Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 148 of 284
Found at i:49583759 original size:55 final size:53
Alignment explanation
Indices: 49583569--49583823 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
49583559 ACACGGGTAC
* * ** *
49583569 CTTACCATTGCCATGACTTTTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
49583618 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
49583671 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATC-CTTGCCTTAT-G-AA
* *
49583726 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* ** * *
49583779 CCTTACCAATTGTCATCCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
49583824 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 1 0.01
53 48 0.28
54 10 0.06
55 74 0.43
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:49583760 original size:108 final size:110
Alignment explanation
Indices: 49583616--49583816 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
49583606 ATCCTTTTGA
*
49583616 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
*
49583679 -TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
65 TTGCCATCCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
* * *
49583724 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
*
49583789 TGTCATCCCTTGGCATGGTCTTACATGG
66 TGCCATCCCTTGGCATGGTCTTACATGG
49583817 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATCCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
Found at i:49588268 original size:53 final size:53
Alignment explanation
Indices: 49588175--49588348 Score: 180
Period size: 53 Copynumber: 3.3 Consensus size: 53
49588165 ATGTAAGACC
* * * *
49588175 GACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAA
1 GACATGGCAATGGTAAGTT-C-ATAAGGC-AAGGATACCATGTAAGACCATGACAA
* * * *
49588230 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAA
1 GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
*
49588283 GACATGGCAATGGTAAGTT--TCAA---AAGGATACCACGTAAGACCATGACAA
1 GACATGGCAATGGTAAGTTCAT-AAGGCAAGGATACCATGTAAGACCATGACAA
*
49588332 GTCATGGCAATGGTAAG
1 GACATGGCAATGGTAAG
49588349 GTACCCGTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
49 40 0.38
51 1 0.01
52 6 0.06
53 42 0.40
54 1 0.01
55 16 0.15
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GACATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAA
Found at i:49589821 original size:153 final size:153
Alignment explanation
Indices: 49589543--49589848 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
49589533 TATTTATTTT
49589543 ATTATTTTAATTTTTATAGCATGATTGAGTGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGT
1 ATTATTTTAATTTTTATAGCATGATTGAGTGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGT
49589608 TTGAATGGTCAATTTGATAAAAAGTACTAAATCGCGTAAAGCGTAAAACTTGAGTTCTAATAGCT
66 TTGAATGGTCAATTTGATAAAAAGTACTAAATCGCGTAAAGCGTAAAACTTGAGTTCTAATAGCT
49589673 CAAGGTGTCTAATAGCTATAGAA
131 CAAGGTGTCTAATAGCTATAGAA
49589696 ATTATTTTAATTTTTATAGCATGATTGAGTGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGT
1 ATTATTTTAATTTTTATAGCATGATTGAGTGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGT
49589761 TTGAATGGTCAATTTGATAAAAAGTACTAAATCGCGTAAAGCGTAAAACTTGAGTTCTAATAGCT
66 TTGAATGGTCAATTTGATAAAAAGTACTAAATCGCGTAAAGCGTAAAACTTGAGTTCTAATAGCT
49589826 CAAGGTGTCTAATAGCTATAGAA
131 CAAGGTGTCTAATAGCTATAGAA
49589849 CTTTAAAGTA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (153 bp):
ATTATTTTAATTTTTATAGCATGATTGAGTGATTGTGTGAAATTTTCGTTAAGAAATTTTATCGT
TTGAATGGTCAATTTGATAAAAAGTACTAAATCGCGTAAAGCGTAAAACTTGAGTTCTAATAGCT
CAAGGTGTCTAATAGCTATAGAA
Found at i:49590247 original size:20 final size:21
Alignment explanation
Indices: 49590224--49590265 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49590214 TATGTATGAG
49590224 TTTTGAA-GCTTCTTAATAGA
1 TTTTGAATGCTTCTTAATAGA
* *
49590244 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTCTTAATAGA
49590265 T
1 T
49590266 ATACAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTTGAATGCTTCTTAATAGA
Found at i:49595582 original size:22 final size:23
Alignment explanation
Indices: 49595535--49595582 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49595525 TTTTTTATTA
*
49595535 TTTTTTAAGAATTCTAATTAGTT
1 TTTTTTAAGAATTCTAATAAGTT
*
49595558 TTTTTTAA-AATTTTAAATAAGTT
1 TTTTTTAAGAATTCT-AATAAGTT
49595581 TT
1 TT
49595583 ATTAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTTTTAAGAATTCTAATAAGTT
Found at i:49595616 original size:10 final size:9
Alignment explanation
Indices: 49595598--49595665 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
49595588 TTTTAGAATT
49595598 TTTTAATAA
1 TTTTAATAA
*
49595607 GTTTATATAA
1 TTTTA-ATAA
49595617 TTTTAATAA
1 TTTTAATAA
49595626 TTTTAAT-A
1 TTTTAATAA
*
49595634 TTTT-CTAA
1 TTTTAATAA
*
49595642 TATTTAATATT
1 T-TTTAATA-A
*
49595653 TTTTTATAA
1 TTTTAATAA
49595662 TTTT
1 TTTT
49595666 TCAAATTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
7 1 0.02
8 7 0.15
9 22 0.47
10 16 0.34
11 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTAATAA
Found at i:49595620 original size:19 final size:18
Alignment explanation
Indices: 49595598--49595654 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
49595588 TTTTAGAATT
49595598 TTTTAATAAGTTTATATAA
1 TTTTAATAAGTTTA-ATAA
* *
49595617 TTTTAATAATTTTAATAT
1 TTTTAATAAGTTTAATAA
49595635 TTTCTAAT-A-TTTAAT-A
1 TTT-TAATAAGTTTAATAA
49595651 TTTT
1 TTTT
49595655 TTTATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 6 0.18
18 7 0.21
19 17 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTAATAAGTTTAATAA
Found at i:49595620 original size:29 final size:28
Alignment explanation
Indices: 49595560--49595631 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
49595550 AATTAGTTTT
*
49595560 TTTTAAAATTTTAAATAAGTTTTATTAG
1 TTTTAAAATTTTAAATAAGTTTTATTAA
* *
49595588 TTTTAGAATTTTTTAATAAG-TTTATATAA
1 TTTTA-AAATTTTAAATAAGTTTTAT-TAA
49595617 TTTTAATAATTTTAA
1 TTTTAA-AATTTTAA
49595632 TATTTTCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTTAAAATTTTAAATAAGTTTTATTAA
Found at i:49595629 original size:28 final size:27
Alignment explanation
Indices: 49595478--49595655 Score: 86
Period size: 28 Copynumber: 6.5 Consensus size: 27
49595468 TTTATGATTT
*
49595478 TTTTAATAATTTTTATAAGTTTATATCAA
1 TTTTAATAATTTTAATAAGTTT-TAT-AA
* * *
49595507 TTTT-ATTATTTTAATAATTTTTTTATTATT
1 TTTTAATAATTTTAATAA--GTTTTA-TA-A
* * *
49595537 TTTTAAGAATTCTAATTAG-TTT-T--
1 TTTTAATAATTTTAATAAGTTTTATAA
*
49595560 TTTTAA-AATTTTAAATAAGTTTTATTAG
1 TTTTAATAATTTT-AATAAGTTTTA-TAA
*
49595588 TTTTAGA-ATTTTTTAATAAGTTTATATAA
1 TTTTA-ATA-ATTTTAATAAGTTT-TATAA
*
49595617 TTTTAATAATTTTAAT-A-TTTTCTAA
1 TTTTAATAATTTTAATAAGTTTTATAA
*
49595642 TATTTAATATTTTT
1 T-TTTAATAATTTT
49595656 TTATAATTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 35
0.70 0.10 0.21
Matches are distributed among these distances:
22 5 0.04
23 11 0.09
24 3 0.03
25 5 0.04
26 16 0.14
27 1 0.01
28 27 0.23
29 26 0.22
30 14 0.12
31 9 0.08
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTAATAATTTTAATAAGTTTTATAA
Found at i:49595637 original size:38 final size:39
Alignment explanation
Indices: 49595558--49595643 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 39
49595548 CTAATTAGTT
* * *
49595558 TTTTTTAA-AATTTTAAATAAGTTTTATTAGTTTTAGAA
1 TTTTTTAATAAGTTTAAATAAGTTTTAATAATTTTAGAA
*
49595596 TTTTTTAATAAGTTTATATAA-TTTTAATAATTTTA-ATA
1 TTTTTTAATAAGTTTAAATAAGTTTTAATAATTTTAGA-A
*
49595634 TTTTCTAATA
1 TTTTTTAATA
49595644 TTTAATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 1 0.02
38 30 0.73
39 10 0.24
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (39 bp):
TTTTTTAATAAGTTTAAATAAGTTTTAATAATTTTAGAA
Found at i:49595647 original size:17 final size:16
Alignment explanation
Indices: 49595623--49595654 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
49595613 ATAATTTTAA
49595623 TAATTTTAATATTTTC
1 TAATTTTAATATTTTC
49595639 TAATATTTAATATTTT
1 TAAT-TTTAATATTTT
49595655 TTTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTAATATTTTC
Found at i:49595664 original size:11 final size:11
Alignment explanation
Indices: 49595650--49595703 Score: 76
Period size: 11 Copynumber: 5.1 Consensus size: 11
49595640 AATATTTAAT
49595650 ATTTTTTTATA
1 ATTTTTTTATA
*
49595661 A-TTTTTCA-A
1 ATTTTTTTATA
*
49595670 ATTGTTTTATA
1 ATTTTTTTATA
49595681 ATTTTTTTATA
1 ATTTTTTTATA
49595692 ATTTTTTTATA
1 ATTTTTTTATA
49595703 A
1 A
49595704 AAAAAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 2 0.05
10 11 0.30
11 24 0.65
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:49595696 original size:9 final size:9
Alignment explanation
Indices: 49595559--49595697 Score: 50
Period size: 9 Copynumber: 14.6 Consensus size: 9
49595549 TAATTAGTTT
*
49595559 TTTTTAAAA
1 TTTTTATAA
*
49595568 TTTTAAATAA
1 TTTT-TATAA
* *
49595578 GTTTTATTA
1 TTTTTATAA
* *
49595587 GTTTTAGAA
1 TTTTTATAA
49595596 TTTTTTAATAA
1 -TTTTT-ATAA
*
49595607 GTTTATATAA
1 -TTTTTATAA
*
49595617 TTTTAATAA
1 TTTTTATAA
*
49595626 TTTTAAT-A
1 TTTTTATAA
*
49595634 -TTTTCTAA
1 TTTTTATAA
* *
49595642 TATTTAATATT
1 T-TTTTATA-A
49595653 TTTTTATAA
1 TTTTTATAA
49595662 TTTTTCA-AA
1 TTTTT-ATAA
49595671 TTGTTTTATAA
1 -T-TTTTATAA
49595682 TTTTTTTATAA
1 --TTTTTATAA
49595693 TTTTT
1 TTTTT
49595698 TTATAAAAAA
Statistics
Matches: 98, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 40 0.41
10 28 0.29
11 22 0.22
12 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:49595696 original size:10 final size:10
Alignment explanation
Indices: 49595588--49595703 Score: 64
Period size: 10 Copynumber: 11.8 Consensus size: 10
49595578 GTTTTATTAG
*
49595588 TTTTAGAATT
1 TTTTATAATT
*
49595598 TTTTAATAAGT
1 TTTT-ATAATT
*
49595609 TTATATAA-T
1 TTTTATAATT
*
49595618 TTTAATAA--
1 TTTTATAATT
*
49595626 -TTT-TAATA
1 TTTTATAATT
* *
49595634 TTTTCTAATA
1 TTTTATAATT
* *
49595644 TTTAATATTT
1 TTTTATAATT
49595654 TTTTATAATT
1 TTTTATAATT
*
49595664 TTTCA-AATT
1 TTTTATAATT
49595673 GTTTTATAATTT
1 -TTTTATAA-TT
49595685 TTTTATAATTT
1 TTTTATAA-TT
49595696 TTTTATAA
1 TTTTATAA
49595704 AAAAAGTATT
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
6 3 0.04
7 2 0.02
9 14 0.17
10 35 0.42
11 28 0.33
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:49602164 original size:14 final size:14
Alignment explanation
Indices: 49602145--49602178 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49602135 GCATTGGAGG
