Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168448.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_66, 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: 135078
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
File 4 of 4
Found at i:105834 original size:14 final size:16
Alignment explanation
Indices: 105810--105843 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
105800 TTTTAATTAC
105810 TTAATCAATTATT-TA
1 TTAATCAATTATTATA
105825 TTAA-CAATTATTATA
1 TTAATCAATTATTATA
105840 TTAA
1 TTAA
105844 AAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATCAATTATTATA
Found at i:106254 original size:17 final size:14
Alignment explanation
Indices: 106231--106274 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
106221 TATAAATAAT
106231 TATTAATTATGATAAA
1 TATTAATTAT--TAAA
106247 TAATTAATTATTAAA
1 T-ATTAATTATTAAA
106262 TATTAATATATTA
1 TATTAAT-TATTA
106275 TTTGAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.23
15 10 0.38
16 1 0.04
17 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TATTAATTATTAAA
Found at i:106262 original size:35 final size:37
Alignment explanation
Indices: 106179--106268 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 37
106169 ATATATAAGT
** *
106179 TTATTAATATAATTAATTAATTATTTTAAATGATACAA
1 TTATTAA-ATAATTAATTAATTATGATAAATAATACAA
*
106217 TTGATATAAATAATT-ATTAATTATGATAAATAAT-TAA
1 TT-AT-TAAATAATTAATTAATTATGATAAATAATACAA
106254 TTATTAAAT-ATTAAT
1 TTATTAAATAATTAAT
106269 ATATTATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
34 3 0.07
35 7 0.16
36 2 0.04
37 4 0.09
38 18 0.40
39 8 0.18
40 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (37 bp):
TTATTAAATAATTAATTAATTATGATAAATAATACAA
Found at i:106344 original size:16 final size:18
Alignment explanation
Indices: 106313--106347 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
106303 TTAATTTGTA
106313 TACAATTATAAATATTAT
1 TACAATTATAAATATTAT
106331 TACAA-TAT-AATATTAT
1 TACAATTATAAATATTAT
106347 T
1 T
106348 GTAAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TACAATTATAAATATTAT
Found at i:106499 original size:15 final size:17
Alignment explanation
Indices: 106479--106514 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
106469 AAGGATATGT
106479 TATATTAT-TA-ATTAA
1 TATATTATATATATTAA
106494 TATATTATATATATTAA
1 TATATTATATATATTAA
106511 TATA
1 TATA
106515 CATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATATATATTAA
Found at i:106501 original size:20 final size:21
Alignment explanation
Indices: 106473--106511 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
106463 TATTAAAAGG
*
106473 ATATGTTATAT-TATTAATTA
1 ATATATTATATATATTAATTA
106493 ATATATTATATATATTAAT
1 ATATATTATATATATTAAT
106512 ATACATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATATTATATATATTAATTA
Found at i:106709 original size:13 final size:13
Alignment explanation
Indices: 106693--106718 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106683 ATCAATATAT
106693 TATTATTAATTAA
1 TATTATTAATTAA
106706 TATTATTAATTAA
1 TATTATTAATTAA
106719 ATAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTAATTAA
Found at i:106728 original size:21 final size:21
Alignment explanation
Indices: 106703--106756 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
106693 TATTATTAAT
*
106703 TAATATTATTA-ATTAAATAAA
1 TAATATAATTATA-TAAATAAA
*
106724 TAATATAATTATATAGATAAA
1 TAATATAATTATATAAATAAA
106745 TAA-ATAATTATA
1 TAATATAATTATA
106757 ATATATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 9 0.30
21 20 0.67
22 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATATAATTATATAAATAAA
Found at i:106732 original size:17 final size:17
Alignment explanation
Indices: 106712--106774 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
106702 TTAATATTAT
106712 TAATTAAATAAATAATA
1 TAATTAAATAAATAATA
* *
106729 TAATTATATAGATAA-A
1 TAATTAAATAAATAATA
* *
106745 TAAAT-AAT-TATAATA
1 TAATTAAATAAATAATA
* *
106760 TATTTAGATAAATAA
1 TAATTAAATAAATAA
106775 CAATATATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 7 0.21
17 17 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATTAAATAAATAATA
Found at i:106781 original size:25 final size:26
Alignment explanation
Indices: 106716--106790 Score: 100
Period size: 25 Copynumber: 2.9 Consensus size: 26
106706 TATTATTAAT
*
106716 TAAATAAATAATATAAT-TATATAGA
1 TAAATAAATAATATAATATATTTAGA
106741 TAAATAAATAATTATAATATATTTAGA
1 TAAATAAATAA-TATAATATATTTAGA
* *
106768 TAAAT-AACAATATATTATATTTA
1 TAAATAAATAATATAATATATTTA
106791 AGTATAATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
25 23 0.51
26 10 0.22
27 12 0.27
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (26 bp):
TAAATAAATAATATAATATATTTAGA
Found at i:106903 original size:21 final size:22
Alignment explanation
Indices: 106872--106920 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
106862 CAAATTAATT
*
106872 ATATTACTAATGAACTTAA-CAA
1 ATATTACTAAT-AAATTAATCAA
106894 ATATTA-TAATAAATTAATCAA
1 ATATTACTAATAAATTAATCAA
*
106915 TTATTA
1 ATATTA
106921 ATTAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
22 6 0.25
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATTACTAATAAATTAATCAA
Found at i:107110 original size:21 final size:20
Alignment explanation
Indices: 107075--107113 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
107065 TTTAATGTTA
107075 TAATTAAATATATATTATAT
1 TAATTAAATATATATTATAT
*
107095 TAATTAAGTAATATATTAT
1 TAATTAAAT-ATATATTAT
107114 TAGTATTTTT
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:107227 original size:20 final size:20
Alignment explanation
Indices: 107190--107228 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
107180 ATAAATTTTA
*
107190 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
107210 TAATTTATATATAT-TAATT
1 TAATTTAT-TATATGTAATT
107229 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:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:108347 original size:33 final size:32
Alignment explanation
Indices: 108303--108366 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
108293 AAAAGTTAAC
*
108303 TATTTTGATTTATTTAAATTAATAATTAATAAT
1 TATTTTGATTTAATTAAATTAAT-ATTAATAAT
* * *
108336 TATTTTTATTTAATTATATTACTATTAATAA
1 TATTTTGATTTAATTAAATTAATATTAATAA
108367 CTATAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
TATTTTGATTTAATTAAATTAATATTAATAAT
Found at i:108619 original size:15 final size:15
Alignment explanation
Indices: 108599--108631 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
108589 GATAATGAAA
*
108599 AAAATTAATTTAATT
1 AAAATTAATTAAATT
108614 AAAATTAATTAAATT
1 AAAATTAATTAAATT
108629 AAA
1 AAA
108632 TGTATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTAATTAAATT
Found at i:108747 original size:18 final size:16
Alignment explanation
Indices: 108717--108750 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
108707 GCTAATCATG
108717 TTAATATTATTATAAT
1 TTAATATTATTATAAT
108733 TTAATATATATTTATAAT
1 TTAATAT-TA-TTATAAT
108751 AATTAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTATTATAAT
Found at i:108752 original size:21 final size:19
Alignment explanation
Indices: 108723--108766 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
108713 CATGTTAATA
*
108723 TTATTATAATTTAATATATAT
1 TTATAATAA-TTAA-ATATAT
*
108744 TTATAATAATTAACTATAT
1 TTATAATAATTAAATATAT
108763 TTAT
1 TTAT
108767 TAAATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATAATAATTAAATATAT
Found at i:109729 original size:9 final size:9
Alignment explanation
