Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 14 of 45
Found at i:2639255 original size:3 final size:3
Alignment explanation
Indices: 2639247--2639282 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2639237 AGGATAAGAA
* *
2639247 TAT TAT TAT TAT TAT TAT TAT TGT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2639283 AGGTAATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2639529 original size:19 final size:19
Alignment explanation
Indices: 2639497--2639535 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2639487 AATGTTTTTT
2639497 TAAAAATAATAATTTAAAA
1 TAAAAATAATAATTTAAAA
*
2639516 TAAATAATAA-AATTTTAAA
1 TAAA-AATAATAATTTAAAA
2639535 T
1 T
2639536 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATAATAATTTAAAA
Found at i:2640917 original size:16 final size:17
Alignment explanation
Indices: 2640896--2640940 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
2640886 AAAGGTGAAA
2640896 TTTTCTTTTTTTCC-CT
1 TTTTCTTTTTTTCCTCT
*
2640912 TTTTCTTCTTTTCCTCT
1 TTTTCTTTTTTTCCTCT
* *
2640929 TGTTATTTTTTT
1 TTTTCTTTTTTT
2640941 TTTTTGGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTTTCCTCT
Found at i:2643782 original size:26 final size:25
Alignment explanation
Indices: 2643753--2643813 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
2643743 TTAAATATAA
2643753 ATAATTTAATATAATTT-TTTATTTAC
1 ATAATTTAATAT-ATTTATTT-TTTAC
* *
2643779 ATAAATTTTATATATTTATTTTTTAT
1 AT-AATTTAATATATTTATTTTTTAC
*
2643805 ATACTTTAA
1 ATAATTTAA
2643814 ATTGCATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 5 0.17
26 12 0.41
27 12 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
ATAATTTAATATATTTATTTTTTAC
Found at i:2643851 original size:15 final size:14
Alignment explanation
Indices: 2643837--2643872 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
2643827 TGTAACTATA
2643837 AAAATAATAAATAT
1 AAAATAATAAATAT
*
2643851 AAAACAATAAATATT
1 AAAATAATAAATA-T
2643866 AAAATAA
1 AAAATAA
2643873 ATCAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATAATAAATAT
Found at i:2646167 original size:16 final size:17
Alignment explanation
Indices: 2646148--2646184 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2646138 AAAATAATTT
2646148 GAATTC-GAAATGATCC
1 GAATTCTGAAATGATCC
*
2646164 GAA-TCTGAAATGATTC
1 GAATTCTGAAATGATCC
2646180 GAATT
1 GAATT
2646185 TAAATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 2 0.11
16 15 0.83
17 1 0.06
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (17 bp):
GAATTCTGAAATGATCC
Found at i:2646326 original size:29 final size:29
Alignment explanation
Indices: 2646268--2646327 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 29
2646258 GTTTTATTTT
*
2646268 ACTATTTATAATTATATTAGATTATGATAA
1 ACTATATATAATTATATTAGA-TATGATAA
2646298 ACTATATA-AATTATATTTAG-TATGTATAA
1 ACTATATATAATTATA-TTAGATATG-ATAA
2646327 A
1 A
2646328 TTGATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.15
29 12 0.44
30 11 0.41
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (29 bp):
ACTATATATAATTATATTAGATATGATAA
Found at i:2646994 original size:16 final size:16
Alignment explanation
Indices: 2646973--2647027 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
2646963 ACTCGAATCC
*
2646973 AAAATAATTCAAATTA
1 AAAATAATTAAAATTA
*
2646989 AAAATAATTTAAATTTA
1 AAAATAA-TTAAAATTA
*
2647006 AAAAT-ATTAAAATTT
1 AAAATAATTAAAATTA
2647021 AAAATAA
1 AAAATAA
2647028 CCTAAATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 12 0.36
16 9 0.27
17 12 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATTAAAATTA
Found at i:2647008 original size:17 final size:17
Alignment explanation
Indices: 2646973--2647024 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 17
2646963 ACTCGAATCC
*
2646973 AAAATAATTCAAA-TTA
1 AAAATAATTAAAATTTA
*
2646989 AAAATAATTTAAATTTA
1 AAAATAATTAAAATTTA
2647006 AAAAT-ATTAAAATTTA
1 AAAATAATTAAAATTTA
2647022 AAA
1 AAA
2647025 TAACCTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAATTAAAATTTA
Found at i:2647034 original size:32 final size:33
Alignment explanation
Indices: 2646973--2647034 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
2646963 ACTCGAATCC
* **
2646973 AAAATAATTCAAATTAAAAATAATTTAAATTTA
1 AAAATAATTAAAATTAAAAATAACCTAAATTTA
*
2647006 AAAAT-ATTAAAATTTAAAATAACCTAAAT
1 AAAATAATTAAAATTAAAAATAACCTAAAT
2647035 CATAATAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 20 0.80
33 5 0.20
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (33 bp):
AAAATAATTAAAATTAAAAATAACCTAAATTTA
Found at i:2648243 original size:16 final size:16
Alignment explanation
Indices: 2648222--2648253 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2648212 AAAATAATTG
2648222 TATTAAGCTCAGATCC
1 TATTAAGCTCAGATCC
2648238 TATTAAGCTCAGATCC
1 TATTAAGCTCAGATCC
2648254 CTATAAATTC
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:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
TATTAAGCTCAGATCC
Found at i:2655463 original size:18 final size:19
Alignment explanation
Indices: 2655436--2655480 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
2655426 TTTAAACATG
2655436 AAAAAT-AAATTTA-AATA
1 AAAAATAAAATTTATAATA
**
2655453 AAAAATAAAATTTATTTTA
1 AAAAATAAAATTTATAATA
2655472 AAAAATAAA
1 AAAAATAAA
2655481 TTAAATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 7 0.29
19 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAAAATTTATAATA
Found at i:2655481 original size:18 final size:17
Alignment explanation
Indices: 2655436--2655486 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
2655426 TTTAAACATG
2655436 AAAAATAAATTTAAATA
1 AAAAATAAATTTAAATA
**
2655453 AAAAATAAAATTTATTTTA
1 AAAAAT-AAATTTA-AATA
2655472 AAAAATAAA-TTAAAT
1 AAAAATAAATTTAAAT
2655487 CTTTAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 1 0.04
17 9 0.32
18 10 0.36
19 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAAATTTAAATA
Found at i:2655681 original size:11 final size:11
Alignment explanation
Indices: 2655657--2655715 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
2655647 GCACTTTTAA
* *
2655657 AAAAATAAAAT
1 AAAAATATATT
2655668 AAAAATATATT
1 AAAAATATATT
2655679 --AAAT-TATT
1 AAAAATATATT
* *
2655687 AAAATTAAATT
1 AAAAATATATT
*
2655698 AAAAATATTTT
1 AAAAATATATT
2655709 AAAAATA
1 AAAAATA
2655716 AAAATATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
8 4 0.11
9 4 0.11
10 3 0.08
11 27 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATATATT
Found at i:2655719 original size:29 final size:30
Alignment explanation
Indices: 2655656--2655730 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
2655646 GGCACTTTTA
* *
2655656 AAAAAATAAAATAAAAATATATTAAATTAT
1 AAAAATTAAAATAAAAATATATTAAATAAT
* * *
2655686 TAAAATTAAATTAAAAATATTTTAAA-AAT
1 AAAAATTAAAATAAAAATATATTAAATAAT
*
2655715 AAAAATATAATATAAA
1 AAAAAT-TAAAATAAA
