Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167869.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_138, 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: 68123
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Found at i:6412 original size:3 final size:3
Alignment explanation
Indices: 6404--6430 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6394 GGGGTTTTGG
6404 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
6431 GAATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9400 original size:22 final size:22
Alignment explanation
Indices: 9374--9417 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9364 TTCCCTCCCA
9374 ATATAACATCATATGTTAGGAT
1 ATATAACATCATATGTTAGGAT
*
9396 ATATAATATCATATGTTAGGAT
1 ATATAACATCATATGTTAGGAT
9418 TAAAGCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATAACATCATATGTTAGGAT
Found at i:11784 original size:26 final size:24
Alignment explanation
Indices: 11755--11812 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
11745 AAATTTAGAC
11755 AAAATTTCTCACTTAAGAATTTTATA
1 AAAATTTCTCACTTAA-AATTTT-TA
* * *
11781 AAAATTTATCATTTGAAATTTTTA
1 AAAATTTCTCACTTAAAATTTTTA
*
11805 TAAATTTC
1 AAAATTTC
11813 ATCATTGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 8 0.30
25 6 0.22
26 13 0.48
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (24 bp):
AAAATTTCTCACTTAAAATTTTTA
Found at i:11826 original size:26 final size:25
Alignment explanation
Indices: 11772--11826 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11762 CTCACTTAAG
*
11772 AATTTTATAAAAATTTATCATTTGA
1 AATTTTATAAAAATTTATCATTGGA
*
11797 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ATCATTGGA
11822 TAATT
1 -AATT
11827 AATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTTTATAAAAATTTATCATTGGA
Found at i:20325 original size:22 final size:22
Alignment explanation
Indices: 20300--20342 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20290 TATTCAAAAC
20300 TTATTCATTTATTATTCGTTTG
1 TTATTCATTTATTATTCGTTTG
* *
20322 TTATTCATTTGTTGTTCGTTT
1 TTATTCATTTATTATTCGTTT
20343 ATAATAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.12, T:0.65
Consensus pattern (22 bp):
TTATTCATTTATTATTCGTTTG
Found at i:20332 original size:11 final size:11
Alignment explanation
Indices: 20300--20334 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
20290 TATTCAAAAC
*
20300 TTATTCATTTA
1 TTATTCATTTG
*
20311 TTATTCGTTTG
1 TTATTCATTTG
20322 TTATTCATTTG
1 TTATTCATTTG
20333 TT
1 TT
20335 GTTCGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (11 bp):
TTATTCATTTG
Found at i:20425 original size:20 final size:20
Alignment explanation
Indices: 20396--20434 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20386 CCTATTTTAA
*
20396 GATTCGTTTATATTTATTTG
1 GATTCATTTATATTTATTTG
20416 GATTCATTTATATTTATTT
1 GATTCATTTATATTTATTT
20435 AGAGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
GATTCATTTATATTTATTTG
Found at i:20478 original size:14 final size:15
Alignment explanation
Indices: 20437--20478 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
20427 ATTTATTTAG
*
20437 AGTTTGTTTGTTTAA
1 AGTTTGTTTGATTAA
*
20452 A-TTTATTTGATTAA
1 AGTTTGTTTGATTAA
20466 AGTTTGTTT-ATTA
1 AGTTTGTTTGATTA
20479 TTTATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (15 bp):
AGTTTGTTTGATTAA
Found at i:31507 original size:22 final size:23
Alignment explanation
Indices: 31479--31522 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
31469 CGTAAACTAA
*
31479 TTACAAATATTT-TATTTATTTT
1 TTACAAATATTTATAATTATTTT
31501 TTACAAATATTTATAATTATTT
1 TTACAAATATTTATAATTATTT
31523 ATTATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TTACAAATATTTATAATTATTTT
Found at i:32397 original size:18 final size:18
Alignment explanation
Indices: 32354--32396 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
32344 AAAAATTAAC
32354 AAAAAAAA-CAAAAAGAA
1 AAAAAAAATCAAAAAGAA
32371 AAAAAAAATCATAAAAGAA
1 AAAAAAAATCA-AAAAGAA
32390 AAAAAAA
1 AAAAAAA
32397 TGAAAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 14 0.58
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAAAAATCAAAAAGAA
Found at i:34443 original size:2 final size:2
Alignment explanation
Indices: 34431--34464 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34421 TTAATCAAAC
