Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168197.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_433, 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: 27032
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Found at i:214 original size:19 final size:20
Alignment explanation
Indices: 158--214 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
148 AACTATAAAT
*
158 TATTTTATTAGTATAACTAA
1 TATTATATTAGTATAACTAA
*
178 TAATTATTATTATTTATAA-TAA
1 T-ATTA-TATTA-GTATAACTAA
200 TATTATATTAGTATA
1 TATTATATTAGTATA
215 TTATTGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.13
20 6 0.19
21 7 0.23
22 9 0.29
23 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TATTATATTAGTATAACTAA
Found at i:723 original size:18 final size:19
Alignment explanation
Indices: 697--736 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
687 ATAATTGTTG
* *
697 TTTATAATAG-TAATATTA
1 TTTAAAATAGTTAATAATA
715 TTTAAAATAGTTAATAATA
1 TTTAAAATAGTTAATAATA
734 TTT
1 TTT
737 TGAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTAAAATAGTTAATAATA
Found at i:850 original size:19 final size:19
Alignment explanation
Indices: 826--865 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
816 ATAAATGAAG
826 ATTAAA-TAATATTAATTAA
1 ATTAAATTAATATT-ATTAA
845 ATTAAATTAATATTATTAA
1 ATTAAATTAATATTATTAA
864 AT
1 AT
866 ATTATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATTAATATTATTAA
Found at i:2351 original size:20 final size:19
Alignment explanation
Indices: 2324--2428 Score: 82
Period size: 19 Copynumber: 5.6 Consensus size: 19
2314 ATATATTTAT
2324 TAATATTAATAAATTAATA
1 TAATATTAATAAATTAATA
2343 TAATCATTAATAAATTAA-A
1 TAAT-ATTAATAAATTAATA
2362 T-AT-TTAAT-AATTAATGA
1 TAATATTAATAAATTAAT-A
2379 TTTATATATT--TAAATTAAT-
1 --TA-ATATTAATAAATTAATA
* *
2398 TTATATTAGCTAAATTAATA
1 TAATATTA-ATAAATTAATA
2418 TAA-ATTAATAA
1 TAATATTAATAA
2429 TACAGTTAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 27
0.70 0.03 0.27
Matches are distributed among these distances:
15 6 0.09
16 10 0.14
17 2 0.03
18 5 0.07
19 20 0.29
20 16 0.23
21 9 0.13
22 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATATTAATAAATTAATA
Found at i:2370 original size:16 final size:16
Alignment explanation
Indices: 2325--2375 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
2315 TATATTTATT
2325 AATA-TTAATAAATTA
1 AATATTTAATAAATTA
2340 ATATAATCATTAATAAATTA
1 A-AT-AT--TTAATAAATTA
2360 AATATTTAAT-AATTA
1 AATATTTAATAAATTA
2375 A
1 A
2376 TGATTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 1 0.03
18 2 0.06
19 2 0.06
20 12 0.39
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATTTAATAAATTA
Found at i:2374 original size:23 final size:22
Alignment explanation
Indices: 2323--2397 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
2313 TATATATTTA
2323 TTAATATTAATAAATT-AATA-
1 TTAATATTAATAAATTAAATAT
2343 -TAATCATTAATAAATTAAATAT
1 TTAAT-ATTAATAAATTAAATAT
* * *
2365 TTAATAATTAATGATTTATATAT
1 TTAAT-ATTAATAAATTAAATAT
2388 TTAA-ATTAAT
1 TTAATATTAAT
2398 TTATATTAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.09
20 11 0.23
21 10 0.21
23 22 0.47
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (22 bp):
TTAATATTAATAAATTAAATAT
Found at i:2577 original size:23 final size:23
Alignment explanation
Indices: 2540--2586 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2530 AATTATTAAA
*
2540 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
2563 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
2586 T
1 T
2587 AAAATTACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:3137 original size:73 final size:73
Alignment explanation
Indices: 3054--3200 Score: 210
Period size: 73 Copynumber: 2.0 Consensus size: 73
3044 ATAAATAACC
* * *
3054 TTTTGTTTTGTCATAAAGCAATT-GTTTTTTATCATACAAGCTTA-TTCGAAATAAAATAATACT
1 TTTTGTTTTGTCATAAAACAATTGGTTCTAT-TCATACAAGCTTATTTC-AAATAAAATAATA-T
3117 -AATTTATTAA
63 AAATTTATTAA
*
3127 TTTTGTTTTGTCATAAAACAATTGGTTCTATTCATTCAAGCTTATTTCAAATAAAATAATATAAA
1 TTTTGTTTTGTCATAAAACAATTGGTTCTATTCATACAAGCTTATTTCAAATAAAATAATATAAA
3192 TTTATTAA
66 TTTATTAA
3200 T
1 T
3201 GTTCCAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
72 1 0.01
73 58 0.87
74 8 0.12
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (73 bp):
TTTTGTTTTGTCATAAAACAATTGGTTCTATTCATACAAGCTTATTTCAAATAAAATAATATAAA
TTTATTAA
Found at i:4250 original size:19 final size:20
Alignment explanation
Indices: 4228--4269 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4218 ATAATTGTTG
* *
4228 TTTATAATA-ATAAATATTA
1 TTTAAAATAGATAAATAATA
*
4247 TTTAAAATAGTTAAATAATA
1 TTTAAAATAGATAAATAATA
4267 TTT
1 TTT
4270 TGAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTAAAATAGATAAATAATA
Found at i:4384 original size:16 final size:16
Alignment explanation
Indices: 4365--4395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4355 AGATTAAATA
4365 TATTAAATATTATTAT
1 TATTAAATATTATTAT
*
4381 TATTATATATTATTA
