTAA
Found at i:48816223 original size:22 final size:20
Alignment explanation
Indices: 48816173--48816215 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
48816163 TCCATTCCAA
*
48816173 TCCATTTCACATATTACATT
1 TCCATTTCACATATTAAATT
48816193 TCCATTTCACATATATAAATT
1 TCCATTTCACATAT-TAAATT
48816214 TC
1 TC
48816216 ATAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
TCCATTTCACATATTAAATT
Found at i:48828247 original size:13 final size:13
Alignment explanation
Indices: 48828223--48828256 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
48828213 AATCGAGCCG
48828223 TAAATA-TTTTTA
1 TAAATATTTTTTA
48828235 TAAATATTTTTTA
1 TAAATATTTTTTA
48828248 TAAATATTT
1 TAAATATTT
48828257 ACAGAGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTTTTA
Found at i:48829442 original size:18 final size:17
Alignment explanation
Indices: 48829419--48829462 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48829409 GAAAAAGGTG
48829419 TTTTTTTTTACTCTTTT
1 TTTTTTTTTACTCTTTT
* *
48829436 ATTTTTTCTTGCTCTTTT
1 -TTTTTTTTTACTCTTTT
48829454 TTTTCTTTT
1 TTTT-TTTT
48829463 CTTTCTTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTACTCTTTT
Found at i:48837986 original size:15 final size:15
Alignment explanation
Indices: 48837966--48837996 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48837956 ATGGAGAGAG
48837966 TATGAAAATATTTCT
1 TATGAAAATATTTCT
48837981 TATGAAAATATTTCT
1 TATGAAAATATTTCT
48837996 T
1 T
48837997 CATGCTTCCA
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:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
TATGAAAATATTTCT
Found at i:48838775 original size:27 final size:28
Alignment explanation
Indices: 48838711--48838776 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
48838701 AATATTTTTG
48838711 TTTATATTT--TATACTTTTTAAAATAAT
1 TTTATATTTAATATACTTTTTAAAAT-AT
*
48838738 TTTA-AGTTTTAATATATTTTTTAAAAT-T
1 TTTATA--TTTAATATACTTTTTAAAATAT
48838766 TTTATATTTAA
1 TTTATATTTAA
48838777 AAAATTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
26 1 0.03
27 9 0.27
28 8 0.24
29 1 0.03
30 14 0.42
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTATATTTAATATACTTTTTAAAATAT
Found at i:48841290 original size:29 final size:31
Alignment explanation
Indices: 48841258--48841340 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 31
48841248 AAAACATTAA
48841258 TAATAATTTTTTTAATTTTAAAATAA-TTT-
1 TAATAATTTTTTTAATTTTAAAATAATTTTG
* *
48841287 TAATGA--TCTTTAATTTTTAAAAATAATTTTG
1 TAATAATTTTTTTAA-TTTT-AAAATAATTTTG
*
48841318 TAA-AATTTTTTTAGTGTTTAAAA
1 TAATAATTTTTTTAAT-TTTAAAA
48841341 ATTATTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
27 6 0.14
28 4 0.10
29 12 0.29
30 4 0.10
31 8 0.19
32 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (31 bp):
TAATAATTTTTTTAATTTTAAAATAATTTTG
Found at i:48845666 original size:19 final size:21
Alignment explanation
Indices: 48845642--48845689 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
48845632 CTTAAAAATT
48845642 AAAATT-TAAAAAAT-AAAAA
1 AAAATTCTAAAAAATGAAAAA
*
48845661 AAAATTCTTAAAAATGAAAATA
1 AAAATTCTAAAAAATGAAAA-A
48845683 TAAAATT
1 -AAAATT
48845690 GAATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
20 7 0.29
21 4 0.17
22 1 0.04
23 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATTCTAAAAAATGAAAAA
Found at i:48845869 original size:17 final size:18
Alignment explanation
Indices: 48845830--48845869 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
48845820 TCTTTTTGCT
48845830 TATTATTTCTATAAATAG
1 TATTATTTCTATAAATAG
*
48845848 -A-TATTT-TATATATAG
1 TATTATTTCTATAAATAG
48845863 TATTATT
1 TATTATT
48845870 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATTTCTATAAATAG
Found at i:48845934 original size:13 final size:13
Alignment explanation
Indices: 48845916--48845940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48845906 TTATTTTTAA
48845916 AATATTAATTATG
1 AATATTAATTATG
48845929 AATATTAATTAT
1 AATATTAATTAT
48845941 TTTTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AATATTAATTATG
Found at i:48850795 original size:293 final size:292
Alignment explanation
Indices: 48850258--48850864 Score: 624
Period size: 293 Copynumber: 2.1 Consensus size: 292
48850248 CTAGCATTGG
* * *
48850258 GAGTATTTTAGTCTTTTCACTTATAAAAAATCAATAAAAATATACATATGGTGGGATTCAAACTC
1 GAGTGTTTTAGTCTTTTCACTTATAAAAAATCAATAAAAATATACATATGATGGGATTCAAACCC
* * * * * *
48850323 ACATCATCAATTGCTTTAGTAAAACCTTCATTTACCACTCAAGTTTCAACTAAAGTTTTATTTTG
66 ACATCATCAATTACTTCAATAAAACCTTAATTTACCAC-C-A---TCAACTAAAGATTTATTTTC
* * * * **
48850388 ATATTTTTATACATTTTAATTTTATTATGCACACTTATTACCTTAATCAATTGTATCTATTCTAT
126 ATATTTTTATACATTTTAATTTTATTAAGCACACTTATTACATTAATCAATTATATATACACTAT
* * * * *
48850453 TATTTAAACTTCTGATTGAGTTGGTGTCACGAGTCAACCAGGCACCAACTC-CATTAAAAAATTA
191 TATTTAAAC-TCTGATTGAGCTAGTGCCACGACTCAACCAGGCACCAACTCGCA-CAAAAAATTA
* *
48850517 TGAGAATGTCTTTCAGTAA-TAAAATTAAGTAATATTATTC
254 TGAGAATATCTTT-AGTAATTAAAA-GAAGTAATATTATTC
* * *
48850557 AAGAGTGTTTTAGTCTTTTCACTT-TAAAAAATTAATAAAAATATGCATATGAT-GGACTAT-GA
1 --GAGTGTTTTAGTCTTTTCACTTATAAAAAATCAATAAAAATATACATATGATGGGA-T-TCAA
* *
48850619 ACCCACATCATCAATTACTTCAATAAAGCTTTAATTTACCA-C-TCAACTAAAGATTTATTTTCA
62 ACCCACATCATCAATTACTTCAATAAAACCTTAATTTACCACCATCAACTAAAGATTTATTTTCA
* * * *
48850682 TATTTTTGTACATTTTAATTTTATTAAGTACACCTTATTACATCT-ATCAGTTATATATACAGTA
127 TATTTTTATACATTTTAATTTTATTAAGCACA-CTTATTACAT-TAATCAATTATATATACACTA
* ** * *
48850746 TT-TATTAAGAC-CTGATTGAGCTAGTGCCAC-CCTCAACCGATTCACCAACTCGGACAGAAAAT
190 TTAT-TTAA-ACTCTGATTGAGCTAGTGCCACGACTCAACC-AGGCACCAACTCGCACAAAAAAT
* *
48850808 TATGAGAATATCTTTTGTAATTAAAAGAAGTTATATTATTC
252 TATGAGAATATCTTTAGTAATTAAAAGAAGTAATATTATTC
48850849 GAGTGTATTTAGTCTT
1 GAGTGT-TTTAGTCTT
48850865 AACCAAAAAC
Statistics
