Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167986.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_243, 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: 44336
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 2 of 2
Found at i:26559 original size:23 final size:22
Alignment explanation
Indices: 26482--26559 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
26472 AATTAAATTG
*
26482 TTATTAAA-ATTATAACAAGTAA
1 TTATTAAATATAATAA-AAGTAA
26504 TTAATATAAATATAAT-AAAG-AA
1 TT-AT-TAAATATAATAAAAGTAA
26526 -T-TTAAAT-TAATAATAAGTAA
1 TTATTAAATATAATAA-AAGTAA
26546 TTATTAAATATAAT
1 TTATTAAATATAAT
26560 TTTTAATCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 17
0.72 0.02 0.27
Matches are distributed among these distances:
17 4 0.09
18 6 0.13
19 4 0.09
20 2 0.04
21 2 0.04
22 10 0.22
23 9 0.20
24 5 0.11
25 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (22 bp):
TTATTAAATATAATAAAAGTAA
Found at i:27125 original size:20 final size:17
Alignment explanation
Indices: 27077--27118 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
27067 ATTAGTTAAT
27077 TTAATTTAAATATAGTAA
1 TTAA-TTAAATATAGTAA
27095 TTAATTAAATATAGTAA
1 TTAATTAAATATAGTAA
*
27112 TAAATTA
1 TTAATTA
27119 TTAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
TTAATTAAATATAGTAA
Found at i:27152 original size:21 final size:21
Alignment explanation
Indices: 27114--27153 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27104 TATAGTAATA
*
27114 AATTATTAAATAATTTATTGC
1 AATTATTAAATAACTTATTGC
27135 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
27154 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGC
Found at i:27269 original size:31 final size:30
Alignment explanation
Indices: 27231--27289 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
27221 ATAACTAGTG
27231 TAATATAATATTAT-AATTATATAATATTGAA
1 TAATATAA-ATTATAAATTA-ATAATATTGAA
27262 TAATATAAATTATACAATTAATAATATT
1 TAATATAAATTATA-AATTAATAATATT
27290 TTTATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 16 0.62
32 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
TAATATAAATTATAAATTAATAATATTGAA
Found at i:27287 original size:24 final size:22
Alignment explanation
Indices: 27235--27287 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
27225 CTAGTGTAAT
* *
27235 ATAATATTATAATTATATAATA
1 ATAATAATATAATTATACAATA
*
27257 TTGAATAATATAAATTATACAATTA
1 AT-AATAATAT-AATTATACAA-TA
27282 ATAATA
1 ATAATA
27288 TTTTTATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 7 0.29
24 13 0.54
25 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAATATAATTATACAATA
Found at i:27480 original size:30 final size:30
Alignment explanation
Indices: 27446--27508 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
27436 TAACTAAAAA
* *
27446 TATAATGTATTTAATTAA-AATTATAGTTAG
1 TATAAT-TATTTAACTAATAACTATAGTTAG
*
27476 TATAATTATTTAACTAATAACTATAGTTTG
1 TATAATTATTTAACTAATAACTATAGTTAG
27506 TAT
1 TAT
27509 TACAATAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (30 bp):
TATAATTATTTAACTAATAACTATAGTTAG
Found at i:27814 original size:27 final size:26
Alignment explanation
Indices: 27764--27826 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
27754 ATTGTATATT
* * *
27764 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
27791 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
27817 TATAATAATT
1 T-TAATAATT
27827 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:27822 original size:16 final size:15
Alignment explanation
Indices: 27801--27835 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
27791 TTAATAATTT
27801 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
27817 TATAATAATTAAATG
1 TATAATAATCAAATG
27832 TATA
1 TATA
27836 TATGAATAGT
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:27872 original size:15 final size:16
Alignment explanation
Indices: 27847--27877 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27837 ATGAATAGTC
27847 TATTGAATCAATAATT
1 TATTGAATCAATAATT
27863 TATT-AATCAATAATT
1 TATTGAATCAATAATT
27878 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTGAATCAATAATT
Found at i:27908 original size:23 final size:26
Alignment explanation
Indices: 27875--27929 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
27865 TTAATCAATA
27875 ATTAA-AA-TATTT-AT-GATTATTT
1 ATTAATAATTATTTCATAGATTATTT
*
27897 -TTAATAATTATTTCATAGCTTATTT
1 ATTAATAATTATTTCATAGATTATTT
27922 ATTAATAA
1 ATTAATAA
