Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 69 of 133
Found at i:13495970 original size:25 final size:24
Alignment explanation
Indices: 13495942--13496011 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
13495932 ACTTAATAAT
13495942 TTTAATAATAATTTGTAATTATTTA
1 TTTAATAATAATTT-TAATTATTTA
** *
13495967 TTTAATTTTAATTTATAA--ATTAA
1 TTTAATAATAATTT-TAATTATTTA
*
13495990 TAT-ATAATAATTTTAATTATTT
1 TTTAATAATAATTTTAATTATTT
13496012 TACTAGAACC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
21 3 0.09
22 8 0.23
23 9 0.26
25 15 0.43
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TTTAATAATAATTTTAATTATTTA
Found at i:13496850 original size:17 final size:17
Alignment explanation
Indices: 13496820--13496863 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
13496810 AATAATAAAT
*
13496820 TAATTAATTATATAATAA
1 TAATT-ATTATATAACAA
13496838 TAA-TATTATTATAACAA
1 TAATTATTA-TATAACAA
13496855 TAATTATTA
1 TAATTATTA
13496864 AATCCAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATTATTATATAACAA
Found at i:13497076 original size:16 final size:16
Alignment explanation
Indices: 13497013--13497076 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
13497003 ATAAATTATG
*
13497013 ATAATAATAAATATTT
1 ATAATAATAATTATTT
* * *
13497029 ATTATAATTATTATAT
1 ATAATAATAATTATTT
*
13497045 ATAATAA-AATAGATTT
1 ATAATAATAAT-TATTT
*
13497061 AAAATAATAATTATTT
1 ATAATAATAATTATTT
13497077 TATATTTTAC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 2 0.06
16 31 0.86
17 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATAATAATTATTT
Found at i:13497500 original size:14 final size:14
Alignment explanation
Indices: 13497481--13497556 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 14
13497471 ATGTTAATTT
13497481 ATAATATAATATTA
1 ATAATATAATATTA
13497495 ATAATATAAATTATTA
1 ATAATAT-AA-TATTA
*
13497511 TTAACTTATAATAATTA
1 ATAA--TATAAT-ATTA
*
13497528 ATTAATA-AAT-TTT
1 A-TAATATAATATTA
*
13497541 AT-ATATTATATTA
1 ATAATATAATATTA
13497554 ATA
1 ATA
13497557 TATTAAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
11 3 0.06
12 3 0.06
13 7 0.15
14 7 0.15
15 5 0.10
16 11 0.23
17 6 0.12
18 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATATAATATTA
Found at i:13497562 original size:30 final size:30
Alignment explanation
Indices: 13497478--13497562 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 30
13497468 ATTATGTTAA
*
13497478 TTTATAATATAATATTAATA-A-T-ATAAAT
1 TTTAT-ATATTATATTAATATATTAATAAAT
*
13497506 TATTAT-TAACTTATAATAAT-TAATTAATAAAT
1 T-TTATAT-A-TTATATTAATAT-ATTAATAAAT
13497538 TTTATATATTATATTAATATATTAA
1 TTTATATATTATATTAATATATTAA
13497563 ATTATAATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 12 0.27
30 15 0.33
31 7 0.16
32 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTATATATTATATTAATATATTAATAAAT
Found at i:13497568 original size:18 final size:19
Alignment explanation
Indices: 13497461--13497568 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 19
13497451 ATATAATACT
* *
13497461 TATTAATATTATGTTAATT
1 TATTAATATTATATTAATA
*
13497480 TA-TAATATAATATTAATA
1 TATTAATATTATATTAATA
13497498 -ATATAA-ATTATTATTAACT-
1 TAT-TAATATTA-TATTAA-TA
13497517 TA-TAATAATTA-ATTAATAAA
1 TATTAAT-ATTATATTAAT--A
*
13497537 TTTTATATATTATATTAATA
1 TATTA-ATATTATATTAATA
13497557 TATTAA-ATTATA
1 TATTAATATTATA
13497569 ATAGCCAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
17 2 0.03
18 30 0.43
19 12 0.17
20 12 0.17
21 6 0.09
22 8 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TATTAATATTATATTAATA
Found at i:13498049 original size:27 final size:26
Alignment explanation
Indices: 13497973--13498049 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 26
13497963 ATAAGTTAAA
* * *
13497973 TTAATATA-TAAAATA-ATTAATTAT
1 TTAATAAACTAAAATATTTTAATAAT
* **
13497997 TTAATAAATTATTATATTTTATATAAT
1 TTAATAAACTAAAATATTTTA-ATAAT
13498024 TTAATAAACTAAAATTATTTTAATAA
1 TTAATAAACTAAAA-TATTTTAATAA
13498050 CTATTACATA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
24 7 0.17
25 5 0.12
26 3 0.07
27 19 0.46
28 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATAAACTAAAATATTTTAATAAT
Found at i:13498639 original size:11 final size:11
Alignment explanation
Indices: 13498623--13498680 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
13498613 TATTTCAAAT
13498623 TAATTAATTAA
1 TAATTAATTAA
13498634 TAATTAATTAA
1 TAATTAATTAA
13498645 TGATATT-ATTCAA
1 T-A-ATTAATT-AA
*
13498658 CAA-TAATT-A
1 TAATTAATTAA
13498667 TAATTAATT-A
1 TAATTAATTAA
13498677 TAAT
1 TAAT
13498681 ATTTTATCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.08
10 11 0.28
11 16 0.40
12 5 0.12
13 5 0.12
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTAATTAA
Found at i:13498817 original size:16 final size:15
Alignment explanation
Indices: 13498796--13498830 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13498786 GTTAATAATT
13498796 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
13498812 TATAATAATTAAATG
1 TATAATAATCAAATG
13498827 TATA
1 TATA
13498831 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:13498993 original size:14 final size:14
Alignment explanation
Indices: 13498964--13499002 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13498954 ATATCGATAA
*
13498964 TTAAATA-ATAAAT
1 TTAAATATATTAAT
13498977 TTAAATATATTAAT
1 TTAAATATATTAAT
13498991 TTAAATAT-TTAA
1 TTAAATATATTAA
13499003 AATTTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAATATATTAAT
Found at i:13499624 original size:32 final size:29
Alignment explanation
Indices: 13499553--13499627 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
13499543 ATATATTTTA
13499553 ATATA-TAATTATAAAATAGATAATTAAT
1 ATATATTAATTATAAAATAGATAATTAAT
* *
13499581 ATATATAAATTATCAAATA-ATTAATTATTAT
1 ATATATTAATTATAAAATAGA-TAATTA--AT
13499612 ATTATATTAATTATAA
1 A-TATATTAATTATAA
13499628 TTATTATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 6 0.16
29 17 0.45
31 3 0.08
32 12 0.32
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATATTAATTATAAAATAGATAATTAAT
Found at i:13499642 original size:17 final size:15
Alignment explanation
Indices: 13499512--13499647 Score: 78
Period size: 17 Copynumber: 8.3 Consensus size: 15
13499502 TAATAAATAA
*
13499512 AATTATATAAAATTAT
1 AATTATAT-TAATTAT
*
13499528 AATTA-ATTAAGTAT
1 AATTATATTAATTAT
*
13499542 AATATATTTTAATATAT
1 AAT-TATATTAAT-TAT
* *
13499559 AATTATAAAATAGATAATT
1 AATTAT--ATTA-ATTA-T
*
13499578 AATATATATAAATTAT
1 AAT-TATATTAATTAT
*
13499594 CAAATA-ATTAATTATT
1 -AATTATATTAATTA-T
13499610 ATATTATATTAATTAT
1 A-ATTATATTAATTAT
13499626 AATTATTATTAATTTAT
1 AATTA-TATTAA-TTAT
13499643 AATTA
1 AATTA
13499648 GTATATTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
14 8 0.09
15 16 0.17
16 27 0.29
17 28 0.30
18 5 0.05
19 6 0.06
20 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AATTATATTAATTAT
Found at i:13499727 original size:17 final size:17
Alignment explanation
Indices: 13499705--13499738 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13499695 TTTTATAAAT
*
13499705 TTAATTTAA-TATTTAA
1 TTAAATTAATTATTTAA
13499721 TTAAATTAATTATTTAA
1 TTAAATTAATTATTTAA
13499738 T
1 T
13499739 ATTATCCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTAATTATTTAA
Found at i:13499800 original size:22 final size:21
Alignment explanation
Indices: 13499757--13499817 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
13499747 ATAATTACTT
*
13499757 ATTTATAATTATATAA-ATTTAA
1 ATTTATAA-TATATAATAATT-A
13499779 ATTTATAATATATAATAATTA
1 ATTTATAATATATAATAATTA
13499800 A--TATAATATTATAATAAT
1 ATTTATAATA-TATAATAAT
13499818 AATAATATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 9 0.25
22 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTATAATATATAATAATTA
Found at i:13499801 original size:14 final size:13
Alignment explanation
Indices: 13499786--13499826 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
13499776 TAAATTTATA
13499786 ATATATAATAATT
1 ATATATAATAATT
13499799 A-ATATAAT-ATT
1 ATATATAATAATT
*
13499810 ATA-ATAATAATA
1 ATATATAATAATT
13499822 ATATA
1 ATATA
13499827 ATTTGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 9 0.38
12 13 0.54
13 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATAATAATT
Found at i:13499808 original size:17 final size:17
Alignment explanation
Indices: 13499783--13499828 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13499773 ATTTAAATTT
13499783 ATAAT-ATATAATAATTA
1 ATAATAATATAATAA-TA
*
13499800 AT-ATAATATTATAATA
1 ATAATAATATAATAATA
13499816 ATAATAATATAAT
1 ATAATAATATAAT
13499829 TTGTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATATAATAATA
Found at i:13499827 original size:14 final size:14
Alignment explanation
Indices: 13499782--13499828 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
13499772 AATTTAAATT
13499782 TATAATATATAATAA
1 TATAATA-ATAATAA
*
13499797 T-TAAT-ATAATAT
1 TATAATAATAATAA
13499809 TATAATAATAATAA
1 TATAATAATAATAA
13499823 TATAAT
1 TATAAT
13499829 TTGTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 16 0.57
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:13500351 original size:175 final size:175
Alignment explanation
Indices: 13499907--13500551 Score: 697
Period size: 176 Copynumber: 3.6 Consensus size: 175
13499897 AATAGTGATG
* * * * * * *
13499907 ACTATTTAAACATTTATCTATTTCAAATTGTTATGACATTTTGTTTTGTTATAAAACAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATAATAAACCAATTGTTT
* * * * *
13499972 CTGTTCATACAAACTTATTTCGAATAAAATAATTAAATTAATAAATTTTCCAAAATTTAATAAGT
66 CTGTTCATACAAGCTTATTTCAAATAAAATAATTAAATTTATTAATATTCCAAAATTTAATAAGT
* *
13500037 AAAAATTTTAAAAATAATTTTTTTTGAACATGTTCGAATAGTTCTA
131 AAAAATTTAAAAAATAATTTTTTTT-AACATGTTCAAATAGTTCTA
* * * * * * *
13500083 ACTATTTGAACAGTTGTTTATTTCAAATAGTTATGATCTTTTATTTTATGATAAACTAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATAATAAACCAATTGTTT
* * *
13500148 CTGTCCATACAAGCTTATTTCGAATAAAATAATTAAATTTATTGATATTCCAAAATTTAATAAGT
66 CTGTTCATACAAGCTTATTTCAAATAAAATAATTAAATTTATTAATATTCCAAAATTTAATAAGT
* * *
13500213 AAAAATTGAAAAAATAATTTTTTTTAACATGTTCAAATAGATCTG
131 AAAAATTTAAAAAATAATTTTTTTTAACATGTTCAAATAGTTCTA
* * *
13500258 ACTATTTGAACAATTATCTATTTCAAATAATTATGACCTTTTGTTTTGTAATGAACCAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATAATAAACCAATTGTTT
* *
13500323 CTG-TCTATATAAGCTTA-TTCAAAATAAAATAA-TACTAATTTAATAATATTCCAACAA-TTAA
66 CTGTTC-ATACAAGCTTATTTC-AAATAAAATAATTA--AATTTATTAATATTCCAA-AATTTAA
* * * * * *
13500384 TAAGTAAAAGATTTAAAAAATAAATTTATTTACCGAGTAAGCTCTAATAGTTGTA
126 TAAGTAAAA-ATTTAAAAAATAATTTTTTTTAAC-A-T--GTTCAAATAGTTCTA
* * * * * * *
13500439 ACTGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTTGTTTTATCATAAAGCAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATAATAAACCAATTGTTT
* * * *
13500504 CTATTCATACAAGTTTA-TTCAAAATAAAATAATATTACTTTATTAATA
66 CTGTTCATACAAGCTTATTTC-AAATAAAATAAT-TAAATTTATTAATA
13500552 ATTTGCAAAT
