Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 43 of 117
Found at i:10281820 original size:31 final size:32
Alignment explanation
Indices: 10281747--10281820 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 32
10281737 AAACCAAACC
*
10281747 CTAAA-CTAAACCCTAAACATAACCTTAGAGC
1 CTAAACCTAAACCCTAAACATAACCTTAGAGA
*
10281778 CTAAACC-AAACCTTAAAC-TAAACCTTA-A-A
1 CTAAACCTAAACCCTAAACAT-AACCTTAGAGA
10281807 CTAAACCCTAAACC
1 CTAAA-CCTAAACC
10281821 AAAACCCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 5 0.14
30 4 0.11
31 27 0.73
32 1 0.03
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (32 bp):
CTAAACCTAAACCCTAAACATAACCTTAGAGA
Found at i:10281832 original size:6 final size:7
Alignment explanation
Indices: 10281742--10281914 Score: 97
Period size: 7 Copynumber: 26.6 Consensus size: 7
10281732 CATGCAAACC
10281742 AAACCCT
1 AAACCCT
10281749 AAA--CT
1 AAACCCT
10281754 AAACCCT
1 AAACCCT
*
10281761 AAA-CAT
1 AAACCCT
*
10281767 -AACCTT
1 AAACCCT
* *
10281773 AGAGCCT
1 AAACCCT
10281780 AAA-CC-
1 AAACCCT
*
10281785 AAACCTT
1 AAACCCT
10281792 AAA--CT
1 AAACCCT
*
10281797 AAACCTT
1 AAACCCT
10281804 AAA--CT
1 AAACCCT
10281809 AAACCCT
1 AAACCCT
*
10281816 AAA-CCA
1 AAACCCT
10281822 AAACCCT
1 AAACCCT
10281829 -AACCCT
1 AAACCCT
*
10281835 AAACTCT
1 AAACCCT
10281842 AAACCCT
1 AAACCCT
*
10281849 AAAATCCT
1 -AAACCCT
*
10281857 AAACCAT
1 AAACCCT
*
10281864 AAACCAT
1 AAACCCT
10281871 AAACCCT
1 AAACCCT
*
10281878 AAACCAT
1 AAACCCT
**
10281885 AAACTTT
1 AAACCCT
10281892 AAACCC-
1 AAACCCT
10281898 --ACCCTT
1 AAACCC-T
10281904 AAACCCT
1 AAACCCT
10281911 AAAC
1 AAAC
10281915 TAATCCCCAA
Statistics
Matches: 126, Mismatches: 23, Indels: 34
0.69 0.13 0.19
Matches are distributed among these distances:
4 4 0.03
5 18 0.14
6 18 0.14
7 76 0.60
8 10 0.08
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:10281848 original size:14 final size:13
Alignment explanation
Indices: 10281777--10281928 Score: 100
Period size: 12 Copynumber: 11.7 Consensus size: 13
10281767 AACCTTAGAG
10281777 CCTAAACC-AAAC
1 CCTAAACCTAAAC
*
10281789 CTTAAA-CTAAAC
1 CCTAAACCTAAAC
*
10281801 CTTAAA-CTAAAC
1 CCTAAACCTAAAC
*
10281813 CCTAAACCAAAAC
1 CCTAAACCTAAAC
*
10281826 CCTAACCCTAAAC
1 CCTAAACCTAAAC
* *
10281839 TCTAAACCCTAAAAT
1 CCTAAA-CCT-AAAC
10281854 CCTAAACCATAAAC
1 CCTAAACC-TAAAC
*
10281868 CATAAACCCTAAAC
1 CCTAAA-CCTAAAC
* *
10281882 CATAAACTTTAAAC
1 CCTAAAC-CTAAAC
*
10281896 CC--ACCCTTAAAC
1 CCTAAACC-TAAAC
*
10281908 CCTAAA-CTAATC
1 CCTAAACCTAAAC
*
10281920 CCCAAACCT
1 CCTAAACCT
10281929 TAAAACTAAC
Statistics
Matches: 111, Mismatches: 18, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
11 1 0.01
12 44 0.40
13 24 0.22
14 31 0.28
15 11 0.10
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (13 bp):
CCTAAACCTAAAC
Found at i:10281860 original size:22 final size:21
Alignment explanation
Indices: 10281753--10281897 Score: 105
Period size: 19 Copynumber: 7.3 Consensus size: 21
10281743 AACCCTAAAC
*
10281753 TAAACCCTAAA-CAT-AACCT
1 TAAACCCTAAACCATAAACCA
* * *
10281772 TAGAGCCTAAACC--AAACCT
1 TAAACCCTAAACCATAAACCA
*
10281791 TAAA--CTAAACCTTAAA-C-
1 TAAACCCTAAACCATAAACCA
*
10281808 TAAACCCTAAACCA-AAACCC
1 TAAACCCTAAACCATAAACCA
*
10281828 T-AACCCTAAACTC-TAAACCC
1 TAAACCCTAAAC-CATAAACCA
*
10281848 TAAAATCCTAAACCATAAACCA
1 T-AAACCCTAAACCATAAACCA
**
10281870 TAAACCCTAAACCATAAACTT
1 TAAACCCTAAACCATAAACCA
10281891 TAAACCC
1 TAAACCC
10281898 ACCCTTAAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
17 11 0.11
18 4 0.04
19 38 0.37
20 10 0.10
21 25 0.24
22 16 0.15
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:10281913 original size:62 final size:60
Alignment explanation
Indices: 10281742--10281888 Score: 162
Period size: 55 Copynumber: 2.5 Consensus size: 60
10281732 CATGCAAACC
* * * * *
10281742 AAACCCTAAACTAAACCCTAAA-CATAACCTTAGAGCCTAAAC-C-AAA-CCTTAAA--CT
