Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168501.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_98, 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: 90112
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 1 of 3
Found at i:51 original size:6 final size:6
Alignment explanation
Indices: 36--115 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 6
26 ATTAATCAAG
* *
36 TTATAT TTATAA TTATAGA TT-TAA -TATAA TTA-AA TAACT-A TTAATAA
1 TTATAA TTATAA TTATA-A TTATAA TTATAA TTATAA TTA-TAA TT-ATAA
*
83 TTATAA -TA-AA -TATAA TTATAA CT-TAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA T
116 ATTAGTAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
4 5 0.08
5 16 0.27
6 31 0.53
7 7 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
TTATAA
Found at i:97 original size:15 final size:15
Alignment explanation
Indices: 43--103 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 15
33 AAGTTATATT
*
43 TATAATTATAGATTTAA
1 TATAATTATA-A-TAAA
60 TATAATTA-AATAACTA
1 TATAATTATAATAA--A
76 TTAATAATTATAATAAA
1 -T-ATAATTATAATAAA
93 TATAATTATAA
1 TATAATTATAA
104 CTTAATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
14 2 0.05
15 11 0.29
16 3 0.08
17 10 0.26
18 7 0.18
19 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
TATAATTATAATAAA
Found at i:108 original size:29 final size:33
Alignment explanation
Indices: 44--109 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
34 AGTTATATTT
*
44 ATAATTATAGATTTAATATAATTAAATAACTATTA
1 ATAATTATAGATTAAATATAATT-AATAAC-ATTA
79 ATAATTATA-A-TAAATATAATT-ATAAC-TTA
1 ATAATTATAGATTAAATATAATTAATAACATTA
108 AT
1 AT
110 TATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 5 0.17
31 5 0.17
33 10 0.33
34 1 0.03
35 9 0.30
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (33 bp):
ATAATTATAGATTAAATATAATTAATAACATTA
Found at i:203 original size:10 final size:9
Alignment explanation
Indices: 186--276 Score: 64
Period size: 10 Copynumber: 9.8 Consensus size: 9
176 TTTCTAATAT
186 TAATATTTA
1 TAATATTTA
195 TAATGATTTA
1 TAAT-ATTTA
205 TAAATTATTTA
1 T-AA-TATTTA
216 TAACTATTTA
1 TAA-TATTTA
226 TAAGTTATTTA
1 TAA--TATTTA
*
237 AAATA-TTA
1 TAATATTTA
*
245 TAATA-GTA
1 TAATATTTA
*
253 TTA-ATTTA
1 TAATATTTA
261 T-ATATTATA
1 TAATATT-TA
270 TAATATT
1 TAATATT
277 ATTGTAATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.03
8 17 0.25
9 9 0.13
10 22 0.33
11 16 0.24
12 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
TAATATTTA
Found at i:214 original size:21 final size:21
Alignment explanation
Indices: 189--236 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
179 CTAATATTAA
189 TATTTATAA-TGATTTATAAAT
1 TATTTATAACT-ATTTATAAAT
*
210 TATTTATAACTATTTATAAGT
1 TATTTATAACTATTTATAAAT
231 TATTTA
1 TATTTA
237 AAATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTTATAACTATTTATAAAT
Found at i:367 original size:15 final size:15
Alignment explanation
Indices: 349--382 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
339 TATGAATAAT
*
349 TATTAACCAAATTTA
1 TATTAACAAAATTTA
*
364 TATTAATAAAATTTA
1 TATTAACAAAATTTA
379 TATT
1 TATT
383 TAGAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAACAAAATTTA
Found at i:799 original size:10 final size:10
Alignment explanation
Indices: 772--837 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 10
762 ATCAAACAAA
772 TATATAAATAT
1 TATATAAAT-T
783 TAT-TAAATT
1 TATATAAATT
792 TATATAAATT
1 TATATAAATT
* *
802 TAAATCAATT
1 TATATAAATT
812 TATATAATTCTATT
1 TATATAA----ATT
826 TATATAAATT
1 TATATAAATT
836 TA
1 TA
838 ATTTAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.09
10 29 0.63
11 3 0.07
14 10 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATAAATT
Found at i:1002 original size:21 final size:19
Alignment explanation
Indices: 976--1018 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
966 TAATATTGAA
976 TAATAATAATAATATCATTAT
1 TAATAATAA-AA-ATCATTAT
*
997 TAATAATAAAAATGATTAT
1 TAATAATAAAAATCATTAT
1016 TAA
1 TAA
1019 ATTTTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATAATAAAAATCATTAT
Found at i:1677 original size:18 final size:19
Alignment explanation
Indices: 1644--1679 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1634 TGATCTATTG
*
1644 AATAATATATATTATTTAT
1 AATAATATATAATATTTAT
1663 AATAA-ATATAATATTTA
1 AATAATATATAATATTTA
1680 ATTAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAATATATAATATTTAT
Found at i:1721 original size:25 final size:25
Alignment explanation
Indices: 1645--1726 Score: 60
Period size: 25 Copynumber: 3.1 Consensus size: 25
1635 GATCTATTGA
1645 ATAATATATATT-AT-TTATAATAAAT
1 ATAATATATATTAATATTA-AAT-AAT
* *
1670 ATAATATTTAATTAACAATTACAAAATAAT
1 ATAATATAT-ATTAA-TATT---AAATAAT
*
1700 ATAATATATATTAATATTAAATTAT
1 ATAATATATATTAATATTAAATAAT
1725 AT
1 AT
1727 TATTATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
25 16 0.36
26 3 0.07
27 1 0.02
28 3 0.07
29 7 0.16
30 11 0.24
31 3 0.07
32 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATAATATATATTAATATTAAATAAT
Found at i:1736 original size:19 final size:19
Alignment explanation
Indices: 1703--1752 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1693 AAATAATATA
*
1703 ATATATATTAATATTAAATT
1 ATAT-TATTATTATTAAATT
*
1723 ATATTATTATTATTTAATT
1 ATATTATTATTATTAAATT
*
1742 AAATT-TTATTA
1 ATATTATTATTA
1753 ATATATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 6 0.22
19 17 0.63
20 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTATTATTATTAAATT
Found at i:1746 original size:24 final size:24
Alignment explanation
Indices: 1693--1769 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
1683 AACAATTACA
* *
1693 AAATAATA-TAATATATATTAATATT
1 AAATTATATTAATATATGTT-A-ATT
*
1718 AAATTATATTATTATTAT-TTAATT
1 AAATTATATTAATA-TATGTTAATT
* *
1742 AAATTTTATTAATATATGTTATTT
1 AAATTATATTAATATATGTTAATT
1766 AAAT
1 AAAT
1770 ATTTTAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.07
24 24 0.55
25 8 0.18
26 6 0.14
27 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
AAATTATATTAATATATGTTAATT
Found at i:1829 original size:19 final size:19
Alignment explanation
Indices: 1805--1863 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
1795 CTCTACCATT
*
1805 TAATTATTTTTAATATTAA
1 TAATTATTATTAATATTAA
*
1824 TAATTATTATAAATATTTAA
1 TAATTATTATTAATA-TTAA
* * *
1844 AAATTAATATTATTATTAA
1 TAATTATTATTAATATTAA
1863 T
1 T
1864 TAGTATAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTATTATTAATATTAA
Found at i:2551 original size:15 final size:15
Alignment explanation
Indices: 2516--2548 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2506 TATAATTATT
2516 ATAAA-TGATAAGTA
1 ATAAATTGATAAGTA
2530 ATAAATTGATAA-TA
1 ATAAATTGATAAGTA
2544 ATAAA
1 ATAAA
2549 ATTTCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (15 bp):
ATAAATTGATAAGTA
Found at i:2743 original size:18 final size:18
Alignment explanation
Indices: 2720--2756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2710 ATATTATTAA
*
2720 ATTATATATTTAAAATTT
1 ATTATAAATTTAAAATTT
*
2738 ATTATAAATTTAATATTT
1 ATTATAAATTTAAAATTT
2756 A
1 A
2757 AATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATAAATTTAAAATTT
Found at i:3093 original size:27 final size:27
Alignment explanation
Indices: 3063--3132 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
3053 GAATTAAAAC
3063 AATTATAGTAATAATATATATTAT-TTT
1 AATTATA-TAATAATATATATTATATTT
* *
3090 AATTATA-ATTAAAATATATTATATTT
1 AATTATATAATAATATATATTATATTT
*
3116 AACTATA-ATATAATATA
1 AATTATATA-ATAATATA
3133 CATGTCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.36