Statistics
Matches: 393, Mismatches: 63, Indels: 21
0.82 0.13 0.04
Matches are distributed among these distances:
174 6 0.02
175 95 0.24
176 164 0.42
177 22 0.06
178 1 0.00
179 1 0.00
181 101 0.26
182 2 0.01
183 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (175 bp):
ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATAATAAACCAATTGTTT
CTGTTCATACAAGCTTATTTCAAATAAAATAATTAAATTTATTAATATTCCAAAATTTAATAAGT
AAAAATTTAAAAAATAATTTTTTTTAACATGTTCAAATAGTTCTA
Found at i:13501524 original size:21 final size:22
Alignment explanation
Indices: 13501499--13501545 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
13501489 TTATTTGTTC
13501499 ATTAAACTAATA-ATATT-TATA
1 ATTAAACTAATACATATTAT-TA
*
13501520 ATT-AATTAATACATATTATTA
1 ATTAAACTAATACATATTATTA
13501541 ATTAA
1 ATTAA
13501546 TTATTAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAACTAATACATATTATTA
Found at i:13501546 original size:21 final size:20
Alignment explanation
Indices: 13501506--13501548 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13501496 TTCATTAAAC
13501506 TAATAATATTTATAATTAAT
1 TAATAATATTTATAATTAAT
13501526 TAATACATA-TTATTAATTAAT
1 TAATA-ATATTTA-TAATTAAT
13501547 TA
1 TA
13501549 TTAACCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATATTTATAATTAAT
Found at i:13501584 original size:24 final size:24
Alignment explanation
Indices: 13501539--13501592 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
13501529 TACATATTAT
* * *
13501539 TAATTAATTATTAACCATTTGAAA
1 TAATTAATAATTAAACAATTGAAA
*
13501563 TAATTAATAATTAAACAATTGATA
1 TAATTAATAATTAAACAATTGAAA
13501587 -AATTAA
1 TAATTAA
13501593 ATGGCCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (24 bp):
TAATTAATAATTAAACAATTGAAA
Found at i:13501980 original size:12 final size:15
Alignment explanation
Indices: 13501948--13501979 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13501938 CTATTAAAAA
13501948 TATATTATTATAATT
1 TATATTATTATAATT
13501963 TATATTATT-TAATT
1 TATATTATTATAATT
13501977 TAT
1 TAT
13501980 TTTCGAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATTATAATT
Found at i:13502247 original size:37 final size:40
Alignment explanation
Indices: 13502206--13502280 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 40
13502196 TCATAACACT
*
13502206 TATTT-ATAATTAT-TTAATTTA-ATTATAATA-TAATACC
1 TATTTAAT-ATTATGTTAATTTATAATATAATATTAATACC
13502243 TATTTAATATTATGTTAATTTATAATATAATATTAATA
1 TATTTAATATTATGTTAATTTATAATATAATATTAATA
13502281 ATATAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 10 0.30
38 10 0.30
39 8 0.24
40 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (40 bp):
TATTTAATATTATGTTAATTTATAATATAATATTAATACC
Found at i:13502288 original size:37 final size:35
Alignment explanation
Indices: 13502214--13502289 Score: 82
Period size: 37 Copynumber: 2.1 Consensus size: 35
13502204 CTTATTTATA
* *
13502214 ATTATTTAATTTAATTATAATATAATACCTATTTAAT
1 ATTATTTAATTTAAATATAATATAATA-C-ATATAAT
13502251 ATTATGTTAATTTATAATATAATATTAATA-ATATAAT
1 ATTAT-TTAATTTA-AATATAATA-TAATACATATAAT
13502288 AT
1 AT
13502290 AAATTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 13 0.38
38 8 0.24
39 8 0.24
40 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (35 bp):
ATTATTTAATTTAAATATAATATAATACATATAAT
Found at i:13502836 original size:27 final size:26
Alignment explanation
Indices: 13502760--13502838 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
13502750 ATAAGTTAAA
* * *
13502760 TTAATATA-TAAAATA-ATTAATTAT
1 TTAATAAACTAAAATATTTTAATAAT
* **
13502784 TTAATAAATTATTATATTTTATATAAT
1 TTAATAAACTAAAATATTTTA-ATAAT
13502811 TTAATAAACTAAAATTATTTTAATAAT
1 TTAATAAACTAAAA-TATTTTAATAAT
13502838 T
1 T
13502839 ATTACATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 7 0.16
25 5 0.12
26 3 0.07
27 21 0.49
28 7 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATAAACTAAAATATTTTAATAAT
Found at i:13503428 original size:11 final size:11
Alignment explanation
Indices: 13503412--13503469 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
13503402 TATTTCAAAT
13503412 TAATTAATTAA
1 TAATTAATTAA
13503423 TAATTAATTAA
1 TAATTAATTAA
13503434 TGATATT-ATTCAA
1 T-A-ATTAATT-AA
*
13503447 CAA-TAATT-A
1 TAATTAATTAA
13503456 TAATTAATT-A
1 TAATTAATTAA
13503466 TAAT
1 TAAT
13503470 ATTTTATCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.08
10 11 0.28
11 16 0.40
12 5 0.12
13 5 0.12
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTAATTAA
Found at i:13503607 original size:16 final size:15
Alignment explanation
Indices: 13503586--13503620 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13503576 TTAATAATTT
13503586 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
13503602 TATAATAATTAAATG
1 TATAATAATCAAATG
13503617 TATA
1 TATA
13503621 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:13504351 original size:10 final size:10
Alignment explanation
Indices: 13504319--13504343 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13504309 ATTATATAAC
13504319 AATTATAATT
1 AATTATAATT
13504329 AATTATAATT
1 AATTATAATT
13504339 AATTA
1 AATTA
13504344 AGTATAATAT
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:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTATAATT
Found at i:13504449 original size:26 final size:26
Alignment explanation
Indices: 13504404--13504463 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
13504394 AAATTATCAA
* *
13504404 ATAATTAATTATTATATTATATTTATT
1 ATAATT-ATTATTATATTATAATTAGT
13504431 ATAATTATTATTA-ATTTATAATTAGT
1 ATAATTATTATTATA-TTATAATTAGT
13504457 AT-ATTAT
1 ATAATTAT
13504464 AAATTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.20
26 18 0.60
27 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATAATTATTATTATATTATAATTAGT
Found at i:13504616 original size:17 final size:18
Alignment explanation
Indices: 13504596--13504633 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
13504586 AATTTATAAT
13504596 ATATAATAAT-TAATATA
1 ATATAATAATATAATATA
13504613 ATATAATAATAATAATATA
1 ATATAATAAT-ATAATATA
13504632 AT
1 AT
13504634 TTGTTAATAT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAATAATATAATATA
Found at i:13504630 original size:14 final size:14
Alignment explanation
Indices: 13504591--13504633 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
13504581 ATTTAAATTT
13504591 ATAATATATAATA-A
1 ATAATA-ATAATATA
*
13504605 TTAAT-ATAATATA
1 ATAATAATAATATA
13504618 ATAATAATAATATA
1 ATAATAATAATATA
13504632 AT
1 AT
13504634 TTGTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:13504642 original size:19 final size:20
Alignment explanation
Indices: 13504590--13504633 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
13504580 AATTTAAATT
13504590 TATAATAT-ATAATAATTAA
1 TATAATATAATAATAATTAA
13504609 TATAATATAATAATAA-TAA
1 TATAATATAATAATAATTAA
13504628 TATAAT
1 TATAAT
13504634 TTGTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAATATAATAATAATTAA
Found at i:13505332 original size:181 final size:179
Alignment explanation
Indices: 13504617--13505860 Score: 1052
Period size: 181 Copynumber: 7.0 Consensus size: 179
13504607 AATATAATAT
* * * * *
13504617 AATAATAATAATATAATTTGTTAATATTCTAAAAATTAATGAGTAAGAGATTTAAAAAAATGAAT
1 AATAA-AATAATATAATTTATTAATATTC-CAAAATTAATAAGTAAAAGATTT-AAAAAATAAAT
* * * * * * *
13504682 CTGTTTACTGAACAAGTTTAAATAGTGATGACTATTTAAACATTTATCTATTTCAAATTGTTATG
63 CTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATG
* * ***
13504747 ACATTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATATAAGCTTATTTTG
128 ACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAA
* *
13504799 AATAAAATAAT-TAAATTAATTAATATTCCAAAATTTAATAAGTAAAA-ATTTTAAAAAT-AAT-
1 AATAAAATAATAT-AATTTATTAATATTCCAAAA-TTAATAAGTAAAAGATTTAAAAAATAAATC
* *** * * * * * * *
13504860 TTTTTTTTGAACATGCTCGAATAGTTCTAACTATTTGAACAATTGTTTATTTCAAATAGTTATGA
64 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGA
* * * * **
13504925 CCTTTTGTTTTATGATAAACCAATTGTTTCTGTCCATACAAGCTTATTCCG
129 CCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAA
*
13504976 AATAAAATAAT-TAAATTTATTGATATTCCAAAATTTAATAAGTAAAA-ATTTAAAAAAT-AAT-
1 AATAAAATAATAT-AATTTATTAATATTCCAAAA-TTAATAAGTAAAAGATTTAAAAAATAAATC
** * * * *
13505037 T-TTT--TTAACATGTTCAAATAGATCTGACTATTTGAACAATTATCTATTTCAAATAATTATGA
64 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGA
* * * * * *
13505099 CCCTTTGTTTTGTGATGAACCAATTGTTTCTG-TCTATATAAGCTTGTTCAA
129 CCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTC-ATACAAGCTTATTCAA
* * *
13505150 AATAAAATAATACTAATTTAATAATATCCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATT
1 AATAAAATAATA-TAATTTATTAATATTCCAA-AATTAATAAGTAAAAGATTTAAAAAATAAATC
* ** * * * * * *
13505215 TGTTTACCGAGTAAGCTCAAATAGTTATAACTGTTTGAACAATTTTTTATTTCTAATAGTTATGA
64 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGA
* * * * * *
13505280 TCTTTTGTTTTATCATAAAGCAATTATTTCTATTCATACAAGTTTATTCAA
129 CCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAA
** *** * **
13505331 AATAAAATAATATTGCTTTATTAATAATTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATC
1 AATAAAATAATA-TAATTTATTAAT-ATTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATC
* * * * *
13505396 TATTTACCGAACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCAAATTGTTATGA
64 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGA
* * *
13505461 CCTTTTGTTTTGTCATAAAATAATTGTTTCTGTTCACAC-AGAATTATTCAA
129 CCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAG-CTTATTCAA
* * ** *
13505512 AA-AAAATAATTTTGATTTATTAATATTTTAAAAATTAATAAG----AGATTTAAAAACTAAATC
1 AATAAAATAA-TATAATTTATTAATA-TTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATC
** * * *
13505572 TATTTACTAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATCTCAAATCA-TAATG
64 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAAT-AGTTATG
* * * * ***
13505636 A-TTTTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCATATTTGG
128 ACCTTTTGTTTTGTCATAAAACAATTGTTT-CTGTTCATACAAGCTTATTCAA
* * * * *
13505687 ATTAAAATGATACTAATTTAATAATATTTCAAAAATTAATAAG----AGATTTAAAAAATAAATA
1 AATAAAATAATA-TAATTTATTAATA-TTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATC
* * ** * *
13505748 TA-TTAGCCGAACTAGTTCAAATAGTTAAGACTATCAGAATAATTATCTATTTCAAATCA-TTCT
64 TATTTA-CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAAT-AGTTAT
* * *
13505811 -ATCCTTTTGTTTAGTCATAAAATAATTATTT-TAGTTCATACAAGCTTATT
127 GA-CCTTTTGTTTTGTCATAAAACAATTGTTTCT-GTTCATACAAGCTTATT
13505861 TGGAATAAAA
Statistics
Matches: 874, Mismatches: 161, Indels: 59
0.80 0.15 0.05
Matches are distributed among these distances:
173 1 0.00
174 102 0.12
175 69 0.08
176 190 0.22
177 192 0.22
178 4 0.00
179 10 0.01
180 42 0.05
181 254 0.29
182 10 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (179 bp):
AATAAAATAATATAATTTATTAATATTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTA
TTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACC
TTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCAA
Found at i:13505871 original size:533 final size:531
Alignment explanation
Indices: 13504896--13505860 Score: 1105
Period size: 533 Copynumber: 1.8 Consensus size: 531
13504886 CTAACTATTT
* * * *
13504896 GAACAATTGTTTATTTCAAATAGTTATGACCTTTTGTTTTATGATAAACCAATTGTTTCTGTCCA
1 GAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTCTGTCCA
* * * * * *
13504961 TACAAGCTTATTCCGAATAAAATAATTAAATTTATTGATATTCCAAAATTTAATAAGTAAAAATT
66 CACAAGATTATTCCAAAAAAAATAATTAAATTTATTAATATTCCAAAAATTAATAAG--AAAATT
* * *
13505026 TAAAAAATAATTTTTTTAACATGTTCAAATAGATCTGACTATTTGAACAATTATCTATTTCAAAT
129 TAAAAAATAATTTTTTAAACATGTTCAAATAGATATGACTATTTGAACAATTATCTATCTCAAAT
* * * * * * *
13505091 AATTATGACCCTTTGTTTTGTGATGAACCAATTGTTTCTGTCTATATAAGCTTGTTCAAAATAAA
194 AATAATGACCCTTTATTTTGTCATGAAACAATTGTTTCTGTCTATACAAGCATATTCAAAATAAA
* * *
13505156 ATAATACTAATTTAATAATATCCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTA
259 ATAATACTAATTTAATAATATCCCAAAAATTAATAAG---AAGATTTAAAAAATAAATATGATTA
* * ** * * *
13505221 CCGAGTAAGCTCAAATAGTTATAACTGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTT
321 CCGACTAAGCTCAAATAGTTATAACTATCAGAACAATTATCTATTTCAAATAGTTATGATCTTTT
* *
13505286 GTTTTATCATAAAGCAATTATTTCTATTCATACAAGTTTATTCAAAATAAAATAATATTGCTTTA
386 GTTTTATCATAAAACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATATTGCTTTA
13505351 TTAATAATTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAA
451 TTAATAATTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAA
13505416 ATAGTCATGTCCATTA
516 ATAGTCATGTCCATTA
* * * *
13505432 GAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAATAATTGTTTCTGTTCA
1 GAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTCTGTCCA
** ** *
13505497 CAC-AGAATTATT-CAAAAAAAATAATTTTGATTTATTAATATTTTAAAAATTAATAAG-AGATT
66 CACAAG-ATTATTCCAAAAAAAATAA-TTAAATTTATTAATATTCCAAAAATTAATAAGAAAATT
* *
13505559 TAAAAACTAAATCTATTTACTAAACCA-GTTCAAATAGTTATGACTATTTGAACAATTATCTATC
129 TAAAAAAT-AAT-T-TTT--TAAA-CATGTTCAAATAGATATGACTATTTGAACAATTATCTATC
* ** * *
13505623 TCAAATCATAATGA-TTTTTATTTTGTCAT-ACAACAATTGTTTCCTTTC-ATACAAGCATATTT
188 TCAAATAATAATGACCCTTTATTTTGTCATGA-AACAATTGTTT-CTGTCTATACAAGCATATTC
** * * **
13505685 GGATTAAAATGATACTAATTTAATAATATTTCAAAAATTAATAAG-AGATTTAAAAAATAAATAT
251 AAAATAAAATAATACTAATTTAATAATATCCCAAAAATTAATAAGAAGATTTAAAAAATAAATAT
* * *
13505749 -ATTAGCCGAACT-AGTTCAAATAGTTA-AGACTATCAGAATAATTATCTATTTCAAATCA-TTC
316 GATTA-CCG-ACTAAGCTCAAATAGTTATA-ACTATCAGAACAATTATCTATTTCAAAT-AGTTA
*
13505810 T-ATCCTTTTG-TTTAGTCATAAAATAATTATTT-TAGTTCATACAAGCTTATT
377 TGAT-CTTTTGTTTTA-TCATAAAACAATTATTTCTA-TTCATACAAGCTTATT
13505861 TGGAATAAAA
Statistics
Matches: 354, Mismatches: 58, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
532 12 0.03
533 105 0.30
534 6 0.02
535 13 0.04
536 94 0.27
537 69 0.19
538 53 0.15
539 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (531 bp):
GAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTCTGTCCA
CACAAGATTATTCCAAAAAAAATAATTAAATTTATTAATATTCCAAAAATTAATAAGAAAATTTA
AAAAATAATTTTTTAAACATGTTCAAATAGATATGACTATTTGAACAATTATCTATCTCAAATAA
TAATGACCCTTTATTTTGTCATGAAACAATTGTTTCTGTCTATACAAGCATATTCAAAATAAAAT
AATACTAATTTAATAATATCCCAAAAATTAATAAGAAGATTTAAAAAATAAATATGATTACCGAC
TAAGCTCAAATAGTTATAACTATCAGAACAATTATCTATTTCAAATAGTTATGATCTTTTGTTTT
ATCATAAAACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATATTGCTTTATTAAT
AATTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGT
CATGTCCATTA
Found at i:13506177 original size:11 final size:12
Alignment explanation
Indices: 13506153--13506185 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
13506143 GTAACAATAC
13506153 AATAATTAAATT
1 AATAATTAAATT
13506165 AATAATT-AATT
1 AATAATTAAATT
13506176 AATAA-TAAAT
1 AATAATTAAAT
13506186 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 12 0.60
12 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATAATTAAATT
Found at i:13506292 original size:21 final size:22
Alignment explanation
Indices: 13506267--13506313 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
13506257 TTATTTGTTC
13506267 ATTAAACTAATA-ATATT-TATA
1 ATTAAACTAATACATATTAT-TA
*
13506288 ATT-AATTAATACATATTATTA
1 ATTAAACTAATACATATTATTA
13506309 ATTAA
1 ATTAA
13506314 TTATTAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAACTAATACATATTATTA
Found at i:13506314 original size:21 final size:20
Alignment explanation
Indices: 13506274--13506316 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13506264 TTCATTAAAC
13506274 TAATAATATTTATAATTAAT
1 TAATAATATTTATAATTAAT
13506294 TAATACATA-TTATTAATTAAT
1 TAATA-ATATTTA-TAATTAAT
13506315 TA
1 TA
13506317 TTAACCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATATTTATAATTAAT
Found at i:13506352 original size:24 final size:24
Alignment explanation
Indices: 13506307--13506360 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
13506297 TACATATTAT
* * *
13506307 TAATTAATTATTAACCATTTGAAA
1 TAATTAATAATTAAACAATTGAAA
*
13506331 TAATTAATAATTAAACAATTGATA
1 TAATTAATAATTAAACAATTGAAA
13506355 -AATTAA
1 TAATTAA
13506361 ATGGCCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (24 bp):
TAATTAATAATTAAACAATTGAAA
Found at i:13506712 original size:15 final size:14
Alignment explanation
Indices: 13506676--13506738 Score: 67
Period size: 15 Copynumber: 4.4 Consensus size: 14
13506666 TACTTACAAG
13506676 TTATTAATGAAT-TA
1 TTATTAAT-AATATA
*
13506690 TAATTAATAATATA
1 TTATTAATAATATA
13506704 TCTATTAATAATATA
1 T-TATTAATAATATA
13506719 TTATT-ATAATTTATA
1 TTATTAATAA--TATA
13506734 TTATT
1 TTATT
13506739 TAATTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 7 0.16
14 14 0.33
15 22 0.51
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TTATTAATAATATA
Found at i:13507031 original size:16 final size:16
Alignment explanation
Indices: 13507001--13507033 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13506991 ATTTTTTAAT
13507001 AATTTAATATAAATTA
1 AATTTAATATAAATTA
13507017 AATTATAATAT-AATTA
1 AATT-TAATATAAATTA
13507033 A
1 A
13507034 TATATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAATATAAATTA
Found at i:13507072 original size:14 final size:14
Alignment explanation
Indices: 13507027--13507098 Score: 73
Period size: 14 Copynumber: 5.4 Consensus size: 14
13507017 AATTATAATA
13507027 TAAT-TAATATATT
1 TAATATAATATATT
*
13507040 TAACATAATATATT
1 TAATATAATATATT
13507054 TAATATAATATA-T
1 TAATATAATATATT
* *
13507067 TAA-ATAATTTGATA
1 TAATATAATAT-ATT
13507081 T-ATATAATA-ATT
1 TAATATAATATATT
13507093 TAATAT
1 TAATAT
13507099 TATTAAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.19
13 13 0.27
14 26 0.54
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:13507081 original size:17 final size:17
Alignment explanation
Indices: 13506998--13507106 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 17
13506988 ATTATTTTTT
13506998 AATAATTTAATATAAATTA
1 AATAATTTAATAT--ATTA
*
13507017 AAT--TATAATATAATT-
1 AATAATTTAATAT-ATTA
*
13507032 AATATATTTAACATAATATA
1 AATA-ATTTAATAT-AT-TA
** *
13507052 TTTAATATAATATATTA
1 AATAATTTAATATATTA
*
13507069 AATAATTTGATATA-TA
1 AATAATTTAATATATTA
13507085 TAATAATTTAATATTATTA
1 -AATAATTTAATA-TATTA
13507104 AAT
1 AAT
13507107 TATATAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
15 3 0.04
16 6 0.09
17 30 0.43
18 16 0.23
19 13 0.19
20 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
AATAATTTAATATATTA
Found at i:13507164 original size:16 final size:16
Alignment explanation
Indices: 13507143--13507185 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
13507133 ATATTACAAT
*
13507143 TAATATTATTTTAATA
1 TAATATAATTTTAATA
*
13507159 TAATATAATTTTAATTG
1 TAATATAATTTTAA-TA
13507176 TAATATAATT
1 TAATATAATT
13507186 AATATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATAATTTTAATA
Found at i:13508068 original size:157 final size:157
Alignment explanation
Indices: 13507798--13508089 Score: 361
Period size: 157 Copynumber: 1.9 Consensus size: 157
13507788 CTATTTATTG
* * * * * *
13507798 AACAAATTCAAATTGTTATGACTATCTGAATAATTATTTATTTCAAATTCTTATGACTTTTTGTT
1 AACAAATTCAAATAGTCATGACTATCTGAATAATTATCTACTTCAAATTCTTATAACATTTTGTT
* ** * * * * * *
13507863 TTGTCATAAAACAATTGTTTCTGTCCGTACGAGCTTATTCGGATTAAAATAATATTGATTTATTA
66 TTGTAATAAAACAATTGTTTCAATCCATACGAGCTTATTCGAAATAAAATAATACTAATTAATTA
13507928 ATATTTCAATAATAAATAAGTGTACTA
131 ATATTTCAATAATAAATAAGTGTACTA
* * *
13507955 AACAAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAA-TCATTGTAACATTTTGT
1 AACAAATTCAAATAGTCATGACTATCTGAATAATTATCTACTTCAAATTC-TTATAACATTTTGT
* *** *
13508019 TTTGTAATAAAACAATTGTTTCAATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTAATT
65 TTTGTAATAAAACAATTGTTTCAATCCATACGAGCTTATTCGAAATAAAATAATACTAATTAATT
13508084 AATATT
130 AATATT
13508090 CCAAAAATTA
Statistics
Matches: 111, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
156 2 0.02
157 109 0.98
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (157 bp):
AACAAATTCAAATAGTCATGACTATCTGAATAATTATCTACTTCAAATTCTTATAACATTTTGTT
TTGTAATAAAACAATTGTTTCAATCCATACGAGCTTATTCGAAATAAAATAATACTAATTAATTA
ATATTTCAATAATAAATAAGTGTACTA
Found at i:13508276 original size:182 final size:180
Alignment explanation
Indices: 13507955--13508306 Score: 478
Period size: 182 Copynumber: 1.9 Consensus size: 180
13507945 AAGTGTACTA
* **
13507955 AACAAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTT
1 AACAAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAAACATTACAACATTTTGTT
* * *
13508020 TTGTAATAAAACAATTGTTTCAATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTAATTA
66 TTGTAATAAAACAATTGGTTCAATTCATGTAAGCTTATTTCAAATAAAATAATACTAATTAATTA
13508085 ATATTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAATAAATCTGTTTATTG
131 ATATTCCAAAAATTAAAAAGTAA-A-AATTAAAAAAATAAATCTGTTTATTG
* * *
13508137 AACAAGTTCAAATAGTTATGACTATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTGT
1 AACAAGTTCAAATAGTCATGACTAT-TTGAATAATTATCTACTTCAAAACATTACAACATTTTGT
* * *
13508201 TTTGTCATAAAACAATTGGTTCTATTCAT-TCAAGCTTATTTCAAA-AAAATTAATA-TAAATTT
65 TTTGTAATAAAACAATTGGTTCAATTCATGT-AAGCTTATTTCAAATAAAA-TAATACT-AATTA
* * **
13508263 ATTAATGTTCCAAAAATTAATAAGTAAAAATTTTAAAAATAAAT
127 ATTAATATTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAAT
13508307 TTATTTAAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
180 14 0.09
181 7 0.05
182 127 0.85
183 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.38
Consensus pattern (180 bp):
AACAAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAAACATTACAACATTTTGTT
TTGTAATAAAACAATTGGTTCAATTCATGTAAGCTTATTTCAAATAAAATAATACTAATTAATTA
ATATTCCAAAAATTAAAAAGTAAAAATTAAAAAAATAAATCTGTTTATTG
Found at i:13509255 original size:361 final size:355
Alignment explanation
Indices: 13508367--13509530 Score: 1036
Period size: 361 Copynumber: 3.2 Consensus size: 355
13508357 TATTCAAAAC
* * * * * *