1 AAACCATAAACTAAACCCTAAACCAAAACCCTA-ACCCTAAACTCTAAACCCTAAAATCCT
*
10281797 AAACCTTAAACTAAACCCTAAACCAAAACCCTAACCCTAAACTCTAAACCCTAAAATCCT
1 AAACCATAAACTAAACCCTAAACCAAAACCCTAACCCTAAACTCTAAACCCTAAAATCCT
10281857 AAACCATAAACCATAAACCCTAAACCATAAAC
1 AAACCATAAA-C-TAAACCCTAAACCA-AAAC
10281889 TTTAAACCCA
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
55 29 0.38
56 9 0.12
57 3 0.04
58 6 0.08
60 11 0.14
61 1 0.01
62 14 0.18
63 4 0.05
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (60 bp):
AAACCATAAACTAAACCCTAAACCAAAACCCTAACCCTAAACTCTAAACCCTAAAATCCT
Found at i:10282072 original size:29 final size:28
Alignment explanation
Indices: 10282037--10282091 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
10282027 TTTTTCATTA
10282037 TCATGCATA-CATTACAAATATTATTATGT
1 TCATGCATACCATT-CAAATATT-TTATGT
*
10282066 TCATGCATACCATTCATATATTTTAT
1 TCATGCATACCATTCAAATATTTTAT
10282092 AAATAAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 16 0.67
30 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (28 bp):
TCATGCATACCATTCAAATATTTTATGT
Found at i:10288898 original size:2 final size:2
Alignment explanation
Indices: 10288891--10288927 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10288881 AAAGAAGAGG
10288891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10288928 AAATAAGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10289145 original size:14 final size:14
Alignment explanation
Indices: 10289128--10289163 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
10289118 TAATATTTTT
10289128 TAAAAATAATTTAA
1 TAAAAATAATTTAA
10289142 TAAAAAT--TTTAA
1 TAAAAATAATTTAA
10289154 TAAAAA-AATT
1 TAAAAATAATT
10289164 CAAATCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.55
13 2 0.10
14 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:10291514 original size:13 final size:14
Alignment explanation
Indices: 10291485--10291519 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10291475 AATATTCAAG
*
10291485 AATAATTATATTTT
1 AATAATAATATTTT
10291499 AATAATAATA-TTT
1 AATAATAATATTTT
10291512 AATAATAA
1 AATAATAA
10291520 AATATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:10291533 original size:16 final size:16
Alignment explanation
Indices: 10291485--10291534 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
10291475 AATATTCAAG
*
10291485 AATAATTATA-TT-TT
1 AATAATAATATTTATT
*
10291499 AATAATAATATTTAAT
1 AATAATAATATTTATT
10291515 AATAA-AATATTATATT
1 AATAATAATATT-TATT
10291531 AATA
1 AATA
10291535 TAAAAATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 9 0.30
15 8 0.27
16 13 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATAATAATATTTATT
Found at i:10291673 original size:17 final size:16
Alignment explanation
Indices: 10291645--10291690 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
10291635 TTAAAATAGT
10291645 AATA-TTAT-TATTAA
1 AATATTTATATATTAA
10291659 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
10291676 AATATTTATATATTA
1 AATATTTATATATTA
10291691 TATTGAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 5 0.17
17 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:10291673 original size:20 final size:19
Alignment explanation
Indices: 10291633--10291691 Score: 68
Period size: 17 Copynumber: 3.2 Consensus size: 19
10291623 TCTTTATTAA
* *
10291633 TATTAAAATAGTAATATTAT
1 TATTAAAATATTTATA-TAT
*
10291653 TATTAAAATA-TT-TATAC
1 TATTAAAATATTTATATAT
10291670 TATTAAAATATTTATATAT
1 TATTAAAATATTTATATAT
10291689 TAT
1 TAT
10291692 ATTGAAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 12 0.35
18 4 0.12
19 8 0.24
20 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTAAAATATTTATATAT
Found at i:10291951 original size:36 final size:34
Alignment explanation
Indices: 10291844--10291957 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 34