26 10 0.28
27 13 0.36
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
AATTATATAATAATATATATTATATTT
Found at i:3130 original size:25 final size:25
Alignment explanation
Indices: 3078--3132 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
3068 TAGTAATAAT
*
3078 ATATATTATTTTAATTATAATTAAA
1 ATATATTATTTTAACTATAATTAAA
*
3103 ATATATTATATTTAACTATAA-TATA
1 ATATATTAT-TTTAACTATAATTAAA
3128 ATATA
1 ATATA
3133 CATGTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTATTTTAACTATAATTAAA
Found at i:3256 original size:15 final size:15
Alignment explanation
Indices: 3231--3295 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
3221 ATATTAATAA
3231 ATATTATTAATTATTT
1 ATATTATTAA-TATTT
*
3247 ATATTA-TAATATATA
1 ATATTATTAATAT-TT
3262 ATATTA-TAATATTT
1 ATATTATTAATATTT
3276 ACTA-TATTAATTATTT
1 A-TATTATTAA-TATTT
3292 ATAT
1 ATAT
3296 ATTGTTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
14 7 0.17
15 23 0.55
16 12 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTAATATTT
Found at i:3708 original size:24 final size:24
Alignment explanation
Indices: 3681--3733 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3671 AATAATTTTG
3681 TTAATAAATTATAGTAAATAATAA
1 TTAATAAATTATAGTAAATAATAA
** * * *
3705 TTAATTTATTATATTTAATTATAA
1 TTAATAAATTATAGTAAATAATAA
3729 TTAAT
1 TTAAT
3734 TATGATTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAATAAATTATAGTAAATAATAA
Found at i:3727 original size:10 final size:10
Alignment explanation
Indices: 3702--3754 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
3692 TAGTAAATAA
3702 TAATTA-ATT
1 TAATTATATT
3711 T-ATTATATT
1 TAATTATATT
*
3720 TAATTATAAT
1 TAATTATATT
3730 TAATTATGATT
1 TAATTAT-ATT
*
3741 TATATAATATT
1 TA-ATTATATT
3752 TAA
1 TAA
3755 GACTATCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 4 0.11
9 5 0.14
10 15 0.41
11 9 0.24
12 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TAATTATATT
Found at i:3865 original size:32 final size:33
Alignment explanation
Indices: 3827--3896 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
3817 ATAATTAATA
3827 TATAATTATTAAGCTATAAATT-AT-ATACTA-TT
1 TATAATT-TTAA-CTATAAATTAATAATACTAGTT
* *
3859 TATAATTTTTATTATAAATTAATAATACTAGTT
1 TATAATTTTAACTATAAATTAATAATACTAGTT
3892 TATAA
1 TATAA
3897 GTAAGTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 8 0.24
31 5 0.15
32 13 0.39
33 7 0.21
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (33 bp):
TATAATTTTAACTATAAATTAATAATACTAGTT
Found at i:4061 original size:34 final size:38
Alignment explanation
Indices: 3986--4058 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
3976 AAATCAATCA
3986 AATATTAATTATATTATTAATATTATTAATTTATATAT
1 AATATTAATTATATTATTAATATTATTAATTTATATAT
*
4024 AATATT-A-TATATTATTAATAATTGTT-ATTTATATA
1 AATATTAATTATATTATTAAT-ATTATTAATTTATATA
4059 ATAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 21 0.64
37 6 0.18
38 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (38 bp):
AATATTAATTATATTATTAATATTATTAATTTATATAT
Found at i:4069 original size:36 final size:36
Alignment explanation
Indices: 3991--4069 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
3981 AATCAAATAT
3991 TAAT-TATATTATTAATATTATTAATTTATATATAA
1 TAATATATATTATTAATATTATTAATTTATATATAA
* *
4026 TATTATATATTATTAATAATTGTT-ATTTATATAATAA
1 TAATATATATTATTAAT-ATTATTAATTTATAT-ATAA
4063 -AATATAT
1 TAATATAT
4070 GACATTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 3 0.08
36 26 0.68
37 9 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (36 bp):
TAATATATATTATTAATATTATTAATTTATATATAA
Found at i:4573 original size:22 final size:21
Alignment explanation
Indices: 4543--4584 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4533 TTTGTACTTT
4543 TATTATAATATATAAT-TTAAC
1 TATTATAATAT-TAATATTAAC
4564 TATTAATAATATTAATATTAA
1 TATT-ATAATATTAATATTAA
4585 TAACTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAATATTAATATTAAC
Found at i:4582 original size:15 final size:16
Alignment explanation
Indices: 4554--4592 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
4544 ATTATAATAT
4554 ATAAT-TTAACTATTA
1 ATAATATTAACTATTA
4569 ATAATATTAA-TATTA
1 ATAATATTAACTATTA
4584 ATAACTATT
1 ATAA-TATT
4593 TCAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTAACTATTA
Found at i:5769 original size:32 final size:33
Alignment explanation
Indices: 5727--5791 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
5717 TCAGTTCAAT
5727 TAGTTAAATTAATAATTA-AAAATATTAATTATA
1 TAGTTAAATT-ATAATTATAAAATATTAATTATA
*
5760 TAGTT-AATTATAATTATATAATATTAATTATA
1 TAGTTAAATTATAATTATAAAATATTAATTATA
5792 ATGATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 7 0.23
32 18 0.60
33 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (33 bp):
TAGTTAAATTATAATTATAAAATATTAATTATA
Found at i:5793 original size:12 final size:12
Alignment explanation
Indices: 5747--5803 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
5737 AATAATTAAA
5747 AATATTAATTAT
1 AATATTAATTAT
5759 -ATAGTTAATTAT
1 AATA-TTAATTAT
5771 -A-ATT-A-TAT
1 AATATTAATTAT
5779 AATATTAATTAT
1 AATATTAATTAT
5791 AATGA-TAATTAT
1 AAT-ATTAATTAT
5803 A
1 A
5804 CTAAATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 5 0.13
11 5 0.13
12 23 0.59
13 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (12 bp):
AATATTAATTAT
Found at i:5800 original size:32 final size:31
Alignment explanation
Indices: 5733--5803 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 31
5723 CAATTAGTTA
*
5733 AATTAATAATTAAAAATATTAATTATATAGTT
1 AATT-ATAATTAAAAATATTAATTATATAGAT
*
5765 AATTATAATTATATAATATTAATTATA-ATGAT
1 AATTATAATTA-AAAATATTAATTATATA-GAT
5797 AATTATA
1 AATTATA
5804 CTAAATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
AATTATAATTAAAAATATTAATTATATAGAT
Found at i:6273 original size:34 final size:32
Alignment explanation
Indices: 6235--6322 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 32
6225 AGATATAGTA
6235 ATATTATATTATTATTAATTATAATAATTAATTT
1 ATATTATATTATTATTAATTATAATAATT-A-TT
*
6269 ATATTAATTTTATTATTAA-TATAATAATTATT
1 ATATT-ATATTATTATTAATTATAATAATTATT
*
6301 A-ATT-TATTATAATATAATTATA
1 ATATTATATTATTAT-TAATTATA
6323 TTATTAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 7 0.15
30 3 0.06
31 7 0.15
32 3 0.06
33 1 0.02
34 15 0.31
35 12 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATATTATATTATTATTAATTATAATAATTATT
Found at i:6301 original size:27 final size:27
Alignment explanation
Indices: 6237--6329 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 27
6227 ATATAGTAAT
*
6237 ATTATATTATT-ATTAATTATAATAATTA
1 ATTATATTATTAATTTATTATAAT-A-TA
6265 ATT-TA-TATTAATTTTATTATTAATATA
1 ATTATATTATTAA-TTTATTA-TAATATA
6292 A-TA-ATTATTAATTTATTATAATATA
1 ATTATATTATTAATTTATTATAATATA
6317 ATTATATTATTAA
1 ATTATATTATTAA
6330 AATAATATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
25 8 0.14
26 15 0.26
27 20 0.35
28 10 0.18
29 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTATATTATTAATTTATTATAATATA
Found at i:6320 original size:22 final size:22
Alignment explanation
Indices: 6240--6381 Score: 71
Period size: 22 Copynumber: 6.2 Consensus size: 22
6230 TAGTAATATT
* *
6240 ATATTATTATTAA-TTATAATA
1 ATATAATTATTAATTTATTATA
6261 AT-TAATTTATATTAATTTTATTATTAA
1 ATATAA--T-TATTAA-TTTATTA-T-A
6288 TATAATAATTATTAATTTATTATA
1 -AT-ATAATTATTAATTTATTATA
* **
6312 ATATAATTA-TATTATTAAAATA
1 ATATAATTATTAAT-TTATTATA
*
6334 ATATAACTA-TAAGTTTATTATA
1 ATATAATTATTAA-TTTATTATA
**
6356 ATAATAAAAATTAA-TTATTA-A
1 AT-ATAATTATTAATTTATTATA
6377 ATATA
1 ATATA
6382 GTAATAAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