1 TATTAAATATTATTA
4396 AAATTATTGT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTAAATATTATTAT
Found at i:4394 original size:19 final size:20
Alignment explanation
Indices: 4372--4424 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
4362 ATATATTAAA
4372 TATTATTATTATTATA-TAT
1 TATTATTATTATTATATTAT
** *
4391 TATTAAAATTATTGTATTAT
1 TATTATTATTATTATATTAT
4411 TGATATATTATTAT
1 T-AT-TATTATTAT
4425 CGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 13 0.50
20 4 0.15
21 2 0.08
22 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTATTATTATTATATTAT
Found at i:4495 original size:17 final size:16
Alignment explanation
Indices: 4464--4502 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
4454 TATAGTATAT
4464 TAATGAATTATTATTAA
1 TAAT-AATTATTATTAA
*
4481 TAATAATTATATATTAC
1 TAATAATTAT-TATTAA
4498 TAATA
1 TAATA
4503 TAATAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
TAATAATTATTATTAA
Found at i:4810 original size:18 final size:16
Alignment explanation
Indices: 4782--4850 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 16
4772 AATATTTGTT
4782 AATTTATATTAATTATA
1 AATTTATATTAA-TATA
4799 AATTTAATATT-A-AT-
1 AATTT-ATATTAATATA
4813 AATTT-TATTAATTATA
1 AATTTATATTAA-TATA
4829 ATATATTAATATTAATATA
1 A-AT-TT-ATATTAATATA
4848 AAT
1 AAT
4851 ATATTATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
12 4 0.09
13 1 0.02
14 5 0.12
15 4 0.09
16 1 0.02
17 8 0.19
18 9 0.21
19 5 0.12
20 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTATATTAATATA
Found at i:4820 original size:32 final size:32
Alignment explanation
Indices: 4781--4845 Score: 107
Period size: 30 Copynumber: 2.1 Consensus size: 32
4771 AAATATTTGT
4781 TAATTTATATTAATTATAA-AT-TTAATATTAA
1 TAATTT-TATTAATTATAATATATTAATATTAA
4812 TAATTTTATTAATTATAATATATTAATATTAA
1 TAATTTTATTAATTATAATATATTAATATTAA
4844 TA
1 TA
4846 TAAATATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 12 0.38
31 8 0.25
32 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATTTTATTAATTATAATATATTAATATTAA
Found at i:4834 original size:26 final size:30
Alignment explanation
Indices: 4781--4845 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
4771 AAATATTTGT
4781 TAATTTATATTAATTATAAATTTAATATTAA
1 TAATTTATATTAATTATAAA-TTAATATTAA
4812 TAATTT-TATTAATTATAATATATTAATATTAA
1 TAATTTATATTAATTAT-A-A-ATTAATATTAA
4844 TA
1 TA
4846 TAAATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 10 0.32
31 7 0.23
32 13 0.42
33 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TAATTTATATTAATTATAAATTAATATTAA
Found at i:4844 original size:14 final size:14
Alignment explanation
Indices: 4786--4862 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 14
4776 TTTGTTAATT
4786 TATATTAATTATAA
1 TATATTAATTATAA
4800 -AT-TTAATATTAATAA
1 TATATT-A-ATT-ATAA
*
4815 TTTTATTAATTATAA
1 -TATATTAATTATAA
4830 TATATTAA-TATTAA
1 TATATTAATTA-TAA
*
4844 TATAAATATATTATAA
1 TAT-ATTA-ATTATAA
4860 TAT
1 TAT
4863 TTCTATAATG
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
12 2 0.04
13 5 0.10
14 16 0.32
15 11 0.22
16 10 0.20
17 4 0.08
18 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATTAATTATAA
Found at i:4870 original size:22 final size:20
Alignment explanation
Indices: 4818--4856 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4808 TTAATAATTT
4818 TATTAAT-TATAATATATTAA
1 TATTAATATA-AATATATTAA
4838 TATTAATATAAATATATTA
1 TATTAATATAAATATATTA
4857 TAATATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAATATAAATATATTAA
Found at i:5474 original size:14 final size:15
Alignment explanation
Indices: 5455--5483 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5445 TTACTTAAAT
5455 CAATTATT-TATTAA
1 CAATTATTATATTAA
5469 CAATTATTATATTAA
1 CAATTATTATATTAA
5484 AAATAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
CAATTATTATATTAA
Found at i:6324 original size:21 final size:21
Alignment explanation
Indices: 6283--6326 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6273 TATTAATAAA
6283 ATAAATAATATAATTATATAT
1 ATAAATAATATAATTATATAT
6304 ATAAATAA-ATAATTATAATAT
1 ATAAATAATATAATTAT-ATAT
6325 AT
1 AT
6327 TTAGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAATATAATTATATAT
Found at i:6334 original size:23 final size:25
Alignment explanation
Indices: 6281--6351 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
6271 ATTATTAATA
6281 AAATAAATAATATAATTATATATAT
1 AAATAAATAATATAATTATATATAT
* *
6306 AAATAAATAATTATAATATATTTAGAT
1 AAATAAATAA-TATAAT-TATATATAT
*
6333 AAAT-AACAATAT-ATTATAT
1 AAATAAATAATATAATTATAT
6352 TTAAGTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.10
24 2 0.05
25 13 0.32
26 10 0.25
27 11 0.28
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
AAATAAATAATATAATTATATATAT
Found at i:6361 original size:27 final size:28
Alignment explanation
Indices: 6281--6361 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 28
6271 ATTATTAATA
* *
6281 AAATAAATAA-TATAAT-TATATA-TAT
1 AAATAAACAATTATAATATATTTAGTAT
