Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168259.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_49, 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: 171922
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
File 5 of 5
Found at i:143530 original size:21 final size:19
Alignment explanation
Indices: 143477--143530 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
143467 AATGATTAGA
143477 TAATAAAT--TTATAAAAT
1 TAATAAATAATTATAAAAT
143494 TAATAAATAATATATAATAAT
1 TAATAAATAAT-TATAA-AAT
*
143515 TATTAAATATATTATA
1 TAATAAATA-ATTATA
143531 GTTTATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 8 0.26
19 1 0.03
20 5 0.16
21 15 0.48
22 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAAATAATTATAAAAT
Found at i:143782 original size:16 final size:14
Alignment explanation
Indices: 143760--143803 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
143750 TAAAAACAAG
*
143760 TATAATAATTAATT
1 TATAATAATTAAAT
*
143774 TAAATAATATTTAAAT
1 T--ATAATAATTAAAT
143790 TATAATAATTAAAT
1 TATAATAATTAAAT
143804 AATATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATAATAATTAAAT
Found at i:143930 original size:21 final size:22
Alignment explanation
Indices: 143905--143959 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
143895 AATAAATTTG
143905 AAATAAATAGTTAT-TAATTATT
1 AAATAAATA-TTATATAATTATT
* *
143927 -AATAACTATTTTATAATTATT
1 AAATAAATATTATATAATTATT
143948 AAATAAACTATT
1 AAATAAA-TATT
143960 GTCAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 5 0.19
23 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATAAATATTATATAATTATT
Found at i:144086 original size:33 final size:34
Alignment explanation
Indices: 144047--144135 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 34
144037 ATCGATTAGT
144047 TAATAATTAATAATAATATTATATTATT-AT-TA
1 TAATAATTAATAATAATATTATATTATTAATATA
**
144079 CTAATAA-TAATCTTATATATTAT-TTATTAATATA
1 -TAATAATTAATAATA-ATATTATATTATTAATATA
*
144113 TAATAAATTAATAAT-TTATTATA
1 TAAT-AATTAATAATAATATTATA
144136 AGATTTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
32 11 0.24
33 25 0.56
34 4 0.09
35 5 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (34 bp):
TAATAATTAATAATAATATTATATTATTAATATA
Found at i:144094 original size:26 final size:26
Alignment explanation
Indices: 144054--144117 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
144044 AGTTAATAAT
144054 TAATAATAATATTATATTATTA-TTAC
1 TAATAATAATATTATA-TATTATTTAC
* *
144080 TAATAATAATCTTATATATTATTTAT
1 TAATAATAATATTATATATTATTTAC
144106 TAATATATAATA
1 TAATA-ATAATA
144118 AATTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.15
26 23 0.70
27 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATAATAATATTATATATTATTTAC
Found at i:144626 original size:10 final size:10
Alignment explanation
Indices: 144589--144635 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
144579 AATTAGTAAA
*
144589 ATAATAAATT
1 ATAATTAATT
*
144599 AT-ATTTATT
1 ATAATTAATT
*
144608 -TAATAAATT
1 ATAATTAATT
144617 ATAATTAATT
1 ATAATTAATT
144627 ATAATTAAT
1 ATAATTAAT
144636 AAAATATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
8 1 0.03
9 10 0.33
10 19 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATAATTAATT
Found at i:144862 original size:18 final size:17
Alignment explanation
Indices: 144827--144867 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
144817 TTAAGCAGCA
144827 ATTATAATTATATTAAT
1 ATTATAATTATATTAAT
144844 ATTAGTAATTA-ATTAA-
1 ATTA-TAATTATATTAAT
144860 A-TATAATT
1 ATTATAATT
144868 TAACTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 1 0.04
17 9 0.39
18 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTATAATTATATTAAT
Found at i:144870 original size:28 final size:28
Alignment explanation
Indices: 144838--144918 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
144828 TTATAATTAT
144838 ATTAA-TATTAGTAATTAATTAAATATA
1 ATTAACTATTAGTAATTAATTAAATATA
144865 ATTTAACTATT-GTTATATT-ATTAAAATATA
1 A-TTAACTATTAG-TA-ATTAATT-AAATATA
* * *
144895 A-TAATTATAATTAATTAATTAAAT
1 ATTAACTATTAGTAATTAATTAAAT
144919 TTATTAGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
27 8 0.18
28 16 0.36
29 9 0.20
30 11 0.25
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTAACTATTAGTAATTAATTAAATATA
Found at i:145366 original size:27 final size:25
Alignment explanation
Indices: 145336--145392 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
145326 ACTATTTAAA
*
145336 TATAAGTTAATATATTTATTAATATAT
1 TATAAATTAATATATTTA--AATATAT
* *
145363 TATAAATTAATGTATTTAATTATAT
1 TATAAATTAATATATTTAAATATAT
145388 TATAA
1 TATAA
145393 TAATTAATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 11 0.41
27 16 0.59
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TATAAATTAATATATTTAAATATAT
Found at i:145408 original size:27 final size:24
Alignment explanation
Indices: 145353--145408 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 24
145343 TAATATATTT
*
145353 ATTAATATATTATAAATTAATGTA
1 ATTAATATATTATAAATTAATGCA
*
145377 TTTAATTATATTATAATAATTAATGCA
1 ATTAA-TATATTAT-A-AATTAATGCA
145404 ATTAA
1 ATTAA
145409 ATTAATCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 8 0.31
26 1 0.04
27 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTAATATATTATAAATTAATGCA
Found at i:146023 original size:15 final size:16
Alignment explanation
Indices: 145992--146026 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
145982 TGTAATCTAT
145992 ATATTAATTAGTTATA
1 ATATTAATTAGTTATA
*
146008 ATATTATTTA-TTATA
1 ATATTAATTAGTTATA
146023 ATAT
1 ATAT
146027 AGATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATATTAATTAGTTATA
Found at i:147275 original size:22 final size:21
Alignment explanation
Indices: 147225--147285 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
147215 ATAATAATTA
*
147225 ATAAT-TTAAATAAAATTATT
1 ATAATATTAATTAAAATTATT
147245 A-AATA--AATTAAAATTGATT
1 ATAATATTAATTAAAATT-ATT
*
147264 ATAATATTAATTATAATATATT
1 ATAATATTAATTAAAAT-TATT
147286 GTTTGTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
18 9 0.27
19 7 0.21
20 5 0.15
22 11 0.33
23 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATATTAATTAAAATTATT
Found at i:147322 original size:14 final size:16
Alignment explanation
Indices: 147305--147337 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
147295 TATGAAATTA
147305 ATTATA-TT-AAATAT
1 ATTATATTTAAAATAT
147319 ATTATATTTAAAATAT
1 ATTATATTTAAAATAT
147335 ATT
1 ATT
147338 TTTTCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATATTTAAAATAT
Found at i:147402 original size:20 final size:19
Alignment explanation
Indices: 147355--147402 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
147345 TAAATAGTAC
147355 TAATAAAT-TGTATAAATA
1 TAATAAATATGTATAAATA
* * *
147373 TAATATATATTTATATAATT
1 TAATAAATATGTATA-AATA
147393 TAATAAATAT
1 TAATAAATAT