20 5 0.05
21 8 0.08
22 38 0.40
23 14 0.15
24 4 0.04
25 6 0.06
26 8 0.08
27 7 0.07
28 3 0.03
30 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
ATATAATTATTAATTTATTATA
Found at i:6321 original size:37 final size:35
Alignment explanation
Indices: 6235--6335 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 35
6225 AGATATAGTA
6235 ATATT-ATATTATTATTAATTATAATAATTAATTT
1 ATATTAATATTATTATTAATTATAATAATTAATTT
* *
6269 ATATTAATTTTATTATTAATATAATAATTATTAATTT
1 ATATTAATATTATTATTAAT-T-ATAATAATTAATTT
* * *
6306 AT-TATAATATAATTATATTATTAAAATAAT
1 ATAT-TAATATTATTAT-TAATTATAATAAT
6336 ATAACTATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
34 5 0.09
35 13 0.24
36 8 0.15
37 26 0.47
38 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (35 bp):
ATATTAATATTATTATTAATTATAATAATTAATTT
Found at i:6360 original size:42 final size:40
Alignment explanation
Indices: 6233--6360 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 40
6223 TAAGATATAG
* *
6233 TAAT-ATTATATTATTATTAATTATAA-TAATTAATTTA-TA
1 TAATAATTATATTATTA-AAATAATAACT-ATTAATTTATTA
* * *
6272 T--TAATTTTATTATTAATATAATAATTATTAATTTATTA
1 TAATAATTATATTATTAAAATAATAACTATTAATTTATTA
6310 TAATATAATTATATTATTAAAATAATATAACTA-TAAGTTTATTA
1 T-A-ATAATTATATTATTAAAAT-A-ATAACTATTAA-TTTATTA
6354 TAATAAT
1 TAATAAT
6361 AAAAATTAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
37 16 0.22
38 15 0.21
39 1 0.01
42 21 0.29
43 5 0.07
44 14 0.19
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
TAATAATTATATTATTAAAATAATAACTATTAATTTATTA
Found at i:6444 original size:14 final size:14
Alignment explanation
Indices: 6425--6451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6415 AATACATATT
6425 ATAATTTAATTATA
1 ATAATTTAATTATA
6439 ATAATTTAATTAT
1 ATAATTTAATTAT
6452 GTTATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTATA
Found at i:6474 original size:13 final size:12
Alignment explanation
Indices: 6420--6488 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
6410 TTCTAAATAC
*
6420 ATATTATAATTT
1 ATATAATAATTT
6432 AATTATAATAATTT
1 -A-TATAATAATTT
* **
6446 A-ATTATGTTATT
1 ATATAATAAT-TT
6458 ATATAATAAATTT
1 ATATAAT-AATTT
6471 ATATAATAATTT
1 ATATAATAATTT
6483 A-ATAAT
1 ATATAAT
6489 TATGATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.22
12 9 0.20
13 15 0.33
14 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
ATATAATAATTT
Found at i:6921 original size:181 final size:179
Alignment explanation
Indices: 6535--6951 Score: 470
Period size: 179 Copynumber: 2.3 Consensus size: 179
6525 AGACTATTAG
* * * *
6535 AACAATTATCTATTTCAAATTATTTTGACCTTTTA-TTTAGTCAAAAAATAATTGCTTCAACTCA
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTA-TCATAAAATAATTGTTTCAACTCA
* *
6599 TACATGCTTATTCAAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAA
65 TAAAAGCTTATTCAAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAA
* * *
6664 TTAGAAAAAAATCTATTTACCGAACAAGTTCAAATATTTTTGACTATTTA
130 TTAGAAAAAAATCTATTTACCGAACAAGCTCAAATAATTTTGACCATTTA
* * **
6714 AACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAATAATTGTTTCAGTTCAT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTTCAACTCAT
* * * * *
6779 AAAAGCTTA-TCTTAAATAAAATAATATTACTTTATTAATATTATA-AAAATTGA-TAAGTTAGA
66 AAAAGCTTATTC-AAAATAAAATAATACTAATTTATTAACATT-TAGAAAATT-ATTAAGTAAGA
* * *
6841 GATTTA-AAACATAAATC-AGTTTATCGAATC-AGCTCAAATAATTTTGGCCATTTA
128 -AATTAGAAA-A-AAATCTA-TTTACCGAA-CAAGCTCAAATAATTTTGACCATTTA
** * * *
6895 AACAATTATCTATTTCAAATCATTATGAATTTTTGTTTTGTCATAAAACAATTGTTT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTT
6952 AAATTATTTT
Statistics
Matches: 201, Mismatches: 28, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
178 2 0.01
179 102 0.51
180 13 0.06
181 83 0.41
182 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (179 bp):
AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTTCAACTCAT
AAAAGCTTATTCAAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAAT
TAGAAAAAAATCTATTTACCGAACAAGCTCAAATAATTTTGACCATTTA
Found at i:7041 original size:29 final size:30
Alignment explanation
Indices: 6978--7057 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 30
6968 ATAATAAGTA
* *
6978 ATTTAAATAATATTATT-AATTAACAATAT
1 ATTTAAATTATAATATTAAATTAACAATAT
*
7007 AATTAAATTATAATATTAAATTAA-AAT-T
1 ATTTAAATTATAATATTAAATTAACAATAT
* *
7035 ATTTTAATT-TAATTAATAAATTA
1 ATTTAAATTATAA-TATTAAATTA
7058 TTTATTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 17 0.40
30 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTAAATTATAATATTAAATTAACAATAT
Found at i:7334 original size:33 final size:30
Alignment explanation
Indices: 7248--7330 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 30
7238 TAATTTAATG
*
7248 TTATAATAATTA-ATTAATTA-TTAAGTAA
1 TTATATTAATTAGATTAATTATTTAAGTAA
* *
7276 TTATATTATAATTTAGATGAATTATTTTAGCTATA
1 TTATA-T-TAA-TTAGATTAATTATTTAAG-TA-A
7311 TTATATTAATTAGATTAATT
1 TTATATTAATTAGATTAATT
7331 TATTATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 5 0.11
30 3 0.07
31 3 0.07
32 17 0.39
33 7 0.16
34 3 0.07
35 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (30 bp):
TTATATTAATTAGATTAATTATTTAAGTAA
Found at i:7626 original size:17 final size:16
Alignment explanation
Indices: 7592--7645 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
7582 AACTTTTTAG
*
7592 TAATTATTAAATATTAA
1 TAATTATTAAA-AATAA
7609 TAATTATTAACAAATAA
1 TAATTATTAA-AAATAA
7626 T--TTATATAAAAA-AA
1 TAATTAT-TAAAAATAA
7640 TAATTA
1 TAATTA
7646 ATATAACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 6 0.19
17 15 0.47
18 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTATTAAAAATAA
Found at i:7815 original size:17 final size:17
Alignment explanation
Indices: 7775--7816 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
7765 AATAATCATA
7775 ATTAATTTGAACTAGTT
1 ATTAATTTGAACTAGTT
*
7792 ATATAATTT-AACTATTTT
1 AT-TAATTTGAACTA-GTT
7810 ATTAATT
1 ATTAATT
7817 ACTAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (17 bp):
ATTAATTTGAACTAGTT
Found at i:8059 original size:21 final size:22
Alignment explanation
Indices: 8030--8078 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
8020 ATTATTATTA
*
8030 ATTATATTAATAATTAAT-TAAT
1 ATTATATT-ATAATAAATATAAT
*
8052 ATTA-ATTATTATAAATATAAT
1 ATTATATTATAATAAATATAAT
8073 ATTATA
1 ATTATA
8079 ATGTTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATATTATAATAAATATAAT
Found at i:8080 original size:29 final size:27
Alignment explanation
Indices: 8016--8080 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
8006 AGAGTAATTC
*
8016 AAATATTAT--TATTAATTATATTAAT
1 AAATATTATAATATTAATTATATAAAT
* *
8041 AATTAAT-TAATATTAATTATTATAAAT
1 AAATATTATAATATTAATTA-TATAAAT
8068 ATAATATTATAAT
1 A-AATATTATAAT
8081 GTTAGTTACC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
24 1 0.03
25 5 0.17
26 9 0.30
27 7 0.23
28 4 0.13
29 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATATTATAATATTAATTATATAAAT
Found at i:9005 original size:16 final size:15
Alignment explanation
Indices: 8963--9008 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
8953 TATATTAGAT
8963 TATAATTTATAT-TA
1 TATAATTTATATATA
*
8977 TA-AATCTTTTATATA
1 TATAAT-TTATATATA
8992 TATAATATTATATATA
1 TATAAT-TTATATATA
9008 T
1 T
9009 TAAATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 4 0.15
16 12 0.46
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TATAATTTATATATA
Found at i:9174 original size:21 final size:22
Alignment explanation
Indices: 9150--9208 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
9140 TATTATTAGT