*
6306 AAATAAATAATTATAATATATTTAG-AT
1 AAATAAACAATTATAATATATTTAGTAT
*
6333 AAAT-AACAA-TATATTATATTTAAGTAT
1 AAATAAACAATTATAATATATTT-AGTAT
6360 AA
1 AA
6362 TAGTTTATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 21 0.44
26 12 0.25
27 15 0.31
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (28 bp):
AAATAAACAATTATAATATATTTAGTAT
Found at i:6467 original size:21 final size:23
Alignment explanation
Indices: 6438--6485 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
6428 AATTAATTAC
* *
6438 ATTACTAATTAATTTAA-CAAAT
1 ATTACTAATAAAATTAATCAAAT
*
6460 ATTA-TAATAAAATTAATCAATT
1 ATTACTAATAAAATTAATCAAAT
6482 ATTA
1 ATTA
6486 ATTAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTACTAATAAAATTAATCAAAT
Found at i:6690 original size:21 final size:20
Alignment explanation
Indices: 6655--6693 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6645 TTTAATGTTA
6655 TAATTAAATATATATTATAT
1 TAATTAAATATATATTATAT
*
6675 TAATTAAGTAATATATTAT
1 TAATTAAAT-ATATATTAT
6694 TACTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATTAAATATATATTATAT
Found at i:6730 original size:25 final size:25
Alignment explanation
Indices: 6677--6746 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
6667 TATTATATTA
* **
6677 ATTAAGTAATATATTATTACTATTTTT
1 ATTAA-TAATAT-TTAATACTATAATT
6704 ATTAATAATATTTAATACTATAATT
1 ATTAATAATATTTAATACTATAATT
6729 ATATAA-AATATTTGAATA
1 AT-TAATAATATTT-AATA
6747 GATTCATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 20 0.53
26 13 0.34
27 5 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (25 bp):
ATTAATAATATTTAATACTATAATT
Found at i:6807 original size:20 final size:20
Alignment explanation
Indices: 6770--6808 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6760 ATAAATTTTA
*
6770 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
6790 TAATTTATGTATAT-TAATT
1 TAATTTAT-TATATGTAATT
6809 AATTAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:7878 original size:34 final size:34
Alignment explanation
Indices: 7839--7905 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
7829 AAAAATTAAC
*
7839 TATTTT-TAATTTATTTAAATTAATAATTAATAAT
1 TATTTTGTAATTTAATTAAATTAAT-ATTAATAAT
* * *
7873 TATTTTGTTATTTAATTATATTACTATTAATAA
1 TATTTTGTAATTTAATTAAATTAATATTAATAA
7906 CTATAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (34 bp):
TATTTTGTAATTTAATTAAATTAATATTAATAAT
Found at i:7962 original size:19 final size:19
Alignment explanation
Indices: 7862--7967 Score: 72
Period size: 19 Copynumber: 5.3 Consensus size: 19
7852 TTTAAATTAA
* * *
7862 TAATTAATAATTATTTTGT
1 TAATTAATTATTATTATAT
*
7881 TATTTAATTA-TATTACTAT
1 TAATTAATTATTATTA-TAT
7900 TAA-TAACTATAATTATTATAT
1 TAATTAA-T-T-ATTATTATAT
* *
7921 TAATCAAAATAAGTTATTTATAT
1 TAAT--TAATTA-TTA-TTATAT
7944 TAATTAATTATTATTATAT
1 TAATTAATTATTATTATAT
7963 TAATT
1 TAATT
7968 TCAATTTTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
18 7 0.10
19 24 0.35
20 4 0.06
21 12 0.18
22 8 0.12
23 11 0.16
24 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATTAATTATTATTATAT
Found at i:8173 original size:19 final size:19
Alignment explanation
Indices: 8111--8181 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
8101 TTATAGTTAC
* *
8111 ATTAATTTAATTAATATTT
1 ATTAATTTAATTAAAATTA
* *
8130 ATTAATTAAAGATAATGAATATA
1 ATTAATTTAA-TTAA--AAT-TA
8153 ATTAATTTAATTAAAATTA
1 ATTAATTTAATTAAAATTA
*
8172 ATTAAATTAA
1 ATTAATTTAA
8182 ATGTATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 20 0.49
20 6 0.15
22 5 0.12
23 10 0.24
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTAATTTAATTAAAATTA
Found at i:8668 original size:25 final size:25
Alignment explanation
Indices: 8639--8686 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8629 TTATTATTCA
*
8639 TAAATTAGTTGAATATTAATTAATT
1 TAAATAAGTTGAATATTAATTAATT
* * *
8664 TAAATAATTTTAATATTATTTAA
1 TAAATAAGTTGAATATTAATTAA
8687 AATTATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
TAAATAAGTTGAATATTAATTAATT
Found at i:9618 original size:52 final size:54
Alignment explanation
Indices: 9553--9679 Score: 186
Period size: 52 Copynumber: 2.4 Consensus size: 54
9543 AAATATATCT
*
9553 AATTATTCTACCATTTGGGCCAAATTAGAAATATTTTCTC-TTTT-GAATTTCTA
1 AATT-TTCCACCATTTGGGCCAAATTAGAAATATTTTCTCTTTTTGGAATTTCTA
* * *
9606 AATTTTCCACCATTTAGGTCAATTTAGAAATATTTTCTCTTTTTGGAATTTCTA
1 AATTTTCCACCATTTGGGCCAAATTAGAAATATTTTCTCTTTTTGGAATTTCTA
*
9660 AATTTTCCACTATTTGGGCC
1 AATTTTCCACCATTTGGGCC
9680 TATTAAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 31 0.48
53 8 0.12
54 26 0.40
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.46
Consensus pattern (54 bp):
AATTTTCCACCATTTGGGCCAAATTAGAAATATTTTCTCTTTTTGGAATTTCTA
Found at i:11634 original size:15 final size:16
Alignment explanation
Indices: 11607--11650 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11597 ATGTTTAGTT
* *
11607 ATAATTAATAATATTA
1 ATAATTTATAATAATA
*
11623 TTAATTTA-AATAATA
1 ATAATTTATAATAATA
11638 ATAATTTATAATA