Matches: 258, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
290 6 0.02
291 9 0.03
292 23 0.09
293 100 0.39
294 29 0.11
295 3 0.01
298 1 0.00
299 3 0.01
300 62 0.24
301 22 0.09
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (292 bp):
GAGTGTTTTAGTCTTTTCACTTATAAAAAATCAATAAAAATATACATATGATGGGATTCAAACCC
ACATCATCAATTACTTCAATAAAACCTTAATTTACCACCATCAACTAAAGATTTATTTTCATATT
TTTATACATTTTAATTTTATTAAGCACACTTATTACATTAATCAATTATATATACACTATTATTT
AAACTCTGATTGAGCTAGTGCCACGACTCAACCAGGCACCAACTCGCACAAAAAATTATGAGAAT
ATCTTTAGTAATTAAAAGAAGTAATATTATTC
Found at i:48850988 original size:15 final size:16
Alignment explanation
Indices: 48850965--48850997 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48850955 AGCTTTATTT
48850965 TAATATTGTTTT-ATA
1 TAATATTGTTTTAATA
*
48850980 TAATTTTGTTTTAATA
1 TAATATTGTTTTAATA
48850996 TA
1 TA
48850998 CACAACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TAATATTGTTTTAATA
Found at i:48854101 original size:28 final size:28
Alignment explanation
Indices: 48854060--48854118 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
48854050 CTTCAAAGTG
* *
48854060 AAAAAAAAATTTGTGAGTTGAG-GGAAA
1 AAAAAAAAAATTGTGAGTTGAGAAGAAA
48854087 AAAAAACAAAATTGTGAGTTGAGAAGAAA
1 AAAAAA-AAAATTGTGAGTTGAGAAGAAA
48854116 AAA
1 AAA
48854119 CAGTGGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
28 15 0.54
29 7 0.25
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.19
Consensus pattern (28 bp):
AAAAAAAAAATTGTGAGTTGAGAAGAAA
Found at i:48861750 original size:18 final size:18
Alignment explanation
Indices: 48861724--48861766 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48861714 TCTAGATTGT
48861724 ATCAGAATAGGACCCTGA
1 ATCAGAATAGGACCCTGA
* *
48861742 ATTAGAATAGGAGCCTGA
1 ATCAGAATAGGACCCTGA
48861760 ATCAGAA
1 ATCAGAA
48861767 CAGACTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (18 bp):
ATCAGAATAGGACCCTGA
Found at i:48873820 original size:32 final size:32
Alignment explanation
Indices: 48873779--48873845 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
48873769 ATTGATTGTC
48873779 GATTTGGGAGATTGAGGAAGTGGGGG-AG-AAAG
1 GATTTGGGAG-TTGA-GAAGTGGGGGTAGAAAAG
*
48873811 GATTTGGGAGTTTAGAAGTGGGGGTAGAAAAG
1 GATTTGGGAGTTGAGAAGTGGGGGTAGAAAAG
48873843 GAT
1 GAT
48873846 GATGTGGCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.31
31 5 0.16
32 17 0.53
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.22
Consensus pattern (32 bp):
GATTTGGGAGTTGAGAAGTGGGGGTAGAAAAG
Found at i:48884199 original size:29 final size:28
Alignment explanation
Indices: 48884149--48884204 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
48884139 CGTTCAATAT
* * *
48884149 TTAAAAATATATTTTTTAAAAATTAATC
1 TTAAAAATAAATATTTTAAAAAATAATC
*
48884177 TTAAAATATAAATATTTTGAAAAATAAT
1 TTAAAA-ATAAATATTTTAAAAAATAAT
48884205 AAAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAAAAATAAATATTTTAAAAAATAATC
Found at i:48886123 original size:63 final size:63
Alignment explanation
Indices: 48886049--48886170 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
48886039 ATGGCCTAGA
* *
48886049 CACATGCCCGTGTC-TCTGGCCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGGCCTGGG
1 CACACGCCCGTGTCGT-TGACCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGGCCTGGG
** * * *
48886112 CACACGCCCGTGTCGTTGACTTGTGTGATTCTAATTCCAAAATAGTGAGTTACACGGCC
1 CACACGCCCGTGTCGTTGACCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGGCC
48886171 ATGTAGGGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 50 0.98
64 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (63 bp):
CACACGCCCGTGTCGTTGACCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGGCCTGGG
Found at i:48893293 original size:2 final size:2
Alignment explanation
Indices: 48893288--48893312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48893278 TTCCCCCCTC
48893288 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
48893313 CAAAAAGGCT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:48916824 original size:36 final size:38
Alignment explanation
Indices: 48916784--48916856 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 38
48916774 TTTTAAAAAA
48916784 TAAATTAAATTTTA-GAGTTTTAAA-AAAATAATTAAT
1 TAAATTAAATTTTAGGAGTTTTAAATAAAATAATTAAT
** * *
48916820 TAAATTAGGTTTTAGGTGTTTTAAATAAATTAATTAA
1 TAAATTAAATTTTAGGAGTTTTAAATAAAATAATTAA
48916857 ATTAGGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 12 0.39
37 9 0.29
38 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.44
Consensus pattern (38 bp):
TAAATTAAATTTTAGGAGTTTTAAATAAAATAATTAAT
Found at i:48916831 original size:28 final size:29
Alignment explanation
Indices: 48916778--48916833 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
48916768 TAAGAATTTT
48916778 AAAAAATAAATTAAATTTTAGAGTTTTAAA
1 AAAAAATAAATTAAA-TTTAGAGTTTTAAA
*
48916808 AAAATAATTAATTAAA-TTAG-GTTTTA
1 AAAA-AATAAATTAAATTTAGAGTTTTA
48916834 GGTGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 4 0.17
31 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (29 bp):
AAAAAATAAATTAAATTTAGAGTTTTAAA
Found at i:48916888 original size:34 final size:34
Alignment explanation
Indices: 48916809--48916913 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
48916799 AGTTTTAAAA
* * *
48916809 AAAT-AATTAATTAAATTAGGTTTTAGGTGTTTT
1 AAATAAATTAATTAAATTAGGGTTTAGTTTTTTT
48916842 AAATAAATTAATTAAATTAGGGTTTAGAATTTTTTT
1 AAATAAATTAATTAAATTAGGGTTTAG--TTTTTTT
* *
48916878 TAA-AAA-TAATTAAATTAGAGTTTAGTTTTTTT
1 AAATAAATTAATTAAATTAGGGTTTAGTTTTTTT
48916910 AAAT
1 AAAT
48916914 TTAGGTTAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
32 9 0.15
33 4 0.06
34 39 0.63
35 3 0.05
36 7 0.11
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (34 bp):
AAATAAATTAATTAAATTAGGGTTTAGTTTTTTT
