Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 69 of 121
Found at i:11874585 original size:27 final size:27
Alignment explanation
Indices: 11874555--11874623 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
11874545 ATTTTGCTTA
11874555 AAAAATAAAAAAAAGGCAT-AAAAATAG
1 AAAAA-AAAAAAAAGGCATAAAAAATAG
*
11874582 AAAAGAAAAAAATAGGCATAAAAAATAG
1 AAAA-AAAAAAAAAGGCATAAAAAATAG
*
11874610 AAAAGAAAAAAAAG
1 AAAAAAAAAAAAAG
11874624 AGGATTCGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAAAAAGGCATAAAAAATAG
Found at i:11874585 original size:28 final size:28
Alignment explanation
Indices: 11874561--11874622 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
11874551 CTTAAAAAAT
11874561 AAAAAAAAGGCAT-AAAAATAGAAAAGA
1 AAAAAAAAGGCATAAAAAATAGAAAAGA
*
11874588 AAAAAATAGGCATAAAAAATAGAAAAGA
1 AAAAAAAAGGCATAAAAAATAGAAAAGA
11874616 AAAAAAA
1 AAAAAAA
11874623 GAGGATTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 12 0.38
28 20 0.62
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (28 bp):
AAAAAAAAGGCATAAAAAATAGAAAAGA
Found at i:11874594 original size:15 final size:15
Alignment explanation
Indices: 11874574--11874621 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
11874564 AAAAAGGCAT
11874574 AAAAATAGAAAAGAA
1 AAAAATAGAAAAGAA
** *
11874589 AAAAATAG-GCA-TA
1 AAAAATAGAAAAGAA
11874602 AAAAATAGAAAAGAA
1 AAAAATAGAAAAGAA
11874617 AAAAA
1 AAAAA
11874622 AGAGGATTCG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 14 0.56
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAAAGAA
Found at i:11875711 original size:35 final size:35
Alignment explanation
Indices: 11875635--11875720 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 35
11875625 CCTAGTTGTC
* *
11875635 CTTTATTTTTGACTTGCGGTATTGTCCTGGTCATT
1 CTTTATTTTTAACTTGCAGTATTGTCCTGGTCATT
* * * *
11875670 CATTATTTCTAACTTGCAGTATTGTCTTGGTTA-T
1 CTTTATTTTTAACTTGCAGTATTGTCCTGGTCATT
11875704 CTTTTATTATTTAACTT
1 C-TTTATT-TTTAACTT
11875721 ACTATGTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 2 0.05
35 32 0.78
36 7 0.17
ACGTcount: A:0.17, C:0.15, G:0.14, T:0.53
Consensus pattern (35 bp):
CTTTATTTTTAACTTGCAGTATTGTCCTGGTCATT
Found at i:11875831 original size:35 final size:35
Alignment explanation
Indices: 11875760--11875943 Score: 128
Period size: 35 Copynumber: 5.3 Consensus size: 35
11875750 AGACTTGTAA
* * * *
11875760 TGTTGTCTCGATCGTCCTTT-TTTCTAACTTACGG
1 TGTTGTCTCGATCATCTTTTATTTTTAACTTATGG
*
11875794 TGTTGTCTCGATCGTCTTTTATTTTTAACTTATGG
1 TGTTGTCTCGATCATCTTTTATTTTTAACTTATGG
* * * * **
11875829 TGTTGTC-CTAGTCATCATTTATTTCTGACTTACAG
1 TGTTGTCTCGA-TCATCTTTTATTTTTAACTTATGG
* * *
11875864 TGTTGTC-CTAATCATCTTTTATTTTTGACCTACT-G
1 TGTTGTCTC-GATCATCTTTTATTTTTAACTTA-TGG
* * *
11875899 TGTTATCGT-GGTCAT-TTGTTATTTTTTACTTATGG
1 TGTTGTC-TCGATCATCTT-TTATTTTTAACTTATGG
11875934 TGTTGTCTCG
1 TGTTGTCTCG
11875944 TTTGTCCTTT
Statistics
Matches: 120, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
34 25 0.21
35 94 0.78
36 1 0.01
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (35 bp):
TGTTGTCTCGATCATCTTTTATTTTTAACTTATGG
Found at i:11876290 original size:35 final size:35
Alignment explanation
Indices: 11876251--11876356 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
11876241 GTGGTATTGG
*
11876251 CCTAGTTGTTCATTATTTCTGACTTACAATGTTGT
1 CCTAGTCGTTCATTATTTCTGACTTACAATGTTGT
* * **
11876286 CCTAGTCGTTCTTTATTTTTGACTTACGGTGTTGT
1 CCTAGTCGTTCATTATTTCTGACTTACAATGTTGT
** * * *
11876321 ATTGGCCGTTCATTATTTCTAACTTACAATGTTGT
1 CCTAGTCGTTCATTATTTCTGACTTACAATGTTGT
11876356 C
1 C
11876357 TCGATCATCT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (35 bp):
CCTAGTCGTTCATTATTTCTGACTTACAATGTTGT
Found at i:11876332 original size:70 final size:70
Alignment explanation
Indices: 11876258--11876395 Score: 192
Period size: 70 Copynumber: 2.0 Consensus size: 70
11876248 TGGCCTAGTT
* *
11876258 GTTCATTATTTCTGACTTACAATGTTGTCCTAG-TCGT-TCTTTATTTTTGACTTA-CGGTGTTG
1 GTTCATTATTTCTAACTTACAATGTTGT-CTAGATCATCT-TTTATTTTTGAC-TAGCGGTGTTG
11876320 TATTGGCC
63 TATTGGCC
* *
11876328 GTTCATTATTTCTAACTTACAATGTTGTCTCGATCATCTTTTATTTTTGACTAGCGGTGTTGTCT
1 GTTCATTATTTCTAACTTACAATGTTGTCTAGATCATCTTTTATTTTTGACTAGCGGTGTTGTAT
11876393 TGG
66 TGG
11876396 TTGGTCATCC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
69 5 0.08
70 55 0.90
71 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.49
Consensus pattern (70 bp):
GTTCATTATTTCTAACTTACAATGTTGTCTAGATCATCTTTTATTTTTGACTAGCGGTGTTGTAT
TGGCC
Found at i:11876473 original size:5 final size:5
Alignment explanation
Indices: 11876457--11876556 Score: 57
Period size: 5 Copynumber: 19.2 Consensus size: 5
11876447 TATGATTCAA
*
11876457 AAAAC -AAA- AAAAC AAAAAC AAAA- ATAAC AAAA- AACAAGC -AAAC
1 AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AA-AA-C AAAAC
* *
11876500 AAGAC AAAAC AAAACC AAAAAC AAAAAC AAAAAC AAAGGAA AAAAC AAAAC
1 AAAAC AAAAC AAAA-C -AAAAC -AAAAC -AAAAC AAA--AC AAAAC AAAAC
11876551 AAAAC A
1 AAAAC A
11876557 TTCTCCTTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
4 12 0.16
5 37 0.48
6 20 0.26
7 8 0.10
ACGTcount: A:0.78, C:0.17, G:0.04, T:0.01
Consensus pattern (5 bp):
AAAAC
Found at i:11876473 original size:6 final size:6
Alignment explanation
Indices: 11876464--11876554 Score: 71
Period size: 6 Copynumber: 14.7 Consensus size: 6
11876454 CAAAAAACAA
* * *
11876464 AAAAAC AAAAAC AAAAAT AACAAA- AAACAAGC AAACAAG ACAAAAC AAAACC
1 AAAAAC AAAAAC AAAAAC AA-AAAC AAA-AA-C AAA-AAC A-AAAAC AAAAAC
*
11876516 AAAAAC AAAAAC AAAAAC AAAGGA- AAAAAC -AAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAA-AAC AAAAAC AAAAAC AAAA
11876555 CATTCTCCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.10
6 47 0.67
7 8 0.11
8 8 0.11
ACGTcount: A:0.78, C:0.16, G:0.04, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:11876487 original size:23 final size:22
Alignment explanation
Indices: 11876455--11876526 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
11876445 TTTATGATTC
11876455 AAAAAACAAAAAAACAAAAACA
1 AAAAAACAAAAAAACAAAAACA
11876477 AAAATAAC-AAAAAACAAGCAAACA
1 AAAA-AACAAAAAAACAA--AAACA
*
11876501 AGACAAAAC--AAAACCAAAAACA
1 A-A-AAAACAAAAAAACAAAAACA
11876523 AAAA
1 AAAA
11876527 CAAAAACAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 2 0.05
21 1 0.02
22 19 0.43
23 3 0.07
24 13 0.30
25 4 0.09
26 2 0.05
ACGTcount: A:0.79, C:0.17, G:0.03, T:0.01
Consensus pattern (22 bp):
AAAAAACAAAAAAACAAAAACA
Found at i:11876490 original size:30 final size:31
Alignment explanation
Indices: 11876454--11876554 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 31
11876444 ATTTATGATT
*
11876454 CAAAAAACAAAAAAACAAAAACAAAA-ATAA
1 CAAAAAACAAAAAAACAAAAACAAAACAAAA
** *
11876484 CAAAAAACAAGCAAAC-AAGACAAAACAAAA
1 CAAAAAACAAAAAAACAAAAACAAAACAAAA
* **
11876514 CCAAAAAC--AAAAACAAAAACAAAGGAAAA
1 CAAAAAACAAAAAAACAAAAACAAAACAAAA
11876543 -AACAAAACAAAA
1 CAA-AAAACAAAA
11876555 CATTCTCCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
28 5 0.09
29 24 0.44
30 24 0.44
31 2 0.04
ACGTcount: A:0.78, C:0.17, G:0.04, T:0.01
Consensus pattern (31 bp):
CAAAAAACAAAAAAACAAAAACAAAACAAAA
Found at i:11876939 original size:31 final size:30
Alignment explanation
Indices: 11876874--11876940 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
11876864 ATCTAAAATT
**
11876874 TTAAAAATTAAAATTAAATTAAAAATATTTA
1 TTAAAAATTAAAA-TAAATTAAAAATATAAA
*
11876905 TTAAAAATTAAAA-AAATTAAAACTAATAAAA
1 TTAAAAATTAAAATAAATTAAAAAT-AT-AAA
11876936 TTAAA
1 TTAAA
11876941 TTAAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 10 0.32
30 2 0.06
31 19 0.61
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (30 bp):
TTAAAAATTAAAATAAATTAAAAATATAAA
Found at i:11876947 original size:15 final size:16
Alignment explanation
Indices: 11876908--11876949 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11876898 ATATTTATTA
11876908 AAAATTAAA-AAAATT
1 AAAATTAAATAAAATT
*
11876923 AAAACT-AATAAAATT
1 AAAATTAAATAAAATT
11876938 -AAATTAAATAAA
1 AAAATTAAATAAA
11876950 TACAAAACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTAAATAAAATT
Found at i:11878451 original size:26 final size:27
Alignment explanation
Indices: 11878411--11878462 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
11878401 ATGTAGGGAA
*
11878411 ATTATTAAATAATAA-AATAATAAAAG
1 ATTAATAAATAATAATAATAATAAAAG
*
11878437 ATTAATAAATCATAATAATAATAAAA
1 ATTAATAAATAATAATAATAATAAAA
11878463 TTTTTAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
ATTAATAAATAATAATAATAATAAAAG
Found at i:11878609 original size:12 final size:12
Alignment explanation
Indices: 11878589--11878647 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
11878579 ATAAACTTTT
11878589 TAAACCCTAAAA
1 TAAACCCTAAAA
*
11878601 TAAATCCT-AAA
1 TAAACCCTAAAA
11878612 TGAAACCCTAATACA
1 T-AAACCCTAA-A-A
11878627 -AAACCCTAAAA
1 TAAACCCTAAAA
11878638 CTAAACCCTA
1 -TAAACCCTA
11878648 GGTAAAATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
11 5 0.13
12 14 0.36
13 18 0.46
14 1 0.03
15 1 0.03
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.19
Consensus pattern (12 bp):
TAAACCCTAAAA
Found at i:11878675 original size:14 final size:14
Alignment explanation
Indices: 11878658--11878733 Score: 63
Period size: 14 Copynumber: 5.8 Consensus size: 14
11878648 GGTAAAATCC
*
11878658 AAATCTTAAAATTG
1 AAATCCTAAAATTG
*
11878672 AAATCCTAAAGTTG
1 AAATCCTAAAATTG
11878686 AAATCCT-AAA-TG
1 AAATCCTAAAATTG
* *
11878698 AAACCCTAAAACT-
1 AAATCCTAAAATTG
* *
11878711 AAAACCT-TAATTG
1 AAATCCTAAAATTG
11878724 AAA-CCTAAAA
1 AAATCCTAAAA
11878734 CCATAAATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
12 14 0.28
13 16 0.32
14 20 0.40
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (14 bp):
AAATCCTAAAATTG
Found at i:11878978 original size:15 final size:16
Alignment explanation
Indices: 11878960--11878994 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11878950 TCATTTTGTT
11878960 AAAATAAAAAAT-ATA
1 AAAATAAAAAATAATA
*
11878975 AAAATATAAAATAATA
1 AAAATAAAAAATAATA
11878991 AAAA
1 AAAA
11878995 ATTATAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:11882143 original size:99 final size:97
Alignment explanation
Indices: 11882018--11882332 Score: 337
Period size: 100 Copynumber: 3.2 Consensus size: 97
11882008 TTTTTCCAAT
* * * * *
11882018 TGAGATTTTTAAA-ATTCCCTAGCCTATTTTTATAGGAGCCTTTTTTAACTATGA-TTTTAAAAT
1 TGAGATTTTTAAAGTTTCTC-AGCCTATTTTTATAAGAGCCTTTTATAACTATGATTTTTAAAGT
* *
11882081 TTCTTAGCCTATATTTATAAAAGCCTTTCAAAA
65 TTCTTAACCTATCTTTATAAAAGCCTTTCAAAA
* * *
11882114 TGAGATTTTTTTAAAAGTTTCTCATCCTATTTTTATAAGAGCCTTTTCTAACTAAGATTTTTAAA
1 TGAGA--TTTTT-AAAGTTTCTCAGCCTATTTTTATAAGAGCCTTTTATAACTATGATTTTTAAA
* * * *
11882179 GTTTCTTAACCTGTCTTGATAAGAGCTTTTCAAAA
63 GTTTCTTAACCTATCTTTATAAAAGCCTTTCAAAA
* * * * *
11882214 TGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAAGATCTCTTTTCAAAAATGTGATTTTTAAAG
1 TGAGATTTTTAAAGTTTCTCAGCCTATTTTTATAAGAGC-CTTTT-ATAACTATGATTTTTAAAG