*
34431 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34465 CATGATGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38978 original size:20 final size:20
Alignment explanation
Indices: 38932--38978 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
38922 ACAAAAGTCA
*
38932 CAAGTTGCCCTTTCATAACT
1 CAAGTTTCCCTTTCATAACT
*
38952 CAAGTTTCCCTTTTATAACT
1 CAAGTTTCCCTTTCATAACT
38972 CAAGTTT
1 CAAGTTT
38979 ATCTAGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (20 bp):
CAAGTTTCCCTTTCATAACT
Found at i:42826 original size:38 final size:38
Alignment explanation
Indices: 42739--42836 Score: 92
Period size: 41 Copynumber: 2.5 Consensus size: 38
42729 AAGTAGTATT
42739 ATATTATTATTTTAATAATAAATAATAACACATATAATA
1 ATATTATTATTTTAAT-ATAAATAATAACACATATAATA
* ** *
42778 ATATTTTTATTATTTTAATATTAATGTTAA-ATATTATAATA
1 ATA---TTATTATTTTAATATAAATAATAACACA-TATAATA
42819 ATATTATT-TTCTTAATAT
1 ATATTATTATT-TTAATAT
42837 GAATTTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
37 2 0.04
38 12 0.24
39 3 0.06
40 2 0.04
41 18 0.36
42 13 0.26
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (38 bp):
ATATTATTATTTTAATATAAATAATAACACATATAATA
Found at i:43023 original size:17 final size:16
Alignment explanation
Indices: 42985--43023 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
42975 TTAATATAAA
*
42985 ATATAAATATTTTAAT
1 ATATAAACATTTTAAT
43001 AGTATAAACATTTTAAT
1 A-TATAAACATTTTAAT
43018 CATATA
1 -ATATA
43024 TATTACTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.90
18 1 0.05
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (16 bp):
ATATAAACATTTTAAT
Found at i:43261 original size:25 final size:26
Alignment explanation
Indices: 43204--43262 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
43194 TATACTATTA
43204 ATTTT-ATAATAAATAATCTTTAAAT
1 ATTTTAATAATAAATAATCTTTAAAT
* *
43229 ATACTTTAATAATAAAT-ATTTTTTAAT
1 AT--TTTAATAATAAATAATCTTTAAAT
43256 ATTTTAA
1 ATTTTAA
43263 CAGTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 7 0.24
27 13 0.45
28 9 0.31
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTTAATAATAAATAATCTTTAAAT
Found at i:43831 original size:13 final size:13
Alignment explanation
Indices: 43813--43837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43803 GTGGAAAACT
43813 AAGTCAATAACCA
1 AAGTCAATAACCA
43826 AAGTCAATAACC
1 AAGTCAATAACC
43838 CCCAAAGAAC
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
AAGTCAATAACCA
Found at i:44544 original size:3 final size:3
Alignment explanation
Indices: 44536--44563 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44526 TAAAAGAATT
44536 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
44564 TATATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:45815 original size:18 final size:18
Alignment explanation
Indices: 45786--45826 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
45776 TGACAGAAAG
45786 TGAAAATTTA-TTTAAAA
1 TGAAAATTTATTTTAAAA
*
45803 TGAAAATTTTATTTTTAAA
1 TGAAAA-TTTATTTTAAAA
45822 TGAAA
1 TGAAA
45827 GGTTCATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
TGAAAATTTATTTTAAAA
Found at i:45933 original size:20 final size:19
Alignment explanation
Indices: 45917--45953 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
45907 GATTTTTATT
45917 TAAAATTTAA-AATTTTTA
1 TAAAATTTAATAATTTTTA
*
45935 TATAATTTAATAATTTTTA
1 TAAAATTTAATAATTTTTA
45954 AATAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATTTAATAATTTTTA
Found at i:45949 original size:19 final size:18
Alignment explanation
Indices: 45920--45958 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
45910 TTTTATTTAA
*
45920 AATTTAAAATTTTTATAT
1 AATTTAAAATTTTTAAAT
45938 AATTTAATAATTTTTAAAT
1 AATTTAA-AATTTTTAAAT
45957 AA
1 AA
45959 ACTTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTAAAATTTTTAAAT
Found at i:47171 original size:22 final size:22
Alignment explanation
Indices: 47142--47200 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
47132 ACAAAATACG
*
47142 AAATACAAAAGA-AAACCAAAA
1 AAATACAAAAGACAAAACAAAA
*
47163 ATAATACAAAATACAAAACAAAA
1 A-AATACAAAAGACAAAACAAAA
47186 AAA-ACAAAA-ACAAAA
1 AAATACAAAAGACAAAA
47201 AATACCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 12 0.35
23 9 0.26