Found at i:48917105 original size:126 final size:126
Alignment explanation
Indices: 48916966--48917485 Score: 751
Period size: 126 Copynumber: 4.1 Consensus size: 126
48916956 TTTTGTTTTT
* * * *
48916966 TTTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCT-GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * *
48917030 AACGCTTCAAGCAAAATGTACTGTTAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
48917092 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * *
48917157 ACGCTTCAAGCAGTAA-GCACTGTCAGTAAAATTA-TTAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCA-AAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
48917217 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACAGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** * *
48917282 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTA
66 ACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
48917343 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * *
48917408 ATGCTTCGAA-CAAGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCTCATGTGGACGCTC
66 ACGCTTC-AAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
48917469 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
48917486 TTGTTTGCCA
Statistics
Matches: 355, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
124 1 0.00
125 114 0.32
126 235 0.66
127 5 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48917430 original size:251 final size:252
Alignment explanation
Indices: 48916966--48917488 Score: 802
Period size: 251 Copynumber: 2.1 Consensus size: 252
48916956 TTTTGTTTTT
* * * *
48916966 TTTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCTT-GAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAA
* * * * *
48917030 AACGCTTCAAGCAAAATGTACTGTTAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTT
65 AACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTT
* *
48917095 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTCAAAAACG
130 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACG
*
48917160 CTTCAAGCAGTAAGCACTGTCAGTAAAATTA-TTAAAAAAGCTCCCACGTGGACGCTC
195 CTTCAAGCAGTAAGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
48917217 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACAGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAAA
**
48917282 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTT
66 ACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTT
*
48917347 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAATGC
131 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACGC
* * * *
48917412 TTCGAA-CAAG-ATGCACTGTTAGTAAAATTACTGAAAAAAGCTCTCATGTGGACGCTC
196 TTC-AAGC-AGTAAGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
48917469 TTTTTCTACAGTAGTTCTTG
1 TTTTTCTACAGTAGTTCTTG
48917489 TTTGCCATTA
Statistics
Matches: 247, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
251 198 0.80
252 49 0.20
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAAA
ACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTT
TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACGC
TTCAAGCAGTAAGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48920960 original size:18 final size:18
Alignment explanation
Indices: 48920937--48920974 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
48920927 GGAAAATGAA
*
48920937 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
48920955 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
48920973 AC
1 AC
48920975 GCACCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:48923539 original size:23 final size:23
Alignment explanation
Indices: 48923500--48923547 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48923490 AGCCCCATTT
48923500 AAAACCCAAGATGCAAAAACTAA
1 AAAACCCAAGATGCAAAAACTAA
* *
48923523 AAAAGCCCAA-ATTCAAAACCTAA
1 AAAA-CCCAAGATGCAAAAACTAA
48923546 AA
1 AA
48923548 TAAACCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.60, C:0.23, G:0.06, T:0.10
Consensus pattern (23 bp):
AAAACCCAAGATGCAAAAACTAA
Found at i:48923957 original size:10 final size:10
Alignment explanation
Indices: 48923942--48923980 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
48923932 TGATCAAAGA
48923942 AAGAAAATAG
1 AAGAAAATAG
48923952 AAGAAAATAG
1 AAGAAAATAG
48923962 AAGAAAAT-G
1 AAGAAAATAG
48923971 AGAGAAAATA
1 A-AGAAAATA
48923981 AGTATTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.07
10 25 0.93
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (10 bp):
AAGAAAATAG
Found at i:48934830 original size:13 final size:13
Alignment explanation
Indices: 48934812--48934839 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48934802 TTGGTACCAC
48934812 AATTATATCATCA
1 AATTATATCATCA
48934825 AATTATATCATCA
1 AATTATATCATCA
48934838 AA
1 AA
48934840 ATATCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTATATCATCA
Found at i:48935716 original size:41 final size:41
Alignment explanation
Indices: 48935606--48935716 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
48935596 CGGATAATTT
* * *
48935606 GAAGTAATAATTTGACACCTAGTGTCTCATCG-ACTAAACC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACC
* * * * *
48935646 G-A--AGTAAATTGGCACCCAGTGCCTTATCGAATTAATCC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACC
*
48935684 GAAGTAGTAAATTGACACCCAGTATCTCATCGA
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGA
48935717 CTCAAAGTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
37 21 0.38
38 7 0.13
39 2 0.04
40 1 0.02
41 24 0.44
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (41 bp):
GAAGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACC
Found at i:48936597 original size:17 final size:17
Alignment explanation
Indices: 48936575--48936610 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48936565 CCTGTTTTCG