27930 ATATCGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
22 2 0.07
23 5 0.19
24 2 0.07
25 7 0.26
26 7 0.26
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTAATAATTATTTCATAGATTATTT
Found at i:27993 original size:29 final size:28
Alignment explanation
Indices: 27940--27997 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
27930 ATATCGATAA
27940 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATATTTTAAT
* *
27968 TTAAATATTTAAAACTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAAATTAAATA-TTTTAAT
27997 T
1 T
27998 ATTAACATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATATTTTAAT
Found at i:28163 original size:22 final size:20
Alignment explanation
Indices: 28132--28189 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 20
28122 AAAATAAAAT
* *
28132 AATACTAATTTCTTATTATTA
1 AATATTAATTTCATATTA-TA
*
28153 AATAGTTAATTACATATTATA
1 AATA-TTAATTTCATATTATA
*
28174 TATATTAATTT-ATATT
1 AATATTAATTTCATATT
28190 TTTAATATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 9 0.29
22 11 0.35
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
AATATTAATTTCATATTATA
Found at i:28299 original size:14 final size:15
Alignment explanation
Indices: 28274--28302 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28264 AACTATTTTA
28274 TAATATTTATATAAT
1 TAATATTTATATAAT
28289 TAATA-TTATATAAT
1 TAATATTTATATAAT
28303 ATTATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTATATAAT
Found at i:28312 original size:18 final size:17
Alignment explanation
Indices: 28271--28315 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
28261 AACAACTATT
28271 TTATAATATT-TATATA
1 TTATAATATTATATATA
*
28287 AT-TAATATTATATAATA
1 TTATAATATTATAT-ATA
28304 TTATAATATTAT
1 TTATAATATTAT
28316 TGTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 4 0.17
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATATTATATATA
Found at i:28575 original size:16 final size:16
Alignment explanation
Indices: 28554--28584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28544 ATTTAATGTT
*
28554 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
28570 ATATTAAGATTAATT
1 ATATTAAGATTAATT
28585 TAGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:29482 original size:17 final size:17
Alignment explanation
Indices: 29462--29495 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
29452 TATTATAAGG
29462 ATTTAATTTTAATATTA
1 ATTTAATTTTAATATTA
29479 ATTTAATTTTAATATTA
1 ATTTAATTTTAATATTA
29496 TTAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAATTTTAATATTA
Found at i:30151 original size:26 final size:26
Alignment explanation
Indices: 30086--30156 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
30076 AGATATCTAT
30086 TAATTAATAA-AAATCATAATTAAAA
1 TAATTAATAATAAATCATAATTAAAA
* * *
30111 TATTTAA-AATAAAATCA-ATATTCAGA
1 TAATTAATAAT-AAATCATA-ATTAAAA
*
30137 TAATTAATAATAAATTATAA
1 TAATTAATAATAAATCATAA
30157 GTATTTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.06
25 7 0.19
26 23 0.64
27 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (26 bp):
TAATTAATAATAAATCATAATTAAAA
Found at i:30170 original size:23 final size:25
Alignment explanation
Indices: 30141--30190 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
30131 TTCAGATAAT
*
30141 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
30164 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
30189 TA
1 TA
30191 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:30785 original size:23 final size:24
Alignment explanation
Indices: 30759--30817 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
30749 ATATGCCAAA
30759 AATTCATTAATTATATAAT-TA-AT
1 AATT-ATTAATTATATAATATATAT
30782 AATTGATTAA-TA-ATAATATATAT
1 AATT-ATTAATTATATAATATATAT
30805 AATTA-TAATTATA
1 AATTATTAATTATA
30818 ATGTTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 8 0.26
22 7 0.23
23 16 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTATTAATTATATAATATATAT
Found at i:30807 original size:15 final size:14
Alignment explanation
Indices: 30766--30817 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
30756 AAAAATTCAT
30766 TAATTATATAATTAA
1 TAATTATATAA-TAA
30781 TAATTGAT-TAATAA
1 TAATT-ATATAATAA
*
30795 TAATATATATAATTA
1 TAAT-TATATAATAA
30810 TAATTATA
1 TAATTATA
30818 ATGTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 13 0.39
15 18 0.55
16 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATTATATAATAA
Found at i:30832 original size:22 final size:21
Alignment explanation