Indices: 109715--109739 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
109705 GTAATAATAA
109715 AATTATAGT
1 AATTATAGT
109724 AATTATAGT
1 AATTATAGT
109733 AATTATA
1 AATTATA
109740 ACAAACCAAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (9 bp):
AATTATAGT
Found at i:111397 original size:43 final size:41
Alignment explanation
Indices: 111324--111417 Score: 118
Period size: 43 Copynumber: 2.3 Consensus size: 41
111314 TTGAAAAAGT
* * *
111324 AAATAAAGCTCCTCTAAACAGGGGCTCAACAACTTTGAAAA
1 AAATAAAGCTCCTATAAACAGAGGCACAACAACTTTGAAAA
*
111365 AAATAAATTGCTCCTATAAATAGAGGCACAACAACTTTG-AAA
1 AAATAAA--GCTCCTATAAACAGAGGCACAACAACTTTGAAAA
*
111407 AATTAAAGCTC
1 AAATAAAGCTC
111418 TTTGACAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.09
41 7 0.15
42 9 0.20
43 26 0.57
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (41 bp):
AAATAAAGCTCCTATAAACAGAGGCACAACAACTTTGAAAA
Found at i:111773 original size:21 final size:21
Alignment explanation
Indices: 111748--111970 Score: 155
Period size: 21 Copynumber: 10.0 Consensus size: 21
111738 GGTTTCACAT
*
111748 CTCAAAAATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
111769 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTG-AAA
*
111791 CTCAAAGATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAA
* *
111812 CTTAAACATTC-CTATTTGAAAA
1 CTCAAAGATTCTC-ATTTG-AAA
* *
111834 CTCAAAAATTCTCATTTGAGGA
1 CTCAAAGATTCTCATTTGA-AA
* *
111856 CTTTTTAAATATTCTCATTT-AAGA
1 C---TCAAAGATTCTCATTTGAA-A
*
111880 CTCAAAGATTCTCATTTGAGGATTT
1 CTCAAAGATTCTCATTTGA--A--A
*
111905 CTTAAAGATTCTCATTTGAAGA
1 CTCAAAGATTCTCATTTGAA-A
* * *
111927 TTTCTTAAATATTCTCATTT-ATGA
1 ---CTCAAAGATTCTCATTTGA-AA
111951 CTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTGAA
111971 GATTTATTAA
Statistics
Matches: 161, Mismatches: 23, Indels: 36
0.73 0.10 0.16
Matches are distributed among these distances:
20 1 0.01
21 63 0.39
22 41 0.25
23 2 0.01
24 6 0.04
25 48 0.30
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:111871 original size:25 final size:25
Alignment explanation
Indices: 111841--111980 Score: 136
Period size: 25 Copynumber: 5.9 Consensus size: 25
111831 AAACTCAAAA
* *
111841 ATTCTCATTTGAGGACTTT-TTAAAT
1 ATTCTCATTTGAAGA-TTTCTTAAAG
*
111866 ATTCTCATTT-AAGA---CTCAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
*
111887 ATTCTCATTTGAGGATTTCTTAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
*
111912 ATTCTCATTTGAAGATTTCTTAAAT
1 ATTCTCATTTGAAGATTTCTTAAAG
* *
111937 ATTCTCATTT-ATGA---CTCAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
*
111958 ATTCTCATTTGAAGATTTATTAA
1 ATTCTCATTTGAAGATTTCTTAA
111981 TTATATTTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
21 29 0.31
22 6 0.06
24 6 0.06
25 52 0.56
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (25 bp):
ATTCTCATTTGAAGATTTCTTAAAG
Found at i:111891 original size:46 final size:47
Alignment explanation
Indices: 111776--111924 Score: 177
Period size: 46 Copynumber: 3.3 Consensus size: 47
111766 AAACTCAAAG
**
111776 ATTCTCATTTGAAAACTCAAAGATTCTCATTT-AAAAC---TTAAAC
1 ATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGACTTTTTAAAC
* *
111819 ATTC-CTATTTGAAAACTCAAAAATTCTCATTTGAGGACTTTTTAAAT
1 ATTCTC-ATTTGAAAACTCAAAGATTCTCATTTGAGGACTTTTTAAAC
* *
111866 ATTCTCATTT-AAGACTCAAAGATTCTCATTTGAGGA-TTTCTTAAAG
1 ATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGACTTT-TTAAAC
111912 ATTCTCATTTGAA
1 ATTCTCATTTGAA
111925 GATTTCTTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.01
43 29 0.32
44 3 0.03
45 3 0.03
46 39 0.43
47 15 0.16
48 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (47 bp):
ATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGACTTTTTAAAC
Found at i:111928 original size:14 final size:14
Alignment explanation
Indices: 111884--111928 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
111874 TTAAGACTCA
111884 AAGATTCTCATTTG
1 AAGATTCTCATTTG
* *
111898 AGGATT-TC--TTA
1 AAGATTCTCATTTG
111909 AAGATTCTCATTTG
1 AAGATTCTCATTTG
111923 AAGATT
1 AAGATT
111929 TCTTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 7 0.29
12 2 0.08
13 2 0.08
14 13 0.54
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (14 bp):
AAGATTCTCATTTG
Found at i:111936 original size:71 final size:71
Alignment explanation
Indices: 111841--111980 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
111831 AAACTCAAAA
* * *
111841 ATTCTCATTTGAGGACTTTTTAAATATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTC
1 ATTCTCATTTGAAGACTTTTTAAATATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTA
111906 TTAAAG
66 TTAAAG
*
111912 ATTCTCATTTGAAGA-TTTCTTAAATATTCTCATTTATGACTCAAAGATTCTCATTTGAAGATTT
1 ATTCTCATTTGAAGACTTT-TTAAATATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTT
111976 ATTAA
65 ATTAA
111981 TTATATTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 3 0.05
71 61 0.95
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (71 bp):
ATTCTCATTTGAAGACTTTTTAAATATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTA
TTAAAG
Found at i:112705 original size:123 final size:123
Alignment explanation
Indices: 112467--112691 Score: 291
Period size: 123 Copynumber: 1.9 Consensus size: 123
112457 GTATTCCTCC
*
112467 ATTTGGGCCAAATTAAAAATATTTTCTCTTTTGAATTTCTAAATTTTCCACCATTTGGGGCCTAT
1 ATTTGGGCCAAATTAAAAATATTTTCTCTTTTAAATTTCTAAATTTTCCACCATTTGGGGCCTAT
* * *** *
112532 TTAGAAATTCTCTTTATTTATTATTATTTATTTTATTTGGATTTCTAAATTTTCCACT
66 TTAGAAATTCTCTTTATTTACTATTATTTATTTGAAAAGGATTTCAAAATTTTCCACT
* * *
112590 ATTTGGGTCAATTTAGAAATATTTTCT-TTTTCAAAATTTCTAAATTTTCCACCATTT-GGGCCT
1 ATTTGGGCCAAATTAAAAATATTTTCTCTTTT--AAATTTCTAAATTTTCCACCATTTGGGGCCT
*
112653 ATTTAGAAATTCTTTTTATTT-CT-TT-TTT-TTTGAAAAGGA
64 ATTTAGAAATTCTCTTTATTTACTATTATTTATTTGAAAAGGA
112692 ATAATATGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
119 7 0.08
120 3 0.03
121 2 0.02
122 5 0.06
123 50 0.56
124 23 0.26
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (123 bp):
ATTTGGGCCAAATTAAAAATATTTTCTCTTTTAAATTTCTAAATTTTCCACCATTTGGGGCCTAT
TTAGAAATTCTCTTTATTTACTATTATTTATTTGAAAAGGATTTCAAAATTTTCCACT
Found at i:113048 original size:16 final size:17
Alignment explanation
Indices: 113027--113058 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
113017 ATTCCCAAAA
113027 TTTATT-TTTTAAAATT
1 TTTATTCTTTTAAAATT
113043 TTTATTCTTTTAAAAT
1 TTTATTCTTTTAAAAT
113059 AATATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTCTTTTAAAATT
Found at i:113078 original size:12 final size:12
Alignment explanation
Indices: 113061--113096 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
113051 TTTAAAATAA
113061 TATTAATTAATT
1 TATTAATTAATT
113073 TATTAATTAA-T
1 TATTAATTAATT
113084 TA-TAATTAATT
1 TATTAATTAATT
113095 TA
1 TA
113097 AATATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.30
11 6 0.26
12 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTAATTAATT
Found at i:113289 original size:34 final size:32
Alignment explanation
Indices: 113229--113292 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
113219 TTTTATTTAA
* *
113229 TATATTAAACTATAAATAATCATATAATATCT
1 TATATTAAACAATAAATAATAATATAATATCT
*
113261 TATATTAAACAATATAATAGTAATTATAATAT
1 TATATTAAACAATA-AATAATAA-TATAATAT
113293 ATAATGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 13 0.48
33 6 0.22
34 8 0.30
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (32 bp):
TATATTAAACAATAAATAATAATATAATATCT
Found at i:113313 original size:19 final size:19
Alignment explanation