48936575 TTTCTATGCTCTTTCTT
1 TTTCTATGCTCTTTCTT
* *
48936592 TTTCTATTCTTTTTCTT
1 TTTCTATGCTCTTTCTT
48936609 TT
1 TT
48936611 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTATGCTCTTTCTT
Found at i:48936601 original size:22 final size:20
Alignment explanation
Indices: 48936543--48936602 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
48936533 ATTCTTTCTT
*
48936543 TTTCTTTTTCTTTCTTTCCC
1 TTTCTTTTTCTTTCTTGCCC
* *
48936563 TTCCTGTTTTCGTTTCTATGCTC
1 TTTCT-TTTTC-TTTCT-TGCCC
48936586 TTTCTTTTTCTATTCTT
1 TTTCTTTTTCT-TTCTT
48936603 TTTCTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 4 0.12
21 7 0.22
22 14 0.44
23 7 0.22
ACGTcount: A:0.03, C:0.25, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTCTTTTTCTTTCTTGCCC
Found at i:48936655 original size:7 final size:7
Alignment explanation
Indices: 48936645--48936669 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48936635 ATATATATAC
48936645 TTAACTT
1 TTAACTT
48936652 TTAACTT
1 TTAACTT
48936659 TTAACTT
1 TTAACTT
48936666 TTAA
1 TTAA
48936670 TATTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAACTT
Found at i:48939221 original size:17 final size:17
Alignment explanation
Indices: 48939199--48939232 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48939189 TAGTAGGATA
48939199 GACTTCAAAATGCCTCC
1 GACTTCAAAATGCCTCC
48939216 GACTTCAAAATGCCTCC
1 GACTTCAAAATGCCTCC
48939233 ATTGACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (17 bp):
GACTTCAAAATGCCTCC
Found at i:48944046 original size:50 final size:50
Alignment explanation
Indices: 48943987--48944467 Score: 327
Period size: 50 Copynumber: 9.6 Consensus size: 50
48943977 AACTTCTAGA
* *
48943987 AAGTAAGATTCGCCATCGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
** ** * * * * *
48944037 AAGTAAGATTCACTGTTGTGGCTTTAATCTGCTTCACTGTACTGCCTGGG
1 AAGTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* ** * *
48944087 AATGTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGG
1 AA-GTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* * ** * *
48944138 AAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGG
1 AAGTAAGATTCACC-ATTGTGGCTTTAATCTTTTTAACTGCAAT-GTCGGGG
* * * * * *
48944188 AGGTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATATCGGGG
1 AAGTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* ** **
48944238 AAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGC-ATCG-CTGGGG
1 AAGTAAGATTCACC-ATTGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGG
* * ** * * *
48944288 AGGTAAGATTCGCTGTTGTAGCTTTAATATTTTGAACTGCAATGTCGGGG
1 AAGTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* * ** ***
48944338 AAGTAAGATTCATCGA-TGTGGCTTTAAT-TTGTTCT-GCTGCACCG-CTTTTG
1 AAGTAAGATTCA-CCATTGTGGCTTTAATCTT-TT-TAACTGCAATGTC-GGGG
*
48944388 AAGTAAGATT--CCATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCACCA--TTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* *
48944438 AAGCAAGATTCACCGTTGTGGCTTTAATCT
1 AAGTAAGATTCACCATTGTGGCTTTAATCT
48944468 ATTCCACGAC
Statistics
Matches: 322, Mismatches: 86, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
47 2 0.01
49 10 0.03
50 258 0.80
51 50 0.16
52 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (50 bp):
AAGTAAGATTCACCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
Found at i:48944241 original size:100 final size:100
Alignment explanation
Indices: 48943989--48944588 Score: 722
Period size: 100 Copynumber: 6.1 Consensus size: 100
48943979 CTTCTAGAAA
** * * * * * *
48943989 GTAAGATTCGCCATCGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGTT
1 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* *
48944054 GTGGCTTTAATCTGCTT-CACTGTA-CTGCCTGGGAAT
66 GTGGCTTTAATCTG-TTCCACTGCATC-GCCTGGG-AG
48944090 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
48944155 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
* *
48944190 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATATCGGGGAAGCAAGATTCACCGAT
1 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
*
48944255 GTGGCTTTAATCTGCTCCACTGCATCG-CTGGGGAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCT-GGGAG
* * *
48944290 GTAAGATTCGCTGTTGTAGCTTTAATATTTTGAACTGCAATGTCGGGGAAGTAAGATTCATCGAT
1 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* ** * * ** *
48944355 GTGGCTTTAATTTGTTCTGCTGCACCGCTTTTGAA
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
* *
48944390 GTAAGATTC-CATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
1 GTAAGATTCGC-TGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* ** *
48944454 TGTGGCTTTAATCTATTCCAC-GACATCGCCAAGGAA
65 TGTGGCTTTAATCTGTTCCACTG-CATCGCCTGGGAG
* * *
48944490 GTAGGATTCGCTGCTGTGGCTTTAA-----T---CTGCAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* * *
48944547 GTGGCTTTAATCTGTTCCACTACACCGCTTGGGAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
*
48944582 ATAAGAT
1 GTAAGAT
48944589 CTGTAATTCT
Statistics
Matches: 437, Mismatches: 54, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
92 62 0.14
95 1 0.00
99 4 0.01
100 283 0.65
101 86 0.20
102 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (100 bp):
GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
Found at i:48944739 original size:44 final size:44
Alignment explanation
Indices: 48944691--48944928 Score: 196
Period size: 44 Copynumber: 5.2 Consensus size: 44
48944681 ATTTTAATTC
* *
48944691 GCTCCACTGTAATCTCTGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
* * *
48944735 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCGATCTGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATC---T
* * * * *
48944782 GCGATCTACTTTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCC
1 GC--TC--C---ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCT
*
48944833 GCTCCACTGTAATCTCAGGGAGATAGGATTA-TGAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACT-AGCTTCAATCT
* * *
48944877 GCTCCGCTGTAATCTCAGGGAGATAAGATTGCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
48944921 GCTCCACT
1 GCTCCACT
48944929 ATTGCTTAGG
Statistics
Matches: 154, Mismatches: 22, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 109 0.71
45 2 0.01
47 4 0.03
49 4 0.03
51 3 0.02
53 1 0.01
54 25 0.16
55 2 0.01
56 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
Found at i:48944891 original size:142 final size:142
Alignment explanation
Indices: 48944635--48944921 Score: 504
Period size: 142 Copynumber: 2.0 Consensus size: 142
48944625 GAGATAAGAC
*
48944635 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
48944700 TAATCTCTGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
* *
48944765 TCTAGCTTCGAT
131 GCTAGCTTCAAT
*
48944777 CTGATGCGATCTACTTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
48944842 TAATCTCAGGGAGATAGGATTA-TGAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACT-AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
48944906 TGCTGGCTTCAAT
130 TGCTAGCTTCAAT
48944919 CTG
1 CTG
48944922 CTCCACTATT
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 1 0.01
142 137 0.99
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
GCTAGCTTCAAT
Found at i:48946212 original size:13 final size:14
Alignment explanation
Indices: 48946194--48946240 Score: 69
Period size: 13 Copynumber: 3.3 Consensus size: 14
48946184 CTGTCATTAC
48946194 TTTTCATTTTCA-T
1 TTTTCATTTTCATT
48946207 TTTTCATTTTCATT
1 TTTTCATTTTCATT
48946221 TTTTCATTTTTCATCT
1 TTTTCA-TTTTCAT-T
48946237 TTTT
1 TTTT
48946241 TTTTGAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 7 0.23
16 5 0.16
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCATTTTCATT
Found at i:48946226 original size:8 final size:7
Alignment explanation
Indices: 48946194--48946239 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
48946184 CTGTCATTAC
48946194 TTTTCA-
1 TTTTCAT
48946200 TTTTCAT
1 TTTTCAT
48946207 TTTTCA-
1 TTTTCAT
48946213 TTTTCATT
1 TTTTCA-T
48946221 TTTTCAT
1 TTTTCAT
48946228 TTTTCAT
1 TTTTCAT
48946235 CTTTT
1 -TTTT
48946240 TTTTTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.33
7 14 0.39
8 10 0.28
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:48961431 original size:27 final size:27
Alignment explanation
Indices: 48961400--48961791 Score: 504
Period size: 27 Copynumber: 14.6 Consensus size: 27
48961390 CAACTTGCGA
*
48961400 CTCGATGGGTAAAATTATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
**
48961427 CTCGAAGGGTAAAATTATTAAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
48961454 CTTGAACGGTAAAATTATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
**
48961481 CTCGAAGGGTAAAATTGCCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
48961508 CTCGAAAGGTAAAATTGTCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
*
48961535 TTCGAAGGGTAAAATTATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
*
48961562 CTCAAAGGGTAAAATTA-CTGAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
48961589 CTCGAAGGGTAAAATTATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
*
48961616 CTTGAAGGGTAAAATTA-CTGAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
* *
48961643 CCCGAAGGGT-AAATTATCGAAATGCC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
48961669 CTCGAAGTGTAAAATTACCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
*
48961696 CTCGAAGGGTAAAATTATTGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
48961723 CTCAAAGGGTAAAATTACCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* * * * * *
48961750 CCCAAATGAT-AAATTTTCTAAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
48961777 CTCGAAGGGTAAAAT
1 CTCGAAGGGTAAAAT
48961792 AACTGTTATA
Statistics
Matches: 315, Mismatches: 43, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
26 29 0.09
27 281 0.89
28 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (27 bp):
CTCGAAGGGTAAAATTATCGAAATACC
Found at i:48965095 original size:155 final size:155
Alignment explanation
Indices: 48964829--48965240 Score: 499
Period size: 155 Copynumber: 2.7 Consensus size: 155
48964819 ATTGGTATGA
* * * * *
48964829 CCGAAGTAAAAATTGTGCCCAGT-ACTCTTCAAAACATAGTCAAAGTAACCA-TTGACATCCAGT
1 CCGAAGTAAAAATTGTGTCCA-TCACTCATCGACACATAGTCGAAGTAACCATTTGACATCCAGT
* * * * *
48964892 GCCTCATCAGAACG-CTCGAAGTAATTAGTTTGCACCCCGGGCTCATTGGTATAACTGGAGTAAA
65 GCCTCATCGGAACGTC-CGAAGTAATTAGTTTGTACCCAGGGCTCATTGGTATAACCGAAGTAAA
** * *
48964956 TGTTGTGCCCAGTACTCATCGGAACTT
129 TGTTGTGCCCAACACTCATCGAAACGT
*
48964983 CCGAAGTAAAAATTGTGTCCATCACTCATCGACACGTAGTCGAAGTAACCATTTGACATCCAGTG
1 CCGAAGTAAAAATTGTGTCCATCACTCATCGACACATAGTCGAAGTAACCATTTGACATCCAGTG
* * *
48965048 CCTCATCGGAACGTCCGAAGTAATTAGTTTGTACCCAGTGTTTATTGGTATAACCGAAGTAAATG
66 CCTCATCGGAACGTCCGAAGTAATTAGTTTGTACCCAGGGCTCATTGGTATAACCGAAGTAAATG
48965113 TTGTGCCCAACACTCATCGAAACGT
131 TTGTGCCCAACACTCATCGAAACGT
* * * * * * *
48965138 CTGATGTAAAAATTGT-TCCCAGCACTCATCGACACATAGTCGAAGTCACCATTAGGCACCCAGT
1 CCGAAGTAAAAATTGTGT-CCATCACTCATCGACACATAGTCGAAGTAACCATTTGACATCCAGT
* * * * *
48965202 GCCTCATTGGAACATCCGAAGTAACTAATTTGTGCCCAG
65 GCCTCATCGGAACGTCCGAAGTAATTAGTTTGTACCCAG
48965241 CTCTCATCGA
Statistics
Matches: 223, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
153 1 0.00
154 44 0.20
155 177 0.79
156 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (155 bp):
CCGAAGTAAAAATTGTGTCCATCACTCATCGACACATAGTCGAAGTAACCATTTGACATCCAGTG
CCTCATCGGAACGTCCGAAGTAATTAGTTTGTACCCAGGGCTCATTGGTATAACCGAAGTAAATG
TTGTGCCCAACACTCATCGAAACGT
Found at i:48965353 original size:9 final size:9
Alignment explanation