Indices: 30800--30840 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30790 AATAATAATA
30800 TATATAATTATAATTATAATGT
1 TATATAATTATAA-TATAATGT
* *
30822 TATATATTTATCATATAAT
1 TATATAATTATAATATAAT
30841 TAACGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATATAATTATAATATAATGT
Found at i:31013 original size:18 final size:21
Alignment explanation
Indices: 30916--31014 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 21
30906 CAATTGATAT
* *
30916 TAATTATATTATTATAATAAT
1 TAATTATATTATTATAACAAC
*
30937 TGATTATACTATATTATAACAAC
1 TAATTATA-T-TATTATAACAAC
*
30960 TAAATATAATTATTAT-A-AAC
1 TAATTAT-ATTATTATAACAAC
*
30980 TTAATTATACTA-TATAA-AA-
1 -TAATTATATTATTATAACAAC
30999 TAATTATATT-TTATAA
1 TAATTATATTATTATAA
31015 TTAATATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.22
19 3 0.05
20 9 0.14
21 14 0.22
22 7 0.11
23 16 0.25
24 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (21 bp):
TAATTATATTATTATAACAAC
Found at i:31554 original size:14 final size:14
Alignment explanation
Indices: 31537--31583 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
31527 AATTATAAAT
31537 ATAATTATATATAA
1 ATAATTATATATAA
31551 ATAATTAT-TATAA
1 ATAATTATATATAA
*
31564 ATTATATTAAAT-TAA
1 A-TA-ATTATATATAA
31579 ATAAT
1 ATAAT
31584 CAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.28
14 12 0.41
15 8 0.28
16 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTATATATAA
Found at i:31572 original size:29 final size:28
Alignment explanation
Indices: 31528--31583 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
31518 AATATTACCA
*
31528 ATTATAAATATAATTATATATAAATAATT
1 ATTATAAATATAATTAAAT-TAAATAATT
31557 ATTATAAAT-TATATTAAATTAAATAAT
1 ATTATAAATATA-ATTAAATTAAATAAT
31584 CAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATAAATATAATTAAATTAAATAATT
Found at i:31613 original size:21 final size:20
Alignment explanation
Indices: 31559--31640 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
31549 AAATAATTAT
* *
31559 TATAAATTATATTAAATTAAA
1 TATAAA-TATAATATATTAAA
* *
31580 TAATCAA-ATAATATATTAAC
1 T-ATAAATATAATATATTAAA
*
31600 TATAATTATTAATA-ATATAAA
1 TATAAATA-TAATATAT-TAAA
31621 TATAAATATAATATTATTAA
1 TATAAATATAATA-TATTAA
31641 TTAATAACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
19 3 0.06
20 19 0.40
21 19 0.40
22 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAATATAATATATTAAA
Found at i:31628 original size:15 final size:15
Alignment explanation
Indices: 31545--31628 Score: 50
Period size: 15 Copynumber: 5.6 Consensus size: 15
31535 ATATAATTAT
31545 ATATAAATAAT-T-A
1 ATATAAATAATATAA
* *
31558 TTATAAATTATATTAA
1 ATATAAATAATA-TAA
*
31574 AT-TAAATAAT-CAA
1 ATATAAATAATATAA
*
31587 ATAATATATTAACTATAA
1 AT-ATA-AATAA-TATAA
* *
31605 TTATTAATAATATAA
1 ATATAAATAATATAA
31620 ATATAAATA
1 ATATAAATA
31629 TAATATTATT
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
13 13 0.25
15 22 0.43
16 10 0.20
17 3 0.06
18 3 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAAATAATATAA
Found at i:31692 original size:21 final size:21
Alignment explanation
Indices: 31668--31711 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31658 TTAAATATTT
31668 TAATAATAATATCATA-TATAA
1 TAATAATAAT-TCATATTATAA
* *
31689 TAATTATAATTGATATTATAA
1 TAATAATAATTCATATTATAA
31710 TA
1 TA
31712 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATTCATATTATAA
Found at i:31834 original size:25 final size:25
Alignment explanation
Indices: 31775--31826 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
31765 AAAATATATT
31775 TATAT-TAA-AAATTAAACTATTTTA
1 TATATATAATAAA-TAAACTATTTTA
31799 TATATATAATAAATAAACTA-TTTA
1 TATATATAATAAATAAACTATTTTA
31823 TATA
1 TATA
31827 CTCTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 13 0.50
25 10 0.38
26 3 0.12
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATATAATAAATAAACTATTTTA
Found at i:31848 original size:10 final size:10
Alignment explanation
Indices: 31830--31885 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
31820 TTATATACTC
31830 TAATA-TTAT
1 TAATATTTAT
31839 TAATATTTAT
1 TAATATTTAT
31849 T-A-ATTTAT
1 TAATATTTAT
*
31857 TATAAATTTAT
1 TA-ATATTTAT
*
31868 ATAATATTTGT
1 -TAATATTTAT
31879 TAATATT
1 TAATATT
31886 AGAAGATGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 7 0.17
9 6 0.15
10 13 0.32
11 12 0.30
12 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TAATATTTAT
Found at i:32067 original size:4 final size:4
Alignment explanation