147403 AATTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATAAATATGTATAAATA
Found at i:147664 original size:21 final size:21
Alignment explanation
Indices: 147640--147683 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
147630 AAATATATGC
* *
147640 TATTTATTAATAGTTAGTATT
1 TATTTATTAAAAATTAGTATT
147661 TATTTATTAAAAATTAGTATT
1 TATTTATTAAAAATTAGTATT
147682 TA
1 TA
147684 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TATTTATTAAAAATTAGTATT
Found at i:147714 original size:16 final size:14
Alignment explanation
Indices: 147703--147788 Score: 56
Period size: 13 Copynumber: 6.1 Consensus size: 14
147693 TAATAATATA
147703 AATATATTATAATT
1 AATATATTATAATT
147717 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
147733 AATATATTATAAGATTT
1 AATATATTAT-A-A-TT
* *
147750 AATA-AATATAGTT
1 AATATATTATAATT
*
147763 AAT-TATTATAAAT
1 AATATATTATAATT
147776 -ATATATTA-AATT
1 AATATATTATAATT
147788 A
1 A
147789 TAATAATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
12 5 0.09
13 16 0.28
14 5 0.09
15 11 0.19
16 12 0.21
17 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:147779 original size:21 final size:21
Alignment explanation
Indices: 147733--147794 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
147723 TATATAATTT
147733 AATATAT-TATAAGATT-TAATA
1 AATATATAT-TAA-ATTATAATA
* *
147754 AATATA-GTT-AATTATTATA
1 AATATATATTAAATTATAATA
147773 AATATATATTAAATTATAATA
1 AATATATATTAAATTATAATA
147794 A
1 A
147795 TATTAACACG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 3 0.09
19 11 0.32
20 3 0.09
21 17 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
AATATATATTAAATTATAATA
Found at i:147790 original size:18 final size:16
Alignment explanation
Indices: 147767--147800 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
147757 ATAGTTAATT
147767 ATTATAAATATATATTAA
1 ATTAT-AATA-ATATTAA
147785 ATTATAATAATATTAA
1 ATTATAATAATATTAA
147801 CACGATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAATAATATTAA
Found at i:147853 original size:15 final size:15
Alignment explanation
Indices: 147835--147915 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 15
147825 ATTATAATAC
147835 AATTAAATTAATATT
1 AATTAAATTAATATT
*
147850 AATTATATTAATTATT
1 AATTAAATTAA-TATT
*
147866 AATATTTAGTATTCAATACATTT
1 -A-A-TTA-AATT-AAT--A-TT
*
147889 AATTTAATTAATATT
1 AATTAAATTAATATT
147904 AATTAAATTAAT
1 AATTAAATTAAT
147916 GTAACTATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
15 23 0.43
16 5 0.09
17 1 0.02
18 4 0.08
19 6 0.11
20 7 0.13
21 3 0.06
22 2 0.04
23 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (15 bp):
AATTAAATTAATATT
Found at i:148027 original size:15 final size:16
Alignment explanation
Indices: 148007--148044 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
147997 AAAAATATAG
*
148007 ATTAATTAT-TTTACA
1 ATTAATTATAGTTACA
148022 ATTAATTATAGTTACA
1 ATTAATTATAGTTACA
148038 A-TAATTA
1 ATTAATTA
148045 ATATTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTAATTATAGTTACA
Found at i:148088 original size:23 final size:23
Alignment explanation
Indices: 148043--148088 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
148033 TTACAATAAT
*
148043 TAATATTATAATCAATTAGGTTA
1 TAATATTATAATCAATTAAGTTA
*
148066 TAATA-TATAATTAATTTAAGTTA
1 TAATATTATAATCAA-TTAAGTTA
148089 ATTCATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (23 bp):
TAATATTATAATCAATTAAGTTA
Found at i:148536 original size:22 final size:21
Alignment explanation
Indices: 148511--148559 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
148501 TAGTTAACAA
*
148511 AATTTTATTAATATATAATATT
1 AATTTTATTAAT-TAAAATATT
148533 AATTATTATTAATTAAAATATT
1 AATT-TTATTAATTAAAATATT
148555 -ATTTT
1 AATTTT
148560 CATGATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 12 0.48
23 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTATTAATTAAAATATT
Found at i:148988 original size:21 final size:20
Alignment explanation
Indices: 148941--149001 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
148931 ATGATTTTGA
*
148941 AACTTAATTAT-TTATATAT
1 AACTTAATAATATTATATAT
*
148960 AACTTAATGATATTATATA-
1 AACTTAATAATATTATATAT
*
148979 ATACTATAATAATATTAAATAT
1 A-ACT-TAATAATATTATATAT
149001 A
1 A
149002 TGAGATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.31
20 10 0.29
21 13 0.37
22 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
AACTTAATAATATTATATAT
Found at i:149775 original size:18 final size:19
Alignment explanation
Indices: 149741--149776 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
149731 TAATAGTCAT
149741 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
149760 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
149777 TATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:151313 original size:24 final size:22
Alignment explanation
Indices: 151271--151317 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
151261 TTAATTAAAA
*
151271 TTTATATTAATAAAGATAATAT
1 TTTATATTAATAAAAATAATAT
151293 TTTATTATTAAATAAAAATAATAT
1 TTTA-TATT-AATAAAAATAATAT
151317 T
1 T
151318 GTAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 4 0.18
24 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTATATTAATAAAAATAATAT
Found at i:151512 original size:22 final size:22
Alignment explanation
Indices: 151426--151513 Score: 56
Period size: 22 Copynumber: 3.9 Consensus size: 22
151416 TTTAAGTTAT
*
151426 ATATTTATTATAACATTTAAA-TA
1 ATATTTATTAT-A-ATTAAAATTA
*
151449 ATATTAATATTA-AATTAATATTTA
1 ATATT--TATTATAATTAA-AATTA
* * *
151473 ATGA-TTATAATGACTAAAATTA
1 AT-ATTTATTATAATTAAAATTA
151495 ATATTTATTATAATTAAAA
1 ATATTTATTATAATTAAAA
151514 GAAGTTTATT
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
21 1 0.02
22 26 0.53
23 11 0.22
24 5 0.10
25 6 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATTTATTATAATTAAAATTA
Found at i:151804 original size:23 final size:22
Alignment explanation
Indices: 151773--151839 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
151763 CTAAATCTTG
*
151773 TTTAGTATTAATTATATAATTAA
1 TTTAATATTAA-TATATAATTAA
*
151796 TTTATTATTAATAGTATAATCTAA
1 TTTAATATTAATA-TATAAT-TAA
151820 TTTAATA-TAATATAATAATT
1 TTTAATATTAATAT-ATAATT
151840 GTCATAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.10
23 26 0.67
24 9 0.23
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTAATATTAATATATAATTAA
Found at i:151874 original size:25 final size:27
Alignment explanation
Indices: 151835--151884 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
151825 TATAATATAA
151835 TAATTGTCATAATTTATT-ATTATTTT
1 TAATTGTCATAATTTATTAATTATTTT
151861 TAATTGT-ATAATTTATTAATTATT
1 TAATTGTCATAATTTATTAATTATT
151885 ATTAGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (27 bp):
TAATTGTCATAATTTATTAATTATTTT
Found at i:152330 original size:3 final size:3
Alignment explanation
Indices: 152281--152312 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