Indices: 48965339--48965379 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
48965329 TCTATCGATC
48965339 TCAATATCA
1 TCAATATCA
48965348 TCAATATCA
1 TCAATATCA
48965357 TCAAT-TCA
1 TCAATATCA
*
48965365 TCACTCATCA
1 TCAAT-ATCA
48965375 TCAAT
1 TCAAT
48965380 TAAATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 14 0.50
10 7 0.25
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (9 bp):
TCAATATCA
Found at i:48967357 original size:3 final size:3
Alignment explanation
Indices: 48967349--48967428 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
48967339 CTTTCTTTCT
48967349 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48967397 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48967429 GCAACATACT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48967483 original size:19 final size:19
Alignment explanation
Indices: 48967459--48967506 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
48967449 ACGGCACTAA
48967459 CCACTTTAGTGGTTAATTG
1 CCACTTTAGTGGTTAATTG
48967478 CCACTTTAGTGGTTAATTG
1 CCACTTTAGTGGTTAATTG
48967497 CCACTTTAGT
1 CCACTTTAGT
48967507 CCTTCGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (19 bp):
CCACTTTAGTGGTTAATTG
Found at i:48969679 original size:11 final size:11
Alignment explanation
Indices: 48969639--48969672 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48969629 CAATGCATAT
48969639 AACTAATTCA-
1 AACTAATTCAC
48969649 AACTTAATTCAC
1 AAC-TAATTCAC
48969661 AACTAATTCAC
1 AACTAATTCAC
48969672 A
1 A
48969673 TACAATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (11 bp):
AACTAATTCAC
Found at i:48980068 original size:37 final size:37
Alignment explanation
Indices: 48980010--48980136 Score: 182
Period size: 37 Copynumber: 3.4 Consensus size: 37
48980000 ATCCAGCTGA
* *
48980010 AACAAGCCAAATGCTCATAAGAGATAATCCAACCGAT
1 AACACGCCAAGTGCTCATAAGAGATAATCCAACCGAT
* * **
48980047 AACACGCCAAGTTCTCGTAAGATCTAATCCAACCGAT
1 AACACGCCAAGTGCTCATAAGAGATAATCCAACCGAT
*
48980084 AACACGCCAAGTGCTCATAAGAGTTAATCCAACCGAT
1 AACACGCCAAGTGCTCATAAGAGATAATCCAACCGAT
*
48980121 AACACGCCAAGCGCTC
1 AACACGCCAAGTGCTC
48980137 CGAAGAGCTA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.17
Consensus pattern (37 bp):
AACACGCCAAGTGCTCATAAGAGATAATCCAACCGAT
Found at i:48980143 original size:37 final size:38
Alignment explanation
Indices: 48980010--48980170 Score: 159
Period size: 37 Copynumber: 4.2 Consensus size: 38
48980000 ATCCAGCTGA
* * **
48980010 AACAAGCCAAATGCTCATAAGAG-ATAATCCAACCGAT
1 AACACGCCAAGTGCTCCGAAGAGTATAATCCAACCGAT
* *
48980047 AACACGCCAAGTTCT-CGTAAGA-TCTAATCCAACCGAT
1 AACACGCCAAGTGCTCCG-AAGAGTATAATCCAACCGAT
**
48980084 AACACGCCAAGTGCTCATAAGAGT-TAATCCAACCGAT
1 AACACGCCAAGTGCTCCGAAGAGTATAATCCAACCGAT
* * *
48980121 AACACGCCAAGCGCTCCGAAGAGCTATACATCCACCCCTAT
1 AACACGCCAAGTGCTCCGAAGAG-TATA-ATCCA-ACCGAT
48980162 AACACGCCA
1 AACACGCCA
48980171 GGACAAGATA
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
37 80 0.78
38 2 0.02
39 2 0.02
40 5 0.05
41 13 0.13
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (38 bp):
AACACGCCAAGTGCTCCGAAGAGTATAATCCAACCGAT
Found at i:48988934 original size:15 final size:15
Alignment explanation
Indices: 48988907--48988939 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48988897 TGAAGAGGAG
48988907 GAAGAGGATGATGAT
1 GAAGAGGATGATGAT
48988922 GAAGAAGGA-GATGAT
1 GAAG-AGGATGATGAT
48988937 GAA
1 GAA
48988940 ATGGATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.15
Consensus pattern (15 bp):
GAAGAGGATGATGAT
Found at i:49001126 original size:25 final size:26
Alignment explanation
Indices: 49001098--49001151 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
49001088 TGGAGGAAGT
*
49001098 ATACTG-TACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
49001123 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
49001149 ATA
1 ATA
49001152 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTGCG
Found at i:49001290 original size:33 final size:33
Alignment explanation
Indices: 49001248--49001313 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49001238 TGCATTATTG
49001248 CACTGTACTGATACTGTATT-GGGCTAAGGCCCA
1 CACTGTACTGATACTG-ATTAGGGCTAAGGCCCA
* *
49001281 CACTGTACTGTTACTGATTAGGGCTCAGGCCCA
1 CACTGTACTGATACTGATTAGGGCTAAGGCCCA
49001314 GACTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (33 bp):
CACTGTACTGATACTGATTAGGGCTAAGGCCCA
Found at i:49002539 original size:11 final size:12
Alignment explanation
Indices: 49002523--49002551 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49002513 TGGAGAAATG
49002523 TTTTATTTTAT-
1 TTTTATTTTATC
49002534 TTTTATTTTATC
1 TTTTATTTTATC
49002546 TTTTAT
1 TTTTAT
49002552 ACTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTATC
Found at i:49014091 original size:34 final size:34
Alignment explanation
Indices: 49014048--49014115 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
49014038 AAGAGCGTAA
49014048 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
49014082 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
49014116 TCAGATCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AGCTAATTCAGTGCAGATAATGATATCACTTGGT
Found at i:49021047 original size:19 final size:18
Alignment explanation
Indices: 49021008--49021056 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
49020998 TTTTTATTAT
49021008 AAATAAAAAAATAAAATA
1 AAATAAAAAAATAAAATA
*
49021026 AAATAGAAAGAATAGAAA-A
1 AAATA-AAAAAATA-AAATA
49021045 AAATTAAAAAAA
1 AAA-TAAAAAAA
49021057 GTCCCGATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
AAATAAAAAAATAAAATA
Found at i:49021671 original size:24 final size:24
Alignment explanation
Indices: 49021644--49021696 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
49021634 TTTCTAGAAG
* *
49021644 ATTTGGTATTTATGAGTATAATAT