13508367 AAAATAATACTATTTTATTACTATTTTAAAAATTAATAAGAGATTTAAAAACTGAATCTCTTTAC
1 AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGAGATTTAAAAAATAAATCTATTTAC
* * *
13508432 CGAACCAGTTTAAATAGTTATGACTATTTGAATAATTATCT-TTCTCCAAAT-GTTATGAT-TTT
66 CGAA-CAGTTCAAATAGTTATGACTATTTGAACAATTATATATT-TCC-AATCGTTATGATCTTT
* * * * * * * * *
13508494 TGTTTTGTCCTAAAACATTTAATTTCTGTTCA-ACAAGCTTATTTAGAGTAACATATTGCTAAAT
128 TGTTTTGTCATAAAACAATTAATTTC-ATTCATACAAGCTTATCTAAAATAA-ATAATACTAATT
* * * * *
13508558 TAATAATATTCTAAACATTAATAAGTAAG-GATTTAAAAAATAAATGTGTTTGTTGAATCAGTTC
191 TAATAATATTATAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTC
* *
13508622 AAATAGTTAAGACTA-TTAGAACAATTATCTATTTCAAATCATTTTGACCTTTTGTTTAGTCATA
256 AAATAGTTAAGGCTATTTA-AACAATTATCTATTTCAAATCATTATGACCTTTT-TTT-GTCATA
* * * * *
13508686 AAATAATTG--CTTCAACTCATACATGCTTATTTGAAAT
318 AAAAAATTGTTTTTC-ACTCATACAAGCTTAGTCGAAAT
* * * *
13508723 AAAATAATACTAATTTATTAACA-TCAAAAAATTATTAAGTAAGAAATTAGAAAAA-AAATCTAT
1 AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAG--AG-ATTTA-AAAAATAAATCTAT
* * * ** * * *
13508786 TTACCGAACAAGTTCAAATATTTTTGACTATTTGAACAATTATTTATTTAAAATCATTAGGACCT
62 TTACCGAAC-AGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCCAATCGTTATGATCT
* * ** * ** * * *
13508851 TATATTTTAACATAAATCAATTTTTTTCAATTCATAAAAGCTTATCTAAAATACAATAATATTAC
126 TTTGTTTTGTCATAAAACAATTAATTTC-ATTCATACAAGCTTATCTAAAATA-AATAATACTAA
* * * * *
13508916 TTTATTAATATTATAAAAATTGATAAGTTAGAGATTTAAAATATAAATCAGTTTATCGAATCAGT
189 TTTAATAATATTATAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGT
* * *
13508981 TCAAATAATTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAACCTTTCTTTTGTCAT
254 TCAAATAGTTAAGGCTATTTAAACAATTATCTATTTCAAATCATTATG-ACCTTT-TTTTGTCAT
* *
13509046 AAAACAATTGTTTTTCA-TCATACAAGCCTAGTC-AGAAT
317 AAAAAAATTGTTTTTCACTCATACAAGCTTAGTCGA-AAT
*
13509084 AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAGGAGATTTAAAAAATAAATCTGT
1 AAAATAATACTAATTTATTAATATTTAAAAAATTAAT-A--A-GAGATTTAAAAAATAAATCTAT
** *
13509149 TTATTGAATCAGTTCAAATAGTTATG-CTATTTGAACAATTATATATTTCCAATCGTTATAATCT
62 TTACCGAA-CAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCCAATCGTTATGATCT
* * *
13509213 TTTGTTTTGTTATAAAACAATTAGTTATC-TTCATACAAGCTTATTCGAAAGA-AAATAATACTA
126 TTTGTTTTGTCATAAAACAATTAATT-TCATTCATACAAGCTTA-TCTAAA-ATAAATAATACTA
* * * * * * * * * *
13509276 ATCTAGTAATATTATAAAATTTAATAACTGATAGATTTAAAAAATGAATTTGTTTA-CCATACCA
188 ATTTAATAATATTATAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATCGA-ATCA
* * * * * *
13509340 ATTCAAATAGTTAAGGCTATATGAATAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGT-
252 GTTCAAATAGTTAAGGCTATTTAAACAATTATCTATTTCAAATCATTATGAC-CTTT-TTTTGTC
* * * *
13509404 AGTAAAAAAAATGTTTTT-ATTCATATAAG-TTTGTTCGAAAT
315 A-TAAAAAAATTGTTTTTCACTCATACAAGCTTAG-TCGAAAT
* * * *
13509445 AAAATAATATTACTTTATTAATATTTCAAAAATTAATAAGAGATTTAATAAATAAATCTATTTAC
1 AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGAGATTTAAAAAATAAATCTATTTAC
*
13509510 C-ATACTAGTTCAATTAGTTAT
66 CGA-AC-AGTTCAAATAGTTAT
13509531 TTCAAATCAT
Statistics
Matches: 648, Mismatches: 125, Indels: 69
0.77 0.15 0.08
Matches are distributed among these distances:
355 13 0.02
356 22 0.03
357 44 0.07
358 55 0.08
359 30 0.05
360 55 0.08
361 300 0.46
362 85 0.13
363 39 0.06
364 3 0.00
365 1 0.00
366 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (355 bp):
AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGAGATTTAAAAAATAAATCTATTTAC
CGAACAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCCAATCGTTATGATCTTTTGT
TTTGTCATAAAACAATTAATTTCATTCATACAAGCTTATCTAAAATAAATAATACTAATTTAATA
ATATTATAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATA
GTTAAGGCTATTTAAACAATTATCTATTTCAAATCATTATGACCTTTTTTTGTCATAAAAAAATT
GTTTTTCACTCATACAAGCTTAGTCGAAAT
Found at i:13509302 original size:180 final size:178
Alignment explanation
Indices: 13508345--13509508 Score: 884
Period size: 180 Copynumber: 6.5 Consensus size: 178
13508335 ATTATTTCTA
** * * * * *
13508345 TTCATACAAAATTATTCAAAACAAAATAATACTATTTTATTACTATTTTAAAAATTAAT-A--AG
1 TTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAG
* * * * * * *
13508407 AGATTTAAAAACTGAATCTCTTTACCGAACCAGTTTAAATAGTTATGACTATTTGAATAATTATC
66 AGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAACAATTATC
* * * * *
13508472 T-TTCTCCAAAT-GTTATGATTTTTGTTTTGTCCTAAAACATTTAATT-TC
131 TATT-T-CAAATCATTATGACTTTTGTTTTGTCATAAAACAATT-GTTATC
* * * * * * * * *
13508520 TGTTCA-ACAAGCTTATT-TAGAGTAACATATTGCTAAATTAATAATATTCTAAACATTAATAAG
1 --TTCATACAAGCTTATTCGAAAG-AAAATAATACTAATTTATTAATATTATAAAAATTAATAAG
* * * * *
13508583 TA-AGGATTTAAAAAATAAATGTGTTTGTTGAATCAGTTCAAATAGTTAAGACTATTAGAACAAT
63 TAGA-GATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAACAAT
* * * *
13508647 TATCTATTTCAAATCATTTTGACCTTTTGTTTAGTCATAAAATAATTGCTTCAAC
127 TATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAACAATTG-TT-ATC
* * * * * *
13508702 -TCATACATGCTTATTTGAAATAAAATAATACTAATTTATTAACATCA-AAAAATTATTAAGTA-
1 TTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAG
* * * * *
13508764 AGAAATTAGAAAAA-AAATCTATTTACCGAA-CAAGTTCAAATATTTTTGACTATTTGAACAATT
66 AG-ATTTA-AAAAATAAATCTGTTTATCGAATC-AGTTCAAATAGTTATGACTATTTGAACAATT
* * * * * ** * * *
13508827 ATTTATTTAAAATCATTAGGACCTTATATTTTAACATAAATCAATTTTTTTC
128 ATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAACAATTGTTATC
* * * * *
13508879 AATTCATAAAAGCTTA-TCTAAA-ATACAATAATATTACTTTATTAATATTATAAAAATTGATAA
1 --TTCATACAAGCTTATTCGAAAGA-A-AATAATACTAATTTATTAATATTATAAAAATTAATAA
* * * * * *
13508942 GTTAGAGATTTAAAATATAAATCAGTTTATCGAATCAGTTCAAATAATTATGGCCATTTAAACAA
62 G-TAGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAACAA
* * *
13509007 TTATCTATTTCAAATCATTATGAACCTTTCTTTTGTCATAAAACAATTGTTTTTC
126 TTATCTATTTCAAATCATTATG-ACTTTTGTTTTGTCATAAAACAATTG-TTATC
* * * *
13509062 ATCATACAAGCCTAGTC-AGAATAAAATAATACTAATTTATTAATATT-TAAAAAATTAATAAGT
1 TTCATACAAGCTTATTCGA-AAGAAAATAATACTAATTTATTAATATTAT-AAAAATTAATAAGT
*
13509125 AGGAGATTTAAAAAATAAATCTGTTTATTGAATCAGTTCAAATAGTTATG-CTATTTGAACAATT
64 A-GAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAACAATT
* * * * *
13509189 ATATATTTCCAATCGTTATAATCTTTTGTTTTGTTATAAAACAATTAGTTATC
128 ATCTATTTCAAATCATTATGA-CTTTTGTTTTGTCATAAAACAATT-GTTATC
* * * *
13509242 TTCATACAAGCTTATTCGAAAGAAAATAATACTAATCTAGTAATATTATAAAATTTAATAACTGA
1 TTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGT-A
* * * * * * * * * *
13509307 TAGATTTAAAAAATGAATTTGTTTA-CCATACCAATTCAAATAGTTAAGGCTATATGAATAATTA
65 GAGATTTAAAAAATAAATCTGTTTATCGA-ATCAGTTCAAATAGTTATGACTATTTGAACAATTA
* * * * *
13509371 TCTATTTCAAATCGTTATGACTTTTTGTTTTGT-AGTAAAAAAAATGTTTTTA
129 TCTATTTCAAATCATTATGAC-TTTTGTTTTGTCA-TAAAACAATTG-TTATC
* * * * * *
13509423 TTCATATAAGTTTGTTCGAAATAAAATAATATTACTTTATTAATATT-TCAAAAATTAAT-A--A
1 TTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAATATTAT-AAAAATTAATAAGTA
* *
13509484 GAGATTTAATAAATAAATCTATTTA
65 GAGATTTAAAAAATAAATCTGTTTA
13509509 CCATACTAGT
Statistics
Matches: 781, Mismatches: 162, Indels: 88
0.76 0.16 0.09
Matches are distributed among these distances:
175 2 0.00
176 37 0.05
177 27 0.03
178 11 0.01
179 161 0.21
180 237 0.30
181 210 0.27
182 86 0.11
183 10 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
TTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAG
AGATTTAAAAAATAAATCTGTTTATCGAATCAGTTCAAATAGTTATGACTATTTGAACAATTATC
TATTTCAAATCATTATGACTTTTGTTTTGTCATAAAACAATTGTTATC
Found at i:13509720 original size:20 final size:20
Alignment explanation
Indices: 13509695--13509749 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
13509685 GTTTATTATA
13509695 ATATTATAATTATATTAAAT
1 ATATTATAATTATATTAAAT
* *
13509715 ATATTA-AAATAT-TTTAAT
1 ATATTATAATTATATTAAAT
*
13509733 AAATATATAATTA-ATTA
1 ATAT-TATAATTATATTA
13509750 TTTATTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATAATTATATTAAAT
Found at i:13510522 original size:19 final size:20
Alignment explanation
Indices: 13510494--13510537 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
13510484 TAACTAAGAT
*
13510494 TAAATAATAATTTATTTAATA
1 TAAATAATAA-TAATTTAATA
13510515 -AAAT-ATAATAATTTAATA
1 TAAATAATAATAATTTAATA
13510533 TAAAT
1 TAAAT
13510538 CAGTTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATAATAATTTAATA
Found at i:13510753 original size:27 final size:27
Alignment explanation
Indices: 13510723--13510785 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
13510713 GAATTAAAAC
13510723 AATTATAGTAATAATATATATTAT-TTT
1 AATTATA-TAATAATATATATTATATTT
* *
13510750 AATTATA-ATTAAAATATATTATATTT
1 AATTATATAATAATATATATTATATTT
13510776 AA--ATATAATA
1 AATTATATAATA
13510786 TAATAAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 3 0.10
25 16 0.52
26 5 0.16
27 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AATTATATAATAATATATATTATATTT
Found at i:13510770 original size:16 final size:16
Alignment explanation
Indices: 13510751--13510789 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13510741 TATTATTTTA
13510751 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
13510767 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
13510782 AATATAAT
1 ATTATAAT
13510790 AAACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:13510935 original size:22 final size:22
Alignment explanation
Indices: 13510910--13510952 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13510900 ATTTATTAAT
13510910 ACATTATAATAAATATA-TTATA
1 ACATTATAATAAA-ATAGTTATA
13510932 ACATTATAATAAAATAGTTAT
1 ACATTATAATAAAATAGTTAT
13510953 TTTATTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
ACATTATAATAAAATAGTTATA
Found at i:13511171 original size:17 final size:17
Alignment explanation
Indices: 13511117--13511174 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
13511107 TATTATTTAC
13511117 TTTAATAATTT-ATATAAT
1 TTTAAT-ATTTAAT-TAAT
*
13511135 TTTAATA-TTAA-TAAA
1 TTTAATATTTAATTAAT
*
13511150 ATTAATATTTAATTAAT
1 TTTAATATTTAATTAAT
13511167 TTTAATAT
1 TTTAATAT
13511175 AATTATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 9 0.27
16 6 0.18
17 12 0.36
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATATTTAATTAAT
Found at i:13511219 original size:16 final size:16
Alignment explanation
Indices: 13511198--13511265 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 16
13511188 TTTCATATTG
13511198 TAATATTATAATTATA
1 TAATATTATAATTATA
*
13511214 TAATATTATAACTATTA
1 TAATATTATAATTA-TA
13511231 TTAATAGTTATAATT-TAA
1 -TAATA-TTATAATTAT-A
13511249 TAAT-TTATAACTTATA
1 TAATATTATAA-TTATA
13511265 T
1 T
13511266 TGATATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.14
16 17 0.39
17 8 0.18
18 6 0.14
19 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (16 bp):
TAATATTATAATTATA
Found at i:13511244 original size:9 final size:8
Alignment explanation
Indices: 13511172--13511258 Score: 65
Period size: 8 Copynumber: 10.6 Consensus size: 8