ACGTcount: A:0.78, C:0.14, G:0.02, T:0.07
Consensus pattern (22 bp):
AAATACAAAAGACAAAACAAAA
Found at i:47202 original size:29 final size:30
Alignment explanation
Indices: 47170--47232 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
47160 AAAATAATAC
47170 AAAATA-CAAAACAAAAAAAACA-AAAACAA
1 AAAATACCAAAA-AAAAAAAACAGAAAACAA
* *
47199 AAAATACCAAAAAAAAAGAACAGAAGACAA
1 AAAATACCAAAAAAAAAAAACAGAAAACAA
47229 AAAA
1 AAAA
47233 AATTAAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.79, C:0.13, G:0.05, T:0.03
Consensus pattern (30 bp):
AAAATACCAAAAAAAAAAAACAGAAAACAA
Found at i:47205 original size:36 final size:37
Alignment explanation
Indices: 47101--47231 Score: 94
Period size: 36 Copynumber: 3.6 Consensus size: 37
47091 ATTTTTGTCC
* * * *
47101 CAAAATAAAATAAAATAAAAACAATAATATTACAAAATA
1 CAAAACAAAAGAAAACAAAAACAA-AA-AATACAAAATA
* *
47140 CGAAATACAAAAGAAAAC--CAA-AAATAATACAAAATA
1 C-AAA-ACAAAAGAAAACAAAAACAAAAAATACAAAATA
47176 CAAAACAAAA-AAAACAAAAACAAAAAATACCAAAA-A
1 CAAAACAAAAGAAAACAAAAACAAAAAATA-CAAAATA
* * *
47212 -AAAAGAACAGAAGACAAAAA
1 CAAAACAAAAGAAAACAAAAA
47232 AAATTAAGGA
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
33 5 0.07
34 6 0.08
35 12 0.16
36 28 0.38
37 6 0.08
38 2 0.03
39 3 0.04
40 3 0.04
41 9 0.12
ACGTcount: A:0.74, C:0.12, G:0.04, T:0.10
Consensus pattern (37 bp):
CAAAACAAAAGAAAACAAAAACAAAAAATACAAAATA
Found at i:48286 original size:22 final size:23
Alignment explanation
Indices: 48260--48302 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48250 TTTTTTATGC
*
48260 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
48282 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
48303 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:60024 original size:10 final size:9
Alignment explanation
Indices: 60009--60088 Score: 63
Period size: 9 Copynumber: 8.9 Consensus size: 9
59999 TATTTTGCTT
60009 AAAAAAAAG
1 AAAAAAAAG
* *
60018 CAAAAAATG
1 AAAAAAAAG
**
60027 -AAAAAATC
1 AAAAAAAAG
*
60035 AAAAAAAAT
1 AAAAAAAAG
* *
60044 CAAAAAATG
1 AAAAAAAAG
*
60053 AAAAAAATG
1 AAAAAAAAG
*
60062 AAAAAAAAT
1 AAAAAAAAG
60071 AAAAAAAATG
1 AAAAAAAA-G
60081 AAAAAAAA
1 AAAAAAAA
60089 TAAGAAAGGA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
8 7 0.12
9 42 0.74
10 8 0.14
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:60032 original size:18 final size:18
Alignment explanation
Indices: 60009--60088 Score: 83
Period size: 18 Copynumber: 4.4 Consensus size: 18
59999 TATTTTGCTT
*
60009 AAAAAAAAGCAAAAAATG
1 AAAAAAAAGAAAAAAATG
*
60027 AAAAAATCA-AAAAAAAT-
1 AAAAAA-AAGAAAAAAATG
* *
60044 CAAAAAATGAAAAAAATG
1 AAAAAAAAGAAAAAAATG
*
60062 AAAAAAAATAAAAAAAATG
1 AAAAAAAA-GAAAAAAATG
60081 AAAAAAAA
1 AAAAAAAA
60089 TAAGAAAGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
17 13 0.26
18 19 0.38
19 18 0.36
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAATG
Found at i:60038 original size:26 final size:26
Alignment explanation
Indices: 60009--60086 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
59999 TATTTTGCTT
*
60009 AAAAAAAAGCAAAAAATGAAAAAATC
1 AAAAAAAAACAAAAAATGAAAAAATC
* *
60035 AAAAAAAATCAAAAAATGAAAAAAATG
1 AAAAAAAAACAAAAAATG-AAAAAATC
*
60062 AAAAAAAATAAAAAAAATGAAAAAA
1 AAAAAAAA-ACAAAAAATGAAAAAA
60087 AATAAGAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 17 0.37
27 21 0.46
28 8 0.17
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AAAAAAAAACAAAAAATGAAAAAATC
Found at i:60048 original size:8 final size:8
Alignment explanation
Indices: 60011--60058 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
60001 TTTTGCTTAA
*
60011 AAAAAAGC
1 AAAAAATC
*
60019 AAAAAATG
1 AAAAAATC
60027 AAAAAATC
1 AAAAAATC
60035 AAAAAAAATC
1 --AAAAAATC
*
60045 AAAAAATG
1 AAAAAATC
60053 AAAAAA
1 AAAAAA
60059 ATGAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 26 0.76
10 8 0.24
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.08
Consensus pattern (8 bp):
AAAAAATC
Found at i:60089 original size:10 final size:10
Alignment explanation
Indices: 60019--60089 Score: 82
Period size: 10 Copynumber: 7.7 Consensus size: 10
60009 AAAAAAAAGC
60019 AAAAAATG--
1 AAAAAATGAA
*
60027 AAAAAATCAA
1 AAAAAATGAA
*
60037 AAAAAAT--C
1 AAAAAATGAA
60045 AAAAAATG-A
1 AAAAAATGAA
60054 AAAAAATGAA
1 AAAAAATGAA