* *
11882279 TTTCTTAATCTATCTTTATAGAAGCCCTTTCAAAA
64 TTTCTTAACCTATCTTTATAAAAG-CCTTTCAAAA
* * *
11882314 TGACATGTTTAAAATTTCT
1 TGAGATTTTTAAAGTTTCT
11882333 TACGGTATCT
Statistics
Matches: 181, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
96 5 0.03
97 26 0.14
98 15 0.08
99 66 0.36
100 69 0.38
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (97 bp):
TGAGATTTTTAAAGTTTCTCAGCCTATTTTTATAAGAGCCTTTTATAACTATGATTTTTAAAGTT
TCTTAACCTATCTTTATAAAAGCCTTTCAAAA
Found at i:11882149 original size:51 final size:48
Alignment explanation
Indices: 11882018--11882399 Score: 268
Period size: 48 Copynumber: 7.7 Consensus size: 48
11882008 TTTTTCCAAT
* * * * * ** *
11882018 TGAGATTTTTAAAATTCCCTAGCCTATTTTTATAGGAGCCTTTTTTAAC
1 TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGCC-TTTCAAAA
* * *
11882067 T-ATGA-TTTTAAAATTTCTTAGCCTATATTTATAAAAGCCTTTCAAAA
1 TGA-GATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGCCTTTCAAAA
* * * * *
11882114 TGAGATTTTTTTAAAAGTTTCTCATCCTATTTTTATAAGAGCCTTTTCTAAC
1 TGAGA--TTTTT-AAAGTTTCTTAGCCTATCTTTATAAGAGCC-TTTCAAAA
* * * * *
11882166 TAAGATTTTTAAAGTTTCTTAACCTGTCTTGATAAGAGCTTTTCAAAA
1 TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGCCTTTCAAAA
* *
11882214 TGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAAGATCTCTTTTCAAAAA
1 TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGC-C-TTTC-AAAA
* **
11882265 TGTGATTTTTAAAGTTTCTTAATCTATCTTTAT-AGAAGCCCTTTCAAAA
1 TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AG-CCTTTCAAAA
* * * * * *
11882314 TGACATGTTTAAAATTTCTTA-CGGTATCTTAATAGAAGAAGCCTTTTTAAAA
1 TGAGATTTTTAAAGTTTCTTAGC-CTATCTT--TATAAG-AGCC-TTTCAAAA
* * * *
11882366 TGAGATGTTTAAAGTTTCTTTGCTTATTTTTATA
1 TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATA
11882400 GGAGTTTCTT
Statistics
Matches: 265, Mismatches: 50, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
47 8 0.03
48 70 0.26
49 54 0.20
50 22 0.08
51 64 0.24
52 46 0.17
53 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (48 bp):
TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGCCTTTCAAAA
Found at i:11882279 original size:148 final size:150
Alignment explanation
Indices: 11882072--11882399 Score: 339
Period size: 148 Copynumber: 2.2 Consensus size: 150
11882062 TTAACTATGA
* *
11882072 TTTTAAAATTTCTTAGCCTATATTTATAAAAGCCTTTCAAAATGAGATTTTTTTAAAAGTTTC-T
1 TTTTAAAGTTTCTTAGCCTATTTTTATAAAAGCCTTTCAAAATGAGA-TTTTTTAAAAGTTTCTT
* * * * * * * * * *
11882136 CATCCTATTTTTATA-AGAGCCTTTTCTAACTAAGATTTTTAAAGTTTCTTAAC-CTGTCTTGAT
65 AAT-CTATCTTTATAGA-AGCCCTTTCAAAATAACATGTTTAAAATTTCTT-ACGCTATCTTAAT
11882199 -AAG-AG-CTTTTCAAAATGAGAT
127 AAAGAAGCCTTTTCAAAATGAGAT
* * *
11882220 TTTTAAAGTTTCTTAGCCTATTTTTATAAGATCTCTTTTCAAAAATGTGA-TTTTT-AAAGTTTC
1 TTTTAAAGTTTCTTAGCCTATTTTTATAAAAGC-C-TTTC-AAAATGAGATTTTTTAAAAGTTTC
* *
11882283 TTAATCTATCTTTATAGAAGCCCTTTCAAAATGACATGTTTAAAATTTCTTACGGTATCTTAATA
63 TTAATCTATCTTTATAGAAGCCCTTTCAAAATAACATGTTTAAAATTTCTTACGCTATCTTAATA
*
11882348 GAAGAAGCCTTTTTAAAATGAGAT
128 -AAGAAGCCTTTTCAAAATGAGAT
* * *
11882372 GTTTAAAGTTTCTTTGCTTATTTTTATA
1 TTTTAAAGTTTCTTAGCCTATTTTTATA
11882400 GGAGTTTCTT
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
147 2 0.01
148 80 0.54
149 10 0.07
150 7 0.05
151 10 0.07
152 40 0.27
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (150 bp):
TTTTAAAGTTTCTTAGCCTATTTTTATAAAAGCCTTTCAAAATGAGATTTTTTAAAAGTTTCTTA
ATCTATCTTTATAGAAGCCCTTTCAAAATAACATGTTTAAAATTTCTTACGCTATCTTAATAAAG
AAGCCTTTTCAAAATGAGAT
Found at i:11882311 original size:100 final size:96
Alignment explanation
Indices: 11882018--11882334 Score: 357
Period size: 99 Copynumber: 3.2 Consensus size: 96
11882008 TTTTTCCAAT
* * * * *
11882018 TGAGATTTTTAAAATTCCCTAGCCTATTTTTATAGGAGCCTTTTTTAACTATGA-TTTTAAAATT
1 TGAGATTTTTAAAATTTCTTAGCCTATTTTTATAAGAGCCTTTTCTAACTATGATTTTTAAAGTT
* *
11882082 TCTTAGCCTATATTTATAAAAGCCTTTCAAAA
66 TCTTAACCTATCTTTAT-AAAGCCTTTCAAAA
* * *
11882114 TGAGATTTTTTTAAAAGTTTCTCATCCTATTTTTATAAGAGCCTTTTCTAACTAAGATTTTTAAA
1 TGAGA--TTTTTAAAA-TTTCTTAGCCTATTTTTATAAGAGCCTTTTCTAACTATGATTTTTAAA
* * *
11882179 GTTTCTTAACCTGTCTTGATAAGAGCTTTTCAAAA
63 GTTTCTTAACCTATCTTTATAA-AGCCTTTCAAAA
* * * * *
11882214 TGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAAGATCTCTTTTCAAAAATGTGATTTTTAAAG
1 TGAGATTTTTAAAATTTCTTAGCCTATTTTTATAAGAGC-CTTTTC-TAACTATGATTTTTAAAG
*
11882279 TTTCTTAATCTATCTTTATAGAAGCCCTTTCAAAA
64 TTTCTTAACCTATCTTTATA-AAG-CCTTTCAAAA
* *
11882314 TGACATGTTTAAAATTTCTTA
1 TGAGATTTTTAAAATTTCTTA
11882335 CGGTATCTTA
Statistics
Matches: 184, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
96 5 0.03
97 22 0.12
98 23 0.12
99 68 0.37
100 66 0.36
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (96 bp):
TGAGATTTTTAAAATTTCTTAGCCTATTTTTATAAGAGCCTTTTCTAACTATGATTTTTAAAGTT
TCTTAACCTATCTTTATAAAGCCTTTCAAAA
Found at i:11882405 original size:24 final size:24
Alignment explanation
Indices: 11882378--11882424 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11882368 AGATGTTTAA
*
11882378 AGTTTCTTTGCTTATTTTTATAGG
1 AGTTTCTTAGCTTATTTTTATAGG
11882402 AGTTTCTTAGCTTATTTTTATAG
1 AGTTTCTTAGCTTATTTTTATAG
11882425 AAGTCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.15, T:0.57
Consensus pattern (24 bp):
AGTTTCTTAGCTTATTTTTATAGG
Found at i:11882499 original size:50 final size:48
Alignment explanation
Indices: 11882402--11882706 Score: 291
Period size: 49 Copynumber: 6.3 Consensus size: 48
11882392 TTTTTATAGG
* * * *
11882402 AGTTTCTTAGCTTATTTTTATAGAAGTC-TTTCAAAATGAGATTTTTAA
1 AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAATGAGA-TTTTAA
11882450 AG-TTCTTTAGCCTATCTTTATAGGAGCCCTTTTCAAAAT-ACGATGTTTAA
1 AGTTTC-TTAGCCTATCTTTATAGGAG-CCTTTTCAAAATGA-GAT-TTTAA
* * *
11882500 AGTTTCTTAG-CT-T-ATTAAAGGAACCTTTTCAAAATGAGATGTTTAA
1 AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAATGAGAT-TTTAA
* * ** *
11882546 AGTTTCTTAACCTATCTTTCTAAAAGCCTTCTCAAAATGAGATTCTTAA
1 AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAATGAGATT-TTAA
*
11882595 AGTTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATTTGAGATTTTAA
1 AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAA--TGAGATTTTAA
* * * *
11882645 AGTTTTTTAGCCTTTCTTTAAAAGAG-CTTTTCAAAATTGAGATTTTTAA
1 AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAA-TGAGA-TTTTAA
* *
11882694 AGCTTCATAGCCT
1 AGTTTCTTAGCCT
11882707 CTGTTGATAT
Statistics
Matches: 215, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
46 30 0.14
47 13 0.06
48 28 0.13
49 86 0.40
50 48 0.22
51 10 0.05
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (48 bp):
AGTTTCTTAGCCTATCTTTATAGGAGCCTTTTCAAAATGAGATTTTAA
Found at i:11883484 original size:32 final size:32
Alignment explanation
Indices: 11883448--11883511 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
11883438 CATGAAAGAC
*
11883448 AGAGTGAGGATTGGATAGAATATAAAAGAACA
1 AGAGTGAGGATCGGATAGAATATAAAAGAACA
* *
11883480 AGAGTGAGGATCGGATAGAATCTAAATGAACA
1 AGAGTGAGGATCGGATAGAATATAAAAGAACA
11883512 TACAACTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (32 bp):
AGAGTGAGGATCGGATAGAATATAAAAGAACA
Found at i:11884879 original size:11 final size:10
Alignment explanation
Indices: 11884844--11884882 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
11884834 ATTTACTAGA
11884844 AAAAAATATT
1 AAAAAATATT
11884854 AAAATAATATT
1 AAAA-AATATT
*
11884865 AAAAAATCATG
1 AAAAAAT-ATT
11884876 AAAAAAT
1 AAAAAAT
11884883 GATCAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:11885327 original size:7 final size:7
Alignment explanation
Indices: 11885317--11885354 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
11885307 ACAGAAAAAA
11885317 AAAAACT
1 AAAAACT
11885324 AAAAACT
1 AAAAACT
11885331 AAAAACT
1 AAAAACT
11885338 AAAAAAC-
1 -AAAAACT
11885345 AAAAAC-
1 AAAAACT
11885351 AAAA
1 AAAA
11885355 GAAAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 10 0.33
7 14 0.47
8 6 0.20
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAAACT
Found at i:11885328 original size:14 final size:14
Alignment explanation
Indices: 11885311--11885359 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
11885301 AACAAAACAG
11885311 AAAAAAAAAAACTA
1 AAAAAAAAAAACTA
**
11885325 AAAACTAAAAACTA
1 AAAAAAAAAAACTA
*
11885339 AAAAACAAAAAC-A
1 AAAAAAAAAAACTA
11885352 AAAGAAAA
1 AAA-AAAA
11885360 CCAAAAAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.82, C:0.10, G:0.02, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAACTA
Found at i:11886173 original size:143 final size:142
Alignment explanation
Indices: 11885917--11886246 Score: 341
Period size: 143 Copynumber: 2.3 Consensus size: 142
11885907 GAGAGATGTG
* * * *
11885917 AAATTA-TCAAAATATCCTTATGAGTATTTTTGTAATTTGATCTTTTTAAGGTCAATTTTTCACG
1 AAATTACT-AAAATACCCTTAAGAGTATTTTTGTAATTTGATATTTCTAAGGTCAATTTTTCACG
* * ** *
11885981 AAATGGCCCAAATCATGATTTTATATTATTTAATTTTTTTTTTGTATTAAAAACCTT-GAAT-AC
65 AAATGACCCAAATCATGATTTTATATTATTTAATATTTTTGATGCATTAAAAA-CTTCG-ATCAC
* * *
11886044 ACTTTCAAAGGTGCG
128 ACCTCCAAAGGTGCA
* * *
11886059 AAATTACTAAAATGCCCTTAAGATGTATTTTTGTAATTTGATATTTCTAAGGTCAGTTTTTCGC-
1 AAATTACTAAAATACCCTTAAGA-GTATTTTTGTAATTTGATATTTCTAAGGTCAATTTTTCACG
* * *
11886123 AAAT-ACTCCAAATGATG-TTTTCATATTATTTGATGATTTTTGATGCATTAAAAACTTCGATCG
65 AAATGAC-CCAAATCATGATTTT-ATATTATTTAAT-ATTTTTGATGCATTAAAAACTTCGATCA
*
11886186 CACCTCCAAAGGTGTA
127 CACCTCCAAAGGTGCA
* **
11886202 AAATTACTAAAATACCCTT-AGAGGTAATTTCATAATTTGATATTT
1 AAATTACTAAAATACCCTTAAGA-GTATTTTTGTAATTTGATATTT
11886247 TAGAGGTTGG
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
141 5 0.03
142 69 0.44
143 83 0.53
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (142 bp):
AAATTACTAAAATACCCTTAAGAGTATTTTTGTAATTTGATATTTCTAAGGTCAATTTTTCACGA
AATGACCCAAATCATGATTTTATATTATTTAATATTTTTGATGCATTAAAAACTTCGATCACACC
TCCAAAGGTGCA
Found at i:11887613 original size:50 final size:50
Alignment explanation
Indices: 11887549--11887655 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
11887539 TACATATTTT
* * * *
11887549 CATGCATCAAAGTTTATCTTTTTATTAATGGTATTTTGGTAATTTCGTTA
1 CATGCATCAAAGTTTACCCTTTTATTAATGGCATTTCGGTAATTTCGTTA
* * * * *
11887599 CATGCATCAGAGTTTGCCCTTTTATTAATGGCATTTCGTTAATTTTGTTT
1 CATGCATCAAAGTTTACCCTTTTATTAATGGCATTTCGGTAATTTCGTTA
11887649 CATGCAT
1 CATGCAT
11887656 TCTAAACCCC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (50 bp):
CATGCATCAAAGTTTACCCTTTTATTAATGGCATTTCGGTAATTTCGTTA
Found at i:11887723 original size:7 final size:6
Alignment explanation
Indices: 11887699--11887934 Score: 65
Period size: 7 Copynumber: 36.8 Consensus size: 6
11887689 CCTTATTCCA
* * *
11887699 AAACCTT AAACCCC AAACTCT AAACAT AAACCCT AAACCCT AACCCT AAACCT
1 AAACC-T AAA-CCT AAAC-CT AAACCT AAA-CCT AAA-CCT AAACCT AAACCT
** * * *
11887752 AAACCT AAAACC- AAATGTT AAACCTT AAGCCT -AACTTT AAACCT AACCCT
1 AAACCT -AAACCT AAA-CCT AAACC-T AAACCT AAAC-CT AAACCT AAACCT
* **
11887802 AAACCCT AAACCCT AAACTCCT -AACCT AAACCCT -AACCTT AGACAA