152271 TAATATAATA
152281 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
152313 ATTGGTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:152633 original size:28 final size:28
Alignment explanation
Indices: 152602--152717 Score: 91
Period size: 28 Copynumber: 4.2 Consensus size: 28
152592 GTTTATGTAT
*
152602 TTAAATTATATAATTTATCAATTTAATA
1 TTAAATTATATAATTTATTAATTTAATA
**
152630 TTAAACAATATAA-TTA-TAATTTAATAA
1 TTAAATTATATAATTTATTAATTTAAT-A
* * *
152657 TT-TATTAT-TAAATTAATTAATTATAAAA
1 TTAAATTATAT-AATTTATTAATT-TAATA
*
152685 TT-AA-TATATTAATTGATTAATTTAATA
1 TTAAATTATA-TAATTTATTAATTTAATA
152712 TTAAAT
1 TTAAAT
152718 CTATTTTGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 17 0.25
28 33 0.49
29 4 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (28 bp):
TTAAATTATATAATTTATTAATTTAATA
Found at i:152650 original size:34 final size:34
Alignment explanation
Indices: 152610--152682 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
152600 ATTTAAATTA
152610 TATAATTT-ATCAATTTAATATTAAA-CAATATAAT
1 TATAATTTAAT-AATTTAATATTAAATCAAT-TAAT
* *
152644 TATAATTTAATAATTTATTATTAAATTAATTAAT
1 TATAATTTAATAATTTAATATTAAATCAATTAAT
152678 TATAA
1 TATAA
152683 AATTAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 30 0.86
35 5 0.14
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (34 bp):
TATAATTTAATAATTTAATATTAAATCAATTAAT
Found at i:152673 original size:16 final size:16
Alignment explanation
Indices: 152654--152717 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
152644 TATAATTTAA
152654 TAATTTATTATTAAAT
1 TAATTTATTATTAAAT
* *
152670 TAATTAATTATAAAAT
1 TAATTTATTATTAAAT
* *
152686 TAATATATTAATT-GAT
1 TAATTTATT-ATTAAAT
*
152702 TAATTTAATATTAAAT
1 TAATTTATTATTAAAT
152718 CTATTTTGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
15 3 0.08
16 32 0.86
17 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTATTATTAAAT
Found at i:152874 original size:21 final size:23
Alignment explanation
Indices: 152848--152914 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 23
152838 AATCTAAATT
152848 TATTAATA-AATTTATAATT-TA
1 TATTAATATAATTTATAATTATA
152869 TATTAATATAATTTTAAATAATTTATA
1 TATTAATATAA-TTT--ATAA-TTATA
*
152896 TATTATTATAATTTATAAT
1 TATTAATATAATTTATAAT
152915 AGAATATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 8 0.21
22 2 0.05
23 4 0.10
24 4 0.10
25 4 0.10
26 5 0.13
27 12 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTAATATAATTTATAATTATA
Found at i:152922 original size:27 final size:27
Alignment explanation
Indices: 152867--152936 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
152857 ATTTATAATT
*
152867 TATATTAATATAATTTTAAATAATTTA
1 TATATTAATATAATTTTAAATAATATA
* *
152894 TATATTATTATAATTTATAATAGAATATA
1 TATATTAATATAATTT-TAA-ATAATATA
* *
152923 AATA-TAGTATAATT
1 TATATTAATATAATT
152937 ATTTGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.42
28 12 0.33
29 9 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
TATATTAATATAATTTTAAATAATATA
Found at i:153165 original size:16 final size:16
Alignment explanation
Indices: 153144--153174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
153134 TATTATACTA
*
153144 AATTAATCTTAATATT
1 AATTAATATTAATATT
153160 AATTAATATTAATAT
1 AATTAATATTAATAT
153175 AACATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATATTAATATT
Found at i:153440 original size:18 final size:18
Alignment explanation
Indices: 153406--153450 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
153396 TGACTTATAA
153406 TAATATTAACATATAATAT
1 TAATATT-ACATATAATAT
*
153425 TAATATTACGTATAATAT
1 TAATATTACATATAATAT
*
153443 TCATATTA
1 TAATATTA
153451 TATTGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATATTACATATAATAT
Found at i:153750 original size:179 final size:177
Alignment explanation
Indices: 153541--154187 Score: 783
Period size: 179 Copynumber: 3.6 Consensus size: 177
153531 TATTTAATTA
* * * * *
153541 TTTTGTCATAAAACAATTGTATCAATTCATATAGGCTTTTTCAAAATAAAAT-ATTACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAATTA--AATTTA
* * * * * ** *
153605 TTAATATTCTAAAAATTAATGAGTAAGAAATTTAAAAAAGTGAATCTGTTTACTGAACAAGTTTA
64 TTAATATTCCAAAAATTAATAAGTAA-AAATTTAAAAAA-TAAATTTATTTTTTGAACAAGTTCA
153670 AATAG-TGACTATTTGAACAATTATCTATTTCAAATCA-TTATGACCTTTTG
127 AATAGTTGACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTG
* *
153720 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTC-GAATAAAATAATTAAATTAAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTA-TTCAAAATAAAATAATTAAATTTAT
* *
153784 TAATATTCCAAAATTTAATAAGTAAAAATTTAAAAAATAAATTTATTTTTTGAACATA-TTCGAA
65 TAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAATAAATTTATTTTTTGAACA-AGTTCAAA
* *
153848 TAGTTCTGACTATTTGAACAAATATTTATTTCAAATAGTTATGACCTTTTG
129 TAG-T-TGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTG
* * *
153899 TTTTGTGAT-AAACTAATTGTTTCTATCCATACAAGCTTATTCCAAATAAAATAATTAAATTTAT
1 TTTTGTCATAAAAC-AATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAATTAAATTTAT
* * *
153963 TAATATTCCAAAATTTAATAAGTAAAAATTTAAAAATTAAATTTATTTTTTGAACATGTTCAAAT
65 TAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAATAAATTTATTTTTTGAACAAGTTCAAAT
*
154028 AGATCTGACTATTTGAACAATTATCTATTTCAAATAGTTATGAACTTTTG
130 AG-T-TGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTG
* * * *
154078 TTTTG-CGATGAACCAATTGTTTCT-GTCTATATAAGCTTATTCAAAATAAAATAA-TACTAATT
1 TTTTGTC-ATAAAACAATTGTTTCTATTC-ATACAAGCTTATTCAAAATAAAATAATTA--AATT
* *
154140 TAATAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAAT-AATTTA
62 TATTAATATTCCAAAAATTAATAAGTAAAA-ATTTAAAAAATAAATTTA
154188 AATTAATATA
Statistics
Matches: 412, Mismatches: 40, Indels: 31
0.85 0.08 0.06
Matches are distributed among these distances:
176 21 0.05
177 13 0.03
178 39 0.09
179 282 0.68
180 47 0.11
181 10 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAATTAAATTTATT
AATATTCCAAAAATTAATAAGTAAAAATTTAAAAAATAAATTTATTTTTTGAACAAGTTCAAATA
GTTGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTG
Found at i:154790 original size:36 final size:36
Alignment explanation
Indices: 154750--154818 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
154740 AACTATATCT
*
154750 TAATAACA-CATTTATTATA-TAATATATAATTATATA
1 TAATAA-ATCATTTATTATACTAAT-CATAATTATATA
*
154786 TAATAAATTATTTATTATACTAATCATAATTAT
1 TAATAAATCATTTATTATACTAATCATAATTAT
154819 GATTATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.03
36 24 0.83
37 4 0.14
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (36 bp):
TAATAAATCATTTATTATACTAATCATAATTATATA
Found at i:154804 original size:17 final size:19
Alignment explanation
Indices: 154759--154809 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
154749 TTAATAACAC
154759 ATTTATTAT-ATAATATAT
1 ATTTATTATAATAATATAT
*
154777 AATTATATATAATAA-AT-T
1 ATTTAT-TATAATAATATAT
*