Indices: 113264--113316 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
113254 AATATCTTAT
*
113264 ATTAAACAATATAATAGTA
1 ATTATACAATATAATAGTA
*
113283 ATTATA-ATATATAATGATTA
1 ATTATACA-ATATAAT-AGTA
113303 ATT-TACAATATAAT
1 ATTATACAATATAAT
113317 TATTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
ATTATACAATATAATAGTA
Found at i:113314 original size:21 final size:19
Alignment explanation
Indices: 113272--113314 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
113262 ATATTAAACA
*
113272 ATATAATAGTAATTATAAT
1 ATATAATAGTAATTACAAT
*
113291 ATATAATGATTAATTTACAAT
1 ATATAAT-AGTAA-TTACAAT
113312 ATA
1 ATA
113315 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
ATATAATAGTAATTACAAT
Found at i:113419 original size:15 final size:16
Alignment explanation
Indices: 113392--113435 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
113382 ATGTTTAGTT
* *
113392 ATAATTAATAATATTA
1 ATAATTTATAATAATA
*
113408 TTAATTTA-AATAATA
1 ATAATTTATAATAATA
113423 ATAATTTATAATA
1 ATAATTTATAATA
113436 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:113626 original size:21 final size:21
Alignment explanation
Indices: 113602--113657 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
113592 TTTAATAATT
113602 ATATAATTAATAT-ATTAAAGC
1 ATATAATTAATATAATTAAA-C
*
113623 ATATAATATAAATATAATTAAAT
1 ATATAAT-T-AATATAATTAAAC
*
113646 ATATAAATAATA
1 ATATAATTAATA
113658 GATAAAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 11 0.37
22 2 0.07
23 11 0.37
24 6 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATAATTAATATAATTAAAC
Found at i:113649 original size:23 final size:23
Alignment explanation
Indices: 113601--113655 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
113591 TTTTAATAAT
113601 TATATAAT-T-AATATATTAAAG
1 TATATAATATAAATATATTAAAG
*
113622 CATATAATATAAATATAATTAAA-
1 TATATAATATAAATAT-ATTAAAG
113645 TATATAA-ATAA
1 TATATAATATAA
113656 TAGATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 5 0.17
23 11 0.38
24 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
TATATAATATAAATATATTAAAG
Found at i:113651 original size:18 final size:20
Alignment explanation
Indices: 113628--113673 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
113618 AAAGCATATA
*
113628 ATATAAAT-ATA-ATTAAAT
1 ATATAAATAATAGATAAAAT
113646 ATATAAATAATAGATAAAAT
1 ATATAAATAATAGATAAAAT
113666 ACTATAAA
1 A-TATAAA
113674 ATAGTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 7 0.29
21 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATAAATAATAGATAAAAT
Found at i:113796 original size:14 final size:15
Alignment explanation
Indices: 113779--113832 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
113769 ATATCTTAGC
113779 AATTATATTA-AGAT
1 AATTATATTATAGAT
*
113793 AATTATATTATATAT
1 AATTATATTATAGAT
113808 AA-TATATTTATA-ATT
1 AATTATA-TTATAGA-T
113823 AA-TATATTAT
1 AATTATATTAT
113833 TAATTATAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 19 0.53
15 17 0.47
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTATATTATAGAT
Found at i:113840 original size:27 final size:29
Alignment explanation
Indices: 113796--113854 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
113786 TTAAGATAAT
* * *
113796 TATATTATATATAATATATTTATAATTAA
1 TATATTATATATAATATAGTAAAAATTAA
*
113825 TATATTAT-TA-ATTATAGTAAAAATTAA
1 TATATTATATATAATATAGTAAAAATTAA
113852 TAT
1 TAT
113855 TTAAATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 16 0.62
28 2 0.08
29 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATATTATATATAATATAGTAAAAATTAA
Found at i:113911 original size:19 final size:17
Alignment explanation
Indices: 113889--113931 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
113879 AATAATTAAT
113889 ATAATTAATTTAACTACTA
1 ATAATTAATTTAA-TA-TA
*
113908 ATAATTTATTTAATATA
1 ATAATTAATTTAATATA
113925 ATAATTA
1 ATAATTA
113932 TAAGTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 2 0.09
19 12 0.55
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATTAATTTAATATA
Found at i:113921 original size:33 final size:37
Alignment explanation
Indices: 113883--113964 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 37
113873 ATTTAAAATA
113883 ATTAATATAATTAATT-TAACTACTA-AT-AATTTAT
1 ATTAATATAATTAATTATAACTACTATATAAATTTAT
* *
113917 -TTAATATAA-TAATTATAAGTACTATTTAAATTTAT
1 ATTAATATAATTAATTATAACTACTATATAAATTTAT
*
113952 ATAAATATAATTA
1 ATTAATATAATTA
113965 TATGATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 5 0.12
33 17 0.43
34 1 0.03
35 7 0.17
36 8 0.20
37 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTAATATAATTAATTATAACTACTATATAAATTTAT
Found at i:114253 original size:24 final size:23
Alignment explanation
Indices: 114204--114264 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
114194 TATAATTATG
*
114204 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
114227 TATACTTAAT-AATAGTT-AATAT
1 TATA-TTAATAAATAGTTAAATAA
114249 TATATATAATTAAATA
1 TATAT-TAA-TAAATA
114265 AACATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 1 0.03
22 11 0.34
23 11 0.34
24 9 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:116898 original size:9 final size:9
Alignment explanation
Indices: 116884--116938 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
116874 ATTATAAAAA
116884 TATTATAAT
1 TATTATAAT
116893 TATTAT-AT
1 TATTATAAT
116901 TATTATAA-
1 TATTATAAT
116909 TA-T-TAAT
1 TATTATAAT
116916 TATTAGTAA-
1 TATTA-TAAT
*
116925 TATTATAAA
1 TATTATAAT
116934 TATTA
1 TATTA
116939 ATATAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 14 0.35
9 17 0.43
10 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATTATAAT
Found at i:116935 original size:25 final size:24
Alignment explanation
Indices: 116856--116940 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 24
116846 TGATCGATAA
* *
116856 AAATATTCATT-TTTTAATATTAT
1 AAATATTAATTATTATAATATTAT
*
116879 AAAAATATTATAATTATTATATTATTAT
1 --AAATA-T-TAATTATTATAATATTAT
116907 -AATATTAATTATTAGTAATATTAT
1 AAATATTAATTATTA-TAATATTAT
116931 AAATATTAAT
1 AAATATTAAT
116941 ATAATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
23 9 0.18
24 9 0.18
25 18 0.35
26 1 0.02
27 4 0.08
28 10 0.20
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
AAATATTAATTATTATAATATTAT
Found at i:117045 original size:19 final size:19
Alignment explanation
Indices: 117021--117069 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
117011 ATTAAACTGT
117021 TAATAATAAATAATCATAA
1 TAATAATAAATAATCATAA
*
117040 TAATAA-AAATTAATCATTA
1 TAATAATAAA-TAATCATAA
117059 -AATAATTAAAT
1 TAATAA-TAAAT
117070 GTTATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 15 0.58
20 3 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAATAAATAATCATAA
Found at i:117053 original size:13 final size:14
Alignment explanation
Indices: 117020--117067 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
117010 TATTAAACTG
117020 TTAATAATAAATAA
1 TTAATAATAAATAA
117034 TCATAATAATAAA-AA
1 T--TAATAATAAATAA
*
117049 TTAATCATTAAATAA
1 TTAAT-AATAAATAA
117064 TTAA
1 TTAA
117068 ATGTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 9 0.31
16 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:117812 original size:46 final size:46
Alignment explanation
Indices: 117762--117871 Score: 136
Period size: 46 Copynumber: 2.4 Consensus size: 46
117752 GCATATTTAC
117762 TTAATAATAATGTTATAAT-AATAGAATTTAATAATAG-TATAATATT
1 TTAATAATAAT-TTATAATAAATAGAATTTAATAAT-GTTATAATATT
** *
117808 TTAATTCTAATTTATAGTAAATAGAATTTAATAATGTTATAATATT
1 TTAATAATAATTTATAATAAATAGAATTTAATAATGTTATAATATT