1 AAA-CCT AAA-CCT AAA--CCT AAACCT AAA-CCT AAACC-T AAACCT
* * *
11887848 AAACCCA AAACCTT GAACCT AAACCT AAAGCCT -AACCTT ACACCTT AAA--T
1 AAA-CCT AAACC-T AAACCT AAACCT AAA-CCT AAACC-T AAACC-T AAACCT
* *
11887898 CAACCT AAACCTT AAA-CT AACCCCT AAACCCT AAACC
1 AAACCT AAACC-T AAACCT AA-ACCT AAA-CCT AAACC
11887935 AACCCTTAAT
Statistics
Matches: 172, Mismatches: 31, Indels: 53
0.67 0.12 0.21
Matches are distributed among these distances:
4 3 0.02
5 15 0.09
6 58 0.34
7 91 0.53
8 5 0.03
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (6 bp):
AAACCT
Found at i:11887734 original size:13 final size:13
Alignment explanation
Indices: 11887699--11887837 Score: 83
Period size: 13 Copynumber: 10.7 Consensus size: 13
11887689 CCTTATTCCA
* *
11887699 AAACCTTAAACCCC
1 AAACCCTAAA-CCT
* *
11887713 AAACTCTAAACAT
1 AAACCCTAAACCT
11887726 AAACCCTAAACCCT
1 AAACCCTAAA-CCT
11887740 -AACCCTAAACCT
1 AAACCCTAAACCT
11887752 AAA-CCTAAAACC-
1 AAACCCT-AAACCT
***
11887764 AAATGTTAAACCT
1 AAACCCTAAACCT
* * *
11887777 TAAGCCT-AACTTT
1 AAACCCTAAAC-CT
*
11887790 AAA-CCTAACCCT
1 AAACCCTAAACCT
11887802 AAACCCTAAACCCT
1 AAACCCTAAA-CCT
11887816 AAACTCCT-AACCT
1 AAAC-CCTAAACCT
11887829 AAACCCTAA
1 AAACCCTAA
11887838 CCTTAGACAA
Statistics
Matches: 97, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
12 27 0.28
13 48 0.49
14 19 0.20
15 3 0.03
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:11887754 original size:19 final size:20
Alignment explanation
Indices: 11887700--11887839 Score: 87
Period size: 20 Copynumber: 7.2 Consensus size: 20
11887690 CTTATTCCAA
* * *
11887700 AACCTTAAACCCCAAACTCT
1 AACCCTAAACCCTAAACCCT
* *
11887720 AAACATAAACCCTAAACCCT
1 AACCCTAAACCCTAAACCCT
11887740 AACCCTAAA-CCTAAA-CCT
1 AACCCTAAACCCTAAACCCT
* *** *
11887758 AAAACC-AAATGTTAAACCTT
1 -AACCCTAAACCCTAAACCCT
* **
11887778 AAGCCT-AACTTTAAA-CCT
1 AACCCTAAACCCTAAACCCT
11887796 AACCCTAAACCCTAAACCCT
1 AACCCTAAACCCTAAACCCT
11887816 AAACTCCT-AA-CCTAAACCCT
1 -AAC-CCTAAACCCTAAACCCT
11887836 AACC
1 AACC
11887840 TTAGACAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
18 14 0.15
19 35 0.37
20 38 0.40
21 5 0.05
22 3 0.03
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (20 bp):
AACCCTAAACCCTAAACCCT
Found at i:11887938 original size:36 final size:35
Alignment explanation
Indices: 11887713--11887938 Score: 98
Period size: 39 Copynumber: 6.0 Consensus size: 35
11887703 CTTAAACCCC
* *
11887713 AAACTCTAAACATAAACCCTAAACCCTAACCCTAAACCT
1 AAAC-CTAAACCT-AACCCTAAACCCTAAACC--AACCT
* *** * * *
11887752 AAACCTAAAACCAAATGTTAAACCTTAAGCCTAACTTT
1 AAACCT-AAACCTAACCCTAAACCCTAAACC-AAC-CT
*
11887790 AAACCTAACCCTAAACCCTAAACCCTAAACTCCTAACCT
1 AAACCTAAACCT-AACCCTAAACCCTAAA--CC-AACCT
** *
11887829 AAACCCT-AACCTTAGA-CAAAAACCCAAAACCTTGAACCT
1 AAA-CCTAAACC-TA-ACCCTAAACCCTAAACC---AACCT
* * * *
11887868 AAACCTAAAGCCTAACCTTACACCTTAAATCAACCT
1 AAACCTAAA-CCTAACCCTAAACCCTAAACCAACCT
11887904 AAACCTTAAA-CTAACCCCTAAACCCTAAACCAACC
1 AAACC-TAAACCTAA-CCCTAAACCCTAAACCAACC
11887939 CTTAATCCCT
Statistics
Matches: 140, Mismatches: 32, Indels: 33
0.68 0.16 0.16
Matches are distributed among these distances:
35 4 0.03
36 26 0.19
37 13 0.09
38 37 0.26
39 47 0.34
40 13 0.09
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (35 bp):
AAACCTAAACCTAACCCTAAACCCTAAACCAACCT
Found at i:11887948 original size:19 final size:19
Alignment explanation
Indices: 11887901--11887939 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11887891 CTTAAATCAA
* *
11887901 CCTAAACCTTAAACTAACC
1 CCTAAACCCTAAACCAACC
11887920 CCTAAACCCTAAACCAACC
1 CCTAAACCCTAAACCAACC
11887939 C
1 C
11887940 TTAATCCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (19 bp):
CCTAAACCCTAAACCAACC
Found at i:11889451 original size:27 final size:30
Alignment explanation
Indices: 11889397--11889467 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 30
11889387 ATAGTAATGA
* * *
11889397 TAAACGAATATAAATAAATGAAATAAAA-G
1 TAAACAAAGATAAATAAAAGAAATAAAAGG
11889426 T-AA-AAAGATAAATAAAAGTAAA-AAAAGG
1 TAAACAAAGATAAATAAAAG-AAATAAAAGG
11889454 TAAACAAAGATAAA
1 TAAACAAAGATAAA
11889468 AACAACTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 16 0.46
28 7 0.20
29 3 0.09
30 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (30 bp):
TAAACAAAGATAAATAAAAGAAATAAAAGG
Found at i:11889456 original size:10 final size:10
Alignment explanation
Indices: 11889427--11889469 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11889417 AAATAAAAGT
11889427 AAAAAGATAA
1 AAAAAGATAA
11889437 ATAAAAG-TAA
1 A-AAAAGATAA
*
11889447 AAAAAGGTAA
1 AAAAAGATAA
*
11889457 ACAAAGATAA
1 AAAAAGATAA
11889467 AAA
1 AAA
11889470 CAACTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.18
10 18 0.64
11 5 0.18
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (10 bp):
AAAAAGATAA
Found at i:11889876 original size:34 final size:32
Alignment explanation
Indices: 11889800--11889881 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
11889790 ATATGAAATG
*
11889800 AATTAGATTGAACCAAAGTCTAAAAATGTTTT
1 AATTAGATTGAACCAAAGTCTAAAAATGTTGT
* * *
11889832 AACCTGGATTGAACCAAAGTCTTAAAATGTAATGT
1 AA-TTAGATTGAACCAAAGTCTAAAAATGT--TGT
*
11889867 GATTAGATTGAACCA
1 AATTAGATTGAACCA
11889882 TGGTCAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 2 0.05
33 24 0.60
34 11 0.28
35 3 0.08
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (32 bp):
AATTAGATTGAACCAAAGTCTAAAAATGTTGT
Found at i:11889988 original size:32 final size:32
Alignment explanation
Indices: 11889888--11890084 Score: 114
Period size: 32 Copynumber: 6.2 Consensus size: 32
11889878 ACCATGGTCA
* * *
11889888 AAAG-TGAAGGTGACCGAACTAAGCCAAGATC
1 AAAGATGAAGGTGACCAAACTAAGCCAAGGTT
* * *** *
11889919 AAACATAAAGGTGACTGGACTGAA-CCAAGGTC
1 AAAGATGAAGGTGACCAAACT-AAGCCAAGGTT
* * * *
11889951 GAAGATAAAGGTGACCAAACTTAGCTAAGGTT
1 AAAGATGAAGGTGACCAAACTAAGCCAAGGTT
* * * *
11889983 AAAGATGAATGTGACTAGACTAAGCCATGGTT
1 AAAGATGAAGGTGACCAAACTAAGCCAAGGTT
* * * * *
11890015 AAAGATGAAGGTGATCAGATTAAGCCAAAGTA
1 AAAGATGAAGGTGACCAAACTAAGCCAAGGTT
* * *
11890047 AAAAAT-AAGAGTGACCAAATTGAA-CCAAGGTC
1 AAAGATGAAG-GTGACCAAACT-AAGCCAAGGTT
11890079 AAAGAT
1 AAAGAT
11890085 AAAAATAACT
Statistics
Matches: 127, Mismatches: 34, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
31 7 0.06
32 116 0.91
33 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (32 bp):
AAAGATGAAGGTGACCAAACTAAGCCAAGGTT
Found at i:11890237 original size:32 final size:32
Alignment explanation
Indices: 11890201--11890312 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 32
11890191 GGATTGTGCT
* *
11890201 AAGGTTGAAAATAAAGGTAATCAAATTAAGCC
1 AAGGTAGAAAATAAAGGTGATCAAATTAAGCC
* ** *
11890233 AAGGTAAAAAATAAAAATGATCAGATTGAA-CC
1 AAGGTAGAAAATAAAGGTGATCAAATT-AAGCC
* * *
11890265 AAGGTCGAAAATAAAGGTGATTAAACTAAGCC
1 AAGGTAGAAAATAAAGGTGATCAAATTAAGCC
* *
11890297 AACGTAAAAAAATAAA
1 AAGGT-AGAAAATAAA
11890313 AGGGTAATTA
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
31 2 0.03
32 49 0.80
33 10 0.16
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (32 bp):
AAGGTAGAAAATAAAGGTGATCAAATTAAGCC
Found at i:11890403 original size:99 final size:97
Alignment explanation
Indices: 11890176--11890406 Score: 230
Period size: 99 Copynumber: 2.4 Consensus size: 97
11890166 GCTAAGATAA
* * **
11890176 AAAATGAAGGTGATTGGATTGTGCTAAGGT-TGAAAATAAAGGTAATCAAATTAAGCCAAGGTAA
1 AAAATGAAGGTGATTGAATTGAGCTAAGGTAAAAAAATAAAGGTAATCAAATTAAGCCAAGGTAA
* * *
11890240 AAAATAAAAATGATCAGATTGAACCAAGGTCG
66 AAAATAAAAATGACCAAACTGAACCAAGGTCG
* * * * * * * * *
11890272 AAAATAAAGGTGATTAAACTAAGCCAACGTAAAAAAATAAAAGGGTAATTAGATTAAGCTAAGGT
1 AAAATGAAGGTGATTGAATTGAGCTAAGGTAAAAAAAT-AAA-GGTAATCAAATTAAGCCAAGGT
* * * * * *
11890337 AATAAATGAAAGTGACCAAACTGAGCTAAGGTTG
64 AAAAAATAAAAATGACCAAACTGAACCAAGGTCG
*
11890371 AAGATGAAGGTGATTGAATTGAGCTAAGGTAAAAAA
1 AAAATGAAGGTGATTGAATTGAGCTAAGGTAAAAAA
11890407 TGACTTGGCC
Statistics
Matches: 103, Mismatches: 29, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
96 22 0.21
97 5 0.05
98 3 0.03
99 73 0.71
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.22
Consensus pattern (97 bp):
AAAATGAAGGTGATTGAATTGAGCTAAGGTAAAAAAATAAAGGTAATCAAATTAAGCCAAGGTAA
AAAATAAAAATGACCAAACTGAACCAAGGTCG
Found at i:11895336 original size:7 final size:7
Alignment explanation
Indices: 11895324--11895395 Score: 66
Period size: 7 Copynumber: 11.1 Consensus size: 7
11895314 TCACCACCTC
11895324 AACCCTA
1 AACCCTA
11895331 AACCCT-
1 AACCCTA
*
11895337 AA-CCAA
1 AACCCTA
11895343 AACCCTA
1 AACCCTA
*
11895350 AA-CCTT
1 AACCCTA
*
11895356 AA-CCAA
1 AACCCTA
11895362 AACCCTA
1 AACCCTA
11895369 AACCCTA
1 AACCCTA
11895376 AA-CC-A
1 AACCCTA
11895381 AACCCTA
1 AACCCTA
*
11895388 AATCCTA
1 AACCCTA
11895395 A
1 A
11895396 CCTAGACCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.09
6 17 0.32
7 31 0.58
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:11895346 original size:19 final size:19
Alignment explanation
Indices: 11895324--11895397 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11895314 TCACCACCTC
11895324 AACCCTAAACCCTAACCAA
1 AACCCTAAACCCTAACCAA
*
11895343 AACCCTAAACCTTAACCAA
1 AACCCTAAACCCTAACCAA
11895362 AACCCTAAACCCTAAACC-A
1 AACCCTAAACCCT-AACCAA
*
11895381 AACCCTAAATCCTAACC
1 AACCCTAAACCCTAACC
11895398 TAGACCGCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.08
19 43 0.84
20 4 0.08
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (19 bp):
AACCCTAAACCCTAACCAA
Found at i:11895346 original size:38 final size:38
Alignment explanation
Indices: 11895304--11895391 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
11895294 ACCACCTATG
* * **
11895304 AAACCTTAAATCACCACCTCAACCCTAAACCCT-AACC
1 AAACCCTAAATCACAACCAAAACCCTAAACCCTAAACC
* **
11895341 AAAACCCTAAACCTTAACCAAAACCCTAAACCCTAAACC
1 -AAACCCTAAATCACAACCAAAACCCTAAACCCTAAACC
11895380 AAACCCTAAATC
1 AAACCCTAAATC
11895392 CTAACCTAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 37 0.90
39 4 0.10
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (38 bp):
AAACCCTAAATCACAACCAAAACCCTAAACCCTAAACC
Found at i:11895383 original size:12 final size:13
Alignment explanation
Indices: 11895327--11895395 Score: 72
Period size: 12 Copynumber: 5.4 Consensus size: 13
11895317 CCACCTCAAC
11895327 CCTAAACCCT-AA
1 CCTAAACCCTAAA
*
11895339 CCAAAACCCTAAA
1 CCTAAACCCTAAA
* *
11895352 CCTTAA-CCAAAA
1 CCTAAACCCTAAA
11895364 CCCTAAACCCTAAA
1 -CCTAAACCCTAAA
11895378 CC-AAACCCTAAA
1 CCTAAACCCTAAA
11895390 TCCTAA
1 -CCTAA
11895396 CCTAGACCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 24 0.52
13 15 0.33
14 7 0.15
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (13 bp):
CCTAAACCCTAAA
Found at i:11903628 original size:21 final size:21
Alignment explanation
Indices: 11903600--11903647 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11903590 AATTCTTTTT
*
11903600 AAAT-TCTTTTATTCATGCCA
1 AAATATCTTTCATTCATGCCA