Indices: 32060--32094 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
32050 ATTATTTATA
*
32060 AATT AATT AATT AATT AATT -ATT ATTT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
32095 TAATAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
AATT
Found at i:32081 original size:23 final size:23
Alignment explanation
Indices: 32044--32102 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
32034 ACTAGTAATT
*
32044 TTAA-TAATTATTTATAAATTAA
1 TTAATTAATTAATTATAAATTAA
* *
32066 TTAATTAATTAATTATTATTTAA
1 TTAATTAATTAATTATAAATTAA
32089 TTAATTTAA-TAATT
1 TTAA-TTAATTAATT
32103 GTATAGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 24 0.75
24 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTAATTAATTATAAATTAA
Found at i:32088 original size:15 final size:15
Alignment explanation
Indices: 32044--32094 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
32034 ACTAGTAATT
*
32044 TTAATAATTATTT-A
1 TTAATTATTATTTAA
* *
32058 TAAATTAATTAATTAA
1 TTAATT-ATTATTTAA
32074 TTAATTATTATTTAA
1 TTAATTATTATTTAA
32089 TTAATT
1 TTAATT
32095 TAATAATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 4 0.13
15 20 0.67
16 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTATTATTTAA
Found at i:32227 original size:11 final size:11
Alignment explanation
Indices: 32211--32240 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32201 CTATTCACAC
32211 AATTATATCAT
1 AATTATATCAT
*
32222 AATTATATCGT
1 AATTATATCAT
32233 AATTATAT
1 AATTATAT
32241 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:32616 original size:14 final size:13
Alignment explanation
Indices: 32593--32637 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
32583 TTATAAAAAT
*
32593 ATATTTATTATTA
1 ATATTTATTATAA
32606 ATATTTGATTATAA
1 ATATTT-ATTATAA
*
32620 ATATTTATAATAA
1 ATATTTATTATAA
*
32633 TTATT
1 ATATT
32638 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:33645 original size:24 final size:25
Alignment explanation
Indices: 33600--33667 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
33590 ATTATATAAC
* * *
33600 ATTATGATTAATGTTAATATAACCTTT
1 ATTAT-ATTAATTTTAATATAA-ATTA
33627 ATTAT-TTAATTTTAA-ATAAATTA
1 ATTATATTAATTTTAATATAAATTA
33650 ATTATATTAATTTATAAT
1 ATTATATTAATTT-TAAT
33668 TTTACTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 7 0.20
24 11 0.31
25 12 0.34
27 5 0.14
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
ATTATATTAATTTTAATATAAATTA
Found at i:34323 original size:16 final size:16
Alignment explanation
Indices: 34304--34349 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
34294 TTTACAAGTA
34304 TATATAAATTAATTAT
1 TATATAAATTAATTAT
34320 TATAT-AATT-ATTAT
1 TATATAAATTAATTAT
*
34334 TA-ATAATAATAATTAT
1 TATATAA-ATTAATTAT
34350 ATTAACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.08
14 8 0.31
15 6 0.23
16 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATAAATTAATTAT
Found at i:34347 original size:19 final size:19
Alignment explanation
Indices: 34323--34360 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
34313 TAATTATTAT
34323 ATAATTATTATTAA-TAATA
1 ATAATTA-TATTAACTAATA
34342 ATAATTATATTAACTAATA
1 ATAATTATATTAACTAATA
34361 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATTATATTAACTAATA
Found at i:34396 original size:24 final size:23
Alignment explanation
Indices: 34333--34420 Score: 63
Period size: 24 Copynumber: 3.7 Consensus size: 23
34323 ATAATTATTA
* *
34333 TTAATAATAATAATTATATTAAC-
1 TTAATAATACTAATTATA-GAACT
* *
34356 -TAATATTACTATTATTATAGAATT
1 TTAATAATACTA--ATTATAGAACT
*
34380 TATAATAATACTAATTAATATAACT
1 T-TAATAATACTAATT-ATAGAACT
*
34405 TTAATAATATTAATTA
1 TTAATAATACTAATTA
34421 ATTAATTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
22 9 0.18
23 3 0.06
24 22 0.43
25 7 0.14
26 10 0.20
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (23 bp):
TTAATAATACTAATTATAGAACT
Found at i:34429 original size:21 final size:23
Alignment explanation
Indices: 34382--34435 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
34372 ATAGAATTTA
*
34382 TAATAATACTAATTAATATAACTT
1 TAATAATATTAATTAATATAAC-T
34406 TAATAATATTAATTAAT-TAA-T
1 TAATAATATTAATTAATATAACT
*
34427 TAATTATAT
1 TAATAATAT
34436 AATCTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
23 3 0.11
24 16 0.57
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATAATATTAATTAATATAACT
Found at i:34791 original size:10 final size:10
Alignment explanation
Indices: 34765--34889 Score: 63
Period size: 10 Copynumber: 12.6 Consensus size: 10