*
117854 TTACT-ATAATTTAATAAT
1 TTAATAATAATTT-ATAAT
117872 TATAGTAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
45 13 0.24
46 42 0.76
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (46 bp):
TTAATAATAATTTATAATAAATAGAATTTAATAATGTTATAATATT
Found at i:118908 original size:180 final size:181
Alignment explanation
Indices: 118566--118972 Score: 412
Period size: 180 Copynumber: 2.3 Consensus size: 181
118556 ACCAAACCAT
** * * *
118566 TTCAAATAGTTTTGACTATTTCAATAATTATTTATTTCAAATCATTATAACCTTTTATTTTATCA
1 TTCAAATAGTTAAGACTATTTAAATAATTATCTATTTCAAATCATTATAACCTTTTATTTTAACA
* ** ** *
118631 TCAAACAATTGGTTTTGTTCATATTATTTTATTTAGAATAAAATAATACTAATTTAATAATATTT
66 TAAAACAATTGGTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTAATAATATTT
*
118696 CAAAACTTAATAACCAAGAAAATTACAAAATAAATCTAATTGTTGAACCGG
131 CAAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAATTGTTGAACCGG
* ** * *
118747 TTCAAATAGTTAAGACT-TTATAAATGATTATCTATTTCAAATTGTTATGACCTTTTCTTTTAAC
1 TTCAAATAGTTAAGACTATT-TAAATAATTATCTATTTCAAATCATTATAACCTTTTATTTTAAC
* * * *
118811 GTAAAACAATT-GTTTTGTTCGTACAAGCTTATTTGGATTAAAATAATACAAATTTAATAATATT
65 ATAAAACAATTGGTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTAATAATA-T
* ** * * ** * * *
118875 TTGAAAA-TTAATAAGTAAG-AGATTCAAAAAATAAATTTGTTTACTT-AATCAG
129 TTCAAAACTTAATAACCAAGAAAATT-AAAAAATAAATCTAATT-GTTGAACCGG
* * * *
118927 TTCAAATGGTTAAAATTA-TTAGAATAATTATCTATTTCATATCATT
1 TTCAAATAGTTAAGACTATTTA-AATAATTATCTATTTCAAATCATT
118973 TATATTTATT
Statistics
Matches: 182, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
179 6 0.03
180 107 0.59
181 69 0.38
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (181 bp):
TTCAAATAGTTAAGACTATTTAAATAATTATCTATTTCAAATCATTATAACCTTTTATTTTAACA
TAAAACAATTGGTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACAAATTTAATAATATTT
CAAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAATTGTTGAACCGG
Found at i:119578 original size:157 final size:153
Alignment explanation
Indices: 119408--119691 Score: 338
Period size: 157 Copynumber: 1.8 Consensus size: 153
119398 AAGGTTTGAA
* * * ** *
119408 AAATAAATTTGTTTACCAAACAAGTTTAAAAAGTTATGACTATTTGATTAATTAT-TTTTATAAA
1 AAATAAATTTGTTTACCAAACAAATTCAAAAAGTTACGACTATTTGAACAATTATCTATT-TAAA
**
119472 ATTGTTATGACCTTTGTTTTGACATAAAACAATTGTTTC-GATTCATAAAAGCTTATCCAAAATA
65 ATCATTATGA----TGTTTTGACATAAAACAATTGTTTCAG-TTCATAAAAGCTTATCCAAAATA
119536 AAAAGAATTTAATAAGCAAGAGATTAAAT
125 AAAAGAATTTAATAAGCAAGAGATTAAAT
* * * * * *
119565 AAATAAATTTGTTTATCGAGCAAATTCAGATAGTTACGACTATTTGAACAATTGTCTATTTAAAA
1 AAATAAATTTGTTTACCAAACAAATTCAAAAAGTTACGACTATTTGAACAATTATCTATTTAAAA
* * * *
119630 TCATTATGATGTTTTGTCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCAAAATAAAA
66 TCATTATGATGTTTTGACATAAAACAATTGTTTCAGTTCATAAAAGCTTATCCAAAATAAAA
119692 TAATTTTAAT
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
153 47 0.44
154 1 0.01
157 56 0.52
158 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (153 bp):
AAATAAATTTGTTTACCAAACAAATTCAAAAAGTTACGACTATTTGAACAATTATCTATTTAAAA
TCATTATGATGTTTTGACATAAAACAATTGTTTCAGTTCATAAAAGCTTATCCAAAATAAAAAGA
ATTTAATAAGCAAGAGATTAAAT
Found at i:119819 original size:15 final size:14
Alignment explanation
Indices: 119799--119834 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
119789 AACTATTATT
119799 ATAATTAATTTATAA
1 ATAATTAATTTA-AA
119814 ATAATTAATTTAAA
1 ATAATTAATTTAAA
*
119828 GTAATTA
1 ATAATTA
119835 TAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
ATAATTAATTTAAA
Found at i:120705 original size:21 final size:21
Alignment explanation
Indices: 120681--120728 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
120671 ATTAATGATT
*
120681 ATAATCTATTCATA-TTTAACA
1 ATAATATATT-ATATTTTAACA
*
120702 ATAAATATATTATATTTTAATA
1 AT-AATATATTATATTTTAACA
120724 ATAAT
1 ATAAT
120729 TATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATATATTATATTTTAACA
Found at i:120712 original size:22 final size:22
Alignment explanation
Indices: 120687--120732 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
120677 GATTATAATC
120687 TATTCATA-TTTAACAATAAATA
1 TATT-ATATTTTAACAATAAATA
* *
120709 TATTATATTTTAATAATAATTA
1 TATTATATTTTAACAATAAATA
120731 TA
1 TA
120733 ATAAATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTATATTTTAACAATAAATA
Found at i:120750 original size:18 final size:19
Alignment explanation
Indices: 120727--120770 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
120717 TTTAATAATA
* *
120727 ATTATAATAAATT-GTATT
1 ATTATAATAAATTAATACT
120745 ATTAT-ATAAATTAATACT
1 ATTATAATAAATTAATACT
120763 ATTATAAT
1 ATTATAAT
120771 TATAGTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTATAATAAATTAATACT
Found at i:120855 original size:29 final size:29
Alignment explanation
Indices: 120802--120857 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
120792 TAATTAATAA
* *
120802 TAAATTTAATAATAATTGTTATATATTTT
1 TAAATTTAATAATAAATATTATATATTTT
120831 TAAATTT-ATAATAAATATTATTATATT
1 TAAATTTAATAATAAATATTA-TATATT
120858 AGCAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TAAATTTAATAATAAATATTATATATTTT
Found at i:121105 original size:23 final size:23
Alignment explanation
Indices: 121056--121108 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
121046 AAATTAAACC
* *
121056 TTATATTAACTATTATAATCTTA
1 TTATATTAACTATTATAATATAA
*
121079 TTATATTAATTA-TATAATATAA
1 TTATATTAACTATTATAATATAA
121101 TT-TATTAA
1 TTATATTAA
121109 AATATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 6 0.22
22 10 0.37
23 11 0.41
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATATTAACTATTATAATATAA
Found at i:121137 original size:23 final size:24
Alignment explanation
Indices: 121085--121137 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
121075 CTTATTATAT
*
121085 TAATTAT-ATAATATAATTTATTA
1 TAATTATAATAATATAAGTTATTA
* *
121108 -AAATATAATAATCT-AGTTATTA
1 TAATTATAATAATATAAGTTATTA
121130 TAATTATA
1 TAATTATA
121138 TTATAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATTATAATAATATAAGTTATTA
Found at i:121153 original size:56 final size:57
Alignment explanation
Indices: 121078--121202 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 57
121068 TTATAATCTT
121078 ATTATA-T-TAATTATATAATATAA-TT-T-ATTAAAATATAATAATCTAGTTAT-TATA
1 ATTATATTATAATTATATAATA-AAGTTATAATTAAAATATAA-AAT-TAGTTATATATA
*
121132 ATTATATTATAATTATTTAATAAAGTTATAATTAAAATATAAAATTAGTTATATATA
1 ATTATATTATAATTATATAATAAAGTTATAATTAAAATATAAAATTAGTTATATATA
*
121189 TTTATATATATAAT
1 ATTATAT-TATAAT
121203 AATTAAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
54 6 0.10
55 3 0.05
56 21 0.34
57 14 0.23
58 18 0.29
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (57 bp):
ATTATATTATAATTATATAATAAAGTTATAATTAAAATATAAAATTAGTTATATATA
Found at i:122724 original size:18 final size:17
Alignment explanation
Indices: 122701--122753 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
122691 TTAAAATTTA
*
122701 ATTTATATTAATAAATAT
1 ATTTATATGAAT-AATAT
122719 ATTTATATGAATAATAT
1 ATTTATATGAATAATAT
*
122736 AATTATTATAGAATAATA
1 ATTTA-TAT-GAATAATA
122754 GTCAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 9 0.29
18 14 0.45
19 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
ATTTATATGAATAATAT
Found at i:122907 original size:24 final size:24
Alignment explanation
Indices: 122880--122929 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
122870 TTGGCTATAT
* *
122880 TTATTATAATTAATATTATTACTA
1 TTATAATAATTAATAATATTACTA
*
122904 TTATAATAATTAATAATATTATTA