13511162 TTAATTTTAA
13511172 TATAATTAT
1 TATAA-TAT
*
13511181 TATTATAT
1 TATAATAT
*
13511189 T-TCATAT
1 TATAATAT
*
13511196 TGTAATAT
1 TATAATAT
13511204 TATAAT-T
1 TATAATAT
13511211 ATATAATAT
1 -TATAATAT
13511220 TATAACTAT
1 TATAA-TAT
13511229 TATTAATAGT
1 TA-TAATA-T
13511239 TATAAT-T
1 TATAATAT
13511246 TAATAAT-T
1 T-ATAATAT
13511254 TATAA
1 TATAA
13511259 CTTATATTGA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
7 13 0.19
8 32 0.48
9 16 0.24
10 6 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
TATAATAT
Found at i:13511413 original size:23 final size:23
Alignment explanation
Indices: 13511373--13511416 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13511363 ATTGTTTACT
13511373 TTATATATTAATTATTAATATAC
1 TTATATATTAATTATTAATATAC
*
13511396 TTATAATATTAGTT-TTAATAT
1 TTAT-ATATTAATTATTAATAT
13511417 TAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATATATTAATTATTAATATAC
Found at i:13511978 original size:15 final size:16
Alignment explanation
Indices: 13511958--13511997 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
13511948 ATTATTGTTT
13511958 ATTAATTAAATATT-A
1 ATTAATTAAATATTAA
13511973 ATTAATT-AATATTAA
1 ATTAATTAAATATTAA
13511988 ATTGAATTAA
1 ATT-AATTAA
13511998 CAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 4 0.18
17 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTAATTAAATATTAA
Found at i:13512203 original size:17 final size:16
Alignment explanation
Indices: 13512169--13512203 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13512159 ATTAATAATT
*
13512169 ATTTAATTATTAATAA
1 ATTTAATTATTAAAAA
13512185 ATTTAATTAATTAAAAA
1 ATTTAATT-ATTAAAAA
13512202 AT
1 AT
13512204 AAATCATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAATTATTAAAAA
Found at i:13513327 original size:19 final size:18
Alignment explanation
Indices: 13513303--13513406 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 18
13513293 TAAGAGTCAT
13513303 ATATTAGTTAATATTTATA
1 ATATTA-TTAATATTTATA
* *
13513322 ATATTATTACTATTTATT
1 ATATTATTAATATTTATA
* * *
13513340 ATAATAATTAATTTTTATG
1 AT-ATTATTAATATTTATA
* *
13513359 GTATCATGTAATAATTTAATA
1 ATATTAT-TAAT-ATTT-ATA
13513380 A-ATTATTAGA-A-TTA-A
1 ATATTATTA-ATATTTATA
13513395 ATATTATTAATA
1 ATATTATTAATA
13513407 ATATTTTATG
Statistics
Matches: 66, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
15 3 0.05
16 9 0.14
17 2 0.03
18 17 0.26
19 25 0.38
20 8 0.12
21 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
ATATTATTAATATTTATA
Found at i:13513337 original size:18 final size:19
Alignment explanation
Indices: 13513303--13513357 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
13513293 TAAGAGTCAT
13513303 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
* *
13513322 ATATTA-TTACTATTTATT
1 ATATTAGTTAATATTTATA
* * *
13513340 ATAATAATTAATTTTTAT
1 ATATTAGTTAATATTTAT
13513358 GGTATCATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:13513431 original size:30 final size:28
Alignment explanation
Indices: 13513374--13513439 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
13513364 ATGTAATAAT
13513374 TTAATAA-ATTATTAGAATTAAATATTA
1 TTAATAATATTATTAGAATTAAATATTA
*
13513401 TTAATAATATT-TTATGAATTATATTAATTA
1 TTAATAATATTATTA-GAATTA-AAT-ATTA
13513431 TT-ATAATAT
1 TTAATAATAT
13513440 GTAATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 9 0.26
30 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TTAATAATATTATTAGAATTAAATATTA
Found at i:13513486 original size:25 final size:25
Alignment explanation
Indices: 13513423--13513488 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
13513413 TATGAATTAT
* *
13513423 ATTAATTATTATAATATGTAATTATA
1 ATTATTTATTAT-ATATGTAATAATA
* * *
13513449 ATTGTATAGTATATAT-TACATAATA
1 ATTATTTATTATATATGTA-ATAATA
13513474 ATTATTTATTATATA
1 ATTATTTATTATATA
13513489 ATTTAATTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 2 0.06
25 21 0.68
26 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (25 bp):
ATTATTTATTATATATGTAATAATA
Found at i:13513657 original size:18 final size:18
Alignment explanation
Indices: 13513629--13513671 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
13513619 ATTTGATATA
13513629 ATTATATTTTAATTTTAATT
1 ATTA-ATTTTAA-TTTAATT
13513649 -TTAATTTTAATTTAATT
1 ATTAATTTTAATTTAATT
13513666 ATTAAT
1 ATTAAT
13513672 AGTAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAATTTTAATTTAATT
Found at i:13513664 original size:5 final size:6
Alignment explanation
Indices: 13513634--13513671 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
13513624 ATATAATTAT
13513634 ATTTTA ATTTTA ATTTTA ATTTTA A-TTTA ATTATTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATT-TTA AT
13513672 AGTAATTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:13514100 original size:179 final size:180
Alignment explanation
Indices: 13513740--13514114 Score: 395
Period size: 179 Copynumber: 2.1 Consensus size: 180
13513730 ACAGAATTAT
* * *
13513740 TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTTGTTTTATTTTATTTCGAAT
1 TTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAAT
* * * **
13513805 AAGCTAGTATGAATTGAAAATTTTGTTTTATGATAAAACAAAAAATCATAACGTTTTGAAATAGA
66 AAGCTACTATGAAATGAAAATATTGTTTTATGATAAAACAAAAAATCATAACAATTTGAAATAGA
* * ** *
13513870 TAATTGTTATATAGTCTTAAATATTTAAACTGGTTCGATAAATAAATTTA
131 TAATTATTAAATAGTCTTAAATATTTAAACTAATTCGATAAAGAAATTTA
* * * *
13513920 -TTTTTAATTCTCTTAGTTATTAATTTTTAAAATATTATTAGATTAGTATTATTTTATTTCGAAT
1 TTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAAT
* * * * ** * *
13513984 ATGTTTCTATGAACAT--AAATAATTGTTTTATGATAGAACAAAAGGTTATAACAATTT-AAGT-
66 AAGCTACTATGAA-ATGAAAAT-ATTGTTTTATGATAAAACAAAAAATCATAACAATTTGAAATA
* * *
13514045 GTATAATTATTCAAATAGT-TATAACTATTTGAACTAATTC-AGTAAAGAGATTTA
129 G-ATAATTATT-AAATAGTCT-TAAATATTTAAACTAATTCGA-TAAAGAAATTTA
13514099 TTTTTTAAATCTCTTA
1 TTTTTTAAATCTCTTA
13514115 TTAATTTTTA
Statistics
Matches: 159, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
177 1 0.01
178 17 0.11
179 126 0.79
180 15 0.09
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (180 bp):
TTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAAT
AAGCTACTATGAAATGAAAATATTGTTTTATGATAAAACAAAAAATCATAACAATTTGAAATAGA
TAATTATTAAATAGTCTTAAATATTTAAACTAATTCGATAAAGAAATTTA
Found at i:13514213 original size:13 final size:13
Alignment explanation
Indices: 13514195--13514228 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13514185 ACATAATTAA
*
13514195 ATAATTAAATATT
1 ATAATTAAATAAT
13514208 ATAATTAAATAAT
1 ATAATTAAATAAT
13514221 ATGAATTA
1 AT-AATTA
13514229 TAAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
ATAATTAAATAAT
Found at i:13514247 original size:20 final size:20
Alignment explanation
Indices: 13514171--13514250 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
13514161 AATTTAATAT
* **
13514171 ATAAATAATTACAAACATAA
1 ATAAATAATAACAATTATAA
*
13514191 TTAAATAATTAA-ATATTATAA
1 ATAAATAA-TAACA-ATTATAA
* **
13514212 TTAAATAATATGAATTATAA
1 ATAAATAATAACAATTATAA
*
13514232 ATAAATTATAACAATTATA
1 ATAAATAATAACAATTATA
13514251 TAAACATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 32 0.67
21 16 0.33
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAAATAATAACAATTATAA
Found at i:13515374 original size:57 final size:57
Alignment explanation
Indices: 13515300--13515466 Score: 219
Period size: 59 Copynumber: 2.9 Consensus size: 57
13515290 TTTCTGAAAC
* * *
13515300 TTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTAAAAAA
1 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAA
* ** *
13515357 TTTATTTTTAA-AGAAAATTGATACTTTCAACTTTTCTTCAAAAATATATTTTTTTAAAT
1 TTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATATTTTTAAAAAA
* *
13515416 TTTATTTTTAAGAAAAATTGATATTTTCAACTTTTTCTCAAAAATATTTTT
1 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
13515467 TAGAAAACTT
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
56 1 0.01
57 42 0.44
58 8 0.08
59 44 0.46
60 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (57 bp):
TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAA
Found at i:13515494 original size:16 final size:17
Alignment explanation
Indices: 13515475--13515507 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13515465 TTTAGAAAAC
13515475 TTTTTTT-G-AAGTTTT
1 TTTTTTTGGAAAGTTTT
13515490 TTTTTTTGGAAAGTTTT
1 TTTTTTTGGAAAGTTTT
13515507 T
1 T
13515508 GGAAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (17 bp):
TTTTTTTGGAAAGTTTT
Found at i:13515916 original size:3 final size:3
Alignment explanation
Indices: 13515910--13515969 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
13515900 TTTTTCTTAT
* *
13515910 TTA TTA TTA TCA TTA TT- TCTT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
13515955 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
13515970 CTACTACTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.96
4 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13516282 original size:3 final size:3
Alignment explanation
Indices: 13516263--13516369 Score: 144
Period size: 3 Copynumber: 35.0 Consensus size: 3
13516253 TATTCTAATC
* *
13516263 TAA TCAA TAA GTAA TAA TAA CAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13516310 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA GAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
13516355 TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA
13516370 ATAAAAAAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
2 2 0.02
3 83 0.89
4 8 0.09
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:13517200 original size:29 final size:30
Alignment explanation
Indices: 13517167--13517243 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
13517157 AAAAAAATAG
*
13517167 TAATAGATAAATAATAAT-ATAATAATAAT
1 TAATAGATAAATAATAATAATAATAATAAA
*
13517196 TAATA-ATTAATAATAATAATAATAATAAA
1 TAATAGATAAATAATAATAATAATAATAAA
*
13517225 TAATAACGAAAAATAATAA
1 TAAT-A-GATAAATAATAA
13517244 AATTACAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.28
29 19 0.47
30 1 0.03
32 9 0.22
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (30 bp):
TAATAGATAAATAATAATAATAATAATAAA
Found at i:13517239 original size:26 final size:26
Alignment explanation
Indices: 13517185--13517243 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
13517175 AAATAATAAT
* * *
13517185 ATAATAATAATTAATAATTAATAATA
1 ATAATAATAATAAATAATTAAGAAAA
13517211 ATAATAATAATAAATAA-TAACGAAAA
1 ATAATAATAATAAATAATTAA-GAAAA
13517237 ATAATAA
1 ATAATAA
13517244 AATTACAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
ATAATAATAATAAATAATTAAGAAAA
Found at i:13517243 original size:3 final size:3
Alignment explanation
Indices: 13517162--13517230 Score: 77
Period size: 3 Copynumber: 21.7 Consensus size: 3
13517152 ATAAAAAAAA
*
13517162 AAT AGT AAT AGAT AAAT AAT AAT -AT AAT AAT AATT AAT AATT AAT AAT
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AA-T AAT AA-T AAT AAT