2655731 TAAAATAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 7 0.19
30 29 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATTAAAATAAAAATATATTAAATAAT
Found at i:2655731 original size:17 final size:17
Alignment explanation
Indices: 2655692--2655735 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2655682 TTATTAAAAT
**
2655692 TAAATTAAAAATATTTTA
1 TAAA-TAAAAATATAATA
*
2655710 AAAATAAAAATATAATA
1 TAAATAAAAATATAATA
2655727 TAAATAAAA
1 TAAATAAAA
2655736 TAAATTAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATAAAAATATAATA
Found at i:2656419 original size:22 final size:22
Alignment explanation
Indices: 2656394--2656457 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
2656384 AATTTAAAAA
2656394 TATATTATAAAATATTTTTATG
1 TATATTATAAAATATTTTTATG
*
2656416 TATATTATAATAAT-TTTATT-TT
1 TATATTATAA-AATATTT-TTATG
2656438 TA-ATTA-AAATATATTTTTAT
1 TATATTATAAA-ATATTTTTAT
2656458 AATTGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 8 0.22
22 16 0.44
23 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTATAAAATATTTTTATG
Found at i:2656432 original size:20 final size:21
Alignment explanation
Indices: 2656394--2656434 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2656384 AATTTAAAAA
*
2656394 TATATTATAAAATATTTTTATG
1 TATATTAT-AAATAATTTTATG
2656416 TATATTAT-AATAATTTTAT
1 TATATTATAAATAATTTTAT
2656435 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATTATAAATAATTTTATG
Found at i:2660606 original size:15 final size:15
Alignment explanation
Indices: 2660588--2660617 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2660578 TTCGTTCTTC
2660588 CTTCCTTTTTTTTTT
1 CTTCCTTTTTTTTTT
2660603 CTTCCTTTTTTTTTT
1 CTTCCTTTTTTTTTT
2660618 TTTTTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTCCTTTTTTTTTT
Found at i:2660621 original size:19 final size:19
Alignment explanation
Indices: 2660582--2660619 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
2660572 CTTTCCTTCG
2660582 TTCTTCCTTCCTTTTTTTT
1 TTCTTCCTTCCTTTTTTTT
2660601 TTCTTCCTT--TTTTTTTT
1 TTCTTCCTTCCTTTTTTTT
2660618 TT
1 TT
2660620 TTTTATTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
19 9 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTCTTCCTTCCTTTTTTTT
Found at i:2660634 original size:21 final size:21
Alignment explanation
Indices: 2660593--2660634 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2660583 TCTTCCTTCC
* *
2660593 TTTTTTTTTTCTTCCTTTTTT
1 TTTTTTTTTTATTCCTGTTTT
*
2660614 TTTTTTTTTTATTGCTGTTTT
1 TTTTTTTTTTATTCCTGTTTT
2660635 ACGTGAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTATTCCTGTTTT
Found at i:2660883 original size:15 final size:16
Alignment explanation
Indices: 2660862--2660908 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
2660852 TATTAATTTT
2660862 TTATTTTTATTTAAAA
1 TTATTTTTATTTAAAA
2660878 -TATTTTTAATTATAAAA
1 TTATTTTT-ATT-TAAAA
*
2660895 TTATTTTTAATTAA
1 TTATTTTTATTTAA
2660909 TATCAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 7 0.26
18 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTTTATTTAAAA
Found at i:2660918 original size:21 final size:18
Alignment explanation
Indices: 2660862--2660907 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2660852 TATTAATTTT
2660862 TTATTTTT-ATT-TAAAA
1 TTATTTTTAATTATAAAA
2660878 -TATTTTTAATTATAAAA
1 TTATTTTTAATTATAAAA
2660895 TTATTTTTAATTA
1 TTATTTTTAATTA
2660908 ATATCAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.26
16 3 0.11
17 5 0.19
18 12 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTTTTAATTATAAAA
Found at i:2661121 original size:20 final size:21
Alignment explanation
Indices: 2661096--2661145 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2661086 AAATTTATTT
2661096 TTAATTTAATTATA-T-ATATA
1 TTAATTT-ATTATATTAATATA
2661116 TTAATTT-TTATATTAATATA
1 TTAATTTATTATATTAATATA
*
2661136 TTATTTTATT
1 TTAATTTATT
2661146 TTTATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 18 0.69
21 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTATTATATTAATATA
Found at i:2661129 original size:12 final size:12
Alignment explanation
Indices: 2661079--2661154 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
2661069 TGTATAAAAA
*
2661079 AATTTTTAAATT
1 AATTTTTATATT
*
2661091 TATTTTTA-ATTT
1 AATTTTTATA-TT
2661103 AATTATATATATATT
1 AATT-T-T-TATATT
2661118 AATTTTTATATT
1 AATTTTTATATT
*
2661130 AATATATTAT-TT
1 AAT-TTTTATATT
*
2661142 TATTTTTAT-TT
1 AATTTTTATATT
2661153 AA
1 AA
2661155 AAATAAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
11 9 0.17
12 25 0.48
13 7 0.13
14 2 0.04
15 8 0.15
16 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATTTTTATATT
Found at i:2661330 original size:15 final size:15
Alignment explanation
Indices: 2661310--2661338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2661300 TAAAATTAAC
2661310 TTTTTATATTTTTTG
1 TTTTTATATTTTTTG
2661325 TTTTTATATTTTTT
1 TTTTTATATTTTTT
2661339 AATTAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATATTTTTTG
Found at i:2661473 original size:20 final size:20
Alignment explanation
Indices: 2661448--2661510 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
2661438 AAAAATAAAT
2661448 TTAAATTATTTAACATGTAC
1 TTAAATTATTTAACATGTAC
* * *
2661468 TTAAATTA---AAGA--AAT
1 TTAAATTATTTAACATGTAC
2661483 TTAAATTATTTAACATGTAC
1 TTAAATTATTTAACATGTAC
2661503 TTAAATTA
1 TTAAATTA
2661511 AAGGATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
15 9 0.28
17 3 0.09
18 3 0.09
20 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (20 bp):
TTAAATTATTTAACATGTAC
Found at i:2661486 original size:35 final size:36
Alignment explanation
Indices: 2661444--2661523 Score: 144
Period size: 35 Copynumber: 2.2 Consensus size: 36
2661434 AATTAAAAAT
2661444 AAATTTAAATTATTTAACATGTACTTAAATTAAA-G
1 AAATTTAAATTATTTAACATGTACTTAAATTAAAGG
2661479 AAATTTAAATTATTTAACATGTACTTAAATTAAAGG
1 AAATTTAAATTATTTAACATGTACTTAAATTAAAGG
2661515 ATAATTTAA
1 A-AATTTAA
2661524 TCATAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 34 0.79
36 2 0.05
37 7 0.16
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (36 bp):
AAATTTAAATTATTTAACATGTACTTAAATTAAAGG
Found at i:2662196 original size:2 final size:2
Alignment explanation
Indices: 2662189--2662219 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2662179 GGTTTTCATC
2662189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2662220 GTCTTTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2673611 original size:2 final size:2
Alignment explanation
Indices: 2673606--2673633 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2673596 TCTGCGTGTG
2673606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2673634 ATTAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2676057 original size:19 final size:16
Alignment explanation
Indices: 2676021--2676068 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
2676011 AGGATAGAAC