1 TTATAATAATTAATAATATTACTA
122928 TT
1 TT
122930 TAAACTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATAATAATTAATAATATTACTA
Found at i:123011 original size:20 final size:21
Alignment explanation
Indices: 122978--123021 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
122968 CTAAATTAAT
122978 ATTATTAATTATAAA-GTAATTA
1 ATTATTAA-TATAAATG-AATTA
123000 ATTATTAA-ATAAATGAATTA
1 ATTATTAATATAAATGAATTA
123020 AT
1 AT
123022 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTATTAATATAAATGAATTA
Found at i:123273 original size:13 final size:13
Alignment explanation
Indices: 123236--123279 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
123226 GATTAACAAT
*
123236 ATAATTTCATATTCC
1 ATAATTT-ATATT-A
*
123251 ATAATATATATTA
1 ATAATTTATATTA
123264 ATAATTTATATTA
1 ATAATTTATATTA
123277 ATA
1 ATA
123280 TATAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTTATATTA
Found at i:123282 original size:25 final size:28
Alignment explanation
Indices: 123236--123288 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
123226 GATTAACAAT
* *
123236 ATAATTTCATATTCCATAATATATATTA
1 ATAATTTCATATTCAATAATATAGATTA
123264 ATAATTT-ATATT-AAT-ATATAGATTA
1 ATAATTTCATATTCAATAATATAGATTA
123289 GTATGAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 5 0.22
28 7 0.30
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ATAATTTCATATTCAATAATATAGATTA
Found at i:124497 original size:21 final size:19
Alignment explanation
Indices: 124457--124500 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
124447 AATAATAATA
* *
124457 AATTATTATCTATTTATTT
1 AATTATAATATATTTATTT
124476 AATTATAATATATATTATTTT
1 AATTATAATATAT-TTA-TTT
124497 AATT
1 AATT
124501 TACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATAATATATTTATTT
Found at i:124763 original size:33 final size:34
Alignment explanation
Indices: 124712--124824 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 34
124702 GACCTTAACT
*
124712 TATTAT-ATATATTTTAATATATAATTATTATTAA
1 TATTATAAT-TATTATAATATATAATTATTATTAA
124746 -ATTATAATTATTATAATACTATAA-TATTATATAA
1 TATTATAATTATTATAATA-TATAATTATTAT-TAA
*
124780 TTATATAAAATTAATTA-AATAT-TAATT-TTATTAA
1 -TAT-TATAATT-ATTATAATATATAATTATTATTAA
124814 TATTA-AATTAT
1 TATTATAATTAT
124825 ATCAATTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
30 2 0.03
31 4 0.06
32 2 0.03
33 23 0.33
34 13 0.19
35 7 0.10
36 4 0.06
37 10 0.14
38 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
TATTATAATTATTATAATATATAATTATTATTAA
Found at i:124792 original size:54 final size:50
Alignment explanation
Indices: 124741--124839 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 50
124731 TATAATTATT
124741 ATTAAAT-TATAATTATTA-TAATACTATAATATTATAT-AATTATATAAAATTA
1 ATTAAATAT-TAATT-TTATTAATA-T-TAA-ATTATATCAATTATATAAAATTA
124793 ATTAAATATTAATTTTATTAATATTAAATTATATCAATTAT-TAAAAT
1 ATTAAATATTAATTTTATTAATATTAAATTATATCAATTATATAAAAT
124840 AAAGTATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
49 13 0.30
50 9 0.20
51 4 0.09
52 17 0.39
53 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (50 bp):
ATTAAATATTAATTTTATTAATATTAAATTATATCAATTATATAAAATTA
Found at i:124801 original size:16 final size:15
Alignment explanation
Indices: 124733--124837 Score: 58
Period size: 16 Copynumber: 6.9 Consensus size: 15
124723 TTTTAATATA
*
124733 TAATTATTATTAAAT
1 TAATTAATATTAAAT
124748 T-A-TAATTATTATAA-
1 TAATTAA-TATTA-AAT
* *
124762 TACTATAATATTATA-
1 TAAT-TAATATTAAAT
*
124777 TAATT-ATATAAAAT
1 TAATTAATATTAAAT
*
124791 TAATTAAATATTAATT
1 TAATT-AATATTAAAT
*
124807 TTATTAATATTAAAT
1 TAATTAATATTAAAT
*
124822 TATATCAATTATTAAA
1 TA-ATTAA-TATTAAA
124838 ATAAAGTATA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
13 8 0.12
14 13 0.19
15 17 0.25
16 20 0.29
17 10 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TAATTAATATTAAAT
Found at i:124842 original size:22 final size:21
Alignment explanation
Indices: 124766--124847 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 21
124756 TTATAATACT
124766 ATAATATTATATAATTATATAAA
1 ATAA-ATTATATAATTAT-TAAA
*
124789 ATTAATTAAATATTAATTTTATTAATA
1 ATAAATT--ATA-TAA--TTATTAA-A
*
124816 TTAAATTATATCAATTATTAAA
1 ATAAATTATAT-AATTATTAAA
*
124838 ATAAAGTATA
1 ATAAATTATA
124848 AACTGTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
22 12 0.26
23 10 0.21
24 4 0.09
25 8 0.17
26 3 0.06
27 10 0.21
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (21 bp):
ATAAATTATATAATTATTAAA
Found at i:124911 original size:18 final size:16
Alignment explanation
Indices: 124726--124913 Score: 69
Period size: 18 Copynumber: 11.4 Consensus size: 16
124716 ATATATATTT
124726 TAATATATAATTATTAT-
1 TAATAT-TAA-TATTATA
124743 TAA-ATT-ATAATTATTA
1 TAATATTAAT-ATTA-TA
124759 TAATACTATAATATTATA
1 TAATA-T-TAATATTATA
*
124777 TAATTATATAAAATTA-A
1 TAA-TAT-TAATATTATA
*
124794 TTAAATATTAATTTTAT-
1 -T-AATATTAATATTATA
124811 TAATATTAA-ATTATA
1 TAATATTAATATTATA
124826 TCAATTATTAA-A--ATA
1 T-AA-TATTAATATTATA
* *
124841 -AAGTATAAACTGTTATA
1 TAA-TATTAA-TATTATA
*
124858 -AAT-TTTA-ATTATCA
1 TAATATTAATATTAT-A
124872 TAATATTAATATTACTA
1 TAATATTAATATTA-TA
124889 TTAATATTAATTCATTATA
1 -TAATATTAA-T-ATTATA
124908 TAATAT
1 TAATAT
124914 AAGTTTAAAT
Statistics
Matches: 134, Mismatches: 11, Indels: 51
0.68 0.06 0.26
Matches are distributed among these distances:
13 12 0.09
14 10 0.07
15 19 0.14
16 12 0.09
17 28 0.21
18 35 0.26
19 12 0.09
20 6 0.04
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (16 bp):
TAATATTAATATTATA
Found at i:125412 original size:32 final size:30
Alignment explanation
Indices: 125339--125416 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
125329 TTATATTAAT
*
125339 TATTAAATTA-TATAAATTTAATATAAAGC
1 TATTAATTTATTATAAATTTAATATAAAGC
*
125368 TATT-ATTATATTATTAATTTAATATAATTCA-C
1 TATTAATT-TATTATAAATTTAATATAA---AGC
125400 TATTAATTTATTATAAA
1 TATTAATTTATTATAAA
125417 ATAACAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 2 0.05
29 6 0.15
30 15 0.38
32 13 0.32
33 4 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTAATTTATTATAAATTTAATATAAAGC
Found at i:125640 original size:22 final size:22
Alignment explanation
Indices: 125605--125664 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
125595 CAAATTATTA
125605 TATATAATAATTATAATTTAAT
1 TATATAATAATTATAATTTAAT
* * *
125627 TATATTATACTTATTATTTAA-
1 TATATAATAATTATAATTTAAT
125648 TATAACTAA-AATTATAA
1 TAT-A-TAATAATTATAA
125665 ATATAATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATAATAATTATAATTTAAT
Found at i:125776 original size:26 final size:25
Alignment explanation
Indices: 125747--125799 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
125737 TAATATACAA
125747 ATTATAATAATATAAT-TTATTTAATT
1 ATTATAATAAT-TAATATTA-TTAATT
*
125773 ATTATTATAATTAATATTATTAATT
1 ATTATAATAATTAATATTATTAATT
125798 AT
1 AT
125800 CTTAGATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTATAATAATTAATATTATTAATT
Found at i:125792 original size:15 final size:15
Alignment explanation
Indices: 125747--125794 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
125737 TAATATACAA
*
125747 ATTATAA-TAATATA
1 ATTATAATTAATATT
*
125761 ATT-TATTTAATTATT
1 ATTATAATTAA-TATT
125776 ATTATAATTAATATT
1 ATTATAATTAATATT
125791 ATTA
1 ATTA
125795 ATTATCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 14 0.50
16 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATTAATATT
Found at i:126043 original size:20 final size:19
Alignment explanation
Indices: 125992--126055 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