1 ATAATTTATAATA
11651 CATGTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTTATAATAATA
Found at i:11682 original size:9 final size:10
Alignment explanation
Indices: 11668--11700 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
11658 TAACCTAAAG
11668 TTATAATTA-
1 TTATAATTAT
11677 TTATAATTAT
1 TTATAATTAT
11687 TTATAA-TAT
1 TTATAATTAT
11696 TTATA
1 TTATA
11701 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATAATTAT
Found at i:11867 original size:23 final size:22
Alignment explanation
Indices: 11828--11894 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
11818 TTATATGATT
*
11828 AATATATTAAAGCATATAATATA
1 AATATATTAAA-TATATAATATA
11851 AATATAATTAAATATATAA-AT-
1 AATAT-ATTAAATATATAATATA
* *
11872 AATAGATAAAATACTATAATATA
1 AATATATTAAATA-TATAATATA
11895 GTATTTATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.19
21 9 0.24
22 4 0.11
23 11 0.30
24 6 0.16
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATTAAATATATAATATA
Found at i:12133 original size:17 final size:19
Alignment explanation
Indices: 12101--12135 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
12091 AATACAACTA
12101 ATTTAACTACTAATAATTT
1 ATTTAACTACTAATAATTT
12120 ATTTAA-TA-TAATAATT
1 ATTTAACTACTAATAATT
12136 ATAATATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAACTACTAATAATTT
Found at i:12270 original size:18 final size:18
Alignment explanation
Indices: 12249--12293 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
12239 TTAATTAATA
12249 ATATATAAAATTTTAAGT
1 ATATATAAAATTTTAAGT
*
12267 ATATTAATAAAGTTTTAAGT
1 ATA-T-ATAAAATTTTAAGT
12287 ATATATA
1 ATATATA
12294 CATAACCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATATAAAATTTTAAGT
Found at i:12298 original size:22 final size:20
Alignment explanation
Indices: 12253--12290 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12243 TTAATAATAT
12253 ATAAAATTTTAAGTATATTA
1 ATAAAATTTTAAGTATATTA
*
12273 ATAAAGTTTTAAGTATAT
1 ATAAAATTTTAAGTATAT
12291 ATACATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAAAATTTTAAGTATATTA
Found at i:12451 original size:24 final size:23
Alignment explanation
Indices: 12402--12464 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
12392 TATAATTATG
*
12402 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
12425 TATACTTAAT-AATAGTTAATATTA
1 TATA-TTAATAAATAGTTAA-ATAA
12449 TATATATAATTAAATA
1 TATAT-TAA-TAAATA
12465 AACATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 13 0.39
24 15 0.45
25 1 0.03
26 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:13351 original size:19 final size:18
Alignment explanation
Indices: 13319--13357 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
13309 ACGTTATTTT
13319 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
13337 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
13356 AT
1 AT
13358 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:13695 original size:11 final size:11
Alignment explanation
Indices: 13675--13801 Score: 64
Period size: 11 Copynumber: 11.5 Consensus size: 11
13665 ACAAAATTAC
*
13675 TAATATTATAA
1 TAATAATATAA
*
13686 AAATAATATAA
1 TAATAATATAA
* *
13697 TAATTATATTA
1 TAATAATATAA
13708 TAATAATAT--
1 TAATAATATAA
* *
13717 TAATTAT-TAG
1 TAATAATATAA
*
13727 TAATATTATAAA
1 TAATAATAT-AA
*
13739 TATTAATATAA
1 TAATAATATAA
13750 TAAATTAA-ATAA
1 T-AA-TAATATAA
* *
13762 TGACAATATTAA
1 TAATAATA-TAA
* * *
13774 TTAGTAGTTTAA
1 -TAATAATATAA
13786 TAATAATATAA
1 TAATAATATAA
13797 TAATA
1 TAATA
13802 CTAATTACAA
Statistics
Matches: 84, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
8 1 0.01
9 6 0.07
10 7 0.08
11 44 0.52
12 20 0.24
13 6 0.07
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
TAATAATATAA
Found at i:13705 original size:25 final size:25
Alignment explanation
Indices: 13675--13752 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
13665 ACAAAATTAC
13675 TAATATTATAAAAATAATATAATAA
1 TAATATTATAAAAATAATATAATAA
* * *
13700 TTATATTATAATAATATTAAT-TATTAG
1 TAATATTATAA-AA-A-TAATATAATAA
*
13727 TAATATTATAAATATTAATATAATAA
1 TAATATTATAAA-AATAATATAATAA
13753 ATTAAATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
25 14 0.34
26 7 0.17
27 16 0.39
28 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
TAATATTATAAAAATAATATAATAA
Found at i:13742 original size:18 final size:18
Alignment explanation
Indices: 13702--13743 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
13692 TATAATAATT
13702 ATATTATAATAATATTAA
1 ATATTATAATAATATTAA
* *
13720 TTATTAGTAATATTA-TAA
1 ATATTA-TAATAATATTAA
13738 ATATTA
1 ATATTA
13744 ATATAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATTATAATAATATTAA
Found at i:14045 original size:20 final size:21
Alignment explanation
Indices: 14020--14060 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14010 CAATTTTTAA
14020 TTTAATAATT-ATATAA-ATTT
1 TTTAAT-ATTAATATAACATTT
14040 TTTAATATTAATATAACATTT
1 TTTAATATTAATATAACATTT