34755 AATAAATTAA
*
34765 ATATTAATTT
1 ATATTAATAT
34775 A-ATTAATAT
1 ATATTAATAT
34784 ATATTAATAAT
1 ATATTAAT-AT
34795 ATTATGTAATAT
1 A-TAT-TAATAT
*
34807 ATAATTGGATAT
1 AT-ATT-AATAT
34819 -TATT-A-AT
1 ATATTAATAT
34826 -TATT-ATAT
1 ATATTAATAT
*
34834 ATAATAATAT
1 ATATTAATAT
34844 ATA-TAATAT
1 ATATTAATAT
34853 -TATATAAT-T
1 ATAT-TAATAT
34862 ATA-TAATACTT
1 ATATTAATA--T
*
34873 CATATTATTAT
1 -ATATTAATAT
34884 ATATTA
1 ATATTA
34890 TTAAAAATAA
Statistics
Matches: 94, Mismatches: 4, Indels: 34
0.71 0.03 0.26
Matches are distributed among these distances:
7 7 0.07
8 9 0.10
9 18 0.19
10 29 0.31
11 8 0.09
12 15 0.16
13 8 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (10 bp):
ATATTAATAT
Found at i:34808 original size:25 final size:24
Alignment explanation
Indices: 34780--34869 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 24
34770 AATTTAATTA
34780 ATATATATTAATAATATTATGTAAT
1 ATATATATTAATAATATTAT-TAAT
**
34805 ATATA-ATT--GGATATTATTAAT
1 ATATATATTAATAATATTATTAAT
34826 -TATTATATATAATAATA-TATATAAT
1 ATA-TATAT-TAATAATATTAT-TAAT
34851 ATTATATAATTATATAATA
1 A-TATAT-ATTA-ATAATA
34870 CTTCATATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
20 2 0.04
21 6 0.12
22 9 0.18
23 1 0.02
24 6 0.12
25 12 0.24
26 5 0.10
27 10 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
ATATATATTAATAATATTATTAAT
Found at i:34846 original size:12 final size:12
Alignment explanation
Indices: 34778--34866 Score: 55
Period size: 12 Copynumber: 7.6 Consensus size: 12
34768 TTAATTTAAT
34778 TAATATATATTAA
1 TAATATATA-TAA
*
34791 TAATAT-TAT-G
1 TAATATATATAA
*
34801 TAATATATA-AT
1 TAATATATATAA
*
34812 TGGATAT-TATTAA
1 T-AATATATA-TAA
*
34825 TTATTATATATAA
1 -TAATATATATAA
34838 TAATATATATAA
1 TAATATATATAA
34850 T-AT-TATATAA
1 TAATATATATAA
*
34860 TTATATA
1 TAATATA
34867 ATACTTCATA
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
10 14 0.23
11 10 0.17
12 20 0.33
13 13 0.22
14 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (12 bp):
TAATATATATAA
Found at i:34865 original size:30 final size:29
Alignment explanation
Indices: 34746--34907 Score: 79
Period size: 30 Copynumber: 5.9 Consensus size: 29
34736 ACTAAATCCA
*
34746 ATATTATCTAATAA-AT-TA-AATATTA-
1 ATATTATATAATAATATATATAATATTAT
34771 AT-TTA-ATTAAT-ATATATTAATAATATTAT
1 ATATTATA-TAATAATATA-T-ATAATATTAT
* * * *
34800 GTAATATATAATTGGATAT-TATTA-ATTAT
1 ATATTATATAA-T-AATATATATAATATTAT
34829 -TA-TATATAATAATATATATAATATTAT
1 ATATTATATAATAATATATATAATATTAT
*
34856 ATAATTATATAATACT-TCATAT--TATTAT
1 AT-ATTATATAATAATAT-ATATAATATTAT
*
34884 ATATTAT-TAA-AA-ATAAATAATATT
1 ATATTATATAATAATATATATAATATT
34908 GTTTTATGAA
Statistics
Matches: 107, Mismatches: 9, Indels: 41
0.68 0.06 0.26
Matches are distributed among these distances:
23 1 0.01
24 12 0.11
25 8 0.07
26 13 0.12
27 18 0.17
28 18 0.17
29 8 0.07
30 22 0.21
31 3 0.03
33 4 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATTATATAATAATATATATAATATTAT
Found at i:35013 original size:22 final size:20
Alignment explanation
Indices: 34973--35019 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
34963 ATTGTTCAAG
* *
34973 TAATTATCATTTTATTTAAT
1 TAATTAACATTTTATTTAAA
34993 TAATTAACATTTAATATTTAAA
1 TAATTAACATTT--TATTTAAA
35015 TAATT
1 TAATT
35020 TTGACTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAACATTTTATTTAAA
Found at i:35228 original size:36 final size:38
Alignment explanation
Indices: 35152--35245 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 38
35142 AAATTTAATA
* **
35152 AATAATTTATAAT-ATAATTAATTATAATTATTATTTT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
* *
35189 AATAATTTATAATAAT-ATT-GTTATTATAATTATCCT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
*
35225 AATAA-TTACTAATAATGATTA
1 AATAATTTA-TAATAATAATTA
35246 TCTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.06
36 24 0.50
37 19 0.40
38 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (38 bp):
AATAATTTATAATAATAATTAATTATAATAATTATCCT
Found at i:35965 original size:14 final size:16
Alignment explanation
Indices: 35948--35980 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
35938 TTTATAGCAT
35948 TATAATTA-TA-AATA
1 TATAATTACTATAATA
35962 TATAATTACTATAATA
1 TATAATTACTATAATA
35978 TAT
1 TAT
35981 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:36192 original size:9 final size:9
Alignment explanation
Indices: 36180--36227 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