13517210 AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AA
13517231 CGAAAAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
2 2 0.03
3 42 0.72
4 13 0.22
5 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13517355 original size:19 final size:19
Alignment explanation
Indices: 13517331--13517370 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13517321 CTGGGCCTAG
13517331 ACCAAATTGGGTGTCTACA
1 ACCAAATTGGGTGTCTACA
13517350 ACCAAATTGGGTGTCTACA
1 ACCAAATTGGGTGTCTACA
13517369 AC
1 AC
13517371 TATAGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (19 bp):
ACCAAATTGGGTGTCTACA
Found at i:13517732 original size:180 final size:178
Alignment explanation
Indices: 13517510--13517910 Score: 447
Period size: 180 Copynumber: 2.2 Consensus size: 178
13517500 GTGTCATGAG
* * *
13517510 AAAACAAAAAGTCATAACAATTTGAAATAAATAATTATTCAAATAATCATAATTATTTAAACTTA
1 AAAACAAAAGGTCATAATAATTTGAAATAGATAATTATTCAAATAATCATAATTATTTAAACTTA
* * * * * *
13517575 TTCGATAAATAGATTTA-TTTTTTAATCTTTTTCTTATTAGTTGTCT-GAATATTAATAAATTTG
66 TTCGATAAACAGATTCAGTTTTTAAATC----TCTTATTA-ATGTCTAGAATATTAATAAAATAG
* * * * *
13517638 TATAATTTTATTTGAAATAAGCTTGTAT-GA-ATAGAA-AATTTTGTTTTCG-GA-C
126 AATAATATTATTTCAAATAAGCTAGTATAGACATA-AACAA--TTGTTTT-GTGATA
* * * * * *
13517690 AAAACAAAAGGTTATAGTAATTAGAAATAGATAATTATTCAAATAGTCATAATTATTTATACTTG
1 AAAACAAAAGGTCATAATAATTTGAAATAGATAATTATTCAAATAATCATAATTATTTAAACTTA
* * *
13517755 TTCGATATACAGATTCAGTTTTTAAATCTCTTATTAATGTTTAGAATATTAATAAAATAGAATTA
66 TTCGATAAACAGATTCAGTTTTTAAATCTCTTATTAATGTCTAGAATATTAATAAAATAGAATAA
13517820 TATTATTTCAAATAAGCTAGTATAGACATAAACAATTGTTTTGTGATA
131 TATTATTTCAAATAAGCTAGTATAGACATAAACAATTGTTTTGTGATA
* *
13517868 AAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
1 AAAACAAAAGGTCATAATAATTTGAAATAGATAATTATTCAAA
13517911 CAATTGTAAC
Statistics
Matches: 186, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
176 5 0.03
177 55 0.30
178 42 0.23
179 5 0.03
180 70 0.38
181 9 0.05
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (178 bp):
AAAACAAAAGGTCATAATAATTTGAAATAGATAATTATTCAAATAATCATAATTATTTAAACTTA
TTCGATAAACAGATTCAGTTTTTAAATCTCTTATTAATGTCTAGAATATTAATAAAATAGAATAA
TATTATTTCAAATAAGCTAGTATAGACATAAACAATTGTTTTGTGATA
Found at i:13517735 original size:16 final size:17
Alignment explanation
Indices: 13517714--13517746 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13517704 TAGTAATTAG
13517714 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
13517730 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
13517747 TATACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:13518255 original size:16 final size:14
Alignment explanation
Indices: 13518236--13518278 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
13518226 ATTAACATAT
13518236 ATAATAATTATAACA
1 ATAATAATTATAA-A
*
13518251 CATAATTATTAT-AA
1 -ATAATAATTATAAA
13518265 ATAATAATTATAAA
1 ATAATAATTATAAA
13518279 TACATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 1 0.04
16 10 0.42
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATTATAAA
Found at i:13518268 original size:13 final size:13
Alignment explanation
Indices: 13518233--13518280 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
13518223 TTTATTAACA
13518233 TATATAATAATTAT
1 TATA-AATAATTAT
* * *
13518247 AACACATAATTAT
1 TATAAATAATTAT
*
13518260 TATAAATAATAAT
1 TATAAATAATTAT
13518273 TATAAATA
1 TATAAATA
13518281 CATAACAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 25 0.93
14 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAAATAATTAT
Found at i:13518999 original size:20 final size:20
Alignment explanation
Indices: 13518956--13519000 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13518946 ATAATTTAAC
* *
13518956 TAATATTTATTAATTATTAG
1 TAATATATATTAATAATTAG
13518976 TAATATATATTAACTAATTA-
1 TAATATATATTAA-TAATTAG
13518996 TAATA
1 TAATA
13519001 ATAATAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATATATATTAATAATTAG
Found at i:13519993 original size:182 final size:181
Alignment explanation
Indices: 13519486--13520056 Score: 654
Period size: 181 Copynumber: 3.2 Consensus size: 181
13519476 TGATTATCTT
* * *
13519486 TAATTAATTCAAATAGTCATAACTATTTGTA-TTGGTTTAGTAAATAGATTTAGTTTTTAAATCT
1 TAATT-ATTCAAATAGTCATAACTATTTGAACTT-GTTCAGTAAATAGATTTATTTTTTAAATCT
* **
13519550 -TT--T-ATTAATTTTCAAAATATTAATAAATCA-AAATTATTTTATTTTGAATAATTCTGTATG
64 CTTACTCATTAATTTTCAAAATATTAATAAATTAGAAA-TATTTTATTTTGAATAAACCTGTATG
* **
13519610 AATAGAAACAATTGTTTTATGACAAAACAAAATGTCATAACAATTTGAAATAGA
128 AATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGA
* * * * * * * * * *
13519664 TAATTGTTCTAATGGACATGACTATTTGAACTTATTCGGTAAACAAATTTATTTTTTAAATCTCC
1 TAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAATAGATTTATTTTTTAAATCTCT
* * * * *
13519729 TAC-CTATTAATTTACAAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTATGAA
66 TACTC-ATTAATTTTCAAAATATTAATAAATTAGAAATATTTTATTTTGAATAAACCTGTATGAA
* *
13519793 TAAAAACAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGA
130 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGA
* *
13519845 TAATTATTCAAATAGTCATCACTATTTAAACTTGTTCAGTAAATAGATTTATTTTTTTAAATCTC
1 TAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAATAGATTTA-TTTTTTAAATCTC
* * * * * * * *
13519910 TTACTCATTAATTTTTAGAATGTTAATAAATTAGCAATATTTTATTTCGAATAAGCCTATCTGAA
65 TTACTCATTAATTTTCAAAATATTAATAAATTAGAAATATTTTATTTTGAATAAACCTGTATGAA
* * * *
13519975 TTGATATAATTGTTTTATGACAAAACAATAGGTCATAATGATTTGAAATAGA
130 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGA
* *
13520027 TAATTATTGAAATAGTTATGAA-TATTTGAA
1 TAATTATTCAAATAGTCAT-AACTATTTGAA
13520057 TTATAAGATT
Statistics
Matches: 324, Mismatches: 59, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
177 43 0.13
178 8 0.02
181 137 0.42
182 134 0.41
183 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
TAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAATAGATTTATTTTTTAAATCTCT
TACTCATTAATTTTCAAAATATTAATAAATTAGAAATATTTTATTTTGAATAAACCTGTATGAAT
AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGA
Found at i:13520257 original size:4 final size:4
Alignment explanation
Indices: 13520248--13520272 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13520238 AATTCTTATT
13520248 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
13520273 AAGTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:13520328 original size:14 final size:15
Alignment explanation
Indices: 13520296--13520329 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13520286 GACTAAAAGT
13520296 CAATAATTATTAATAA
1 CAATAATTATT-ATAA
13520312 CAATAATTATT-TAA
1 CAATAATTATTATAA
13520326 CAAT
1 CAAT
13520330 TGTTTCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
CAATAATTATTATAA
Found at i:13521086 original size:9 final size:9
Alignment explanation
Indices: 13521062--13521091 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13521052 TAAAATTTAT
13521062 TAATTATAA
1 TAATTATAA
13521071 CTAATTATAA
1 -TAATTATAA
13521081 TAATTATAA
1 TAATTATAA
13521090 TA
1 TA
13521092 TATGCTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATTATAA
Found at i:13521312 original size:8 final size:8
Alignment explanation
Indices: 13521301--13521325 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13521291 TATTTGCTTA
13521301 TTAATTAT
1 TTAATTAT
13521309 TTAATTAT
1 TTAATTAT
13521317 TTAATTAT
1 TTAATTAT
13521325 T
1 T
13521326 ATTGATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTAATTAT
Found at i:13521494 original size:25 final size:24
Alignment explanation
Indices: 13521466--13521546 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
13521456 AATTTATTAT
*
13521466 ATTAATATTTATAATATTACTAATA
1 ATTAATATTTATAATAATA-TAATA
*
13521491 ATTAATA-TTATTATAATATAATA
1 ATTAATATTTATAATAATATAATA
* * *
13521514 ATTGTAATATTT-TTATACTATTAT-
1 A-T-TAATATTTATAATAATATAATA
13521538 ATTAATATT
1 ATTAATATT
13521547 GTTATCCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.14
23 7 0.14
24 11 0.22
25 22 0.45
26 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (24 bp):
ATTAATATTTATAATAATATAATA
Found at i:13521498 original size:16 final size:16
Alignment explanation
Indices: 13521475--13521513 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13521465 TATTAATATT
13521475 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
13521492 T-TAATATTATTATAA
1 TATAATATTATAATAA
13521507 TATAATA
1 TATAATA
13521514 ATTGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 13 0.65
17 1 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:13522163 original size:19 final size:19
Alignment explanation
Indices: 13522128--13522180 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
13522118 ATTAATAACT
*
13522128 TAATTAT-TAATATTTATTA
1 TAATTATAT-ATAATTATTA
13522147 TAATTATATATAATTA-TA
1 TAATTATATATAATTATTA
*
13522165 TTATT-TA-ATAATTATT
1 TAATTATATATAATTATT
13522181 GTAAATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 7 0.23
17 3 0.10
18 6 0.20
19 13 0.43
20 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTATATATAATTATTA
Found at i:13522712 original size:18 final size:19
Alignment explanation
Indices: 13522691--13522743 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
13522681 TAAAAAAACA
*
13522691 AATTA-TAATAAAATTATT
1 AATTATTAATAAAATAATT
13522709 AATTATTAAT-AAATAATT
1 AATTATTAATAAAATAATT
*
13522727 TATTATTAAT-AAATAAT
1 AATTATTAATAAAATAAT
13522744 AAATAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 28 0.88
19 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTATTAATAAAATAATT
Found at i:13522743 original size:25 final size:25
Alignment explanation
Indices: 13522703--13522750 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13522693 TTATAATAAA
* *
13522703 ATTATTAATTATTAATAAATAATTT
1 ATTATTAATAAATAATAAATAATTT
13522728 ATTATTAATAAATAATAAATAAT
1 ATTATTAATAAATAATAAATAAT
13522751 ATTTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTATTAATAAATAATAAATAATTT
Found at i:13522862 original size:14 final size:14
Alignment explanation
Indices: 13522843--13522892 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
13522833 ATATTATTGA
13522843 AATAATAATTATAT
1 AATAATAATTATAT
*
13522857 AATAATTATTATAT
1 AATAATAATTATAT
* *
13522871 --TATTTATTAT-T
1 AATAATAATTATAT
13522882 AATAATAATTA
1 AATAATAATTA
13522893 ATTTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 7 0.23
14 13 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATAATTATAT
Found at i:13522908 original size:28 final size:28
Alignment explanation
Indices: 13522850--13522913 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
13522840 TGAAATAATA
*
13522850 ATTATATAATAATTATTATATTATTTATT
1 ATTA-ATAATAATTATTATATTATATATT
13522879 ATTAATAATAATTAATT-TA-TATATACTT
1 ATTAATAATAATT-ATTATATTATATA-TT
*
13522907 ATAAATA
1 ATTAATA
13522914 TACATATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 19 0.61