2676021 TTTTTAAATAATAATT
1 TTTTTAAATAATAATT
2676037 TTTTTAAATTAATTAAATT
1 TTTTTAAA-TAA-T-AATT
*
2676056 TTATTAAA-AATAA
1 TTTTTAAATAATAA
2676069 AATTGAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 2 0.07
16 9 0.32
17 5 0.18
18 1 0.04
19 11 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTAAATAATAATT
Found at i:2679569 original size:2 final size:2
Alignment explanation
Indices: 2679562--2679593 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2679552 TGTCTTTCAA
2679562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2679594 GCAGATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2682353 original size:16 final size:16
Alignment explanation
Indices: 2682332--2682367 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2682322 AATGCTAATG
*
2682332 TATTTTGTTATATTTA
1 TATTTTGTTATAATTA
*
2682348 TATTTTTTTATAATTA
1 TATTTTGTTATAATTA
2682364 TATT
1 TATT
2682368 AAATATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTGTTATAATTA
Found at i:2682395 original size:18 final size:18
Alignment explanation
Indices: 2682372--2682446 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 18
2682362 TATATTAAAT
2682372 ATATTATATATTTTATAA
1 ATATTATATATTTTATAA
*
2682390 ATATTA-ATATATTAATAA
1 ATATTATATAT-TTTATAA
2682408 TTTATATTATATAAATTTTAATAA
1 ---ATATTATAT--ATTTT-ATAA
2682432 AT-TTATAT-TTTTATA
1 ATATTATATATTTTATA
2682447 TTATATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
16 3 0.06
17 8 0.17
18 12 0.26
20 6 0.13
21 8 0.17
22 2 0.04
23 2 0.04
24 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATATATTTTATAA
Found at i:2682414 original size:32 final size:33
Alignment explanation
Indices: 2682362--2682452 Score: 112
Period size: 32 Copynumber: 2.7 Consensus size: 33
2682352 TTTTTATAAT
*
2682362 TATATTAAATATATTATATATTTTATAAATATTAA
1 TATATT-AATATATT-TATATTATATAAATATTAA
*
2682397 TATATTAATA-ATTTATATTATATAAATTTTAA
1 TATATTAATATATTTATATTATATAAATATTAA
* * *
2682429 TAAATTTATATTTTTATATTATAT
1 TATATTAATATATTTATATTATAT
2682453 TTAAAATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 25 0.50
33 15 0.30
34 4 0.08
35 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TATATTAATATATTTATATTATATAAATATTAA
Found at i:2683575 original size:23 final size:21
Alignment explanation
Indices: 2683526--2683575 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
2683516 ATGTAATATG
*
2683526 TTATTTTTATTTAAAATAAAT
1 TTATTATTATTTAAAATAAAT
*
2683547 TAATTATTATTTAAAACATAAAT
1 TTATTATTATTT-AAA-ATAAAT
2683570 TTATTA
1 TTATTA
2683576 AATGACGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 11 0.46
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTATTATTTAAAATAAAT
Found at i:2683954 original size:14 final size:13
Alignment explanation
Indices: 2683926--2683950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2683916 TTTTATATTT
2683926 TTGATTTTTTTTG
1 TTGATTTTTTTTG
2683939 TTGATTTTTTTT
1 TTGATTTTTTTT
2683951 TGTTAATTAT
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:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (13 bp):
TTGATTTTTTTTG
Found at i:2687495 original size:19 final size:20
Alignment explanation
Indices: 2687458--2687497 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2687448 TAAATTAAAT
*
2687458 AAATATAAATTTTATTTTAA
1 AAATATAAATTTTAATTTAA
*
2687478 AAATATCAA-TTTAATTTAA
1 AAATATAAATTTTAATTTAA
2687497 A
1 A
2687498 TTAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATAAATTTTAATTTAA
Found at i:2688874 original size:2 final size:2
Alignment explanation
Indices: 2688867--2688899 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2688857 TGGTTTTAGT
2688867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2688900 GGATTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2692540 original size:32 final size:32
Alignment explanation
Indices: 2692491--2692591 Score: 98
Period size: 30 Copynumber: 3.2 Consensus size: 32
2692481 TGTAGCCTTC
*
2692491 TTAGGAAAATTTATCTGGTCACCATTAGGCTTT
1 TTAGAAAAATTT-TCTGGTCACCATTAGGCTTT
**
2692524 TTAGAAAAATTTTCTGGTCGTCATTA-G-TTT
1 TTAGAAAAATTTTCTGGTCACCATTAGGCTTT
* * * * *
2692554 TTTGGAGAATTTTTTGGTCACTATTAGGCTTT
1 TTAGAAAAATTTTCTGGTCACCATTAGGCTTT
2692586 TCTAGA
1 T-TAGA
2692592 GAACTCGTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 22 0.42
31 2 0.04
32 16 0.30
33 13 0.25
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (32 bp):
TTAGAAAAATTTTCTGGTCACCATTAGGCTTT
Found at i:2696143 original size:10 final size:10
Alignment explanation
Indices: 2696128--2696152 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2696118 TTAGATATAC
2696128 ATATACATAT
1 ATATACATAT
2696138 ATATACATAT
1 ATATACATAT
2696148 ATATA
1 ATATA
2696153 TTTCAGTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:2697228 original size:20 final size:19
Alignment explanation
Indices: 2697183--2697231 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2697173 TTTAACATTT
*
2697183 TTAAAATTAAATATATTGA
1 TTAAAATTAAATATATTAA
*
2697202 TTGAAATTGAAATA-ATTAAA
1 TTAAAATT-AAATATATT-AA
2697222 TTAAAATTAA
1 TTAAAATTAA
2697232 TTGATTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
TTAAAATTAAATATATTAA
Found at i:2697439 original size:14 final size:13
Alignment explanation
Indices: 2697392--2697440 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
2697382 AAAAAAAATT
*
2697392 ATAAATTAATTTA
1 ATAAATTTATTTA
*
2697405 ATAAATTTATTAAA
1 ATAAATTTATT-TA
*
2697419 ATTAATTTATTTA
1 ATAAATTTATTTA
2697432 ATCAAATTT
1 AT-AAATTT
2697441 TATCAATCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
ATAAATTTATTTA
Found at i:2700762 original size:16 final size:17
Alignment explanation
Indices: 2700738--2700770 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2700728 AAATTTTAAA
*
2700738 TTTATAAATA-TTATTT
1 TTTAAAAATACTTATTT
2700754 TTTAAAAATACTTATTT
1 TTTAAAAATACTTATTT
2700771 AATTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAAAATACTTATTT
Found at i:2703914 original size:5 final size:5
Alignment explanation
Indices: 2703904--2703937 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
2703894 AATTAAATAA
2703904 TAATT TAATT TAATT TAATT TAATTT TAATT TAA
1 TAATT TAATT TAATT TAATT TAA-TT TAATT TAA
2703938 AATATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:2703917 original size:21 final size:21
Alignment explanation
Indices: 2703893--2703937 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2703883 TAATATTTTA
2703893 TAATTAAATAATAA-TTTAATT
1 TAATTAAAT-ATAATTTTAATT
* *
2703914 TAATTTAATTTAATTTTAATT
1 TAATTAAATATAATTTTAATT
2703935 TAA
1 TAA
2703938 AATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTAAATATAATTTTAATT
Found at i:2703924 original size:15 final size:16
Alignment explanation
Indices: 2703904--2703937 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2703894 AATTAAATAA
2703904 TAATTTAA-TTTAATT
1 TAATTTAATTTTAATT