36170 AATAATTAAA
36180 ATTATTACT
1 ATTATTACT
36189 ATTAGTTA-T
1 ATTA-TTACT
36198 ATT-TTGACT
1 ATTATT-ACT
36207 ATTATT--T
1 ATTATTACT
36214 ATTATTACT
1 ATTATTACT
36223 ATTAT
1 ATTAT
36228 AATAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 9 0.27
8 1 0.03
9 18 0.55
10 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTATTACT
Found at i:36209 original size:18 final size:16
Alignment explanation
Indices: 36180--36227 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
36170 AATAATTAAA
36180 ATTATTACTATTAGTTAT
1 ATTATTACTATTA-TT-T
36198 ATT-TTGACTATTATTT
1 ATTATT-ACTATTATTT
36214 ATTATTACTATTAT
1 ATTATTACTATTAT
36228 AATAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTATTACTATTATTT
Found at i:37707 original size:14 final size:13
Alignment explanation
Indices: 37681--37813 Score: 65
Period size: 12 Copynumber: 10.5 Consensus size: 13
37671 ATTTATCCAG
*
37681 TAATATTTGATAA
1 TAATATTTAATAA
37694 TAATATTATAATAA
1 TAATATT-TAATAA
37708 TAATATTT-AT--
1 TAATATTTAATAA
37718 TAA-A-TTAATAAA
1 TAATATTTAAT-AA
*
37730 TAATTTATTAAT-A
1 TAATAT-TTAATAA
37743 TAA-A-TTAA-AA
1 TAATATTTAATAA
37753 TAAT-TTTAATTTAA
1 TAATATTTAA--TAA
37767 TATTATAATTTAATTAA
1 TA--AT-ATTTAA-TAA
*
37784 TAA-AATTAATAA
1 TAATATTTAATAA
*
37796 TAATA-TTAACAA
1 TAATATTTAATAA
37808 TAATAT
1 TAATAT
37814 GATTTATTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 40
0.68 0.04 0.29
Matches are distributed among these distances:
8 2 0.02
9 3 0.03
10 11 0.12
11 4 0.04
12 22 0.23
13 18 0.19
14 16 0.17
15 6 0.06
16 2 0.02
17 6 0.06
18 5 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (13 bp):
TAATATTTAATAA
Found at i:37876 original size:18 final size:18
Alignment explanation
Indices: 37829--37898 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
37819 ATTATAATTG
37829 AATTAATATTAA-TATTAT
1 AATT-ATATTAATTATTAT
*
37847 AATTATAATAATTATTAT
1 AATTATATTAATTATTAT
*
37865 -TTTCATATTAATTAAAATTAT
1 AATT-ATATTAATT---ATTAT
*
37886 AATAATATTAATT
1 AATTATATTAATT
37899 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 18 0.44
21 14 0.34
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATATTAATTATTAT
Found at i:37898 original size:15 final size:15
Alignment explanation
Indices: 37690--37908 Score: 84
Period size: 15 Copynumber: 14.5 Consensus size: 15
37680 GTAATATTTG
*
37690 ATAATAATATT-ATA
1 ATAATAATATTAATT
*
37704 ATAATAATATTTATT
1 ATAATAATATTAATT
*
37719 A-AATTAATAAATAATT
1 ATAA-TAAT-ATTAATT
* *
37735 -TATTAATATAAATT
1 ATAATAATATTAATT
* *
37749 AAAATAATTTTAATT
1 ATAATAATATTAATT
*
37764 -TAATATTA-TAATT
1 ATAATAATATTAATT
*
37777 -TAATTAATA-AAATT
1 ATAA-TAATATTAATT
**
37791 AATAATAATATTAACA
1 -ATAATAATATTAATT
*
37807 ATAAT-ATGATTTATT
1 ATAATAAT-ATTAATT
*
37822 ATAATTGA-ATTAA-T
1 ATAA-TAATATTAATT
*
37836 ATTAATATTA-TAATT
1 A-TAATAATATTAATT
*
37851 ATAATAATTATTATTTT
1 ATAATAA-TATTA-ATT
* *
37868 CATATTAAT-TAAAATT
1 -ATAATAATAT-TAATT
37884 ATAATAATATTAATT
1 ATAATAATATTAATT
37899 GAATAATAAT
1 --ATAATAAT
37909 TCAAATATTA
Statistics
Matches: 151, Mismatches: 31, Indels: 43
0.67 0.14 0.19
Matches are distributed among these distances:
13 8 0.05
14 44 0.29
15 62 0.41
16 18 0.12
17 13 0.09
18 6 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
ATAATAATATTAATT
Found at i:38363 original size:13 final size:13
Alignment explanation
Indices: 38342--38382 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
38332 GCATTTGTTT
38342 ATAATTATAATTA
1 ATAATTATAATTA
* *
38355 ATCATTATAATTT
1 ATAATTATAATTA
38368 ATAATGTATAATTA
1 ATAAT-TATAATTA
38382 A
1 A
38383 AATATAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATAATTATAATTA
Found at i:38381 original size:20 final size:19
Alignment explanation
Indices: 38340--38381 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
38330 TTGCATTTGT
*
38340 TTATAATTATAATTAATCA
1 TTATAATTATAATTAATAA
38359 TTATAATTTATAATGT-ATAA
1 TTATAA-TTATAAT-TAATAA
38379 TTA
1 TTA
38382 AAATATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 13 0.65
21 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTATAATTATAATTAATAA
Found at i:38663 original size:21 final size:21
Alignment explanation
Indices: 38639--38683 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38629 TTCTTAGTTA
*
38639 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATT-TATTTAATTT
*
38660 TAAATATTATTTATTTAATTT
1 TAAATATAATTTATTTAATTT
38681 TAA
1 TAA
38684 TAATCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TAAATATAATTTATTTAATTT