125982 AAATATTAGT
*
125992 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
126010 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
126031 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
126051 TATTA
1 TATTA
126056 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:126243 original size:21 final size:20
Alignment explanation
Indices: 126201--126263 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
126191 TTTTATTCAA
*
126201 TTAATATTAATTA-AAA-AA
1 TTAATATTAATTATAAATAT
126219 TTAATTATTAATTATAAATAT
1 TTAA-TATTAATTATAAATAT
*
126240 TTAACGT-TTAATTATAACTAT
1 TTAA--TATTAATTATAAATAT
126261 TTA
1 TTA
126264 TAATTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 4 0.11
19 9 0.24
20 3 0.08
21 21 0.55
22 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAATATTAATTATAAATAT
Found at i:126359 original size:10 final size:10
Alignment explanation
Indices: 126336--126415 Score: 53
Period size: 10 Copynumber: 8.1 Consensus size: 10
126326 CCCTTTTATT
126336 TTAATAATTTA
1 TTAATAA-TTA
*
126347 TTAATAGTTA
1 TTAATAATTA
126357 TTAATAATTA
1 TTAATAATTA
*
126367 TT-ATCA-TA
1 TTAATAATTA
126375 TATAA-AATTAA
1 T-TAATAATT-A
* *
126386 TTAATTATAA
1 TTAATAATTA
126396 TT-A-AATATA
1 TTAATAAT-TA
126405 TTAATAATTA
1 TTAATAATTA
126415 T
1 T
126416 AACCTAATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
8 5 0.09
9 9 0.17
10 26 0.49
11 13 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
TTAATAATTA
Found at i:126403 original size:26 final size:25
Alignment explanation
Indices: 126356--126417 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
126346 ATTAATAGTT
* *
126356 ATTAATAATTATTATCATATATAAA
1 ATTAATAATTATAATCAAATATAAA
*
126381 ATTAATTAATTATAATTAAATAT---
1 ATTAA-TAATTATAATCAAATATAAA
126404 ATTAATAATTATAA
1 ATTAATAATTATAA
126418 CCTAATTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 9 0.27
23 5 0.15
25 5 0.15
26 14 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTAATAATTATAATCAAATATAAA
Found at i:126628 original size:39 final size:38
Alignment explanation
Indices: 126567--126668 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 38
126557 TTTTTATGAT
* *
126567 TATTA-TAATAACTATTTAATAAT-TTTGCTTATAATT-TA
1 TATTATTAATAA-TAATTAATAATATTT-ATTAT-ATTATA
*
126605 TATTATTAATAATAATTATATAATATTTATTATATTATT
1 TATTATTAATAATAATTA-ATAATATTTATTATATTATA
126644 TATTATTAATAATAATTAATAATAT
1 TATTATTAATAATAATTAATAATAT
126669 ACTATAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
38 20 0.35
39 34 0.60
40 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (38 bp):
TATTATTAATAATAATTAATAATATTTATTATATTATA
Found at i:126643 original size:12 final size:12
Alignment explanation
Indices: 126607--126668 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
126597 ATAATTTATA
*
126607 TTATTAATAATAA
1 TTATT-ATAATAT
126620 TTA-TATAATAT
1 TTATTATAATAT
*
126631 TTATTATATTAT
1 TTATTATAATAT
*
126643 TTATTATTAATAA
1 TTATTA-TAATAT
*
126656 TAATTAATAATAT
1 TTATT-ATAATAT
126669 ACTATAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
11 9 0.22
12 14 0.35
13 16 0.40
14 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTATTATAATAT
Found at i:126691 original size:39 final size:39
Alignment explanation
Indices: 126604--126693 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
126594 CTTATAATTT
* * *
126604 ATATTATTAATAATAATTATATAATATTTATTATATTAT
1 ATATTATTAATAATAATTATATAATATCTATAATATTAC
*
126643 TTATTATTAATAATAATTA-ATAATATACTATAA-ATATAC
1 ATATTATTAATAATAATTATATAATAT-CTATAATAT-TAC
*
126682 ATATAATTAATA
1 ATATTATTAATA
126694 TATTTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.21
39 34 0.79
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (39 bp):
ATATTATTAATAATAATTATATAATATCTATAATATTAC
Found at i:127876 original size:17 final size:14
Alignment explanation
Indices: 127831--127868 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
127821 CGAACAAATC
*
127831 ATATTA-TAAATAA
1 ATATTATTAAATTA
127844 ATATTATTAAATTA
1 ATATTATTAAATTA
127858 ATATTATTAAA
1 ATATTATTAAA
127869 GTCATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATTATTAAATTA
Found at i:127929 original size:21 final size:22
Alignment explanation
Indices: 127890--127930 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
127880 AATAATATTA
127890 ATATAAAGTATTTTATATAATT
1 ATATAAAGTATTTTATATAATT
127912 ATATAAA-T-TTTATATATAA
1 ATATAAAGTATTT-TATATAA
127931 ATAGATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 8 0.44
22 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATAAAGTATTTTATATAATT
Found at i:128030 original size:13 final size:12
Alignment explanation
Indices: 128012--128058 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
128002 ATTGTATATA
128012 ATTTATTATAAAT
1 ATTTATTAT-AAT
128025 ATTTATTATAAT
1 ATTTATTATAAT
**
128037 ATTTAAAACTAAT
1 ATTTATTA-TAAT
128050 ATTTATTAT
1 ATTTATTAT
128059 TTATAAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTATTATAAT
Found at i:128561 original size:181 final size:179
Alignment explanation
Indices: 128141--128762 Score: 661
Period size: 181 Copynumber: 3.5 Consensus size: 179
128131 TTTTGAACAT
* * * * * *
128141 GTTCGAATAGTTCTGACTATTTGAATAATTATTTATTTCAAATAGTTATGACCTTTTGTTTTGTG
1 GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
* * * **
128206 ATAAACCAATTGTTTTCTGTCCATACAAGCTTATTCCGAATAAAATAAT--TAAATTTATTAATA
66 ATAAAACAATTGTTTTATGT-CATATAAGCTTATTCAAAATAAAATAATACT-AATTTATTAATA
* *
128269 TTCCAAAATTTAATAAGTAAAA-ATTTAAAAAATAAATTTTTTTTAAC-AT--
129 TTCCAAAA-TTAATAAGTAAAAGATTTAAAAAATAAA-TTTATTTACCGATAA
* * * *
128318 GTTCAAATAGATCTAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTATGTTTTGTG
1 GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
* * * *
128383 ATGAACCAATTGTTTT-TGTCTATATAAGCTTGTTCAAAATAAAATAATACTAATTTAATAATAT
66 ATAAAACAATTGTTTTATGTC-ATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAT
128447 TCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATTTATTTACCGAGTAA
130 TCCAA-AATTAATAAGTAAAAGATTTAAAAAATAAATTTATTTACCGA-TAA
* * * * * *
128499 GCTCAAATAGTTATAACTGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTTGTTTTGTC
1 GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
* *
128564 ATAAAACAATTGTTTCTAT-TCAT-TCAAGTTTATTCAAAATAAAATAATACTACTTTATTAATA
66 ATAAAACAATTGTTT-TATGTCATAT-AAGCTTATTCAAAATAAAATAATACTAATTTATTAATA
* * ** * * * *
128627 TTTTGC-AAATTAATAGGTAGGAGATTTAAAAAATAAGTCTGTTTACCGAACAA
129 --TTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTATTTACCG-ATAA
* * ** * * * *
128680 ATTCAAATAGTCATGTCGATTAGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTC
1 GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
128745 ATAAAACAATTGTTTTAT
66 ATAAAACAATTGTTTTAT
128763 AATAATTTAA
Statistics
Matches: 378, Mismatches: 52, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
175 1 0.00
176 26 0.07
177 112 0.30
178 18 0.05
179 1 0.00
180 4 0.01
181 207 0.55
182 5 0.01
183 4 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (179 bp):
GTTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
ATAAAACAATTGTTTTATGTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATT
CCAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTATTTACCGATAA
Found at i:128892 original size:20 final size:20
Alignment explanation
Indices: 128856--128893 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
128846 TTAGTTTAAT
*
128856 AATTTAAACTTATAATAAGA
1 AATTTAAAATTATAATAAGA
128876 AATTTAATAATTA-AATAA
1 AATTTAA-AATTATAATAA