10291834 TCATATTAAA
* **
10291844 AAATAATATTATTATATTATTTAACATTAATTATT
1 AAATAATAATATTATA-TATTTATTATTAATTATT
* *
10291879 AAAATAATAAAATTATATATGTTATTATTTATTATT
1 -AAATAATAATATTATATAT-TTATTATTAATTATT
* *
10291915 AAATAATAATATAATACTATTTATTATTGAAATATT
1 AAATAATAATATTATA-TATTTATTATT-AATTATT
10291951 AAA-AATA
1 AAATAATA
10291958 TTCATTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
35 29 0.44
36 37 0.56
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (34 bp):
AAATAATAATATTATATATTTATTATTAATTATT
Found at i:10291964 original size:28 final size:28
Alignment explanation
Indices: 10291901--10291964 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
10291891 TTATATATGT
10291901 TATTATTTATTATTAAATAATAATATAA
1 TATTATTTATTATTAAATAATAATATAA
* *
10291929 TACTATTTATTATTGAAATATTAA-A-AA
1 TATTATTTATTATT-AAATAATAATATAA
10291956 TATTCATTT
1 TATT-ATTT
10291965 TTAATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 5 0.16
28 18 0.58
29 8 0.26
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (28 bp):
TATTATTTATTATTAAATAATAATATAA
Found at i:10293602 original size:29 final size:29
Alignment explanation
Indices: 10293570--10293625 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10293560 TTTTTATTAG
10293570 TTTAGTATTATTATTAAA-TTTATTTTTAT
1 TTTA-TATTATTATTAAAGTTTATTTTTAT
* * *
10293599 TTTATTTTGTTTTTAAAGTTTATTTTT
1 TTTATATTATTATTAAAGTTTATTTTT
10293626 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (29 bp):
TTTATATTATTATTAAAGTTTATTTTTAT
Found at i:10294758 original size:8 final size:8
Alignment explanation
Indices: 10294735--10294782 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
10294725 GCCATCCCTG
10294735 ATTTTTTT
1 ATTTTTTT
10294743 -TTTGTTTT
1 ATTT-TTTT
10294751 ATTTTTTT
1 ATTTTTTT
* *
10294759 ATTATTAT
1 ATTTTTTT
*
10294767 ATTTTTGT
1 ATTTTTTT
10294775 ATTTTTTT
1 ATTTTTTT
10294783 GGTATTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
7 3 0.09
8 27 0.82
9 3 0.09
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:10294813 original size:15 final size:15
Alignment explanation
Indices: 10294774--10294818 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
10294764 TATATTTTTG
*
10294774 TATTTTTTTGGTATT
1 TATTTTTTTTGTATT
* *
10294789 T-TGTATTTTGTATT
1 TATTTTTTTTGTATT
10294803 TATTTTTTTTGTATT
1 TATTTTTTTTGTATT
10294818 T
1 T
10294819 TGGATTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (15 bp):
TATTTTTTTTGTATT
Found at i:10294815 original size:22 final size:24
Alignment explanation
Indices: 10294769--10294826 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
10294759 ATTATTATAT
*
10294769 TTTTGTATTTTTTTGGTATTTTGTA
1 TTTTGTATTTATTT-GTATTTTGTA
10294794 TTTTGTATTTATTT-T-TTTTGTA
1 TTTTGTATTTATTTGTATTTTGTA
*
10294816 TTTTGGATTTA
1 TTTTGTATTTA
10294827 ATAATATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 17 0.55
23 1 0.03
25 13 0.42
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (24 bp):
TTTTGTATTTATTTGTATTTTGTA
Found at i:10295102 original size:52 final size:47
Alignment explanation
Indices: 10295019--10295155 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 47
10295009 TTGTCAAATA
*** *
10295019 AAAAATGCTCATCTCATTTGAGGCTCGACAACTTTTAAAAATTTAAAATCTG
1 AAAAA-GCTCATCTCAGCAGAGGCTCAACAAC-TTTAAAAA-TT--AATCTG
* *
10295071 AAAAAGACTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTCATCTT
1 AAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTAATCTG
*
10295118 AAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAA
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA
10295156 TCTCAGTAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
46 27 0.36
47 13 0.17
49 2 0.03
50 4 0.05
51 4 0.05
52 26 0.34
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (47 bp):
AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTAATCTG
Found at i:10295135 original size:46 final size:47
Alignment explanation
Indices: 10295066--10295156 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 47
10295056 AAAATTTAAA
10295066 ATCTGAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAATTC
1 ATCTGAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAATTC
* *
10295113 ATCTTAAAAAG-CTCTTCTCAGCAGAGGCTCAACAACTTTAAAAT
1 ATCTGAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAAT
10295157 CTCAGTAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (47 bp):
ATCTGAAAAAGACTCATCTCAGCAGAGGCTCAACAACTTTAAAATTC
Found at i:10295171 original size:28 final size:29
Alignment explanation
Indices: 10295127--10295189 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
10295117 TAAAAAGCTC
*
10295127 TTCTCAGCAGAGGCTCAACAACTTTAAAA
1 TTCTCAGCAGAGACTCAACAACTTTAAAA
* *
10295156 -TCTCAGTAGAGACTCAACAATTTTAAAA
1 TTCTCAGCAGAGACTCAACAACTTTAAAA
10295184 TTCTCA
1 TTCTCA
10295190 TTTGGAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (29 bp):
TTCTCAGCAGAGACTCAACAACTTTAAAA
Found at i:10295223 original size:76 final size:74
Alignment explanation
Indices: 10295081--10295231 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 74
10295071 AAAAAGACTC
* *
10295081 ATCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTAAAAAGCTCTTCTCAGCAGAGGCTCAAC
1 ATCTCAGCAGAGACTCAACAACTTTAAAATTCATCTTAAAAAGCTCCTCTCAGCAGAGGCTCAAC
10295146 AACTTTAAA
66 AACTTTAAA
* * * * *
10295155 ATCTCAGTAGAGACTCAACAATTTTAAAATTC-TCATTTGGAAAAGCTCCTCTCAGTATAGGCTC
1 ATCTCAGCAGAGACTCAACAACTTTAAAATTCATC--TT-AAAAAGCTCCTCTCAGCAGAGGCTC
10295219 AACAACTTTAAA
63 AACAACTTTAAA
10295231 A
1 A
10295232 ATCTTATCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 2 0.03
74 29 0.43
75 2 0.03
76 34 0.51
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (74 bp):
ATCTCAGCAGAGACTCAACAACTTTAAAATTCATCTTAAAAAGCTCCTCTCAGCAGAGGCTCAAC
AACTTTAAA
Found at i:10295298 original size:47 final size:47
Alignment explanation
Indices: 10295156--10295379 Score: 240
Period size: 48 Copynumber: 4.7 Consensus size: 47
10295146 AACTTTAAAA
* * * **
10295156 TCTCAGTAGAGACTCAACAATTTTAAAATTCTCAT-TTGGAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAA-TC-CATCTTAAAAAAGCTCC
* * * *
10295204 TCTCAGTATAGGCTCAACAACTTTAAAAATCTTATCTT-GAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATC-CATCTTAAAAAAGCTCC
10295252 TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTAAAAAAGCTCC
* * *
10295299 TTTCAGAAGAGGCTCAACAACTTT-AAATCCAT-TTCAAAAAAGTTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTT-AAAAAAGCTCC
* * *
10295345 TCTCAGCAAAGGCTCAATAACTTTAAAATCAATCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCT
10295380 CATATGTTCT
Statistics
Matches: 154, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
45 2 0.01
46 43 0.28
47 44 0.29
48 59 0.38
49 6 0.04
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (47 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTAAAAAAGCTCC
Found at i:10295360 original size:93 final size:94
Alignment explanation
Indices: 10295168--10295379 Score: 243
Period size: 93 Copynumber: 2.2 Consensus size: 94
10295158 TCAGTAGAGA
* ** * *
10295168 CTCAACAATTTTAAAATTCTCAT-TTGGAAAAGCTCCTCTCAGTATAGGCTCAACAACTTTAAAA
1 CTCAACAACTTTAAAA-TC-CATCTTAAAAAAGCTCCTCTCAGAAGAGGCTCAACAACTTT-AAA
** *
10295232 ATCTTATCTTGAAAAGCTCCTCTCAGCAGAGG
63 ATCTTATCTAAAAAAGCTCCTCTCAGCAAAGG
*
10295264 CTCAACAACTTTAAAATCCATCTTAAAAAAGCTCCTTTCAGAAGAGGCTCAACAACTTT-AAATC
1 CTCAACAACTTTAAAATCCATCTTAAAAAAGCTCCTCTCAGAAGAGGCTCAACAACTTTAAAAT-
*
10295328 CATT-TC-AAAAAAGTTCCTCTCAGCAAAGG
65 C-TTATCTAAAAAAGCTCCTCTCAGCAAAGG
* *
10295357 CTCAATAACTTTAAAATCAATCT
1 CTCAACAACTTTAAAATCCATCT
10295380 CATATGTTCT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
93 44 0.44
94 6 0.06
95 36 0.36
96 15 0.15
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (94 bp):