154795 ATTTATTATACTAAT
1 ATTTATTATAATAAT
154810 CATAATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
19 5 0.19
20 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTATTATAATAATATAT
Found at i:155359 original size:18 final size:16
Alignment explanation
Indices: 155321--155373 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
155311 GTCTGAATAC
155321 ATTTATTAAATTA-TAA
1 ATTTA-TAAATTATTAA
155337 ATTTATAAATTATTAA
1 ATTTATAAATTATTAA
*
155353 CATTTTATAATTTATATAA
1 -A-TTTATAAATTAT-TAA
155372 AT
1 AT
155374 AATAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 7 0.22
16 8 0.25
17 2 0.06
18 12 0.38
19 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTATAAATTATTAA
Found at i:155433 original size:18 final size:17
Alignment explanation
Indices: 155327--155433 Score: 56
Period size: 18 Copynumber: 5.9 Consensus size: 17
155317 ATACATTTAT
155327 TAAATTA-TAAAT-TTA
1 TAAATTATTAAATATTA
*
155342 TAAATTATTAACATTTTA
1 TAAATTATTAA-ATATTA
* *
155360 TAATTTATATAAATAATAA
1 TAAATTAT-TAAAT-ATTA
* *
155379 TAATACTATTTAAAAATTA
1 TAA-ATTA-TTAAATATTA
* * *
155398 AATAACTATTCAATTATTA
1 TA-AATTATT-AAATATTA
155417 TAAATTATTAATATATT
1 TAAATTATTAA-ATATT
155434 TTTAATTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
15 7 0.10
16 3 0.04
17 4 0.06
18 24 0.35
19 23 0.33
20 7 0.10
21 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTATTAAATATTA
Found at i:155469 original size:24 final size:24
Alignment explanation
Indices: 155420--155469 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
155410 ATTATTATAA
* * *
155420 ATTATTAATATATTTTTAATTTAT
1 ATTATTAAGATATTTATAATTAAT
155444 ATTATTAAGATA-TTATATATTAAT
1 ATTATTAAGATATTTATA-ATTAAT
155468 AT
1 AT
155470 CTTAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTATTAAGATATTTATAATTAAT
Found at i:157557 original size:180 final size:179
Alignment explanation
Indices: 155938--157567 Score: 811
Period size: 181 Copynumber: 9.1 Consensus size: 179
155928 TTTTTTAAAA
* *** * * * *
155938 ACTTATTAATTTTTGAAATATTAATAAATTTAAATTACTTTA-TTTGAAACAAGCTTGCATGAAC
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTG-AATAAGCTTGTATGAAT
** * * * ** * *
156002 AGAACCAATTGTTTAATGACAAAACAAAAAATCATAATTTTTTGAAATAGATAATTGTTCAGATA
65 AGAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATA
* * * * * * *
156067 GTTATAACTATTTGAACTT-ATTCGGTAAACATATTCTTTTTTTAATTCTTTT
130 GTT-TAATTATTTGAA-TTGGTTCAGTAAACAGATT-ATTTTTTAAATCTCTT
* * * * * * * ** *
156119 ACTCATTAA-TTTTCAGAATATTAGT-GAATTAGTCTTATCTTACTTCAAATAAGCTTATATGAA
1 ACTTATTAATTTTTGA-AATATTAATAG-ATTCGTATTATTTTATTTTGAATAAGCTTGTATGAA
* * * * * * * * *
156182 TTGAAACAAGTGTTTTATTACAAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
64 TAGAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAAT
* * * * * * *
156247 A-TTCATGACTATTTGAACTTGTTTAATTAATATA-TTTATTTTTTAAATCT-TAT
129 AGTT--TAATTATTTGAA-TTGGTTCAGTAA-ACAGATTATTTTTTAAATCTCT-T
* ** * * * * ** * *
156300 ACTTATTAATTCTCAAAATATTTATAAATTCATATTATTTTAATTCAAATAAACTTGTATGAACA
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* ** ** ** * * * *
156365 AAAATAATTGTTTTATGATGAAACAAAAAGTCCTAACAAGTTGAGATAAATAATTGCTCAAATAG
66 GAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
** * * * *
156430 CCATAATGATTTGAACTT-GTTTAGTAAATAGATTTATTTTTTAAATCTTTT
131 -TTTAATTATTTGAA-TTGGTTCAGTAAACAGA-TTATTTTTTAAATCTCTT
* *** * *
156481 ACTTATTAATTGTCTT--AATATTAATAAATAATTATTATTTTA-TTCGAAATAAACTTAG-ATG
1 ACTTATTAATT-T-TTGAAATATTAATAGATTCGTATTATTTTATTTTG-AATAAGCTT-GTATG
* * * * * * * * * * *
156542 AACAAAAAAAAAATTCTTTTATGAC-AAACAAAAGGTTATAGCT-ATTTCAAACAGATAATTATT
62 -A-ATAGAAATAATTGTTTTATGACAAAACAAAAAGTAATA-ATGATTTGAAATATATAATTGTT
* * * * * * * * * *
156605 TAAACAGTCCTAATTATTTAAATTTGTTTAGAAAACAGAGTCATTTTTTAAATTTGTTT
124 CAAATAGT-TTAATTATTTGAATTGGTTCAGTAAACAGA-TTATTTTTTAAATCT-CTT
* * * * * * * *
156664 A-TTATAAATTTTTGGATTATTAATAAATTAGTATTATTTTATTTTGAATAAGTTTATATGAATT
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* * * * * * * * *
156728 GAGACAATTCTTTTATGACAAAGC-AAAAG-----GTCA-TTGAAATAAATAATTATTCAAATTG
66 GAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
*** * * * * * *
156786 TCGCGATTATTTG-ATCTAGTGT-GGTAAACATATTTATTTTTAAAATTTTTT
131 T-TTAATTATTTGAAT-TGGT-TCAGTAAACAGA-TTATTTTTTAAATCTCTT
* ** * * * * *** *
156837 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATA
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* * * * * * **
156902 GAAACAATTGTTTTATAACAAAACAAAAAATTATAACGATTTGAAATAAATAATTACTCAAATAG
66 GAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
* * * * * *
156967 TCATAACTT-TTTGAATTAGTT-TGATACATAGATTTATTTTGTAAA--TC--
131 T-TTAA-TTATTTGAATTGGTTCAG-TAAACAGA-TTATTTTTTAAATCTCTT
* * * * * * *
157014 ACTTATTAACTTTTGAAATATTAATAGATTAGTATTACTTTATTATGAATAAACTTATATGAACA
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* *
157079 AAAATATTTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
66 GAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
*
157144 --T--TT-TTTGAATTGGTT-AGGTAAATAGAATTATTTTTTAAATCTCTT
131 TTTAATTATTTGAATTGGTTCA-GTAAACAG-ATTATTTTTTAAATCTCTT
* * * * * * *
157189 ATTTATTAATTTTTGAAATATTAACAAATTCATTTTATTTTATTTTGAATAAGCTAGTATGAATT
1 ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
* * * * * * * * *
157254 GAGAA-AATTGTTTGATGACAAGA-TAAAGGTCATAAAGATTTGAATTAGATAATTGTTCATATA
66 GA-AATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATA
* * * * *
157317 GTCTTAACTATTTGAATTGGTTCGGCAAACAAAATTATTTTTTAAATCCCTT
130 GT-TTAATTATTTGAATTGGTTCAGTAAAC-AGATTATTTTTTAAATCTCTT
* * *
157369 AGTTATTAATTTTTTG-AATATTATTAGATTCGTATTGTTTTATTTTGAATAAGCTTGTATGAAT
1 ACTTATTAA-TTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAAT
* * * * * * *
157433 AGAAATAATTATTTTATGGCAAAACAAAATGTTATAATGATATGAAGTATAGAATTGTTCAAATA
65 AGAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATA
* * *
157498 GTTATAATTATTTAAACTGGTTCAGTAAACAGATTCATTTTTTAGA-CTCTT
130 GTT-TAATTATTTGAATTGGTTCAGTAAACAGATT-ATTTTTTAAATCTCTT
*
157549 ACTTATTAATTTTTTAAAT
1 ACTTATTAATTTTTGAAAT
157568 TGTTAATTGT
Statistics
Matches: 1113, Mismatches: 272, Indels: 129
0.74 0.18 0.09
Matches are distributed among these distances:
171 30 0.03
172 2 0.00
173 8 0.01
174 155 0.14
175 73 0.07
176 2 0.00
177 106 0.10
179 12 0.01
180 162 0.15
181 410 0.37
182 125 0.11
183 28 0.03
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (179 bp):
ACTTATTAATTTTTGAAATATTAATAGATTCGTATTATTTTATTTTGAATAAGCTTGTATGAATA
GAAATAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAG
TTTAATTATTTGAATTGGTTCAGTAAACAGATTATTTTTTAAATCTCTT
Found at i:157742 original size:25 final size:24
Alignment explanation
Indices: 157708--157776 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
157698 GCTAATTATA
* *
157708 ATAATTTTATATTAAATATATAATT
1 ATAAATTTATATTAAATAAAT-ATT
157733 ATAAATTTATATTTATTAATAAATATT
1 ATAAATTTATA-TTA--AATAAATATT