Found at i:39023 original size:22 final size:22
Alignment explanation
Indices: 38983--39025 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38973 TTAAATTTGT
*
38983 ATTATAATAAATATTATATTAC
1 ATTATAATAAATATAATATTAC
39005 ATTATAAT-AATAGTAATATTA
1 ATTATAATAAATA-TAATATTA
39026 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAC
Found at i:39042 original size:33 final size:34
Alignment explanation
Indices: 39005--39084 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
38995 ATTATATTAC
* * * *
39005 ATTATAATAATAGTAATATTAGTTAAT-ATAATT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
*
39038 ATTATTATATTA-TAATATAAATTAATAATAAAT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
39071 ATTATTA-AATAGTA
1 ATTATTATAATAGTA
39085 CTAAGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTATTATAATAGTAATATAAATTAATAATAAAT
Found at i:39548 original size:22 final size:22
Alignment explanation
Indices: 39523--39564 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39513 ATTAATCAGT
*
39523 TTTAATTTATTTAA-TAATATTA
1 TTTAAATTA-TTAATTAATATTA
39545 TTTAAATTATTAATTAATAT
1 TTTAAATTATTAATTAATAT
39565 ATTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTATTAATTAATATTA
Found at i:39578 original size:25 final size:25
Alignment explanation
Indices: 39533--39580 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
39523 TTTAATTTAT
39533 TTAATAATATTATTTAAATTATTAA
1 TTAATAATATTATTTAAATTATTAA
39558 TTAAT-ATATTGA-TTAATATTATT
1 TTAATAATATT-ATTTAA-ATTATT
39581 TGTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAATAATATTATTTAAATTATTAA
Found at i:40709 original size:24 final size:24
Alignment explanation
Indices: 40678--40749 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 24
40668 TTGTTATTAA
*
40678 AAAT-TATAACAAGTAATTAATAT
1 AAATATATAATAAGTAATTAATAT
40701 AAATATATAATAAG-AATTTAA-AT
1 AAATATATAATAAGTAA-TTAATAT
* *
40724 TAATA-ATAAGTAATTAATTAATAT
1 AAATATATAA-TAAGTAATTAATAT
40748 AA
1 AA
40750 TTTTTAATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.10
23 19 0.47
24 17 0.43
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATATAATAAGTAATTAATAT
Found at i:40729 original size:19 final size:18
Alignment explanation
Indices: 40707--40746 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
40697 ATATAAATAT
40707 ATAATAAG-AATTTAAATTA
1 ATAATAAGTAA-TT-AATTA
40726 ATAATAAGTAATTAATTA
1 ATAATAAGTAATTAATTA
40744 ATA
1 ATA
40747 TAATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 10 0.50
20 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
ATAATAAGTAATTAATTA
Found at i:40882 original size:32 final size:32
Alignment explanation
Indices: 40813--40883 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
40803 TAAAAATTAG
* *
40813 ATAT-ATTTTTAATTAATTTAGTTATTATATA
1 ATATAATTTTTAATTAAATTAGTTATAATATA
*
40844 AT-TAATTATTTAATTAAATTATTTATAATA-A
1 ATATAATT-TTTAATTAAATTAGTTATAATATA
40875 ATATAATTT
1 ATATAATTT
40884 CTCATTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 1 0.03
31 9 0.26
32 24 0.71
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
ATATAATTTTTAATTAAATTAGTTATAATATA
Found at i:41439 original size:16 final size:17
Alignment explanation
Indices: 41418--41475 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
41408 ACTTAGTGTA
41418 ATATAATATTAT-AATT
1 ATATAATATTATAAATT
* *
41434 ATATAATATT-TGAATA
1 ATATAATATTATAAATT
41450 ATATAA-ATTATACAATT
1 ATATAATATTATA-AATT
41467 A-ATAATATT
1 ATATAATATT
41476 TTTATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 4 0.11
16 24 0.69
17 7 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATAATATTATAAATT
Found at i:41472 original size:32 final size:32
Alignment explanation
Indices: 41416--41485 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
41406 TAACTTAGTG
41416 TAATATAATATTATAATTATATAATATTTGAA
1 TAATATAATATTATAATTATATAATATTTGAA
**
41448 TAATATAA-ATTATACAATTA-ATAATATTTTTA
1 TAATATAATATTAT--AATTATATAATATTTGAA
41480 TAATAT
1 TAATAT
41486 TATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 24 0.71
33 5 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATATAATATTATAATTATATAATATTTGAA
Found at i:41523 original size:22 final size:22
Alignment explanation
Indices: 41498--41585 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 22
41488 TTAAAAATAA
*
41498 TATTAAATTAAATATATTTAAT
1 TATTAAATTAAATAAATTTAAT
41520 TATTAAAATT-AATAAATTTAA-
1 TATT-AAATTAAATAAATTTAAT
*
41541 CATT-AA-TAAATTATAATTATAAACT