*
49602145 AATGGGCAAATTGA
1 AATGGGCAAATTAA
*
49602159 AATGGGCATATTAA
1 AATGGGCAAATTAA
49602173 AATGGG
1 AATGGG
49602179 AATTCAAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (14 bp):
AATGGGCAAATTAA
Found at i:49602561 original size:9 final size:9
Alignment explanation
Indices: 49602547--49602622 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
49602537 ATAAGTATAA
49602547 AATTAACCG
1 AATTAACCG
*
49602556 AATTAATCG
1 AATTAACCG
49602565 AATTAACCG
1 AATTAACCG
*
49602574 AATTACCCG
1 AATTAACCG
*
49602583 AATTACCCG
1 AATTAACCG
**
49602592 AATTGCCCG
1 AATTAACCG
*
49602601 AATTACCCG
1 AATTAACCG
*
49602610 AATTAATCG
1 AATTAACCG
49602619 AATT
1 AATT
49602623 CTTTATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:49602577 original size:27 final size:27
Alignment explanation
Indices: 49602547--49602622 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
49602537 ATAAGTATAA
*
49602547 AATTAACCGAATTAATCGAATTAACCG
1 AATTACCCGAATTAATCGAATTAACCG
** **
49602574 AATTACCCGAATTACCCGAATTGCCCG
1 AATTACCCGAATTAATCGAATTAACCG
49602601 AATTACCCGAATTAATCGAATT
1 AATTACCCGAATTAATCGAATT
49602623 CTTTATATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (27 bp):
AATTACCCGAATTAATCGAATTAACCG
Found at i:49602658 original size:5 final size:6
Alignment explanation
Indices: 49602643--49602683 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
49602633 AATTATATGG
*
49602643 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
49602684 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:49609437 original size:46 final size:48
Alignment explanation
Indices: 49609362--49609536 Score: 216
Period size: 46 Copynumber: 3.7 Consensus size: 48
49609352 GTAAGGAGCT
* * *
49609362 GATGCCATGTGCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTAGCC
* * **
49609410 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTTATCTCAAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTAGCC
* * *
49609456 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCGTAGCC
49609504 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
49609537 ACACACAAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 41 0.38
47 39 0.36
48 28 0.26
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTAGCC
Found at i:49609523 original size:94 final size:94
Alignment explanation
Indices: 49609362--49609536 Score: 271
Period size: 94 Copynumber: 1.9 Consensus size: 94
49609352 GTAAGGAGCT
* *
49609362 GATGCCATGTGCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACA
49609427 TGTCTTACACTAGCTCTTATCTCAAAGCC
66 TGTCTTACACTAGCTCTTATCTCAAAGCC
** * * *
49609456 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAAAC
49609520 ATGTCTTACACTAGCTC
65 ATGTCTTACACTAGCTC
49609537 ACACACAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 72 0.99
95 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACA
TGTCTTACACTAGCTCTTATCTCAAAGCC
Found at i:49613940 original size:21 final size:21
Alignment explanation
Indices: 49613902--49613942 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49613892 CCCAATGTGA
**
49613902 GGATTCTCATTGTTATCATTT
1 GGATTCTCATTGAGATCATTT
*
49613923 GGATTGTCATTGAGATCATT
1 GGATTCTCATTGAGATCATT
49613943 CTTTTTTTCC
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:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (21 bp):
GGATTCTCATTGAGATCATTT
Found at i:49619202 original size:27 final size:27
Alignment explanation
Indices: 49619172--49619349 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49619162 ATATTGAGTC
* * * *
49619172 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49619199 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49619226 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49619254 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49619281 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49619308 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49619335 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49619350 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49619311 original size:82 final size:81
Alignment explanation
Indices: 49619193--49619348 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49619183 TGCTATATAA
* *
49619193 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49619258 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49619275 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49619339 CACTTAGTGC
65 CACTTAGTGC
49619349 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49631466 original size:66 final size:67
Alignment explanation
Indices: 49631337--49631466 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
49631327 GGGATGTATC
*
49631337 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
49631402 AGGACA
62 AGGACA
* *
49631408 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
49631467 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:49635924 original size:43 final size:43
Alignment explanation
Indices: 49635857--49636020 Score: 203
Period size: 42 Copynumber: 3.9 Consensus size: 43
49635847 TAAGATGCCA
* *
49635857 ATGCCATATCCCAGA-TATGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
* *
49635899 ATGCCGATAACCCA-ACTATGGTCTTACACGATG-TCTCATATCG
1 ATGCC-ATATCCCAGACTATGGTCTTACACGA-GATCACATATCG
* *
49635942 ATGCCATGTCCCAGAC-ATGGTCTTACACGAAATCACATATCG
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
* *
49635984 ATGCCATATCTCAGA-TATGGTCTTACACGAAATCACA
1 ATGCCATATCCCAGACTATGGTCTTACACGAGATCACA
49636021 CATAACCCTG
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
42 69 0.65
43 36 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCATATCCCAGACTATGGTCTTACACGAGATCACATATCG
Found at i:49635966 original size:85 final size:84
Alignment explanation
Indices: 49635857--49636013 Score: 226
Period size: 85 Copynumber: 1.9 Consensus size: 84
49635847 TAAGATGCCA
* * **
49635857 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCGATAACCCA-ACTATGGT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCC-ATAACCCAGA-TATGGT
49635921 CTTACACGATGTCTCATATCG
64 CTTACACGATGTCTCATATCG
* * *
49635942 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATATCTCAGATATGGTCT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATAACCCAGATATGGTCT
49636007 TACACGA
66 TACACGA
49636014 AATCACACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
84 21 0.33
85 43 0.67
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCCATAACCCAGATATGGTCT
TACACGATGTCTCATATCG
Found at i:49638547 original size:21 final size:21
Alignment explanation
Indices: 49638523--49638562 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49638513 CACTTAACAC
49638523 AGGGAAACACGCCCATGTGGA
1 AGGGAAACACGCCCATGTGGA
* * *
49638544 AGGGTAACATGCCCGTGTG
1 AGGGAAACACGCCCATGTG
49638563 ACCATTTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGGAAACACGCCCATGTGGA
Found at i:49639785 original size:47 final size:47
Alignment explanation
Indices: 49639697--49639960 Score: 145
Period size: 46 Copynumber: 5.6 Consensus size: 47
49639687 GTAAAGGGCC
* * **
49639697 GATGCCATGTCCCAAACATGGTCTTACATTGGCTCATATCTCAAGTAG-A
1 GATG-CATGTCCCAGACATGGTCTTACACTAACTCATATCTC--GTAGCA
* *
49639746 TATG-ATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTCGTAGCA
* ** * ** *
49639792 GGTGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGTA-GCA
* * * * *
49639838 GATGCATGTCCCAAACAT-GTCTTACACTAGCTC-TCGTCTC-AATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTCGTA-GCA
** * * *
49639884 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-GTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAACTCAT-AT-CTCGTAGCA
*
49639932 GATGCATGTCCCAGACCT-GTCTTACACTA
1 GATGCATGTCCCAGACATGGTCTTACACTA
49639961 GCCTACAAAC
Statistics
Matches: 178, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.03
46 76 0.43
47 69 0.39
48 24 0.13
49 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGTAGCA
Found at i:49639832 original size:46 final size:47
Alignment explanation
Indices: 49639750--49639962 Score: 231
Period size: 46 Copynumber: 4.6 Consensus size: 47
49639740 AGTAGATATG
* * *
49639750 ATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTA-GCCGGTGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAGGCCGATGC
* *
49639797 ATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTAGGCCGATGC
* * * *
49639843 ATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC-AATGCCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGGCCGATG-C
* *
49639890 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAGGCCGATGC
*
49639937 ATGTCCCAGACCTGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
49639963 CTACAAACAA
Statistics
Matches: 143, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
45 2 0.01
46 76 0.53
47 40 0.28
48 24 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGGCCGATGC
Found at i:49639954 original size:140 final size:141
Alignment explanation
Indices: 49639693--49639959 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 141
49639683 GTGGGTAAAG
* * * **
49639693 GGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCATATCTCAAGTAGATATGATGTCCCA
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCAGATACCATGTCCCA
* *
49639758 GACATGGTCTTACACTAACTATCATCTCGTAGCCGGTGCATGTCCCAGACATGTCTTACACTGGC
66 GACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
49639823 TTACGTCTCGA
131 TTACGTCTCGA
* * *
49639834 GGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCC
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCAT-ATCTCAA-GCAGATACCATGTCC
** * * *
49639896 CAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACCTGTCTTACACT
64 CAGACATGGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
49639960 AGCCTACAAA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 79 0.73
141 9 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (141 bp):
GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCAGATACCATGTCCCA
GACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
TTACGTCTCGA
Found at i:49647443 original size:47 final size:48
Alignment explanation
Indices: 49647370--49647594 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 48
49647360 TGGGTAAGGT
**
49647370 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTTCTCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* * * * * **