*
157760 ATAAATATAATATTAAA
1 ATAAAT-TTATATTAAA
157777 ATAATTATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 12 0.32
26 3 0.08
27 12 0.32
28 10 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAAATTTATATTAAATAAATATT
Found at i:157771 original size:14 final size:14
Alignment explanation
Indices: 157720--157779 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
157710 AATTTTATAT
157720 TAAATAT-ATAATTA
1 TAAATATAAT-ATTA
*
157734 TAAAT-TTATATTTA
1 TAAATATAATA-TTA
*
157748 TTAATA-AATATTA
1 TAAATATAATATTA
157761 TAAATATAATATTA
1 TAAATATAATATTA
157775 -AAATA
1 TAAATA
157780 ATTATCTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 15 0.38
14 24 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATATAATATTA
Found at i:158247 original size:21 final size:21
Alignment explanation
Indices: 158213--158267 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
158203 ACATAACATA
*
158213 ATAA-AATATATTATTATATTT
1 ATAATAATA-ATTATTATATAT
*
158234 ATATTAATAATTATTATATAT
1 ATAATAATAATTATTATATAT
158255 ATAATAATAATTA
1 ATAATAATAATTA
158268 ACTGACATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATAATAATTATTATATAT
Found at i:158331 original size:20 final size:18
Alignment explanation
Indices: 158294--158333 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
158284 ATTAATAAAA
*
158294 AATTTAAATATTAATTAT
1 AATTTAAATATAAATTAT
158312 AATTTATAATAATAAATTAT
1 AATTTA-AAT-ATAAATTAT
158332 AA
1 AA
158334 ATAATCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTAAATATAAATTAT
Found at i:158389 original size:26 final size:28
Alignment explanation
Indices: 158359--158420 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
158349 ATGCATTGAT
*
158359 ATAATTAGTTAGT-TTAA-ATTAATAAA
1 ATAATTAATTAGTATTAATATTAATAAA
* *
158385 ATAATTAATTATTATTAATTTTTAATAAA
1 ATAATTAATTAGTATTAA-TATTAATAAA
158414 ATAATTA
1 ATAATTA
158421 TTATTAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 11 0.37
27 4 0.13
29 15 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
ATAATTAATTAGTATTAATATTAATAAA
Found at i:158644 original size:27 final size:27
Alignment explanation
Indices: 158614--158680 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
158604 ATCATATAAA
* *
158614 TATTTA-TAAATTAGTAATTATACTATT
1 TATTTATTAAATAAGT-ATAATACTATT
*
158641 TATTTATTAAATAAGTATAATACTAAT
1 TATTTATTAAATAAGTATAATACTATT
* *
158668 TAATAATTAAATA
1 TATTTATTAAATA
158681 TTATTGTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 26 0.76
28 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
TATTTATTAAATAAGTATAATACTATT
Found at i:158791 original size:17 final size:18
Alignment explanation
Indices: 158769--158802 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
158759 TATTTAATAA
158769 ATAATATAAT-AATAATT
1 ATAATATAATAAATAATT
158786 ATAATATAATAAATAAT
1 ATAATATAATAAATAAT
158803 GTAACATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATATAATAAATAATT
Found at i:158913 original size:24 final size:24
Alignment explanation
Indices: 158886--158936 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
158876 TTTATTTTAT
*
158886 ATTATAAATAATTTTTAATTAATA
1 ATTATAAATAATATTTAATTAATA
* * *
158910 ATTATTAGTAATATTTAATTACTA
1 ATTATAAATAATATTTAATTAATA
158934 ATT
1 ATT
158937 TAGATAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTATAAATAATATTTAATTAATA
Found at i:159199 original size:181 final size:180
Alignment explanation
Indices: 158985--159833 Score: 773
Period size: 181 Copynumber: 4.7 Consensus size: 180
158975 ATTTATTCGA
* * * *
158985 TAAACAGATTTATTTTTTTAAATCTCATGCTTATTAATTTTTTGAATGTTAATAAATTAATATTA
1 TAAATAGATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTTGAATATTAATAAATTAATATTA
* * * * * *
159050 ATTTATTCTAAATAAGCTTGTATGAATTGAAATAATTGTTTTGTGACTAAACAAAAGGTCA-AAA
65 TTTTATTCTAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAA
* * * * * * *
159114 TGATCTGAAATAGATAATTATCCTAATAGTCTTAACTATTTGAACTGGTTCGG
130 T-ATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTCAG
* * * * * * * *
159167 CAAACACATTTATTTTTTAAATCTCTTGCTTATGAATTTTTGGAATATTATTAAATTAGTATTAT
1 TAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTTGAATATTAATAAATTAATATTAT
* * * * * *
159232 TTTAATATGAATAAGCTTATATGAAAAGAAACAATTGTTTTATGACAAAATAAAA-ATCATAACA
66 TTTATTCTAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAA-A
* *
159296 -ATTTGATATAAATAATTGTTCAAATAGTCATAACTATTTGAACTGTTCTGG
130 TATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTGTTC-AG
* * ** * **
159347 TAAATAAATTTAGTTTTTAAA--TC-T-CTTATTAATTTTTAAAATATTAATAGACCAATATTAT
1 TAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTTGAATATTAATAAATTAATATTAT
* * ** * * * * *
159408 TTTATTTTGAATAATTTTGCATGAACAGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACT
66 TTTATTCTAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAAT
* * * * *
159473 ATTTGAAATAGATAATTGTTCAAATAGACATGACTATTTGGACTTATTCAG
131 ATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAAC-TGTTCAG
* * * * ** *
159524 TAAATAGATTTATTTTTTAAATCCCTTACCTACTAA-CTTTCAAAGTATTAATCAATTAATATTA
1 TAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTTGAA-TATTAATAAATTAATATTA
* * * * *
159588 TTTTATTCCAAACAAACTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAAC
65 TTTTATTCTAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAA
* * * * * * *
159653 TATTTGAAATAAAAAATTGTTCAAACAATCATAACGATTTGAATTAGCTCAA
130 TATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACT-GTTCAG
* * * * *
159705 TAAATAGATTTATTTTTAAAATTTTTTACTTATTAA-TTTTTGAAATTTTAATAAATTAGTATTA
1 TAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTTG-AATATTAATAAATTAATATTA
* * * * * * *
159769 TTTTATT-TCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGATAAAACAAAGGGTCATAA
65 TTTTATTCT-AAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAA
159833 A
129 A
159834 AACATATTTA
Statistics
Matches: 539, Mismatches: 114, Indels: 29
0.79 0.17 0.04
Matches are distributed among these distances:
176 76 0.14
177 65 0.12
178 6 0.01
179 5 0.01
180 67 0.12
181 307 0.57
182 13 0.02
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (180 bp):
TAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTTGAATATTAATAAATTAATATTAT
TTTATTCTAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAAT
ATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTGTTCAG
Found at i:159871 original size:126 final size:127
Alignment explanation
Indices: 159712--159958 Score: 347
Period size: 126 Copynumber: 2.0 Consensus size: 127
159702 CAATAAATAG
*
159712 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATTTTAATAAA-TTAGTATTATTTTATT
1 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTTA-TATTATTTTA-T
* * * * *
159776 TC-AAATATGCTTGTATGAACAAAAACAATTGGTTTATGATAAAACAAAGGGTCATAAAAACAT
64 TCAAAATAAGCTTGTATGAACAAAAACAAATGGTTTAGGACAAAACAAAAGGTCATAAAAACAT
*