60064 AAAAAAT-AA
1 AAAAAATGAA
60073 AAAAAATGAA
1 AAAAAATGAA
60083 AAAAAAT
1 AAAAAAT
60090 AAGAAAGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
8 14 0.25
9 17 0.31
10 24 0.44
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:60091 original size:19 final size:18
Alignment explanation
Indices: 60019--60087 Score: 88
Period size: 18 Copynumber: 3.8 Consensus size: 18
60009 AAAAAAAAGC
60019 AAAAAATG-AAAAAATCAA
1 AAAAAATGAAAAAAAT-AA
* *
60037 AAAAAAT-CAAAAAATGA
1 AAAAAATGAAAAAAATAA
60054 AAAAAATGAAAAAAAATAA
1 AAAAAATG-AAAAAAATAA
60073 AAAAAATGAAAAAAA
1 AAAAAATGAAAAAAA
60088 ATAAGAAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.18
18 21 0.47
19 16 0.36
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.10
Consensus pattern (18 bp):
AAAAAATGAAAAAAATAA
Found at i:61204 original size:36 final size:35
Alignment explanation
Indices: 61164--61967 Score: 209
Period size: 36 Copynumber: 23.0 Consensus size: 35
61154 CTTTAATCTT
*
61164 TGACTCGTGGTTTAATCCTGATCATTTCATTATTTC
1 TGACTCGCGGTTTAATCC-GATCATTTCATTATTTC
* * * *
61200 TGACTTGCGGTTCAATCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
*
61235 TGACTCGCGGTTTAATCTCGATCATTTCATTAATTC
1 TGACTCGCGGTTTAATC-CGATCATTTCATTATTTC
* * * * *
61271 TGACTTGCGGTTCAGTCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
61306 TGACTCGCGGTTTAATCCGATCATTTCATTAATTTC
1 TGACTCGCGGTTTAATCCGATCATTTCATT-ATTTC
* * * * *
61342 TGACTTGCGGTTCAGTCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
* * *
61377 TGACTTGC-GTTTAATCCCATCATTT-A--ATCT-
1 TGACTCGCGGTTTAATCCGATCATTTCATTATTTC
* * * *
61407 TGACTTGCGG-TTCATCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
* *
61441 TGACTCGTGGTTTAATCCCGATCATTTCATTAATTTT
1 TGACTCGCGGTTTAAT-CCGATCATTTCATT-ATTTC
* * * * *
61478 TGACTTGCGGTTCAGTCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
*
61513 TGACTCGTGGTTTAATCCCGATCATTTCATTAATTTC
1 TGACTCGCGGTTTAAT-CCGATCATTTCATT-ATTTC
* * * *
61550 T-ACTTGCGGTTTAGTCCCAGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
* *
61584 TGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTT
1 TGACTCGCGGTTTAAT-CCGATCATTTCATT-A-TTTC
** * *
61622 TGACTTACGGTTCAATCC-AGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
* *
61656 TGACTCGTGGTTTAATCTC-ATCATTTCA-T-TCTC
1 TGACTCGCGGTTTAATC-CGATCATTTCATTATTTC
* * *
61689 TGACTTGCGGTTCAATCCG-TCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGATCAT-TTCATTAT-TTC
** *
61722 T-ACTCATGGTTTAATCCCGATCATTTCATTAATT-
1 TGACTCGCGGTTTAAT-CCGATCATTTCATTATTTC
* * * *
61756 T-ACTTGCAGTTCAATCC-AGTCATCTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCAT-TTCATTAT-TTC
* *
61789 TAACTCGTGGTTTAATCCCG-TCATTTCATTAATTCTC
1 TGACTCGCGGTTTAAT-CCGATCATTTCATT-ATT-TC
* *
61826 TGACTTGCGGTTCAATTCCAGTAATCATTT-A--ATCTT-
1 TGACTCGCGGTTTAA-TCC-G--ATCATTTCATTAT-TTC
*
61862 TGACTCGTGGTTTAATCCGATCATTTCATTAATTTCC
1 TGACTCGCGGTTTAATCCGATCATTTCATT-ATTT-C
* * * *
61899 T-ACTTGCGGTTTAGTCCCAGTCATTT--TAATCTT-
1 TGACTCGCGGTTTAATCCGA-TCATTTCATTAT-TTC
* *
61932 TGACTCGTGGTTTAATCCGATTATTTCATTAATTTC
1 TGACTCGCGGTTTAATCCGATCATTTCATT-ATTTC
61968 CTCGATTTAC
Statistics
Matches: 564, Mismatches: 110, Indels: 188
0.65 0.13 0.22
Matches are distributed among these distances:
30 17 0.03
31 7 0.01
32 30 0.05
33 52 0.09
34 101 0.18
35 127 0.23
36 138 0.24
37 63 0.11
38 22 0.04
40 1 0.00
41 6 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.43
Consensus pattern (35 bp):
TGACTCGCGGTTTAATCCGATCATTTCATTATTTC
Found at i:61247 original size:71 final size:72
Alignment explanation
Indices: 61122--62023 Score: 1254
Period size: 71 Copynumber: 12.8 Consensus size: 72
61112 CAGTCTTATA
* * *
61122 TAATTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61187 ATTTCAT
66 ATTTCAT
* *
61194 T-ATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCTCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61258 ATTTCAT
66 ATTTCAT
* *
61265 TAA-TTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAAT-CCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61328 ATTTCAT
66 ATTTCAT
*
61335 TAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACT--TGCGTTTAATCCC-AT
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTG-GTTTAATCCCGAT
61397 CA--T--T
65 CATTTCAT
*