49647417 GTCTATGCCATGTCCCAGACATGGTCTTATACTGACTATCACCT-TGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCACGTCTCAAG
* * * *
49647465 GCCAATG-CATGTCCCAGAC-TTGTCTTACACTAGCTTACGTCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* * * *
49647511 GACGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
* *
49647557 GCCGATGCCATATCCCAGACATGATCTTACACTGGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
49647595 TCATAATGTG
Statistics
Matches: 144, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
44 4 0.03
45 2 0.01
46 56 0.39
47 58 0.40
48 20 0.14
49 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTCTCAAG
Found at i:49647520 original size:46 final size:46
Alignment explanation
Indices: 49647469--49647638 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
49647459 CTTGTAGCCA
*
49647469 ATGCATGTCCCAGACTTGTCTTACACTAGCT-TACGTCTCAAGGACG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAGGACG
* *
49647515 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGACG
* * * * ** *
49647561 ATGCCATATCCCAGACATGATCTTACACTGGCTCTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCGT-CTCAAGGACG
*
49647609 ATGAATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
49647639 CCATAAACAA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 55 0.51
47 28 0.26
48 23 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGACG
Found at i:49647630 original size:140 final size:141
Alignment explanation
Indices: 49647372--49647638 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 141
49647362 GGTAAGGTGC
* * * * *
49647372 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTTCTCAAGTCTATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGCCGATGCCATATCCCAGAC
* * ** * *
49647437 ATGGTCTTATACTGACTATCACCTTGTAGCCAATGCATGTCCCAGACTTGTCTTACACTAGCTTA
66 ATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGCTTA
49647502 CGTCTCAAGGA
131 CGTCTCAAGGA
49647513 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATATCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-GTCTCAA-GCCGATGCCATATCCCAG
* * * * *
49647575 ACATGATCTTACACTGGCTCTCATAATGTGGCCGATGAATGTCCCAGACATGTCTTACACTAGC
64 ACATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGC
49647639 CCATAAACAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 82 0.76
141 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGCCGATGCCATATCCCAGAC
ATGATCTTACACTGACTATCACAATGTAGCCAATGAATGTCCCAGACATGTCTTACACTAGCTTA
CGTCTCAAGGA
Found at i:49649218 original size:42 final size:42
Alignment explanation
Indices: 49649170--49649283 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 42
49649160 TCGATGCCTC
* * *
49649170 TGTCCCAGACAGGGTCTTACACGAA-ATCAGATATGATGCC-GA
1 TGTCCCAGACATGGTCTTACACGAATATCA-AT-CGAGGCCTGA
* *
49649212 TGTCCCAGACATGGTCTTATACGTAAATATCAATCGAGGCCTGG
1 TGTCCCAGACATGGTCTTACACG--AATATCAATCGAGGCCTGA
49649256 TGTCCCAGACATGGTCTTACACG-ATATC
1 TGTCCCAGACATGGTCTTACACGAATATC
49649284 TCAGATAGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
41 5 0.08
42 21 0.34
43 5 0.08
44 27 0.44
45 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAATATCAATCGAGGCCTGA
Found at i:49651598 original size:29 final size:29
Alignment explanation
Indices: 49651565--49651656 Score: 134
Period size: 29 Copynumber: 3.2 Consensus size: 29
49651555 TAATAGAATA
49651565 AAATTGATACCTTTATGAAAATAGGCACC
1 AAATTGATACCTTTATGAAAATAGGCACC
* *
49651594 AAATTGATACCTTTATGAAAATCGACACC
1 AAATTGATACCTTTATGAAAATAGGCACC
*
49651623 AAATTGATACC-TTATGAAAATCA-GTACC
1 AAATTGATACCTTTATGAAAAT-AGGCACC
49651651 AAATTG
1 AAATTG
49651657 CTTTATTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 19 0.33
29 38 0.67
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (29 bp):
AAATTGATACCTTTATGAAAATAGGCACC
Found at i:49666277 original size:13 final size:13
Alignment explanation
Indices: 49666259--49666284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49666249 AAAAAAATAC
49666259 AATCTGATTCCTA
1 AATCTGATTCCTA
49666272 AATCTGATTCCTA
1 AATCTGATTCCTA
49666285 TTATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AATCTGATTCCTA
Found at i:49670825 original size:42 final size:41
Alignment explanation
Indices: 49670766--49670848 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 41
49670756 AAATATGTAG
*
49670766 GGAAAGGAGCTAACGATCATACAAATCTTCTAAACAACCTA
1 GGAAAGAAGCTAACGATCATACAAATCTTCTAAACAACCTA
* *
49670807 NGGAAAGAAGCTCACGATCATGCAAATCTTCTAAACAACCTA
1 -GGAAAGAAGCTAACGATCATACAAATCTTCTAAACAACCTA
49670849 TATGATCTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.19
Consensus pattern (41 bp):
GGAAAGAAGCTAACGATCATACAAATCTTCTAAACAACCTA
Found at i:49675867 original size:16 final size:16
Alignment explanation
Indices: 49675846--49675877 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49675836 AGTGTTTGGG
49675846 AGACCAATAATTAATC
1 AGACCAATAATTAATC
49675862 AGACCAATAATTAATC
1 AGACCAATAATTAATC
49675878 CTACAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AGACCAATAATTAATC
Found at i:49677443 original size:27 final size:26
Alignment explanation
Indices: 49677376--49677482 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
49677366 AATACTATAT
* *
49677376 ATGTGGAAGTCCGT-AAGGACTATTTGAA
1 ATGTGAAAGTCCGTCAA-GACTATCT--A
* *
49677404 ATGTGGGAAGTCCATCAAGACTATCTA
1 ATGT-GAAAGTCCGTCAAGACTATCTA
* * *
49677431 ATGTGAAAGGTCCGCCAAGGCTATCTT
1 ATGTGAAA-GTCCGTCAAGACTATCTA
* *
49677458 TTGTGGAAGTCCGTCAAGACTATCT
1 ATGTGAAAGTCCGTCAAGACTATCT
49677483 TTTATGGAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 18 0.28
27 25 0.38
28 4 0.06
29 16 0.25
30 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (26 bp):
ATGTGAAAGTCCGTCAAGACTATCTA
Found at i:49677480 original size:26 final size:26
Alignment explanation
Indices: 49677409--49677494 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
49677399 TTGAAATGTG
* **
49677409 GGAAGTCCATCAAGACTATCTAATGT
1 GGAAGTCCGTCAAGACTATCTTTTGT
* * *
49677435 GAAAGGTCCGCCAAGGCTATCTTTTGT
1 GGAA-GTCCGTCAAGACTATCTTTTGT
*
49677462 GGAAGTCCGTCAAGACTATCTTTTAT
1 GGAAGTCCGTCAAGACTATCTTTTGT
49677488 GGAAGTC
1 GGAAGTC
49677495 TGTTAGGACT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 29 0.59
27 20 0.41
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
GGAAGTCCGTCAAGACTATCTTTTGT
Found at i:49677550 original size:27 final size:27
Alignment explanation
Indices: 49677518--49677574 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
49677508 TGAAATACGA
* *
49677518 AAGGTCGATCAAGACTATCTTATGTGG
1 AAGGTCGACCAAGACTATCTTATATGG
* * *
49677545 AAGGTCTACCAGGACTATCTTTTATGG
1 AAGGTCGACCAAGACTATCTTATATGG
49677572 AAG
1 AAG
49677575 ACCATGAGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (27 bp):
AAGGTCGACCAAGACTATCTTATATGG
Found at i:49677573 original size:108 final size:108
Alignment explanation
Indices: 49677379--49677574 Score: 261
Period size: 108 Copynumber: 1.8 Consensus size: 108
49677369 ACTATATATG
** *
49677379 TGGAAGTCCGTAAGGACTATTTGAAATGTGGGAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
1 TGGAAGTCCGTAAGGACTATTTGAAATGACGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
* *
49677444 GCCAAGGCTATCTTTTGTGGAAGTCCGTCAAGACTATCTTTTA
66 ACCAAGGCTATCTTTTATGGAAGTCCGTCAAGACTATCTTTTA
* * * * *
49677487 TGGAAGTCTGTTAGGACTATTTGAAAT-ACGAAAGGTCGATCAAGACTATCTTATGTGGAAGGTC
1 TGGAAGTCCGTAAGGACTATTTGAAATGACGAAA-GTCCATCAAGACTATCTAATGTGAAAGGTC
*
49677551 TACC-AGGACTATCTTTTATGGAAG
65 CACCAAGG-CTATCTTTTATGGAAG
49677575 ACCATGAGGA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 6 0.08
108 69 0.92
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (108 bp):
TGGAAGTCCGTAAGGACTATTTGAAATGACGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
ACCAAGGCTATCTTTTATGGAAGTCCGTCAAGACTATCTTTTA
Found at i:49677597 original size:108 final size:108
Alignment explanation
Indices: 49677379--49677597 Score: 244
Period size: 108 Copynumber: 2.0 Consensus size: 108
49677369 ACTATATATG
** *
49677379 TGGAAGTCCGTAAGGACTATTTGAAATGTGGGAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
1 TGGAAGTCCGTAAGGACTATTTGAAATGACGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
* * * * **
49677444 GCCAAGGCTATCTTTTGTGGAAGTCCGTCAAGACTATCTTTTA
66 ACCAAGGCTATCTTTTATGGAAGACCATCAAGACTATCTAATA
* * * * *
49677487 TGGAAGTCTGTTAGGACTATTTGAAAT-ACGAAAGGTCGATCAAGACTATCTTATGTGGAAGGTC
1 TGGAAGTCCGTAAGGACTATTTGAAATGACGAAA-GTCCATCAAGACTATCTAATGTGAAAGGTC
* * * *
49677551 TACC-AGGACTATCTTTTATGGAAGACCATGAGGATTATCTAATA
65 CACCAAGG-CTATCTTTTATGGAAGACCATCAAGACTATCTAATA
49677595 TGG
1 TGG
49677598 GGAAAGTCCA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
107 6 0.07
108 85 0.93
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (108 bp):
TGGAAGTCCGTAAGGACTATTTGAAATGACGAAAGTCCATCAAGACTATCTAATGTGAAAGGTCC
ACCAAGGCTATCTTTTATGGAAGACCATCAAGACTATCTAATA
Found at i:49682403 original size:22 final size:22
Alignment explanation
Indices: 49682378--49682430 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
49682368 AATCTTGCAG
*
49682378 GCACATAGCCCGAATAACACCA
1 GCACAAAGCCCGAATAACACCA
49682400 GCACAAAGCCCGAATAACACC-
1 GCACAAAGCCCGAATAACACCA
49682421 GACACAAAGC
1 G-CACAAAGC
49682431 TTGCTAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.43, C:0.36, G:0.15, T:0.06
Consensus pattern (22 bp):
GCACAAAGCCCGAATAACACCA
Found at i:49682982 original size:38 final size:38
Alignment explanation
Indices: 49682400--49682971 Score: 664
Period size: 38 Copynumber: 15.1 Consensus size: 38
49682390 AATAACACCA
* * * *
49682400 GCACAAAGCCCGAATAACACCGACACAAAGCTTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
*
49682438 GCACAGAGCCCGAATATCACCAGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
49682476 GCATAGAGCCCGAATAACACCAGCACAAAGCCTGCTAA
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
49682514 GCATAGAGCCCGAATATCACTGGCACACAGCCTGGTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
49682552 GCAAAGAGCCTGAATATCACCGGCACAAAACTTGCT--
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * * * *
49682588 -CATAAAGGCCAAATAACACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* *
49682625 GCACAGAGCCCAAATATCACCGGCACATAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * *
49682663 GCACAAAGCCCTAATATCACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* *
49682701 GCACAGAGCCCAAATATCACCGGCACATAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * *
49682739 GCACAAAGCCCTAATATCACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* *
49682777 GCACAGAGCCCAAATATCACCGGCACATAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * *
49682815 GCACAAAGCCCTAATATCACCTGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * ** * *
49682853 GCACAGAGCCTGAATAACACTAGCACAAACCCTGCAAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* * * *
49682891 GCATAGAGCCCGAATATCACCGGCACACAGCTTGTTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
* **
49682929 GCATAGAGCCTAAATATCACCGGCACAAAGCCTGCTAG
1 GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
49682967 GCACA
1 GCACA
49682972 TGGCCCAAAT
Statistics
Matches: 451, Mismatches: 80, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
35 26 0.06
38 425 0.94
ACGTcount: A:0.35, C:0.32, G:0.20, T:0.14
Consensus pattern (38 bp):
GCACAGAGCCCGAATATCACCGGCACAAAGCCTGCTAG
Found at i:49685341 original size:42 final size:43
Alignment explanation
Indices: 49685234--49685403 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
49685224 TAGGATTCTA
* * **
49685234 ATATATG-TTATCGTGTAAGATCACGTCTTGGATGTTGGCATCG
1 ATATATGATT-TCGTGTAAGACCACGTCTGGGACATTGGCATCG
* * *
49685277 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATATGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCG
* *
49685321 -TATATGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATTG
1 ATATATGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG
* * * * *
49685363 ATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 ATATATGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
49685404 TGTATGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
42 28 0.27
43 46 0.44
44 30 0.29
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
ATATATGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:49685372 original size:43 final size:43
Alignment explanation
Indices: 49685269--49685384 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
49685259 TCTTGGATGT
* *
49685269 TGGCATCGAT-TTGTGATTTACGTGTAAGACCATGTCTGGGACAT
1 TGGCATCGATATT-TGATTT-CGTGTAAGACCCTGTCTGGGACAG
*
49685313 TGGCATCG-TATATGATTTCGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG
* * *
49685355 TGGCATTGATATTTGATTACATGTAAGACC
1 TGGCATCGATATTTGATTTCGTGTAAGACC
49685385 ACGTCTAGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 29 0.46
43 25 0.40
44 9 0.14
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG
Found at i:49689829 original size:64 final size:67
Alignment explanation
Indices: 49689724--49689877 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
49689714 CATCATGTGT
* * * * *
49689724 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
49689786 ATGTAG
62 ATGTAG
* * *
49689792 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
49689857 AG
66 AG
49689859 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
49689878 AACTGGCTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 20 0.27
65 7 0.09
66 4 0.05
67 30 0.41
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:49692245 original size:43 final size:42
Alignment explanation
Indices: 49692167--49692301 Score: 132
Period size: 43 Copynumber: 3.1 Consensus size: 42
49692157 AGCTCGTACA
* * *
49692167 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCTAGACAG-GGTCTTACACGAAATCAAATATCG
*
49692210 ATGCCACTGTCCTAGACAGGGTCCTACACGAAATCAAATA-CG
1 ATGCCA-TGTCCTAGACAGGGTCTTACACGAAATCAAATATCG
* * *
49692252 ACGCCGATGTCCTAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCC-ATGTCCTAGACAGGGTCTTACACG-AAATCA-AATATCG
49692296 ATGCCA
1 ATGCCA
49692302 ACGTCCCAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
42 28 0.36
43 40 0.52
44 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCTAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:49692267 original size:42 final size:44
Alignment explanation
Indices: 49692198--49692288 Score: 125
Period size: 42 Copynumber: 2.1 Consensus size: 44
49692188 TCTTACATGT
*
49692198 AATCAAATATCGATGCCACTGTCCTAGACAGGGTCCTACACG-A
1 AATCAAATATCGACGCCACTGTCCTAGACAGGGTCCTACACGTA
* *
49692241 AATCAAATA-CGACGCCGA-TGTCCTAGACATGGTCTTACACGTA
1 AATCAAATATCGACGCC-ACTGTCCTAGACAGGGTCCTACACGTA
49692284 AATCA
1 AATCA
49692289 TAAGTCGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
AATCAAATATCGACGCCACTGTCCTAGACAGGGTCCTACACGTA
Found at i:49706473 original size:43 final size:42
Alignment explanation
Indices: 49706426--49706517 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
49706416 TCCCAGACGT
* *
49706426 GGTCTTAAATGTAATCAAATATCGATGCC-ACTGTCCTAGGCAG
1 GGTCTTAAATGAAATCAAATA-CGATGCCGA-TGTCCTAGACAG
** *
49706469 GGTCTTTCATGAAATCAAATACGATGCCGATGTCCTAGACAT
1 GGTCTTAAATGAAATCAAATACGATGCCGATGTCCTAGACAG
49706511 GGTCTTA
1 GGTCTTA
49706518 CACGTAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 23 0.55
43 19 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
GGTCTTAAATGAAATCAAATACGATGCCGATGTCCTAGACAG
Found at i:49706553 original size:44 final size:42
Alignment explanation
Indices: 49706407--49706565 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
49706397 AGCTCGTACA
* * *
49706407 ATGCCAACGTCCCAGACGTGGTCTTAAATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
* * * * *
49706450 ATGCC-ACTGTCCTAGGCAGGGTCTTTCATG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
* * *
49706492 ATGCCGATGTCCTAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
*
49706536 ATGCCAACGTCCCAGACATGGTCTTGCACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
49706566 AAAACACATA
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 32 0.34
44 30 0.32
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:49710452 original size:17 final size:18
Alignment explanation
Indices: 49710430--49710465 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
49710420 GGTTTACCCG
49710430 TGTGGGGCCCACA-GGCC
1 TGTGGGGCCCACACGGCC
*
49710447 TGTGGGTCCCACACGGCC
1 TGTGGGGCCCACACGGCC
49710465 T
1 T
49710466 ATTTCGGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.17
Consensus pattern (18 bp):
TGTGGGGCCCACACGGCC
Found at i:49727778 original size:23 final size:23
Alignment explanation
Indices: 49727752--49727927 Score: 203
Period size: 23 Copynumber: 7.7 Consensus size: 23
49727742 CAAAGTGCCA
* * *
49727752 CACTGTAATATAGCCGCAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
49727775 CACTGTAACGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
49727798 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
49727821 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
49727844 CACTG-AGATGTAGCCGAAGTTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
*
49727867 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
49727890 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
49727913 CACTATATTGTAGCC
1 CACTGTAATGTAGCC
49727928 TATAGATTCC
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.02
23 129 0.97
24 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:49742674 original size:53 final size:54
Alignment explanation
Indices: 49742544--49742680 Score: 231
Period size: 54 Copynumber: 2.6 Consensus size: 54
49742534 AATAGTTATC
* * *
49742544 TTACCATATAAGGGTAAAATAGTCATTTTACCATATAAGGGCAAAACAATCATT
1 TTACCACATAAGGGTAAAATAGTCATTTTACCACATAAGGGCAAAACAATAATT
*
49742598 TTACCACATAAGGGTAAATTAGTCATTTTACCACATAAGGGCAAAA-AATAATT
1 TTACCACATAAGGGTAAAATAGTCATTTTACCACATAAGGGCAAAACAATAATT
49742651 TTACCACATAAGGGTAAAATAGTCATTTTA
1 TTACCACATAAGGGTAAAATAGTCATTTTA
49742681 TCGATTAAGG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 35 0.45
54 43 0.55
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (54 bp):
TTACCACATAAGGGTAAAATAGTCATTTTACCACATAAGGGCAAAACAATAATT
Found at i:49742692 original size:27 final size:27
Alignment explanation
Indices: 49742532--49742680 Score: 192
Period size: 27 Copynumber: 5.6 Consensus size: 27
49742522 CACTAGGGGA
* * *
49742532 AAAATAGTTATCTTACCATATAAGGGT
1 AAAATAGTCATTTTACCACATAAGGGT
* *
49742559 AAAATAGTCATTTTACCATATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGT
* *
49742586 AAAACAATCATTTTACCACATAAGGGT
1 AAAATAGTCATTTTACCACATAAGGGT
* *
49742613 AAATTAGTCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGT
* *
49742640 AAAA-AATAATTTTACCACATAAGGGT
1 AAAATAGTCATTTTACCACATAAGGGT
49742666 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
49742681 TCGATTAAGG
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
26 23 0.22
27 81 0.78
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACATAAGGGT
Found at i:49745920 original size:37 final size:38
Alignment explanation
Indices: 49745861--49745971 Score: 174
Period size: 37 Copynumber: 3.0 Consensus size: 38
49745851 AGCTCAGATG
* *
49745861 AAATCTCCACACGAAGTTATCGGGTCTTACCCGA-ACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAGACA
49745898 AAATCTCCACACGTAGTCATCGGGTCTTACCC-AGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAGACA
*
49745935 AAATCTCCACACATAGTCATCGGGTCTTACCCG-GACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAGACA
49745972 TAGTCACCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 68 0.99
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.22
Consensus pattern (38 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAGACA
Found at i:49745982 original size:37 final size:37
Alignment explanation
Indices: 49745861--49745999 Score: 172
Period size: 37 Copynumber: 3.8 Consensus size: 37
49745851 AGCTCAGATG
* *
49745861 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
* *
49745898 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
49745935 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * * * * *
49745972 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACATAGTCATCGGGTCTT
49746000 TAATCCCAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:49746206 original size:46 final size:46
Alignment explanation
Indices: 49746153--49746243 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
49746143 TATATATACA
* * *
49746153 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
49746199 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATAT
49746244 ATACATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:49746281 original size:47 final size:47
Alignment explanation
Indices: 49746217--49746411 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
49746207 ACACGTTTCG
* *
49746217 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