2703919 TAATTTAATTTTAATT
1 TAATTTAATTTTAATT
2703935 TAA
1 TAA
2703938 AATATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATTTTAATT
Found at i:2703950 original size:21 final size:21
Alignment explanation
Indices: 2703907--2703950 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2703897 TAAATAATAA
**
2703907 TTTAATTTAATTTAATTTAAT
1 TTTAATTTAAAATAATTTAAT
* *
2703928 TTTAATTTAAAATATTTTTAT
1 TTTAATTTAAAATAATTTAAT
2703949 TT
1 TT
2703951 CAAATTCGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAATTTAAAATAATTTAAT
Found at i:2704511 original size:1 final size:1
Alignment explanation
Indices: 2704505--2704531 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
2704495 CCCATAAATT
2704505 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
2704532 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2705827 original size:18 final size:18
Alignment explanation
Indices: 2705806--2705948 Score: 51
Period size: 17 Copynumber: 8.3 Consensus size: 18
2705796 TAGACTTCCC
2705806 AATATAAATATAATATAA
1 AATATAAATATAATATAA
2705824 AATA-ATAAT-TAAT-TAAA
1 AATATA-AATATAATAT-AA
*
2705841 AATTATGTAAATAT-TTA-AA
1 AA-TA--TAAATATAATATAA
* * *
2705860 AAT-TATATATATTTTAA
1 AATATAAATATAATATAA
* *
2705877 AATTTATATA-AATATAA
1 AATATAAATATAATATAA
* *
2705894 AATAT---TTTAA-ATAT
1 AATATAAATATAATATAA
* *
2705908 AATTTTAATATAATA-AA
1 AATATAAATATAATATAA
2705925 ATATATAAATATAATAT-A
1 A-ATATAAATATAATATAA
2705943 AATATA
1 AATATA
2705949 GGGATGATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 37
0.65 0.09 0.26
Matches are distributed among these distances:
14 8 0.09
15 8 0.09
16 3 0.03
17 34 0.36
18 31 0.33
19 4 0.04
20 4 0.04
21 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
AATATAAATATAATATAA
Found at i:2705860 original size:19 final size:19
Alignment explanation
Indices: 2705836--2705891 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 19
2705826 TAATAATTAA
*
2705836 TTAAAAATTATGTAAATAT
1 TTAAAAATTATATAAATAT
*
2705855 TTAAAAATTATATATAT-T
1 TTAAAAATTATATAAATAT
*
2705873 TTAAAATTTATATAAATAT
1 TTAAAAATTATATAAATAT
2705892 AAAATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTAAAAATTATATAAATAT
Found at i:2705938 original size:29 final size:30
Alignment explanation
Indices: 2705890--2705948 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
2705880 TTATATAAAT
* * *
2705890 ATAAAATATTTTAAATATAATTTTAATATA
1 ATAAAATATTATAAATATAATATAAATATA
2705920 ATAAAATA-TATAAATATAATATAAATATA
1 ATAAAATATTATAAATATAATATAAATATA
2705949 GGGATGATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATATTATAAATATAATATAAATATA
Found at i:2705943 original size:11 final size:11
Alignment explanation
Indices: 2705882--2705948 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
2705872 TTTAAAATTT
2705882 ATATAAATATAA
1 ATAT-AATATAA
* *
2705894 A-ATATTTTAA
1 ATATAATATAA
* *
2705904 ATATAATTTTA
1 ATATAATATAA
2705915 ATAT-A-ATAA
1 ATATAATATAA
2705924 A-AT-ATATAA
1 ATATAATATAA
2705933 ATATAATATAA
1 ATATAATATAA
2705944 ATATA
1 ATATA
2705949 GGGATGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.07
9 8 0.18
10 9 0.20
11 24 0.53
12 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATAATATAA
Found at i:2713734 original size:18 final size:19
Alignment explanation
Indices: 2713713--2713750 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2713703 TTTTTTTACG
*
2713713 ATTTTAAT-TTTTTAAATA
1 ATTTTAATATATTTAAATA
2713731 A-TTTAATATATTTAAATA
1 ATTTTAATATATTTAAATA
2713749 AT
1 AT
2713751 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATATATTTAAATA
Found at i:2713769 original size:24 final size:23
Alignment explanation
Indices: 2713732--2713779 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2713722 TTTTAAATAA
*
2713732 TTTAATATATTTAAATAATATTT
1 TTTAATATAATTAAATAATATTT
*
2713755 TTTAATTATAATTAAATATTATTT
1 TTTAA-TATAATTAAATAATATTT
2713779 T
1 T
2713780 AATTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAATATAATTAAATAATATTT
Found at i:2714313 original size:12 final size:11
Alignment explanation
Indices: 2714288--2714317 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2714278 AATATTTGTA
2714288 TTAAATAATTT
1 TTAAATAATTT
2714299 TTAAATAATTT
1 TTAAATAATTT
*
2714310 TTTAATAA
1 TTAAATAA
2714318 AAAAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATAATTT
Found at i:2719248 original size:20 final size:18
Alignment explanation
Indices: 2719214--2719252 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
2719204 ATTATTAAAA
2719214 AATTAAATTAAATTATTT
1 AATTAAATTAAATTATTT
2719232 AATTAAAATTAAAATTATTT
1 AATT-AAATT-AAATTATTT
2719252 A
1 A
2719253 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTAAATTAAATTATTT
Found at i:2720733 original size:36 final size:33
Alignment explanation
Indices: 2720693--2720807 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 33
2720683 AAACATTTAT
2720693 TTTAAATTTAAATTAATTTAAAATTTTATTTTATTA
1 TTTAAA-TTAAATTAA--TAAAATTTTATTTTATTA
* *
2720729 TTTAAAATAATATTAAAAAATATTTTATATTTA-TA
1 TTTAAATTAA-ATTAATAAA-ATTTTAT-TTTATTA
*
2720764 TTTATAATTAAATTTAAATAAAATTAATATTTTATTA
1 TTTA-AATTAAA-TT-AATAAAATT-TTATTTTATTA
*
2720801 TCTAAAT
1 TTTAAAT
2720808 AATAATTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
34 3 0.05
35 17 0.26
36 32 0.49
37 13 0.20
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTAAATTAAATTAATAAAATTTTATTTTATTA
Found at i:2720734 original size:30 final size:30
Alignment explanation
Indices: 2720688--2720783 Score: 95
Period size: 35 Copynumber: 3.0 Consensus size: 30
2720678 TTTATAAACA
*
2720688 TTTATTTTAAATTTAAATTAATTTAAA-AT
1 TTTATTTTATATTTAAATTAATTTAAATAT
*
2720717 TTTATTTTATTATTTAAAATAATATTAAAAAATAT
1 TTTATTTTA-TATTTAAATTAAT-TT---AAATAT
2720752 TTTATATTTATATTTATAATTAAATTTAAATA
1 TTTAT-TTTATATTTA-AATT-AATTTAAATA
2720784 AAATTAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
29 9 0.16
30 11 0.20
31 2 0.04
33 5 0.09
34 3 0.05
35 13 0.24
36 9 0.16
37 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTATTTTATATTTAAATTAATTTAAATAT
Found at i:2732571 original size:21 final size:21
Alignment explanation
Indices: 2732547--2732627 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 21
2732537 AATTTTTATT
2732547 AAATTTATTTATATTTATTAA
1 AAATTTATTTATATTTATTAA
* *
2732568 AAA-TAATATT-TATTTATTTA
1 AAATTTAT-TTATATTTATTAA
*
2732588 AAATGTT-TATATTATTT-TTAA
1 AAAT-TTATTTA-TATTTATTAA
*
2732609 AAAGTTTTATTTTTATTTA
1 AAA--TTTATTTATATTTA
2732628 ATTTTAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
20 16 0.36
21 12 0.27
22 13 0.30
23 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AAATTTATTTATATTTATTAA
Found at i:2732627 original size:20 final size:21
Alignment explanation
Indices: 2732580--2732628 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2732570 ATAATATTTA
*
2732580 TTTATTTAAAATGTTTATATT
1 TTTATTTAAAAAGTTTATATT
*
