Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 132 of 297
Found at i:45400185 original size:470 final size:470
Alignment explanation
Indices: 45399305--45400455 Score: 2293
Period size: 470 Copynumber: 2.4 Consensus size: 470
45399295 TTCTCTCCAA
45399305 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
45399370 CGAGCTGCAAGATATAATGGATCCTGCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
45399435 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
45399500 ATTTACTTATAAAAATTAAATTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 ATTTACTTATAAAAATTAAATTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
45399565 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
45399630 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
45399695 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
391 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
45399760 GCTTGCTTGTCCATT
456 GCTTGCTTGTCCATT
45399775 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
45399840 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
45399905 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
45399970 ATTTACTTATAAAAATTAAATTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 ATTTACTTATAAAAATTAAATTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
45400035 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
45400100 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
45400165 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
391 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
45400230 GCTTGCTTGTCCATT
456 GCTTGCTTGTCCATT
45400245 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
45400310 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
45400375 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
45400440 ATTTACTTATAAAAAT
196 ATTTACTTATAAAAAT
45400456 AGTATTAATA
Statistics
Matches: 680, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 680 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (470 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAATAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTTCA
ATTTACTTATAAAAATTAAATTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
GCTTGCTTGTCCATT
Found at i:45400193 original size:21 final size:21
Alignment explanation
Indices: 45400164--45400203 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45400154 GTTTTTATAT
*
45400164 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
45400185 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
45400204 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:45406449 original size:43 final size:43
Alignment explanation
Indices: 45406402--45407023 Score: 715
Period size: 43 Copynumber: 14.5 Consensus size: 43
45406392 CTGGGCAAAT
*
45406402 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
45406445 TAGCGGTG-TTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
*
45406487 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
45406531 TAGCGGTG-TTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
*
45406573 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * *
45406617 TAGCGACATTTTTTATAAAAGCGCTG-TTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
45406660 TAACGGCGTTTTTT-TACTAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATA--AAAGCGCCGCTAAAAGTACAGGTCTA
*
45406704 TAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
45406747 TTGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* *
45406790 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
45406834 TAGCGGCGTTTTTTATAAAAGCGCCTCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
45406877 TTGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * * * * *
45406920 TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * * *
45406963 TGGTGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
45407005 TAGCGGCG-CTTTTATAAAA
1 TAGCGGCGTTTTTTATAAAA
45407024 AATGCCGCTA
Statistics
Matches: 495, Mismatches: 65, Indels: 39
0.83 0.11 0.07
Matches are distributed among these distances:
41 16 0.03
42 118 0.24
43 210 0.42
44 124 0.25
45 27 0.05
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:45406673 original size:130 final size:130
Alignment explanation
Indices: 45406402--45407023 Score: 780
Period size: 130 Copynumber: 4.8 Consensus size: 130
45406392 CTGGGCAAAT
* *
45406402 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC-G-GTGTTTTTATAAAAG
1 TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTTATAAAAG
* * * * *
45406465 CGCCGCT-AAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTAC-AGGT
66 CGCCGCTAAAAGTAC-AGGTCTATAGCGGCG-TTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGT
45406528 CTA
128 CTA
* * * * * *
45406531 TAGCGGTG-TTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAA
1 TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAAGTAC-AGGTCTATAGCGGCGTTTTTTTATAAAA
* * * *
45406594 GCGCCGCTAAAAGTACAGGTCTATAGCGACATTTTTTATAAAAGCGCTGTTAAAGTTCTTGGTCT
65 GCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
45406659 A
130 A
* **
45406660 TAACGGCGTTTTTTTACTAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCG-TTTTTTATAAAA
1 TAGCGGCG-TTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTTATAAAA
* *
45406724 GCGCCTCTAAAAGTACAGGTCTATTGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
65 GCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
45406789 A
130 A
*
45406790 TAGCGGCGTTTTTTTACAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCG-TTTTTTATAAAA
1 TAGCGGCG-TTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTTATAAAA
* *
45406854 GCGCCTCTAAAAGTACAGGTCTATTGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
65 GCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
45406919 A
130 A
* * * * * * *
45406920 TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAGGTCCTGGTCTTTGGTGGCG-TTTTTT-TAAGAG
1 TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTTATAAAAG
* * * * *
45406983 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCG-CTTTTATAAAA
66 CGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAA
45407024 AATGCCGCTA
Statistics
Matches: 439, Mismatches: 46, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
127 16 0.04
128 63 0.14
129 79 0.18
130 239 0.54
131 36 0.08
132 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (130 bp):
TAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTTATAAAAG
CGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTA
Found at i:45418280 original size:12 final size:12
Alignment explanation
Indices: 45418265--45418290 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45418255 ATTAGCATTG
45418265 TTATTATTTATT
1 TTATTATTTATT
45418277 TTATTATTTATT
1 TTATTATTTATT
45418289 TT
1 TT
45418291 TTTCCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:45418736 original size:22 final size:22
Alignment explanation
Indices: 45418695--45418736 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45418685 CAAATATCCT
* *
45418695 TTTAAAATTAAAATACATAAGA
1 TTTAAAATTAAAAAAAATAAGA
*
45418717 TTTAATATTAAAAAAAATAA
1 TTTAAAATTAAAAAAAATAA
45418737 AAGGCAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTTAAAATTAAAAAAAATAAGA
Found at i:45421939 original size:33 final size:32
Alignment explanation
Indices: 45421866--45421940 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 32
45421856 TTAAAAAATT
* *
45421866 ATATTAATATATTAATAATTTATTATATTTATA
1 ATATTAA-ATATAAATAATATATTATATTTATA
*
45421899 ATAATTAAATATAAATAA-ATATGTATGTTTAATA
1 AT-ATTAAATATAAATAATATAT-TATATTT-ATA
45421933 ATATTAAA
1 ATATTAAA
45421941 CAATATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.08
33 23 0.64
34 10 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
ATATTAAATATAAATAATATATTATATTTATA
Found at i:45422413 original size:20 final size:21
Alignment explanation
Indices: 45422390--45422442 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
45422380 ATTATTAAAC
*
45422390 ATAT-ATTTAATAATTTATTA
1 ATATAATTTAATAATTTAATA
* *
45422410 ATATAATTTATTATTTTAATA
1 ATATAATTTAATAATTTAATA
45422431 A-ATAATTTAATA
1 ATATAATTTAATA
45422443 TTACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATAATTTAATAATTTAATA
Found at i:45422444 original size:20 final size:21
Alignment explanation
Indices: 45422377--45422444 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
45422367 TATTAATATA
45422377 AATATTATTAA-ACATAT-ATTT
1 AATATT-TTAATA-ATATAATTT
* *
45422398 AATAATTTATTAATATAATTT
1 AATATTTTAATAATATAATTT
*
45422419 ATTATTTTAATAA-ATAATTT
1 AATATTTTAATAATATAATTT
45422439 AATATT
1 AATATT
45422445 ACAAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTAATAATATAATTT
Found at i:45424200 original size:27 final size:29
Alignment explanation
Indices: 45424147--45424202 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
45424137 GAACATCATA
* *
45424147 AACTTATAGATTGATTACTTTAATTTAAT
1 AACTTATAGATTCATTACATTAATTTAAT
45424176 AACTTAT-GATTCATTA-ATTAATTTAAT
1 AACTTATAGATTCATTACATTAATTTAAT
45424203 TTGATGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.40
28 8 0.32
29 7 0.28
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (29 bp):
AACTTATAGATTCATTACATTAATTTAAT
Found at i:45432521 original size:86 final size:85
Alignment explanation
Indices: 45432423--45432698 Score: 242
Period size: 86 Copynumber: 3.2 Consensus size: 85
45432413 ATGCCAAATC
*
45432423 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTACTGTGTATCTGCTCTCTATCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCT-TCGA
45432488 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
** * * * * *
45432509 ATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TT-CAGTGA-AATCATCTGAAAGTTAGATCTGC--TGT-GT--ATCTGCTC
* ** *
45432573 -CTTGTGAACA-CAAGGATGCCAAATC----
58 TCTT-CGAA-ATGGA-GATGCCAGATCTGTT
* * * *
45432598 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCT-CTTCGA
45432663 AATGGAGATGCCAGATCTGTT
65 AATGGAGATGCCAGATCTGTT
45432684 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
45432699 TGATAGGAGA
Statistics
Matches: 144, Mismatches: 27, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
82 18 0.12
83 4 0.03
84 3 0.02
85 2 0.01
86 30 0.21
87 21 0.15
88 22 0.15
89 15 0.10
90 3 0.02
91 2 0.01
92 6 0.04
93 18 0.12
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (85 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTGAAAGTTAGATCTGCTGTGTATCTGCTCTCTTCGAA
ATGGAGATGCCAGATCTGTT
Found at i:45432665 original size:175 final size:175
Alignment explanation
Indices: 45432371--45432747 Score: 612
Period size: 175 Copynumber: 2.2 Consensus size: 175
45432361 CGTGAAAGCC
* ** *