9150 ATAGTAATAATTA-ATAAA-TAA
1 ATAGTAATAATTATA-AAATTAA
9171 ATAGT-ATAAATTATAAAATTAA
1 ATAGTAAT-AATTATAAAATTAA
9193 ATA-TAATAAATTATAA
1 ATAGTAAT-AATTATAA
9209 TTAATTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
22 18 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
ATAGTAATAATTATAAAATTAA
Found at i:10842 original size:23 final size:23
Alignment explanation
Indices: 10783--10828 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 23
10773 AAATAATAAT
10783 ATTTATTAA-TT-AA-T-AAATA
1 ATTTATTAATTTAAATTAAAATA
10802 ATTTATTAATTTAAATTAAAATA
1 ATTTATTAATTTAAATTAAAATA
10825 ATTT
1 ATTT
10829 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 2 0.09
22 1 0.04
23 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATTAATTTAAATTAAAATA
Found at i:10873 original size:17 final size:17
Alignment explanation
Indices: 10786--10880 Score: 56
Period size: 17 Copynumber: 5.6 Consensus size: 17
10776 TAATAATATT
* *
10786 TATTAATTAATAAATAA
1 TATTATTTAATTAATAA
10803 TTTATTAATTTAAATTAA-AA
1 --TATT-ATTT-AATTAATAA
* *
10823 TAAT-TTTAATT-TTAA
1 TATTATTTAATTAATAA
*
10838 TATTA--TAATTTAATTA
1 TATTATTTAA-TTAATAA
*
10854 TATTGTTTAATTAATAA
1 TATTATTTAATTAATAA
10871 TATTATTTAA
1 TATTATTTAA
10881 ATTACTTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
14 3 0.05
15 11 0.19
16 9 0.16
17 15 0.26
18 6 0.10
19 4 0.07
20 5 0.09
21 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TATTATTTAATTAATAA
Found at i:10896 original size:33 final size:30
Alignment explanation
Indices: 10834--10911 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
10824 AATTTTAATT
* *
10834 TTAATATTATAATTT-AATTATATTGTTTAA
1 TTAATAATAT-ATTTAAATTATATTATTTAA
10864 TTAATAATATTATTTAAATTACTTATTATTTAA
1 TTAATAATA-TATTTAAATTA--TATTATTTAA
*
10897 ATAA-AATA-ATTTAAA
1 TTAATAATATATTTAAA
10912 CAATTGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.46
31 6 0.15
32 4 0.10
33 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAATAATATATTTAAATTATATTATTTAA
Found at i:12102 original size:18 final size:18
Alignment explanation
Indices: 12079--12125 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
12069 TATAATTTAG
12079 ATATAATTAATTAATAAT
1 ATATAATTAATTAATAAT
12097 ATATAATT-ATT-ATAAT
1 ATATAATTAATTAATAAT
*
12113 AT-TAATTATTTAA
1 ATATAATTAATTAA
12126 ATTTATACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 4 0.15
18 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAATTAATTAATAAT
Found at i:12105 original size:14 final size:14
Alignment explanation
Indices: 12084--12158 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 14
12074 TTTAGATATA
12084 ATTAATTA-ATAAT
1 ATTAATTATATAAT
12097 ATATAATTATTATAAT
1 AT-TAATTA-TATAAT
*
12113 ATTAATTATTTAA-
1 ATTAATTATATAAT
* *
12126 ATTTATACTATATAAA
1 A-TTA-ATTATATAAT
12142 ATT-ATTATTATAAT
1 ATTAATTA-TATAAT
12156 ATT
1 ATT
12159 TTAAATTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.12
14 21 0.42
15 15 0.30
16 8 0.16
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTAATTATATAAT
Found at i:12153 original size:21 final size:21
Alignment explanation
Indices: 12128--12175 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
12118 TTATTTAAAT
* *
12128 TTATACTATATAAAATTATTA
1 TTATAATATATAAAATTATAA
* *
12149 TTATAATATTTTAAATTATAA
1 TTATAATATATAAAATTATAA
12170 TTATAA
1 TTATAA
12176 ACCTTTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATAATATATAAAATTATAA
Found at i:12379 original size:24 final size:24
Alignment explanation
Indices: 12352--12400 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
12342 CTTATAAAAA
12352 TTATATTAATAATATATTAA-TTAT
1 TTATATTAAT-ATATATTAACTTAT
*
12376 TTATATTAATATTTATTAACTTAT
1 TTATATTAATATATATTAACTTAT
12400 T
1 T
12401 ACAGAGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATTAATATATATTAACTTAT
Found at i:12382 original size:13 final size:12
Alignment explanation
Indices: 12352--12391 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12342 CTTATAAAAA
12352 TTATATTAATA-
1 TTATATTAATAT
*
12363 ATATATTAATTAT
1 TTATATTAA-TAT
12376 TTATATTAATAT
1 TTATATTAATAT
12388 TTAT
1 TTAT
12392 TAACTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.32
12 9 0.36
13 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:12983 original size:16 final size:16
Alignment explanation
Indices: 12943--12984 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
12933 TTTATATTTA
12943 ATTAATAAT-TAAATT
1 ATTAATAATATAAATT
12958 ATT-ATAAATATAAATT
1 ATTAAT-AATATAAATT
12974 ATTAATAATAT
1 ATTAATAATAT
12985 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 6 0.25
16 14 0.58
17 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAATAATATAAATT
Found at i:13776 original size:8 final size:8
Alignment explanation
Indices: 13763--13808 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
13753 ATAGTTATAC
13763 TTATAATA
1 TTATAATA
13771 TTATAATA
1 TTATAATA
13779 TTAATAATA
1 TT-ATAATA
*
13788 GT-TAA-A
1 TTATAATA
13794 TTATAATA
1 TTATAATA
*
13802 TTTTAAT
1 TTATAAT
13809 TAAACATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.06
7 6 0.19
8 17 0.53
9 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (8 bp):
TTATAATA
Found at i:13809 original size:14 final size:14
Alignment explanation
Indices: 13763--13810 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
13753 ATAGTTATAC
13763 TTATAATATTATAATA
1 TTATAATATT-TAA-A
*
13779 TTAATAATAGTTAAA
1 TT-ATAATATTTAAA
*
13794 TTATAATATTTTAA
1 TTATAATATTTAAA
13808 TTA
1 TTA
13811 AACATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 13 0.46
15 3 0.11
16 5 0.18
17 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTATAATATTTAAA
Found at i:14047 original size:29 final size:31
Alignment explanation
Indices: 13969--14049 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 31
13959 TTATAATAAT
*
13969 TAATATAAT-TTACAATAATGA-TAATATTTAA
1 TAAT-TAATATTA-AATAATAATTAATATTTAA
*
14000 TAATTCATATTAAAT--TAATTAATATTTAA
1 TAATTAATATTAAATAATAATTAATATTTAA
14029 -AATTAATA-TAAATAATAATTA
1 TAATTAATATTAAATAATAATTA
14050 TGATCATTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 5 0.12
28 9 0.21
29 16 0.37
30 6 0.14
31 7 0.16
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (31 bp):
TAATTAATATTAAATAATAATTAATATTTAA
Found at i:14120 original size:16 final size:15
Alignment explanation
Indices: 14101--14134 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14091 ATTACTAATA
*
14101 ATTATAATTGTTTATT
1 ATTATAATT-CTTATT
14117 ATTATAATTCTTATT
1 ATTATAATTCTTATT
14132 ATT
1 ATT
14135 GAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTATAATTCTTATT
Found at i:14522 original size:27 final size:27
Alignment explanation
Indices: 14475--14539 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
14465 CAATTAAATT
14475 ATAAATATTATTTATTATTTAAT-AATA
1 ATAAATATTATTTATTATTT-ATCAATA
14502 ATAAATTACTTATTTA-T-TTTATCAATA
1 ATAAA-TA-TTATTTATTATTTATCAATA
*
14529 AT-ATTATTATT
1 ATAAATATTATT
14540 GATACTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
24 5 0.15
25 2 0.06
26 3 0.09
27 14 0.41
28 3 0.09
29 7 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAAATATTATTTATTATTTATCAATA
Found at i:14558 original size:19 final size:19
Alignment explanation
Indices: 14527--14572 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
14517 ATTTTATCAA
*
14527 TAAT-ATTATTATTGATACT
1 TAATAATTAATATTG-TACT
*
14546 T-ATAATTAATATTGTATT
1 TAATAATTAATATTGTACT
14564 TAATAATTA
1 TAATAATTA
14573 TTATAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TAATAATTAATATTGTACT
Found at i:14586 original size:14 final size:13