CTCAACAACTTTAAAATCCATCTTAAAAAAGCTCCTCTCAGAAGAGGCTCAACAACTTTAAAATC
TTATCTAAAAAAGCTCCTCTCAGCAAAGG
Found at i:10305982 original size:20 final size:20
Alignment explanation
Indices: 10305959--10306010 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10305949 TAAAAAAATA
*
10305959 TTTTTTGTTTTCTAG-TTTTT
1 TTTTTTGTTTT-GAGATTTTT
*
10305979 TTTTGTGTTTTGAGATTTTT
1 TTTTTTGTTTTGAGATTTTT
*
10305999 TGTTTTGTTTTG
1 TTTTTTGTTTTG
10306011 TTTTGTATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.06, C:0.02, G:0.17, T:0.75
Consensus pattern (20 bp):
TTTTTTGTTTTGAGATTTTT
Found at i:10307433 original size:18 final size:20
Alignment explanation
Indices: 10307393--10307436 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10307383 CTTCTCATTG
*
10307393 TTATTACTTATATTTTTATT
1 TTATTAATTATATTTTTATT
10307413 TTATTAATTA-ATTTTTA-T
1 TTATTAATTATATTTTTATT
10307431 TTATTA
1 TTATTA
10307437 CTGTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTAATTATATTTTTATT
Found at i:10308824 original size:13 final size:13
Alignment explanation
Indices: 10308806--10308847 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10308796 CCATCTCCGA
*
10308806 TTTTTTT-TTGTT
1 TTTTTTTATTATT
10308818 TTTTTTTATTATT
1 TTTTTTTATTATT
10308831 TTTTTTATATATATT
1 TTTTTT-TAT-TATT
10308846 TT
1 TT
10308848 GATATTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.27
13 10 0.38
14 3 0.12
15 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTTTATTATT
Found at i:10308885 original size:7 final size:7
Alignment explanation
Indices: 10308840--10308891 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
10308830 TTTTTTTATA
10308840 TATATTT
1 TATATTT
10308847 TGATATTT
1 T-ATATTT
*
10308855 TGTATTT
1 TATATTT
*
10308862 TGTATTT
1 TATATTT
*
10308869 ATATTTTTT
1 -TA-TATTT
10308878 TATATTT
1 TATATTT
10308885 TATATTT
1 TATATTT
10308892 AATAATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 24 0.63
8 10 0.26
9 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (7 bp):
TATATTT
Found at i:10312105 original size:24 final size:24
Alignment explanation
Indices: 10312073--10312118 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10312063 CACATCAATA
*
10312073 TAAATTTTATATACTATTAGTATT
1 TAAAATTTATATACTATTAGTATT
*
10312097 TAAAATTTATATATTATTAGTA
1 TAAAATTTATATACTATTAGTA
10312119 AATGAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TAAAATTTATATACTATTAGTATT
Found at i:10314607 original size:16 final size:16
Alignment explanation
Indices: 10314583--10314632 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10314573 AGAAGCAAAA
*
10314583 TTTTTTCTTGTATTTG
1 TTTTCTCTTGTATTTG
10314599 TTTTCTCTTGATATTT-
1 TTTTCTCTTG-TATTTG
10314615 TTCTTACTCTTG-ATTTG
1 TT-TT-CTCTTGTATTTG
10314632 T
1 T
10314633 ACTTCAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 15 0.52
17 8 0.28
18 6 0.21
ACGTcount: A:0.10, C:0.12, G:0.10, T:0.68
Consensus pattern (16 bp):
TTTTCTCTTGTATTTG
Found at i:10316461 original size:27 final size:26
Alignment explanation
Indices: 10316431--10316483 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10316421 ATGGAAACAT
*
10316431 GAAAGAAAAAAGAGAAAAATAAAAAAA
1 GAAACAAAAAA-AGAAAAATAAAAAAA
* *
10316458 GAAACAAAAAATGAAAAATGAAAAAA
1 GAAACAAAAAAAGAAAAATAAAAAAA
10316484 TGTGAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (26 bp):
GAAACAAAAAAAGAAAAATAAAAAAA
Found at i:10318718 original size:19 final size:19
Alignment explanation
Indices: 10318696--10318734 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10318686 AATTTGTTTA
10318696 TAATATAATA-TTTTGATTT
1 TAATATAATAGTTTT-ATTT
*
10318715 TAATATATTAGTTTTATTT
1 TAATATAATAGTTTTATTT
10318734 T
1 T
10318735 CTAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TAATATAATAGTTTTATTT
Found at i:10320124 original size:14 final size:16
Alignment explanation