45432371 CAAATCTGCTATATCTTTGATTCACTCCTTGTAAACATAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGC
* * *
45432436 TTCAGTGAAATCATCTGAAAGTTAGATCTACTGTGTATCTGCTCTCTATCGAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAAGTTAGATCTACTATGTATCTGCTCTCCATCGAAATGGAGATGCCA
*
45432501 GATCTGTTATCTTGGATCTGCTTTGGT-GTGAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGATAG-GAGAACATCCGAAAGT
* *
45432546 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGC
* * *
45432611 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAAGTTAGATCTACTATGTATCTGCTCTCCATCGAAATGGAGATGCCA
45432676 GATCTGTTATCTTGGATCTGCTTTGATAGGAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTGATAGGAGAACATCCGAAAGT
*
45432721 CAGATCTGCTATGTCTTTGATTTGCTC
1 CAAATCTGCTATGTCTTTGATTTGCTC
45432748 TCCGTCGAAG
Statistics
Matches: 186, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 185 0.99
176 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGC
TTCAGTAAAATCATCTGAAAGTTAGATCTACTATGTATCTGCTCTCCATCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTGATAGGAGAACATCCGAAAGT
Found at i:45432818 original size:93 final size:92
Alignment explanation
Indices: 45432475--45432831 Score: 232
Period size: 93 Copynumber: 4.0 Consensus size: 92
45432465 ACTGTGTATC
** * * * **
45432475 TGCTCTCTATCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGT-GTGAGAACATC
1 TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAG-GAGAACATC
* * *
45432539 CGAAAGTCAAATCTGCTATGTCTTCGATT
65 CGAAAGCCAGATCTGCTATG-CTTTGATT
* * *
45432568 TGCTC-CTTGT-GAACACA-AGGATGCCAAATC----ATCTTGGATCTGC-TTCAGTA--A-AAT
1 TGCTCTC-CGTCGAA-ATAGA-GAAGCCAAATCTGTTATCTTGGATCTGCTTTCA-TAGGAGAA-
* * ** *
45432622 CATCTGAAGGTTAGATCTGCTATG---T-ATC
61 CATCCGAAAGCCAGATCTGCTATGCTTTGATT
* * * *
45432650 TGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATAGGAGAACATCC
1 TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAGGAGAACATCC
*
45432715 GAAAGTCAGATCTGCTATGTCTTTGATT
66 GAAAGCCAGATCTGCTATG-CTTTGATT
*
45432743 TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTTGTTATCTTGGATCTGC-TTCA-GGGTA-AACA
1 TGCTCTCCGTCGAA-ATAGAGAAGCCAAATC-TGTTATCTTGGATCTGCTTTCATAGG-AGAACA
* *
45432805 -CGTGAAGGCCAGATCTGCTATGCTTTG
63 TC-CGAAAGCCAGATCTGCTATGCTTTG
45432832 GTCTATTACC
Statistics
Matches: 209, Mismatches: 29, Indels: 53
0.72 0.10 0.18
Matches are distributed among these distances:
82 20 0.10
83 5 0.02
86 17 0.08
87 24 0.11
88 24 0.11
89 16 0.08
92 12 0.06
93 57 0.27
94 17 0.08
95 17 0.08
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (92 bp):
TGCTCTCCGTCGAAATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATAGGAGAACATCC
GAAAGCCAGATCTGCTATGCTTTGATT
Found at i:45442246 original size:484 final size:484
Alignment explanation
Indices: 45441330--45442259 Score: 1698
Period size: 484 Copynumber: 1.9 Consensus size: 484
45441320 GAAGTTCTCC
* *
45441330 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACGGCCCTGTAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
45441395 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
66 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
*
45441460 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTGTCACCTTAACTTTTAGCCATTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
* *
45441525 ATTTTCTTTTTCTAGGGTCTGATTACGCGACTGCATCTCTTGGAACTTCTTCTTCCAATATTCGA
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
* * * *
45441590 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGGCACTGCTCTGAAGAGCTTCCTAATCTGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
45441655 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
326 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
* *
45441720 CTTTTCCTTTTTCACCTTCTCAACTTCCATCTTTTGAACGTCAACATCGAGACTCACAGCCCTGT
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
45441785 AGTGCTGCTTCCAACTCTCCAATGTTGTA
456 AGTGCTGCTTCCAACTCTCCAATGTTGTA
45441814 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
1 CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
*
45441879 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGTA
66 CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
*
45441944 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCCTTG
131 GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
* * *
45442009 ATTTTCTTTTTCTAGGGTCTAATTACGCGATTGCATCTCTTGGAATTTCTTCTCCCAATATTCGG
196 ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
45442074 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
261 CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
*
45442139 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGGCCTTTCT
326 TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
*
45442204 CTTTTCCTTTTTCACCTTCTCGACTTCCATATTTTAAACGTCAACATCGAGACTCA
391 CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCA
45442260 AGCACATTTT
Statistics
Matches: 428, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
484 428 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (484 bp):
CTTCCATTGTTCCTCTCTTGCCTCAAGCTGCTCAATCCGTAGCTCACAGCCATGTAGTGCTGCTT
CCAACTCTCCAATGTTGTGCTTCATTTTCTCGATCTTGTCCAAGCTTGCCTTTAACTCGATCGCA
GAGTTACGACTTCGGTAATGATGAAGAGATCGTCCAAGCTCTATCACCTTAACTTTTAGCCATTG
ATTTTCTTTTTCTAGGGTCTAATTACGCGACTGCATCTCTTGGAACTTCTTCTCCCAATATTCGA
CCTTAGCTCTTTCCTCTTGAATCTCATGCTGCCACTGCTCTGAAGACCTCCCTAATCCGACCCTT
TTCAATGTTACCTGGGCCTTCTTATAATGCGTCTTTAAGTTATCTCGATCTTCCTCGACCTTTCT
CTTTTCCTTTTTCACCTTCTCAACTTCCATATTTTAAACGTCAACATCGAGACTCACAGCCCTGT
AGTGCTGCTTCCAACTCTCCAATGTTGTA
Found at i:45445299 original size:8 final size:8
Alignment explanation
Indices: 45445286--45445318 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
45445276 TGCCATATAA
45445286 AATAATAT
1 AATAATAT
45445294 AATAATAT
1 AATAATAT
45445302 -ATAATAT
1 AATAATAT
*
45445309 AATAAAAT
1 AATAATAT
45445317 AA
1 AA
45445319 ATGTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:45445303 original size:20 final size:20
Alignment explanation
Indices: 45445280--45445318 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45445270 TATATATGCC
*
45445280 ATATAAAATAATATAATAAT
1 ATATAAAATAATAAAATAAT
*
45445300 ATATAATATAATAAAATAA
1 ATATAAAATAATAAAATAA
45445319 ATGTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATAAAATAAT
Found at i:45445851 original size:13 final size:13
Alignment explanation
Indices: 45445833--45445857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45445823 AAAAAAAAAC
45445833 TTTAAACATTCAT
1 TTTAAACATTCAT
45445846 TTTAAACATTCA
1 TTTAAACATTCA
45445858 ACAGAAAAAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:45453894 original size:26 final size:26
Alignment explanation
Indices: 45453864--45453916 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45453854 AACTTTACCT
45453864 TTACCCTTTATTTTGCTCAGCTGTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
*
45453890 TTACCCTTTATTTTGCTCAGCTTTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
45453916 T
1 T
45453917 GCCTTCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.09, T:0.49
Consensus pattern (26 bp):
TTACCCTTTATTTTGCTCAGCTGTCC
Found at i:45454281 original size:15 final size:15
Alignment explanation
Indices: 45454261--45454345 Score: 64
Period size: 16 Copynumber: 5.5 Consensus size: 15
45454251 TTATTCCTTA
45454261 TTCTGCTTTTGGTTT
1 TTCTGCTTTTGGTTT
*
45454276 TTCTGCTATTGTGTTT
1 TTCTGCTTTTG-GTTT
* * *
45454292 AT-GGTTTTTGTGGTTT
1 TTCTG-CTTT-TGGTTT
**
45454308 TTCTTATTTTGGTTT
1 TTCTGCTTTTGGTTT
*
45454323 TTCTGCTATTGGGTTT
1 TTCTGCT-TTTGGTTT
45454339 TTCTGCT
1 TTCTGCT
45454346 ATTGTGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
15 22 0.42
16 29 0.55
17 2 0.04
ACGTcount: A:0.05, C:0.11, G:0.21, T:0.64
Consensus pattern (15 bp):
TTCTGCTTTTGGTTT
Found at i:45454306 original size:32 final size:31
Alignment explanation
Indices: 45454270--45454441 Score: 131
Period size: 32 Copynumber: 5.5 Consensus size: 31
45454260 ATTCTGCTTT
*
45454270 TGGTTTTTCTGCTATTGTGTTTATGGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
* * * * *
45454302 TGGTTTTTCT-TATTTTGGTTTTTCTGCTATTG
1 TGGTTTTTCTCTATTGT-GTTTAT-AGTTTTTG
45454334 -GGTTTTTCTGCTATTGTGTTTATAGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
* **
45454365 TGGTTTTTCT-TATTCTGGTTT-TTCTTCTATTG
1 TGGTTTTTCTCTATTGT-GTTTATAGTT-T-TTG
*
45454397 -GGGTTTTCTACTATTGTGTTTATAGTTTTTG
1 TGGTTTTTCT-CTATTGTGTTTATAGTTTTTG
*
45454428 TGGGTTTTCT-TATT
1 TGGTTTTTCTCTATT
45454442 CTGGTTTTTC
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
30 17 0.15
31 35 0.32
32 46 0.41
33 13 0.12
ACGTcount: A:0.08, C:0.08, G:0.21, T:0.63
Consensus pattern (31 bp):
TGGTTTTTCTCTATTGTGTTTATAGTTTTTG
Found at i:45454338 original size:63 final size:63
Alignment explanation
Indices: 45454261--45454459 Score: 328
Period size: 63 Copynumber: 3.2 Consensus size: 63
45454251 TTATTCCTTA
* * *
45454261 TTCTGCT-TTTGGTTTTTCTGCTATTGTGTTTATGGTTTTTGTGGTTTTTCTTATTTTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
45454323 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
* * * *
45454386 TTCTTCTATTGGGGTTTTCTACTATTGTGTTTATAGTTTTTGTGGGTTTTCTTATTCTGGTTT
1 TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
45454449 TTCTGCTATTG
1 TTCTGCTATTG
45454460 CAGTCTCTAG
Statistics
Matches: 128, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 7 0.05
63 121 0.95
ACGTcount: A:0.08, C:0.10, G:0.21, T:0.62
Consensus pattern (63 bp):
TTCTGCTATTGGGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTT
Found at i:45454383 original size:15 final size:15
Alignment explanation
Indices: 45454299--45454452 Score: 91
Period size: 15 Copynumber: 9.9 Consensus size: 15
45454289 TTTATGGTTT
45454299 TTGTGGTTTTTCTTA
1 TTGTGGTTTTTCTTA
*
45454314 TTTTGGTTTTTCTGCTA
1 TTGTGGTTTTTCT--TA
45454331 TTG-GGTTTTTCTGCTA
1 TTGTGGTTTTTCT--TA
** *
45454347 TTGT-GTTTATAGTTT
1 TTGTGGTTT-TTCTTA
45454362 TTGTGGTTTTTCTTA
1 TTGTGGTTTTTCTTA
*
45454377 TTCTGGTTTTTCTTCTA
1 TTGTGGTTTTTC-T-TA
*
45454394 TTG-GGGTTTTCTACTA
1 TTGTGGTTTTTCT--TA
** *
45454410 TTGT-GTTTATAGTTT
1 TTGTGGTTT-TTCTTA
*
45454425 TTGTGGGTTTTCTTA
1 TTGTGGTTTTTCTTA
*
45454440 TTCTGGTTTTTCT
1 TTGTGGTTTTTCT
45454453 GCTATTGCAG
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
15 51 0.48
16 44 0.41
17 12 0.11
ACGTcount: A:0.08, C:0.09, G:0.20, T:0.63
Consensus pattern (15 bp):
TTGTGGTTTTTCTTA
Found at i:45456885 original size:49 final size:49
Alignment explanation
Indices: 45456813--45456911 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
45456803 CTATTCACAG
45456813 AAAGGAATTGTATATTTTCTATTAAAATATTATTATTTTATTTATTATT
1 AAAGGAATTGTATATTTTCTATTAAAATATTATTATTTTATTTATTATT
45456862 AAAGGAATTGTATATTTTCTATTAAAATATTATTATTTTATTTATTATT
1 AAAGGAATTGTATATTTTCTATTAAAATATTATTATTTTATTTATTATT