Alignment explanation
Indices: 14567--14632 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 13
14557 TTGTATTTAA
14567 TAATTATTATAACT
1 TAATTATTATAA-T
14581 TAATTAGGTTATAAT
1 TAATTA--TTATAAT
* *
14596 T-ATTAATATATT
1 TAATTATTATAAT
*
14608 TAATTATAAATAAT
1 TAATTAT-TATAAT
14622 TAATTATTATA
1 TAATTATTATA
14633 TCTGATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
12 6 0.14
13 7 0.17
14 21 0.50
15 2 0.05
16 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATTATTATAAT
Found at i:14964 original size:23 final size:24
Alignment explanation
Indices: 14938--14983 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14928 GTTACATATC
*
14938 TAAT-TGTAAATTGTTTATAAAAA
1 TAATATGTAAATTATTTATAAAAA
*
14961 TAATATTTAAATTATTTATAAAA
1 TAATATGTAAATTATTTATAAAA
14984 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATATGTAAATTATTTATAAAAA
Found at i:14990 original size:20 final size:20
Alignment explanation
Indices: 14944--15007 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
14934 TATCTAATTG
*
14944 TAAATTGTTTATAAAAATAATATT
1 TAAATTATTTAT-AAAAT--TA-T
14968 TAAATTATTTATAAAATTAT
1 TAAATTATTTATAAAATTAT
*
14988 TAAAATTTTTTA-AAAATTAT
1 T-AAATTATTTATAAAATTAT
15008 ATATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 10 0.27
21 11 0.30
23 5 0.14
24 11 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAATTATTTATAAAATTAT
Found at i:15172 original size:31 final size:31
Alignment explanation
Indices: 15115--15185 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
15105 TTTATTAATT
**
15115 ATAATT-ATAATTAAATATTATCATA-TTATA
1 ATAATTAATAATTAAATATTAAAATATTTA-A
* *
15145 ATAATTAATAATTGATTATTAAAATATTTAA
1 ATAATTAATAATTAAATATTAAAATATTTAA
*
15176 ATTATTAATA
1 ATAATTAATA
15186 TTTATTTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 6 0.18
31 25 0.74
32 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
ATAATTAATAATTAAATATTAAAATATTTAA
Found at i:15434 original size:22 final size:24
Alignment explanation
Indices: 15377--15452 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
15367 GAATATATTG
* *
15377 AATATATTAACTAATTTATTTATT
1 AATATATTAAATAATTTATTAATT
*
15401 ATAAATAGTTAAATAA-TT-TTAATT
1 A-ATATA-TTAAATAATTTATTAATT
*
15425 AATATATTAAATTATTATATTAATT
1 AATATATTAAATAATT-TATTAATT
15450 AAT
1 AAT
15453 TAATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 7 0.17
23 5 0.12
24 8 0.19
25 15 0.36
26 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
AATATATTAAATAATTTATTAATT
Found at i:15437 original size:13 final size:12
Alignment explanation
Indices: 15377--15452 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
15367 GAATATATTG
*
15377 AATATATTAACT
1 AATATATTAATT
* *
15389 AATTTATTTATT
1 AATATATTAATT
* *
15401 ATAAATAGTTAAAT
1 A-ATATA-TTAATT
15415 AAT-T-TTAATT
1 AATATATTAATT
15425 AATATATTAAATT
1 AATATATT-AATT
*
15438 ATTATATTAATT
1 AATATATTAATT
15450 AAT
1 AAT
15453 TAATATATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
10 8 0.17
11 1 0.02
12 19 0.40
13 15 0.31
14 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (12 bp):
AATATATTAATT
Found at i:15485 original size:33 final size:32
Alignment explanation
Indices: 15448--15513 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
15438 ATTATATTAA
15448 TTAATTAATATATATCAAT-ATATA-AATATTATT
1 TTAA-TAATAT-TAT-AATAATATACAATATTATT
15481 TTAATAATATTATAATAATATACTAATATTATT
1 TTAATAATATTATAATAATATAC-AATATTATT
15514 AATATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 3 0.10
31 8 0.27
32 6 0.20
33 13 0.43
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TTAATAATATTATAATAATATACAATATTATT
Found at i:16048 original size:18 final size:18
Alignment explanation
Indices: 16000--16048 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
15990 CATTAAATTT
* *
16000 ATAATTAATTTATAA-TAT
1 ATAATTAA-TAATAATTAA
16018 ATAATT-A-AATAATTAA
1 ATAATTAATAATAATTAA
16034 ATAATTAATAATAAT
1 ATAATTAATAATAAT
16049 AACTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 2 0.08
18 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATTAATAATAATTAA
Found at i:16223 original size:29 final size:29
Alignment explanation
Indices: 16178--16252 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
16168 TTATAATCCA
*
16178 ATTAA-ATATTATGATTATATTATAATTCATT
1 ATTAAGATATAAT-ATTAT-TTATAATT-ATT
16209 -TTAAGA-ATAATATTATTTATAATTATT
1 ATTAAGATATAATATTATTTATAATTATT
*
16236 ATTAATATATAATATTA
1 ATTAAGATATAATATTA
16253 ATATAAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 3 0.08
28 13 0.33
29 14 0.36
30 8 0.21
31 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTAAGATATAATATTATTTATAATTATT
Found at i:16257 original size:28 final size:28
Alignment explanation
Indices: 16198--16340 Score: 89
Period size: 28 Copynumber: 5.0 Consensus size: 28
16188 ATGATTATAT
* *
16198 TATAATTCATT-TTAAGA-ATAATATTATT
1 TATAATT-ATTATTAATATATAATATTA-A
16226 TATAATTATTATTAATATATAATATTAA
1 TATAATTATTATTAATATATAATATTAA
* *
16254 TATAAATGTTATTAATATAACTTAA-ATTAA
1 TATAATTATTATTAATAT-A--TAATATTAA
* *
16284 TA-AATTATATAATAATTATTATTATATTAA
1 TATAATTAT-TATTAA-TA-TATAATATTAA
* * *
16314 AATAATTAATAATT-GTATATAATATTA
1 TATAATT-ATTATTAATATATAATATTA
16341 GTAAAAAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
27 3 0.03
28 37 0.41
29 18 0.20
30 18 0.20
31 12 0.13
32 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (28 bp):
TATAATTATTATTAATATATAATATTAA
Found at i:17073 original size:18 final size:16
Alignment explanation
Indices: 17031--17077 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
17021 ATATATTAAA
17031 GATTATATATATAGTTT
1 GATTATAT-TATAGTTT
*
17048 TATTATATTATAGTTT
1 GATTATATTATAGTTT
17064 GATTTAATATTATA
1 GA-TT-ATATTATA
17078 TAACTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
GATTATATTATAGTTT
Found at i:17202 original size:26 final size:25
Alignment explanation
Indices: 17173--17312 Score: 71
Period size: 26 Copynumber: 5.6 Consensus size: 25
17163 TTAGTTACAA
17173 TAATTATTAAATTATTTATAAATTAT
1 TAATTATTAAATTATTTATAAATT-T
* * *
17199 TAATTTTTGACAATTA-ATATATAATTAA
1 TAATTATT-A-AATTATTTATA-AATT-T
* * *
17227 TATTTTTTAAA-TA-TTATAAAATT
1 TAATTATTAAATTATTTATAAATTT
17250 TAATTACTT-AA-TATTTAT-AATTT
1 TAATTA-TTAAATTATTTATAAATTT
*
17273 TAA-TATTAAATGTATTAATATAA-TT
1 TAATTATTAAAT-TATTTATA-AATTT
* *
17298 TAATAATTAATTTAT
1 TAATTATTAAATTAT
17313 ACTATATAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
21 2 0.02
22 4 0.04
23 15 0.17
24 15 0.17
25 14 0.16
26 17 0.19
27 6 0.07
28 17 0.19
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (25 bp):
TAATTATTAAATTATTTATAAATTT
Found at i:17552 original size:2 final size:2
Alignment explanation
Indices: 17541--17589 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
17531 TCTTATTTAC
*
17541 TA TA -A TA TA TA TA TA TA TA TA TA TC T- TA TA TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17579 TA T- TA TA TA TA
1 TA TA TA TA TA TA
17590 AATAAATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17570 original size:7 final size:7
Alignment explanation
Indices: 17541--17634 Score: 59
Period size: 8 Copynumber: 13.0 Consensus size: 7
17531 TCTTATTTAC
*
17541 TATAATA
1 TATATTA
17548 TATA-TA
1 TATATTA
17554 TATATATA
1 TATAT-TA
*
17562 TATCTTA
1 TATATTA
17569 TATAATTA
1 TAT-ATTA
17577 TATATTA
1 TATATTA
*
17584 TATATAAA
1 TATAT-TA
*
17592 TAAATTA
1 TATATTA
17599 T-TATTA
1 TATATTA
17605 TAT-TTA
1 TATATTA
* *
17611 TGAAATAA
1 T-ATATTA
17619 TTATATTA
1 -TATATTA
17627 TATTATTA
1 TA-TATTA
17635 ATTATAAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