* *
11903620 ATATATCTTTCATTCTTGCCA
1 AAATATCTTTCATTCATGCCA
11903641 AAATATC
1 AAATATC
11903648 CCTTATATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATATCTTTCATTCATGCCA
Found at i:11908510 original size:50 final size:50
Alignment explanation
Indices: 11908391--11908735 Score: 242
Period size: 50 Copynumber: 6.8 Consensus size: 50
11908381 GACTTTCAAA
* * *
11908391 ACTTTTCAAGTTGAGATCTTTTAAAGTCACTTGC---T-TCTATAGGAGG
1 ACTTTTCAAATTGAGATCTTTTAAAGTCACTTGCTTATGTCTATAAGAGC
** * * *
11908437 TTTTTTTAAATTGAGATCATTTAAAGTCACTTGCTTATGTCTACAAGAGC
1 ACTTTTCAAATTGAGATCTTTTAAAGTCACTTGCTTATGTCTATAAGAGC
* * * * *
11908487 ATTTTTCAAATTGAGATCTTTTAAGGTCTCCTAT-CTT-TATCTAT-AGAAAC
1 ACTTTTCAAATTGAGATCTTTTAAAGTC-ACT-TGCTTATGTCTATAAG-AGC
* * * * *
11908537 ACTTTTCAAATTGACATCTCTTAAAGTCACCTACCTATGTCTATAAGAGC
1 ACTTTTCAAATTGAGATCTTTTAAAGTCACTTGCTTATGTCTATAAGAGC
* *
11908587 ACTTTTCAAATTAAGTTCTTTTAAAGTCACTTGGC-TATGTCTATAAGATATAAGAGC
1 ACTTTTCAAATTGAGATCTTTTAAAGTCACTT-GCTTATGTC-------TATAAGAGC
* * *
11908644 ACTTTTCAAATTAAGAT-TTTCTCAAAGTTACTTG-TCTATGTCTATAAGAAC
1 ACTTTTCAAATTGAGATCTTT-T-AAAGTCACTTGCT-TATGTCTATAAGAGC
* * * *
11908695 ATTTTTCAAATTGAGATTTTCTTAAGGTCACTTGCCTATGT
1 ACTTTTCAAATTGAGATCTT-TTAAAGTCACTTGCTTATGT
11908736 TTCTAGAAGC
Statistics
Matches: 235, Mismatches: 39, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
46 29 0.12
48 1 0.00
49 6 0.03
50 104 0.44
51 45 0.19
52 4 0.02
53 1 0.00
56 3 0.01
57 27 0.11
58 15 0.06
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (50 bp):
ACTTTTCAAATTGAGATCTTTTAAAGTCACTTGCTTATGTCTATAAGAGC
Found at i:11908692 original size:58 final size:57
Alignment explanation
Indices: 11908578--11908692 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 57
11908568 TACCTATGTC
*
11908578 TATAAGAGCACTTTTCAAATTAAGTTCTTTTAAAGTCACTTGGCTATGTCTATAAGA
1 TATAAGAGCACTTTTCAAATTAAGTTCTTTCAAAGTCACTTGGCTATGTCTATAAGA
* *
11908635 TATAAGAGCACTTTTCAAATTAAGATT-TTCTCAAAGTTACTTGTCTATGTCTATAAGA
1 TATAAGAGCACTTTTCAAATTAAG-TTCTT-TCAAAGTCACTTGGCTATGTCTATAAGA
11908693 ACATTTTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 26 0.49
58 27 0.51
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (57 bp):
TATAAGAGCACTTTTCAAATTAAGTTCTTTCAAAGTCACTTGGCTATGTCTATAAGA
Found at i:11908701 original size:51 final size:51
Alignment explanation
Indices: 11908635--11908735 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
11908625 GTCTATAAGA
* * *
11908635 TATAAGAGCACTTTTCAAATTAAGATTTTCTCAAAGTTACTTGTCTATGTC
1 TATAAGAACACTTTTCAAATTAAGATTTTCTCAAAGTCACTTGCCTATGTC
* * * *
11908686 TATAAGAACATTTTTCAAATTGAGATTTTCTTAAGGTCACTTGCCTATGT
1 TATAAGAACACTTTTCAAATTAAGATTTTCTCAAAGTCACTTGCCTATGT
11908736 TTCTAGAAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (51 bp):
TATAAGAACACTTTTCAAATTAAGATTTTCTCAAAGTCACTTGCCTATGTC
Found at i:11914144 original size:6 final size:6
Alignment explanation
Indices: 11914133--11914260 Score: 54
Period size: 6 Copynumber: 21.8 Consensus size: 6
11914123 CAAAGCTAAT
*
11914133 GATAAA GATAAA -ATAAA AATGAAA -AT-AA GA-ATAA GAATAAA GATAAA
1 GATAAA GATAAA GATAAA GAT-AAA GATAAA GATA-AA G-ATAAA GATAAA
* * * * * *
11914180 -ATAAA AATAAA AATAAA GATATA TACT-AA GATAAA TATAAA -ATAAT
1 GATAAA GATAAA GATAAA GATAAA GA-TAAA GATAAA GATAAA GATAAA
* ** * * *
11914226 GATAAA CATACT TATAAA TATAAA GATAAA AATAA
1 GATAAA GATAAA GATAAA GATAAA GATAAA GATAA
11914261 TAAACAAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
4 2 0.02
5 16 0.17
6 68 0.72
7 8 0.08
8 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (6 bp):
GATAAA
Found at i:11914157 original size:12 final size:11
Alignment explanation
Indices: 11914134--11914285 Score: 76
Period size: 12 Copynumber: 13.2 Consensus size: 11
11914124 AAAGCTAATG
*
11914134 ATAAAGATAAA
1 ATAAAAATAAA
11914145 ATAAAAATGAAA
1 ATAAAAAT-AAA
*
11914157 ATAAGAATAAGA
1 ATAAAAATAA-A
*
11914169 ATAAAGATAAA
1 ATAAAAATAAA
11914180 ATAAAAATAAAA
1 ATAAAAAT-AAA
* *
11914192 ATAAAGAT-AT
1 ATAAAAATAAA
*
11914202 ATACTAAGAT-AA
1 ATA--AAAATAAA
*
11914214 ATATAAAATAATG
1 ATA-AAAATAA-A
* **
11914227 ATAAACATACTT
1 ATAAAAATA-AA
*
11914239 ATAAATATAAA
1 ATAAAAATAAA
11914250 GATAAAAATAATA
1 -ATAAAAATAA-A
*
11914263 A-ACAAATAAA
1 ATAAAAATAAA
*
11914273 ATAAATATAAA
1 ATAAAAATAAA
11914284 AT
1 AT
11914286 TGGACCCTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 22
0.72 0.13 0.14
Matches are distributed among these distances:
10 6 0.05
11 38 0.35
12 62 0.56
13 4 0.04
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:11914211 original size:35 final size:35
Alignment explanation
Indices: 11914134--11914224 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
11914124 AAAGCTAATG
*
11914134 ATAAAGATAAA-ATAAAAATGAAAATAAGAATAAGA
1 ATAAAGATAAATAT-AAAATAAAAATAAGAATAAGA
*
11914169 ATAAAGATAAA-ATAAAAATAAAAATAA-AGATATATA
1 ATAAAGATAAATAT-AAAATAAAAATAAGA-ATA-AGA
*
11914205 CT-AAGATAAATATAAAATAA
1 ATAAAGATAAATATAAAATAA
11914225 TGATAAACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 1 0.02
35 44 0.88
36 5 0.10
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (35 bp):
ATAAAGATAAATATAAAATAAAAATAAGAATAAGA
Found at i:11915227 original size:26 final size:26
Alignment explanation
Indices: 11915198--11915254 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
11915188 TAAACTTTCT
* * *
11915198 CACCTTTAGGGGTTTTATAAAGGATC
1 CACCTTTAGAGCTTTTATAAAGAATC
11915224 CACCTTTAGAGCTTTTATAAAGAATC
1 CACCTTTAGAGCTTTTATAAAGAATC
11915250 CACCT
1 CACCT
11915255 CAAATATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (26 bp):
CACCTTTAGAGCTTTTATAAAGAATC
Found at i:11918633 original size:25 final size:23
Alignment explanation
Indices: 11918593--11918639 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
11918583 CTAATAGTAT
11918593 TTTTAAAAATTGATTAATTAATA
1 TTTTAAAAATTGATTAATTAATA
*
11918616 TTTTAAAATGATTGATTATTTAAT
1 TTTTAAAA--ATTGATTAATTAAT
11918640 TAAAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTTAAAAATTGATTAATTAATA
Found at i:11918653 original size:17 final size:17
Alignment explanation
Indices: 11918633--11918675 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11918623 ATGATTGATT
*
11918633 ATTTAATTAAAATATAA
1 ATTTAATTAAAAAATAA
* **
11918650 ATTTTAGAAAAAAATAA
1 ATTTAATTAAAAAATAA
11918667 ATTTAATTA
1 ATTTAATTA
11918676 TTATCTATTA
Statistics
Matches: 19, Mismatches: 7, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTAATTAAAAAATAA
Found at i:11920068 original size:53 final size:52
Alignment explanation
Indices: 11920002--11920107 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
11919992 TGAATAAGAA
* *
11920002 GACTTGCAAAAGAAGAACTCTAAAAAAGAAAAAAAATT-TTAATAAGCAAGTTT
1 GACTTGCAAAAGAA-AAAT-TAAAAAAGAAAAAAAATTCATAATAAGCAAGTTT
* * * *
11920055 GACTTGTAGAAGAAAAATTATAAAAGAAAAAAAATTCATAATAGGCAAGTTT
1 GACTTGCAAAAGAAAAATTAAAAAAGAAAAAAAATTCATAATAAGCAAGTTT
11920107 G
1 G
11920108 TATGCTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 17 0.37
52 17 0.37
53 12 0.26
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.24
Consensus pattern (52 bp):
GACTTGCAAAAGAAAAATTAAAAAAGAAAAAAAATTCATAATAAGCAAGTTT
Found at i:11920087 original size:17 final size:18
Alignment explanation
Indices: 11920062--11920095 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11920052 TTTGACTTGT
*
11920062 AGAAGAAAAATT-ATAAA
1 AGAAAAAAAATTCATAAA
11920079 AGAAAAAAAATTCATAA
1 AGAAAAAAAATTCATAA
11920096 TAGGCAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (18 bp):
AGAAAAAAAATTCATAAA
Found at i:11920927 original size:53 final size:52
Alignment explanation
Indices: 11920825--11920928 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 52
11920815 GGATAAAAAT
* *
11920825 ACTTGCAAAAGAATAACTGTAAGAAAAAAAAAATTCTTAATAGGTAAGTTTA
1 ACTTGCAAAAGAATAACTCTAAGAAAAAAAAAATTCTTAATAGGCAAGTTTA
*
11920877 ACTTGCAAAAGAATAATTCTAA-AAGGAAAAAAAATTCTTAATAGGCAAGTTT
1 ACTTGCAAAAGAATAACTCTAAGAA--AAAAAAAATTCTTAATAGGCAAGTTT
11920929 GTATGCTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 2 0.04
52 20 0.43
53 25 0.53
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (52 bp):
ACTTGCAAAAGAATAACTCTAAGAAAAAAAAAATTCTTAATAGGCAAGTTTA
Found at i:11921960 original size:3 final size:3
Alignment explanation
Indices: 11921936--11921977 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
11921926 AATTAAATTT
*
11921936 TAA TAA T-A TAA -AA TAA CAAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T
11921978 GAAAATTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:11922053 original size:26 final size:27
Alignment explanation
Indices: 11922023--11922076 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
11922013 GGATTACATA
11922023 TTTACCATTC-TA-TTTTTTTATACAAT
1 TTTACCA-TCATATTTTTTTTATACAAT
*
11922049 TTTACCATCATATTTTTTTTATGCAAT
1 TTTACCATCATATTTTTTTTATACAAT
11922076 T
1 T
11922077 CTAGTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 9 0.36
27 14 0.56
ACGTcount: A:0.26, C:0.15, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTACCATCATATTTTTTTTATACAAT
Found at i:11927854 original size:62 final size:62
Alignment explanation
Indices: 11927738--11927854 Score: 137
Period size: 62 Copynumber: 1.9 Consensus size: 62
11927728 AATTAAAAGA
* * * * ** *
11927738 GATTATTGAATGTGTTTTAAGTTAAAAATGCCTTCAATAATCTTCTCGTCAAAATTTAAGGC
1 GATTATTGAAGGTGTTTTAAGGTAAAAACGCCTTCAATAATCTCCTAATAAAAATTTAAGGC
* *
11927800 GATTATTGAAGGTGTTTT-TGGTAGAAAACGCCTTGAATAATCTCCTAATAAAAAT
1 GATTATTGAAGGTGTTTTAAGGTA-AAAACGCCTTCAATAATCTCCTAATAAAAAT
11927855 GGATAGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
61 3 0.07
62 42 0.93
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (62 bp):
GATTATTGAAGGTGTTTTAAGGTAAAAACGCCTTCAATAATCTCCTAATAAAAATTTAAGGC
Found at i:11931526 original size:161 final size:161
Alignment explanation
Indices: 11930653--11931527 Score: 734
Period size: 161 Copynumber: 5.4 Consensus size: 161
11930643 TAGTAAGTTT
* * ** *** * *
11930653 ATGATATTAAACTTCTCCAAATGAATGAACTTGGTTTTCATTGTTGATATATGTGTCGTAATTTG
1 ATGATATTAAACTTTTCCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTG-AAAAAGTTA
*** ** * * * *
11930718 CAATTTATGTCTATTTACAACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTACAATTATTG
65 TTGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTG
* **
11930783 TTCTATTTTAAAAGTTTTAATAG-TTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGCTTT-AATAC
* * * * *
11930815 ATAATATTAAACTTATCCAAATTATTGAACTTAGTTTTCACAGTTGATATATATGAAAAAGTTAT
1 ATGATATTAAACTTTTCCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAT
* * * * * * *
11930880 TGATTATGTCT-TTTAGGACTTTTTCTATCGGTTAATAGGTAAAAATATAAATTTTGCTATTATT
66 TGTTTATGTCTATTTAGGACTTTTTGT-GCCGTTAAAAGGCAAAAATACAAA-TTTGCTATTATT
*
11930944 GTTCT-TTTT-ACAGTTTGGATAGCTCTAATAC
129 GTTCTATTTTAACAGTTTGGATAGCTTTAATAC
* * * *
11930975 AGGATATTAAACTTGTCC-GATGA-TGAACTTGGTTCTTCACAGTTGATATGTTGTGAAAAAAAG
1 ATGATATTAAACTTTTCCAAATGATTGAACTTGGTT-TTCACAGTTGATAT-ATGTG--AAAAAG