* * *
49746264 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
* * *
49746311 CATTGGCCATTCGGCCTTATCATGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTA-C---CACATATATACATGTTCACATTCATCA
* * * **
49746362 CATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
49746409 CAT
1 CAT
49746412 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 86 0.68
51 40 0.32
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTACCACATATATACATGTTCACATTCATCA
Found at i:49746357 original size:98 final size:94
Alignment explanation
Indices: 49746217--49746411 Score: 291
Period size: 98 Copynumber: 2.0 Consensus size: 94
49746207 ACACGTTTCG
*
49746217 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCAGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTT
* **
49746282 ATCTCATATATGCATGTTCACATTCATCA
66 ATCTCATATATACACATTCACATTCATCA
* * *
49746311 CATTGGCCATTCGGCCTTATCATGCATATATATACAGGTTCACATTCATCACATTTGCCATTCAG
1 CATTAGCCATTCGGCCTTA-C---CACATATATACAGGTTCACATTCATCACATTGGCCATTCAG
49746376 CCTTATCTCATATATACACATTCACATTCATCA
62 CCTTATCTCATATATACACATTCACATTCATCA
49746409 CAT
1 CAT
49746412 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 18 0.20
95 1 0.01
98 71 0.79
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (94 bp):
CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTT
ATCTCATATATACACATTCACATTCATCA
Found at i:49751555 original size:40 final size:39
Alignment explanation
Indices: 49751442--49751670 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 39
49751432 TTCTAACACG
* * * * *
49751442 AGCCTACAGGTCTTT-AACCCGAATTCCATTCCAGCACGA
1 AGCCTGCAGGTCTTTAAACCCGGATACAATTCCAGCA-TA
*
49751481 AGCCTGCAGGTCTTTTTAAACCCAGATACAATTCCAGCATA
1 AGCCTGCAGGTC--TTTAAACCCGGATACAATTCCAGCATA
** *
49751522 TAGCCTGTGGGTCTTTAAACCCGGATACCATTCCAGCATGA
1 -AGCCTGCAGGTCTTTAAACCCGGATACAATTCCAGCAT-A
*
49751563 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCATGA
1 AGCCTGCAGGTCTTTAAACCCGGATACAATTCCAGCAT-A
* *
49751603 AGCCTGTAGGTCTTTAAGCCCGGATACAATTCCAGCATA
1 AGCCTGCAGGTCTTTAAACCCGGATACAATTCCAGCATA
* *
49751642 TAGCCTGCGGGTCTTTAAACACGGATACA
1 -AGCCTGCAGGTCTTTAAACCCGGATACA
49751671 CACATCAAAT
Statistics
Matches: 165, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
39 12 0.07
40 121 0.73
41 5 0.03
42 27 0.16
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AGCCTGCAGGTCTTTAAACCCGGATACAATTCCAGCATA
Found at i:49751616 original size:80 final size:80
Alignment explanation
Indices: 49751449--49751670 Score: 297
Period size: 80 Copynumber: 2.8 Consensus size: 80
49751439 ACGAGCCTAC
* * * *
49751449 AGGTCTTT-AACCCGAATTCCATTCCAGCACGAAGCCTGCAGGTCTTTTTAAACCCAGATACAAT
1 AGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCAGGTC--TTTAAACCCGGATACAAT
49751513 TCCAGCATATAGCCTGT
64 TCCAGCATATAGCCTGT
* *
49751530 GGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCAGGTCTTTAAGCCCGGATACAATTC
1 AGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCAGGTCTTTAAACCCGGATACAATTC
49751595 CAGCATGA-AGCCTGT
66 CAGCAT-ATAGCCTGT
* * * *
49751610 AGGTCTTTAAGCCCGGATACAATTCCAGCAT-ATAGCCTGCGGGTCTTTAAACACGGATACA
1 AGGTCTTTAAACCCGGATACCATTCCAGCATGA-AGCCTGCAGGTCTTTAAACCCGGATACA
49751671 CACATCAAAT
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 1 0.01
80 84 0.67
81 8 0.06
82 33 0.26
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AGGTCTTTAAACCCGGATACCATTCCAGCATGAAGCCTGCAGGTCTTTAAACCCGGATACAATTC
CAGCATATAGCCTGT
Found at i:49751654 original size:120 final size:120
Alignment explanation
Indices: 49751442--49751669 Score: 341
Period size: 120 Copynumber: 1.9 Consensus size: 120
49751432 TTCTAACACG
* *
49751442 AGCCTACAGGTCTTTAACCCGAATTCCATTCCAGCACGAAGCCTGCAGGTCTTTTTAAACCCAGA
1 AGCCTACAGGTCTTTAACCCGAATACAATTCCAGCACGAAGCCTGCAGGTC-TTTTAAACCCAGA
* *
49751507 TACAATTCCAGCATATAGCCTGTGGGTCTTTAAACCCGGATACCATTCCAGCATGA
65 TACAATTCCAGCATATAGCCTGCGGGTCTTTAAACACGGATACCATTCCAGCATGA
* * * * * *
49751563 AGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGTAGGTC-TTTAAGCCCGGA
1 AGCCTACAGGTCTTTAA-CCCGAATACAATTCCAGCACGAAGCCTGCAGGTCTTTTAAACCCAGA
49751627 TACAATTCCAGCATATAGCCTGCGGGTCTTTAAACACGGATAC
65 TACAATTCCAGCATATAGCCTGCGGGTCTTTAAACACGGATAC
49751670 ACACATCAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
120 51 0.53
121 16 0.17
122 29 0.30
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (120 bp):
AGCCTACAGGTCTTTAACCCGAATACAATTCCAGCACGAAGCCTGCAGGTCTTTTAAACCCAGAT
ACAATTCCAGCATATAGCCTGCGGGTCTTTAAACACGGATACCATTCCAGCATGA
Found at i:49764768 original size:22 final size:22
Alignment explanation
Indices: 49764737--49764781 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
49764727 TCTGAGATGA
49764737 TAAACAGTAAGCTCCGAAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
* *
49764759 TAAACGGTAAGCTCCGTAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
49764781 T
1 T
49764782 GAAATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (22 bp):
TAAACAGTAAGCTCCGAAGAGC
Found at i:49766600 original size:17 final size:18
Alignment explanation
Indices: 49766570--49766606 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
49766560 CTTGGCCCAT
49766570 TACAGTAACAGTAAA-AG
1 TACAGTAACAGTAAACAG
49766587 TACAGTAA-ACGTAAACAG
1 TACAGTAACA-GTAAACAG
49766605 TA
1 TA
49766607 TGCAAGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
TACAGTAACAGTAAACAG
Found at i:49779754 original size:18 final size:19
Alignment explanation
Indices: 49779732--49779773 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
49779722 TATCTCATGT
49779732 ATCATAAT-ATCCATGTAA
1 ATCATAATAATCCATGTAA
* *
49779750 TTCAT-ATAATTCATGTAA
1 ATCATAATAATCCATGTAA
49779768 ATCATA
1 ATCATA
49779774 TAGCTCTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (19 bp):
ATCATAATAATCCATGTAA
Found at i:49779990 original size:22 final size:22
Alignment explanation
Indices: 49779948--49779992 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
49779938 TCTGAGCTGA
*
49779948 TAAATGGTAAGCTCTGAAGAGC
1 TAAATGGTAAGCTCCGAAGAGC
*
49779970 TAAATGGTAAGCTCCGTAGAGC
1 TAAATGGTAAGCTCCGAAGAGC
49779992 T
1 T
49779993 GAAACAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (22 bp):
TAAATGGTAAGCTCCGAAGAGC
Found at i:49780009 original size:29 final size:30
Alignment explanation
Indices: 49779976--49780033 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
49779966 GAGCTAAATG
* *
49779976 GTAAGCTCCGTAGAGCTGAAACAG-AAGCA
1 GTAAGCCCCGAAGAGCTGAAACAGTAAGCA
*
49780005 GTAAGCCCCGAATAGCTGAAACAGTAAGC
1 GTAAGCCCCGAAGAGCTGAAACAGTAAGC
49780034 TCATACGAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (30 bp):
GTAAGCCCCGAAGAGCTGAAACAGTAAGCA
Found at i:49784140 original size:40 final size:40
Alignment explanation
Indices: 49783988--49784133 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
49783978 TTGAATGATG
* * * *
49783988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49784028 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49784068 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49784109 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49784134 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49784140 original size:80 final size:80
Alignment explanation
Indices: 49783988--49784156 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
49783978 TTGAATGATG
* * *
49783988 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
49784053 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
49784068 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-ATTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
49784131 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
49784148 TCC-GGTTAA
1 TCCGGGTTAA
49784157 ATTCTGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 60 0.80
81 6 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:49791259 original size:40 final size:40
Alignment explanation
Indices: 49791107--49791252 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
49791097 TTGAATGATG
* * * *
49791107 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49791147 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49791187 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49791228 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49791253 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49791259 original size:80 final size:80
Alignment explanation
Indices: 49791107--49791285 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
49791097 TTGAATGATG
* * *
49791107 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
49791172 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
49791187 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-ATTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
49791250 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
49791267 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49791286 TACATGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.72
81 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:49794165 original size:13 final size:13
Alignment explanation
Indices: 49794147--49794174 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49794137 ATTGTATTAA
49794147 AAAATGAAAATTG
1 AAAATGAAAATTG
49794160 AAAATGAAAATTG
1 AAAATGAAAATTG
49794173 AA
1 AA
49794175 TTGAGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAATGAAAATTG
Found at i:49794231 original size:22 final size:21
Alignment explanation
Indices: 49794196--49794236 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
49794186 TATGAGTATA
49794196 TGTGATTATTGG-AATTGAAT
1 TGTGATTATTGGAAATTGAAT
49794216 TGTGTATTGATTGGAAATTGA
1 TGTG-ATT-ATTGGAAATTGA
49794237 GAAGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 5 0.28
23 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
TGTGATTATTGGAAATTGAAT
Found at i:49795862 original size:19 final size:19
Alignment explanation
Indices: 49795840--49795876 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49795830 AGTTGGAACC
49795840 AAAAACTTCAAAAAAAATA
1 AAAAACTTCAAAAAAAATA
*
49795859 AAAAACTTCAACAAAAAT
1 AAAAACTTCAAAAAAAAT
49795877 TGATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAACTTCAAAAAAAATA
Found at i:49804793 original size:22 final size:22
Alignment explanation
Indices: 49804768--49804821 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
49804758 TGGTACACAA
*