14061 AACTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATATTAATATAACATTT
Found at i:16345 original size:120 final size:121
Alignment explanation
Indices: 16133--16351 Score: 280
Period size: 120 Copynumber: 1.8 Consensus size: 121
16123 AATATGAACA
* * *
16133 AAAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTGTTCCAATAA
1 AAAATAATTATTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTGTTCAAATAA
*
16198 TCATAACTATTCAAAATTATTCAGTAAACAAATTTGAAATAAGCTTGTACGAATAG
66 CCATAACTATTCAAAATTATTCAGTAAACAAATTTGAAATAAGCTTGTACGAATAG
* * * *
16254 AAAA-AATTATTTTATGACAATACAAAAGGTTATAGA-AATTTGAACTAGATAATTGTTCAAATA
1 AAAATAATTATTTTATGACAAAACAAAAGGTCATA-ATAATTTGAAATAAATAATTGTTCAAATA
* * ** * * *
16317 GCCATAATTATTTGAACTTGTTCGGTAAACAAATT
65 ACCATAACTATTCAAAATTATTCAGTAAACAAATT
16352 CATTTTTTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
120 77 0.94
121 5 0.06
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (121 bp):
AAAATAATTATTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTGTTCAAATAA
CCATAACTATTCAAAATTATTCAGTAAACAAATTTGAAATAAGCTTGTACGAATAG
Found at i:16600 original size:180 final size:180
Alignment explanation
Indices: 16291--16989 Score: 872
Period size: 180 Copynumber: 3.9 Consensus size: 180
16281 GGTTATAGAA
* * *
16291 ATTTGAACTAGATAATTGTTCAAATAGCCATAATTATTTGAACTTGTTCGGTAAACAAATTCATT
1 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTAGTTCGGCAAACAAATTCATT
* * *
16356 TTTTAAATCTCTCACTTATTAATTTTTGGAATATTAATAAATCAGAATTATGTTAATTTGAATAA
66 TTTTAAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGAATTATGTTAATCTGAATAA
*
16421 GCTTGTATGAACAAAAACAATTGTTTTATAAGAAAACAAAGGTCATAATG
131 GCTTATATGAACAAAAACAATTGTTTTATAAGAAAACAAAGGTCATAATG
* *
16471 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTTGTTCGGTAAACAAATTCATT
1 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTAGTTCGGCAAACAAATTCATT
*
16536 TTTTAAATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATGTTAATCTGAATAA
66 TTTTAAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGAATTATGTTAATCTGAATAA
*
16601 GCTTGTATGAACAAAAACAATTGTTTTATAAGAAAACAAAGGTCATAATG
131 GCTTATATGAACAAAAACAATTGTTTTATAAGAAAACAAAGGTCATAATG
* * * * * * * *
16651 ATTTGAAATAGATAATTATTCAAATAGTCATAATTGTTTGCACTAGTTAAGCCAAA-AGATACAT
1 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTAGTT-CGGCAAACAAATTCAT
* * * * *
16715 TTTCTAAATC-CATTACTTATTAATTTTTAAAATATTAATAAATTAGCATTACT-TT-ATTTCGA
65 TTTTTAAATCTC-TCACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-TGTTAATCT-GA
* * * * *
16777 ATAAGATTATATGAAC-AAAACAATTGTTTTATGATAAAAGAAATGATCATAATG
127 ATAAGCTTATATGAACAAAAACAATTGTTTTATAAGAAAACAAA-GGTCATAATG
* * * ** * * *
16831 ATTTGAAATAAATATTTGGTCAAATAGTTATAACTAATTGAACTAGTAT-GGCAAACAAATTTAT
1 ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTAGT-TCGGCAAACAAATTCAT
* * * * ** *
16895 TTTTTAAATCTCTTACGTATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTATTCCAAAC
65 TTTTTAAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTATGTTAATCTGAAT
* *
16959 AAACTTATATGAACAAAAACATTTGTTTTAT
129 AAGCTTATATGAACAAAAACAATTGTTTTAT
16990 GACAAAATTG
Statistics
Matches: 457, Mismatches: 50, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
179 34 0.07
180 400 0.88
181 23 0.05
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.39
Consensus pattern (180 bp):
ATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTAGTTCGGCAAACAAATTCATT
TTTTAAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGAATTATGTTAATCTGAATAA
GCTTATATGAACAAAAACAATTGTTTTATAAGAAAACAAAGGTCATAATG
Found at i:17383 original size:23 final size:23
Alignment explanation
Indices: 17334--17384 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
17324 ATGATAAGTT
* **
17334 ATTATCTATTTATTTAATTATGT
1 ATTATCTATTTAATTAATTATAA
17357 ATTATCTATTATAATTAA-TATAA
1 ATTATCTATT-TAATTAATTATAA
17380 ATTAT
1 ATTAT
17385 TAATAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTATCTATTTAATTAATTATAA
Found at i:17711 original size:18 final size:19
Alignment explanation
Indices: 17680--17730 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
17670 TACTAATCTG
*
17680 TATATAATAGAATT-ATTA
1 TATATAATACAATTAATTA
*
17698 TATATAATTCAATTAATTA
1 TATATAATACAATTAATTA
17717 TGA-ATAATAACAAT
1 T-ATATAAT-ACAAT
17731 AATACTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 10 0.37
20 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (19 bp):
TATATAATACAATTAATTA
Found at i:17882 original size:13 final size:14
Alignment explanation
Indices: 17836--17884 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
17826 ATAAATTCTT
17836 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
17848 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
17864 ATTAATTAATATT-
1 ATTAATTAATATTA
17877 ATTAATTA
1 ATTAATTA
17885 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:17967 original size:17 final size:17
Alignment explanation
Indices: 17947--18010 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