1 ATTTGGCATTTATGAGCATAATAT
* *
49021668 ATTTAGCATTTATTAGCATAATAT
1 ATTTGGCATTTATGAGCATAATAT
49021692 ATTTG
1 ATTTG
49021697 ACTTTGATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
ATTTGGCATTTATGAGCATAATAT
Found at i:49029053 original size:18 final size:18
Alignment explanation
Indices: 49029030--49029078 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
49029020 TTAAATTGTA
*
49029030 AATTATATTTTCAAATAT
1 AATTATATTTTCAAACAT
49029048 AATTATATTTT-AAACAT
1 AATTATATTTTCAAACAT
49029065 AATGTAT-TTTTCAA
1 AAT-TATATTTTCAA
49029079 TTAATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTATATTTTCAAACAT
Found at i:49056285 original size:46 final size:43
Alignment explanation
Indices: 49056233--49056466 Score: 235
Period size: 46 Copynumber: 5.6 Consensus size: 43
49056223 TTTGAGTACT
49056233 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG---TAGCTACACTTA
**
49056279 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
**
49056316 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
*
49056353 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--T-AGCTACACTTA
**
49056399 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TAGCTACACTTA
49056444 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
49056467 AGGTCATATG
Statistics
Matches: 167, Mismatches: 9, Indels: 27
0.82 0.04 0.13
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 61 0.37
40 3 0.02
41 1 0.01
43 11 0.07
44 1 0.01
45 22 0.13
46 66 0.40
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:49056312 original size:37 final size:37
Alignment explanation
Indices: 49056271--49056381 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
49056261 TAGTTTTAGC
49056271 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
49056308 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
49056345 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
49056382 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:49057834 original size:12 final size:12
Alignment explanation
Indices: 49057811--49057842 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
49057801 GAGTGCATTA
49057811 AAAGTG-TTGAG
1 AAAGTGATTGAG
49057822 AAAGTGATTGAG
1 AAAGTGATTGAG
49057834 AAAGT-ATTG
1 AAAGTGATTG
49057843 TTAACAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (12 bp):
AAAGTGATTGAG
Found at i:49066793 original size:46 final size:46
Alignment explanation
Indices: 49066729--49066824 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
49066719 CCTGTTGAGA
49066729 AGTTAGGTGAATGTTAAACAATAACAATTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATAACAATTGTATTGTTAAGGTGGTT
* *
49066775 AGTTAGGTGAATGTTAAACAATAAGAGTTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATAACAATTGTATTGTTAAGGTGGTT
49066821 AGTT
1 AGTT
49066825 GATTATTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (46 bp):
AGTTAGGTGAATGTTAAACAATAACAATTGTATTGTTAAGGTGGTT
Found at i:49073401 original size:2 final size:2
Alignment explanation
Indices: 49073394--49073426 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49073384 TTAAAAAGAA
49073394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49073427 AATTTTGAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49081055 original size:15 final size:16
Alignment explanation
Indices: 49081025--49081059 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
49081015 ATTTATCGAT
*
49081025 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
49081041 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
49081056 TTTA
1 TTTA
49081060 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:49082312 original size:49 final size:49
Alignment explanation
Indices: 49082255--49082356 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
49082245 GTTTGTTTGT
49082255 TATACTTGTGTTTCATCCATTTTCTTATTGTACTGTTGGAATATATATA
1 TATACTTGTGTTTCATCCATTTTCTTATTGTACTGTTGGAATATATATA
49082304 TATACTTGTGTTTCATCCATTTTCTTATTGTACTGTTGGAATATATATA
1 TATACTTGTGTTTCATCCATTTTCTTATTGTACTGTTGGAATATATATA
49082353 TATA
1 TATA
49082357 TAGTACATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (49 bp):
TATACTTGTGTTTCATCCATTTTCTTATTGTACTGTTGGAATATATATA
Found at i:49082404 original size:2 final size:2
Alignment explanation
Indices: 49082392--49082429 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
49082382 TTTACCTTCT
*
49082392 TA TA CA 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
49082430 AGTGACGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:49083536 original size:17 final size:17
Alignment explanation
Indices: 49083516--49083608 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
49083506 TTATTTTCTA
49083516 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
49083533 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
49083547 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * **
49083563 TATTAG-TATAAAAATT
1 TATAAGTTTTCTAAATT
*
49083579 TAGT-AG-TAT-TAAATT
1 TA-TAAGTTTTCTAAATT
49083594 TATAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
49083609 AAAGTGTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.17
14 3 0.05
15 9 0.15
16 18 0.30
17 20 0.33
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:49083543 original size:30 final size:30
Alignment explanation
Indices: 49083509--49083626 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 30
49083499 TATTGTTTTA
*
49083509 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* *
49083539 TTTTCTAAATAATTTTTCTAAATTTATTAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* ** * *
49083569 -TATAAAAATTTAGTAGTAT-TAAATTTATAAG
1 TTTTCTAAA-TAAGT--TTTCTAAATTTATAAG
* * *
49083600 TTTTCTAAAAAAGTGTTCTAGATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
49083627 TATTAATAAA
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