** * * *** * * ** *
11931038 TTATTGTTTACATTTGTGTT-GAGACTTTTTGTATTGTTAAGAGGCAAAAATGCGAAATTTATTG
62 TTATTGTTTATGTCTAT-TTAG-GACTTTTTGTGCCGTTAAAAGGCAAAAATAC-AAATTTGCTA
* ** *
11931102 TTATTGTTCTA-TTTAATAGTTT-CCTAGCTTCAATAC
124 TTATTGTTCTATTTTAACAGTTTGGATAGCTTTAATAC
* ** * * *
11931138 ATGATTATTAAACTTGTCGGTAATAATTGAACTTGG-TTTCACCAATTGATATGTGTGAAAAAGC
1 ATGA-TATTAAACTTTTC-CAAATGATTGAACTTGGTTTTCA-CAGTTGATATATGTGAAAAAG-
* * * * * *
11931202 TAACAT-TTTATGTCTATCTAGGACTTTTTATGCCGTTAAAAGG-AAAAATGCAAATTTGATATT
62 TTA-TTGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATT
*
11931265 ATTGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
126 ATTGTTCTATTTTAACAGTTTGGATAGCTTTAATAC
* * * * *
11931301 ATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTTA-AGGTTGATATGTGTGAAAAAGTTA
1 ATGATATTAAACTTTTCCAAATGATTGAACTTGGTTTTCACA-GTTGATATATGTGAAAAAGTTA
* ** * *
11931365 TTGTTTACGTCTATTTATAACTATTTT-TGCTGTTAAAAGGCAAAAATACAAATTTGCTGTTATT
65 TTGTTTATGTCTATTTAGGACT-TTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATT
* * * *
11931429 ATTATATTTTAGCAGTTTGGATGGCTTTAATAC
129 GTTCTATTTTAACAGTTTGGATAGCTTTAATAC
* **
11931462 ATGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATGGTTGATATATGTGAAAAAGTTAT
1 ATGATATTAAACTTTTCCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAT
11931527 T
66 T
11931528 TTAACAGTTT
Statistics
Matches: 573, Mismatches: 111, Indels: 59
0.77 0.15 0.08
Matches are distributed among these distances:
158 10 0.02
159 18 0.03
160 75 0.13
161 196 0.34
162 114 0.20
163 86 0.15
164 43 0.08
165 9 0.02
166 13 0.02
167 9 0.02
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (161 bp):
ATGATATTAAACTTTTCCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAT
TGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGCTTTAATAC
Found at i:11931588 original size:91 final size:91
Alignment explanation
Indices: 11931433--11931615 Score: 296
Period size: 91 Copynumber: 2.0 Consensus size: 91
11931423 GTTATTATTA
* *
11931433 TATTTTAGCAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
* *
11931498 TTC-ATGGTTGATATATGTGAAAAAGT
66 TCCGAT-GTTAATATATGTGAAAAAGT
*
11931524 TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
*
11931589 TCCGCTGTTAATATATGTGAAAAAGT
66 TCCGATGTTAATATATGTGAAAAAGT
11931615 T
1 T
11931616 GTTGTTTACC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
91 84 0.99
92 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (91 bp):
TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
TCCGATGTTAATATATGTGAAAAAGT
Found at i:11931717 original size:252 final size:252
Alignment explanation
Indices: 11931272--11931776 Score: 685
Period size: 252 Copynumber: 2.0 Consensus size: 252
11931262 ATTATTGTTC
*
11931272 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGATT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGATT
** * * *
11931337 TTTAAGGTTGATATGTGTGAAAAAGTTATTGTTTACGTCTATTTATAACTATTTTTGCTGTTAAA
66 TCCAAGGTTAATATATGTGAAAAAGTTATTGTTTACCTCTATTTATAACTATTTTTGCTGTTAAA
* * * * * *
11931402 AGGCAAAAATACAAATTTGCTGTTATTATTATATTTTAGCAGTTTGGATGGCTTTAATACATGAT
131 AGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACATGAT
*
11931467 ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATGGTTGATATATGTGAAAAAGT
196 ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
* * ** *
11931524 TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGATT
*** * * *
11931589 TCCGCTGTTAATATATGTGAAAAAGTTGTTGTTTACCT-T-TGTT-TAA-GATTTTTCGTGTCGT
66 TCCAAGGTTAATATATGTGAAAAAGTTATTGTTTACCTCTAT-TTATAACTATTTTT-G-CT-GT
*
11931650 TAAAAGGAAAAAATACAAATTTACTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACA
127 TAAAAGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACA
** * *
11931715 TGATATTAAACTTTTTTGAATGATTGTACTTGGTTTTCGTAGTTGATATATGTGAAAAAGT
192 TGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
11931776 T
1 T
11931777 GTTGTTTACC
Statistics
Matches: 220, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
249 6 0.03
250 5 0.02
251 4 0.02
252 205 0.93
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (252 bp):
TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGATT
TCCAAGGTTAATATATGTGAAAAAGTTATTGTTTACCTCTATTTATAACTATTTTTGCTGTTAAA
AGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACATGAT
ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
Found at i:11931816 original size:161 final size:161
Alignment explanation
Indices: 11931524--11931932 Score: 554
Period size: 161 Copynumber: 2.5 Consensus size: 161
11931514 GTGAAAAAGT
*
11931524 TATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
* * * *
11931589 TCCGCTGTTAATATATGTGAAAAAGTTGTTGTTTACCTTTGTTTAAGATTTTTCGTGTCGTTAAA
66 TCCGCTGTTAATATATGTGAAAAAGTTGTTGTTTACCTCTATTTAAGATTTTTCGTGCCATTAAA
* *
11931654 AGGAAAAAATACAAATTTACTATTATTATTC
131 AGGAAAAAATACAAAGTTAATATTATTATTC
* *
11931685 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTGAATGATTGTACTTGGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
* * * *
11931750 TTCG-TAGTTGATATATGTGAAAAAGTTGTTGTTTACCTCTATTTAGGACTTTTTTG-GCCATTA
66 TCCGCT-GTTAATATATGTGAAAAAGTTGTTGTTTACCTCTATTTAAGA-TTTTTCGTGCCATTA
* *
11931813 AAAGGCAAAAATACAAAGTTAATGTTATTATTC
129 AAAGGAAAAAATACAAAGTTAATATTATTATTC
* * * * * * *
11931846 TGTTTTAACAGTTTGAATAGCTTCAATGCATGATATTAAACTTGTCTAAATGATTGAATTTTGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
* *
11931911 TCC-ATGATAGATATATGTGAAA
66 TCCGCTGTTA-ATATATGTGAAA
11931933 GGCTAAAATG
Statistics
Matches: 217, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
160 3 0.01
161 208 0.96
162 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (161 bp):
TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
TCCGCTGTTAATATATGTGAAAAAGTTGTTGTTTACCTCTATTTAAGATTTTTCGTGCCATTAAA
AGGAAAAAATACAAAGTTAATATTATTATTC
Found at i:11933152 original size:13 final size:13
Alignment explanation
Indices: 11933121--11933154 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11933111 TAATGATAAT
*
11933121 AATAAATATTAAA
1 AATAAATTTTAAA
11933134 AA-AAATTTTAAA
1 AATAAATTTTAAA
11933146 AATAAATTT
1 AATAAATTT
11933155 CTTAATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAATTTTAAA
Found at i:11935298 original size:18 final size:18
Alignment explanation
Indices: 11935242--11935305 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
11935232 ATTTGAGGAT
*
11935242 GATACATTTATGGTGG-G
1 GATACATTTAAGGTGGAG
** ** *
11935259 GATACATTTGTGGTAAAT
1 GATACATTTAAGGTGGAG
11935277 GATACATTTAAGGTGGAG
1 GATACATTTAAGGTGGAG
11935295 GATACATTTAA
1 GATACATTTAA
11935306 AGAGGTAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
17 13 0.35
18 24 0.65
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (18 bp):
GATACATTTAAGGTGGAG
Found at i:11935321 original size:39 final size:36
Alignment explanation
Indices: 11935242--11935332 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 36
11935232 ATTTGAGGAT
* * *
11935242 GATACATTTATGGTGG-GGATACATTTGTGGTAAAT
1 GATACATTTAAGGTGGAGGATACATTTGAGGTAAAG
11935277 GATACATTTAAGGTGGAGGATACATTTAAAGAGGTAAAG
1 GATACATTTAAGGTGGAGGATACATTT---GAGGTAAAG
*
11935316 GATACATTTGAGGTGGA
1 GATACATTTAAGGTGGA
11935333 TAATAACCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 15 0.31
36 10 0.21
39 23 0.48
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (36 bp):
GATACATTTAAGGTGGAGGATACATTTGAGGTAAAG
Found at i:11939135 original size:23 final size:25
Alignment explanation
Indices: 11939109--11939158 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11939099 ATTTCAAAAA
*
11939109 TTAA-AAAA-GTTCAAACTTATATT
1 TTAATAAAATGTTCAAACCTATATT
*
11939132 TTAATAAAATTTTCAAACCTATATT
1 TTAATAAAATGTTCAAACCTATATT
11939157 TT
1 TT
11939159 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 15 0.65
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (25 bp):
TTAATAAAATGTTCAAACCTATATT
Found at i:11945953 original size:12 final size:12
Alignment explanation
Indices: 11945936--11945961 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11945926 AACCAAATAA
11945936 TTTTTTAATTTT
1 TTTTTTAATTTT
11945948 TTTTTTAATTTT
1 TTTTTTAATTTT
11945960 TT
1 TT
11945962 ACACTCAATA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTAATTTT
Found at i:11946195 original size:3 final size:3
Alignment explanation
Indices: 11946187--11946216 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11946177 GGGAGAAAAC
*
11946187 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11946217 AAGTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11946711 original size:20 final size:22
Alignment explanation
Indices: 11946672--11946720 Score: 75
Period size: 20 Copynumber: 2.3 Consensus size: 22
11946662 TATTATGTAC
*
11946672 TTTTAATTTATTATTTTAATTA
1 TTTTAATTTATTATTTTAATCA
11946694 TTTTAATTT-TTA-TTTAATCA
1 TTTTAATTTATTATTTTAATCA
11946714 TTTTAAT
1 TTTTAAT
11946721 ACAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTAATTTATTATTTTAATCA
Found at i:11952096 original size:2 final size:2
Alignment explanation
Indices: 11952089--11952116 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11952079 GAATCAACTA
11952089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11952117 GAGCAAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11952349 original size:3 final size:3
Alignment explanation
Indices: 11952341--11952382 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11952331 TTGTAGACCA
11952341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11952383 CTTTAGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11955114 original size:2 final size:2
Alignment explanation
Indices: 11955109--11955134 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11955099 TCTTGCAAAC
11955109 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11955135 ACATTTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11958521 original size:11 final size:11
Alignment explanation
Indices: 11958507--11958538 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
11958497 ATTATTATTG
11958507 TAAAATTAATA
1 TAAAATTAATA
11958518 TAAAATT-ATA
1 TAAAATTAATA
11958528 TAAAATTAATA
1 TAAAATTAATA
11958539 AATATTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:11958797 original size:31 final size:31
Alignment explanation
Indices: 11958679--11958789 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
11958669 TAATAAATCT
* * *
11958679 ATTTTTGAGAATGATATGAAAATTTTTACATA
1 ATTTTTTAAAATGATAT-AAAATTTTTACTTA
* * * *
11958711 ATATTTTAAAATGATATATAGTTTTTATTTA
1 ATTTTTTAAAATGATATAAAATTTTTACTTA
* ** *
11958742 ATTTCTTAAACCGATGTAAAATTTTTACTTA
1 ATTTTTTAAAATGATATAAAATTTTTACTTA
11958773 ATTTTTTAAAATGATAT
1 ATTTTTTAAAATGATAT
11958790 GTAATTTTAA
Statistics
Matches: 60, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
31 46 0.77
32 14 0.23
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.49
Consensus pattern (31 bp):
ATTTTTTAAAATGATATAAAATTTTTACTTA