17937 AAATTAATAA
17947 TATAATATAATATTTAT
1 TATAATATAATATTTAT
* **
17964 TATATTATAATAAATAT
1 TATAATATAATATTTAT
* *
17981 T-TAATTTAAATATTTAA
1 TATAATAT-AATATTTAT
*
17998 TAT-ATAAAATATT
1 TATAATATAATATT
18011 ATATAATTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
16 10 0.29
17 24 0.69
18 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATATAATATTTAT
Found at i:17992 original size:13 final size:13
Alignment explanation
Indices: 17974--17998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17964 TATATTATAA
17974 TAAATATTTAATT
1 TAAATATTTAATT
17987 TAAATATTTAAT
1 TAAATATTTAAT
17999 ATATAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTAATT
Found at i:18047 original size:21 final size:21
Alignment explanation
Indices: 18005--18063 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
17995 TAATATATAA
18005 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
18027 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
18048 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
18064 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:18069 original size:17 final size:16
Alignment explanation
Indices: 18046--18091 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
18036 CATTATGTTA
18046 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
18062 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
18080 ATAA-ATTAAGTA
1 ATAATATTAAGTA
18092 CTTTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 13 0.50
18 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTAAGTAATT
Found at i:18204 original size:20 final size:19
Alignment explanation
Indices: 18153--18216 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
18143 AAATATTAGT
*
18153 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
18171 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
18192 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
18212 TATTA
1 TATTA
18217 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:18333 original size:13 final size:13
Alignment explanation
Indices: 18317--18350 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18307 TTATATTACT
18317 TATTAATAATAAA
1 TATTAATAATAAA
* *
18330 TATTAATAATTAC
1 TATTAATAATAAA
18343 TATTAATA
1 TATTAATA
18351 TTTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATAATAAA
Found at i:18365 original size:26 final size:27
Alignment explanation
Indices: 18292--18365 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
18282 TTTATTAAGC
* *
18292 TAATAGTTAATTTATTTATATTACTTAT
1 TAATAATTAATTTAATTA-ATTACTTAT
*
18320 TAATAATAAATATTAA-TAATTAC-TAT
1 TAATAATTAAT-TTAATTAATTACTTAT
* *
18346 TAATATTTAATTCAATTAAT
1 TAATAATTAATTTAATTAAT
18366 ATATTATAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.08
26 16 0.42
27 5 0.13
28 11 0.29
29 3 0.08
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (27 bp):
TAATAATTAATTTAATTAATTACTTAT
Found at i:18599 original size:19 final size:19
Alignment explanation
Indices: 18575--18628 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
18565 ATATAAATAA
18575 TTATTATATATTAATCTAT
1 TTATTATATATTAATCTAT
*
18594 TTATTATATAATAAT-TAT
1 TTATTATATATTAATCTAT
18612 TATATT-TAT-TT-ATCTAT
1 T-TATTATATATTAATCTAT
18629 CAATATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 2 0.06
17 4 0.13
18 7 0.23
19 18 0.58
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTATATATTAATCTAT
Found at i:18645 original size:26 final size:28
Alignment explanation
Indices: 18605--18678 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
18595 TATTATATAA
* *
18605 TAATTATTATATTTATTTAT-CTATCAA-
1 TAATAATTAT-TTTATTTATACTATAAAT
* *
18632 TATTAATTATTTTAATTAATACTATAAAT
1 TAATAATTATTTT-ATTTATACTATAAAT
*
18661 TAATAATTATTTAATTTA
1 TAATAATTATTTTATTTA
18679 ATGTTAAACT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.08
27 13 0.35
28 10 0.27
29 11 0.30
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATAATTATTTTATTTATACTATAAAT
Found at i:18815 original size:45 final size:45
Alignment explanation
Indices: 18748--18843 Score: 117
Period size: 45 Copynumber: 2.1 Consensus size: 45
18738 TATTAAGAAT
* *
18748 AATT-AATTATTATATCAATTATT-TTAATAATTAATATAATAATTA
1 AATTAAATTATTATATCAATTATTATT-ATAATT-ATAAAATAATAA
*
18793 AATTAAATTATTATAT-ATTTATTACTTATAATTATAAAATAATAA
1 AATTAAATTATTATATCAATTATTA-TTATAATTATAAAATAATAA
18838 AATTAA
1 AATTAA
18844 TATATCAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
45 26 0.58
46 17 0.38
47 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (45 bp):
AATTAAATTATTATATCAATTATTATTATAATTATAAAATAATAA
Found at i:18912 original size:36 final size:36
Alignment explanation
Indices: 18872--18940 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
18862 TAAGATTATA
* *
18872 ATATTTATTTA-AATAATAAATAATTATAA-ATAAGGT
1 ATATTAATTTATAA-AAT-AATAACTATAATATAAGGT
18908 ATATTAATTTATAAAATAATAACTATAATATAA
1 ATATTAATTTATAAAATAATAACTATAATATAA