6 15 0.22
7 24 0.35
8 28 0.41
9 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:17570 original size:17 final size:16
Alignment explanation
Indices: 17545--17632 Score: 60
Period size: 15 Copynumber: 5.7 Consensus size: 16
17535 ATTTACTATA
17545 ATATATA-TATATA-T
1 ATATATATTATATATT
* *
17559 ATATATCTTATATAAT
1 ATATATATTATATATT
17575 -TATATATTATATA-T
1 ATATATATTATATATT
* *
17589 AAATAAATTAT-TATT
1 ATATATATTATATATT
* * *
17604 ATATTTATGAAATAATT
1 ATATATATTATAT-ATT
17621 ATATTATATTAT
1 ATA-TATATTAT
17633 TAATTATAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
14 9 0.16
15 33 0.60
16 2 0.04
17 6 0.11
18 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
ATATATATTATATATT
Found at i:17604 original size:28 final size:28
Alignment explanation
Indices: 17545--17645 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
17535 ATTTACTATA
* * *
17545 ATATATATATATATATATATCTTATATAATT
1 ATATAT-TATAAATAAATATATTAT-T-ATT
* *
17576 ATATATTATATATAAATAAATTATTATT
1 ATATATTATAAATAAATATATTATTATT
*
17604 ATAT-TTATGAAATAATTATATTA-TATT
1 ATATATTAT-AAATAAATATATTATTATT
17631 AT-TAATTATAAATAA
1 ATAT-ATTATAAATAA
17646 TTTTTTATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 16 0.26
28 22 0.36
29 1 0.02
30 15 0.25
31 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
ATATATTATAAATAAATATATTATTATT
Found at i:17630 original size:27 final size:28
Alignment explanation
Indices: 17580--17647 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
17570 ATAATTATAT
* * *
17580 ATTATATATAAATAAATTATTATTA-TA
1 ATTATAAATAATTATATTATTATTATTA
*
17607 TTTATGAAATAATTATATTA-TATTATTA
1 ATTAT-AAATAATTATATTATTATTATTA
17635 ATTATAAATAATT
1 ATTATAAATAATT
17648 TTTTATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
ATTATAAATAATTATATTATTATTATTA
Found at i:17810 original size:18 final size:19
Alignment explanation
Indices: 17779--17839 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
17769 TATATTATGA
17779 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
* *
17800 TAAT-ATTTTATAATTACT
1 TAATAATTTTATTATTAAT
* *
17818 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
17838 TA
1 TA
17840 TTAAATATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 12 0.39
19 4 0.13
20 11 0.35
21 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:18132 original size:41 final size:41
Alignment explanation
Indices: 18051--18132 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
18041 TATAATAAGA
* *
18051 TTAATTATTATATTATATAATATTTTATTTTAAATGATTAT
1 TTAATTATTATATTATATAATATTTTATATTAAATAATTAT
* *
18092 TTAATT-TATATATTAT-TAATGTTATTATATTAACTAATTAT
1 TTAATTAT-TATATTATATAATATT-TTATATTAAATAATTAT
18133 AAATATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 7 0.20
41 28 0.80
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (41 bp):
TTAATTATTATATTATATAATATTTTATATTAAATAATTAT
Found at i:18245 original size:29 final size:29
Alignment explanation
Indices: 18180--18252 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
18170 TTAATCATTG
* *
18180 TTATTAATTAATATTAGTTAATTTATTAA
1 TTATTAATTAATAATAGTTAATTAATTAA
*
18209 TTAGTAATTAATAATA-TATAATTAATTAA
1 TTATTAATTAATAATAGT-TAATTAATTAA
18238 -TATTTAATTTAATAA
1 TTA-TTAA-TTAATAA
18253 ATTAGTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTATTAATTAATAATAGTTAATTAATTAA
Found at i:18537 original size:22 final size:21
Alignment explanation
Indices: 18508--18556 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
18498 CTATTTTTTA
18508 ATAA-TAAATAGATAATAATCT
1 ATAACTAAATAGATAATAAT-T
***
18529 ATAACTAAATCTTTAATAATT
1 ATAACTAAATAGATAATAATT
18550 ATAACTA
1 ATAACTA
18557 TTACACTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAACTAAATAGATAATAATT
Found at i:18653 original size:20 final size:21
Alignment explanation
Indices: 18622--18676 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
18612 TATAAATATA
*
18622 ATATTA-AAATATTATAGACT
1 ATATTATAAATATTAAAGACT
*
18642 AT-TTATAAATA-TAAAGATT
1 ATATTATAAATATTAAAGACT
18661 ATATTAT-AATATTAAA
1 ATATTATAAATATTAAA
18677 TATAATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
ATATTATAAATATTAAAGACT
Found at i:19384 original size:17 final size:18
Alignment explanation
Indices: 19345--19386 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
19335 TATTATAAGG
19345 ATTTTAA-TTTTAATATT
1 ATTTTAATTTTTAATATT
*
19362 AATTTAATTTTTAAT-TT
1 ATTTTAATTTTTAATATT
*
19379 TTTTTAAT
1 ATTTTAAT
19387 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTAATTTTTAATATT
Found at i:19749 original size:14 final size:14
Alignment explanation
Indices: 19732--19772 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
19722 AATTTAAACA
19732 TTATAATAATTATT
1 TTATAATAATTATT
19746 TTATAATAA-TACTT
1 TTATAATAATTA-TT
19760 TTATAAT-ATTATT
1 TTATAATAATTATT
19773 AATAATTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATAATTATT
Found at i:20332 original size:5 final size:6
Alignment explanation
Indices: 20289--20360 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
20279 TAATTGAATT
* * *
20289 ATATTA ATAATA ATTATTA AT-TCA ATA-TA ATATGA ATATT- ATATGTA
1 ATATTA ATATTA A-TATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA
* *
20336 ATATTG ATATTA TATGTTA ATATTA
1 ATATTA ATATTA -ATATTA ATATTA
20361 TCATAAGTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
5 12 0.24
6 24 0.48
7 14 0.28
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:20339 original size:18 final size:18
Alignment explanation
Indices: 20316--20358 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
20306 TAATTCAATA
20316 TAATATGAATATTATATG-
1 TAATATG-ATATTATATGT
20334 TAATATTGATATTATATGT
1 TAATA-TGATATTATATGT
20353 TAATAT
1 TAATAT
20359 TATCATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (18 bp):
TAATATGATATTATATGT
Found at i:20358 original size:19 final size:18
Alignment explanation
Indices: 20324--20359 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
20314 TATAATATGA
20324 ATATTATATGTAATATTG
1 ATATTATATGTAATATTG
20342 ATATTATATGTTAATATT
1 ATATTATATG-TAATATT
20360 ATCATAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
ATATTATATGTAATATTG
Found at i:21168 original size:20 final size:20
Alignment explanation
Indices: 21143--21211 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 20
21133 AACACATATA
21143 AAATATTTTTTTATTAAGAT
1 AAATATTTTTTTATTAAGAT
* * *
21163 AAATA-TATTATAATAAGTAT
1 AAATATTTTTTTATTAAG-AT
*
21183 AATACTATTATTTTTGTTAAGAT
1 AA-A-TATT-TTTTTATTAAGAT
21206 AAATAT
1 AAATAT
21212 ATTATAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
19 9 0.24
20 9 0.24
21 4 0.11
22 3 0.08
23 5 0.14
24 7 0.19
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (20 bp):
AAATATTTTTTTATTAAGAT
Found at i:21174 original size:43 final size:43
Alignment explanation
Indices: 21138--21234 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 43
21128 TATATAACAC
21138 ATATAA-AATATT-TTTTTATTAAGATAAATATATTATAATAA
1 ATATAATAATATTATTTTTATTAAGATAAATATATTATAATAA
* * *
21179 GTATAATACTATTATTTTTGTTAAGATAAATATATTATAATTATA
1 ATATAATAATATTATTTTTATTAAGATAAATATATTATAA-TA-A
21224 ATATTAATAAT
1 ATA-TAATAAT
21235 TAATAGTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 5 0.11
42 5 0.11
43 25 0.54
44 2 0.04
45 3 0.07
46 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (43 bp):
ATATAATAATATTATTTTTATTAAGATAAATATATTATAATAA
Found at i:23028 original size:19 final size:19
Alignment explanation
Indices: 23004--23056 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
22994 TAACTAATCA
23004 ATTAATTATAATTTATTAT
1 ATTAATTATAATTTATTAT