1 TATTAAATTAAA-TA-AATT-T-AA-T
*
41566 TATTAAATTTAATAAATTTA
1 TATTAAATTAAATAAATTTA
41586 TACTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 2 0.04
21 7 0.13
22 15 0.29
23 8 0.15
24 1 0.02
25 7 0.13
26 4 0.08
27 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAAATTAAATAAATTTAAT
Found at i:41545 original size:15 final size:15
Alignment explanation
Indices: 41522--41585 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
41512 TATTTAATTA
41522 TTAAAATTAATAAAT
1 TTAAAATTAATAAAT
*
41537 TTAACATTAATAAA-
1 TTAAAATTAATAAAT
*
41551 TTATAATT-ATAAACTT
1 TTAAAATTAATAAA--T
*
41567 ATTAAATTTAATAAAT
1 -TTAAAATTAATAAAT
41583 TTA
1 TTA
41586 TACTTATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.13
14 6 0.15
15 16 0.41
16 1 0.03
17 6 0.15
18 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAAATTAATAAAT
Found at i:41669 original size:30 final size:29
Alignment explanation
Indices: 41635--41696 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
41625 TAACTAAAAA
* *
41635 TATAATGTATTTAATTAA-AATTATAGTTAG
1 TATAAT-TATTTAACTAATAACTATAGTT-G
41665 TATAATTATTTAACTAATAACTATAGTTG
1 TATAATTATTTAACTAATAACTATAGTTG
41694 TAT
1 TAT
41697 TACAATAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (29 bp):
TATAATTATTTAACTAATAACTATAGTTG
Found at i:42013 original size:26 final size:25
Alignment explanation
Indices: 41964--42025 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
41954 ATTGTATATT
* *
41964 TTAATAAATTTATTACAATTAAATTAG
1 TTAAT-AATTTATAACAATCAAA-TAG
*
41991 TTAATAATTTATAATAATCAAATAG
1 TTAATAATTTATAACAATCAAATAG
42016 TATAATAATT
1 T-TAATAATT
42026 AAATGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 22 0.71
27 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (25 bp):
TTAATAATTTATAACAATCAAATAG
Found at i:42021 original size:16 final size:15
Alignment explanation
Indices: 42000--42034 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
41990 GTTAATAATT
42000 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
42016 TATAATAATTAAATG
1 TATAATAATCAAATG
42031 TATA
1 TATA
42035 TATGAATACG
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:42072 original size:15 final size:16
Alignment explanation
Indices: 42047--42077 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42037 TGAATACGTC
42047 TATTGAATCAATAATT
1 TATTGAATCAATAATT
42063 TATT-AATCAATAATT
1 TATTGAATCAATAATT
42078 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTGAATCAATAATT
Found at i:42192 original size:29 final size:28
Alignment explanation
Indices: 42139--42196 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
42129 ATATCGATAA
42139 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATATTTTAAT
* *
42167 TTAAATATTTAAAACTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAAATTAAATA-TTTTAAT
42196 T
1 T
42197 ATTAACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATATTTTAAT
Found at i:42518 original size:25 final size:24
Alignment explanation
Indices: 42490--42545 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
42480 TAAACAATTG
*
42490 TTTATAAAACAACTATTTTATAATA
1 TTTATAAAACAA-TATTATATAATA
**
42515 TTTATATAATTAATATTATATAATA
1 TTTATA-AAACAATATTATATAATA
42540 -TTATAA
1 TTTATAA
42546 TATTATTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 5 0.19
25 17 0.63
26 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATAAAACAATATTATATAATA
Found at i:42535 original size:14 final size:15
Alignment explanation
Indices: 42510--42538 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42500 AACTATTTTA
42510 TAATATTTATATAAT
1 TAATATTTATATAAT
42525 TAATA-TTATATAAT
1 TAATATTTATATAAT
42539 ATTATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTATATAAT
Found at i:42548 original size:18 final size:17
Alignment explanation
Indices: 42507--42551 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
42497 AACAACTATT
42507 TTATAATATT-TATATA
1 TTATAATATTATATATA
*
42523 AT-TAATATTATATAATA
1 TTATAATATTATAT-ATA
42540 TTATAATATTAT
1 TTATAATATTAT
42552 TGTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 4 0.17
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATATTATATATA
Found at i:42811 original size:16 final size:16
Alignment explanation
Indices: 42790--42820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42780 ATTTAATGTT
*
42790 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
42806 ATATTAAGATTAATT
1 ATATTAAGATTAATT
42821 TAGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Done.