29 6 0.09
30 38 0.58
31 14 0.22
32 7 0.11
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:49083559 original size:13 final size:13
Alignment explanation
Indices: 49083509--49083561 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
49083499 TATTGTTTTA
*
49083509 TTTTCTATATAAG
1 TTTTCTAAATAAG
49083522 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
49083539 TTTTCTAAATAAT
1 TTTTCTAAATAAG
49083552 TTTTCTAAAT
1 TTTTCTAAAT
49083562 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:49083594 original size:15 final size:16
Alignment explanation
Indices: 49083557--49083595 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
49083547 ATAATTTTTC
*
49083557 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
49083573 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
49083588 TAAATTTA
1 TAAATTTA
49083596 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:49083594 original size:61 final size:61
Alignment explanation
Indices: 49083527--49083674 Score: 183
Period size: 61 Copynumber: 2.4 Consensus size: 61
49083517 ATAAGTTTTC
*
49083527 TAAATTTATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * *
49083588 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
49083649 CAATTTTACAAGTTTTGTAAATAATT
1 TAAATTTATAAGTTTTCTAAATAATT
49083675 ATATTTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
60 1 0.01
61 71 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:49083911 original size:8 final size:7
Alignment explanation
Indices: 49083898--49083943 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
49083888 TAACTTATAT
49083898 ATAATAAC
1 ATAAT-AC
49083906 ATAATA-
1 ATAATAC
*
49083912 A-ATTAC
1 ATAATAC
49083918 ATAATAC
1 ATAATAC
49083925 ATAATAAC
1 ATAAT-AC
49083933 ATAATAC
1 ATAATAC
49083940 ATAA
1 ATAA
49083944 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:49083931 original size:95 final size:95
Alignment explanation
Indices: 49083819--49084084 Score: 410
Period size: 95 Copynumber: 2.8 Consensus size: 95
49083809 AATCATTTGC
* * *
49083819 TTACTTAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACATAATAAC
49083883 TTCCATAACTTATATATAATAACATAATAAA
65 TTCCATAACTTATATATAATAACATAATAAA
*
49083914 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
*** *
49083979 TCCATAACTTATATATAATCTGATAATACA
66 TCCATAACTTATATATAATAACATAATAAA
* *
49084009 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTA-ATAACAAC
1 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACATAATAAC
49084073 TTCCATAACTTA
65 TTCCATAACTTA
49084085 ATACACCACT
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
95 139 0.88
96 19 0.12
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (95 bp):
TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
TCCATAACTTATATATAATAACATAATAAA
Found at i:49083936 original size:15 final size:15
Alignment explanation
Indices: 49083898--49083943 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49083888 TAACTTATAT
49083898 ATAATAACATAAT--
1 ATAATAACATAATAC
*
49083911 A-AATTACATAATAC
1 ATAATAACATAATAC
49083925 ATAATAACATAATAC
1 ATAATAACATAATAC
49083940 ATAA
1 ATAA
49083944 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:49083944 original size:53 final size:53
Alignment explanation
Indices: 49083886--49084051 Score: 165
Period size: 53 Copynumber: 3.3 Consensus size: 53
49083876 TAATAACTTC
49083886 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATA
1 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATA
* ** * *
49083939 CATAACTTATATAT-A-AGC-T--TGTATAAC-T--TACATAATAAC-T--TC
1 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATA
*** *
49083981 CATAACTTATATATAATCTGATAATACATTACATAATACATAATAACATAATA
1 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATA
49084034 CATAACTTATATTATAAT
1 CATAACTTATA-TATAAT
49084052 CTTGCATAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
42 15 0.17
43 1 0.01
44 1 0.01
45 12 0.13
47 6 0.07
48 6 0.07
50 12 0.13
51 3 0.03
52 1 0.01
53 26 0.29
54 6 0.07
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (53 bp):
CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATA
Found at i:49083965 original size:21 final size:20
Alignment explanation
Indices: 49083939--49083996 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
49083929 TAACATAATA
*
49083939 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
* *
49083960 TATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
49083981 CATAACTTATATATAA
1 CATAACTTATATATAA
49083997 TCTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:49084018 original size:12 final size:14
Alignment explanation
Indices: 49084001--49084037 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
49083991 ATATAATCTG
49084001 ATAATACAT-T-AC
1 ATAATACATATAAC
49084013 ATAATACATAATAAC
1 ATAATACAT-ATAAC
49084028 ATAATACATA
1 ATAATACATA
49084038 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:49084031 original size:8 final size:7
Alignment explanation
Indices: 49084001--49084038 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
49083991 ATATAATCTG
49084001 ATAATAC
1 ATAATAC
49084008 AT--TAC
1 ATAATAC
49084013 ATAATAC
1 ATAATAC
49084020 ATAATAAC
1 ATAAT-AC
49084028 ATAATAC
1 ATAATAC
49084035 ATAA
1 ATAA
49084039 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:49084050 original size:27 final size:27
Alignment explanation
Indices: 49083981--49084051 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
49083971 TAATAACTTC
***
49083981 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
49084007 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
49084034 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
49084052 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Done.