128894 TTAATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
AATTTAAAATTATAATAAGA
Found at i:129078 original size:27 final size:28
Alignment explanation
Indices: 129024--129082 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
129014 TTTAATTAAG
*
129024 ATAACACTTTAATTTATTAAAGATATTA
1 ATAACACTTTAATTTATCAAAGATATTA
*
129052 ATAAC-CTTTAATTTATCCAA-ATAATTA
1 ATAACACTTTAATTTATCAAAGAT-ATTA
129079 ATAA
1 ATAA
129083 TATTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 21 0.75
28 5 0.18
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (28 bp):
ATAACACTTTAATTTATCAAAGATATTA
Found at i:129274 original size:20 final size:18
Alignment explanation
Indices: 129249--129286 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
129239 ATAATGTTAT
129249 ATAATTTATCTAATCTATTA
1 ATAATTTAT-TAAT-TATTA
129269 ATAATTTATTAATTATTA
1 ATAATTTATTAATTATTA
129287 TTCTTAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTTATTAATTATTA
Found at i:129314 original size:21 final size:21
Alignment explanation
Indices: 129276--129315 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
129266 TTAATAATTT
*
129276 ATTAATTATTATTCTTAATAG
1 ATTAATTATTATTATTAATAG
129297 ATTAATT-TTATTAATTAAT
1 ATTAATTATTATT-ATTAAT
129316 CTAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTAATTATTATTATTAATAG
Found at i:129506 original size:13 final size:13
Alignment explanation
Indices: 129488--129556 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 13
129478 TATTCAATAA
129488 TTAATTATTATAT
1 TTAATTATTATAT
*
129501 TTAATTGTCTTAATAT
1 TTAA-T-TATT-ATAT
* *
129517 TAAATT-TCTACTAA
1 TTAATTAT-TA-TAT
129531 TTAATTATTATAT
1 TTAATTATTATAT
129544 TTAATTATTATAT
1 TTAATTATTATAT
129557 GGGTTTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 21 0.47
14 12 0.27
15 5 0.11
16 7 0.16
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (13 bp):
TTAATTATTATAT
Found at i:129514 original size:22 final size:21
Alignment explanation
Indices: 129477--129550 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
129467 AAGGATTTGA
*
129477 ATATTCAA-TAATTAATTATT
1 ATATTTAATTAATTAATTATT
**
129497 ATATTTAATTGTCTTAA-TATT
1 ATATTTAATT-AATTAATTATT
* * *
129518 AAATTTCTACTAATTAATTATT
1 ATATTT-AATTAATTAATTATT
129540 ATATTTAATTA
1 ATATTTAATTA
129551 TTATATGGGT
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
20 7 0.18
21 17 0.44
22 15 0.38
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (21 bp):
ATATTTAATTAATTAATTATT
Found at i:129959 original size:11 final size:11
Alignment explanation
Indices: 129943--129992 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
129933 TAACTCTATA
*
129943 ATATTATAATT
1 ATATTATTATT
129954 ATATTATTATT
1 ATATTATTATT
129965 -TATTAATTATT
1 ATATT-ATTATT
*
129976 ATA-TAGTTATA
1 ATATTA-TTATT
129987 ATATTA
1 ATATTA
129993 AATATGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 5 0.15
11 24 0.73
12 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATATTATTATT
Found at i:130069 original size:22 final size:21
Alignment explanation
Indices: 130015--130069 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
130005 ACAACTCTAG
*
130015 TATTAAATATAATAATTTTTA
1 TATTAAATATAATAATTATTA
**
130036 TATTATTCTATAATAATTATTA
1 TATTA-AATATAATAATTATTA
130058 TATATAAATATA
1 TAT-TAAATATA
130070 GTATTATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.19
22 20 0.74
23 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAAATATAATAATTATTA
Found at i:130088 original size:14 final size:14
Alignment explanation
Indices: 130044--130107 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
130034 TATATTATTC
130044 TATAATAATTATTAT
1 TATAATAA-TATTAT
*
130059 ATATAA-ATATAGTAT
1 -TATAATA-ATATTAT
130074 TATAATAATATTAT
1 TATAATAATATTAT
*
130088 TTTACA-AATATTAT
1 TATA-ATAATATTAT
130102 T-TAATA
1 TATAATA
130108 TTTATATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.02
13 3 0.07
14 23 0.56
15 8 0.20
16 6 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TATAATAATATTAT
Found at i:130097 original size:30 final size:29
Alignment explanation
Indices: 130044--130131 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
130034 TATATTATTC
*
130044 TATAATAATTATTA-TATATAAATATAGTAT
1 TATAATAA-TATTATTTTATAAATATA-TAT
*
130074 TATAATAATATTATTTTACAAATAT-TAT
1 TATAATAATATTATTTTATAAATATATAT
*
130102 T-TAATATTTATATATTTTATAAATATATAT
1 TATAATA-ATAT-TATTTTATAAATATATAT
130132 AATTTAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 18 0.36
30 20 0.40
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TATAATAATATTATTTTATAAATATATAT
Found at i:130132 original size:19 final size:18
Alignment explanation
Indices: 130104--130142 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
130094 AATATTATTT
* *
130104 AATATTTATATATTTTATA
1 AATATATATA-ATTTAATA
130123 AATATATATAATTTAATA
1 AATATATATAATTTAATA
130141 AA
1 AA
130143 CAATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATATATAATTTAATA
Found at i:130200 original size:16 final size:16
Alignment explanation
Indices: 130177--130228 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
130167 AGATTATAAA
130177 AATATTTATAATAATT
1 AATATTTATAATAATT
*
130193 ACTATTTATAAT-ATT
1 AATATTTATAATAATT
130208 AAT-TATTATAATAATAT
1 AATAT-TTATAATAAT-T
130225 AATA
1 AATA
130229 ATAGTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 12 0.40
16 13 0.43
17 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTTATAATAATT
Found at i:130294 original size:48 final size:48
Alignment explanation
Indices: 130195--130284 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
130185 TAATAATTAC
* *
130195 TATTTATAATATTAATTATTATAATAATATAATAATAGTATTAACAAT
1 TATTAATAATATTAATTATTATAATAATATAATAATAATATTAACAAT
*
130243 TATTAATAATA-TAATTGATTATATTAATA-AAT-ATAATATTAA
1 TATTAATAATATTAATT-ATTATAATAATATAATAATAATATTAA
130285 TATAATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 9 0.24
47 8 0.21
48 21 0.55
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (48 bp):
TATTAATAATATTAATTATTATAATAATATAATAATAATATTAACAAT
Found at i:130402 original size:18 final size:16
Alignment explanation
Indices: 130379--130424 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
130369 AATAACATAT
130379 AATTATATTATTATATTA
1 AATTATA-TATTA-ATTA
130397 AATTATATATTAATT-
1 AATTATATATTAATTA
*
130412 -ATTATTTATTAAT
1 AATTATATATTAAT
130425 AATTACTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 12 0.44
16 3 0.11
17 5 0.19
18 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTATATATTAATTA
Found at i:130421 original size:14 final size:14
Alignment explanation
Indices: 130384--130429 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
130374 CATATAATTA
130384 TATTATTATATTAA-
1 TATTATT-TATTAAT
*
130398 -ATTATATATTAAT
1 TATTATTTATTAAT
130411 TATTATTTATTAAT
1 TATTATTTATTAAT
*
130425 AATTA
1 TATTA
130430 CTAAGTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 16 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTTATTAAT
Found at i:130755 original size:17 final size:18
Alignment explanation
Indices: 130713--130757 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
130703 ATTTATAATA
130713 ATTATT-ATTAATTATAT
1 ATTATTAATTAATTATAT
* *
130730 AATAATAATTAATT-TAT
1 ATTATTAATTAATTATAT
130747 ATTATTAATTA
1 ATTATTAATTA
130758 TTAATTGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTAATTAATTATAT
Found at i:130778 original size:38 final size:38
Alignment explanation
Indices: 130703--130779 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 38