159839 ATTTATTTTTTAAA-TTTTTACTTATTAATTTTTGAAATATTAATAAATTTATATTATTTTATTC
1 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTTATATTATTTTATTC
* * * * *
159903 AAAATAAGCTTGTTTGAATAGAAACAAATGTTTTAGGACAAAACAAAATGTCATAA
66 AAAATAAGCTTGTATGAACAAAAACAAATGGTTTAGGACAAAACAAAAGGTCATAA
159959 CAATTTGTAA
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
125 3 0.03
126 87 0.82
127 16 0.15
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (127 bp):
ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTTATATTATTTTATTC
AAAATAAGCTTGTATGAACAAAAACAAATGGTTTAGGACAAAACAAAAGGTCATAAAAACAT
Found at i:160180 original size:139 final size:137
Alignment explanation
Indices: 160006--160264 Score: 360
Period size: 139 Copynumber: 1.9 Consensus size: 137
159996 ATTTAAATTT
* *
160006 GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTATTAATTTTAAGAATATTAATT-GATTAGT
1 GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTACTAATTTTAAGAATATT-ATTAAATTAGT
* * *
160070 ATTATTTTATTTTGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAATCTAACTAT
65 ATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAATCTAACTAT
160134 TTTCAACTG
129 TTTCAACTG
* * ** *
160143 GTTTGGTAAACAAATTTATTTTTTAAATGTCTTACTTACTAATTTTTGGGATATTATTAAATTAG
1 GTTTGGTAAAC-AATTT-TTTTTTAAATCTCTAACTTACTAATTTTAAGAATATTATTAAATTAG
* *
160208 TATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGATAAAAT
64 TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAAT
160265 AAAAATCATA
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
137 11 0.10
138 8 0.08
139 85 0.80
140 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (137 bp):
GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTACTAATTTTAAGAATATTATTAAATTAGTA
TTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAATCTAACTATTT
TCAACTG
Found at i:161555 original size:11 final size:11
Alignment explanation
Indices: 161541--161590 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
161531 ATATTAAATT
*
161541 TATTTTAATAA
1 TATTATAATAA
161552 TATTATAATAA
1 TATTATAATAA
*
161563 TAATA-ATATAA
1 TATTATA-ATAA
161574 TATATATAATAA
1 TAT-TATAATAA
161586 T-TTAT
1 TATTAT
161591 GGTTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.12
11 21 0.64
12 7 0.21
13 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTATAATAA
Found at i:161563 original size:14 final size:14
Alignment explanation
Indices: 161546--161584 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
161536 AAATTTATTT
*
161546 TAATAATATTATAA
1 TAATAATAATATAA
161560 TAATAATAATATAA
1 TAATAATAATATAA
161574 T-ATATATAATA
1 TAATA-ATAATA
161585 ATTTATGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:161568 original size:17 final size:17
Alignment explanation
Indices: 161546--161590 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
161536 AAATTTATTT
161546 TAATAATATTATA-ATAA
1 TAATAATATTATATAT-A
*
161563 TAATAATATAATATATA
1 TAATAATATTATATATA
161580 TAATAAT-TTAT
1 TAATAATATTAT
161591 GGTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 20 0.80
18 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATATTATATATA
Found at i:162190 original size:33 final size:33
Alignment explanation
Indices: 162151--162215 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
162141 AATTAGTTTA
* *
162151 TATAATTAATAATAC-ATAATTAATTATTAATAG
1 TATAATTAAT-ATACTATAACTAATAATTAATAG
162184 TATAATTAATATACTATAACTAATAATTAATA
1 TATAATTAATATACTATAACTAATAATTAATA
162216 ATTATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (33 bp):
TATAATTAATATACTATAACTAATAATTAATAG
Found at i:162209 original size:47 final size:46
Alignment explanation
Indices: 162137--162228 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
162127 AAATTATATT
* * *
162137 GTATAATTAGTTTATATAATTAATAA-TACATAATTAATTATTAATA
1 GTATAATTAATATATATAACTAATAATTA-ATAATTAATTATTAATA
*
162183 GTATAATTAATATACTATAACTAATAATTAATAATTATTTATTAAT
1 GTATAATTAATATA-TATAACTAATAATTAATAATTAATTATTAAT
162229 TAATAATAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 12 0.30
47 26 0.65
48 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
GTATAATTAATATATATAACTAATAATTAATAATTAATTATTAATA
Found at i:162214 original size:7 final size:7
Alignment explanation
Indices: 162152--162235 Score: 56
Period size: 7 Copynumber: 12.7 Consensus size: 7
162142 ATTAGTTTAT
162152 ATAATTA
1 ATAATTA
162159 ATAA-TA
1 ATAATTA
162165 CATAATTA
1 -ATAATTA
*
162173 ATTATTA
1 ATAATTA
*
162180 AT-AGT-
1 ATAATTA
162185 ATAATTA
1 ATAATTA
*
162192 ATATACT-
1 ATA-ATTA
*
162199 ATAACTA
1 ATAATTA
162206 ATAATTA
1 ATAATTA
162213 ATAATT-
1 ATAATTA
162219 AT--TTA
1 ATAATTA
*
162224 TTAATTA
1 ATAATTA
162231 ATAAT
1 ATAAT
162236 AACAAATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
4 2 0.03
5 3 0.05
6 11 0.18
7 41 0.67
8 4 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (7 bp):
ATAATTA
Found at i:162467 original size:25 final size:27
Alignment explanation
Indices: 162412--162472 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
162402 ATAACAGGAT
162412 TAATAATATTATTTAATATTTAATTAAA
1 TAATAATATTATTTAATATTTAATT-AA
162440 TAATAATATTA-TTAAT-TTTATATT-A
1 TAATAATATTATTTAATATTTA-ATTAA
162465 TAAATAAT
1 T-AATAAT
162473 TATAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.06
26 10 0.32
27 8 0.26
28 11 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAATATTATTTAATATTTAATTAA
Found at i:162474 original size:37 final size:37
Alignment explanation
Indices: 162432--162547 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 37
162422 ATTTAATATT
162432 TAATTAAATAATAATATTATTAATTTTATATTATAAA
1 TAATTAAATAATAATATTATTAATTTTATATTATAAA
* * *
162469 TAATT--ATAATAATATTCTAATAATTTTATAATATACAG
1 TAATTAAATAATAATA-T-TATTAATTTTATATTATA-AA
* * * *
162507 T-TTTATATAATTA-ATTATTTA-TTTATATTATAAA
1 TAATTAAATAATAATATTATTAATTTTATATTATAAA
*
162541 AAATTAA
1 TAATTAA
162548 TTTAAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
34 1 0.02
35 22 0.36
36 5 0.08
37 24 0.39
38 3 0.05
39 6 0.10
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (37 bp):
TAATTAAATAATAATATTATTAATTTTATATTATAAA
Found at i:162478 original size:32 final size:31
Alignment explanation
Indices: 162412--162484 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
162402 ATAACAGGAT
*
162412 TAATAATATTATTTAATATTTAATTAAATAA
1 TAATAATATTATTTAATATTTAAATAAATAA
* * *
162443 TAATATTATTAATTTTATATTATAAAT-AATTA
1 TAATAATATT-ATTTAATATT-TAAATAAATAA
162475 TAATAATATT
1 TAATAATATT
162485 CTAATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 9 0.26
32 22 0.63
33 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATAATATTATTTAATATTTAAATAAATAA
Found at i:162484 original size:35 final size:35
Alignment explanation
Indices: 162439--162546 Score: 96
Period size: 35 Copynumber: 3.0 Consensus size: 35
162429 ATTTAATTAA
162439 ATAATAATATTATTAATTTTATATTATAAATAATT