61401 TAATCT-TGACTTGCGGTTC-ATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61464 ATTTCAT
66 ATTTCAT
* *
61471 TAATTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61536 ATTTCAT
66 ATTTCAT
* *
61543 TAATTTCT-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61607 ATTTCAT
66 ATTTCAT
* * *
61614 TAATTTTTTGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTC-AT
1 TAA-TTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
61677 CATTTCA-
65 CATTTCAT
* *
61684 T--TCTCTGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-ACTCATGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61744 ATTTCAT
66 ATTTCAT
* *
61751 TAA-TT-T-ACTTGCAGTTCAAT-CCAGTCATCTTTAATCTTTAACTCGTGGTTTAATCCCG-TC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61811 ATTTCAT
66 ATTTCAT
* *
61818 TAATTCTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTAAT-CCGA
1 TAATT-TCTGACTTGCGGTTCAATCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTAATCCCGA
61882 TCATTTCAT
64 TCATTTCAT
* *
61891 TAATTTCCT-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCGTGGTTTAAT-CCGAT
1 TAATTT-CTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
*
61953 TATTTCAT
65 CATTTCAT
* * * *
61961 TAATTTCCTCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGATTCGTGGTTTAATCCC
1 TAATTT-CT-GACTTGCGGTTCAATCCCAGTCATCT-TTAATCTTTGACTCGTGGTTTAATCCC
62024 AATCTTCTTA
Statistics
Matches: 756, Mismatches: 41, Indels: 64
0.88 0.05 0.07
Matches are distributed among these distances:
64 25 0.03
65 38 0.05
66 52 0.07
67 49 0.06
68 21 0.03
69 2 0.00
70 80 0.11
71 264 0.35
72 150 0.20
73 73 0.10
74 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (72 bp):
TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
ATTTCAT
Found at i:61412 original size:30 final size:31
Alignment explanation
Indices: 61122--61747 Score: 178
Period size: 35 Copynumber: 18.0 Consensus size: 31
61112 CAGTCTTATA
* * *
61122 TAATTTTTGACTTACGGTTCAATCCCAGTCATCTT
1 TAATCTTTGACTTGC-GTTTAATCCCA-TCA--TT
*
61157 TAATCTTTGACTCGTG-GTTTAATCCTGATCATT
1 TAATCTTTGACT--TGCGTTTAATCC-CATCATT
*
61190 TCATTAT-TTCTGACTTGCGGTTCAATCCCAGTCATCTT
1 T-A--ATCTT-TGACTTGC-GTTTAATCCCA-TCA--TT
* *
61228 TAATCTTTGACTCGCGGTTTAATCTCGATCATT
1 TAATCTTTGACTTGC-GTTTAATC-CCATCATT
* * * *
61261 TCATTAATTCTGACTTGCGGTTCAGTCCCAGTCATCTT
1 T-AAT-CTT-TGACTTGC-GTTTAATCCCA-TCA--TT
* *
61299 TAATCTTTGACTCGCGGTTTAATCCGATCATTTCAT
1 TAATCTTTGACTTGC-GTTTAATCCCATCA--T--T
* *
61335 TAAT-TTCTGACTTGCGGTTCAGTCCCAGTCATCTT
1 TAATCTT-TGACTTGC-GTTTAATCCCA-TCA--TT
61370 TAATCTTTGACTTGCGTTTAATCCCATCATT
1 TAATCTTTGACTTGCGTTTAATCCCATCATT
* *
61401 TAATC-TTGACTTGCGGTTCATCCCAGTCATCTT
1 TAATCTTTGACTTGCGTTTAATCCCA-TCA--TT
61434 TAATCTTTGACTCGTG-GTTTAATCCCGATCATTTCAT
1 TAATCTTTGACT--TGCGTTTAATCCC-ATCA--T--T
* * *
61471 TAATTTTTGACTTGCGGTTCAGTCCCAGTCATCTT
1 TAATCTTTGACTTGC-GTTTAATCCCA-TCA--TT
61506 TAATCTTTGACTCGTG-GTTTAATCCCGATCATT
1 TAATCTTTGACT--TGCGTTTAATCCC-ATCATT
* * * *
61539 TCATTAATTTCTACTTGCGGTTTAGTCCCAGTCATCTT
1 T-AAT-CTTT-GACTTGC-GTTTAATCCCA-TCA--TT
61577 TAATCTTTGACTCGTG-GTTTAATCCCGATCATTTCAT
1 TAATCTTTGACT--TGCGTTTAATCCC-ATCA--T--T
* * *
61614 TAATTTTTTGACTTACGGTTCAAT-CCAGTCATCTT
1 TAA-TCTTTGACTTGC-GTTTAATCCCA-TCA--TT
*
61649 TAATCTTTGACTCGTG-GTTTAATCTCATCATT
1 TAATCTTTGACT--TGCGTTTAATCCCATCATT
* * *
61681 TCATTCTCTGACTTGCGGTTCAATCCGTCATC-TT
1 T-AATCTTTGACTTGC-GTTTAATCC--CATCATT
61715 TAATCTTT-ACTCATG-GTTTAATCCCGATCATT
1 TAATCTTTGACT--TGCGTTTAATCCC-ATCATT
61747 T
1 T
61748 CATTAATTTA
Statistics
Matches: 457, Mismatches: 65, Indels: 141
0.69 0.10 0.21
Matches are distributed among these distances:
30 19 0.04
31 15 0.03
32 17 0.04
33 40 0.09
34 51 0.11
35 149 0.33
36 92 0.20
37 51 0.11
38 23 0.05
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (31 bp):
TAATCTTTGACTTGCGTTTAATCCCATCATT
Found at i:61612 original size:143 final size:144
Alignment explanation
Indices: 61122--62023 Score: 1254
Period size: 143 Copynumber: 6.4 Consensus size: 144
61112 CAGTCTTATA
* * *
61122 TAATTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
*
61187 ATTTCATT-ATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAAT
66 ATTTCATTAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
*
61251 CTCGATCATTTCAT
131 CCCGATCATTTCAT
* *