2732601 ATT-TTTAAAAAGTTT-TATT
1 TTTATTTAAAAAGTTTATATT
2732620 TTTATTTAA
1 TTTATTTAA
2732629 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 16 0.67
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTATTTAAAAAGTTTATATT
Found at i:2732644 original size:25 final size:26
Alignment explanation
Indices: 2732593--2732653 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
2732583 ATTTAAAATG
* *
2732593 TTTATATTATTTTTAAAAAGTTTTATT
1 TTTAT-TTAATTTTAAAAAGTTATATT
*
2732620 TTTATTTAATTTTAATAA-TTATATT
1 TTTATTTAATTTTAAAAAGTTATATT
2732645 TTTAATTTA
1 TTT-ATTTA
2732654 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.30
26 16 0.53
27 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTAATTTTAAAAAGTTATATT
Found at i:2732728 original size:11 final size:11
Alignment explanation
Indices: 2732698--2732752 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
2732688 TTTCTTATTT
2732698 TATTATA-ATAA
1 TATTATATAT-A
2732709 TATTATATATTTA
1 TATTATATA--TA
2732722 TATTATATATA
1 TATTATATATA
* *
2732733 TAATGTA-ATA
1 TATTATATATA
2732743 TATTATATAT
1 TATTATATAT
2732753 TTAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.22
11 16 0.44
12 1 0.03
13 10 0.28
14 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TATTATATATA
Found at i:2732730 original size:7 final size:7
Alignment explanation
Indices: 2732708--2732753 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
2732698 TATTATAATA
2732708 ATATTAT
1 ATATTAT
2732715 ATATT-T
1 ATATTAT
2732721 ATATTAT
1 ATATTAT
2732728 ATA-TAT
1 ATATTAT
2732734 A-ATGTAAT
1 ATAT-T-AT
2732742 ATATTAT
1 ATATTAT
2732749 ATATT
1 ATATT
2732754 TAAAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 1 0.03
6 10 0.29
7 17 0.50
8 4 0.12
9 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (7 bp):
ATATTAT
Found at i:2732761 original size:19 final size:20
Alignment explanation
Indices: 2732720--2732761 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2732710 ATTATATATT
*
2732720 TATATTATATATATAATGTAA
1 TATATTATATATATAA-GAAA
*
2732741 TATATTATATATTTAA-AAA
1 TATATTATATATATAAGAAA
2732760 TA
1 TA
2732762 ATAAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TATATTATATATATAAGAAA
Found at i:2732762 original size:27 final size:27
Alignment explanation
Indices: 2732704--2732764 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
2732694 ATTTTATTAT
* *
2732704 AATAATATTATATATTTATATTATATA
1 AATAATATAATATATTTATATTATAAA
* *
2732731 TATAATGTAATATATTATATATT-TAAA
1 AATAATATAATATATT-TATATTATAAA
2732758 AATAATA
1 AATAATA
2732765 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AATAATATAATATATTTATATTATAAA
Found at i:2734143 original size:16 final size:17
Alignment explanation
Indices: 2734122--2734157 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
2734112 ATCATTTAAG
2734122 TTATAAAATAA-TAATT
1 TTATAAAATAATTAATT
2734138 TTATAAAATAATTAATT
1 TTATAAAATAATTAATT
2734155 TTA
1 TTA
2734158 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATAAAATAATTAATT
Found at i:2734309 original size:15 final size:15
Alignment explanation
Indices: 2734277--2734323 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
2734267 TAAAATTTAA
*
2734277 ATTTTA-TAATATTTT
1 ATTTTATTAA-ATTAT
2734292 ATTTTATTAAATTAT
1 ATTTTATTAAATTAT
2734307 ATTATTATTATAATTAT
1 ATT-TTATTA-AATTAT
2734324 TTCATTCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 13 0.46
16 9 0.32
17 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTATTAAATTAT
Found at i:2738332 original size:13 final size:13
Alignment explanation
Indices: 2738314--2738359 Score: 92
Period size: 13 Copynumber: 3.5 Consensus size: 13
2738304 TTCAACGATT
2738314 TGTATCGATACAA
1 TGTATCGATACAA
2738327 TGTATCGATACAA
1 TGTATCGATACAA
2738340 TGTATCGATACAA
1 TGTATCGATACAA
2738353 TGTATCG
1 TGTATCG
2738360 CTACGAAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2738422 original size:13 final size:13
Alignment explanation
Indices: 2738404--2738428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2738394 ATTACTCAAA
2738404 TGTATCGATACAT
1 TGTATCGATACAT
2738417 TGTATCGATACA
1 TGTATCGATACA
2738429 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2743195 original size:22 final size:22
Alignment explanation
Indices: 2743164--2743230 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
2743154 TTATAAATAT
*
2743164 TATTATAAAATATATTTAATTA
1 TATTAAAAAATATATTTAATTA
*
2743186 TATTAAAAAATATAAATT--TTA
1 TATTAAAAAATAT-ATTTAATTA
*
2743207 TAATAAAAAATATTATTTAGATTA
1 TATTAAAAAATA-TATTTA-ATTA
2743231 GGAATGGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 17 0.47
22 13 0.36
23 3 0.08
24 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (22 bp):
TATTAAAAAATATATTTAATTA
Found at i:2743206 original size:25 final size:26
Alignment explanation
Indices: 2743143--2743211 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 26
2743133 TTAACAATTA
*
2743143 AAAAAATA-AAATTATAAATATTATT
1 AAAAAATATAAATTTTAAATATTATT
* *
2743168 ATAAAATAT--A-TTTAATTA-TATT
1 AAAAAATATAAATTTTAAATATTATT
2743190 AAAAAATATAAATTTTATAATA
1 AAAAAATATAAATTTTA-AATA
2743212 AAAAATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
22 12 0.35
23 6 0.18
24 2 0.06
25 11 0.32
26 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAAAATATAAATTTTAAATATTATT
Found at i:2743215 original size:20 final size:20
Alignment explanation
Indices: 2743147--2743215 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
2743137 CAATTAAAAA
* *
2743147 AATAAAATTATAAATATTAT
1 AATAAAAATATAAATTTTAT
* * *
2743167 TATAAAATATATTTAATTATAT
1 AATAAAA-ATA-TAAATTTTAT
*
2743189 TA-AAAAATATAAATTTTAT
1 AATAAAAATATAAATTTTAT
2743208 AATAAAAA
1 AATAAAAA
2743216 ATATTATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 9 0.24
20 14 0.37
21 6 0.16
22 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAAAATATAAATTTTAT
Found at i:2743308 original size:17 final size:17
Alignment explanation
Indices: 2743259--2743314 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
2743249 AATCTAACTT
* * *
2743259 TTTTAAAATTGATTTTA
1 TTTTAAAATTTAATATA
**
2743276 TTTTTTAATTTAAATATA
1 TTTTAAAATTT-AATATA
2743294 TTTTAAAATTTAATAT-
1 TTTTAAAATTTAATATA
2743310 TTTTA
1 TTTTA
2743315 TCCAAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 13 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTAAAATTTAATATA
Found at i:2744329 original size:42 final size:42
Alignment explanation
Indices: 2744208--2744349 Score: 176
Period size: 42 Copynumber: 3.4 Consensus size: 42
2744198 AATTTCAACC
* * * *
2744208 AAAGCATAAATTTGAAATTATTGGTATTAAAAAATCAAAAAT
1 AAAGCATAAATTTGAAACTATTGGTATTAAAATATCATAAGT
* * *
2744250 AAAACATAATATTTGAAACTATTGATATTAAAATATCATACGT
1 AAAGCATAA-ATTTGAAACTATTGGTATTAAAATATCATAAGT
* * *
2744293 AAAGCATAAATTTGAAACTATGGGTAATAAAGTATCATAAGT
1 AAAGCATAAATTTGAAACTATTGGTATTAAAATATCATAAGT
*
2744335 AAAGCATAATTTTGA