45456911 A
1 A
45456912 TTCAACTAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (49 bp):
AAAGGAATTGTATATTTTCTATTAAAATATTATTATTTTATTTATTATT
Found at i:45456907 original size:23 final size:23
Alignment explanation
Indices: 45456832--45456908 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
45456822 GTATATTTTC
45456832 TATTAAAATATTATTATTTTATT
1 TATTAAAATATTATTATTTTATT
* * *
45456855 TATTATTAAAGGAATT-GTATATTT-TC
1 TATTA--AAA--TATTATTAT-TTTATT
45456881 TATTAAAATATTATTATTTTATT
1 TATTAAAATATTATTATTTTATT
45456904 TATTA
1 TATTA
45456909 TTATTCAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 6 0.15
23 14 0.34
24 3 0.07
25 3 0.07
26 9 0.22
27 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTAAAATATTATTATTTTATT
Found at i:45456910 original size:26 final size:26
Alignment explanation
Indices: 45456832--45456911 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
45456822 GTATATTTTC
45456832 TATTAAAATATTATTATTTTATTTAT
1 TATTAAAATATTATTATTTTATTTAT
** * *
45456858 TATTAAAGGA--ATT-GTATATTT-T
1 TATTAAAATATTATTATTTTATTTAT
45456880 CTATTAAAATATTATTATTTTATTTAT
1 -TATTAAAATATTATTATTTTATTTAT
45456907 TATTA
1 TATTA
45456912 TTCAACTAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 1 0.02
23 14 0.34
24 3 0.07
25 3 0.07
26 19 0.46
27 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTAAAATATTATTATTTTATTTAT
Found at i:45466070 original size:47 final size:47
Alignment explanation
Indices: 45465995--45467055 Score: 1809
Period size: 47 Copynumber: 22.5 Consensus size: 47
45465985 TTCGGGACTT
* * * * * *
45465995 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
45466041 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
45466089 ATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
** *
45466136 ATCACATATATACACTTTCACATTCATCACATCGGTTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
45466183 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466230 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466277 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466324 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466371 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466418 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466465 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466512 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466559 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466606 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466653 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466700 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
45466747 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
45466794 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * * *
45466841 ATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
45466890 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * * *
45466937 ATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
45466986 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
45467033 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
45467056 CACAATTATC
Statistics
Matches: 976, Mismatches: 33, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
47 886 0.91
48 3 0.00
49 87 0.09
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:45469971 original size:127 final size:127
Alignment explanation
Indices: 45469816--45470111 Score: 477
Period size: 127 Copynumber: 2.3 Consensus size: 127
45469806 AATGTTTGAT
* * * *
45469816 GTTTGGAAATTCGGGGAATCGTGCCCTATAGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
*
45469881 TCGCATATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTCTAAAACAAGGCAATGTTCAAC
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTCTAAAACAAGGCAATGTTCAAC
45469943 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
* * * * *
45470008 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTCTAAAATAAGGCAATTTTCAAT
66 TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
*
45470070 GTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTC
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
45470112 AGTTTTTCGT
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
127 156 0.99
128 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (127 bp):
GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCAGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACTCATGTTTTATAAATTCTAAAACAAGGCAATGTTCAAC
Found at i:45481936 original size:45 final size:44
Alignment explanation
Indices: 45481831--45482255 Score: 274
Period size: 45 Copynumber: 9.5 Consensus size: 44
45481821 CATAGCAAAC
* * * *
45481831 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAA-T
* *
45481875 CTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-AT
* * * ***
45481920 CTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
* ** * * *
45481963 CCATATCTCTTTGAAGTTGCAGTAGAGCAGGA-T-AAAATTACCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATT--GCAA-T
* *
45482010 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCA-AT
* * * ***
45482055 CTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
* * * *
45482098 CCTTATCTCTCTGAAGTTGCAGTAGAGCAAGA-T-AAAATTATCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGA-T-TGCAA-T
* * * * *
45482145 CTTATCTCTCTGAAGTTGCAGTAGAGTAGACTAAAG-TTAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATT-GCA-AT
* * * * *
45482190 CTTATCTCCCGGAAATTACAGTGGAGCAGATCGAAG-TTACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
*
45482233 CCTTATCTCTCTGAAGTTGCAGT
1 -CTTATCTCCCTGAAGTTGCAGT
45482256 AGAGTAGGAT
Statistics
Matches: 296, Mismatches: 63, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
43 10 0.03
44 101 0.34
45 115 0.39
46 61 0.21
47 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAT
Found at i:45482080 original size:135 final size:135
Alignment explanation
Indices: 45481830--45482305 Score: 654
Period size: 135 Copynumber: 3.5 Consensus size: 135
45481820 TCATAGCAAA
** * *
45481830 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGG-TTGAAGTA-GCAAGTCTTATCTCCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
* * * * *
45481893 TAGTGGAGCAAATTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCC
66 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
45481958 ACAAT
131 ACAAT
* *
45481963 CCATATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
*
45482028 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCC
66 CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
45482093 ACAAT
131 ACAAT
* * *
45482098 CCTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAATTATCCAAGTCTTATCTCTCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
* * * * * * *
45482163 CAGTAGAGTAGACTAAAG-TTAGCAGATCTTATCTCCCGGAAATTACAGTGGAGCAGATCGAAGT
66 CAGTGGAGCAGACTAAAGATT-GCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGC
*
45482227 TACAAT
130 CACAAT
* * * * *
45482233 CCTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACACGAA-CCGTATCTCCCTGAAGTT
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTAC-CCAAGTCTTATCTCCCTGAAGTT
45482297 GCAGTGGAG
65 GCAGTGGAG
45482306 TAGTTGCAGT
Statistics
Matches: 304, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
133 29 0.10
134 7 0.02
135 265 0.87
136 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (135 bp):
CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTAAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
ACAAT
Found at i:45485139 original size:127 final size:127
Alignment explanation
Indices: 45484901--45485226 Score: 467
Period size: 127 Copynumber: 2.6 Consensus size: 127
45484891 GAAAATTCCT
* ** *
45484901 TAAAACGAAGGTAATGTTTGATGTTTGAAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
** *
45484966 ATTTCCCGTTTGTTTAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTT-TCAAATTC
65 ATTTTTCGTTTGTTCAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTTAT-AAATTC
* *
45485029 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * * *
45485094 TTTTTGGTTTGTTCAAAA-AGATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTTTCGTTTGTTCAAAATA-ATCGAAAATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
* * *
45485156 TAAAATAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCATGCCCTACCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
45485221 TTTTTC
66 TTTTTC
45485227 ATTGGACTAA
Statistics
Matches: 177, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
126 1 0.01
127 169 0.95
128 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTTTCGTTTGTTCAAAATAATCGAAAATTCCTTTAGAATTTCACTCATGTTTTATAAATTC
Found at i:45488090 original size:89 final size:89
Alignment explanation
Indices: 45487985--45488261 Score: 446
Period size: 89 Copynumber: 3.0 Consensus size: 89
45487975 TTAAAAATAA
45487985 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGCTAACGTATTGGGTGTGATTTCTTAAATCTT
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGCTAACGTATTGGGTGTGATTTCTTAAATCTT
45488050 GGATAAGTGGATGTTCTTTTAAAG
66 GGATAAGTGGATGTTCTTTTAAAG
45488074 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGCTAACGTATTGGGTGTGATTTCTTAAATCTT
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGCTAACGTATTGGGTGTGATTTCTTAAATCTT
45488139 GGATAAGTGGATGTTCTTTTAAAG
66 GGATAAGTGGATGTTCTTTTAAAG
* *
45488163 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATT-T-TA--AA--G-G--CTAACGTATTGGGTGTGATTTC
*
45488228 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
57 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
45488261 T
1 T
45488262 TTTATTGTAC
Statistics
Matches: 176, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
89 116 0.66
90 1 0.01
91 1 0.01
93 2 0.01
95 1 0.01
96 1 0.01
98 54 0.31
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.38
Consensus pattern (89 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGCTAACGTATTGGGTGTGATTTCTTAAATCTT
GGATAAGTGGATGTTCTTTTAAAG
Found at i:45492359 original size:12 final size:12
Alignment explanation
Indices: 45492343--45492391 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
45492333 AAAATATTTC
*
45492343 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
45492356 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
45492368 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
45492382 AAAAAGAAAA
1 AAAAAGAAAA
45492392 AGTAAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:45492374 original size:7 final size:7
Alignment explanation
Indices: 45492348--45492398 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
45492338 ATTTCAAAAA
45492348 AAAAGAGG
1 AAAA-AGG
45492356 AAAAA-G
1 AAAAAGG
45492362 -AAAAGG
1 AAAAAGG
45492368 AAAAAGG
1 AAAAAGG