18941 TTATAAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 17 0.59
37 2 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (36 bp):
ATATTAATTTATAAAATAATAACTATAATATAAGGT
Found at i:19874 original size:13 final size:13
Alignment explanation
Indices: 19856--19955 Score: 53
Period size: 13 Copynumber: 7.3 Consensus size: 13
19846 AATTTATTTA
19856 ATTATATAATATT
1 ATTATATAATATT
* *
19869 ATTATATATTAAAT
1 ATTATATAAT-ATT
*
19883 ATTTAAATTAAATATTT
1 A-TTATA-T-AATA-TT
*
19900 ATTATATAAATAAT
1 ATTATAT-AATATT
*
19914 ATTATATTAT-TAT
1 ATTATATAATAT-T
19927 ATTAT-TAAT-TT
1 ATTATATAATATT
*
19938 AATTATATAATAAT
1 -ATTATATAATATT
19952 ATTA
1 ATTA
19956 ATTTATTAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
11 1 0.01
12 9 0.13
13 25 0.37
14 12 0.18
15 10 0.15
16 6 0.09
17 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATAATATT
Found at i:19935 original size:22 final size:21
Alignment explanation
Indices: 19826--19961 Score: 68
Period size: 22 Copynumber: 6.2 Consensus size: 21
19816 AAGTAAATGT
*
19826 TTTATCATTATAATA-TATTTAA
1 TTTAT-ATTATTATATTA-TTAA
19848 TTTAT-TTAATTATATAATATT-A
1 TTTATATT-ATTATAT--TATTAA
* *
19870 TTATATATTA-AATATT-TAAA
1 TT-TATATTATTATATTATTAA
* * *
19890 TTAAATATTTATTATATAAATAA
1 TT-TATA-TTATTATATTATTAA
19913 TATTATATTATTATATTATTAA
1 T-TTATATTATTATATTATTAA
*
19935 TTTA-ATTATATAATAATATTAA
1 TTTATATTAT-T-ATATTATTAA
19957 TTTAT
1 TTTAT
19962 TAAACAATTG
Statistics
Matches: 88, Mismatches: 12, Indels: 27
0.69 0.09 0.21
Matches are distributed among these distances:
19 1 0.01
20 15 0.17
21 12 0.14
22 43 0.49
23 12 0.14
24 5 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTATATTATTATATTATTAA
Found at i:20396 original size:19 final size:19
Alignment explanation
Indices: 20369--20466 Score: 65
Period size: 19 Copynumber: 4.9 Consensus size: 19
20359 CCAAAAGTAC
*
20369 ATAATTAATTATTTATATT
1 ATAAATAATTATTTATATT
*
20388 ATAAATAATTAGTAATATTATT
1 ATAAATAATTA-T-TTA-TATT
* * *
20410 ATATAACAAATA-TTAAATT
1 ATA-AATAATTATTTATATT
* *
20429 ATACAATATTTATAATATATT
1 ATA-AATAATTAT-TTATATT
20450 AT-AATAATTATTTATAT
1 ATAAATAATTATTTATAT
20467 AAGGATTTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
18 5 0.08
19 29 0.49
20 3 0.05
21 9 0.15
22 7 0.12
23 6 0.10
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (19 bp):
ATAAATAATTATTTATATT
Found at i:20607 original size:17 final size:19
Alignment explanation
Indices: 20572--20607 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20562 TTATTAAGTA
20572 AAATATTATTAATTCATAT
1 AAATATTATTAATTCATAT
20591 AAAT-TTATTAA-TCATAT
1 AAATATTATTAATTCATAT
20608 TATTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTATTAATTCATAT
Found at i:21182 original size:29 final size:27
Alignment explanation
Indices: 21141--21221 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 27
21131 AATATTTGTT
**
21141 TATAAATCTAATAAGTAATTTATAATTAC
1 TATAAATAAAATAA-TAA-TTATAATTAC
*
21170 TATAAATAAAATAATAATTATATTTAC
1 TATAAATAAAATAATAATTATAATTAC
* * *
21197 AAATAATTAAAAT--TAAATATAATTA
1 -TATAAATAAAATAATAATTATAATTA
21222 AATTACATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.23
27 9 0.20
28 13 0.30
29 12 0.27
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (27 bp):
TATAAATAAAATAATAATTATAATTAC
Found at i:21320 original size:8 final size:8
Alignment explanation
Indices: 21264--21321 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
21254 TATAGTTTAT
21264 ATATATATA
1 ATATA-ATA
*
21273 ATTTAATA
1 ATATAATA
*
21281 A-AT-ATT
1 ATATAATA
21287 ATATAAT-
1 ATATAATA
21294 ATATAATA
1 ATATAATA
*
21302 CTATAATA
1 ATATAATA
21310 ATATAATA
1 ATATAATA
21318 ATAT
1 ATAT
21322 TATATTATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
6 3 0.07
7 10 0.24
8 24 0.59
9 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAATA
Found at i:21343 original size:15 final size:16
Alignment explanation
Indices: 21315--21347 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21305 TAATAATATA
*
21315 ATAATATTATATTATT
1 ATAATATTAGATTATT
21331 ATAA-ATTAGATTATT
1 ATAATATTAGATTATT
21346 AT
1 AT
21348 TTAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATAATATTAGATTATT
Found at i:21407 original size:23 final size:24
Alignment explanation
Indices: 21381--21434 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
21371 TTAATTATAT
21381 AAATAAAT-TAGATT-TAATATTTA
1 AAATAAATATAGATTATAATA-TTA
* *
21404 AAATTAATATATATTATAATATTA
1 AAATAAATATAGATTATAATATTA
21428 AATATAA
1 AA-ATAA
21435 CTAGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAAATATAGATTATAATATTA
Found at i:22705 original size:16 final size:15
Alignment explanation
Indices: 22649--22711 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
22639 ATAAATAAGT
*
22649 TTATCTAATAT-TTAA
1 TTATATAATATATT-A
*
22664 TTATATAATTATAATA
1 TTATATAA-TATATTA
22680 TTACTATAATATATTA
1 TTA-TATAATATATTA
*
22696 TTATATTAATAAATTA
1 TTATA-TAATATATTA
22712 GGTAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.22