Found at i:11958983 original size:22 final size:22
Alignment explanation
Indices: 11958958--11959016 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11958948 GCATTTACCT
*
11958958 TGGTTTGGGTAGTTTATGGGGA
1 TGGTTTGGGTAGTTCATGGGGA
*
11958980 TGGTTTGGGTAGTTCATGGGGG
1 TGGTTTGGGTAGTTCATGGGGA
* *
11959002 TAGTTTGGGTGGTTC
1 TGGTTTGGGTAGTTC
11959017 TTGTGCCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.10, C:0.03, G:0.46, T:0.41
Consensus pattern (22 bp):
TGGTTTGGGTAGTTCATGGGGA
Found at i:11963447 original size:205 final size:207
Alignment explanation
Indices: 11963090--11963500 Score: 790
Period size: 205 Copynumber: 2.0 Consensus size: 207
11963080 ATCAATGTTA
11963090 AAGAGGAAAAAAACTATCTTTTGGGTAAGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCC
1 AAGAGGAAAAAAACTATCTTTTGGGTAAGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCC
*
11963155 ATTTTTCATGTTTTTTTACCATGACCAAACTGGTTACCCAATCAAGGTAACATACTTTCCAGTAA
66 ATTTTTCATGTTTTTTTACCATGACCAAACTGGTTACCCAATCAAGGTAACATACTTCCCAGTAA
11963220 AGCTTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATC
131 AGCTTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATC
11963285 TTTTT-TTTTTC
196 TTTTTCTTTTTC
*
11963296 AAGA-GAAAAAAACTATCTTTTGGGTAGGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCC
1 AAGAGGAAAAAAACTATCTTTTGGGTAAGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCC
11963360 ATTTTTCATGTTTTTTTACCATGACCAAACTGGTTACCCAATCAAGGTAACATACTTCCCAGTAA
66 ATTTTTCATGTTTTTTTACCATGACCAAACTGGTTACCCAATCAAGGTAACATACTTCCCAGTAA
11963425 AGCTTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATC
131 AGCTTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATC
11963490 TTTTTCTTTTT
196 TTTTTCTTTTT
11963501 TTTTTAAATT
Statistics
Matches: 202, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
205 193 0.96
206 9 0.04
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (207 bp):
AAGAGGAAAAAAACTATCTTTTGGGTAAGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCC
ATTTTTCATGTTTTTTTACCATGACCAAACTGGTTACCCAATCAAGGTAACATACTTCCCAGTAA
AGCTTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATC
TTTTTCTTTTTC
Found at i:11964535 original size:3 final size:3
Alignment explanation
Indices: 11964523--11964569 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
11964513 CACCATTTTG
11964523 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11964570 ATTTGTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11964595 original size:11 final size:11
Alignment explanation
Indices: 11964579--11964618 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
11964569 TATTTGTTTC
11964579 TTTTTTTTCCT
1 TTTTTTTTCCT
11964590 TTTTTTTTCCT
1 TTTTTTTTCCT
*
11964601 CTTTTTCTTTTCT
1 -TTTTT-TTTCCT
11964614 TTTTT
1 TTTTT
11964619 GGTTTAGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 10 0.38
13 5 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTTCCT
Found at i:11966368 original size:32 final size:32
Alignment explanation
Indices: 11966293--11966412 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 32
11966283 TTTTAAAAAT
*
11966293 AAAT-TAAATAATTTGTAAATTTATATTATATA
1 AAATATAAA-AATTTATAAATTTATATTATATA
* * *
11966325 AAATATTAAAATTTATATATTTATATTATATT
1 AAATATAAAAATTTATAAATTTATATTATATA
** *
11966357 TTATATAAAAATTACGTATTATAATTTATATTAATTAAA
1 AAATATAAAAATT---TA-TA-AATTTATATT-A-TATA
*
11966396 AAATATAAAAATATATA
1 AAATATAAAAATTTATA
11966413 TTTTTAATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
32 34 0.51
33 3 0.04
35 4 0.06
36 4 0.06
37 9 0.13
38 1 0.01
39 12 0.18
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (32 bp):
AAATATAAAAATTTATAAATTTATATTATATA
Found at i:11967956 original size:16 final size:16
Alignment explanation
Indices: 11967937--11967974 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
11967927 TACAAAAATT
11967937 TTTAAC-TCAATCAGAA
1 TTTAACTTCAATCA-AA
11967953 TTTAACTTTCAATCAAA
1 TTTAAC-TTCAATCAAA
11967970 TTTAA
1 TTTAA
11967975 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTAACTTCAATCAAA
Found at i:11971150 original size:22 final size:22
Alignment explanation
Indices: 11971110--11971159 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11971100 AAATTAAGTT
* *
11971110 AAAATTTCAAAATTGTTTTTACA
1 AAAATTTCAAAATT-ATTTTAAA
*
11971133 AAAATTTC-ATATTATTTTAAA
1 AAAATTTCAAAATTATTTTAAA
11971154 AAAATT
1 AAAATT
11971160 ACGTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 4 0.17
23 8 0.33
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAATTTCAAAATTATTTTAAA
Found at i:11971166 original size:21 final size:21
Alignment explanation
Indices: 11971126--11971166 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11971116 TCAAAATTGT
* *
11971126 TTTTACAAAAATTTCATATTA
1 TTTTAAAAAAATTACATATTA
*
11971147 TTTTAAAAAAATTACGTATT
1 TTTTAAAAAAATTACATATT
11971167 TCTATATCAG
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:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTAAAAAAATTACATATTA
Found at i:11971328 original size:19 final size:18
Alignment explanation
Indices: 11971304--11971343 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11971294 TATTTTCCAT
*
11971304 TAAAAATTTTATATTTATA
1 TAAAAATATTATATTTA-A
*
11971323 TAAAAATATTATTTTTAA
1 TAAAAATATTATATTTAA
11971341 TAA
1 TAA
11971344 TTTGATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAAATATTATATTTAA
Found at i:11971440 original size:31 final size:31
Alignment explanation
Indices: 11971387--11971455 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
11971377 ACAAATCATT
11971387 TTTTAAAATGATAAAAAATTTTT-ACTTAATA
1 TTTTAAAATGATAAAAAATTTTTCA-TTAATA
** * *
11971418 TTTTAAAATGATACGAAGTTTTTCATTAATG
1 TTTTAAAATGATAAAAAATTTTTCATTAATA
11971449 TTTTAAA
1 TTTTAAA
11971456 TCAATATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTTAAAATGATAAAAAATTTTTCATTAATA
Found at i:11971557 original size:16 final size:18
Alignment explanation
Indices: 11971536--11971569 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
11971526 AACCTGATTT
11971536 TAATTTT-TA-AAAAATA
1 TAATTTTCTACAAAAATA
11971552 TAATTTTCTACAAAAATA
1 TAATTTTCTACAAAAATA
11971570 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATTTTCTACAAAAATA
Found at i:11979639 original size:62 final size:62
Alignment explanation
Indices: 11979573--11979715 Score: 164
Period size: 63 Copynumber: 2.3 Consensus size: 62
11979563 TTTAGAGATA
*
11979573 ATTATTGAAGGTATTTTT-ACAAAAAAATACCTTCAATAATCCCCT-TAAATTTTGATAAGGAG
1 ATTATTGAAGGTATTTTTAAC-AAAAAACACCTTCAATAATCCCCTCT-AATTTTGATAAGGAG
* * * * ** * *
11979635 ATTATTGAATGCATTTTTTAACCAAAAACGCCTTCAATAATCCCCTCTAATTTTTTTGAGGGG
1 ATTATTGAAGGTA-TTTTTAACAAAAAACACCTTCAATAATCCCCTCTAATTTTGATAAGGAG
11979698 ATTATTGAAGGTATTTTT
1 ATTATTGAAGGTATTTTT
11979716 TGTACAAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
62 16 0.24
63 48 0.72
64 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (62 bp):
ATTATTGAAGGTATTTTTAACAAAAAACACCTTCAATAATCCCCTCTAATTTTGATAAGGAG
Found at i:11979662 original size:63 final size:63
Alignment explanation
Indices: 11979573--11979737 Score: 160
Period size: 63 Copynumber: 2.7 Consensus size: 63
11979563 TTTAGAGATA
* * *
11979573 ATTATTGAAGGTA-TTTTT-ACAAAAAAATACCTTCAATAATCCCCT-TAAATTTTGATAAGGAG
1 ATTATTGAAGGCATTTTTTAAC-CAAAAACACCTTCAATAATCCCCTCT-AATTTTGATAAGGAG
* * ** * *
11979635 ATTATTGAATGCATTTTTTAACCAAAAACGCCTTCAATAATCCCCTCTAATTTTTTTGAGGGG
1 ATTATTGAAGGCATTTTTTAACCAAAAACACCTTCAATAATCCCCTCTAATTTTGATAAGGAG
* * *
11979698 ATTATTGAAGGTATTTTTTGTA-C-AAAACACCTTTAATAAT
1 ATTATTGAAGGCATTTTTT-AACCAAAAACACCTTCAATAAT
11979738 TTTCTCATAA
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
62 26 0.31
63 55 0.65
64 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (63 bp):
ATTATTGAAGGCATTTTTTAACCAAAAACACCTTCAATAATCCCCTCTAATTTTGATAAGGAG
Found at i:11982172 original size:3 final size:3
Alignment explanation
Indices: 11982158--11982187 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11982148 TTTCACTTTC
*
11982158 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11982188 TTGTTTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:11985416 original size:17 final size:19
Alignment explanation
Indices: 11985396--11985436 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
11985386 TTTTTTTAGA
11985396 TTTTCTTG-ATTT-TTTTC
1 TTTTCTTGAATTTCTTTTC
*
11985413 TTTTTTTGAATTTCGTTTTC
1 TTTTCTTGAATTTC-TTTTC
11985433 TTTT
1 TTTT
11985437 TTTTTTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
20 9 0.45
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTCTTGAATTTCTTTTC
Found at i:11985799 original size:126 final size:126
Alignment explanation
Indices: 11985574--11985812 Score: 309
Period size: 126 Copynumber: 1.9 Consensus size: 126
11985564 AGCTCAGAAG
* * *
11985574 ACTTACAAATTTTGCTCGGAGGACTTAAAGACTATACCTAGAGGTTTTACAAATCTCTACATCTA
1 ACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCTACATCTA
* * * * * * *
11985639 CTAATGTTCCTCTAAAAATAAGCCTTAAAACTTTATAAATTTAAAATAATTTGCTTGAAAA
66 CAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATAATTTGCTTGAAAA
* ** * * *
11985700 ACTTACAAATCTTGCTTGGAAGACTTTGAGACTATACCCGGAGGTTTTATAAATCT-TGACATTT
1 ACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCT-ACATCT
*
11985764 ACAAATGCTCCTATAAAAAGAAGCATTGAAACTTTACAAATTGAAAATA
65 ACAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATA
11985813 TTTTTCCTAG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
125 1 0.01
126 94 0.99
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (126 bp):
ACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCTACATCTA
CAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATAATTTGCTTGAAAA
Found at i:11985830 original size:126 final size:126
Alignment explanation
Indices: 11985571--11985838 Score: 306
Period size: 126 Copynumber: 2.1 Consensus size: 126
11985561 TTCAGCTCAG
* * *
11985571 AAGACTTACAAATTTTGCTCGGAGGACTTAAAGACTATACCTAGAGGTTTTACAAATCTCTACAT
1 AAGACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCTACAT
* * * * * * * * *
11985636 CTACTAATGTTCCTCTAAAAATAAGCCTTAAAACTTTATAAATTTAAAATAATTTGCTTGA
66 CTACAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATAATTTCCTAGA
* * ** * *
11985697 AAAACTTACAAATCTTGCTTGGAAGACTTTGAGACTATACCCGGAGGTTTTATAAATCT-TGACA
1 AAGACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCT-ACA
* * *
11985761 TTTACAAATGCTCCTATAAAAAGAAGCATTGAAACTTTACAAATTGAAAATATTTTTCCTAG-
65 TCTACAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATA-ATTTCCTAGA
*
11985823 AGGACTTACAAATCTT
1 AAGACTTACAAATCTT
11985839 TTGAATCTTT
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
125 1 0.01
126 110 0.94
127 6 0.05
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (126 bp):
AAGACTTACAAATCTTGCTCGGAAGACTTAAAGACTATACCCAGAGGTTTTACAAATCTCTACAT
CTACAAATGCTCCTATAAAAAGAAGCATTAAAACTTTACAAATTGAAAATAATTTCCTAGA
Found at i:11985966 original size:40 final size:40
Alignment explanation