49804768 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGTTGGCACAAAG
* * *
49804790 CCAT-ATGTAGGTTTGCGCAAAG
1 CCATAAT-CAGGTTGGCACAAAG
49804812 CCATAATCAG
1 CCATAATCAG
49804822 AATAATTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGGCACAAAG
Found at i:49805018 original size:41 final size:41
Alignment explanation
Indices: 49804961--49805085 Score: 196
Period size: 41 Copynumber: 3.0 Consensus size: 41
49804951 CTTAAAAGCC
*
49804961 ATCGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTA
1 ATCGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCA
*
49805002 ATCGGTGGATCCACGGTCATCAAGCAACCATGTGATCCTCA
1 ATCGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCA
* * * *
49805043 ATCAGTGGATCCATGGTCGTCAAGCAACCATGCGATTCTCA
1 ATCGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCA
49805084 AT
1 AT
49805086 TTCTTCTTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
ATCGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCA
Found at i:49805333 original size:27 final size:27
Alignment explanation
Indices: 49805303--49805643 Score: 126
Period size: 27 Copynumber: 12.6 Consensus size: 27
49805293 TTTCATCCTA
* *
49805303 CAAGGGTGTTTTGGTAAATTTACAAAC
1 CAAGGGTATTTCGGTAAATTTACAAAC
* *
49805330 CAAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTCGGTAAATTTACAAAC
*** * * * ** *
49805357 CAATATTATTTCTGCAATTTTGTAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * ** * * **
49805384 TAGGGGTATTTTTGTAATTTTCCAATT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * *
49805411 CAAGGGTATTTCGGTAACTTTCCAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * ***
49805438 CAGGGGTATTTCGGTAATTTTACAGGT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * * ***
49805465 CAAAGGTATTTCGGTAATTTTATAGGT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * *
49805492 CGAGGGTATTTCAGT-AATTTCACAAAT
1 CAAGGGTATTTCGGTAAATTT-ACAAAC
* * * * *
49805519 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * * **
49805546 CGAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAAATTTACAAAC
** * * ***
49805573 TGAGGGTATTTCGATAATTTTACAGGT
1 CAAGGGTATTTCGGTAAATTTACAAAC
* * *
49805600 CGAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAAATTTACAAAC
* *
49805627 CAAGGGCATTTCAGTAA
1 CAAGGGTATTTCGGTAA
49805644 TTCTACCCTA
Statistics
Matches: 248, Mismatches: 64, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
26 4 0.02
27 240 0.97
28 4 0.02
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAAATTTACAAAC
Found at i:49805473 original size:54 final size:54
Alignment explanation
Indices: 49805387--49805645 Score: 250
Period size: 54 Copynumber: 4.8 Consensus size: 54
49805377 TGTAAATTAG
** * * * *
49805387 GGGTATTTTTGTAATTTTCCAATTCAAGGGTATTTCGGTAACTTTCCAAATC-A
1 GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTTACAAATCGA
* * * * **
49805440 GGGGTATTTCGGTAATTTTACAGGTCAAAGGTATTTCGGTAATTTTATAGGTCGA
1 -GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTTACAAATCGA
* * * * *
49805495 GGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTTACAAATCGA
** ** * **
49805549 GGGTATTTTGGTAATTTTACAAGTTGAGGGTATTTCGATAATTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTTACAAATCGA
** * *
49805603 GGGTATTTCAGTAATTTTACAAACCAAGGGCATTTCAGTAATT
1 GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATT
49805646 CTACCCTACA
Statistics
Matches: 163, Mismatches: 41, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
54 162 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:49805644 original size:27 final size:27
Alignment explanation
Indices: 49805387--49805645 Score: 200
Period size: 27 Copynumber: 9.6 Consensus size: 27
49805377 TGTAAATTAG
** * * *
49805387 GGGTATTTTTGTAATTTTCCAATTCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
49805414 GGGTATTTCGGTAACTTTCCAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** *
49805440 GGGGTATTTCGGTAATTTTACAGGTCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* * * **
49805468 AGGTATTTCGGTAATTTTATAGGTCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
49805495 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTACAAATCGA
**
49805521 GGGGTATTTTGGTAATTTTACAAATCGA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * *
49805549 GGGTATTTTGGTAATTTTACAAGTTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
**
49805576 GGGTATTTC-GATAATTTTACAGGTCGA
1 GGGTATTTCAG-TAATTTTACAAATCGA
* *
49805603 GGGTATTTCAGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
49805630 GGGCATTTCAGTAATT
1 GGGTATTTCAGTAATT
49805646 CTACCCTACA
Statistics
Matches: 194, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 188 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:49805644 original size:81 final size:81
Alignment explanation
Indices: 49805387--49805645 Score: 254
Period size: 81 Copynumber: 3.2 Consensus size: 81
49805377 TGTAAATTAG
** * * * * *
49805387 GGGTATTTTTGTAATTTTCCAATTCAAGGGTATTTCGGTAACTTTC-CAAATCAGGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAA-TTTCACAAATGAGGGGTATTTCG
**
49805451 GTAATTTTACAGGTCAA
65 GTAATTTTACAAATCAA
* * * * *
49805468 AGGTATTTCGGTAATTTTATAGGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATGAGGGGTATTTCGG
*
49805533 TAATTTTACAAATCGA
66 TAATTTTACAAATCAA
* * * **
49805549 GGGTATTTTGGTAATTTTACAAGTTGAGGGTATTTC-GATAATTTTACAGGTCGA-GGGTATTTC
1 GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAG-TAATTTCACAAAT-GAGGGGTATTTC
* *
49805612 AGTAATTTTACAAACCAA
64 GGTAATTTTACAAATCAA
* *
49805630 GGGCATTTCAGTAATT
1 GGGTATTTCGGTAATT
49805646 CTACCCTACA
Statistics
Matches: 145, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
80 5 0.03
81 139 0.96
82 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATGAGGGGTATTTCGG
TAATTTTACAAATCAA
Found at i:49805664 original size:54 final size:53
Alignment explanation
Indices: 49805602--49805725 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 53
49805592 TTACAGGTCG
*
49805602 AGGGTATTTCAGTAATTTTACAAACC-A-AGG-GCATTTCAGTAATTCTACCCTAC
1 AGGGTATTTCAGTAATTCTAC---CCTACAGGAGCATTTCAGTAATTCTACCCTAC
*
49805655 AGGGTTATTTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTAC
1 AGGG-TATTTCAGTAATTCTACCCTACAGGAGCATTTCAGTAATTCTACCCTAC
*
49805709 AGGAGTATTTTAGTAAT
1 AGG-GTATTTCAGTAAT
49805726 ACTAGTCTAC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
51 2 0.03
52 1 0.02
53 7 0.11
54 52 0.83
55 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTCTACCCTACAGGAGCATTTCAGTAATTCTACCCTAC
Found at i:49805737 original size:27 final size:27
Alignment explanation
Indices: 49805634--49805725 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
49805624 AACCAAGGGC
49805634 ATTTCAGTAATTCTACCCTACAGG-GTT
1 ATTTCAGTAATTCTACCCTACAGGAG-T
49805661 ATTTCAGTAATTCTACCCTACAGGAGT
1 ATTTCAGTAATTCTACCCTACAGGAGT
49805688 ATTTCAGTAATTCTACCCTACAGGAGT
1 ATTTCAGTAATTCTACCCTACAGGAGT
*
49805715 ATTTTAGTAAT
1 ATTTCAGTAAT
49805726 ACTAGTCTAC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGAGT
Found at i:49808711 original size:41 final size:40
Alignment explanation
Indices: 49808652--49808772 Score: 188
Period size: 41 Copynumber: 3.0 Consensus size: 40
49808642 AAAGCCACCG
* *
49808652 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATC
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
*
49808692 AGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAATC
1 -GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
*
49808733 GATGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
1 G-TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
49808773 TTCTTCCTCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 73 0.99
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
Found at i:49809040 original size:27 final size:27
Alignment explanation
Indices: 49809010--49809167 Score: 100
Period size: 27 Copynumber: 5.9 Consensus size: 27
49809000 TTTCACCCTA
* *
49809010 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * * *
49809037 CAAGGGTATTTCGATAATTTTCCAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * * *
49809064 CAAGGGTATTTCGGTAACTTTCCAAAT
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * * * *
49809091 CAGGGGTATTTCGATAATTTTATAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * * * *
49809118 CAGGGGCATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * * *
49809145 CAGGGGCATTTCAGTAATTCTAC
1 CAAGGGTATTTCGGTAAATCTAC
49809168 CCTACAGGGG
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAAATCTACAAAC
Found at i:49809080 original size:54 final size:54
Alignment explanation
Indices: 49809010--49809134 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
49809000 TTTCACCCTA
* * *
49809010 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTCCAAAC
1 CAAGGGTATTTCGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTACAAAC
* * * * * *
49809064 CAAGGGTATTTCGGTAACTTTCCAAATCAGGGGTATTTCGATAATTTTATAAAC
1 CAAGGGTATTTCGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTACAAAC
* *
49809118 CAGGGGCATTTCGGTAA
1 CAAGGGTATTTCGGTAA
49809135 TTTTATAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTACAAAC
Found at i:49809163 original size:54 final size:54
Alignment explanation
Indices: 49809030--49809156 Score: 164
Period size: 54 Copynumber: 2.4 Consensus size: 54
49809020 TTGGTAAATC
* * *
49809030 TACAAACCAAGGGTATTTCGATAATTTTCCAAACCAAGGGTATTTCGGTAACTT
1 TACAAACCAGGGGTATTTCGATAATTTTACAAACCAAGGGCATTTCGGTAACTT
* * * * *
49809084 TCCAAATCAGGGGTATTTCGATAATTTTATAAACCAGGGGCATTTCGGTAATTT
1 TACAAACCAGGGGTATTTCGATAATTTTACAAACCAAGGGCATTTCGGTAACTT
* *
49809138 TATAAACCAGGGGCATTTC
1 TACAAACCAGGGGTATTTC
49809157 AGTAATTCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (54 bp):
TACAAACCAGGGGTATTTCGATAATTTTACAAACCAAGGGCATTTCGGTAACTT
Found at i:49809583 original size:22 final size:22
Alignment explanation
Indices: 49809555--49809598 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
49809545 CATCCCAAGA
49809555 CTTGAACCTCAGACCTCACAGT
1 CTTGAACCTCAGACCTCACAGT
49809577 CTTGAACCTCAGACCTCACAGT
1 CTTGAACCTCAGACCTCACAGT
49809599 TACACAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (22 bp):
CTTGAACCTCAGACCTCACAGT
Found at i:49817664 original size:13 final size:13
Alignment explanation
Indices: 49817646--49817670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49817636 GGAGCAATAC
49817646 CATAAAAACATAA
1 CATAAAAACATAA
49817659 CATAAAAACATA