*
45492375 AAAAAAG
1 AAAAAGG
45492382 AAAAA-G
1 AAAAAGG
*
45492388 AAAAAGT
1 AAAAAGG
45492395 AAAA
1 AAAA
45492399 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:45492379 original size:20 final size:20
Alignment explanation
Indices: 45492343--45492398 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
45492333 AAAATATTTC
45492343 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
45492362 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
45492382 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
45492399 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Found at i:45493788 original size:44 final size:43
Alignment explanation
Indices: 45493614--45494052 Score: 157
Period size: 44 Copynumber: 10.0 Consensus size: 43
45493604 CAGTGAAAAT
* *
45493614 TGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA
1 TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
* ** * *
45493657 CGGCGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA
1 TGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--A
*** * * * * * * *
45493703 CCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
1 TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
*
45493745 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 -TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
* * * *
45493789 CAG-CGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA
1 -TGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--A
*** * * * * * * *
45493835 CCAAG-CCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAAA
1 TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
*
45493877 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 -TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
** * *
45493921 TGGCGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA
1 TGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--A
*** * * * * * * *
45493967 CCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
1 TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
*
45494009 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 -TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
45494053 CGGNNNNNNN
Statistics
Matches: 274, Mismatches: 88, Indels: 67
0.64 0.21 0.16
Matches are distributed among these distances:
42 15 0.05
43 30 0.11
44 198 0.72
45 18 0.07
46 13 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (43 bp):
TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
Found at i:45493849 original size:132 final size:132
Alignment explanation
Indices: 45493607--45494055 Score: 844
Period size: 132 Copynumber: 3.4 Consensus size: 132
45493597 AACAGATCAG
*
45493607 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
45493672 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
45493737 GT
131 GT
* *
45493739 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
*
45493804 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
45493869 GT
131 GT
*
45493871 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
45493936 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
45494001 GT
131 GT
*
45494003 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
45494056 NNNNNNNNNN
Statistics
Matches: 307, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 307 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
GT
Found at i:45497359 original size:20 final size:20
Alignment explanation
Indices: 45497336--45497373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45497326 GTGTTTTATT
45497336 TTATTATCATTATACTAACA
1 TTATTATCATTATACTAACA
* *
45497356 TTATTATTATTTTACTAA
1 TTATTATCATTATACTAA
45497374 GTTAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATCATTATACTAACA
Found at i:45499869 original size:27 final size:27
Alignment explanation
Indices: 45499800--45499859 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
45499790 AGCGATCAAT
* * *
45499800 AAATAACCGAAATACTCCCATAGGGTA
1 AAATGACCGGAATACCCCCATAGGGTA
45499827 AAATGACCGGAATACCCCCATAGGGTA
1 AAATGACCGGAATACCCCCATAGGGTA
45499854 AAATGA
1 AAATGA
45499860 TTGTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (27 bp):
AAATGACCGGAATACCCCCATAGGGTA
Found at i:45500039 original size:26 final size:25
Alignment explanation
Indices: 45500010--45500083 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 25
45500000 CTGCCACATA
*
45500010 TACTGTTACTAGCAGCTTTGCTACGT
1 TACTATTACT-GCAGCTTTGCTACGT
*
45500036 TACTATTACTGGCAGCTTTGCTGCGT
1 TACTATTACT-GCAGCTTTGCTACGT
45500062 TACTATTACTGACAGCTTTGCT
1 TACTATTACTG-CAGCTTTGCT
45500084 GCGATATTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (25 bp):
TACTATTACTGCAGCTTTGCTACGT
Found at i:45500084 original size:26 final size:26
Alignment explanation
Indices: 45500022--45500086 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
45500012 CTGTTACTAG
* *
45500022 CAGCTTTGCTACGTTACTATTACTGG
1 CAGCTTTGCTGCGTTACTATTACTGA
45500048 CAGCTTTGCTGCGTTACTATTACTGA
1 CAGCTTTGCTGCGTTACTATTACTGA
45500074 CAGCTTTGCTGCG
1 CAGCTTTGCTGCG
45500087 ATATTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
CAGCTTTGCTGCGTTACTATTACTGA
Found at i:45503719 original size:23 final size:23
Alignment explanation
Indices: 45503685--45503728 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45503675 AATTCATGAT
45503685 TGAACAAGAAATATTCTCTAGCG
1 TGAACAAGAAATATTCTCTAGCG
*
45503708 TGAAC-AGTAAATATTTTCTAG
1 TGAACAAG-AAATATTCTCTAG
45503729 TATGAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (23 bp):
TGAACAAGAAATATTCTCTAGCG
Found at i:45503734 original size:23 final size:23
Alignment explanation
Indices: 45503685--45503739 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
45503675 AATTCATGAT
*
45503685 TGAACAAG-AAATATTCTCTAGCG
1 TGAAC-AGTAAATATTCTCTAGCA
* *
45503708 TGAACAGTAAATATTTTCTAGTA
1 TGAACAGTAAATATTCTCTAGCA
*
45503731 TGAATAGTA
1 TGAACAGTA
45503740 GAAATCTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
TGAACAGTAAATATTCTCTAGCA
Found at i:45504383 original size:22 final size:22
Alignment explanation
Indices: 45504353--45504424 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 22
45504343 ACAAAAGTTA
*
45504353 AGAAAAAACGGTAAAAAGGAAG
1 AGAAGAAACGGTAAAAAGGAAG
** *
45504375 AGAAGAAAC-GTACCAAGTTAAG
1 AGAAGAAACGGTAAAAAG-GAAG
*
45504397 A-AA-AAACGGGAAAAAGGAAG
1 AGAAGAAACGGTAAAAAGGAAG
45504417 AGAAGAAA
1 AGAAGAAA
45504425 TGTACCTTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 8 0.21
21 15 0.39
22 15 0.39
ACGTcount: A:0.61, C:0.07, G:0.26, T:0.06
Consensus pattern (22 bp):
AGAAGAAACGGTAAAAAGGAAG
Found at i:45504394 original size:42 final size:42
Alignment explanation
Indices: 45504347--45504430 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
45504337 TGCTCAACAA
*
45504347 AAGTTAAGAAAAAACGGTAAAAAGGAAGAGAAGAAACGTACC
1 AAGTTAAGAAAAAACGGGAAAAAGGAAGAGAAGAAACGTACC
*
45504389 AAGTTAAGAAAAAACGGGAAAAAGGAAGAGAAGAAATGTACC
1 AAGTTAAGAAAAAACGGGAAAAAGGAAGAGAAGAAACGTACC
45504431 TTGTGGTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.57, C:0.08, G:0.25, T:0.10
Consensus pattern (42 bp):
AAGTTAAGAAAAAACGGGAAAAAGGAAGAGAAGAAACGTACC
Found at i:45505349 original size:16 final size:16
Alignment explanation
Indices: 45505328--45505365 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
45505318 GTTACATATG
45505328 TTATTTTAAAATTTTT
1 TTATTTTAAAATTTTT
*
45505344 TTATTTTCAAATTTTT
1 TTATTTTAAAATTTTT
45505360 TTATTT
1 TTATTT
45505366 AAAGTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTAAAATTTTT
Found at i:45510261 original size:28 final size:29
Alignment explanation
Indices: 45510212--45510301 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
45510202 GAAAAAAATC
* *
45510212 AAAATCAAAATCAAAACAAAAAAAGA-AA
1 AAAATCAAAGTCAAAACTAAAAAAGAGAA
*
45510240 AAAATCAAAGTCAAAAGTAAAAAAGAGAA
1 AAAATCAAAGTCAAAACTAAAAAAGAGAA
* * * *
45510269 ATCAATTAAAGTC-AAATTAAAAAATATGAA
1 A-AAATCAAAGTCAAAACTAAAAAAGA-GAA
45510299 AAA
1 AAA
45510302 GAGAAAAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.45
29 15 0.29
30 13 0.25
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (29 bp):
AAAATCAAAGTCAAAACTAAAAAAGAGAA
Found at i:45510269 original size:30 final size:28
Alignment explanation
Indices: 45510212--45510301 Score: 90
Period size: 30 Copynumber: 3.1 Consensus size: 28
45510202 GAAAAAAATC
* *
45510212 AAAATCAAAATCAAAACAAAAAAAGAAA
1 AAAATCAAAGTCAAAATAAAAAAAGAAA
45510240 AAAATCAAAGTCAAAAGTAAAAAAGAGAAA
1 AAAATCAAAGTCAAAA-TAAAAAA-AGAAA
** * *
45510270 TCAATTAAAGTCAAATTAAAAAATATGAAA
1 AAAATCAAAGTCAAAATAAAAAA-A-GAAA
45510300 AA
1 AA
45510302 GAGAAAAAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
28 15 0.30
29 14 0.28
30 21 0.42
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (28 bp):
AAAATCAAAGTCAAAATAAAAAAAGAAA
Found at i:45512558 original size:87 final size:87
Alignment explanation
Indices: 45512401--45512848 Score: 417
Period size: 87 Copynumber: 5.1 Consensus size: 87
45512391 ACAGATCAGT
* *
45512401 GAAGATACCAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTC
1 GAAGATACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTC
* * *
45512466 CTGCATTGACAGCGAAGCAGATT
66 TTGCA-TGACAGTGAAGCAGATC
* *
45512489 GAA-AGTA-AAGCCTTGCCTCCATCGGTTGTAGTGGAGCAGGTTAAAGATAGCAGATCATGCCTT
1 GAAGA-TACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTT
** * *
45512552 CTTGCATTGACAACGAAGTAGATT
65 CTTGCA-TGACAGTGAAGCAGATC
* * * * *
45512576 GAA-A-ACAAAGCCTTGCCTCTATCGGTTGCAGTAGAGCGGGTTAAAGATAGCAAATCTTGTCTC
1 GAAGATAC-AAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCT-
* * * *
45512639 CCTAAGCA--ATAGTGGAGCAGATC
64 TCT-TGCATGACAGTGAAGCAGATC
* * * *
45512662 GAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTCAAAGATAGCAGATCTTGCCTCC
1 GAAGATACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCT-T
* * ** *
45512727 CTAAGCA--ATAGTGGGGTAGATC
65 CT-TGCATGACAGTGAAGCAGATC
* * * * * *
45512749 GAAGATACAAGCCTTGCCTCCCTTGGTTGTAATGGAGCAGGTTGAAGATAGCAGGTCTTGCCTTC
1 GAAGATACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTC
*
45512814 CTGCATCGACAGTGAAGCAGATC
66 TTGCAT-GACAGTGAAGCAGATC
*
45512837 GAGGATTACAAG
1 GAAGA-TACAAG
45512849 TCCTATATCC
Statistics
Matches: 302, Mismatches: 47, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
85 4 0.01
86 13 0.04
87 252 0.83
88 24 0.08
89 9 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (87 bp):
GAAGATACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTC
TTGCATGACAGTGAAGCAGATC
Found at i:45512684 original size:43 final size:43
Alignment explanation
Indices: 45512631--45512771 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 43
45512621 GATAGCAAAT
*
45512631 CTTGTCTCCCTAAGCAATAGTGGAGCAGATCGAAGATACCAGC