16 25 0.62
17 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATATAATATATTA
Found at i:23216 original size:20 final size:19
Alignment explanation
Indices: 23170--23216 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
23160 TAAATAGTTT
*
23170 TATTATTTGTTTAAAATAA
1 TATTATTTGATTAAAATAA
23189 TATATATTT-ATTAATAATAA
1 TAT-TATTTGATTAA-AATAA
23209 GTATTATT
1 -TATTATT
23217 ATGTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.29
20 14 0.58
21 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTATTTGATTAAAATAA
Found at i:23562 original size:28 final size:27
Alignment explanation
Indices: 23503--23556 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
23493 AAATTAATAG
*
23503 TTAATTTATAATTAATATTTCTTATGA
1 TTAATTTATAATTAATATTTATTATGA
*
23530 TTAATTATATAATTAGTATATTATTAT
1 TTAATT-TATAATTAATAT-TTATTAT
23557 TATAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 11 0.48
29 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (27 bp):
TTAATTTATAATTAATATTTATTATGA
Found at i:23625 original size:13 final size:13
Alignment explanation
Indices: 23607--23631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23597 TGGACTCATA
23607 TAAATATTATTTT
1 TAAATATTATTTT
23620 TAAATATTATTT
1 TAAATATTATTT
23632 ATTTTAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTATTTT
Found at i:24278 original size:16 final size:16
Alignment explanation
Indices: 24241--24284 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
24231 TAACAATAAT
24241 ATAATTTAAT--TAAA
1 ATAATTTAATACTAAA
24255 AT--TTTAATACTAAA
1 ATAATTTAATACTAAA
24269 ATAATTTAATACTAAA
1 ATAATTTAATACTAAA
24285 TCTTGTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.23
14 8 0.31
16 12 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTTAATACTAAA
Found at i:24593 original size:14 final size:13
Alignment explanation
Indices: 24569--24617 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
24559 TTAATAAAAT
24569 TAATATTATTATA
1 TAATATTATTATA
24582 TAATATTTATTATA
1 TAATA-TTATTATA
* * * *
24596 TTATAATAATATT
1 TAATATTATTATA
24609 TAATATTAT
1 TAATATTAT
24618 ATAATTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:24606 original size:20 final size:17
Alignment explanation
Indices: 24575--24622 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 17
24565 AAATTAATAT
24575 TATTATATAATATTTATTA
1 TATTATATAATATTTA--A
24594 TATTATAATAATATTTAA
1 TATTAT-ATAATATTTAA
24612 TATTATATAAT
1 TATTATATAAT
24623 TAAATAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 6 0.21
20 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTATATAATATTTAA
Found at i:24634 original size:23 final size:27
Alignment explanation
Indices: 24582--24643 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
24572 TATTATTATA
24582 TAATATTTATTATATTATAATAATATT
1 TAATATTTATTATATTATAATAATATT
24609 TAATA-TTA-TATAATTA-AATAA-ATT
1 TAATATTTATTAT-ATTATAATAATATT
*
24633 AAATATGTTAT
1 TAATAT-TTAT
24644 AATGATAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 7 0.23
25 8 0.27
26 10 0.33
27 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TAATATTTATTATATTATAATAATATT
Found at i:24644 original size:24 final size:25
Alignment explanation
Indices: 24583--24651 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 25
24573 ATTATTATAT
*
24583 AATATTTATTATATTATAATAATATTT
1 AATATTTA-TA-ATTATAATAATATTA
24610 AATATTATATAATTA-AATAA-ATTA
1 AATATT-TATAATTATAATAATATTA
*
24634 AATATGTTATAATGATAA
1 AATAT-TTATAATTATAA
24652 ACATTTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 15 0.41
25 8 0.22
26 4 0.11
27 8 0.22
28 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
AATATTTATAATTATAATAATATTA
Found at i:24699 original size:14 final size:14
Alignment explanation
Indices: 24663--24700 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24653 CATTTACTTA
24663 TTAATTATTATAAT
1 TTAATTATTATAAT
*
24677 TTAACTATTAT-AT
1 TTAATTATTATAAT
24690 TTAATTTATTA
1 TTAA-TTATTA
24701 ACATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTATTATAAT
Found at i:26565 original size:23 final size:24
Alignment explanation
Indices: 26539--26592 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
26529 TTAATTATAT
26539 AAATAAAT-TAGATT-TAATATTTA
1 AAATAAATATAGATTATAATA-TTA
* *
26562 AAATTAATATATATTATAATATTA
1 AAATAAATATAGATTATAATATTA
26586 AATATAA
1 AA-ATAA
26593 CTAGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAAATATAGATTATAATATTA
Found at i:26617 original size:25 final size:24
Alignment explanation
Indices: 26580--26640 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
26570 ATATATTATA
26580 ATATTAAATATAACTAGTAAAAAT
1 ATATTAAATATAACTAGTAAAAAT
* * *
26604 ATATTTAATAATAATTATTAAAATAT
1 ATATTAAAT-ATAACTAGTAAAA-AT
* *
26630 TTGTTAAATAT
1 ATATTAAATAT
26641 TTTGAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 8 0.28
25 13 0.45
26 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (24 bp):
ATATTAAATATAACTAGTAAAAAT
Done.