Indices: 10320091--10320130 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
10320081 TCAAGTTTTC
*
10320091 AAATATAATTTTACAA
1 AAATATAATTTAACAA
10320107 AAAT-TAATTTAACAA
1 AAATATAATTTAACAA
10320122 AATATATAA
1 AA-ATATAA
10320131 AACTAGCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 12 0.57
16 6 0.29
17 3 0.14
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAATTTAACAA
Found at i:10322339 original size:21 final size:21
Alignment explanation
Indices: 10322299--10322350 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10322289 ATAATTTTTT
* *
10322299 AAATAAAAATATTTGATAAAC
1 AAATAAAATTATTTGATAAAA
*
10322320 AACTAAAATTATTT-ATTAAAA
1 AAATAAAATTATTTGA-TAAAA
10322341 AAATAAAATT
1 AAATAAAATT
10322351 CATATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATAAAATTATTTGATAAAA
Found at i:10322596 original size:21 final size:21
Alignment explanation
Indices: 10322556--10322597 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10322546 AATTTATTTT
*
10322556 TATATATATTGTTATATAATA
1 TATATATATTGATATATAATA
10322577 TATATATATTAGATAT-TAATA
1 TATATATATT-GATATATAATA
10322598 ATTAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TATATATATTGATATATAATA
Found at i:10324881 original size:14 final size:14
Alignment explanation
Indices: 10324862--10324905 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
10324852 AAGTGTCAGG
10324862 AGGAGGAGTAGGTT
1 AGGAGGAGTAGGTT
10324876 AGGAGGAGTAGGTT
1 AGGAGGAGTAGGTT
*
10324890 -GAGAAGAGTAGGTT
1 AG-GAGGAGTAGGTT
10324904 AG
1 AG
10324906 TATTTTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.48, T:0.20
Consensus pattern (14 bp):
AGGAGGAGTAGGTT
Found at i:10335148 original size:17 final size:17
Alignment explanation
Indices: 10335126--10335158 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10335116 TCGTCCACTT
10335126 CTTCTAATTTTGTTTTC
1 CTTCTAATTTTGTTTTC
*
10335143 CTTCTATTTTTGTTTT
1 CTTCTAATTTTGTTTT
10335159 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (17 bp):
CTTCTAATTTTGTTTTC
Found at i:10337662 original size:18 final size:19
Alignment explanation
Indices: 10337605--10337776 Score: 72
Period size: 19 Copynumber: 9.2 Consensus size: 19
10337595 ACAAATTTTC
* **
10337605 AAAATTCTAAAAATTCAAA
1 AAAATTCAAAAAATTTTAA
*
10337624 AATAATTTCAAAAAAATTTTAG
1 AA-AA-TTC-AAAAAATTTTAA
10337646 AAAATTCAAAAAA-TTTAA
1 AAAATTCAAAAAATTTTAA
* *
10337664 AAAATT-TAAAAATCTCTAA
1 AAAATTCAAAAAAT-TTTAA
* ** *
10337683 AAACTTTTAATAATTTTAA
1 AAAATTCAAAAAATTTTAA
** * *
10337702 AAAATT-GTAAAATATAAA
1 AAAATTCAAAAAATTTTAA
*
10337720 AAAATT---AAAATTTTGA
1 AAAATTCAAAAAATTTTAA
*
10337736 AAAATTCTAAAAA--TTAA
1 AAAATTCAAAAAATTTTAA
* *
10337753 AAACTTTCTAAAAACTTTTAA
1 AAA-ATTC-AAAAAATTTTAA
10337774 AAA
1 AAA
10337777 TTAATAAAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
16 13 0.11
17 11 0.09
18 26 0.22
19 34 0.29
20 11 0.09
21 12 0.10
22 10 0.09
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTCAAAAAATTTTAA
Found at i:10337712 original size:10 final size:9
Alignment explanation
Indices: 10337568--10337899 Score: 92
Period size: 9 Copynumber: 35.8 Consensus size: 9
10337558 TCAAAAACAC
*
10337568 AAAAAACTT
1 AAAAAATTT
10337577 -AAAAATTT
1 AAAAAATTT
*
10337585 -AAAAATCCT
1 AAAAAAT-TT
*
10337594 AACAAATTT
1 AAAAAATTT
**
10337603 TCAAAATTCT
1 AAAAAATT-T
*
10337613 -AAAAATTCA
1 AAAAAATT-T
10337622 AAAATAATTT
1 AAAA-AATTT
10337632 CAAAAAAATTTT
1 --AAAAAA-TTT
* *
10337644 AGAAAATTC
1 AAAAAATTT
10337653 AAAAAATTT
1 AAAAAATTT
10337662 AAAAAATTT
1 AAAAAATTT
10337671 -AAAAATCTCT
1 AAAAAAT-T-T
*
10337681 AAAAACTTTT
1 AAAAA-ATTT
* *
10337691 AATAATTTT
1 AAAAAATTT
10337700 AAAAAATTGT
1 AAAAAATT-T
*
10337710 --AAAATAT
1 AAAAAATTT
*
10337717 AAAAAAATT
1 AAAAAATTT
*
10337726 -AAAATTTT
1 AAAAAATTT
*
10337734 GAAAAATTCT
1 AAAAAATT-T
10337744 -AAAAA-TT
1 AAAAAATTT
*
10337751 AAAAACTTTCT