1 CTTGCCTCCCTAAGCAATAGTGGAGCAGATCGAAGATACCAGC
** **** * * * *
45512674 CTTGCCTCCCTCGGTTGCAGTGGAGCAGGTCAAAGATAGCAGAT
1 CTTGCCTCCCTAAGCAATAGTGGAGCAGATCGAAGATACCAG-C
* * *
45512718 CTTGCCTCCCTAAGCAATAGTGGGGTAGATCGAAGATACAAGC
1 CTTGCCTCCCTAAGCAATAGTGGAGCAGATCGAAGATACCAGC
45512761 CTTGCCTCCCT
1 CTTGCCTCCCT
45512772 TGGTTGTAAT
Statistics
Matches: 73, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
43 43 0.59
44 30 0.41
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.23
Consensus pattern (43 bp):
CTTGCCTCCCTAAGCAATAGTGGAGCAGATCGAAGATACCAGC
Found at i:45512796 original size:43 final size:42
Alignment explanation
Indices: 45512648--45512798 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
45512638 CCCTAAGCAA
*
45512648 TAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTG
1 TAGTGGAGCAGATCGAAGATA-CAGCCTTGCCTCCCTAGGTTG
* * * * * ***
45512691 CAGTGGAGCAGGTCAAAGATAGCAGATCTTGCCTCCCTAAGCAA
1 TAGTGGAGCAGATCGAAGATA-CAG-CCTTGCCTCCCTAGGTTG
* * *
45512735 TAGTGGGGTAGATCGAAGATACAAGCCTTGCCTCCCTTGGTTG
1 TAGTGGAGCAGATCGAAGATAC-AGCCTTGCCTCCCTAGGTTG
* * *
45512778 TAATGGAGCAGGTTGAAGATA
1 TAGTGGAGCAGATCGAAGATA
45512799 GCAGGTCTTG
Statistics
Matches: 80, Mismatches: 26, Indels: 4
0.73 0.24 0.04
Matches are distributed among these distances:
43 50 0.62
44 30 0.38
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (42 bp):
TAGTGGAGCAGATCGAAGATACAGCCTTGCCTCCCTAGGTTG
Found at i:45514563 original size:16 final size:17
Alignment explanation
Indices: 45514544--45514593 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
45514534 ACGTTACATA
45514544 TGTTATTTTAAAATT-T
1 TGTTATTTTAAAATTAT
*
45514560 TGTTTATTTTTAAATTAT
1 TG-TTATTTTAAAATTAT
*
45514578 T-TTA-TTTAAAGTTAT
1 TGTTATTTTAAAATTAT
45514593 T
1 T
45514594 TTACATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.34
16 5 0.17
17 12 0.41
18 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TGTTATTTTAAAATTAT
Found at i:45514568 original size:17 final size:16
Alignment explanation
Indices: 45514546--45514596 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
45514536 GTTACATATG
*
45514546 TTATTTTAAAATTTTGT
1 TTATTTTAAAATTAT-T
*
45514563 TTATTTTTAAATTATT
1 TTATTTTAAAATTATT
*
45514579 TTA-TTTAAAGTTATT
1 TTATTTTAAAATTATT
45514594 TTA
1 TTA
45514597 CATATTACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 13 0.43
16 4 0.13
17 13 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TTATTTTAAAATTATT
Found at i:45515801 original size:159 final size:159
Alignment explanation
Indices: 45515512--45515831 Score: 586
Period size: 159 Copynumber: 2.0 Consensus size: 159
45515502 TTAAGTTTTC
45515512 AAGTTATTTTCCTTTTCAAAAATTTTAATTAAACACTATTTCAAATTTCAATTTCAATTTCCAAA
1 AAGTTATTTTCCTTTTCAAAAATTTTAATTAAACACTATTTCAAATTTCAATTTCAATTTCCAAA
* * * *
45515577 TTGCGACTATCACATTACAACTTCCATCCTTAGATCCTCGAGACAATCAATTTCATATTAAAGTG
66 TTACAACTATCACATTACAACTTCCATCCTCAGATCCTCGAGACAATCAATTTAATATTAAAGTG
*
45515642 ATTAGGTTTAATCATAGTTGAACTCTTTA
131 ATTAAGTTTAATCATAGTTGAACTCTTTA
45515671 AAGTTATTTTCCTTTTCAAAAATTTTAATTAAACACTATTTCAAATTTCAATTTCAATTTCCAAA
1 AAGTTATTTTCCTTTTCAAAAATTTTAATTAAACACTATTTCAAATTTCAATTTCAATTTCCAAA
*
45515736 TTACAACTATCACATTACAACTTCCATCCTCAGGTCCTCGAGACAATCAATTTAATATTAAAGTG
66 TTACAACTATCACATTACAACTTCCATCCTCAGATCCTCGAGACAATCAATTTAATATTAAAGTG
45515801 ATTAAGTTTAATCATAGTTGAACTCTTTA
131 ATTAAGTTTAATCATAGTTGAACTCTTTA
45515830 AA
1 AA
45515832 CTCTCCCTAT
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (159 bp):
AAGTTATTTTCCTTTTCAAAAATTTTAATTAAACACTATTTCAAATTTCAATTTCAATTTCCAAA
TTACAACTATCACATTACAACTTCCATCCTCAGATCCTCGAGACAATCAATTTAATATTAAAGTG
ATTAAGTTTAATCATAGTTGAACTCTTTA
Found at i:45521537 original size:50 final size:50
Alignment explanation
Indices: 45521413--45521661 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
45521403 GATAATAACA
* * ** * *
45521413 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
45521464 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
45521514 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
45521564 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
45521619 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
45521662 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:45521591 original size:100 final size:104
Alignment explanation
Indices: 45521412--45521661 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
45521402 TGATAATAAC
**
45521412 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
45521477 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
45521514 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
45521577 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
45521619 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45521662 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:45521777 original size:13 final size:13
Alignment explanation
Indices: 45521756--45521787 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45521746 GCTTGGATCA
*
45521756 TCATCAAATAAAT
1 TCATAAAATAAAT
45521769 TCATAAAATAAAT
1 TCATAAAATAAAT
45521782 TCATAA
1 TCATAA
45521788 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:45522034 original size:30 final size:30
Alignment explanation
Indices: 45521999--45522056 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
45521989 CCTCGACTCT
*
45521999 AACTTTTTCAAAATTACAATTT-TGCCCCTA
1 AACTTTTACAAAATTAC-ATTTCTGCCCCTA
*
45522029 AACTTTTACATAATTACATTTCTGCCCC
1 AACTTTTACAAAATTACATTTCTGCCCC
45522057 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTCTGCCCCTA
Found at i:45522750 original size:13 final size:13
Alignment explanation
Indices: 45522732--45522757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45522722 GCCCAAACGT
45522732 CGAAATTTTCAAA
1 CGAAATTTTCAAA
45522745 CGAAATTTTCAAA
1 CGAAATTTTCAAA
45522758 AAAATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:45528907 original size:23 final size:23
Alignment explanation
Indices: 45528882--45528924 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
45528872 TTTTTTTTTA
45528882 AAAAAAAGAGAAATC-GAATAAG
1 AAAAAAAGAGAAATCGGAATAAG
*
45528904 AAAAAAAGGGAAATCGGAATA
1 AAAAAAAGAGAAATCGGAATA
45528925 CAAAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
AAAAAAAGAGAAATCGGAATAAG
Found at i:45528929 original size:22 final size:22
Alignment explanation
Indices: 45528882--45528929 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
45528872 TTTTTTTTTA
*
45528882 AAAAAAAGAGAAATCGAATAAG
1 AAAAAAAGAGAAATCGAATAAC
*
45528904 AAAAAAAGGGAAATCGGAAT-AC
1 AAAAAAAGAGAAATC-GAATAAC
45528926 AAAA
1 AAAA
45528930 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAATAAC
Found at i:45529862 original size:3 final size:3
Alignment explanation
Indices: 45529856--45529917 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
45529846 TTTGTTCTTC
* * * *
45529856 TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A
45529903 TTA TTA TTTA TTA TT
1 TTA TTA -TTA TTA TT
45529918 TATTTTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 40 0.83
4 8 0.17
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45529913 original size:24 final size:22
Alignment explanation
Indices: 45529856--45529924 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 22
45529846 TTTGTTCTTC
*
45529856 TTATTATTATTATTCTCATTATTA
1 TTATTATTATTATT-T-ATTTTTA
*
45529880 TTATTGTTATTATTTATTTTTCA
1 TTATTATTATTATTTATTTTT-A
45529903 TTATTATTTATTATTTATTTTT
1 TTATTA-TTATTATTTATTTTT
45529925 TAAAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.12
23 7 0.17
24 28 0.70
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTATTATTATTTATTTTTA
Found at i:45530085 original size:15 final size:16
Alignment explanation
Indices: 45530067--45530096 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45530057 CGTACATCAT
45530067 CGTTTCA-TTTTTATA
1 CGTTTCACTTTTTATA
45530082 CGTTTCACTTTTTAT
1 CGTTTCACTTTTTAT
45530097 TTTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (16 bp):
CGTTTCACTTTTTATA
Found at i:45530965 original size:30 final size:30
Alignment explanation
Indices: 45530930--45530987 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45530920 CCTCGACTCT
*
45530930 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
45530960 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
45530988 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:45531880 original size:17 final size:18
Alignment explanation
Indices: 45531848--45531883 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45531838 TATTGGAATT
45531848 TTACAAAATAAAAAATAA
1 TTACAAAATAAAAAATAA
*
45531866 TTACAAAA-GAAAAATAA
1 TTACAAAATAAAAAATAA
45531883 T
1 T
45531884 GACATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (18 bp):
TTACAAAATAAAAAATAA
Found at i:45552458 original size:44 final size:45
Alignment explanation
Indices: 45552366--45552458 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
45552356 GGTTCGTTGT
* *
45552366 AATGGAATAGAATTGTAATAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATAATTCAATTGTTTGGTTGAATGG
*
45552411 AATGGAATAGAACTGTAATAAT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATAATTCAAT-TGTTTGGTTGAATGG
45552455 AATG
1 AATG
45552459 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (45 bp):
AATGGAATAGAACTGTAATAATAATTCAATTGTTTGGTTGAATGG
Found at i:45552661 original size:37 final size:37
Alignment explanation
Indices: 45552552--45552678 Score: 115
Period size: 37 Copynumber: 3.6 Consensus size: 37
45552542 TTTATTAAAT
* *
45552552 TTTAATAAGATTATTAATATAA--A-TAATAA-ATAA
1 TTTAATAAAATTATTAATATAATTATTATTAATATAA
* * *
45552585 TTTAATCATATT-TTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTAATATAATTATTATT-AATATAA
*
45552622 TTTAATAAAATTATTAATATAATTATTCTT-ATATGAA
1 TTTAATAAAATTATTAATATAATTATTATTAATAT-AA
* *
45552659 TTTACTAAAATCA-TAATATA
1 TTTAATAAAATTATTAATATA
45552679 TAATAATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
32 8 0.10
33 10 0.13
34 1 0.01
35 3 0.04
36 13 0.17
37 27 0.35
38 15 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (37 bp):
TTTAATAAAATTATTAATATAATTATTATTAATATAA
Found at i:45552680 original size:38 final size:37
Alignment explanation
Indices: 45552602--45552682 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 37
45552592 ATATTTTAAC
* *
45552602 ATAATTATTATTAAATATAATTTAATAAAATTATTAAT
1 ATAATTATTATT-AATATAATTTAATAAAATCATAAAT
* *
45552640 ATAATTATTCTT-ATATGAATTTACTAAAATCATAATAT
1 ATAATTATTATTAATAT-AATTTAATAAAATCATAA-AT
45552678 ATAAT
1 ATAAT
45552683 AATATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 4 0.11
37 15 0.41
38 18 0.49
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