130693 TAAAATTAAT
*
130703 ATTTATAATAATTATTATTAATTATATAATAATAATTA
1 ATTTATAATAATTATTATTAATTATATAATAACAATTA
*
130741 ATTTAT-ATTATTAATTATTAATTGA-ACTAA-AACAATTA
1 ATTTATAATAATT-ATTATTAATT-ATA-TAATAACAATTA
130779 A
1 A
130780 CTATTTTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.15
38 25 0.74
39 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (38 bp):
ATTTATAATAATTATTATTAATTATATAATAACAATTA
Found at i:130979 original size:23 final size:22
Alignment explanation
Indices: 130929--130982 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
130919 AATATTTAAT
* **
130929 AATAATAAATTTATATTAATTT
1 AATATTAAATTTATATTAATAG
*
130951 ACTATTAAATTTATAATTAATAG
1 AATATTAAATTTAT-ATTAATAG
130974 AATATTAAA
1 AATATTAAA
130983 CAATGGTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATTAAATTTATATTAATAG
Found at i:131321 original size:22 final size:22
Alignment explanation
Indices: 131276--131338 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
131266 TTTAAATAGG
*
131276 TATAATTATAATTAATA-TTGAT
1 TATAATTATAATTAA-AGTTAAT
131298 TATAATTATAATTAAAGTTAAT
1 TATAATTATAATTAAAGTTAAT
*
131320 TAT-A-T-TAATTTAAGTTAAT
1 TATAATTATAATTAAAGTTAAT
131339 AATTAAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 13 0.34
20 1 0.03
21 2 0.05
22 22 0.58
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TATAATTATAATTAAAGTTAAT
Found at i:131341 original size:32 final size:32
Alignment explanation
Indices: 131284--131345 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
131274 GGTATAATTA
*
131284 TAATTAATATTGATTATAATTATAATTAAAGT
1 TAATTAATATTAATTATAATTATAATTAAAGT
131316 TAATT-ATATTAATT-TAAGTTAATAATTAAA
1 TAATTAATATTAATTATAA-TT-ATAATTAAA
131346 TCTGTTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 10 0.37
32 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (32 bp):
TAATTAATATTAATTATAATTATAATTAAAGT
Found at i:132599 original size:9 final size:10
Alignment explanation
Indices: 132527--132614 Score: 60
Period size: 11 Copynumber: 8.6 Consensus size: 10
132517 ACAATTAATC
132527 ATTATAATATT
1 ATTATAATA-T
*
132538 AATATAATAGT
1 ATTATAATA-T
*
132549 ATTATTA-AT
1 ATTATAATAT
132558 -TTATAAT-T
1 ATTATAATAT
132566 ATTAAAATAATAT
1 ATT---ATAATAT
132579 ATTATAAT-T
1 ATTATAATAT
132588 ATTA-AATAT
1 ATTATAATAT
132597 ATTCATTAATAT
1 ATT-A-TAATAT
132609 ATTATA
1 ATTATA
132615 TAATATAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
8 9 0.15
9 12 0.19
10 9 0.15
11 15 0.24
12 13 0.21
13 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
ATTATAATAT
Found at i:132609 original size:12 final size:12
Alignment explanation
Indices: 132529--132621 Score: 54
Period size: 12 Copynumber: 7.8 Consensus size: 12
132519 AATTAATCAT
*
132529 TATAATAT-TAA
1 TATAATATATTA
132540 TATAATAGTATTA
1 TATAATA-TATTA
132553 T-TAATTTATAATTA
1 TATAA--TAT-ATTA
* *
132567 T-TAAAATAATA
1 TATAATATATTA
*
132578 TATTATA-ATTA
1 TATAATATATTA
132589 T-TAAATATATTCA
1 TAT-AATATATT-A
132602 T-TAATATATTA
1 TATAATATATTA
132613 TATAATATA
1 TATAATATA
132622 AGCAAAGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
10 1 0.02
11 20 0.31
12 27 0.42
13 7 0.11
14 10 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
TATAATATATTA
Found at i:132895 original size:21 final size:20
Alignment explanation
Indices: 132857--132895 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
132847 TAGATTAATT
**
132857 AATAAAATTAATCTATTAAG
1 AATAAAATTAATAAATTAAG
132877 AATAATAATTAATAAATTA
1 AATAA-AATTAATAAATTA
132896 TTAATAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAAAATTAATAAATTAAG
Found at i:132901 original size:21 final size:20
Alignment explanation
Indices: 132854--132916 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
132844 AATTAGATTA
**
132854 ATTAATAAAATTAATCTATT
1 ATTAATAAAATTAATAAATT
**
132874 AAGAATAATAATTAATAAATT
1 ATTAATAA-AATTAATAAATT
*
132895 ATTAAT-AGATTAGATAAATT
1 ATTAATAAAATTA-ATAAATT
132915 AT
1 AT
132917 ATAACATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 14 0.41
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTAATAAAATTAATAAATT
Found at i:132913 original size:20 final size:18
Alignment explanation
Indices: 132879--132916 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
132869 CTATTAAGAA
132879 TAATAATTAATAAATTAT
1 TAATAATTAATAAATTAT
132897 TAATAGATTAGATAAATTAT
1 TAATA-ATTA-ATAAATTAT
132917 ATAACATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATAATTAATAAATTAT
Found at i:133810 original size:15 final size:16
Alignment explanation
Indices: 133781--133824 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
133771 ATTTTATTTA
133781 ATAATTATATATTAAAT
1 ATAA-TATATATTAAAT
*
133798 ATAATATAT-TTAATT
1 ATAATATATATTAAAT
133813 ATAATATTATAT
1 ATAATA-TATAT
133825 AGTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATATATTAAAT
Found at i:134148 original size:14 final size:14
Alignment explanation
Indices: 134115--134156 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
134105 TGTTACTGCA
*
134115 AATTTAATATAAAT
1 AATTTAATATTAAT
*
134129 AA-TTAAAATTAAT
1 AATTTAATATTAAT
134142 AATTTAATATTAAT
1 AATTTAATATTAAT
134156 A
1 A
134157 TTAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTAATATTAAT
Found at i:134499 original size:29 final size:28
Alignment explanation
Indices: 134450--134598 Score: 82
Period size: 29 Copynumber: 5.4 Consensus size: 28
134440 TATATACAAT
134450 TATTAATTAT-TAATTATTTAATATAATAA
1 TATT-ATTATATAATTA-TTAATATAATAA
* *
134479 TATTATTATATAATTTATTAATTTAAGT-T
1 TATTATTATATAA-TTATTAATATAA-TAA
* * *
134508 TATTAATA-ACAATTATATTAATATTATAA
1 TATTATTATATAA-T-TATTAATATAATAA
*
134537 -ATTAATA-ATAA-TA-TAA-ATAATAA
1 TATTATTATATAATTATTAATATAATAA
* *
134560 TATTATTAAAATGAATTA-TAATATAATCA
1 TATTATT-ATAT-AATTATTAATATAATAA
*
134589 TAATATTATA
1 TATTATTATA
134599 ATTTGATTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
23 6 0.06
24 8 0.08
25 3 0.03
26 2 0.02
27 2 0.02
28 28 0.29
29 43 0.45
30 4 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
TATTATTATATAATTATTAATATAATAA
Found at i:134503 original size:8 final size:7
Alignment explanation
Indices: 134447--134501 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
134437 TATTATATAC
134447 AATTATT
1 AATTATT
134454 AATTATT
1 AATTATT
134461 AATTATTT
1 AATTA-TT
*
134469 AATATAAT
1 AAT-TATT
134477 AA-TATT
1 AATTATT
134483 -ATTATAT
1 AATTAT-T
134490 AATTTATT
1 AA-TTATT
134498 AATT
1 AATT
134502 TAAGTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 1 0.03
6 6 0.15
7 15 0.38
8 12 0.30
9 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AATTATT
Found at i:134551 original size:16 final size:16
Alignment explanation
Indices: 134526--134585 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
134516 ACAATTATAT
*
134526 TAATATTATAAATTAA
1 TAATAATATAAATTAA
134542 TAATAATATAAA-TAA
1 TAATAATATAAATTAA
* *
134557 TAATATTATTAAAATGAA
1 TAATAATA-T-AAATTAA
*
134575 TTATAATATAA
1 TAATAATATAA
134586 TCATAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 10 0.28
16 14 0.39
17 4 0.11
18 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TAATAATATAAATTAA
Found at i:134670 original size:19 final size:20
Alignment explanation
Indices: 134636--134681 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
134626 TAAGAATTTT
*
134636 TAAATTAATAATTATAATT-A
1 TAAA-TAATAAATATAATTAA
134656 TAAATAATAAATATAATTAA
1 TAAATAATAAATATAATTAA
134676 TAAATA
1 TAAATA
134682 CAATTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATAATAAATATAATTAA
Done.