23023 ATTAATT-TAATGTTA--AT
1 ATTAATTATAAT-TTATTAT
23040 A-TAATTAT--TTTATTAT
1 ATTAATTATAATTTATTAT
23056 A
1 A
23057 CTATTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 8 0.27
17 4 0.13
18 4 0.13
19 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTAATTATAATTTATTAT
Found at i:23212 original size:17 final size:17
Alignment explanation
Indices: 23190--23238 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
23180 ATTTGTTTAA
23190 TAATAATATATAATATT
1 TAATAATATATAATATT
*
23207 TAATAA-A-ATATTATT
1 TAATAATATATAATATT
23222 TAA-ATATATATAATATT
1 TAATA-ATATATAATATT
23239 ATATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 2 0.07
17 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATAATATATAATATT
Found at i:23244 original size:14 final size:14
Alignment explanation
Indices: 23225--23287 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
23215 TATTATTTAA
23225 ATATATATAATATT
1 ATATATATAATATT
* *
23239 ATATATAAAAGATT
1 ATATATATAATATT
23253 -TATAATATAA-ATT
1 ATAT-ATATAATATT
*
23266 ATA-ATCTAATA-T
1 ATATATATAATATT
23278 ATATA-ATAAT
1 ATATATATAAT
23288 CTAATTATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 13 0.32
13 8 0.20
14 19 0.47
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
ATATATATAATATT
Found at i:23260 original size:32 final size:31
Alignment explanation
Indices: 23189--23261 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
23179 TATTTGTTTA
*
23189 ATAATAATATATAATATTTAATAAAATATTAT
1 ATAAT-ATATATAATATTTAATAAAAGATTAT
*
23221 TTAAATATATATAATATTATATATAAAAGATT-T
1 AT-AATATATATAATATT-TA-ATAAAAGATTAT
23254 ATAATATA
1 ATAATATA
23262 AATTATAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 19 0.54
33 7 0.20
34 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAATATATATAATATTTAATAAAAGATTAT
Found at i:23269 original size:12 final size:13
Alignment explanation
Indices: 23197--23285 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 13
23187 TAATAATAAT
23197 ATATAATATT-TA
1 ATATAATATTATA
*
23209 ATAAAATATTAT-
1 ATATAATATTATA
23221 -T-TAA-A-TAT-
1 ATATAATATTATA
23229 ATATAATATTATA
1 ATATAATATTATA
* *
23242 TATAAAAGATTTATA
1 -ATATAATA-TTATA
23257 ATATAA-ATTATA
1 ATATAATATTATA
*
23269 ATCTAATATATATA
1 ATATAATAT-TATA
23283 ATA
1 ATA
23286 ATCTAATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.05
9 2 0.03
10 5 0.08
11 2 0.03
12 22 0.37
13 4 0.07
14 17 0.28
15 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (13 bp):
ATATAATATTATA
Found at i:23287 original size:12 final size:12
Alignment explanation
Indices: 23187--23287 Score: 54
Period size: 12 Copynumber: 8.6 Consensus size: 12
23177 ATTATTTGTT
23187 TAATAATA-ATA
1 TAATAATATATA
23198 T-ATAATAT-T-
1 TAATAATATATA
*
23207 TAATAAAATAT-
1 TAATAATATATA
*
23218 TATTTAAATATATA
1 TA-AT-AATATATA
*
23232 TAATATTATATA
1 TAATAATATATA
* *
23244 TAA-AAGATTTA
1 TAATAATATATA
*
23255 TAAT-ATAAATTA
1 TAATAATATA-TA
23267 TAATCTAATATATA
1 TAA--TAATATATA
23281 TAATAAT
1 TAATAAT
23288 CTAATTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
9 1 0.01
10 13 0.19
11 14 0.21
12 20 0.30
13 7 0.10
14 8 0.12
15 4 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (12 bp):
TAATAATATATA
Found at i:23300 original size:17 final size:17
Alignment explanation
Indices: 23255--23296 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
23245 AAAAGATTTA
* *
23255 TAATATAAATTATAATC
1 TAATATATATAATAATC
23272 TAATATATATAATAATC
1 TAATATATATAATAATC
23289 TAAT-TATA
1 TAATATATA
23297 ATAAGGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATATATATAATAATC
Found at i:24058 original size:17 final size:16
Alignment explanation
Indices: 24022--24073 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
24012 TATTATTATT
**
24022 ATTATAAATATTAAATA
1 ATTATAAATATTTCA-A
*
24039 ATTATGAAATATTTGAA
1 ATTAT-AAATATTTCAA
*
24056 ATTATAACTATTTCAA
1 ATTATAAATATTTCAA
24072 AT
1 AT
24074 AGAATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 11 0.37
17 11 0.37
18 8 0.27
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTATAAATATTTCAA
Found at i:24171 original size:22 final size:22
Alignment explanation
Indices: 24142--24193 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
24132 TAACTAACAT
24142 TATAATATT-ATATTTATTAATA
1 TATAATATTAATA-TTATTAATA
24164 -ATTAATATTAATATTATTAATA
1 TA-TAATATTAATATTATTAATA
24186 TATAATAT
1 TATAATAT
24194 AGTATTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 22 0.81
23 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAATATTAATATTATTAATA
Found at i:25212 original size:17 final size:17
Alignment explanation
Indices: 25186--25219 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25176 ATTTTATAAT
* *
25186 TTAATTATATTGTTTAA
1 TTAATAATATTATTTAA
25203 TTAATAATATTATTTAA
1 TTAATAATATTATTTAA
25220 ATTACTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAATAATATTATTTAA
Found at i:26446 original size:19 final size:16
Alignment explanation
Indices: 26422--26466 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
26412 TATAATTTAG
26422 ATATA-AATTAATTAATA
1 ATATATAATT-ATT-ATA
26439 ATATATAATTATTATA
1 ATATATAATTATTATA
26455 ATAT-TAATTATT
1 ATATATAATTATT
26467 TAAATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 8 0.30
18 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATAATTATTATA
Found at i:26449 original size:14 final size:14
Alignment explanation
Indices: 26422--26502 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
26412 TATAATTTAG
26422 ATATAA-ATTAATT
1 ATATAATATTAATT
26435 A-ATAATATATAATT
1 ATATAATAT-TAATT
26449 ATTATAATATTAATT
1 A-TATAATATTAATT
* *
26464 ATTTAA-ATTTATACT
1 ATATAATA-TTA-ATT
*
26479 ATATAAAATT-ATT
1 ATATAATATTAATT
26492 ATTATAATATT
1 A-TATAATATT
26503 TTAAATTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 4 0.07
13 7 0.13
14 21 0.38
15 15 0.27
16 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATATTAATT
Found at i:26497 original size:21 final size:21
Alignment explanation
Indices: 26472--26519 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
26462 TTATTTAAAT
* *
26472 TTATACTATATAAAATTATTA
1 TTATAATATATAAAATTATAA
* *
26493 TTATAATATTTTAAATTATAA
1 TTATAATATATAAAATTATAA
26514 TTATAA
1 TTATAA
26520 ACCTTTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATAATATATAAAATTATAA
Found at i:26722 original size:19 final size:19
Alignment explanation
Indices: 26700--26739 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26690 ATAAAAATTA
26700 TATTAATAATAATATTAAT
1 TATTAATAATAATATTAAT
* * *
26719 TATTTATATTAATATTTAT
1 TATTAATAATAATATTAAT
26738 TA
1 TA
26740 ACTTATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAATAATAATATTAAT
Found at i:26734 original size:12 final size:12
Alignment explanation
Indices: 26697--26737 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
26687 CTTATAAAAA
*
26697 TTATATTAATAA
1 TTATATTAATAT
*
26709 TAATATTAATTAT
1 TTATATTAA-TAT
26722 TTATATTAATAT
1 TTATATTAATAT
26734 TTAT
1 TTAT
26738 TAACTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:27342 original size:16 final size:16
Alignment explanation
Indices: 27302--27343 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
27292 TTTATATTTA
27302 ATTAATAAT-TAAATT
1 ATTAATAATATAAATT
*
27317 ATT-ATAAATATCAATT
1 ATTAAT-AATATAAATT
27333 ATTAATAATAT
1 ATTAATAATAT
27344 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 6 0.26
16 13 0.57
17 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAATAATATAAATT
Found at i:28144 original size:13 final size:14
Alignment explanation