1 AAAAA-ATT-T
*
10337762 AAAAACTTT
1 AAAAAATTT
* *
10337771 TAAAAATTA
1 AAAAAATTT
*
10337780 ATAAAAATAT
1 A-AAAAATTT
**
10337790 AAAATTTTT
1 AAAAAATTT
*
10337799 AGAAAATTTT
1 A-AAAAATTT
*
10337809 AGAAAATTT
1 AAAAAATTT
* *
10337818 TAAAAATTC
1 AAAAAATTT
*
10337827 AAAAAGAATT
1 AAAAA-ATTT
* *
10337837 AAGGAAACTT
1 AA-AAAATTT
10337847 -AAAAA-TT
1 AAAAAATTT
10337854 AAAAAATTCT
1 AAAAAATT-T
* * *
10337864 AGAGAATCT
1 AAAAAATTT
10337873 AGAAAAATTT
1 A-AAAAATTT
**
10337883 TCAAAATTAT
1 AAAAAATT-T
10337893 AAAAAAT
1 AAAAAAT
10337900 ATAATAATTT
Statistics
Matches: 236, Mismatches: 57, Indels: 59
0.67 0.16 0.17
Matches are distributed among these distances:
7 4 0.02
8 43 0.18
9 98 0.42
10 64 0.27
11 19 0.08
12 8 0.03
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:10337739 original size:34 final size:34
Alignment explanation
Indices: 10337689--10337755 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
10337679 CTAAAAACTT
*
10337689 TTAATAATTTTAAAAAATTGTAAAATATAAAAAAA
1 TTAATAATTTTAAAAAATTCTAAAA-ATAAAAAAA
* *
10337724 TTAA-AATTTTGAAAAATTCTAAAAATTAAAAA
1 TTAATAATTTTAAAAAATTCTAAAAATAAAAAA
10337756 CTTTCTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.24
34 18 0.62
35 4 0.14
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (34 bp):
TTAATAATTTTAAAAAATTCTAAAAATAAAAAAA
Found at i:10337804 original size:11 final size:11
Alignment explanation
Indices: 10337790--10337818 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10337780 ATAAAAATAT
10337790 AAAATTTTTAG
1 AAAATTTTTAG
10337801 AAAA-TTTTAG
1 AAAATTTTTAG
10337811 AAAATTTT
1 AAAATTTT
10337819 AAAAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (11 bp):
AAAATTTTTAG
Found at i:10337823 original size:37 final size:37
Alignment explanation
Indices: 10337653--10337831 Score: 108
Period size: 38 Copynumber: 4.8 Consensus size: 37
10337643 TAGAAAATTC
* *
10337653 AAAAAATTTAAAAAATT-TAAAAATCTCTAAAAACTTT-T
1 AAAAATTTTAGAAAATTATAAAAA--T-TAAAAACTTTCT
* * * **
10337691 AATAATTTTAAAAAATTGT-AAAATATAAAAA-AAT-T
1 AAAAATTTTAGAAAATTATAAAAAT-TAAAAACTTTCT
*
10337726 -AAAATTTT-GAAAAATTCTAAAAATTAAAAACTTTCT
1 AAAAATTTTAG-AAAATTATAAAAATTAAAAACTTTCT
*
10337762 AAAAACTTTTA-AAAATTAATAAAAA-TATAAAA-TTTTT
1 AAAAA-TTTTAGAAAATT-ATAAAAATTA-AAAACTTTCT
*
10337799 AGAAAATTTTAGAAAATTTTAAAAATTCAAAAA
1 A-AAAATTTTAGAAAATTATAAAAATT-AAAAA
10337832 GAATTAAGGA
Statistics
Matches: 114, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
34 20 0.18
35 8 0.07
36 8 0.07
37 28 0.25
38 48 0.42
39 2 0.02
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (37 bp):
AAAAATTTTAGAAAATTATAAAAATTAAAAACTTTCT
Found at i:10338328 original size:30 final size:30
Alignment explanation
Indices: 10338292--10338351 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10338282 TTTTATTTTC
*
10338292 AATTTTTTATAAATTTCAAAATTTTTAAAA
1 AATTTTTTAGAAATTTCAAAATTTTTAAAA
** *
10338322 AATTTTTTAGAGTTTTTAAAATTTTTAAAA
1 AATTTTTTAGAAATTTCAAAATTTTTAAAA
10338352 TTTGTTGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
AATTTTTTAGAAATTTCAAAATTTTTAAAA
Found at i:10338346 original size:9 final size:9
Alignment explanation
Indices: 10338221--10338354 Score: 55
Period size: 9 Copynumber: 14.8 Consensus size: 9
10338211 TATTTTTTGA
10338221 AAAATTTTT
1 AAAATTTTT
**
10338230 AAAAAGTTT
1 AAAATTTTT
*
10338239 AAAATTTTC
1 AAAATTTTT
* *
10338248 CAAA-TTCT
1 AAAATTTTT
10338256 AATAATTTTT
1 AA-AATTTTT
* *
10338266 ATAATTTATA
1 AAAATTT-TT
10338276 AAAATATTTT
1 AAAAT-TTTT
10338286 ---A-TTTT
1 AAAATTTTT
* *
10338291 CAATTTTTT
1 AAAATTTTT
*
10338300 ATAAA-TTTC
1 A-AAATTTTT
10338309 AAAATTTTT
1 AAAATTTTT
10338318 AAAAAATTTTTT
1 --AAAA-TTTTT
* *
10338330 AGAGTTTTT
1 AAAATTTTT
10338339 AAAATTTTT
1 AAAATTTTT
10338348 AAAATTT
1 AAAATTT
10338355 GTTGAGACAT
Statistics
Matches: 89, Mismatches: 23, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