61265 TAA-TTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAAT-CCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
*
61328 ATTTCATTAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACT--TGCGTTTAA
66 ATTTCATTAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTG-GTTTAA
61391 TCCC-ATCA--T--T
130 TCCCGATCATTTCAT
*
61401 TAATCT-TGACTTGCGGTTC-ATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
* *
61464 ATTTCATTAATTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
66 ATTTCATTAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
61529 CCCGATCATTTCAT
131 CCCGATCATTTCAT
* *
61543 TAATTTCT-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
* *
61607 ATTTCATTAATTTTTTGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
66 ATTTCATTAA-TTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
*
61671 TCTC-ATCATTTCA-
130 TCCCGATCATTTCAT
* *
61684 T--TCTCTGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-ACTCATGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
* *
61744 ATTTCATTAA-TT-T-ACTTGCAGTTCAAT-CCAGTCATCTTTAATCTTTAACTCGTGGTTTAAT
66 ATTTCATTAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
61805 CCCG-TCATTTCAT
131 CCCGATCATTTCAT
* *
61818 TAATTCTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTAAT-CCGA
1 TAATT-TCTGACTTGCGGTTCAATCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTAATCCCGA
* *
61882 TCATTTCATTAATTTCCT-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCGTGGTTT
64 TCATTTCATTAATTT-CTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTT
*
61945 AAT-CCGATTATTTCAT
128 AATCCCGATCATTTCAT
* * * *
61961 TAATTTCCTCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGATTCGTGGTTTAATCCC
1 TAATTT-CT-GACTTGCGGTTCAATCCCAGTCATCT-TTAATCTTTGACTCGTGGTTTAATCCC
62024 AATCTTCTTA
Statistics
Matches: 686, Mismatches: 40, Indels: 65
0.87 0.05 0.08
Matches are distributed among these distances:
133 55 0.08
134 2 0.00
135 37 0.05
136 77 0.11
137 59 0.09
138 25 0.04
139 11 0.02
140 44 0.06
141 38 0.06
142 124 0.18
143 166 0.24
144 48 0.07
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (144 bp):
TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
ATTTCATTAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
CCCGATCATTTCAT
Found at i:61758 original size:34 final size:32
Alignment explanation
Indices: 61720--61822 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 32
61710 ATCTTTAATC
61720 TTTACTCATGGTTTAATCCCGATCATTTCATTAA
1 TTTACTC-TGGTTTAATCCCG-TCATTTCATTAA
* * *
61754 TTTACT-TGCAGTTCAATCCAGTCA--TCTTTAA
1 TTTACTCTG--GTTTAATCCCGTCATTTCATTAA
61785 TCTTTAACTCGTGGTTTAATCCCGTCATTTCATTAA
1 --TTT-ACTC-TGGTTTAATCCCGTCATTTCATTAA
61821 TT
1 TT
61823 CTCTGACTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
31 6 0.11
32 2 0.04
33 6 0.11
34 32 0.59
36 8 0.15
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (32 bp):
TTTACTCTGGTTTAATCCCGTCATTTCATTAA
Found at i:61859 original size:349 final size:350
Alignment explanation
Indices: 61122--62022 Score: 1305
Period size: 349 Copynumber: 2.6 Consensus size: 350
61112 CAGTCTTATA
* * *
61122 TAATTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
* * *
61187 ATTTCATT-ATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAAT
66 ATTTCATTAATTTCT-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
* * * * *
61251 CTCGATCATTTCATTAA--TTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGC
130 CCCGATCATTTCATTAATTTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGT
* *
61314 GGTTTAATCCGATCATTTCATTAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTG
195 GGTTTAATCCGATCATTTCATT-ATCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTG
* * *
61379 ACTTGCGTTTAATCCCATCATTTAATCTTGACTTGCGGTTCATCCCAGTCATCTTTAATCTTTGA
259 ACTTGCGTTTAATCCCATCATTTAATATTGACTTGCAGTTCATCCCAGTCATCTTTAATCTTTAA
61444 CTCGTGGTTTAATCCCGATCATTTCAT
324 CTCGTGGTTTAATCCCGATCATTTCAT
* *
61471 TAATTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
1 TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
61536 ATTTCATTAATTTCTACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC
66 ATTTCATTAATTTCTACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC
61601 CCGATCATTTCATTAATTTTTTGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCGTG
131 CCGATCATTTCATTAATTTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTG
61665 GTTTAATCTC-ATCATTTCA-T-TCTCTGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-A
196 GTTTAATC-CGATCATTTCATTATCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGA
* *
61724 CTCATG-GTTTAATCCCGATCATTTCATTAATTTACTTGCAGTTCAAT-CCAGTCATCTTTAATC
260 CT--TGCGTTTAATCCC-ATCATTT-AAT-ATTGACTTGCAGTTC-ATCCCAGTCATCTTTAATC
61787 TTTAACTCGTGGTTTAATCCCG-TCATTTCAT
319 TTTAACTCGTGGTTTAATCCCGATCATTTCAT
* *
61818 TAATTCTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTAAT-CCGA
1 TAATT-TCTGACTTGCGGTTCAATCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTAATCCCGA
61882 TCATTTCATTAATTTCCTACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCGTGGTTTA
64 TCATTTCATTAATTT-CTACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTA
* * * * * *
61946 AT-CCGATTATTTCATTAATTTCCTCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGAT
128 ATCCCGATCATTTCATTAATTT-TTTGACTTACGGTTCAATCCCAGTCATCT-TTAATCTTTGAC
62009 TCGTGGTTTAATCC
191 TCGTGGTTTAATCC
62023 CAATCTTCTT
Statistics
Matches: 508, Mismatches: 28, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
344 3 0.01
345 26 0.05
346 11 0.02
347 52 0.10
348 134 0.26
349 216 0.43
350 49 0.10
351 17 0.03
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (350 bp):
TAATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
ATTTCATTAATTTCTACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC
CCGATCATTTCATTAATTTTTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTG
GTTTAATCCGATCATTTCATTATCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGAC
TTGCGTTTAATCCCATCATTTAATATTGACTTGCAGTTCATCCCAGTCATCTTTAATCTTTAACT
CGTGGTTTAATCCCGATCATTTCAT
Found at i:61865 original size:278 final size:280
Alignment explanation
Indices: 61128--62023 Score: 1277
Period size: 278 Copynumber: 3.2 Consensus size: 280
61118 TATATAATTT
* *
61128 TTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCA
1 TTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
* * *
61193 TTATTTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCTCGATC
66 TTAATT-TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
*
61258 ATTTCATTAA-TTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAAT
130 ATTTCATTAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
61322 CCGATCATTTCATTAA-TTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACT--TG
195 CCGATCATTTCATTAATTTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTG
*
61384 CGTTTAATCCCATCATTT-AATC
260 -GTTTAAT-CCATCATTTCATTC
61406 TTGACTTGCGGTTC-ATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
1 TTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
61470 TTAATTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
66 TTAA--TTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
*
61535 CATTTCATTAATTTCT-ACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
129 CATTTCATTAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
* * *
61599 TCCCGATCATTTCATTAATTTTTTGACTTACGGTTCAAT-CCAGTCATCTTTAATCTTTGACTCG
194 T-CCGATCATTTCATTAATTTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG
61663 TGGTTTAATCTCATCATTTCATTC
258 TGGTTTAATC-CATCATTTCATTC
*
61687 TCTGACTTGCGGTTCAAT-CC-GTCATCTTTAATCTTT-ACTCATGGTTTAATCCCGATCATTTC
1 T-TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
* *
61749 ATTAATTT-ACTTGCAGTTCAAT-CCAGTCATCTTTAATCTTTAACTCGTGGTTTAATCCCG-TC
65 ATTAATTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
* * *
61811 ATTTCATTAATTCTCTGACTTGCGGTTCAATTCCAGTAATCATTTAATCTTTGACTCGTGGTTTA
130 ATTTCATTAATT-TCTGACTTGCGGTTCAGTCCCAGTCATC-TTTAATCTTTGACTCGTGGTTTA
* *
61876 ATCCGATCATTTCATTAATTTCCT-ACTTGCGGTTTAGTCCCAGTCAT-TTTAATCTTTGACTCG
193 ATCCGATCATTTCATTAATTTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG
*
61939 TGGTTTAATCCGATTATTTCATTAATTTCC
258 TGGTTTAATCC-ATCATTTC----A-TT-C
* * * * *
61969 TCGATTTACGGTTCAATCCCAGTCAT-TGTTAATATTTGATTCGTGGTTTAATCCC
1 TTGACTTGCGGTTCAATCCCAGTCATCT-TTAATCTTTGACTCGTGGTTTAATCCC
62024 AATCTTCTTA
Statistics
Matches: 560, Mismatches: 32, Indels: 46
0.88 0.05 0.07
Matches are distributed among these distances:
275 15 0.03
276 84 0.15
277 112 0.20
278 153 0.27
279 46 0.08
280 63 0.11
281 37 0.07
282 20 0.04