Indices: 28113--28156 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
28103 ATACTTATAG
* *
28113 TTATACTTATAATA
1 TTATAATTATAAAA
*
28127 TTATAA-TATTAAA
1 TTATAATTATAAAA
28140 TTATAATTATAAAA
1 TTATAATTATAAAA
28154 TTA
1 TTA
28157 ATTAATTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAATTATAAAA
Found at i:28949 original size:16 final size:15
Alignment explanation
Indices: 28930--28962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
28920 AAACTTTTGA
28930 ATAATATTATATAAAT
1 ATAATATTATA-AAAT
28946 ATAATATTATAAAAT
1 ATAATATTATAAAAT
28961 AT
1 AT
28963 TATAGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTATAAAAT
Found at i:28980 original size:20 final size:21
Alignment explanation
Indices: 28949--29005 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
28939 TATAAATATA
*
28949 ATATTATAAAATATTATAGACT
1 ATATTAT-AAATATTAAAGACT
*
28971 AT-TTATAAATA-TAAAGATT
1 ATATTATAAATATTAAAGACT
28990 ATATTAT-AATATTAAA
1 ATATTATAAATATTAAA
29006 TATAATTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 12 0.39
20 13 0.42
21 4 0.13
22 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
ATATTATAAATATTAAAGACT
Found at i:29708 original size:18 final size:18
Alignment explanation
Indices: 29687--29733 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
29677 TATTATAAGG
29687 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
29705 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
29722 TTTTTAA-TATTA
1 ATTTTAATTATTA
29734 TTAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:30047 original size:18 final size:20
Alignment explanation
Indices: 29996--30048 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
29986 ATATTATAGT
29996 AATAATTAAAT-T-ATTACA
1 AATAATTAAATATAATTACA
30014 AATATATT-AA-ATAATT-C-
1 AATA-ATTAAATATAATTACA
30031 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
30049 GATAATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
16 3 0.10
17 6 0.21
18 14 0.48
19 6 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTAAATATAATTACA
Found at i:30307 original size:24 final size:23
Alignment explanation
Indices: 30280--30339 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
30270 TAAATATTAA
30280 ATTAATTTATATAAGTTAATAATT
1 ATTAATTTATATAA-TTAATAATT
*
30304 ATTAATATAATATAATTAATAATT
1 ATTAAT-TTATATAATTAATAATT
30328 ATT-ATTATATAT
1 ATTAATT-TATAT
30340 TTTATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 1 0.03
23 6 0.19
24 18 0.56
25 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTAATTTATATAATTAATAATT
Found at i:30323 original size:21 final size:21
Alignment explanation
Indices: 30282--30338 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
30272 AATATTAAAT
*
30282 TAATTTATATAAGT-TAA-TAA
1 TAATTAATATAA-TATAATTAA
*
30302 TTATTAATATAATATAATTAA
1 TAATTAATATAATATAATTAA
* *
30323 TAATTATTATTATATA
1 TAATTAATATAATATA
30339 TTTTATATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.03
20 13 0.43
21 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTAATATAATATAATTAA
Found at i:30837 original size:13 final size:13
Alignment explanation
Indices: 30821--30857 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
30811 ATACTATAAT
*
30821 TATTATCATAAAA
1 TATTATTATAAAA
30834 TATTATTATAAAA
1 TATTATTATAAAA
30847 T-TTATTATAAA
1 TATTATTATAAA
30858 TTTATACTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTATTATAAAA
Found at i:30860 original size:11 final size:12
Alignment explanation
Indices: 30823--30862 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
30813 ACTATAATTA
*
30823 TTATCATAAAAT
1 TTATTATAAAAT
30835 ATTATTATAAAAT
1 -TTATTATAAAAT
30848 TTATTAT-AAAT
1 TTATTATAAAAT
30859 TTAT
1 TTAT
30863 ACTGCTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 8 0.31
12 7 0.27
13 11 0.42
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATTATAAAAT
Found at i:31312 original size:27 final size:27
Alignment explanation
Indices: 31265--31329 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
31255 CAATTAAATT
31265 ATAAATATTATTTATTATTTAAT-AATA
1 ATAAATATTATTTATTATTT-ATCAATA
31292 ATAAATTACTTATTTA-T-TTTATCAATA
1 ATAAA-TA-TTATTTATTATTTATCAATA
*
31319 AT-ATTATTATT
1 ATAAATATTATT
31330 GATACTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
24 5 0.15
25 2 0.06
26 3 0.09
27 14 0.41
28 3 0.09
29 7 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAAATATTATTTATTATTTATCAATA
Found at i:31375 original size:14 final size:13
Alignment explanation
Indices: 31356--31421 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
31346 TTGTATTTAA
31356 TAATTATTATAACT
1 TAATTATTATAA-T
*
31370 TAATTAGGCTATAAT
1 TAATTA--TTATAAT
* *
31385 T-ATTAATATATT
1 TAATTATTATAAT
*
31397 TAATTATAATTAAT
1 TAATTATTA-TAAT
31411 TAATTATTATA
1 TAATTATTATA
31422 TCTAATAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
12 6 0.15
13 7 0.17
14 21 0.51
15 2 0.05
16 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATTATTATAAT
Found at i:31782 original size:23 final size:24
Alignment explanation
Indices: 31756--31801 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31746 GTTACATATC
*
31756 TAAT-TGTAAATTGTTTATAAAAA
1 TAATATGTAAATTATTTATAAAAA
*
31779 TAATATTTAAATTATTTATAAAA
1 TAATATGTAAATTATTTATAAAA
31802 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATATGTAAATTATTTATAAAAA
Found at i:31808 original size:20 final size:20
Alignment explanation
Indices: 31762--31825 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
31752 TATCTAATTG
*
31762 TAAATTGTTTATAAAAATAATATT
1 TAAATTATTTAT-AAAAT--TA-T
31786 TAAATTATTTATAAAATTAT
1 TAAATTATTTATAAAATTAT
*
31806 TAAAATTTTTTA-AAAATTAT
1 T-AAATTATTTATAAAATTAT
31826 ATATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 10 0.27
21 11 0.30
23 5 0.14
24 11 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAATTATTTATAAAATTAT
Found at i:31987 original size:31 final size:31
Alignment explanation
Indices: 31930--32000 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
31920 TTTATTAATT
**
31930 ATAATT-ATAATTAAATATTATCATA-TTATA
1 ATAATTAATAATTAAATATTAAAATATTTA-A
* *
31960 ATAATTAATAATTGATTATTAAAATATTTAA
1 ATAATTAATAATTAAATATTAAAATATTTAA
*
31991 ATTATTAATA
1 ATAATTAATA
32001 TTTATTTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 6 0.18
31 25 0.74
32 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
ATAATTAATAATTAAATATTAAAATATTTAA
Found at i:32227 original size:26 final size:28
Alignment explanation
Indices: 32169--32272 Score: 67
Period size: 30 Copynumber: 3.7 Consensus size: 28
32159 TTATCCTTGT
32169 TTTAA-TAATGATATGAATATA-TTAACTAA
1 TTTAATTAAT-ATAT-AA-ATAGTTAACTAA
*
32198 TTT-ATTTAT-TATAAATAGTTAA-TAA
1 TTTAATTAATATATAAATAGTTAACTAA
*
32223 TTTTAATTAATATATAAATTA-TTATATTTAA
1 -TTTAATTAATATATAAA-TAGTTA-A-CTAA
* *
32254 TTAAATTAATATATCAATA
1 TTTAATTAATATATAAATA
32273 TATTAAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
25 6 0.10
26 9 0.15
27 8 0.13
28 10 0.16
29 11 0.18
30 15 0.24
31 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTAATTAATATATAAATAGTTAACTAA
Found at i:32300 original size:31 final size:30
Alignment explanation
Indices: 32222--32300 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
32212 ATAGTTAATA
* *
32222 ATTTTAATTAATATATAAATTATTATATTT
1 ATTTTAATTAATATATCAATTATTAAATTT
* *
32252 AATTAAATTAATATATCAATATATTAAATTT
1 ATTTTAATTAATATATCAAT-TATTAAATTT
32283 ATTTTAA-TAATATTATCA
1 ATTTTAATTAATA-TATCA
32301 TAATATACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.54
31 19 0.46
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTAATTAATATATCAATTATTAAATTT
Done.