ATAATTATTATTAATATAATTTAATAAAATCATAAAT
Found at i:45553569 original size:29 final size:30
Alignment explanation
Indices: 45553511--45553569 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
45553501 GGCAACAATG
45553511 TATGGGTTAAAAGTTCAAGGCTTACCCTCC
1 TATGGGTTAAAAGTTCAAGGCTTACCCTCC
45553541 TATGGGTTAAAAGTT-AAGGCTTACCCTCC
1 TATGGGTTAAAAGTTCAAGGCTTACCCTCC
45553570 CAAGTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (30 bp):
TATGGGTTAAAAGTTCAAGGCTTACCCTCC
Found at i:45557697 original size:23 final size:23
Alignment explanation
Indices: 45557640--45557707 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
45557630 TGGTGGGAAC
*
45557640 TTACTGGCACTTTGGTGCGATTG
1 TTACTAGCACTTTGGTGCGATTG
* *
45557663 TTA-TTGATACTTTGGTGCGATT-
1 TTACTAG-CACTTTGGTGCGATTG
45557685 TATACTAGCACTTCT-GTGCGATT
1 T-TACTAGCACTT-TGGTGCGATT
45557708 ATTATTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.08
23 31 0.84
24 3 0.08
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (23 bp):
TTACTAGCACTTTGGTGCGATTG
Found at i:45559379 original size:30 final size:30
Alignment explanation
Indices: 45559344--45559403 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45559334 TATTTTATTA
45559344 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
45559374 TTAATTTTGTTATTGTTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
45559404 CTTATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:45559521 original size:18 final size:18
Alignment explanation
Indices: 45559486--45559525 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
45559476 GAAATATTTA
*
45559486 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
45559504 TTTTGATGTGTTATATATAT
1 TTTTGATGT-TTATA-ATAT
45559524 TT
1 TT
45559526 AAAAATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:45573167 original size:24 final size:24
Alignment explanation
Indices: 45573128--45573187 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
45573118 TTTCTCTCTC
*
45573128 TAGGGTTAGAGCTTTTT-ATTTTTG
1 TAGGGTTAG-GGTTTTTGATTTTTG
* *
45573152 TAGGGTTAGGGTTTTTGGTTTTTT
1 TAGGGTTAGGGTTTTTGATTTTTG
*
45573176 TAGGATTAGGGT
1 TAGGGTTAGGGT
45573188 ACTTTAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.15, C:0.02, G:0.32, T:0.52
Consensus pattern (24 bp):
TAGGGTTAGGGTTTTTGATTTTTG
Found at i:45575373 original size:40 final size:40
Alignment explanation
Indices: 45575314--45575411 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
45575304 AGGCTTTTGC
* *
45575314 CTAGCAGGCTTAATACCGGTGAAATATTTAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
45575354 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
45575394 CTAGCAGGCTTAATGCCG
1 CTAGCAGGCTTAATGCCG
45575412 ATGTACGGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:45579367 original size:10 final size:10
Alignment explanation
Indices: 45579354--45579392 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
45579344 AAATTATGAG
45579354 AAATTAAAAA
1 AAATTAAAAA
45579364 AAATTTAAAAA
1 AAA-TTAAAAA
*
45579375 AAATTTAAAA
1 AAATTAAAAA
45579385 AAATTAAA
1 AAATTAAA
45579393 CTACTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:45579373 original size:11 final size:11
Alignment explanation
Indices: 45579357--45579387 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
45579347 TTATGAGAAA
45579357 TTAAAAAAAAT
1 TTAAAAAAAAT
45579368 TTAAAAAAAAT
1 TTAAAAAAAAT
45579379 TTAAAAAAA
1 TTAAAAAAA
45579388 TTAAACTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TTAAAAAAAAT
Found at i:45584252 original size:27 final size:28
Alignment explanation
Indices: 45584222--45584274 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
45584212 TGGTTAAAAC
45584222 TCTTCTAAAA-AAAAACTC-AAGAGAAAT
1 TCTT-TAAAAGAAAAACTCAAAGAGAAAT
45584249 TCTTTAAAAGAAAAACTCAAAGAGAA
1 TCTTTAAAAGAAAAACTCAAAGAGAA
45584275 TTTATTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.21
27 12 0.50
28 7 0.29
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (28 bp):
TCTTTAAAAGAAAAACTCAAAGAGAAAT
Found at i:45585953 original size:7 final size:7
Alignment explanation
Indices: 45585941--45585974 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
45585931 TCCTAAATTC
*
45585941 TCAATCA
1 TCAATCT
45585948 TCAATCT
1 TCAATCT
*
45585955 TCAATCC
1 TCAATCT
45585962 TCAATCT
1 TCAATCT
45585969 TCAATC
1 TCAATC
45585975 CCCAATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCT
Found at i:45585975 original size:14 final size:14
Alignment explanation
Indices: 45585941--45585985 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
45585931 TCCTAAATTC
*
45585941 TCAATCATCAATCT
1 TCAATCCTCAATCT
45585955 TCAATCCTCAATCT
1 TCAATCCTCAATCT
*
45585969 TCAATCCCCAAT-T
1 TCAATCCTCAATCT
45585982 TCAA
1 TCAA
45585986 ACTTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
TCAATCCTCAATCT
Found at i:45585980 original size:21 final size:21
Alignment explanation
Indices: 45585940--45585980 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45585930 TTCCTAAATT
**
45585940 CTCAATCATCAATCTTCAATC
1 CTCAATCATCAATCCCCAATC
*
45585961 CTCAATCTTCAATCCCCAAT
1 CTCAATCATCAATCCCCAAT
45585981 TTCAAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (21 bp):
CTCAATCATCAATCCCCAATC
Found at i:45586018 original size:7 final size:7
Alignment explanation
Indices: 45585978--45586039 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
45585968 TTCAATCCCC
*
45585978 AATTTCA
1 AATTTTA
*
45585985 AACTTTA
1 AATTTTA
* *
45585992 TATTTTT
1 AATTTTA
*
45585999 AATCTTCA
1 AAT-TTTA
45586007 AATTTTA
1 AATTTTA
45586014 AATTTT-
1 AATTTTA
45586020 AATTTTA
1 AATTTTA
45586027 AATTTTA
1 AATTTTA
45586034 AATTTT
1 AATTTT
45586040 CAATCCTTAG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
6 6 0.14
7 33 0.75
8 5 0.11
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:45586031 original size:20 final size:21
Alignment explanation
Indices: 45585981--45586044 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
45585971 AATCCCCAAT
* *
45585981 TTCAAACTTTATATTTTTAATC
1 TTCAAATTTTA-AATTTTAATC
45586003 TTCAAATTTTAAATTTTAAT-
1 TTCAAATTTTAAATTTTAATC
*
45586023 TTTAAATTTTAAATTTTCAATC
1 TTCAAATTTTAAATTTT-AATC
45586045 CTTAGTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 16 0.43
21 11 0.30
22 10 0.27
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (21 bp):
TTCAAATTTTAAATTTTAATC
Found at i:45588687 original size:25 final size:25
Alignment explanation
Indices: 45588650--45588742 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
45588640 GACACACCAT
* *
45588650 AGCTCGTATGAGCTTACCGATTTAC
1 AGCTCGTATGAGCATACAGATTTAC
*
45588675 AGCTCGTGA-GAGCATATAGATTTAC
1 AGCTCGT-ATGAGCATACAGATTTAC
* * * *
45588700 AGCTCG-AGCGAGCATACTGATTCAG
1 AGCTCGTA-TGAGCATACAGATTTAC
45588725 AGCTCGTATGAGCATACA
1 AGCTCGTATGAGCATACA
45588743 TGTATAGGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
23 1 0.02
25 52 0.95
26 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
AGCTCGTATGAGCATACAGATTTAC
Found at i:45591267 original size:52 final size:52
Alignment explanation
Indices: 45591189--45591294 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
45591179 ATTACATTAT
45591189 TTTGTAATTTTGTAATTTTTTATATACTTTGTTTTACATCTGAAACGTATAC
1 TTTGTAATTTTGTAATTTTTTATATACTTTGTTTTACATCTGAAACGTATAC
45591241 TTTGTAATTTTGTAATTTTTTATATACTTTGTTTTACATCTGAAACGTATAC
1 TTTGTAATTTTGTAATTTTTTATATACTTTGTTTTACATCTGAAACGTATAC
45591293 TT
1 TT
45591295 ATTTACAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.55
Consensus pattern (52 bp):
TTTGTAATTTTGTAATTTTTTATATACTTTGTTTTACATCTGAAACGTATAC
Found at i:45593447 original size:24 final size:24
Alignment explanation
Indices: 45593420--45593470 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
45593410 GGCCAGGCTA
45593420 TGTGACAGCCCATGTCCCAGGCCG
1 TGTGACAGCCCATGTCCCAGGCCG
* *
45593444 TGTGACAGCCCGTGTCCCAGGTCG
1 TGTGACAGCCCATGTCCCAGGCCG
45593468 TGT
1 TGT
45593471 ACACCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.22
Consensus pattern (24 bp):
TGTGACAGCCCATGTCCCAGGCCG
Found at i:45596644 original size:40 final size:40
Alignment explanation
Indices: 45596506--45596647 Score: 180
Period size: 40 Copynumber: 3.5 Consensus size: 40
45596496 TTTCTGAATC
* *
45596506 AATGAACAGGTTGAAAATGG-CGTTATCAAAAAAGGATATA
1 AATGAAAAGGTTGAAAA-GGATGTTATCAAAAAAGGATATA
*
45596546 AATGAAAAGGTTGAAAATGATGTTATCAAAAAAGGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATAT-A
* * *
45596587 AATGAAAAGGTTGAAAAGGATGTTGTCTGAAAAA-GATATC
1 AATGAAAAGGTTGAAAAGGATGTTATC-AAAAAAGGATATA
*
45596627 AATGAAAAGGTCGAAAAGGAT
1 AATGAAAAGGTTGAAAAGGAT
45596648 AACAATAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 54 0.59
41 31 0.34
42 5 0.05
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (40 bp):
AATGAAAAGGTTGAAAAGGATGTTATCAAAAAAGGATATA
Found at i:45596648 original size:24 final size:24
Alignment explanation
Indices: 45596615--45596661 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45596605 GATGTTGTCT
* *
45596615 GAAAAAGATATCAATGAAAAGGTC
1 GAAAAAGATAACAATAAAAAGGTC
*
45596639 GAAAAGGATAACAATAAAAAGGT
1 GAAAAAGATAACAATAAAAAGGT
45596662 TGATATCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.06, G:0.21, T:0.15
Consensus pattern (24 bp):
GAAAAAGATAACAATAAAAAGGTC
Found at i:45602652 original size:72 final size:70
Alignment explanation
Indices: 45602569--45602808 Score: 229
Period size: 73 Copynumber: 3.3 Consensus size: 70
45602559 AAAGATTTTG
* * * *
45602569 TAAGGTATATCTCAACCTTTTTAAGGTTGTATTAGACGACTCAATCTCAACCTTTTTAAAGGTTG
1 TAAGGTCTATCTCAACATTTTTAAGGTTGT-TTAGACGAGTCTATC-CAACCTTTTTAAAGGTTG
45602634 CCTTAGA
64 CCTTAGA
* *
45602641 TAAGGTCTATCTCAACCTTTTT-AGAGTTGCTTTAGACTG-GTCTATCCCAACCTTTTTTAAGGG
1 TAAGGTCTATCTCAACATTTTTAAG-GTTG-TTTAGAC-GAGTCTAT-CCAACC-TTTTTAAAGG
*
45602704 TTGTCTTAGA
61 TTGCCTTAGA
* * * * *
45602714 CAAGGTCTATCCCAACATTTTTAAAGTTGCCTTAAACGAGTCTATCCTAACCTTTTT-AAGGTTG
1 TAAGGTCTATCTCAACATTTTTAAGGTTG-TTTAGACGAGTCTATCC-AACCTTTTTAAAGGTTG
45602778 CCTTA-A
64 CCTTAGA
*
45602784 -ACGGGTCTATCTCAACATATTTTAA
1 TA-AGGTCTATCTCAACAT-TTTTAA
45602809 AAAAAATTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
69 1 0.01
70 15 0.10
71 18 0.13
72 48 0.34
73 60 0.42
74 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (70 bp):
TAAGGTCTATCTCAACATTTTTAAGGTTGTTTAGACGAGTCTATCCAACCTTTTTAAAGGTTGCC
TTAGA
Found at i:45602692 original size:35 final size:36
Alignment explanation
Indices: 45602576--45602989 Score: 283
Period size: 35 Copynumber: 11.4 Consensus size: 36
45602566 TTGTAAGGTA
* ** *
45602576 TATCTCAACCTTTTT-AAGGTTGTATTAGAC-GACTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTG-GTC
* *