Indices: 11985865--11986025 Score: 135
Period size: 40 Copynumber: 4.0 Consensus size: 40
11985855 AGGTTTTGGG
* * * * * *
11985865 AAATCATTTAAGAAATTTAAAGTTTTGCTTAAAGGTTTTTA
1 AAATCATTCAA-AAATTTAAAATTTTGCCTAAAAGTCTTGA
** * * * *
11985906 AAATTGTTTAAAAATCTAAAATTTTGCCTAGAGGTCTTTG-
1 AAATCATTCAAAAATTTAAAATTTTGCCTAAAAGTC-TTGA
* * *
11985946 AGATCATTCAAAGATTTAAAATTTTGCCCAAAAGTCTTGA
1 AAATCATTCAAAAATTTAAAATTTTGCCTAAAAGTCTTGA
* * *
11985986 AAATCATTTAAAAATTTAAAGTTTTGCCTGAAAGTCTTGA
1 AAATCATTCAAAAATTTAAAATTTTGCCTAAAAGTCTTGA
11986026 GGATTTTGCT
Statistics
Matches: 95, Mismatches: 23, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
39 3 0.03
40 81 0.85
41 11 0.12
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (40 bp):
AAATCATTCAAAAATTTAAAATTTTGCCTAAAAGTCTTGA
Found at i:11986230 original size:25 final size:25
Alignment explanation
Indices: 11986200--11986249 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11986190 ATGAATACTT
11986200 GGATATCACCACCGAGTAAAGATAC
1 GGATATCACCACCGAGTAAAGATAC
11986225 GGATATCACCACCGAGTAAAGATAC
1 GGATATCACCACCGAGTAAAGATAC
11986250 AAATGACTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
GGATATCACCACCGAGTAAAGATAC
Found at i:11986429 original size:23 final size:23
Alignment explanation
Indices: 11986398--11986458 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
11986388 AAATATTATC
*
11986398 AGTGTCAACTAATCTAGGCTTAA
1 AGTGCCAACTAATCTAGGCTTAA
* * *
11986421 GGTGCCAACTAATATATGCTTAA
1 AGTGCCAACTAATCTAGGCTTAA
*
11986444 AGTGCCAGCTAATCT
1 AGTGCCAACTAATCT
11986459 GGACTCGGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (23 bp):
AGTGCCAACTAATCTAGGCTTAA
Found at i:11986472 original size:45 final size:44
Alignment explanation
Indices: 11986421--11986514 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
11986411 CTAGGCTTAA
*
11986421 GGTGCCAACTAATATATGCTTAAAGTGCCAGCTAATCTGGACTCG
1 GGTGCCAACTAATATAGGC-TAAAGTGCCAGCTAATCTGGACTCG
* * * * * * *
11986466 GGTGCCAGCTAGTCTGGGCTAAGGTGCTAGCTAATTTGGACTCG
1 GGTGCCAACTAATATAGGCTAAAGTGCCAGCTAATCTGGACTCG
11986510 GGTGC
1 GGTGC
11986515 TAGCTAATCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 27 0.66
45 14 0.34
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (44 bp):
GGTGCCAACTAATATAGGCTAAAGTGCCAGCTAATCTGGACTCG
Found at i:11986473 original size:22 final size:22
Alignment explanation
Indices: 11986445--11986529 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 22
11986435 TATGCTTAAA
11986445 GTGCCAGCTAATCTGGACTCGG
1 GTGCCAGCTAATCTGGACTCGG
* * **
11986467 GTGCCAGCTAGTCTGGGCTAAG
1 GTGCCAGCTAATCTGGACTCGG
* *
11986489 GTGCTAGCTAATTTGGACTCGG
1 GTGCCAGCTAATCTGGACTCGG
* *
11986511 GTGCTAGCTAATCTAGACT
1 GTGCCAGCTAATCTGGACT
11986530 TGGTTCCATC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (22 bp):
GTGCCAGCTAATCTGGACTCGG
Found at i:11986589 original size:32 final size:32
Alignment explanation
Indices: 11986553--11986767 Score: 155
Period size: 32 Copynumber: 6.7 Consensus size: 32
11986543 TTTGAACTAA
* *
11986553 GGTGCCAACTAATTTGGGCTTGAAATCTAATT
1 GGTGCTAACTAAATTGGGCTTGAAATCTAATT
* *
11986585 GGTGCTAGCTAAATTGGGCTTGAAATCTGATT
1 GGTGCTAACTAAATTGGGCTTGAAATCTAATT
* * * *
11986617 GATGCTAACTAAATTGAGCTTGAAATTTGATT
1 GGTGCTAACTAAATTGGGCTTGAAATCTAATT
* * * * *
11986649 GGCGCTAGCTAAACTAGAG-TTGAAATCTGATT
1 GGTGCTAACTAAA-TTGGGCTTGAAATCTAATT
* ** * *
11986681 GGTGCTAGCTAAACTAAGG-TTGAAATTTGATT
1 GGTGCTAACTAAA-TTGGGCTTGAAATCTAATT
* * * * * * *
11986713 GGTACCAGCTAAATTGAGCTTAAAATATGATT
1 GGTGCTAACTAAATTGGGCTTGAAATCTAATT
* *
11986745 GATGCCAACTAAATTGGGCTTGA
1 GGTGCTAACTAAATTGGGCTTGA
11986768 TGCTAGCTAG
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
31 2 0.01
32 146 0.96
33 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (32 bp):
GGTGCTAACTAAATTGGGCTTGAAATCTAATT
Found at i:11986638 original size:64 final size:64
Alignment explanation
Indices: 11986559--11986767 Score: 240
Period size: 64 Copynumber: 3.3 Consensus size: 64
11986549 CTAAGGTGCC
* * * * *
11986559 AACTAATTTGGGCTTGAAATCTAATTGGTGCTAGCTAAATTGGGCTTGAAATCTGATTGATGCT
1 AACTAAATTGAGCTTGAAATTTGATTGGTGCTAGCTAAATTGAGCTTGAAATCTGATTGATGCT
* * *
11986623 AACTAAATTGAGCTTGAAATTTGATTGGCGCTAGCTAAACTAGAG-TTGAAATCTGATTGGTGCT
1 AACTAAATTGAGCTTGAAATTTGATTGGTGCTAGCTAAA-TTGAGCTTGAAATCTGATTGATGCT
* * * * * * * * *
11986687 AGCTAAACTAAGGTTGAAATTTGATTGGTACCAGCTAAATTGAGCTTAAAATATGATTGATGCC
1 AACTAAATTGAGCTTGAAATTTGATTGGTGCTAGCTAAATTGAGCTTGAAATCTGATTGATGCT
*
11986751 AACTAAATTGGGCTTGA
1 AACTAAATTGAGCTTGA
11986768 TGCTAGCTAG
Statistics
Matches: 118, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
63 4 0.03
64 111 0.94
65 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (64 bp):
AACTAAATTGAGCTTGAAATTTGATTGGTGCTAGCTAAATTGAGCTTGAAATCTGATTGATGCT
Found at i:11986682 original size:96 final size:96
Alignment explanation
Indices: 11986572--11986745 Score: 242
Period size: 96 Copynumber: 1.8 Consensus size: 96
11986562 TAATTTGGGC
** * *
11986572 TTGAAATCTAATTGGTGCTAGCTAAA-TTGGGCTTGAAATCTGATTGATGCTAACTAAATTGAGC
1 TTGAAATCTAATTGGTGCTAGCTAAACTAAGG-TTGAAATCTGATTGATACCAACTAAATTGAGC
* *
11986636 TTGAAATTTGATTGGCGCTAGCTAAACTAGAG
65 TTAAAATATGATTGGCGCTAGCTAAACTAGAG
* * * *
11986668 TTGAAATCTGATTGGTGCTAGCTAAACTAAGGTTGAAATTTGATTGGTACCAGCTAAATTGAGCT
1 TTGAAATCTAATTGGTGCTAGCTAAACTAAGGTTGAAATCTGATTGATACCAACTAAATTGAGCT
11986733 TAAAATATGATTG
66 TAAAATATGATTG
11986746 ATGCCAACTA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
96 64 0.96
97 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.34
Consensus pattern (96 bp):
TTGAAATCTAATTGGTGCTAGCTAAACTAAGGTTGAAATCTGATTGATACCAACTAAATTGAGCT
TAAAATATGATTGGCGCTAGCTAAACTAGAG
Found at i:11988915 original size:17 final size:17
Alignment explanation
Indices: 11988893--11988935 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
11988883 AGGTAAAAGG
11988893 TTTTTTTTTGCT-TTTTC
1 TTTTTTTTTG-TGTTTTC
*
11988910 TTTTTTTTTGTGTTTTG
1 TTTTTTTTTGTGTTTTC
11988927 TTTTTTTTT
1 TTTTTTTTT
11988936 ATGCATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTGTGTTTTC
Found at i:11994067 original size:3 final size:3
Alignment explanation
Indices: 11994059--11994098 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11994049 TTTTTCCATT
11994059 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11994099 TATTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:11994103 original size:3 final size:3
Alignment explanation
Indices: 11994097--11994123 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11994087 CATCATCATC
11994097 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
11994124 TTGTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11996991 original size:19 final size:19
Alignment explanation
Indices: 11996932--11997017 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
11996922 TACTTACCTA
*
11996932 AAACCCTAAAACATAAACC
1 AAACCCTAAACCATAAACC
* *
11996951 AAA-CCTGAAAGCC-CAAATC
1 AAACCCT-AAA-CCATAAACC
11996970 AAACCCTAAACCATAAACC
1 AAACCCTAAACCATAAACC
* *
11996989 AAAACC-AAACCCTAAACC
1 AAACCCTAAACCATAAACC
*
11997007 TAAGCCCTAAA
1 -AAACCCTAAA
11997018 ACTTAACCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
18 16 0.31
19 29 0.56
20 7 0.13
ACGTcount: A:0.52, C:0.34, G:0.03, T:0.10
Consensus pattern (19 bp):
AAACCCTAAACCATAAACC
Found at i:11997016 original size:38 final size:37
Alignment explanation
Indices: 11996932--11997019 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 37
11996922 TACTTACCTA
*
11996932 AAACCCTAAAACATAAACCAAACCTGAAAGCCCAAATC
1 AAACCCTAAAACATAAACCAAACC-GAAAGCCCAAACC
*
11996970 AAACCCTAAACCATAAACCAAAACC-AAA-CCCTAAACC
1 AAACCCTAAAACATAAACC-AAACCGAAAGCCC-AAACC
*
11997007 TAAGCCCTAAAAC
1 -AAACCCTAAAAC
11997020 TTAACCGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
36 3 0.07
37 7 0.16
38 28 0.65
39 5 0.12
ACGTcount: A:0.52, C:0.34, G:0.03, T:0.10
Consensus pattern (37 bp):
AAACCCTAAAACATAAACCAAACCGAAAGCCCAAACC
Found at i:11997680 original size:27 final size:25
Alignment explanation
Indices: 11997622--11997680 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
11997612 GATATTAAAA
*
11997622 TTTTCCATTTTAATAAAAAATGAAT
1 TTTTGCATTTTAATAAAAAATGAAT
*
11997647 TAATTTGCATTTTCATAAAAAATTGAGAT
1 T--TTTGCATTTTAATAAAAAA-TGA-AT
11997676 TTTTG
1 TTTTG
11997681 TGAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
25 1 0.04
27 21 0.75
28 3 0.11
29 3 0.11
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (25 bp):
TTTTGCATTTTAATAAAAAATGAAT
Found at i:11998703 original size:15 final size:16
Alignment explanation
Indices: 11998674--11998706 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11998664 AGGAGTTTGA
*
11998674 AAAATGTTTTGATTTT
1 AAAATGTTTTCATTTT
11998690 AAAA-GTTTTCATTTT
1 AAAATGTTTTCATTTT
11998705 AA
1 AA
11998707 TAAAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (16 bp):
AAAATGTTTTCATTTT
Found at i:11998838 original size:537 final size:525
Alignment explanation
Indices: 11997542--11999147 Score: 1973
Period size: 537 Copynumber: 3.0 Consensus size: 525
11997532 ATGGATTATT
* *
11997542 ATGAAAACCCCAAAGTAAAGGTATGTTTCTAGAATTTCACATAAATATAAGGGAGTTTGGAAAAT
1 ATGAAAACCCCAAAGTAAAGGTATGTTTTTAGAATTT-TCATAAATATAAGGGAGTTTGGAAAAT
11997607 GTTTTGATATTAAAA-TTTTCCATTTTAATAAAAAATGAATTAATTTGCATTTTCATAAAAAATT
65 GTTTTGATATTAAAAGTTTT-CATTTTAATAAAAAATGAATTAATTTGCATTTTCA-AAAAAA-T
* *
11997671 GAGATTTTTGTGAAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAAGATCTTTT
127 GAGATTTTTGTGGAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAGGATCTTTT
* * * * *
11997736 CCTCAAAATTTAAAGATAACATTCAATTAATTTCTACCGATTTTAAAAATAGATGTTGTGAGGAT
192 -CTCAAAATTTAAGGATAACATTCAGTTAATTTATACTGATTTTAAAAATAGACGTTGTGAGG-T
* * * * *
11997801 ACTAATCATTCTTCACACATAAGCGAACTTTTAAACCCATCTTTAATTTCAAAGACCAAAACTAT
255 ACTAATCATTC-TC-CACATAAACAAACTATTGAACCCATCTTTGATTTCAAAGACCAAAACTAT
* *
11997866 CTTATTATAATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAAGTGGTCAATC-
318 CTTATAATAATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAAGTGGTGAA-CG
* *
11997930 ACA-TTGACCAAAAAAGATTGGTGATAACTCGTTATTTTGATTTTCAA-TTTTTTTTGTTTAAGG
382 ACACTT-ACCAAAAAAGATTGGTGACAACTCCTTATTTTGATTTTCAATTTTTTTTTGTTTAAGG
* ** * * * * *
11997993 GGTCGGGTTCTT-GGACTCACACATTGCGATAGCTTGACGACTTTATTG-GGAAATTTTTTAGAG
446 GATCAAGTTCTTAGG-CCCACACATTACGACAACTTGACGACTTTACTGAGG-AATTTTTTAGAG
*
11998056 AGTCAAGCTAAAAATTA
509 AGTCAGGCTAAAAATTA
* ** * *
11998073 ATGGAAACTTCAAAGTTAAGGTATGTTTTTAGAATTCTTCAT-AATATAAGGGAGTTTGGTAAAT
1 ATGAAAACCCCAAAGTAAAGGTATGTTTTTAGAATT-TTCATAAATATAAGGGAGTTTGGAAAAT
* *
11998137 GCTTTGATATTAAAAGTTTCCATTTTAATCAAAAAATGAATTAATTTGCATTTTCAAAAAAGAAA
65 GTTTTGATATTAAAAGTTTTCATTTTAAT-AAAAAATGAATTAATTTGCATTTTC---AAA-AAA
*
11998202 AAGAGATTTTTGTGGAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAGGATCTT
125 ATGAGATTTTTGTGGAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAGGATC-T
* * * *