1 ATAATAATATTATTAATTTTATATTATAAATAATT
* * * *
162474 ATAATAATATTCTAATAATTTTATAATATACAGT-TTT
1 ATAATAATA-T-TATTAATTTTATATTATA-AATAATT
* *
162511 AT-ATAATTAATTATTTA-TTTATATTATAAAAAATT
1 ATAATAA-T-ATTATTAATTTTATATTATAAATAATT
162546 A
1 A
162547 ATTTAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
34 1 0.02
35 22 0.39
36 9 0.16
37 22 0.39
38 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (35 bp):
ATAATAATATTATTAATTTTATATTATAAATAATT
Found at i:162500 original size:11 final size:11
Alignment explanation
Indices: 162412--162501 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
162402 ATAACAGGAT
162412 TAATAATATTA
1 TAATAATATTA
*
162423 T-TTAATATT-
1 TAATAATATTA
*
162432 TAAT--TA-AA
1 TAATAATATTA
162440 TAATAATATTA
1 TAATAATATTA
*
162451 T--TAATTTTA
1 TAATAATATTA
162460 TATTATAAATAATTA
1 TA--AT-AAT-ATTA
*
162475 TAATAATATTC
1 TAATAATATTA
*
162486 TAATAATTTTA
1 TAATAATATTA
162497 TAATA
1 TAATA
162502 TACAGTTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
8 6 0.10
9 9 0.15
10 10 0.17
11 20 0.34
12 3 0.05
13 3 0.05
14 3 0.05
15 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATAATATTA
Found at i:162615 original size:23 final size:23
Alignment explanation
Indices: 162580--162635 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
162570 AATTTTTGAC
162580 TATTATATAATATAATTATCATTAT
1 TATTA-AT-ATATAATTATCATTAT
* *
162605 TATTAATATATACTTATTATTAT
1 TATTAATATATAATTATCATTAT
*
162628 TATAAATA
1 TATTAATA
162636 ATTTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.75
24 2 0.07
25 5 0.18
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAATATATAATTATCATTAT
Found at i:162839 original size:26 final size:26
Alignment explanation
Indices: 162760--162839 Score: 60
Period size: 26 Copynumber: 3.0 Consensus size: 26
162750 AAGTATTATC
162760 TTATATATTAAGT-ATATTAAATTAATTTA
1 TTATATA-TAA-TAATATTAAA--AATTTA
* * *
162789 TTAT-TA-AATAATAAGTATATA-TTA
1 TTATATATAATAAT-ATTAAAAATTTA
162813 TTATATATAATAATATTAAAAATTTA
1 TTATATATAATAATATTAAAAATTTA
162839 T
1 T
162840 ATTAATATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
24 7 0.17
25 9 0.22
26 14 0.35
27 4 0.10
28 2 0.05
29 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TTATATATAATAATATTAAAAATTTA
Found at i:162882 original size:11 final size:11
Alignment explanation
Indices: 162864--162892 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
162854 ATATAACAAT
162864 TATT-TATTAA
1 TATTATATTAA
162874 TATTATATTAA
1 TATTATATTAA
162885 TATTATAT
1 TATTATAT
162893 ACTAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATATTAA
Found at i:163163 original size:20 final size:19
Alignment explanation
Indices: 163112--163175 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
163102 AAATATTAGT
*
163112 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
163130 TA-TATCAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
163151 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
163171 TATTA
1 TATTA
163176 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:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:163299 original size:20 final size:19
Alignment explanation
Indices: 163276--163314 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
163266 TTTATATTAC
163276 TTATTAATAATAAATATTTA
1 TTATTAATAATAAAT-TTTA
* *
163296 TTATTTATTATAAATTTTA
1 TTATTAATAATAAATTTTA
163315 ATTTATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTAATAATAAATTTTA
Found at i:163320 original size:17 final size:17
Alignment explanation
Indices: 163294--163333 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
163284 AATAAATATT
*
163294 TATT-ATTTATTATAAA
1 TATTAATTTATCATAAA
*
163310 TTTTAATTTATCATAAA
1 TATTAATTTATCATAAA
163327 TATTAAT
1 TATTAAT
163334 AATTACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAATTTATCATAAA
Found at i:163413 original size:18 final size:19
Alignment explanation
Indices: 163392--163434 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
163382 TTAAACTAAA
* *
163392 AATAATTAAT-ATTTTTTT
1 AATAATTAATAACTTTATT
163410 AAT-ATTAATAACTTTATT
1 AATAATTAATAACTTTATT
163428 AATAATT
1 AATAATT
163435 TCTATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAATTAATAACTTTATT
Found at i:164982 original size:23 final size:23
Alignment explanation
Indices: 164956--165000 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
164946 AACTAATAAG
164956 TAATATTA-ATGATTATATAATTA
1 TAATATTATATGATTAT-TAATTA
*
164979 TAATATTATTTGATTATTAATT
1 TAATATTATATGATTATTAATT
165001 TAAGGTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TAATATTATATGATTATTAATTA
Found at i:165233 original size:26 final size:24
Alignment explanation
Indices: 165198--165247 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
165188 AATATTATTA
165198 ATTTAATATAATAGATTTGTTATAAT
1 ATTTAATATAAT-GA-TTGTTATAAT
* *
165224 ATTTAGTATAATTATTGTTATAAT
1 ATTTAATATAATGATTGTTATAAT
165248 TAATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAATATAATGATTGTTATAAT
Found at i:165241 original size:24 final size:24
Alignment explanation
Indices: 165214--165280 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
165204 TATAATAGAT
*
165214 TTGTTATAA-TATTTAGTATAATTA
1 TTGTTATAATTAATTA-TATAATTA
165238 TTGTTATAATTAATTATATAATTA
1 TTGTTATAATTAATTATATAATTA
*
165262 TTAATT-TAAATTAATTATA
1 TT-GTTAT-AATTAATTATA
165281 ATTATAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
TTGTTATAATTAATTATATAATTA
Found at i:165282 original size:6 final size:6
Alignment explanation
Indices: 165230--165296 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
165220 TAATATTTAG
** * *
165230 TATAAT TATTGT TATAAT TA-ATT ATATAAT TATTAAT T-TAAA T-TAAT
1 TATAAT TATAAT TATAAT TATAAT -TATAAT TA-TAAT TATAAT TATAAT
165277 TATAAT TATAAT TATTAAT T
1 TATAAT TATAAT TA-TAAT T
165297 TAACTAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
5 10 0.21
6 26 0.54
7 12 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (6 bp):
TATAAT
Found at i:165304 original size:16 final size:15
Alignment explanation
Indices: 165246--165305 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
165236 TATTGTTATA
165246 ATTAA-TTATATAATT
1 ATTAATTTA-ATAATT
165261 ATTAATTTAAATTAATT
1 ATTAATTT-AA-TAATT
165278 A-TAA-TT-ATAATT
1 ATTAATTTAATAATT
165290 ATTAATTTAACTAATT
1 ATTAATTTAA-TAATT
165306 TAACTAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 6 0.16
13 4 0.11
14 2 0.05
15 8 0.21
16 11 0.29
17 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTAATTTAATAATT
Found at i:165770 original size:17 final size:18
Alignment explanation
Indices: 165738--165771 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
165728 TTATTATTAA
*
165738 TAAATATAATTAATAATT
1 TAAATATAAATAATAATT
165756 TAAAT-TAAATAATAAT
1 TAAATATAAATAATAAT
165772 AATTTGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATAAATAATAATT
Found at i:166593 original size:27 final size:27
Alignment explanation
Indices: 166560--166619 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
166550 AAATTATAAA
*
166560 TAATAAT-AATTATTTTAATGAATATTT
1 TAATAATCAATT-TATTAATGAATATTT
* *
166587 TAATAATCAATTTATTAATTATTATTT
1 TAATAATCAATTTATTAATGAATATTT
166614 TAATAA
1 TAATAA
166620 ATTAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TAATAATCAATTTATTAATGAATATTT
Found at i:166616 original size:12 final size:12
Alignment explanation
Indices: 166563--166619 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
166553 TTATAAATAA
166563 TAATAATTATTT
1 TAATAATTATTT
166575 TAATGAA-TATTT
1 TAAT-AATTATTT
*
166587 TAATAATCAATTTAT
1 TAATAAT-TA-TT-T
*
166602 TAATTATTATTT
1 TAATAATTATTT
166614 TAATAA
1 TAATAA
166620 ATTAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
11 2 0.06
12 19 0.53
13 5 0.14
14 3 0.08
15 7 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (12 bp):
TAATAATTATTT
Found at i:167498 original size:21 final size:22
Alignment explanation
Indices: 167460--167504 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
167450 AACAAATATC
*
167460 ATTACTTAACTATTTTATATTA
1 ATTACTTAACTATTTTATAATA
167482 ATTAC-TAA-TATTATTATAATA
1 ATTACTTAACTATT-TTATAATA
167503 AT
1 AT
167505 AAATTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTACTTAACTATTTTATAATA
Found at i:167747 original size:13 final size:13
Alignment explanation
Indices: 167729--167753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167719 TAAGAATTAA
167729 AAATTTTTAATTC
1 AAATTTTTAATTC
167742 AAATTTTTAATT
1 AAATTTTTAATT
167754 TTTATAATTT
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:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTTTAATTC
Found at i:167804 original size:19 final size:20
Alignment explanation
Indices: 167780--167817 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
167770 CGATATTCAT
167780 TAATAA-ATAAGTTATGAAA
1 TAATAATATAAGTTATGAAA
*
167799 TAATAATATAATTTATGAA
1 TAATAATATAAGTTATGAA
167818 TTTTGTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
TAATAATATAAGTTATGAAA
Found at i:167875 original size:15 final size:16
Alignment explanation
Indices: 167857--167887 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
167847 TAAATATTTT
167857 AATTATTGATT-AATA
1 AATTATTGATTCAATA
167872 AATTATTGATTCAATA
1 AATTATTGATTCAATA
167888 GACTATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:168040 original size:23 final size:23
Alignment explanation
Indices: 167981--168041 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
167971 TTCATTACAC
* *
167981 AATTTGTATTATTATAAATTAAT
1 AATTTATATTATTATAAATAAAT
168004 -A-TTATACTTAATTATAAATAAAT
1 AATTTATA-TT-ATTATAAATAAAT
168027 AATTTATATTATTAT
1 AATTTATATTATTAT
168042 TTAATCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 4 0.12
22 3 0.09
23 17 0.53
24 3 0.09
25 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTATATTATTATAAATAAAT
Found at i:168821 original size:16 final size:17
Alignment explanation
Indices: 168792--168844 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
168782 TTATACTCAA
168792 TATTATATAAATTAAAT
1 TATTATATAAATTAAAT
* *
168809 TATT-TATACATTATAT
1 TATTATATAAATTAAAT
* * *
168825 TAGTATAAAAATTATAT
1 TATTATATAAATTAAAT
168842 TAT
1 TAT
168845 ACAAATAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTATATAAATTAAAT
Found at i:168952 original size:17 final size:17
Alignment explanation
Indices: 168930--168992 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
168920 TAATTTAATT
*
168930 ATAATTAAATATTTATC
1 ATAATTAAATATTTATA
* *
168947 ATAATTAAATACTTATTT
1 ATAATTAAATATTTA-TA
168965 ATAATATAAATATATTATA
1 ATAAT-TAAATAT-TTATA
168984 ATTAATTAA
1 A-TAATTAA
168993 TAAATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
17 14 0.37
18 6 0.16
19 11 0.29
20 7 0.18
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTAAATATTTATA
Found at i:169265 original size:31 final size:31
Alignment explanation
Indices: 169229--169290 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
169219 ATAATTAAAA
*
169229 TTATTACTATTAGTT-ATATT-TTGACTATTAT
1 TTATTACTA-TAATTAATATTATT-ACTATTAT
*
169260 TTATTATTATAATTAATATTATTACTATTAT
1 TTATTACTATAATTAATATTATTACTATTAT
169291 AATAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.15
31 21 0.78
32 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTACTATAATTAATATTATTACTATTAT
Found at i:169290 original size:21 final size:20
Alignment explanation
Indices: 169254--169311 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
169244 ATATTTTGAC
*
169254 TATTATTTATTATTATAATTAA
1 TATTA-TTAATATTATAA-TAA
*
169276 TATTATTACTATTATAATAA
1 TATTATTAATATTATAATAA
*
169296 TAATTAATAATATTAT
1 T-ATTATTAATATTAT
169312 TATTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 23 0.72
22 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATTAATATTATAATAA
Found at i:169359 original size:19 final size:18
Alignment explanation
Indices: 169332--169381 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
169322 AACTAAGAAT
169332 TTATAATTAAATTATTAA
1 TTATAATTAAATTATTAA
169350 TTATATATTAAATTATTAAAA
1 TTATA-ATTAAATTATT--AA
169371 TTA-AATTAAAT
1 TTATAATTAAAT
169382 CTCTTACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.17
19 18 0.62
20 1 0.03
21 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATAATTAAATTATTAA
Found at i:169788 original size:20 final size:19
Alignment explanation
Indices: 169741--169788 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
169731 TAAATAGTAC
169741 TAATAAAT-TGTATAAATA
1 TAATAAATATGTATAAATA
* * *
169759 TAATATATATTTATATAATT
1 TAATAAATATGTATA-AATA
169779 TAATAAATAT
1 TAATAAATAT
169789 AATTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATAAATATGTATAAATA
Found at i:170868 original size:26 final size:27
Alignment explanation
Indices: 170825--170876 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
170815 ACAAAATTTT
*
170825 ATTAATATATAATATTAATTATTATTA
1 ATTAATATATAATATTAATGATTATTA
* *
170852 ATTAA-ATATTATTTTAATGATTATT
1 ATTAATATATAATATTAATGATTATT
170877 TAATAAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTAATATATAATATTAATGATTATTA
Found at i:171265 original size:18 final size:19
Alignment explanation
Indices: 171242--171278 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
171232 AATGATTGGA
171242 AACTTAAT-TATTATATAC
1 AACTTAATATATTATATAC
171260 AACTTAATGATATTATATA
1 AACTTAAT-ATATTATATA
171279 ATACTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (19 bp):
AACTTAATATATTATATAC
Found at i:171749 original size:8 final size:9
Alignment explanation
Indices: 171730--171754 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
171720 TATACAAGAT
171730 AAAAATTAA
1 AAAAATTAA
171739 AAAAATTAA
1 AAAAATTAA
171748 AAAAATT
1 AAAAATT
171755 TTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Done.