1 AAAGCATAAATTTGA
2744350 CGCAAAGCTC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 50 0.59
43 35 0.41
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (42 bp):
AAAGCATAAATTTGAAACTATTGGTATTAAAATATCATAAGT
Found at i:2745844 original size:25 final size:25
Alignment explanation
Indices: 2745816--2745886 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
2745806 AAAATAAAAA
2745816 TAATTTTAATACATATTTTAT-TATT
1 TAATTTTAATACATATTTTATATA-T
* * * *
2745841 TAATATAAATATAAATTTTATATAT
1 TAATTTTAATACATATTTTATATAT
* *
2745866 TAATTATATATACTTATTTTA
1 TAATTTTA-ATACATATTTTA
2745887 CATCCTTAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
25 23 0.68
26 11 0.32
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATTTTAATACATATTTTATATAT
Found at i:2749278 original size:17 final size:18
Alignment explanation
Indices: 2749252--2749299 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
2749242 ACTATTGTTA
2749252 TTTT-ATAATTTTAAT-T
1 TTTTAATAATTTTAATAT
2749268 TTTTAATAA--TTAATAT
1 TTTTAATAATTTTAATAT
2749284 TTATTAATAATATTTA
1 TT-TTAATAAT-TTTA
2749300 TTGTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 11 0.42
20 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTTAATAT
Found at i:2750416 original size:1 final size:1
Alignment explanation
Indices: 2750410--2750435 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2750400 TGAGACAGCG
2750410 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
2750436 AATTGATTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2752349 original size:32 final size:32
Alignment explanation
Indices: 2752313--2752402 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
2752303 AATTATTTTA
**
2752313 ATTTAAATTATTATTTATTAATAAAAAAAT-TT
1 ATTTAAATT-TTATTTAAAAATAAAAAAATATT
* *
2752345 ATTTAAATTTAATTATAAAAATATAAAAATATT
1 ATTTAAATTTTATT-TAAAAATAAAAAAATATT
*
2752378 ATTTTAATTTTATTTTAAATAATAA
1 ATTTAAATTTTA-TTTAAA-AATAA
2752403 TATAAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
31 4 0.09
32 21 0.45
33 16 0.34
34 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTTAAATTTTATTTAAAAATAAAAAAATATT
Found at i:2752380 original size:33 final size:33
Alignment explanation
Indices: 2752331--2752412 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 33
2752321 TATTATTTAT
*
2752331 TAATAAAAAAATTTATTTAAATTTAATTATAAA
1 TAATATAAAAATTTATTTAAATTTAATTATAAA
* * *
2752364 -AATATAAAAATATTATTTTAATTTTATTTTAAA
1 TAATATAAAAAT-TTATTTAAATTTAATTATAAA
2752397 TAATAATATAAAATTT
1 TAAT-ATA-AAAATTT
2752413 TTAATCTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 10 0.24
33 18 0.44
34 3 0.07
35 5 0.12
36 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATAAAAATTTATTTAAATTTAATTATAAA
Found at i:2753580 original size:2 final size:2
Alignment explanation
Indices: 2753536--2753564 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2753526 ATCCATCCAA
2753536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2753565 CATACATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2758964 original size:15 final size:14
Alignment explanation
Indices: 2758920--2758965 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
2758910 AAAATAAAAA
*
2758920 ATAATTATAAATATT
1 ATAATTA-AAATTTT
*
2758935 AAAATTAAAATTTT
1 ATAATTAAAATTTT
2758949 ATAATTAAATATTTT
1 ATAATTAAA-ATTTT
2758964 AT
1 AT
2758966 TTTTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTAAAATTTT
Found at i:2759794 original size:28 final size:29
Alignment explanation
Indices: 2759740--2759799 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
2759730 CATGTCTTTA
2759740 TTTAAATGTTATGTCTTTACATAACAA-T
1 TTTAAATGTTATGTCTTTACATAACAACT
*
2759768 TTTAAATGTTGTGTTCTTT-CA-ACACAACT
1 TTTAAATGTTATG-TCTTTACATA-ACAACT
2759797 TTT
1 TTT
2759800 TGATGCAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.04
28 18 0.64
29 9 0.32
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTAAATGTTATGTCTTTACATAACAACT
Found at i:2762839 original size:21 final size:21
Alignment explanation
Indices: 2762813--2762894 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
2762803 TTTATGGGGT
2762813 TATATATAAAAATAATTAAAA
1 TATATATAAAAATAATTAAAA
*
2762834 TATATAT-AATATAGATGT-AAA
1 TATATATAAAAATA-AT-TAAAA
* * *
2762855 TATGTATGAAAAAT-TTTATAA
1 TATATAT-AAAAATAATTAAAA
*
2762876 TATGATAAAAAAATAATTA
1 TAT-ATATAAAAATAATTA
2762895 TCACGTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
20 6 0.13
21 30 0.65
22 6 0.13
23 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
TATATATAAAAATAATTAAAA
Found at i:2763016 original size:4 final size:4
Alignment explanation
Indices: 2763007--2763036 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2762997 TGTTTATAAC
2763007 TATT TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TA
2763037 AAGAGTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:2769584 original size:11 final size:11
Alignment explanation
Indices: 2769570--2769608 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2769560 ATATATTTTT
2769570 TAAAATTTCAA
1 TAAAATTTCAA
*
2769581 TAAAATTT--T
1 TAAAATTTCAA
2769590 TAAAATTTCAA
1 TAAAATTTCAA
2769601 TAAAATTT
1 TAAAATTT
2769609 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAATTTCAA
Found at i:2769623 original size:11 final size:9
Alignment explanation
Indices: 2769566--2769632 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 9
2769556 TAAAATATAT
2769566 TTTTTAAAA
1 TTTTTAAAA
*
2769575 TTTCAATAAAA
1 TTT--TTAAAA
2769586 TTTTTAAAA
1 TTTTTAAAA
*
2769595 TTTCAATAAAA
1 TTT--TTAAAA
2769606 TTTTTAAAA
1 TTTTTAAAA
2769615 TTATATTAAAA
1 TT-T-TTAAAA
2769626 TATTTTA
1 T-TTTTA
2769633 TTTAAACAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
9 18 0.38
10 4 0.09
11 24 0.51
12 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:2769626 original size:20 final size:20
Alignment explanation
Indices: 2769566--2769616 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2769556 TAAAATATAT
2769566 TTTTTAAAATTTCAATAAAA
1 TTTTTAAAATTTCAATAAAA
2769586 TTTTTAAAATTTCAATAAAA
1 TTTTTAAAATTTCAATAAAA
2769606 TTTTTAAAATT
1 TTTTTAAAATT
2769617 ATATTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTAAAATTTCAATAAAA
Found at i:2770603 original size:8 final size:8
Alignment explanation
Indices: 2770587--2770624 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2770577 GACGAAGATA
*
2770587 TTAATATT
1 TTAAAATT
2770595 TTAAAATT
1 TTAAAATT
2770603 TTAAAATTT
1 TTAAAA-TT
2770612 TTAAAA-T
1 TTAAAATT
2770619 TTAAAA
1 TTAAAA
2770625 AAATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.25
8 13 0.46
9 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTAAAATT
Found at i:2770625 original size:17 final size:17
Alignment explanation
Indices: 2770593--2770625 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2770583 GATATTAATA
*
2770593 TTTTAAAATTTTAAAAT
1 TTTTAAAATTTAAAAAT