45602611 AATCTCAACCTTTTTAAAGGTTGCCTTAGA-TAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACT--GGTC
* * *
45602648 TATCTCAACCTTTTTAGA-GTTGCTTTAGACTGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTGGTC
* * *
45602683 TATCCCAACCTTTTTTAAGGGTTGTCTTAGACAAGGTC
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGAC-TGGTC
* *
45602721 TATCCCAACATTTTTAAA-GTTGCCTTAAAC-GAGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTG-GTC
* * *
45602756 TATCCTAACCTTTTT-AAGGTTGCCTTAAACGGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTGGTC
* * ******* *
45602791 TATCTCAACATATTTTAAAAAAAATTTTAGA-TGAGGTA
1 TATCCCAACCT-TTTTAAAGGTTGCCTTAGACT--GGTC
** **
45602829 TATCCCAAATTTTTTTAAAGGTTATCTTAGACTGGTC
1 TATCCC-AACCTTTTTAAAGGTTGCCTTAGACTGGTC
*
45602866 TATCCCAACCTTTTT-AAGGTTGCCTTAGACTGGTT
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTGGTC
45602901 TATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTC
1 TATCCCAACCTTTTT-AAAGGTT-GCCTTAGACT-GGTC
* * *
45602939 TATCCCAAACTTTTTTAAAGTTCTGCCTT-GACTAGGCC
1 TATCCC-AACCTTTTTAAAGGT-TGCCTTAGACT-GGTC
*
45602977 TTTCCCAACCTTT
1 TATCCCAACCTTT
45602990 CAATAAGGGT
Statistics
Matches: 304, Mismatches: 52, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
34 3 0.01
35 98 0.32
36 50 0.16
37 67 0.22
38 73 0.24
39 13 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
TATCCCAACCTTTTTAAAGGTTGCCTTAGACTGGTC
Found at i:45602735 original size:73 final size:72
Alignment explanation
Indices: 45602616--45602989 Score: 303
Period size: 73 Copynumber: 5.1 Consensus size: 72
45602606 GACTCAATCT
* * * * *
45602616 CAACC-TTTTTAAAGGTTGCCTTAGATAAGGTCTATCTCAACCTTTTTAGAGTTGCTTTAGACTG
1 CAACCTTTTTTAAAGGTTGCCTTAGA-CAGGTCTATCCCAACATTTTTAAAGTTGCCTTAGACTG
45602680 GTCTATCC
65 GTCTATCC
* * *
45602688 CAACCTTTTTTAAGGGTTGTCTTAGACAAGGTCTATCCCAACATTTTTAAAGTTGCCTTAAAC-G
1 CAACCTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACATTTTTAAAGTTGCCTTAGACTG
45602752 AGTCTATCC
65 -GTCTATCC
* * * * ******
45602761 TAACC-TTTTT-AAGGTTGCCTTAAACGGGTCTATCTCAACATATTTTAAAAAAAATTTTAGA-T
1 CAACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACAT-TTTT-AAAGTTGCCTTAGACT
*
45602823 GAGGTATATCC
64 --GGTCTATCC
** ** * * *
45602834 CAAATTTTTTTAAAGGTTATCTTAGACTGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACTGG
1 CAACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACATTTTTAAAGTTGCCTTAGACTGG
*
45602899 TTTATCC
66 TCTATCC
* *
45602906 CAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTATCCCAAACTTTTTTAAAGTTCTGCCTT-G
1 CAACCTTTTTTAAAGGTT-GCCTTAGAC-AGGTCTATCCC-AACATTTTTAAAG-T-TGCCTTAG
* *
45602969 ACTAGGCCTTTCC
61 ACT-GGTCTATCC
45602982 CAACCTTT
1 CAACCTTT
45602990 CAATAAGGGT
Statistics
Matches: 235, Mismatches: 50, Indels: 30
0.75 0.16 0.10
Matches are distributed among these distances:
70 14 0.06
71 16 0.07
72 44 0.19
73 89 0.38
74 22 0.09
75 30 0.13
76 20 0.09
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (72 bp):
CAACCTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACATTTTTAAAGTTGCCTTAGACTGG
TCTATCC
Found at i:45602943 original size:110 final size:108
Alignment explanation
Indices: 45602621--45602989 Score: 335
Period size: 110 Copynumber: 3.4 Consensus size: 108
45602611 AATCTCAACC
* *
45602621 TTTTTAAAGGTTGCCTTAGA-TAAGGTCTATCTCAACCTTTTT-AGAGTTGCTTTAGACTGGTCT
1 TTTTTAAAGGTTGCCTTAGACT--GGTCTATCCCAACCTTTTTAAG-GTTGCCTTAGACTGGTCT
* * *
45602684 ATCCCAACCTTTTTTAAGGGTTGTCTTAGACAAGGTCTATCCCAACA-
63 ATCCCAACCTTTTTAAAAGGTTG-CTTAGACTAGGTCTATCCCAA-AT
* * * *
45602731 TTTTTAAA-GTTGCCTTAAAC-GAGTCTATCCTAACCTTTTTAAGGTTGCCTTAAACGGGTCTAT
1 TTTTTAAAGGTTGCCTTAGACTG-GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACTGGTCTAT
* * ** *
45602794 CTCAACATATTTTAAAAAAAATT--TTAGA-TGAGGTATATCCCAAATT
65 CCCAACCT-TTTT--AAAAGGTTGCTTAGACT-AGGTCTATCCCAAA-T
** *
45602840 TTTTTAAAGGTTATCTTAGACTGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACTGGTTTATC
1 TTTTTAAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACTGGTCTATC
*
45602905 CCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTATCCCAAACT
66 CCAACCTTTTTAAAAGGTT-G-CTTAGACTAGGTCTATCCCAAA-T
* * *
45602950 TTTTTAAAGTTCTGCCTT-GACTAGGCCTTTCCCAACCTTT
1 TTTTTAAAGGT-TGCCTTAGACT-GGTCTATCCCAACCTTT
45602990 CAATAAGGGT
Statistics
Matches: 208, Mismatches: 33, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
107 7 0.03
108 56 0.27
109 28 0.13
110 90 0.43
111 27 0.13
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (108 bp):
TTTTTAAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACTGGTCTATC
CCAACCTTTTTAAAAGGTTGCTTAGACTAGGTCTATCCCAAAT
Found at i:45602967 original size:38 final size:39
Alignment explanation
Indices: 45602621--45602989 Score: 195
Period size: 38 Copynumber: 10.1 Consensus size: 39
45602611 AATCTCAACC
* *
45602621 TTTTTAAAGG-TTGCCTTAGA-TAAGGTCTATCTC-AACC
1 TTTTTAAAGGTTTGCCTTAGACT-AGGTCTATCCCAAACT
* * *
45602658 TTTTTAGA-G-TTGCTTTAGACT-GGTCTATCCCAACCT
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
* * * *
45602694 TTTTT-AAGGGTTGTCTTAGACAAGGTCTATCCC-AACA
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
* * * *
45602731 TTTTTAAA-G-TTGCCTTAAACGA-GTCTAT-CCTAACC
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
* * *
45602766 TTTTT-AAGG-TTGCCTTAAAC-GGGTCTATCTC-AACAT
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAAC-T
* *** * *
45602802 ATTTTAAAAAAAATT---TTAGA-TGAGGTATATCCCAAATT
1 -TTTT-TAAAGGTTTGCCTTAGACT-AGGTCTATCCCAAACT
*
45602840 TTTTTAAAGGTTAT--CTTAGACT-GGTCTATCCC-AACC
1 TTTTTAAAGGTT-TGCCTTAGACTAGGTCTATCCCAAACT
* *
45602876 TTTTT-AAGG-TTGCCTTAGACT-GGTTTATCCCAACCT
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
* *
45602912 TTTTCAAAGGTTGGCCTT-GACTAGGTCTATCCCAAACT
1 TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
* * *
45602950 TTTTTAAA-GTTCTGCCTT-GACTAGGCCTTTCCCAACCT
1 TTTTTAAAGGTT-TGCCTTAGACTAGGTCTATCCCAAACT
45602988 TT
1 TT
45602990 CAATAAGGGT
Statistics
Matches: 259, Mismatches: 45, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
33 1 0.00
34 5 0.02
35 66 0.25
36 46 0.18
37 58 0.22
38 76 0.29
39 5 0.02
40 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (39 bp):
TTTTTAAAGGTTTGCCTTAGACTAGGTCTATCCCAAACT
Found at i:45604273 original size:12 final size:13
Alignment explanation
Indices: 45604241--45604276 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
45604231 AAATTATCCA
45604241 ACCCAACCCAATT
1 ACCCAACCCAATT
45604254 ACCCAACCCAATT
1 ACCCAACCCAATT
45604267 A-CCAACCCAA
1 ACCCAACCCAA
45604277 CCCAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:45604274 original size:30 final size:31
Alignment explanation
Indices: 45604232--45604295 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
45604222 TAATAAATAA
45604232 AATTATCCAACCCAACCCAATTACCCAACCC
1 AATTATCCAACCCAACCCAATTACCCAACCC
*
45604263 AATTA-CCAACCCAACCCAATTATCCAACCC
1 AATTATCCAACCCAACCCAATTACCCAACCC
45604293 AAT
1 AAT
45604296 AAAACTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.41, C:0.42, G:0.00, T:0.17
Consensus pattern (31 bp):
AATTATCCAACCCAACCCAATTACCCAACCC
Found at i:45604329 original size:39 final size:38
Alignment explanation
Indices: 45604276--45604405 Score: 107
Period size: 52 Copynumber: 3.0 Consensus size: 38
45604266 TACCAACCCA
45604276 ACCCAATTATCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGTCT
45604315 ACCCAATTACCCAACCCAATTACCAAACCTAATAAAACTAAAACTAAAGTCT
1 ACCCAATT-----A-CC-A--A-C---CC-AATAAAACTAAAACTAAAGTCT
* *
45604367 ACCCAATTACCAACCCAATAAAAATAAAACGAAAGTCT
1 ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
45604405 A
1 A
45604406 ACTCTTAAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 27
0.71 0.03 0.26
Matches are distributed among these distances:
38 21 0.28
39 10 0.13
42 1 0.01
43 1 0.01
44 3 0.04
45 2 0.03
46 2 0.03
47 2 0.03
48 1 0.01
51 2 0.03
52 30 0.40
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.18
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:45604349 original size:52 final size:52
Alignment explanation
Indices: 45604271--45604385 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
45604261 CCAATTACCA
45604271 ACCCAACCCAATTATCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATTATCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
45604323 ACCCAACCCAATTA-CCAAACCTAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATTATCC-AACCCAATAAAACTAAAACTAAAGTCTACCCAATT
45604375 A-CCAACCCAAT
1 ACCCAACCCAAT
45604386 AAAAATAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
51 12 0.20
52 49 0.80
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (52 bp):
ACCCAACCCAATTATCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:45604396 original size:38 final size:39
Alignment explanation
Indices: 45604328--45604405 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
45604318 CAATTACCCA
* * *
45604328 ACCCAATTACCAAACCTAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCAAACCCAATAAAAATAAAACGAAAGTCT
45604367 ACCCAATTACC-AACCCAATAAAAATAAAACGAAAGTCT
1 ACCCAATTACCAAACCCAATAAAAATAAAACGAAAGTCT
45604405 A
1 A
45604406 ACTCTTAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 25 0.69
39 11 0.31
ACGTcount: A:0.53, C:0.26, G:0.04, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCAAACCCAATAAAAATAAAACGAAAGTCT
Found at i:45604560 original size:17 final size:17
Alignment explanation
Indices: 45604540--45604602 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
45604530 TAATTTCAAG
45604540 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
45604557 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
45604575 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
45604594 AATTATGTA
1 AATTATGTA
45604603 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:45604583 original size:37 final size:37
Alignment explanation
Indices: 45604537--45604611 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
45604527 TGTTAATTTC
*
45604537 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
*
45604574 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
45604611 A
1 A
45604612 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:45604655 original size:9 final size:9
Alignment explanation
Indices: 45604610--45604652 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
45604600 GTAGTGATTC
45604610 AATTCGGGT
1 AATTCGGGT
*
45604619 AATTCGAGT
1 AATTCGGGT
45604628 AATTCGGGT
1 AATTCGGGT
* *
45604637 AATTTGGTT
1 AATTCGGGT
45604646 AATTCGG
1 AATTCGG
45604653 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:45604891 original size:23 final size:23
Alignment explanation
Indices: 45604856--45604919 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
45604846 AGCACCACTT
45604856 TAAAA-AAAATGGTAGTTGGTAA