283 15 0.03
284 15 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.43
Consensus pattern (280 bp):
TTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
TTAATTTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
TTTCATTAATTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC
CGATCATTTCATTAATTTTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGG
TTTAATCCATCATTTCATTC
Found at i:62475 original size:12 final size:11
Alignment explanation
Indices: 62457--62515 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
62447 ACAAAATACG
62457 AAATACAAAAA
1 AAATACAAAAA
62468 ATAATACAAAATA
1 A-AATACAAAA-A
62481 CAAA-AC-AAAA
1 -AAATACAAAAA
62491 AAAT-CAAAAA
1 AAATACAAAAA
*
62501 ATATA-AAAAA
1 AAATACAAAAA
62511 AAATA
1 AAATA
62516 AAAGACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
9 4 0.10
10 17 0.43
11 4 0.10
12 11 0.28
13 3 0.08
14 1 0.03
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:62493 original size:26 final size:26
Alignment explanation
Indices: 62441--62493 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
62431 TAAAAACAAT
* * * *
62441 AATATTACAAAATACGAAATACAAAA
1 AATAATACAAAATACAAAACAAAAAA
62467 AATAATACAAAATACAAAACAAAAAA
1 AATAATACAAAATACAAAACAAAAAA
62493 A
1 A
62494 TCAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (26 bp):
AATAATACAAAATACAAAACAAAAAA
Found at i:63591 original size:22 final size:23
Alignment explanation
Indices: 63565--63607 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
63555 TTTTTTTTGC
*
63565 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
63587 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
63608 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:65615 original size:3 final size:3
Alignment explanation
Indices: 65602--65633 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65592 GTTTAATCGT
*
65602 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65634 TGTTGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:66292 original size:198 final size:196
Alignment explanation
Indices: 65934--66300 Score: 512
Period size: 198 Copynumber: 1.9 Consensus size: 196
65924 CAAATTTTTA
65934 TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
1 TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
* * *
65999 TTTAAATAAAATTTTCACCTAGAGATTTCTTAGGAATTTATCATTTGAAATTTCTATGAATCTCA
66 TTTAAATAAAATTTTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTATAAATCTCA
* **
66064 TCCTTGGATAATTTGTATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
131 TCATTGGATAATTAATATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
66129 G
196 G
* *
66130 TTTGAAAAATAA-ACATTAATTAC-TATTATTGAAACTTTATCT-AATTATTCTACCATTTGGGA
1 TTTGAAAAATAATAC---AATTACTTA-TATTGAAACCTTATCTAAATTATTCCACCATTTGGGA
* *
66192 CAAATTTAGATAAACTTTCTCACCTA-AGAATTT-TATAGAAATTTACCATTTGAAATTTCTATA
62 CAAATTTAAATAAAATTT-TCACCTAGAG-ATTTCT-TAGAAATTTACCATTTGAAATTTCTATA
* *
66255 AATTTCATCATTGGATAATTAATCTTT-ATTCCCAAAATTTATTTTT
124 AATCTCATCATTGGATAATTAATATTTAATT-CCAAAATTTATTTTT
66301 TAAATTAAAT
Statistics
Matches: 151, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
195 2 0.01
196 12 0.08
197 43 0.28
198 94 0.62
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (196 bp):
TTTGAAAAATAATACAATTACTTATATTGAAACCTTATCTAAATTATTCCACCATTTGGGACAAA
TTTAAATAAAATTTTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTATAAATCTCA
TCATTGGATAATTAATATTTAATTCCAAAATTTATTTTTATTTTTTTATTTTTTATTATTTTTTG
G
Found at i:67098 original size:12 final size:13
Alignment explanation
Indices: 67081--67114 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
67071 TTATTTCTCC
67081 AAATAATAATT-A
1 AAATAATAATTCA
*
67093 AAATAAAAATTCA
1 AAATAATAATTCA
67106 AAATAATAA
1 AAATAATAA
67115 AATAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAATAATTCA
Found at i:67854 original size:14 final size:17
Alignment explanation
Indices: 67821--67860 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
67811 ATGATTCTTG
67821 GATTTGAAAATAAAAGT
1 GATTTGAAAATAAAAGT
67838 GATTT-AAAA-AAAA-T
1 GATTTGAAAATAAAAGT
67852 GATATTGAA
1 GAT-TTGAA
67861 GGAAGAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 6 0.29
16 6 0.29
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (17 bp):
GATTTGAAAATAAAAGT
Done.