11998267 TTTCTCAAAATTTAAGGATAAGATT-TGATTAATTTGTACTGATTTTAAAAATAGACATTGTGGA
189 TTTCTCAAAATTTAAGGATAACATTCAG-TTAATTTATACTGATTTTAAAAATAGACGTTGT-GA
* *
11998331 GGTGCTAATCATTCTCCACGTATAAACAAACTATCGAACCCATCTTTGATTTCAAAGACCAAAAC
252 GGTACTAATCATTCTCCAC--ATAAACAAACTATTGAACCCATCTTTGATTTCAAAGACCAAAAC
* *
11998396 TATCTTATGATAATCCTTAAACTCAC-TTTTGGTTTTATTTAAAGATAAACTTTTATGTGGTGAA
315 TATCTTATAATAATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAAGTGGTGAA
* * *
11998460 CGACACTTACCAAAAAAGATTGGTGGCAACTCTTTATTTTGACTTTCAAATTTTTTTTTTTTTGT
380 CGACACTTACCAAAAAAGATTGGTGACAACTCCTTATTTTGATTTTC-AA----TTTTTTTTTGT
* * * * *
11998525 TTAAAGGACCAAGTTCTTAGGCCCACATATTACGACAACTTAACGACTTTACTGAGGATTTTTTT
440 TTAAGGGATCAAGTTCTTAGGCCCACACATTACGACAACTTGACGACTTTACTGAGGA--ATTTT
* *
11998590 TTAAGAGAATCAGGCCAAAAATTA
503 TT-AGAGAGTCAGGCTAAAAATTA
* * *
11998614 ATGAAAACCCCAAAGTAAATGTGTGTTTTTAGAATTTTGCATAAATAT-AGAGGAGTTTGAAAAA
1 ATGAAAACCCCAAAGTAAAGGTATGTTTTTAGAATTTT-CATAAATATAAG-GGAGTTTGGAAAA
*
11998678 TGTTTTGATTTTAAAAGTTTTCATTTTAATAAAAAATGAATTAATTTGCATTTTCAAAAAAATGA
64 TGTTTTGATATTAAAAGTTTTCATTTTAATAAAAAATGAATTAATTTGCATTTTCAAAAAAATGA
* * * *
11998743 AATTTTTATGGAAATACTTGAAATTCAAAGAATTAATTTTAAATATTAAAGGTAGGATCATTTTC
129 GATTTTTGTGGAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAGGATC-TTTTC
* * * * * *
11998808 TCAAAATTTAAGGATAACATTCAGTTAATTTATACTGGTTTTAAAAACA-AGCGCTATAAGGGTC
193 TCAAAATTTAAGGATAACATTCAGTTAATTTATACTGATTTTAAAAATAGA-CGTTGTGA-GGTA
* * * * * *
11998872 CTAATCTTTCTACGCACATAAATAAACTCTTGAACCTATCTTTGATTTCAAAGACCAAAACCATT
256 CTAATCATTCT-C-CACATAAACAAACTATTGAACCCATCTTTGATTTCAAAGACCAAAACTATC
* *
11998937 TTATAATAATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAGGTGATG--CGCA
319 TTATAATAATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAAGTGGTGAACG-A
* * * *
11999000 CACTTATCC-AAAAAGATTGATGACAACTCCTTATTTTGATTTTTCAAGTTTTTTTTTATCTAGG
383 CACTTA-CCAAAAAAGATTGGTGACAACTCCTTATTTTGA-TTTTCAA-TTTTTTTTTGTTTAAG
* * * * *
11999064 GGATCAAGTTCATAGACCCACACATTATGACAACTTGACAACTTTACTGA-GACTTTTTTAGAGA
445 GGATCAAGTTCTTAGGCCCACACATTACGACAACTTGACGACTTTACTGAGGAATTTTTTAGAGA
11999128 GTCAGGCTAAAAATTA
510 GTCAGGCTAAAAATTA
11999144 ATGA
1 ATGA
11999148 CAAGTTATCC
Statistics
Matches: 932, Mismatches: 106, Indels: 75
0.84 0.10 0.07
Matches are distributed among these distances:
530 67 0.07
531 72 0.08
532 77 0.08
533 190 0.20
534 68 0.07
536 4 0.00
537 223 0.24
538 95 0.10
539 7 0.01
540 8 0.01
541 78 0.08
542 43 0.05
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (525 bp):
ATGAAAACCCCAAAGTAAAGGTATGTTTTTAGAATTTTCATAAATATAAGGGAGTTTGGAAAATG
TTTTGATATTAAAAGTTTTCATTTTAATAAAAAATGAATTAATTTGCATTTTCAAAAAAATGAGA
TTTTTGTGGAAATAATTGAAATTCAAAGAATTAATTTTAAATATTAAAGCTAGGATCTTTTCTCA
AAATTTAAGGATAACATTCAGTTAATTTATACTGATTTTAAAAATAGACGTTGTGAGGTACTAAT
CATTCTCCACATAAACAAACTATTGAACCCATCTTTGATTTCAAAGACCAAAACTATCTTATAAT
AATCCTTAAACTCACTTTTTGGTTTTATTTAAAGATAAACTTTTAAGTGGTGAACGACACTTACC
AAAAAAGATTGGTGACAACTCCTTATTTTGATTTTCAATTTTTTTTTGTTTAAGGGATCAAGTTC
TTAGGCCCACACATTACGACAACTTGACGACTTTACTGAGGAATTTTTTAGAGAGTCAGGCTAAA
AATTA
Found at i:12001273 original size:12 final size:11
Alignment explanation
Indices: 12001240--12001319 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 11
12001230 TTTGGAAGGG
*
12001240 AAAGAAAATGA
1 AAAGAAAAAGA
12001251 AACA-AATAAAGA
1 AA-AGAA-AAAGA
12001263 AAAGTAAAAAGA
1 AAAG-AAAAAGA
*
12001275 AAA-ACAAAAAA
1 AAAGA-AAAAGA
12001286 AAAG-AAAA-A
1 AAAGAAAAAGA
**
12001295 AAAGAAAGGGA
1 AAAGAAAAAGA
*
12001306 AAGGAAAAAGA
1 AAAGAAAAAGA
12001317 AAA
1 AAA
12001320 AAGATGATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
9 5 0.09
10 7 0.13
11 24 0.45
12 15 0.28
13 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:12004271 original size:33 final size:33
Alignment explanation
Indices: 12004214--12004277 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
12004204 TTTCCTTCGG
*
12004214 TAGTAATATCCGAAGTCATCTACATTCACTCGA
1 TAGTAATATCCAAAGTCATCTACATTCACTCGA
* * * *
12004247 TAGTGATATCCAAAGTTATTTACATTTACTC
1 TAGTAATATCCAAAGTCATCTACATTCACTC
12004278 TGTGATGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (33 bp):
TAGTAATATCCAAAGTCATCTACATTCACTCGA
Found at i:12006657 original size:13 final size:13
Alignment explanation
Indices: 12006641--12006927 Score: 100
Period size: 13 Copynumber: 21.9 Consensus size: 13
12006631 TTATTTTATG
*
12006641 AAACCTTAAATCT
1 AAACCTTAAACCT
*
12006654 AAACCCTAAACC-
1 AAACCTTAAACCT
* *
12006666 AAATCC-AAAATCT
1 AAA-CCTTAAACCT
*
12006679 AAAACCCTAAACCCT
1 -AAACCTTAAA-CCT
*
12006694 AAATCC-TAAGCCCT
1 AAA-CCTTAA-ACCT
*
12006708 AAATCTTAAACCCT
1 AAACCTTAAA-CCT
12006722 AAACCTTAAAACC-
1 AAACCTT-AAACCT
*
12006735 AAACCTTAAATCAT
1 AAACCTTAAA-CCT
*
12006749 AAACC-TAAAACT
1 AAACCTTAAACCT
* *
12006761 AAAACATAAACCT
1 AAACCTTAAACCT
12006774 AAACAC-TAAACCT
1 AAAC-CTTAAACCT
*
12006787 AAACCTTAAAAC-
1 AAACCTTAAACCT
** *
12006799 ATAACCCCACACCGT
1 A-AACCTTAAACC-T
* *
12006814 AAATC-TAAATCT
1 AAACCTTAAACCT
*
12006826 AAACC-TAAACTT
1 AAACCTTAAACCT
12006838 AAA-CTTAAACCT
1 AAACCTTAAACCT
*
12006850 ACAAAC-T-AACCTT
1 A-AACCTTAAACC-T
* *
12006863 AGA-CTCTAAACCA
1 AAACCT-TAAACCT
*
12006876 AAACCTTAACCCT
1 AAACCTTAAACCT
*
12006889 AAACCATAAAACCAT
1 AAACC-TTAAACC-T
*
12006904 AAACCCTAATA--T
1 AAACCTTAA-ACCT
12006916 AAACCTTAAACC
1 AAACCTTAAACC
12006928 AACCCCAAAC
Statistics
Matches: 204, Mismatches: 39, Indels: 62
0.67 0.13 0.20
Matches are distributed among these distances:
11 3 0.01
12 51 0.25
13 80 0.39
14 55 0.27
15 15 0.07
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (13 bp):
AAACCTTAAACCT
Found at i:12006731 original size:21 final size:20
Alignment explanation
Indices: 12006641--12006789 Score: 72
Period size: 20 Copynumber: 7.5 Consensus size: 20
12006631 TTATTTTATG
*
12006641 AAACCTTAAATCTAAACCCT
1 AAACCCTAAATCTAAACCCT
* **
12006661 AAA-CC-AAATCCAAAATCT
1 AAACCCTAAATCTAAACCCT
* *
12006679 AAAACCCTAAACCCTAAATCCT
1 -AAACCCTAAA-TCTAAACCCT
*
12006701 AAGCCCTAAATCTTAAACCCT
1 AAACCCTAAATC-TAAACCCT
* * * *
12006722 AAACCTTAAAACCAAACCTT
1 AAACCCTAAATCTAAACCCT
* * * *
12006742 AAATCATAAACCTAAA-ACT
1 AAACCCTAAATCTAAACCCT
* * * *
12006761 AAAACATAAACCTAAACACT
1 AAACCCTAAATCTAAACCCT
12006781 AAA-CCTAAA
1 AAACCCTAAA
12006790 CCTTAAAACA
Statistics
Matches: 99, Mismatches: 24, Indels: 13
0.73 0.18 0.10
Matches are distributed among these distances:
18 10 0.10
19 25 0.25
20 30 0.30
21 28 0.28
22 6 0.06
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (20 bp):
AAACCCTAAATCTAAACCCT
Found at i:12006763 original size:19 final size:18
Alignment explanation
Indices: 12006741--12006858 Score: 78
Period size: 19 Copynumber: 6.2 Consensus size: 18
12006731 AACCAAACCT
12006741 TAAATCATAAACCTAAAAC
1 TAAA-CATAAACCTAAAAC
12006760 TAAAACATAAACCTAAACAC
1 T-AAACATAAACCTAAA-AC
*
12006780 TAAACCTAAACCTTAAAAC
1 TAAACATAAACC-TAAAAC
* ** * *
12006799 ATAACCCCACACCGTAAATC
1 -TAAACATAAACC-TAAAAC
12006819 TAAATC-TAAACCT-AAAC
1 TAAA-CATAAACCTAAAAC
*
12006836 TTAAACTTAAACCTACAAAC
1 -TAAACATAAACCTA-AAAC
12006856 TAA
1 TAA
12006859 CCTTAGACTC
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.05
18 12 0.15
19 35 0.44
20 29 0.36
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.20
Consensus pattern (18 bp):
TAAACATAAACCTAAAAC
Found at i:12006790 original size:6 final size:6
Alignment explanation
Indices: 12006641--12006908 Score: 101
Period size: 7 Copynumber: 40.8 Consensus size: 6
12006631 TTATTTTATG
* * *
12006641 AAACCTT AAATCT AAACCCT AAACC- AAATCCA AAATCT AAAACCCT AAACCCT
1 AAACC-T AAACCT AAA-CCT AAACCT AAA-CCT AAACCT -AAA-CCT AAA-CCT
* *
12006694 AAATCCT AAGCCCT AAATCTT AAACCCT AAACCTT AAAACC- AAACCTT
1 AAA-CCT AA-ACCT AAA-CCT AAA-CCT AAACC-T -AAACCT AAACC-T
* * *
12006742 AAATCAT AAACCT AAAACT AAAACAT AAACCT AAACACT AAACCT AAACCTT
1 AAA-CCT AAACCT AAACCT -AAACCT AAACCT AAAC-CT AAACCT AAACC-T
* * * * * * * *
12006794 AAAACAT AACCCC ACACCGT AAATCT AAATCT AAACCT AAACTT AAACTT
1 -AAACCT AAACCT AAACC-T AAACCT AAACCT AAACCT AAACCT AAACCT
* * * *
12006844 AAACCT ACAAACT -AACCTT AGACTCT AAACCA AAACCTT AACCCT AAACCAT
1 AAACCT A-AACCT AAACC-T AAAC-CT AAACCT AAACC-T AAACCT AAACC-T
12006896 AAAACCAT AAACC
1 -AAACC-T AAACC
12006909 CTAATATAAA
Statistics
Matches: 200, Mismatches: 37, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
5 11 0.05
6 81 0.41
7 88 0.44
8 20 0.10
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (6 bp):
AAACCT
Found at i:12006892 original size:19 final size:20
Alignment explanation
Indices: 12006857--12006894 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12006847 CCTACAAACT
*
12006857 AACCTTAGACTCTAAACCAA
1 AACCTTAGACCCTAAACCAA
12006877 AACCTTA-ACCCTAAACCA
1 AACCTTAGACCCTAAACCA
12006895 TAAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18
Consensus pattern (20 bp):
AACCTTAGACCCTAAACCAA
Found at i:12011412 original size:17 final size:17
Alignment explanation
Indices: 12011390--12011436 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
12011380 CATTCTGTGG
12011390 TTTCTGGGCTTGTTCAT
1 TTTCTGGGCTTGTTCAT
***
12011407 TTTCT-GGCTTGTGGGT
1 TTTCTGGGCTTGTTCAT
12011423 TTTCTGGG-TTGTTC
1 TTTCTGGGCTTGTTC
12011437 GTCTGGTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.02, C:0.15, G:0.30, T:0.53
Consensus pattern (17 bp):
TTTCTGGGCTTGTTCAT
Found at i:12011926 original size:27 final size:27
Alignment explanation
Indices: 12011896--12011971 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
12011886 ATGTTTTTGC
12011896 ATGAATAATTATAATATATTTATTTAT
1 ATGAATAATTATAATATATTTATTTAT
* *
12011923 ATGAATAATTATAATATAATTATTTTT
1 ATGAATAATTATAATATATTTATTTAT
* *
12011950 ACG-ATTA-T-TAATATATTTATTT
1 ATGAATAATTATAATATATTTATTT
12011972 GTGTGATTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
24 13 0.30
25 1 0.02
26 3 0.07
27 27 0.61
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATGAATAATTATAATATATTTATTTAT
Found at i:12011979 original size:24 final size:24
Alignment explanation
Indices: 12011903--12011971 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
12011893 TGCATGAATA
12011903 ATTA-TAATATATTTATTTATATG
1 ATTATTAATATATTTATTTATATG
* * * *
12011926 AATAATTATAATATAATTATTTTTACG
1 -ATTA-T-TAATATATTTATTTATATG
12011953 ATTATTAATATATTTATTT
1 ATTATTAATATATTTATTT
12011972 GTGTGATTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
24 16 0.44
25 1 0.03
26 3 0.08
27 16 0.44
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (24 bp):
ATTATTAATATATTTATTTATATG
Found at i:12012006 original size:15 final size:16
Alignment explanation
Indices: 12011978--12012007 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12011968 ATTTGTGTGA
12011978 TTGCATGAATAATTAG
1 TTGCATGAATAATTAG
12011994 TTGCATG-ATAATTA
1 TTGCATGAATAATTA
12012008 ATGTATTTGC
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:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (16 bp):
TTGCATGAATAATTAG
Done.