1 TAAAACAAAATGGTAGTTGGTAA
* *
45604878 TGAAACAAAATGGTAGCTGGTAA
1 TAAAACAAAATGGTAGTTGGTAA
45604901 TAAAACAAAATGGTAGTTG
1 TAAAACAAAATGGTAGTTG
45604920 AGTTTGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 4 0.11
23 33 0.89
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAAACAAAATGGTAGTTGGTAA
Found at i:45606736 original size:15 final size:17
Alignment explanation
Indices: 45606711--45606752 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
45606701 TTTATTCTTT
*
45606711 TAATTTGTTTTTGAAT-
1 TAATTTATTTTTGAATA
*
45606727 T-ATTTATTTTTTAATA
1 TAATTTATTTTTGAATA
45606743 TAATTTATTT
1 TAATTTATTT
45606753 CTTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TAATTTATTTTTGAATA
Found at i:45607731 original size:28 final size:28
Alignment explanation
Indices: 45607699--45607760 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
45607689 GATTTTTTAT
45607699 TAAAATAATATAAAAATTA-ATTAATTA
1 TAAAATAATATAAAAATTAGATTAATTA
* *
45607726 TGAAAATAGTATAAAATTTAGATTAATTA
1 T-AAAATAATATAAAAATTAGATTAATTA
45607755 TAAAAT
1 TAAAAT
45607761 GAGTCGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.68
29 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
TAAAATAATATAAAAATTAGATTAATTA
Found at i:45609403 original size:22 final size:23
Alignment explanation
Indices: 45609378--45609425 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
45609368 CTTTTCTTTC
45609378 TTGTGATTGT-GTTA-TTTTTATG
1 TTGT-ATTGTAGTTACTTTTTATG
*
45609400 TTGTATTTTAGTTATCTTTTTATG
1 TTGTATTGTAGTTA-CTTTTTATG
45609424 TT
1 TT
45609426 ATACAATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
24 10 0.45
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.67
Consensus pattern (23 bp):
TTGTATTGTAGTTACTTTTTATG
Found at i:45615273 original size:17 final size:18
Alignment explanation
Indices: 45615232--45615273 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45615222 TTGAAATTTT
*
45615232 AAAAAATAAAAATTACAC
1 AAAATATAAAAATTACAC
* *
45615250 GAAATATAAAGATT-CAC
1 AAAATATAAAAATTACAC
45615267 AAAATAT
1 AAAATAT
45615274 TTAGATAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATATAAAAATTACAC
Found at i:45615302 original size:19 final size:19
Alignment explanation
Indices: 45615280--45615366 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 19
45615270 ATATTTAGAT
*
45615280 AAATTCAAAAATATAGTTA
1 AAATTCAAAAATATATTTA
* *
45615299 AAATTTTAGAAAAT-TA-TAA
1 AAA-TTCA-AAAATATATTTA
45615318 AAATTCAAAAA-ATATTTAA
1 AAATTCAAAAATATATTT-A
* * *
45615337 AAAATAAAAAATATTTTTA
1 AAATTCAAAAATATATTTA
45615356 AAATTCAAAAA
1 AAATTCAAAAA
45615367 GCAAAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.11
18 4 0.08
19 28 0.53
20 10 0.19
21 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTCAAAAATATATTTA
Found at i:45615329 original size:18 final size:18
Alignment explanation
Indices: 45615256--45615366 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 18
45615246 ACACGAAATA
* *
45615256 TAAAGATTCACAAAATATT
1 TAAAAATTCAAAAAAT-TT
*
45615275 TAGATAAATTCAAAAATATAGT
1 TA-A-AAATTCAAAAA-AT-TT
* * * *
45615297 TAAAATTTTAGAAAATTA
1 TAAAAATTCAAAAAATTT
45615315 TAAAAATTCAAAAAATATT
1 TAAAAATTCAAAAAAT-TT
* *
45615334 TAAAAAATAAAAAATATTT
1 TAAAAATTCAAAAA-ATTT
*
45615353 TTAAAATTCAAAAA
1 TAAAAATTCAAAAA
45615367 GCAAAAATTT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
18 13 0.19
19 30 0.43
20 11 0.16
21 10 0.14
22 6 0.09
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAATTCAAAAAATTT
Found at i:45615335 original size:29 final size:29
Alignment explanation
Indices: 45615254--45615348 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 29
45615244 TTACACGAAA
* *
45615254 TATAAAGATTCACAAAATATTTAGATAAAT
1 TATAAAAATTCAAAAAATATTTAGA-AAAT
* *
45615284 T-CAAAAATAT-AGTTAAAAT-TTTAGAAAAT
1 TATAAAAAT-TCA--AAAAATATTTAGAAAAT
*
45615313 TATAAAAATTCAAAAAATATTTA-AAAAA
1 TATAAAAATTCAAAAAATATTTAGAAAAT
45615341 TA-AAAAAT
1 TATAAAAAT
45615349 ATTTTTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.11
28 11 0.21
29 16 0.30
30 15 0.28
31 5 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
TATAAAAATTCAAAAAATATTTAGAAAAT
Found at i:45615341 original size:20 final size:19
Alignment explanation
Indices: 45615256--45615366 Score: 91
Period size: 18 Copynumber: 5.7 Consensus size: 19
45615246 ACACGAAATA
* *
45615256 TAAAGATTCACAAAATATT
1 TAAAAATTCAAAAAATATT
*
45615275 TAGATAAATTCAAAAATATAGT
1 TA-A-AAATTCAAAAA-ATATT
* * * *
45615297 TAAAATTTTAGAAAAT-TA
1 TAAAAATTCAAAAAATATT
45615315 TAAAAATTCAAAAAATATT
1 TAAAAATTCAAAAAATATT
*
45615334 TAAAAAAT-AAAAAATATTT
1 TAAAAATTCAAAAAATA-TT
*
45615353 TTAAAATTCAAAAA
1 TAAAAATTCAAAAA
45615367 GCAAAAATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
18 21 0.30
19 20 0.28
20 14 0.20
21 10 0.14
22 6 0.08
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAAAATTCAAAAAATATT
Found at i:45624262 original size:25 final size:25
Alignment explanation
Indices: 45624234--45624291 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
45624224 GAATCGAAAT
*
45624234 GCTCTCACGAGAT-ATAAATCGGTAA
1 GCTCTCACGAGATGAGAAAT-GGTAA
*
45624259 GCTCAT-ACGAGCTGAGAAATGGTAA
1 GCTC-TCACGAGATGAGAAATGGTAA
45624284 GCTCTCAC
1 GCTCTCAC
45624292 AAGCGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
25 21 0.75
26 6 0.21
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTCTCACGAGATGAGAAATGGTAA
Found at i:45624301 original size:25 final size:25
Alignment explanation
Indices: 45624273--45624320 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
45624263 ATACGAGCTG
*
45624273 AGAAATGGTAAGCTCTCACAAGCGA
1 AGAAATGGTAAGCTCCCACAAGCGA
*
45624298 AGAATTGGTAAGCTCCCACAAGC
1 AGAAATGGTAAGCTCCCACAAGC
45624321 TGCAATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
AGAAATGGTAAGCTCCCACAAGCGA
Found at i:45639590 original size:30 final size:32
Alignment explanation
Indices: 45639554--45639616 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
45639544 TAAAAAAAAG
* *
45639554 TAAATATTAAATTTTTAT-TGTTAAAAT-TTA
1 TAAATATTAAATTTATATATATTAAAATATTA
*
45639584 TAAATATTGAATTTATATATATTAAAATATTA
1 TAAATATTAAATTTATATATATTAAAATATTA
45639616 T
1 T
45639617 TTAGTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.57
31 8 0.29
32 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TAAATATTAAATTTATATATATTAAAATATTA
Found at i:45644475 original size:12 final size:12
Alignment explanation
Indices: 45644456--45644486 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45644446 AAATAAAAAT
45644456 AATA-ATATATA
1 AATATATATATA
45644467 AATATATATATA
1 AATATATATATA
45644479 AATATATA
1 AATATATA
45644487 AAATATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATATATA
Found at i:45644482 original size:20 final size:20
Alignment explanation
Indices: 45644459--45644533 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
45644449 TAAAAATAAT
45644459 AATATATAAATATATATATA
1 AATATATAAATATATATATA
* *
45644479 AATATATAAA-ATATTTAGA
1 AATATATAAATATATATATA
* *
45644498 ATATATATAAAATAAAATAGATA
1 A-ATATAT-AAAT-ATATATATA
45644521 TAATATATAAATA
1 -AATATATAAATA
45644534 AATTGAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 8 0.18
20 16 0.36
21 4 0.09
22 4 0.09
23 11 0.25
24 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AATATATAAATATATATATA
Found at i:45644516 original size:16 final size:17
Alignment explanation
Indices: 45644474--45644533 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 17
45644464 ATAAATATAT
45644474 ATATAAAT--ATATAAA
1 ATATAAATAGATATAAA
*
45644489 ATATTTAGAATATATATAAA
1 ATA--TA-AATAGATATAAA
*
45644509 ATA-AAATAGATATAAT
1 ATATAAATAGATATAAA
45644525 ATATAAATA
1 ATATAAATA
45644534 AATTGAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.08
16 13 0.35
17 8 0.22
18 3 0.08
20 10 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATAAATAGATATAAA
Found at i:45644530 original size:18 final size:18
Alignment explanation
Indices: 45644454--45644531 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
45644444 AGAAATAAAA
*
45644454 ATAATAATATATAAATATAT
1 ATAA-AATATATATA-ATAT
*
45644474 ATATAAATATATAAAATAT
1 ATA-AAATATATATAATAT
* *
45644493 TTAGAATATATATAA-A-
1 ATAAAATATATATAATAT
*
45644509 ATAAAATAGATATAATAT
1 ATAAAATATATATAATAT
45644527 ATAAA
1 ATAAA
45644532 TAAATTGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
16 12 0.24
17 2 0.04
18 15 0.31
19 6 0.12
20 13 0.27
21 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAATATATATAATAT
Found at i:45644535 original size:22 final size:21
Alignment explanation
Indices: 45644457--45644548 Score: 82
Period size: 21 Copynumber: 4.3 Consensus size: 21
45644447 AATAAAAATA
* *
45644457 ATAATATATAAATATATATAT
1 ATAATATATAAATAAATAGAT
**
45644478 A-AATATATAAAATATTTAGA-
1 ATAATATAT-AAATAAATAGAT
45644498 AT-ATATATAAAATAAAATAGAT
1 ATAATATAT-AAAT-AAATAGAT
*
45644520 ATAATATATAAATAAATTGAAT
1 ATAATATATAAATAAATAG-AT
45644542 ATAATAT
1 ATAATAT
45644549 TTAATTTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
20 19 0.32
21 20 0.33
22 15 0.25
23 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (21 bp):
ATAATATATAAATAAATAGAT
Found at i:45645162 original size:16 final size:16
Alignment explanation
Indices: 45645127--45645167 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
45645117 CTAATTGATT
45645127 TTCTTTTTTTTTCCTTA
1 TTCTTTTTTTTTCC-TA
45645144 TTCTTTTCTTTTTCC-A
1 TTCTTTT-TTTTTCCTA
45645160 TTCTTTTT
1 TTCTTTTT
45645168 CCACTCCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 7 0.30
18 7 0.30
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTTTTTTCCTA
Found at i:45648200 original size:16 final size:18
Alignment explanation
Indices: 45648168--45648209 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
45648158 TTTAAAAATG
45648168 ATTTTTATATAATTTTTA
1 ATTTTTATATAATTTTTA
45648186 ATTTTTATAT-ATTTTTGA
1 ATTTTTATATAATTTTT-A
45648204 ATTTTT
1 ATTTTT
45648210 TGAGAGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTTATATAATTTTTA
Found at i:45661283 original size:40 final size:40
Alignment explanation
Indices: 45661189--45661373 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
45661179 TATTCGAATG
* *
45661189 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTCGTGCTA-GTGACT
* * *
45661230 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAG-TGACT
* * * *
45661270 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
*
45661310 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTC-GTGCTAGTGACT
*
45661350 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
45661374 CTTGTGCAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 88 0.73
41 29 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
Done.