29 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAATAATAATTATTATATTATATATT
Found at i:13523434 original size:24 final size:23
Alignment explanation
Indices: 13523390--13523435 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
13523380 ATAATTCAAT
13523390 TTAAATTTAATATAAGTTTATTAC
1 TTAAATTTAATATAAG-TTATTAC
13523414 TTAAATTATAATATTAA-TTATT
1 TTAAATT-TAATA-TAAGTTATT
13523436 TATACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 5 0.25
26 3 0.15
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATTTAATATAAGTTATTAC
Found at i:13523492 original size:21 final size:21
Alignment explanation
Indices: 13523468--13523525 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
13523458 TTATTTATTA
*
13523468 TATATTAATTATAATTTTAGT
1 TATATTAATTATAATTTTAAT
*
13523489 TATATTAATTATTAAATTTAAT
1 TATATTAATTA-TAATTTTAAT
13523511 T-TATT-ATTATAATTT
1 TATATTAATTATAATTT
13523526 ATTAATAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 5 0.15
20 4 0.12
21 15 0.45
22 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATATTAATTATAATTTTAAT
Found at i:13523530 original size:21 final size:21
Alignment explanation
Indices: 13523460--13523531 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 21
13523450 TAAATAAATT
*
13523460 ATTTATT-ATATATTAATTATA
1 ATTTATTAATTTATT-ATTATA
*
13523481 ATTTTAGTTATATTAATTATTA-A
1 A-TTTA-TTA-ATTTATTATTATA
13523504 A--T-TTAATTTATTATTATA
1 ATTTATTAATTTATTATTATA
13523522 ATTTATTAAT
1 ATTTATTAAT
13523532 AAGTAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
17 10 0.25
18 5 0.12
20 2 0.05
21 6 0.15
22 4 0.10
23 4 0.10
24 4 0.10
25 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTATTAATTTATTATTATA
Found at i:13523577 original size:19 final size:20
Alignment explanation
Indices: 13523550--13523591 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
13523540 TTATAATAAA
*
13523550 ATATATATTTTTGGATAATT
1 ATATATATTTTTGAATAATT
*
13523570 ATAT-TATTTTTTAATAATT
1 ATATATATTTTTGAATAATT
13523589 ATA
1 ATA
13523592 ACAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATATATTTTTGAATAATT
Found at i:13524636 original size:22 final size:19
Alignment explanation
Indices: 13524601--13524716 Score: 71
Period size: 20 Copynumber: 5.9 Consensus size: 19
13524591 TTAGTATTGT
13524601 TAATTAA-T-TATAATATA
1 TAATTAATTATATAATATA
*
13524618 TTAATTAATTTATACTAATTTAA
1 -TAATTAA-TTATA-TAATAT-A
*
13524641 TAACT-ATTATATAATATA
1 TAATTAATTATATAATATA
*
13524659 TAATTAAATTATATAATTAATT
1 TAATT-AATTATATAA-T-ATA
* *
13524681 TAAATAATTAT-TAAAATA
1 TAATTAATTATATAATATA
13524699 -ACTATTAATTATATAATA
1 TA--ATTAATTATATAATA
13524717 GTAATATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
17 1 0.01
18 14 0.18
19 13 0.17
20 22 0.29
21 10 0.13
22 15 0.20
23 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATTAATTATATAATATA
Found at i:13524673 original size:13 final size:13
Alignment explanation
Indices: 13524655--13524690 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13524645 TATTATATAA
13524655 TATATAATTAAAT
1 TATATAATTAAAT
*
13524668 TATATAATTAATT
1 TATATAATTAAAT
*
13524681 TAAATAATTA
1 TATATAATTA
13524691 TTAAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATAATTAAAT
Found at i:13524712 original size:53 final size:54
Alignment explanation
Indices: 13524639--13524742 Score: 135
Period size: 53 Copynumber: 1.9 Consensus size: 54
13524629 ATACTAATTT
13524639 AATAACTATTATATAATATATAAT-TAA-ATTATATAATTAATTTAAATAATTATTAA
1 AATAACTATTATAT-ATATATAATATAATATT-TAT-ATTAA-TTAAATAATTATTAA
13524695 AATAACTATTA-AT-TATATAATAGTAATATTTATATTAATTAAATAATT
1 AATAACTATTATATATATATAATA-TAATATTTATATTAATTAAATAATT
13524743 TAATATACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
53 18 0.40
54 5 0.11
55 8 0.18
56 14 0.31
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (54 bp):
AATAACTATTATATATATATAATATAATATTTATATTAATTAAATAATTATTAA
Found at i:13534398 original size:171 final size:171
Alignment explanation
Indices: 13534113--13534454 Score: 675
Period size: 171 Copynumber: 2.0 Consensus size: 171
13534103 ATATATGAGT
13534113 GCTAAACTCTATGTTAGAAGAGTGTATAAAAGGGTAAAGGCCATGGAAAGAGTCGAGTGAAGCGA
1 GCTAAACTCTATGTTAGAAGAGTGTATAAAAGGGTAAAGGCCATGGAAAGAGTCGAGTGAAGCGA
*
13534178 TAGTGTACGAGACTTAAAGTAGGAGTATTGCTATTGCTAAGTCAGTGGTTGAGGCTGAGTGCACT
66 TAGTGTACGAGACTTAAAGTAGGAGTATTGCCATTGCTAAGTCAGTGGTTGAGGCTGAGTGCACT
13534243 AAGTCTCCATAGCCCAAGGGTAACACCTAAGCCTAGGGGTA
131 AAGTCTCCATAGCCCAAGGGTAACACCTAAGCCTAGGGGTA
13534284 GCTAAACTCTATGTTAGAAGAGTGTATAAAAGGGTAAAGGCCATGGAAAGAGTCGAGTGAAGCGA
1 GCTAAACTCTATGTTAGAAGAGTGTATAAAAGGGTAAAGGCCATGGAAAGAGTCGAGTGAAGCGA
13534349 TAGTGTACGAGACTTAAAGTAGGAGTATTGCCATTGCTAAGTCAGTGGTTGAGGCTGAGTGCACT
66 TAGTGTACGAGACTTAAAGTAGGAGTATTGCCATTGCTAAGTCAGTGGTTGAGGCTGAGTGCACT
13534414 AAGTCTCCATAGCCCAAGGGTAACACCTAAGCCTAGGGGTA
131 AAGTCTCCATAGCCCAAGGGTAACACCTAAGCCTAGGGGTA
13534455 TGGGCTTGAG
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 170 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (171 bp):
GCTAAACTCTATGTTAGAAGAGTGTATAAAAGGGTAAAGGCCATGGAAAGAGTCGAGTGAAGCGA
TAGTGTACGAGACTTAAAGTAGGAGTATTGCCATTGCTAAGTCAGTGGTTGAGGCTGAGTGCACT
AAGTCTCCATAGCCCAAGGGTAACACCTAAGCCTAGGGGTA
Found at i:13536963 original size:44 final size:44
Alignment explanation
Indices: 13536913--13537015 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 44
13536903 ACGACCCAAT
* *
13536913 ATGTGCCAATGGTGTCGAGGGAACTA-CACACACAAATGGCTAGC
1 ATGTGCCAATGGTGTAGAGGAAACTATC-CACACAAATGGCTAGC
* **
13536957 ATGTGCCATTGGTGGTAGAGGAAACTATCCGTACAAATGGCTAGC
1 ATGTGCCAATGGT-GTAGAGGAAACTATCCACACAAATGGCTAGC
* *
13537002 ATGTACTAATGGTG
1 ATGTGCCAATGGTG
13537016 GTTGAAGCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
44 13 0.27
45 35 0.71
46 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
ATGTGCCAATGGTGTAGAGGAAACTATCCACACAAATGGCTAGC
Found at i:13537561 original size:21 final size:21
Alignment explanation
Indices: 13537537--13537588 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13537527 CATGTGCATG
*
13537537 TGTCATGGTCCATGAGTTGGT
1 TGTCATGGTCCATAAGTTGGT
*
13537558 TGTCATGGTACATAAGTTGGT
1 TGTCATGGTCCATAAGTTGGT
*
13537579 TGCCATGGTC
1 TGTCATGGTC
13537589 AGGCCCTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (21 bp):
TGTCATGGTCCATAAGTTGGT
Found at i:13537930 original size:22 final size:22
Alignment explanation
Indices: 13537902--13537957 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
13537892 AGGTCACTGA
* *
13537902 GCCTTAAGTTGGCTGAAGAAAG
1 GCCTTAAGTTGGCTAAAAAAAG
13537924 GCCTTAAGTTGGCTAAAAAAAG
1 GCCTTAAGTTGGCTAAAAAAAG
* *
13537946 GCCCTGAGTTGG
1 GCCTTAAGTTGG
13537958 TTAGGGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (22 bp):
GCCTTAAGTTGGCTAAAAAAAG
Found at i:13542794 original size:502 final size:500
Alignment explanation
Indices: 13541852--13542965 Score: 1205
Period size: 502 Copynumber: 2.2 Consensus size: 500
13541842 GGTTTGACTG
* * * ** *
13541852 CTAGGGGGATCAAGCCTTGAGGCCTACTAAAGG-CTCAAGTCATAGGG-AACTAGTATAAAATAG
1 CTAGGGGGATCAAGCCTTGAGGCATACTAGAGGTC-CAGGTCAT-GGGAAACTAGCCTAAGATAG
* * * * * * *
13541915 TGGTATGGGCACTAATCAAGAATCTAGAGGCTTAGGCCTAGTGTTTAGGTTTGACAGAATTAAGC
64 TGGTATAGGCAATGATCAAGACTCTAGAGACTTAGGCCTAGTGTTCAGGTTTGACAAAATTAAGC
* * * * * *
13541980 TAGGCCTAGGTACAAGCATTGCTGAGCATTGTATGAATTTACAAGCCATAAAAATGGCATTGGCA
129 CAGGCCTAGGTACAAGAATAGCTGAGCATTATATGAATTCACAAGCCATAAAAATGGCATTAGCA
* * ** * *
13542045 TGGTAGAAATATCAAGGTGTGCCTGAGCCCACCCACTACCTGGTCGTGGTGCGCATGGTGCATGG
194 TGGTAGAAATATCAAGGTGTGCCTAAACCCACCCACTACCAAGTCGTGGTGCACATGGTGCATAG
*** * * * *
13542110 CCCAAGCCCAAGATATGTATGCTTGGTGCGCGACCCAGCATATGTTGATGGTGTTTAGGGGAATT
259 CCCAAGCCCAAGATACCCACGCTTGGTGCGCGACCAAGCATATGGTAATGGTGTTTAGGGGAATT
* * *
13542175 TGCAACACAAAGGGCCAATGTGTGTTGATAGTGATCGAAGCATGTGCCGAGACCAAGCTAACATG
324 TG--ACACAAAGGGCCAATGTGTGTTGATAGTGATCGAAGCATGTACCAAGACCAAGCCAACATG
* * * * *
13542240 TCTCAATGGCAGTTGAGGCATATGCATGTGTCATGGTCCATAATTTGGTCTAGGT-TCAAGGGTT
387 TCCCAATGGCAGATGAGGCATATGCATGTGTCACGATCCATAAATTGGTCTAGGTCT-AAGGGTT
* * * *
13542304 CTCT-TCGAGTCAAGGAACAGTTCTAACTCTAGCGCGATAGAGTCTAACAA
451 CTCTCT-GAGTCAAAGAACAGTTCTAACTCTAGCACGACAAAGTCTAACAA
* *
13542354 CTAGGGGGA-CTAAGCCTTGAGGCATATTAGAGGTCCAGGTCATGGGAAACTAGCCTAAGATTGT
1 CTAGGGGGATC-AAGCCTTGAGGCATACTAGAGGTCCAGGTCATGGGAAACTAGCCTAAGATAGT
* * * *
13542418 GGTATAGGCAATGATCAAGACTCTAGTGACTTAGGCAC-GGTGTTCAGGTTTGGCAAAATTGAGC
65 GGTATAGGCAATGATCAAGACTCTAGAGACTTAGGC-CTAGTGTTCAGGTTTGACAAAATTAAGC
* *
13542482 CAGGCCTAGGTGCAAGAACTAG-TGAGCGTTATATGAATTCACAAGCCATAAAAATGGCATTAGC
129 CAGGCCTAGGTACAAGAA-TAGCTGAGCATTATATGAATTCACAAGCCATAAAAATGGCATTAGC
* * ** * *
13542546 ATGGTAGAAATAT-GAGGATGTGCCTAAACGCACTTACTACCAAGTTGTGGTGCACATGGTGTAT
193 ATGGTAGAAATATCAAGG-TGTGCCTAAACCCACCCACTACCAAGTCGTGGTGCACATGGTGCAT
* * * *
13542610 AG-CTAGGCCTAAGATACCCACGCTTGGTGTGCGACCAAGCATATGGTAATGGTGTTT-GAGGGA
257 AGCCCAAGCCCAAGATACCCACGCTTGGTGCGCGACCAAGCATATGGTAATGGTGTTTAG-GGGA
* *
13542673 ACTACTTG-CACAAA-GGCCAATGTGTGTTGATGGTGATTGAAGCATGTACCAAGACCAAGGGCC
321 A-T--TTGACACAAAGGGCCAATGTGTGTTGATAGTGATCGAAGCATGTACCAAGACCAA--GCC
* *
13542736 AACATGTCCCGATGGCAGATGAGGCATGT-CTATGTGTCACGATCCATAAATTGGTCTAGGTCTA
381 AACATGTCCCAATGGCAGATGAGGCATATGC-ATGTGTCACGATCCATAAATTGGTCTAGGTCTA
* ** * * * * * *
13542800 AGGGTTCTCTCTGAGTGAAAGAGTAGTTTTAGCTCTAGCATGACAAAGTCTGATAG
445 AGGGTTCTCTCTGAGTCAAAGAACAGTTCTAACTCTAGCACGACAAAGTCTAACAA
* ** *
13542856 CTAGGGGGATCAAGCCTTAAGGCATACTAGAGGTGTAGGTCATGGGAAACTAGCCT-AGAATAAT
1 CTAGGGGGATCAAGCCTTGAGGCATACTAGAGGTCCAGGTCATGGGAAACTAGCCTAAG-ATAGT
* * **
13542920 GGTATAGGCAGTGATCAAGACTTTAGCA-ACTTAGGTGTAGTGTTCA
65 GGTATAGGCAATGATCAAGACTCTAG-AGACTTAGGCCTAGTGTTCA
13542966 ATCTAGTACA
Statistics
Matches: 506, Mismatches: 87, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
500 41 0.08
501 65 0.13
502 390 0.77
503 7 0.01
504 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (500 bp):
CTAGGGGGATCAAGCCTTGAGGCATACTAGAGGTCCAGGTCATGGGAAACTAGCCTAAGATAGTG
GTATAGGCAATGATCAAGACTCTAGAGACTTAGGCCTAGTGTTCAGGTTTGACAAAATTAAGCCA
GGCCTAGGTACAAGAATAGCTGAGCATTATATGAATTCACAAGCCATAAAAATGGCATTAGCATG
GTAGAAATATCAAGGTGTGCCTAAACCCACCCACTACCAAGTCGTGGTGCACATGGTGCATAGCC
CAAGCCCAAGATACCCACGCTTGGTGCGCGACCAAGCATATGGTAATGGTGTTTAGGGGAATTTG
ACACAAAGGGCCAATGTGTGTTGATAGTGATCGAAGCATGTACCAAGACCAAGCCAACATGTCCC
AATGGCAGATGAGGCATATGCATGTGTCACGATCCATAAATTGGTCTAGGTCTAAGGGTTCTCTC
TGAGTCAAAGAACAGTTCTAACTCTAGCACGACAAAGTCTAACAA
Found at i:13543427 original size:182 final size:182
Alignment explanation
Indices: 13543186--13543551 Score: 642
Period size: 182 Copynumber: 2.0 Consensus size: 182
13543176 AACTGACCAC
*
13543186 ACAAAGGGCCAGCATGTGCTGATGGTGGTTGAAGCATGTGCTAAGACCAAGGGAAAACATGTCCT
1 ACAAAGGGCCAGCATGTGCTGATGGTGGTTGAAGCATGTGCTAAGACCAAGGGAAAACATGTCCC
* * *
13543251 AATAATGCCCAAGGCATGTGTTGCGACCAAGGGCAAATGGTCAACAAGCTGGCCTAGGCCTAGTG