2770610 TTTTAAAATTTAAAAA
1 TTTTAAAATTTAAAAA
2770626 AATAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAATTTAAAAAT
Found at i:2771142 original size:11 final size:10
Alignment explanation
Indices: 2771126--2771168 Score: 54
Period size: 9 Copynumber: 4.3 Consensus size: 10
2771116 GACACGTGGG
2771126 AAATATAAATA
1 AAATAT-AATA
2771137 AAATATAAT-
1 AAATATAATA
2771146 AAATATAATA
1 AAATATAATA
2771156 TAAATA-AATA
1 -AAATATAATA
2771166 AAA
1 AAA
2771169 ATATTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 12 0.40
10 7 0.23
11 11 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATATAATA
Found at i:2771149 original size:14 final size:14
Alignment explanation
Indices: 2771130--2771177 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
2771120 CGTGGGAAAT
2771130 ATAAATAAAATATA
1 ATAAATAAAATATA
*
2771144 ATAAATATAATATAA
1 ATAAATAAAATAT-A
2771159 ATAAATAAAA-ATA
1 ATAAATAAAATATA
*
2771172 TTAAAT
1 ATAAAT
2771178 TTTTATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 6 0.20
14 14 0.47
15 10 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAATAAAATATA
Found at i:2771185 original size:29 final size:30
Alignment explanation
Indices: 2771130--2771210 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
2771120 CGTGGGAAAT
2771130 ATAAATAAAATATAATAAATATAATATAA-
1 ATAAATAAAATATAATAAATATAATATAAG
* * *
2771159 ATAAATAAAA-ATATTAAATTTTTATATAAG
1 ATAAATAAAATATAATAAA-TATAATATAAG
*
2771189 ATAAATTATTAATATAATAAAT
1 ATAAA-TA-AAATATAATAAAT
2771211 TTTATTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 7 0.17
29 18 0.43
30 5 0.12
31 2 0.05
32 3 0.07
33 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (30 bp):
ATAAATAAAATATAATAAATATAATATAAG
Found at i:2771223 original size:16 final size:16
Alignment explanation
Indices: 2771173--2771223 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
2771163 ATAAAAATAT
*
2771173 TAAATTTTTATATAAGA
1 TAAA-TTTTATATAAAA
*
2771190 TAAATTATTA-ATATAA
1 TAAATT-TTATATAAAA
*
2771206 TAAATTTTATTTAAAA
1 TAAATTTTATATAAAA
2771222 TA
1 TA
2771224 TAAAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 18 0.64
17 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAAATTTTATATAAAA
Found at i:2772345 original size:65 final size:64
Alignment explanation
Indices: 2772226--2772347 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
2772216 AAAAGTAAGT
* *
2772226 TTTTTTAATTCTTTTTTGCCCTATCAAACAGGCTAAATCCTTCTTTTATAAAACATGGTAATTG
1 TTTTATAATTCTTTTTTACCCTATCAAACAGGCTAAATCCTTCTTTTATAAAACATGGTAATTG
* * * * *
2772290 TTTTATAATTCTTTTTTATCTTATCAAATAGGTTAAAT-TTTCTTTTTTATAAAACATG
1 TTTTATAATTCTTTTTTACCCTATCAAACAGGCTAAATCCTTC--TTTTATAAAACATG
2772348 ATAACTATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.06
64 32 0.65
65 14 0.29
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (64 bp):
TTTTATAATTCTTTTTTACCCTATCAAACAGGCTAAATCCTTCTTTTATAAAACATGGTAATTG
Found at i:2772991 original size:27 final size:25
Alignment explanation
Indices: 2772961--2773012 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
2772951 AAATAATCTC
*
2772961 AAATTACGAATATTTAAAAAAATAAAA
1 AAATAACGAATA-TTAAAAAAA-AAAA
**
2772988 AAATAATTAATATTAAAAAAAAAAA
1 AAATAACGAATATTAAAAAAAAAAA
2773013 CGCCAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 9 0.41
27 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (25 bp):
AAATAACGAATATTAAAAAAAAAAA
Found at i:2773571 original size:2 final size:2
Alignment explanation
Indices: 2773564--2773594 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2773554 TGGGTTTTCT
2773564 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2773595 TTGGAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2775697 original size:18 final size:18
Alignment explanation
Indices: 2775676--2775716 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2775666 GGGTCATGAT
*
2775676 CATGGCCATCACCATGGC
1 CATGGCCATAACCATGGC
* *
2775694 CATGACCATAATCATGGC
1 CATGGCCATAACCATGGC
2775712 CATGG
1 CATGG
2775717 TGGGAATGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.20
Consensus pattern (18 bp):
CATGGCCATAACCATGGC
Found at i:2777035 original size:10 final size:9
Alignment explanation
Indices: 2777020--2777065 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
2777010 TAAATGGAAG
*
2777020 CCCCCCTCA
1 CCCCCCTCC
2777029 CCCCCC-CC
1 CCCCCCTCC
2777037 CCCCCC-CC
1 CCCCCCTCC
*
2777045 CTCCCCTCC
1 CCCCCCTCC
2777054 CCTCCCCTCC
1 CC-CCCCTCC
2777064 CC
1 CC
2777066 ATCCTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 14 0.44
9 9 0.28
10 9 0.28
ACGTcount: A:0.02, C:0.87, G:0.00, T:0.11
Consensus pattern (9 bp):
CCCCCCTCC
Found at i:2777039 original size:5 final size:5
Alignment explanation
Indices: 2777022--2777065 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
2777012 AATGGAAGCC
* *
2777022 CCCCT CACCC- CCCCC CCCCC CCCCT CCCCT CCCCT CCCCT CCCC
1 CCCCT C-CCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCCC
2777066 ATCCTTGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
4 3 0.08
5 30 0.83
6 3 0.08
ACGTcount: A:0.02, C:0.86, G:0.00, T:0.11
Consensus pattern (5 bp):
CCCCT
Found at i:2777425 original size:21 final size:22
Alignment explanation
Indices: 2777399--2777446 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2777389 GTTGGGCAGC
* *
2777399 AATGAGA-TTAATTATTTTAAG
1 AATGAGATTTAAATATTATAAG
*
2777420 AATGAGATTTAAATATTATAAT
1 AATGAGATTTAAATATTATAAG
2777442 AATGA
1 AATGA
2777447 AAATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
AATGAGATTTAAATATTATAAG
Found at i:2779078 original size:23 final size:23
Alignment explanation
Indices: 2779052--2779102 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2779042 TATGCATGAG
*
2779052 AATAAAAATTTAAATATTAAATT
1 AATAAAAATTTAAATATTAAAAT
*** *
2779075 AATAATTTTTTTAATATTAAAAT
1 AATAAAAATTTAAATATTAAAAT
2779098 AATAA
1 AATAA
2779103 TCAAATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAAAAATTTAAATATTAAAAT
Found at i:2780528 original size:20 final size:21
Alignment explanation
Indices: 2780503--2780551 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2780493 GTATTAAAAA
2780503 ATAAAATAT-ATTAATTTAAC
1 ATAAAATATAATTAATTTAAC
**
2780523 ATAAAAT-TAATTTTTTTAAC
1 ATAAAATATAATTAATTTAAC
2780543 ATATAAATA
1 ATA-AAATA
2780552 GTATGCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 19 0.79
21 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATATAATTAATTTAAC
Found at i:2784918 original size:13 final size:13
Alignment explanation
Indices: 2784902--2784958 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2784892 TTATTTTTTA
2784902 TATTATTAATATT
1 TATTATTAATATT
*
2784915 TATTTTTAATATT
1 TATTATTAATATT
* *
2784928 TATCA-TAATTAAT
1 TATTATTAA-TATT
*
2784941 TA-TAATAATATT
1 TATTATTAATATT
2784953 TATTAT
1 TATTAT
2784959 ATTTACAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATTAATATT
Found at i:2785813 original size:20 final size:20
Alignment explanation
Indices: 2785771--2785813 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2785761 AAATCGTATC
* *
2785771 ATATTTATTACATTATTTTT
1 ATATTTATTAAATTATTTAT
2785791 ATATTTATTAAA-TATATTAT
1 ATATTTATTAAATTAT-TTAT
2785811 ATA
1 ATA
2785814 AAGTCATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTATTAAATTATTTAT
Found at i:2786769 original size:2 final size:2
Alignment explanation
Indices: 2786762--2786794 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2786752 CTGGTACATA
2786762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2786795 TAGGACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2787437 original size:15 final size:16
Alignment explanation
Indices: 2787406--2787451 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
2787396 TTTTTTTGAA
*
2787406 AGAAATATAATAATTT
1 AGAAATATAAAAATTT
2787422 AGAAATA-AAAAATTT
1 AGAAATATAAAAATTT
*
2787437 A-AAATATAGAAATTT
1 AGAAATATAAAAATTT
2787452 TAAATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 5 0.19
15 15 0.56
16 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
AGAAATATAAAAATTT
Found at i:2787947 original size:2 final size:2
Alignment explanation
Indices: 2787931--2787973 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
2787921 ATTTATTATC
* * *
2787931 AT AT -T AT AT AC AT AT AT AT AT TT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2787972 AT
1 AT
2787974 CATACAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2789390 original size:39 final size:40
Alignment explanation
Indices: 2789318--2789395 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
2789308 GTAAAAAAAT
*
2789318 ATATTTTTTTTACATTTTGATATTTATAAATATTAATTAA
1 ATATTTTTTATACATTTTGATATTTATAAATATTAATTAA
* *
2789358 ATATTATTTTATA-ATTTTTATATTTA-ATATATTAATTA
1 ATATT-TTTTATACATTTTGATATTTATAAATATTAATTA
2789396 TATTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 11 0.32
40 17 0.50
41 6 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (40 bp):
ATATTTTTTATACATTTTGATATTTATAAATATTAATTAA
Found at i:2789619 original size:5 final size:6
Alignment explanation
Indices: 2789592--2789618 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2789582 AACAGAGGCA
2789592 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
2789619 AAGAGCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:2790312 original size:4 final size:5
Alignment explanation
Indices: 2790285--2790380 Score: 53
Period size: 5 Copynumber: 20.2 Consensus size: 5
2790275 TATGGTATAA
* *
2790285 AATAT AAAAT AAATAT AATAT AAT-T AATA- AATAT ATAAAT AATAT AATAT
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT
* * * * * *
2790335 -TTAT AAAAT AAAAT ATTAT -TTAT AATA- AA-AT AATAT -ATTT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2790380 A
1 A
2790381 TATTTTATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
3 1 0.01
4 22 0.31
5 39 0.56
6 8 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:2790373 original size:19 final size:19
Alignment explanation
Indices: 2790288--2790375 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 19
2790278 GGTATAAAAT
*
2790288 ATAAAATAA-ATATAATATA
1 ATAAAATAATATAT-TTATA
* *
2790307 AT-TAATAA-ATATATA-A
1 ATAAAATAATATATTTATA
* *
2790323 ATAATATAATAT-TTATAAA
1 ATAAAATAATATATT-TATA
2790342 ATAAAAT-AT-TATTTATA
1 ATAAAATAATATATTTATA
2790359 ATAAAATAATATATTTA
1 ATAAAATAATATATTTA
2790376 ATATATATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.05
17 19 0.34
18 19 0.34
19 15 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATAATATATTTATA
Found at i:2790380 original size:22 final size:22
Alignment explanation
Indices: 2790288--2790378 Score: 84
Period size: 24 Copynumber: 4.1 Consensus size: 22
2790278 GGTATAAAAT
*
2790288 ATAAAATAAATATAATATAATTA
1 ATAAAATAAA-ATAATATATTTA
*
2790311 ATAAATATATAAATAATATAATATTT
1 ATAAA-ATA-AAATAATAT-AT-TTA
2790337 ATAAAATAAAAT-AT-TATTT-
1 ATAAAATAAAATAATATATTTA
2790356 AT--AATAAAATAATATATTTA
1 ATAAAATAAAATAATATATTTA
2790376 ATA
1 ATA
2790379 TATATTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
17 8 0.14
18 2 0.03
19 7 0.12
20 4 0.07
21 2 0.03
22 1 0.02
23 7 0.12
24 14 0.24
25 6 0.10
26 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAATAAAATAATATATTTA
Found at i:2790669 original size:3 final size:3
Alignment explanation
Indices: 2790661--2790701 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2790651 TGTATTTGTT
2790661 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2790702 GTAAAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2795959 original size:2 final size:2
Alignment explanation
Indices: 2795952--2795992 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2795942 TCATGCATGC
*
2795952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2795993 TTGATGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2797047 original size:24 final size:25
Alignment explanation
Indices: 2796997--2797048 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
2796987 AACATTTTAT
* *
2796997 AAAATATTTTTATTTATTTTCTCTC
1 AAAATATTTTTATTAATTTTCTATC
2797022 AAAATATTTTT-TTAATTTT-TAATC
1 AAAATATTTTTATTAATTTTCT-ATC
2797046 AAA
1 AAA
2797049 TTGAAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 12 0.50
25 11 0.46
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (25 bp):
AAAATATTTTTATTAATTTTCTATC
Found at i:2799012 original size:2 final size:2
Alignment explanation
Indices: 2799005--2799029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2798995 CTGATGATGG
2799005 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2799030 GTTAGAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2799447 original size:2 final size:2
Alignment explanation
Indices: 2799440--2799483 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2799430 AAACTGACAC
2799440 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2799482 AG
1 AG
2799484 CAATGGATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2799889 original size:24 final size:24
Alignment explanation
Indices: 2799857--2799908 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2799847 TTAAATATAA
* *
2799857 ATATAAAAATATTATATT-TTAAAT
1 ATATAAAAAAATT-TATTAATAAAT
2799881 ATATAAAAAAATTTATTAATAAAT
1 ATATAAAAAAATTTATTAATAAAT
2799905 ATAT
1 ATAT
2799909 TTAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAAAAAAATTTATTAATAAAT
Found at i:2808624 original size:32 final size:33
Alignment explanation
Indices: 2808584--2808647 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
2808574 ATATATTTAA
2808584 AATTTTGACATATTAA-TTATTTATGTTATATC
1 AATTTTGACATATTAATTTATTTATGTTATATC
2808616 AATTTTGACATATTAATTTATTTATGTTATAT
1 AATTTTGACATATTAATTTATTTATGTTATAT
2808648 TTATATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (33 bp):
AATTTTGACATATTAATTTATTTATGTTATATC
Done.