1 CATAAAAACATA
49817671 TGTTTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
CATAAAAACATAA
Found at i:49822907 original size:29 final size:29
Alignment explanation
Indices: 49822869--49822925 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
49822859 ATGGAATGGG
* *
49822869 TGAAGAACTTGTTCGTTGAGAGTTCGTGA
1 TGAAGAACTTGTTCGTTAAGAATTCGTGA
49822898 TGAAGAACTTGTTCGTTAAGAATTCGTG
1 TGAAGAACTTGTTCGTTAAGAATTCGTG
49822926 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (29 bp):
TGAAGAACTTGTTCGTTAAGAATTCGTGA
Found at i:49824340 original size:46 final size:46
Alignment explanation
Indices: 49824282--49824453 Score: 120
Period size: 46 Copynumber: 3.7 Consensus size: 46
49824272 GGGTTATTGT
*
49824282 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTACGA
* * ***
49824328 GAGCCAGTGTAAGACCATGTATGAGACATGGCA-T--CGGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCACATT---ACGA
* * * * * * *
49824376 GAACTAGTGTAAGACATGTCTGGGACATGCATCAGTCTCGA-GATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCAC-ATTACG-A
*
49824423 -AGCCAGTGTAAGACATGTCTAGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
49824454 CGACTACGAG
Statistics
Matches: 96, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
45 4 0.04
46 46 0.48
47 26 0.27
48 19 0.20
50 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTACGA
Found at i:49825771 original size:92 final size:92
Alignment explanation
Indices: 49825660--49825841 Score: 301
Period size: 92 Copynumber: 2.0 Consensus size: 92
49825650 GTAAAACAGC
* * *
49825660 CTAACATTCAGCTATTTTAAGCCGAAAATAACAGTAATGAAATAATACAACAATCGGCAGTTTAA
1 CTAACATTCAGCAATTTTAAGCCGAAAATAACAGTAATGAAACAATACAACAATCAGCAGTTTAA
*
49825725 ACTAAAAACAATCAGCAACAAAACATT
66 ACTAAAAACAACCAGCAACAAAACATT
* *
49825752 CTAACATTCAGCAATTTTAAGCCGAAAATAACAGTACTGAAACAATACAACAATTAGCAGTTTAA
1 CTAACATTCAGCAATTTTAAGCCGAAAATAACAGTAATGAAACAATACAACAATCAGCAGTTTAA
*
49825817 ACTAAAAACAACCAGCAGCAAAACA
66 ACTAAAAACAACCAGCAACAAAACA
49825842 GTGAGGCAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (92 bp):
CTAACATTCAGCAATTTTAAGCCGAAAATAACAGTAATGAAACAATACAACAATCAGCAGTTTAA
ACTAAAAACAACCAGCAACAAAACATT
Found at i:49829491 original size:31 final size:31
Alignment explanation
Indices: 49829453--49829587 Score: 116
Period size: 31 Copynumber: 4.4 Consensus size: 31
49829443 GGTTTTAAAG
*
49829453 TATCAGGTACTATGTACCGCTGATTATATAT
1 TATCAGGTACTATGTATCGCTGATTATATAT
*
49829484 TATCAGGTACTATGTA---CTGATGACTATAT
1 TATCAGGTACTATGTATCGCTGATTA-TATAT
* * * *
49829513 TATTAGGTACTTTGTATCGGTGTTTATAT-T
1 TATCAGGTACTATGTATCGCTGATTATATAT
* * * * *
49829543 GTATCAGGAACTATGTGTCGGTGTTTATATCT
1 -TATCAGGTACTATGTATCGCTGATTATATAT
*
49829575 TATCATGTACTAT
1 TATCAGGTACTAT
49829588 ATATTGGTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.07
29 19 0.22
30 1 0.01
31 55 0.64
32 5 0.06
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (31 bp):
TATCAGGTACTATGTATCGCTGATTATATAT
Found at i:49829521 original size:29 final size:29
Alignment explanation
Indices: 49829453--49829528 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
49829443 GGTTTTAAAG
*
49829453 TATCAGGTACTATGTACCGCTGATTATATAT
1 TATCAGGTACTATGTA-C-CTGATGATATAT
49829484 TATCAGGTACTATGTA-CTGATGACTATAT
1 TATCAGGTACTATGTACCTGATGA-TATAT
* *
49829513 TATTAGGTACTTTGTA
1 TATCAGGTACTATGTA
49829529 TCGGTGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 6 0.15
29 19 0.46
31 16 0.39
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (29 bp):
TATCAGGTACTATGTACCTGATGATATAT
Found at i:49829597 original size:31 final size:31
Alignment explanation
Indices: 49829527--49829598 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
49829517 AGGTACTTTG
*
49829527 TATCGGTGTTTATATTGTATCAGGAACTATG
1 TATCGGTGTTTATATTGTATCAGGAACTATA
* * *
49829558 TGTCGGTGTTTATATCT-TATCATGTACTATA
1 TATCGGTGTTTATAT-TGTATCAGGAACTATA
*
49829589 TATTGGTGTT
1 TATCGGTGTT
49829599 GGTCGTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (31 bp):
TATCGGTGTTTATATTGTATCAGGAACTATA
Found at i:49830655 original size:15 final size:15
Alignment explanation
Indices: 49830635--49830666 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49830625 TTAGTTTAAA
49830635 GTCAAGGTATGTTGT
1 GTCAAGGTATGTTGT
49830650 GTCAAGGTATGTTGT
1 GTCAAGGTATGTTGT
49830665 GT
1 GT
49830667 AAAGTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.34, T:0.41
Consensus pattern (15 bp):
GTCAAGGTATGTTGT
Found at i:49831183 original size:22 final size:22
Alignment explanation
Indices: 49831158--49831203 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
49831148 ATCTGGTTGA
49831158 CAATGTTTTAATATGTGCATAC
1 CAATGTTTTAATATGTGCATAC
49831180 CAATGTTTTAATATGTGCATAC
1 CAATGTTTTAATATGTGCATAC
49831202 CA
1 CA
49831204 CTTGTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (22 bp):
CAATGTTTTAATATGTGCATAC
Found at i:49844321 original size:59 final size:61
Alignment explanation
Indices: 49844245--49844361 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
49844235 TCACTTTAAA
* * * * * *
49844245 ATTAAATTAATATAATATTTA-T-CAAGATACATATTAGATTAAATTTAATATTAAGTCTC
1 ATTAAAATAATAGAATATTTAGTACAACATAAAAATTAAATTAAATTTAATATTAAGTCTC
49844304 ATTAAAATAATAGAATATTTATGTACAACATAAAAATTAAATTAAATTTAATATTAAG
1 ATTAAAATAATAGAATATTTA-GTACAACATAAAAATTAAATTAAATTTAATATTAAG
49844362 ATAATCACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 29 0.59
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (61 bp):
ATTAAAATAATAGAATATTTAGTACAACATAAAAATTAAATTAAATTTAATATTAAGTCTC
Found at i:49844386 original size:20 final size:18
Alignment explanation
Indices: 49844339--49844427 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
49844329 CAACATAAAA
49844339 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
49844356 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
49844376 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
49844395 ATTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
49844414 ATTAAAATAATATT
1 ATTAAATTAATATT
49844428 ATTTTTGGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
17 8 0.15
18 3 0.05
19 28 0.51
20 16 0.29
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:49844406 original size:30 final size:30
Alignment explanation
Indices: 49844370--49844428 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
49844360 AGATAATCAC
* *
49844370 TTTAATATTAAATTAATAAAATACTATTAA
1 TTTAATATTAAACTAATAAAATAATATTAA
*
49844400 TTTAATATTAAACTATTAAAATAATATTA
1 TTTAATATTAAACTAATAAAATAATATTA
49844429 TTTTTGGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTAATATTAAACTAATAAAATAATATTAA
Found at i:49859213 original size:27 final size:27
Alignment explanation
Indices: 49859183--49859234 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49859173 AAAGATTATT
*
49859183 AAAACTCTTTTAAAAG-AAAACTCAAGA
1 AAAACTC-TTGAAAAGAAAAACTCAAGA
*
49859210 AAAATTCTTGAAAAGAAAAACTCAA
1 AAAACTCTTGAAAAGAAAAACTCAA
49859235 AGATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (27 bp):
AAAACTCTTGAAAAGAAAAACTCAAGA
Found at i:49863146 original size:22 final size:22
Alignment explanation
Indices: 49863121--49863162 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
49863111 CATCTTTATC
* *
49863121 CTTTTTTCTTTTCTTTTCTTTT
1 CTTTTTTCTTCTCTTCTCTTTT
49863143 CTTTTTTCTTCTCTTCTCTT
1 CTTTTTTCTTCTCTTCTCTT
49863163 CTACTAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
CTTTTTTCTTCTCTTCTCTTTT
Found at i:49863162 original size:17 final size:17
Alignment explanation
Indices: 49863129--49863162 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49863119 TCCTTTTTTC
* *
49863129 TTTTCTTTTCTTTTCTT
1 TTTTCTTCTCTTCTCTT
49863146 TTTTCTTCTCTTCTCTT
1 TTTTCTTCTCTTCTCTT
49863163 CTACTAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTCTCTTCTCTT
Found at i:49866303 original size:14 final size:15
Alignment explanation
Indices: 49866274--49866310 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
49866264 TTTTTCATCA
49866274 AAATAATAATAGTTT
1 AAATAATAATAGTTT
49866289 AATATAA-AATA-TTT
1 AA-ATAATAATAGTTT
49866303 AAATAATA
1 AAATAATA
49866311 TTTTATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 6 0.30
16 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATAATAATAGTTT
Found at i:49866953 original size:41 final size:41
Alignment explanation
Indices: 49866897--49867015 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 41
49866887 AGTTAAACGT
49866897 TTTTCACTTGAGTCAAAAAAAATTCA-CTCGATTTAAAATCA
1 TTTTCACTTGAGTCAAAAAAAATTCACCT-GATTTAAAATCA
* **
49866938 TTTTCACTTGGGTCAAAAAATTTTCACCTGATTTAAAAT--
1 TTTTCACTTGAGTCAAAAAAAATTCACCTGATTTAAAATCA
** * *
49866977 TGTTTCACTTGA-TTTAAAAAATTTGCACTTGATTTAAAA
1 T-TTTCACTTGAGTCAAAAAAAATT-CACCTGATTTAAAA
49867016 CTATTTAACT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
39 10 0.15
40 22 0.33
41 33 0.49
42 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (41 bp):
TTTTCACTTGAGTCAAAAAAAATTCACCTGATTTAAAATCA
Found at i:49867012 original size:81 final size:80
Alignment explanation
Indices: 49866898--49867222 Score: 262
Period size: 81 Copynumber: 4.0 Consensus size: 80
49866888 GTTAAACGTT
* * ** * * ** *
49866898 TTTCACTTGAGTCAAAAAAAATTCACTCGATTTAAAA-TCATTTTCACTTGGGTCAAAAAATTTT
1 TTTCACTTGATTTAAAAAATTTTCACTTGATTTAAAACT-A-TTTCACTCGAATTAAAAAATTTT
*
49866962 CACCTGATTTAAAATTG
64 CACCTGATTTAAAAATG
* * *
49866979 TTTCACTTGATTTAAAAAATTTGCACTTGATTTAAAACTATTTAACTC-AATTTAAAATGATTTT
1 TTTCACTTGATTTAAAAAATTTTCACTTGATTTAAAACTATTTCACTCGAA-TTAAAA-AATTTT
* * * **
49867043 CACTTGAGTCAAAAAAA
64 CACCTGATTTAAAAATG
* **
49867060 TTTCACTCGATTTAAAAGTTTTTCACTTGATTTAAAACTATTTCACTCGAATTAAAAAATTTTC-
1 TTTCACTTGATTTAAAAAATTTTCACTTGATTTAAAACTATTTCACTCGAATTAAAAAATTTTCA
*
49867124 CCTTGATTTAAAACTG
66 CC-TGATTTAAAAATG
* ** * * * **
49867140 TGTCACTTGATTTAAAATGTTTTTCACTTGATTTAAAA-TGGTTTTACTCGATTTAAAATTTTTT
1 TTTCACTTGATTTAAAA-AATTTTCACTTGATTTAAAACT-ATTTCACTCGAATTAAAAAATTTT
* * *
49867204 CACTTGATTCAAAATTG
64 CACCTGATTTAAAAATG
49867221 TT
1 TT
49867223 GAAGGGTTTA
Statistics
Matches: 195, Mismatches: 41, Indels: 16
0.77 0.16 0.06
Matches are distributed among these distances:
79 1 0.01
80 41 0.21
81 149 0.76
82 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (80 bp):
TTTCACTTGATTTAAAAAATTTTCACTTGATTTAAAACTATTTCACTCGAATTAAAAAATTTTCA
CCTGATTTAAAAATG
Found at i:49867015 original size:40 final size:40