66 AATAATGCCCAAGGCATGTGCTGAGACCAAGGGCAAATGGTCAACAAGCTAGCCTAGGCCTAGTG
13543316 GTTCTCTCTGAGTCGAGAAGTAGTTCTAGTTCTAGTAGGATAAGGTCTGACT
131 GTTCTCTCTGAGTCGAGAAGTAGTTCTAGTTCTAGTAGGATAAGGTCTGACT
* *
13543368 ACAAAGGGCCAGCATGTGCTTATGGTGGTTGAAGCATGTGCTGAGACCAAGGGAAAACATGTCCC
1 ACAAAGGGCCAGCATGTGCTGATGGTGGTTGAAGCATGTGCTAAGACCAAGGGAAAACATGTCCC
* ** *
13543433 AATAGTGGTCAAGGCATGTGCTGAGACTAAGGGCAAATGGTCAACAAGCTAGCCTAGGCCTAGTG
66 AATAATGCCCAAGGCATGTGCTGAGACCAAGGGCAAATGGTCAACAAGCTAGCCTAGGCCTAGTG
13543498 GTTCTCTCTGAGTCGAGAAGTAGTTCTAGTTCTAGTAGGATAAGGTCTGACT
131 GTTCTCTCTGAGTCGAGAAGTAGTTCTAGTTCTAGTAGGATAAGGTCTGACT
13543550 AC
1 AC
13543552 TAGAGGGACC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 174 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (182 bp):
ACAAAGGGCCAGCATGTGCTGATGGTGGTTGAAGCATGTGCTAAGACCAAGGGAAAACATGTCCC
AATAATGCCCAAGGCATGTGCTGAGACCAAGGGCAAATGGTCAACAAGCTAGCCTAGGCCTAGTG
GTTCTCTCTGAGTCGAGAAGTAGTTCTAGTTCTAGTAGGATAAGGTCTGACT
Found at i:13554867 original size:45 final size:45
Alignment explanation
Indices: 13554818--13554933 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
13554808 GTGTGCCTGC
* * * * *
13554818 ACCAAGGGCCAGCATGTGTTAATGATGGTTAAGGTAGATGGTTGT
1 ACCAAAGGCTAGCATGTGTTAATGATGGTCAAAGAAGATGGTTGT
* * * * *
13554863 ACCAAAGGCTAACTTGTGTTGATGGTGGTCAAAGAAGGTGGTTGT
1 ACCAAAGGCTAGCATGTGTTAATGATGGTCAAAGAAGATGGTTGT
* *
13554908 ACCAAATGCTAGCATGTGCTAATGAT
1 ACCAAAGGCTAGCATGTGTTAATGAT
13554934 TGTTGAGGCC
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (45 bp):
ACCAAAGGCTAGCATGTGTTAATGATGGTCAAAGAAGATGGTTGT
Found at i:13560982 original size:134 final size:134
Alignment explanation
Indices: 13560742--13561010 Score: 466
Period size: 134 Copynumber: 2.0 Consensus size: 134
13560732 CATTTTTCCC
* *
13560742 TTACAGTACTTGTTCACTATTAGTCTCTCGCCCTTATTCAGTCTTGGATGGAATTTATTGCCTGA
1 TTACAGTACTTGTTCACTATTAGTCTCTCGCCCTTATTCAGCCTTGGATGGAATTTATCGCCTGA
* *
13560807 ATGGGGCTACATTCCCAAATAACCTAATATGTAAATAGTGCCTAAATATGTGACATGGTCCAGTC
66 ATGGGGCTACATTCCCAAATAACCTAACATGTAAATAGTGCCTAAATATGTGACATGGTCAAGTC
13560872 ACAA
131 ACAA
* * *
13560876 TTACAGTACTTGTTCACTATTGGTCTCTCGCCCTTATTTAGCCTTGGATGGAATTTATCGCTTGA
1 TTACAGTACTTGTTCACTATTAGTCTCTCGCCCTTATTCAGCCTTGGATGGAATTTATCGCCTGA
*
13560941 ATGGGGCTACATTCCCAAATAACCTAACATGTAAATAGTGCCTAAATGTGTGACATGGTCAAGTC
66 ATGGGGCTACATTCCCAAATAACCTAACATGTAAATAGTGCCTAAATATGTGACATGGTCAAGTC
13561006 ACAA
131 ACAA
13561010 T
1 T
13561011 GACATTCTCA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (134 bp):
TTACAGTACTTGTTCACTATTAGTCTCTCGCCCTTATTCAGCCTTGGATGGAATTTATCGCCTGA
ATGGGGCTACATTCCCAAATAACCTAACATGTAAATAGTGCCTAAATATGTGACATGGTCAAGTC
ACAA
Found at i:13565454 original size:21 final size:21
Alignment explanation
Indices: 13565424--13565463 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13565414 GCCCTAAATG
* *
13565424 GACTAGGCCTTGGTGTAGGTA
1 GACTAAGCCTAGGTGTAGGTA
13565445 GACTAAGCCTAGGTGTAGG
1 GACTAAGCCTAGGTGTAGG
13565464 CATACCAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.25
Consensus pattern (21 bp):
GACTAAGCCTAGGTGTAGGTA
Found at i:13565473 original size:21 final size:21
Alignment explanation
Indices: 13565430--13565474 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13565420 AATGGACTAG
* * *
13565430 GCCTTGGTGTAGGTAGACTAA
1 GCCTAGGTGTAGGCAGACCAA
*
13565451 GCCTAGGTGTAGGCATACCAA
1 GCCTAGGTGTAGGCAGACCAA
13565472 GCC
1 GCC
13565475 ACAGCAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (21 bp):
GCCTAGGTGTAGGCAGACCAA
Found at i:13602348 original size:47 final size:47
Alignment explanation
Indices: 13602262--13602357 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
13602252 TGCCACATAG
** * * *
13602262 AATGCTAGCATCTACCAAAAAGGTGTCTGAGGTAGCAACCCATACCA
1 AATGCTAGCATCTACCAAAAAGGTGTCCAAGGCAACAACCCACACCA
* *
13602309 AATGCTAGCATCTGCCAAAGAA-GTGTCCAAGGCAACAACCTACACCA
1 AATGCTAGCATCTACCAAA-AAGGTGTCCAAGGCAACAACCCACACCA
13602356 AA
1 AA
13602358 AGCCTGCTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 39 0.95
48 2 0.05
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.17
Consensus pattern (47 bp):
AATGCTAGCATCTACCAAAAAGGTGTCCAAGGCAACAACCCACACCA
Found at i:13612472 original size:23 final size:23
Alignment explanation
Indices: 13612446--13612520 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
13612436 CACTTTAGAC
*
13612446 TAGCTAGGACCCTACCTACCTCT
1 TAGCCAGGACCCTACCTACCTCT
*
13612469 TAGCCAGGACCCTGCCTACCTGC-
1 TAGCCAGGACCCTACCTACCT-CT
* * *
13612492 TAACCAGGCCCCTGCCTACCTGC-
1 TAGCCAGGACCCTACCTACCT-CT
13612515 TAGCCA
1 TAGCCA
13612521 AGGGGTGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (23 bp):
TAGCCAGGACCCTACCTACCTCT
Found at i:13620540 original size:45 final size:44
Alignment explanation
Indices: 13620453--13620563 Score: 105
Period size: 45 Copynumber: 2.5 Consensus size: 44
13620443 ATGGTGGTTG
* * * * ** *
13620453 AGACATGTGCCTACACCAAAGCCCAGCATGTGCCAATGGTGTTCT
1 AGACAAGTGCCTAC-TCAAAGGCCAGCAAGTGCCAAAAGTGTTCA
* *
13620498 AGATAAGTGCCTACTGCAAAGGCCAGCAAGTGCTAAAAGTGTTCA
1 AGACAAGTGCCTACT-CAAAGGCCAGCAAGTGCCAAAAGTGTTCA
* *
13620543 AGGCAAGTGCTTACTCAAAGG
1 AGACAAGTGCCTACTCAAAGG
13620564 GCCATCTTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 6 0.11
45 47 0.89
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (44 bp):
AGACAAGTGCCTACTCAAAGGCCAGCAAGTGCCAAAAGTGTTCA
Found at i:13620765 original size:45 final size:45
Alignment explanation
Indices: 13620683--13620771 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
13620673 GTTGAGACAA
* * *
13620683 GTGGCAATACCAAAGGCCAACTTTTACTGATGGTGGTCAAGGCAG
1 GTGGCAATACCAAAGGCCAACTTTGACTAATGATGGTCAAGGCAG
* * *
13620728 GTGGCCATACCAAAGGCCAGCTTGTGA-TAATGATGGTCGAGGCA
1 GTGGCAATACCAAAGGCCAACTT-TGACTAATGATGGTCAAGGCA
13620772 TGTGCCCGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 35 0.95
46 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (45 bp):
GTGGCAATACCAAAGGCCAACTTTGACTAATGATGGTCAAGGCAG
Found at i:13633886 original size:25 final size:24
Alignment explanation
Indices: 13633844--13633897 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
13633834 AGAGGCATGT
* *
13633844 AATTAGGGTGCAGCAACCCCCTAGC
1 AATTAGGGCGCAGCAA-CCCCTAAC
* *
13633869 AATTAGGGCGTAGTAACCCCTAAC
1 AATTAGGGCGCAGCAACCCCTAAC
13633893 AATTA
1 AATTA
13633898 AGGCATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (24 bp):
AATTAGGGCGCAGCAACCCCTAAC
Found at i:13638689 original size:47 final size:47
Alignment explanation
Indices: 13638620--13638709 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
13638610 TCTAACATCC
* *
13638620 ACCAAAGAGGTGTCCAACGCAACAACCTACACCAAGTGCTAGCATTA
1 ACCAAAGAGGTGTACAACGCAACAACCTACACCAAGAGCTAGCATTA
* * * *
13638667 ACCAAAGAGGTGTACGAGGCAACAACTTGCACCAAGAGCTAGC
1 ACCAAAGAGGTGTACAACGCAACAACCTACACCAAGAGCTAGC
13638710 TTGTACTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.13
Consensus pattern (47 bp):
ACCAAAGAGGTGTACAACGCAACAACCTACACCAAGAGCTAGCATTA
Found at i:13639218 original size:21 final size:21
Alignment explanation
Indices: 13639192--13639231 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13639182 CTGACTTAGA
*
13639192 GGCATTCAGTCATAATCCAGT
1 GGCATTCAATCATAATCCAGT
13639213 GGCATTCAATCATAATCCA
1 GGCATTCAATCATAATCCA
13639232 ATATGCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
GGCATTCAATCATAATCCAGT
Found at i:13645167 original size:95 final size:95
Alignment explanation
Indices: 13645004--13645195 Score: 384
Period size: 95 Copynumber: 2.0 Consensus size: 95
13644994 TGGAGTCTCG
13645004 AAAGCCAAGAGGCCTTCGATTACCTAAAGCAAGTTGTCACAATAGAGCCAATCCTAGCTTTCCCT
1 AAAGCCAAGAGGCCTTCGATTACCTAAAGCAAGTTGTCACAATAGAGCCAATCCTAGCTTTCCCT
13645069 GACTATACCAAGCCATATGAGGTACACACT
66 GACTATACCAAGCCATATGAGGTACACACT
13645099 AAAGCCAAGAGGCCTTCGATTACCTAAAGCAAGTTGTCACAATAGAGCCAATCCTAGCTTTCCCT
1 AAAGCCAAGAGGCCTTCGATTACCTAAAGCAAGTTGTCACAATAGAGCCAATCCTAGCTTTCCCT
13645164 GACTATACCAAGCCATATGAGGTACACACT
66 GACTATACCAAGCCATATGAGGTACACACT
13645194 AA
1 AA
13645196 TGCATCCATC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (95 bp):
AAAGCCAAGAGGCCTTCGATTACCTAAAGCAAGTTGTCACAATAGAGCCAATCCTAGCTTTCCCT
GACTATACCAAGCCATATGAGGTACACACT
Found at i:13695779 original size:37 final size:37
Alignment explanation
Indices: 13695714--13695788 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
13695704 TATCCAAATT
* **
13695714 TATCATTCCATATTTGATCAATCATTGCATTTTATGC
1 TATCATTCCAGATTTGATCAATCATTGCACCTTATGC
* * **
13695751 TATCATTCCAGCTTTGATTAATTGTTGCACCTTATGC
1 TATCATTCCAGATTTGATCAATCATTGCACCTTATGC
13695788 T
1 T
13695789 TTAGGGTGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (37 bp):
TATCATTCCAGATTTGATCAATCATTGCACCTTATGC
Found at i:13700963 original size:117 final size:119
Alignment explanation
Indices: 13700700--13700963 Score: 306
Period size: 117 Copynumber: 2.2 Consensus size: 119
13700690 AATTATCCTC
* * *
13700700 CAATATGTTAGTAA-G-ATTTTATGAAAATTCTTTCTTCACTAAAAATTAATTTTTATTTAAAAA
1 CAATATGTTGGTAAGGCATTTTA-GAAAACTATTTCTTCACTAAAAATTAATTTTTATTTAAAAA
* * * *
13700763 TCATAAGGTTTTCCAATGTGTTGGTAAAACGTTATCTTAAAAATCAAATTGCCTT
65 TAATAAGGTTCTCCAATATGTTGGTAAAACCTTATCTTAAAAATCAAATTGCCTT
* * * * *
13700818 CTAATATGTTGGTAGGGC-TTTATTGAAAACTATTTCTT-TCTTAAAATTTATTTTT-TTT-AAA
1 C-AATATGTTGGTAAGGCATTT-TAGAAAACTATTTCTTCACTAAAAATTAATTTTTATTTAAAA
* * * *
13700879 TTAATAAGGTTCTCCAATATGTTGGTAAAACCTTATTTTAAAGATCCAATTGCCTTT
64 ATAATAAGGTTCTCCAATATGTTGGTAAAACCTTATCTTAAAAATCAAATTGCC-TT
13700936 CAATATGTTGGTAAGGCATTTTAGAAAA
1 CAATATGTTGGTAAGGCATTTTAGAAAA
13700964 TTTGAACCCT
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
117 70 0.57
118 10 0.08
119 25 0.20
120 16 0.13
121 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (119 bp):
CAATATGTTGGTAAGGCATTTTAGAAAACTATTTCTTCACTAAAAATTAATTTTTATTTAAAAAT
AATAAGGTTCTCCAATATGTTGGTAAAACCTTATCTTAAAAATCAAATTGCCTT
Found at i:13706747 original size:126 final size:126
Alignment explanation
Indices: 13706583--13706811 Score: 318
Period size: 126 Copynumber: 1.8 Consensus size: 126
13706573 TTTAGAATAG
* *
13706583 ATTCTTAAAGGTGTTTTTGGCCAAAAACGCCTCTAATAATCCACACAATAAATTTTCATGAGGGA
1 ATTCTTAAAGGCGTTTTTGGCCAAAAACACCTCTAATAATCCACACAATAAATTTTCATGAGGGA
* **
13706648 TTATTGAAGGTGGTTTTGGTCAAAAAC-GCCTTCAATAATCAATACAAAAATTTGGGAACAA
66 TTATTAAAGGTAATTTTGGTC-AAAACTGCCTTCAATAATCAATACAAAAATTTGGGAACAA
* **** *
13706709 ATTCTTAAAGGCGTTTTTGGCCCAAAACACCT-TCAATAATCCTTTTAATAAATTTTTATGAGGG
1 ATTCTTAAAGGCGTTTTTGGCCAAAAACACCTCT-AATAATCCACACAATAAATTTTCATGAGGG
*
13706773 ATTATTAAAGGTAATTTTGGTCAAAACTGCCTTTAATAA
65 ATTATTAAAGGTAATTTTGGTCAAAACTGCCTTCAATAA
13706812 CATTTTGTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
125 6 0.07
126 83 0.93
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (126 bp):
ATTCTTAAAGGCGTTTTTGGCCAAAAACACCTCTAATAATCCACACAATAAATTTTCATGAGGGA
TTATTAAAGGTAATTTTGGTCAAAACTGCCTTCAATAATCAATACAAAAATTTGGGAACAA
Done.