Alignment explanation
Indices: 49866877--49867222 Score: 264
Period size: 40 Copynumber: 8.6 Consensus size: 40
49866867 AGGGAGCAGT
* * * * *
49866877 TTTTCACTTGAGTTAAACGTT-TTTCACTTGAGTCAAAAAA
1 TTTTCACTTGATTTAAA-ATTGTTTCACTCGATTTAAAAAA
** * * ** *
49866917 AATTCACTCGATTTAAAATCAT-TTTCACTTGGGTCAAAAAA
1 TTTTCACTTGATTTAAAAT--TGTTTCACTCGATTTAAAAAA
* *
49866958 TTTTCACCTGATTTAAAATTGTTTCACTTGATTTAAAAAA
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAAAA
* * * * * *
49866998 TTTGCACTTGATTTAAAACTATTTAACTCAATTTAAAATGA
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAA-AA
* * *** **
49867039 TTTTCACTTGAGTCAAAAAAATTTCACTCGATTTAAAAGT
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAAAA
* * *
49867079 TTTTCACTTGATTTAAAACTATTTCACTCGAATTAAAAAA
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAAAA
* * * * **
49867119 TTTTCCCTTGATTTAAAACTGTGTCACTTGATTTAAAATGT
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAA-AA
* * **
49867160 TTTTCACTTGATTTAAAATGGTTTTACTCGATTTAAAATT
1 TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAAAA
*
49867200 TTTTCACTTGATTCAAAATTGTT
1 TTTTCACTTGATTTAAAATTGTT
49867223 GAAGGGTTTA
Statistics
Matches: 249, Mismatches: 52, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
39 2 0.01
40 149 0.60
41 98 0.39
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTTCACTTGATTTAAAATTGTTTCACTCGATTTAAAAAA
Found at i:49867133 original size:101 final size:101
Alignment explanation
Indices: 49866874--49867210 Score: 294
Period size: 101 Copynumber: 3.3 Consensus size: 101
49866864 GTTAGGGAGC
* * * * **
49866874 AGTTTTTCACTTGAGTT-AAACGTTTTTCACTTGAGTCAAAAAAAATTCACTCGATTTAAAATCA
1 AGTTTTTCACTTGATTTAAAAC-TATTTCACTTGAATTAAAAAATTTTCACTCGATTTAAAATCA
* *
49866938 TTTTCACTTGGGTCAAAAAATTTTCACCTGATTTAAA
65 TTTTCACTTGAGTCAAAAAAATTTCACCTGATTTAAA
* * * * *
49866975 A-TTGTTTCACTTGATTTAAAA-AATTTGCACTTG-ATTTAAAACTATTTAACTCAATTTAAAAT
1 AGTT-TTTCACTTGATTTAAAACTATTT-CACTTGAATTAAAAAAT-TTTCACTCGATTTAAAAT
*
49867037 GATTTTCACTTGAGTCAAAAAAATTTCA-CTCGATTTAAA
63 CATTTTCACTTGAGTCAAAAAAATTTCACCT-GATTTAAA
* * *
49867076 AGTTTTTCACTTGATTTAAAACTATTTCACTCGAATTAAAAAATTTTCCCTTGATTTAAAA-C-T
1 AGTTTTTCACTTGATTTAAAACTATTTCACTTGAATTAAAAAATTTTCACTCGATTTAAAATCAT
* * * *** *
49867139 GTGTCACTTGATTTAAAATGTTTTTCACTTGATTTAAA
66 -TTTCACTTGAGTCAAAA-AAATTTCACCTGATTTAAA
* * * *
49867177 ATGGTTTT-ACTCGATTTAAAATTTTTTCACTTGA
1 A-GTTTTTCACTTGATTTAAAACTATTTCACTTGA
49867211 TTCAAAATTG
Statistics
Matches: 189, Mismatches: 35, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
99 1 0.01
100 26 0.14
101 139 0.74
102 23 0.12
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (101 bp):
AGTTTTTCACTTGATTTAAAACTATTTCACTTGAATTAAAAAATTTTCACTCGATTTAAAATCAT
TTTCACTTGAGTCAAAAAAATTTCACCTGATTTAAA
Found at i:49867218 original size:20 final size:20
Alignment explanation
Indices: 49866876--49867219 Score: 222
Period size: 20 Copynumber: 17.1 Consensus size: 20
49866866 TAGGGAGCAG
* **
49866876 TTTTTCACTTGAGTTAAACG
1 TTTTTCACTTGATTTAAAAT
* * *
49866896 TTTTTCACTTGAGTCAAAAA
1 TTTTTCACTTGATTTAAAAT
*** *
49866916 AAATTCACTCGATTTAAAAT
1 TTTTTCACTTGATTTAAAAT
* ** * *
49866936 CATTTTCACTTGGGTCAAAAA
1 -TTTTTCACTTGATTTAAAAT
* *
49866957 ATTTTCACCTGATTTAAAAT
1 TTTTTCACTTGATTTAAAAT
* *
49866977 TGTTTCACTTGATTTAAAAA
1 TTTTTCACTTGATTTAAAAT
* * *
49866997 ATTTGCACTTGATTTAAAAC
1 TTTTTCACTTGATTTAAAAT
* * **
49867017 TATTTAACTCAATTTAAAAT
1 TTTTTCACTTGATTTAAAAT
* * * *
49867037 GATTTTCACTTGAGTCAAAAA
1 -TTTTTCACTTGATTTAAAAT
** * *
49867058 AATTTCACTCGATTTAAAAG
1 TTTTTCACTTGATTTAAAAT
*
49867078 TTTTTCACTTGATTTAAAAC
1 TTTTTCACTTGATTTAAAAT
* * * *
49867098 TATTTCACTCGAATTAAAAA
1 TTTTTCACTTGATTTAAAAT
* * *
49867118 ATTTTCCCTTGATTTAAAAC
1 TTTTTCACTTGATTTAAAAT
* *
49867138 TGTGTCACTTGATTTAAAAT
1 TTTTTCACTTGATTTAAAAT
49867158 GTTTTTCACTTGATTTAAAAT
1 -TTTTTCACTTGATTTAAAAT
* *
49867179 GGTTTT-ACTCGATTTAAAAT
1 -TTTTTCACTTGATTTAAAAT
*
49867199 TTTTTCACTTGATTCAAAAT
1 TTTTTCACTTGATTTAAAAT
49867219 T
1 T
49867220 GTTGAAGGGT
Statistics
Matches: 244, Mismatches: 76, Indels: 8
0.74 0.23 0.02
Matches are distributed among these distances:
19 4 0.02
20 192 0.79
21 48 0.20
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (20 bp):
TTTTTCACTTGATTTAAAAT
Found at i:49867533 original size:20 final size:21
Alignment explanation
Indices: 49867508--49867550 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
49867498 CACATTAGTG
49867508 AACAAATATAAATAT-AAATA
1 AACAAATATAAATATAAAATA
**
49867528 AACAAATATTTATATAAAATA
1 AACAAATATAAATATAAAATA
49867549 AA
1 AA
49867551 ATGAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AACAAATATAAATATAAAATA
Found at i:49867552 original size:26 final size:28
Alignment explanation
Indices: 49867513--49867570 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
49867503 TAGTGAACAA
49867513 ATATAAATATAAAT-AAACAAAT-ATTT
1 ATATAAATATAAATGAAACAAATAATTT
**
49867539 ATATAAA-ATAAAATGAATTAAATAATTT
1 ATATAAATAT-AAATGAAACAAATAATTT
49867567 ATAT
1 ATAT
49867571 TTAAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 11 0.41
27 6 0.22
28 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
ATATAAATATAAATGAAACAAATAATTT
Found at i:49871762 original size:87 final size:86
Alignment explanation
Indices: 49871504--49871773 Score: 298
Period size: 87 Copynumber: 3.2 Consensus size: 86
49871494 GTTTGGAAAC
* * * *
49871504 AAAATCAAAAT-AAATATGTTAAACGGCGGGAATAAATCCCGAAATAGA--TTATTCAA-TTTAA
1 AAAAT-AAAATAAAATCTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA
*
49871565 TTCTAATTTGGAAACAAAAT-T
65 TTCTAATTTGGAAACAAAATAA
** * *
49871586 AAAATCGAATAAAATCTGTTCAACGACGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAAT
1 AAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA-
* *** *
49871651 TTCTTATTTCTCATCAAAATAA
65 TTCTAATTTGGAAACAAAATAA
* *
49871673 AAAATAAAATAAAATCTGTTGAACGGTGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAAT
1 AAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAAT
* **
49871738 ACTCGTTTGGAAACAAAATAA
66 TCTAATTTGGAAACAAAATAA
**
49871759 AAAATGGAATAAAAT
1 AAAATAAAATAAAAT
49871774 GAATTTATTT
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
81 3 0.02
82 37 0.24
84 7 0.05
85 5 0.03
86 43 0.28
87 59 0.38
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (86 bp):
AAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAAT
TCTAATTTGGAAACAAAATAA
Found at i:49871825 original size:55 final size:55
Alignment explanation
Indices: 49871722--49871828 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
49871712 CAAAACAGAT
*
49871722 TTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGGAATAAAATGAA
1 TTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATGAA
* * * *
49871777 TTTATTTAATTTTAATACTCGTTTGGAAACAAAGTCAAATATTAAATAAAAT
1 TTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAAT
49871829 CTATTAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (55 bp):
TTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATGAA
Found at i:49871878 original size:86 final size:86
Alignment explanation
Indices: 49871776--49871961 Score: 232
Period size: 86 Copynumber: 2.2 Consensus size: 86
49871766 AATAAAATGA
* * * * * *
49871776 ATTTATTTAATTTTAATACTCGTTTGGAAACAAAGTCAAATATTA-AATAAAATCTATTAAATGG
1 ATTTATTTAATTTTAATAATCGTTTGGAAACAAAATAAAAAAATAGAATAAAATCTATTAAACGG
*
49871840 C-GAGAATAAATCTCGAAACAG
66 CGGA-AATAAATCCCGAAACAG
* * * *
49871861 ATTTTATTTAATTTTAATAATTGTTTGGAAACAAAATAAAAAAATAGAATAAAATTTGTTGAACG
1 A-TTTATTTAATTTTAATAATCGTTTGGAAACAAAATAAAAAAATAGAATAAAATCTATTAAACG
49871926 GCGGAAATAAATCCCGAAACAG
65 GCGGAAATAAATCCCGAAACAG
*
49871948 ATTTATTCAATTTT
1 ATTTATTTAATTTT
49871962 TATTTTTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 1 0.01
86 50 0.58
87 33 0.38
88 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (86 bp):
ATTTATTTAATTTTAATAATCGTTTGGAAACAAAATAAAAAAATAGAATAAAATCTATTAAACGG
CGGAAATAAATCCCGAAACAG
Found at i:49871971 original size:17 final size:16
Alignment explanation
Indices: 49871949--49871983 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
49871939 CCGAAACAGA
49871949 TTTATTCAATTTTTATT
1 TTTATTCAATTTTT-TT
*
49871966 TTTATTTAATTTTTTT
1 TTTATTCAATTTTTTT
49871982 TT
1 TT
49871984 CTTTTGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTCAATTTTTTT
Found at i:49872098 original size:20 final size:21
Alignment explanation
Indices: 49872073--49872115 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
49872063 CTCGTTAGCG
49872073 AACAAATATAAATAT-AAATA
1 AACAAATATAAATATAAAATA
**
49872093 AACAAATATTTATATAAAATA
1 AACAAATATAAATATAAAATA
49872114 AA
1 AA
49872116 AATGAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AACAAATATAAATATAAAATA
Found at i:49873407 original size:68 final size:69
Alignment explanation
Indices: 49873295--49873427 Score: 189
Period size: 68 Copynumber: 1.9 Consensus size: 69
49873285 TATCATCCTG
* * *
49873295 CAATTATATACAAAAACTTATATTACTCCACCACCGCACTCATTTAAACATACA-AAAGTGACAA
1 CAATTACATACAAAAAATTATATTACTCCACCACCACACTCATTTAAACATACACAAAGTGACAA
49873359 CCTA
66 CCTA
* * *
49873363 CAATTACATACAAAAAATTATATTAGTTCACCACCACA-TCCATTTACACATACACAAAGTGACA
1 CAATTACATACAAAAAATTATATTACTCCACCACCACACT-CATTTAAACATACACAAAGTGACA
49873427 A
65 A
49873428 GTCTCTATGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 1 0.02
68 46 0.81
69 10 0.18
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.25
Consensus pattern (69 bp):
CAATTACATACAAAAAATTATATTACTCCACCACCACACTCATTTAAACATACACAAAGTGACAA
CCTA
Found at i:49873447 original size:68 final size:68
Alignment explanation
Indices: 49873302--49873454 Score: 175
Period size: 68 Copynumber: 2.2 Consensus size: 68
49873292 CTGCAATTAT
*
49873302 ATACAAAAACTTATATTACTCCACCACCGCACTCATTTAAACATACAAAAGTGACAACCTACAAT
1 ATACAAAAACTTATATTACTCCACCACCACACTCATTTAAACATACAAAAGTGACAACCTACAAT
*
49873367 TAC
66 GAC
* * * * *
49873370 ATACAAAAAATTATATTAGTTCACCACCACA-TCCATTTACACATACACAAAGTGACAAGTCT-C
1 ATACAAAAACTTATATTACTCCACCACCACACT-CATTTAAACATACA-AAAGTGACAA-CCTAC
* *
49873433 TATGGC
63 AATGAC
*
49873439 ATACAAAAAGTTATAT
1 ATACAAAAACTTATAT
49873455 GTTGGAAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
67 1 0.01
68 40 0.56
69 29 0.40
70 2 0.03
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (68 bp):
ATACAAAAACTTATATTACTCCACCACCACACTCATTTAAACATACAAAAGTGACAACCTACAAT
GAC
Done.