5 4 0.04
7 1 0.01
8 6 0.07
9 53 0.60
10 14 0.16
11 6 0.07
12 5 0.06
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (9 bp):
AAAATTTTT
Found at i:10338368 original size:30 final size:29
Alignment explanation
Indices: 10338309--10338372 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
10338299 TATAAATTTC
* *
10338309 AAAATTTTTAAAAAATTTTTTAGAGTTTTT
1 AAAATTTTT-AAAAATTTTTGAGAATTTTT
10338339 AAAATTTTT-AAAATTTGTTGAGACATTTTT
1 AAAATTTTTAAAAATTT-TTGAGA-ATTTTT
10338369 AAAA
1 AAAA
10338373 AATTTTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.23
29 5 0.17
30 18 0.60
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (29 bp):
AAAATTTTTAAAAATTTTTGAGAATTTTT
Found at i:10338481 original size:10 final size:10
Alignment explanation
Indices: 10338468--10338768 Score: 68
Period size: 10 Copynumber: 29.7 Consensus size: 10
10338458 TAAAAGTTTT
10338468 TTTTTTAGAA
1 TTTTTTAGAA
10338478 TTTTTTAGAA
1 TTTTTTAGAA
10338488 TTATTTT-GAA
1 TT-TTTTAGAA
*
10338498 -TTTTTATAA
1 TTTTTTAGAA
**
10338507 GATTTTA-AA
1 TTTTTTAGAA
**
10338516 TTTTTT-TTA
1 TTTTTTAGAA
10338525 TGCTTTTTA-AA
1 T--TTTTTAGAA
*
10338536 TGTTTTAGAA
1 TTTTTTAGAA
* * * *
10338546 ATTTTCATAT
1 TTTTTTAGAA
10338556 TTTTTTAGAA
1 TTTTTTAGAA
*
10338566 TTTTTGAGAA
1 TTTTTTAGAA
* **
10338576 ATTTAAAGAA
1 TTTTTTAGAA
**
10338586 TAATTTAGAA
1 TTTTTTAGAA
10338596 CTTTTTGTTA-AA
1 --TTTT-TTAGAA
*
10338608 ATTTTTA-ATA
1 TTTTTTAGA-A
*
10338618 TGTTTTGAGAA
1 T-TTTTTAGAA
***
10338629 TTTTTTCTACTTT
1 -TTTTT-TA-GAA
*
10338642 TTTTTTTGAA
1 TTTTTTAGAA
* *
10338652 TTTGTTAATAA
1 TTT-TTTAGAA
*
10338663 TTCTTTAGAA
1 TTTTTTAGAA
*
10338673 TTCTTTTATAA
1 TT-TTTTAGAA
*
10338684 TTTTGTAGAA
1 TTTTTTAGAA
*
10338694 TTGTTTA-AA
1 TTTTTTAGAA
**
10338703 AATTTTAGAA
1 TTTTTTAGAA
10338713 TTTGTTTA-AA
1 TTT-TTTAGAA
*
10338723 TTTTCTTATAA
1 TTTT-TTAGAA
*
10338734 -TTTTTAAAA
1 TTTTTTAGAA
*
10338743 GTTTTTTA-TA
1 -TTTTTTAGAA
*
10338753 -TTTTTATAA
1 TTTTTTAGAA
10338762 TTTTTTA
1 TTTTTTA
10338769 AGAAAAATTT
Statistics
Matches: 206, Mismatches: 58, Indels: 54
0.65 0.18 0.17
Matches are distributed among these distances:
8 10 0.05
9 33 0.16
10 100 0.49
11 48 0.23
12 12 0.06
13 3 0.01
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:10338717 original size:20 final size:20
Alignment explanation
Indices: 10338643--10338748 Score: 78
Period size: 20 Copynumber: 5.2 Consensus size: 20
10338633 TTCTACTTTT
*
10338643 TTTTTTGAATTTG-TTAATAA
1 TTTTTAGAATTTGTTTAA-AA
*
10338663 TTCTTTAGAATTCT-TTTATAA
1 TT-TTTAGAATT-TGTTTAAAA
10338684 TTTTGTAGAA-TTGTTTAAAA
1 TTTT-TAGAATTTGTTTAAAA
* *
10338704 ATTTTAGAATTTGTTTAAAT
1 TTTTTAGAATTTGTTTAAAA
*
10338724 TTTCTTATAA-TT-TTTAAAA
1 TTT-TTAGAATTTGTTTAAAA
10338743 GTTTTT
1 -TTTTT
10338749 TATATTTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
19 14 0.20
20 30 0.43
21 22 0.31
22 4 0.06
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTTAGAATTTGTTTAAAA
Found at i:10338741 original size:19 final size:17
Alignment explanation
Indices: 10338717--10338768 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
10338707 TTAGAATTTG
10338717 TTTAAATTTTCTTATAATT
1 TTTAAATTTT-TTAT-ATT
10338736 TTTAAAAGTTTTTTATATT
1 TTT-AAA-TTTTTTATATT
10338755 TTTATAATTTTTTA
1 TTTA-AATTTTTTA
10338769 AGAAAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.27
19 11 0.37
20 7 0.23
21 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTAAATTTTTTATATT
Found at i:10338758 original size:8 final size:9
Alignment explanation
Indices: 10338676--10338766 Score: 51
Period size: 9 Copynumber: 9.4 Consensus size: 9
10338666 TTTAGAATTC
10338676 TTTTATAAT
1 TTTTATAAT
*
10338685 TTTGTAGAAT
1 TTT-TATAAT
* *
10338695 TGTTTAAAAA
1 T-TTTATAAT
*
10338705 TTTTAGAAT
1 TTTTATAAT
10338714 TTGTT-TAAATT
1 TT-TTAT-AA-T
10338725 TTCTTATAAT
1 TT-TTATAAT
*
10338735 TTTTAAAAGT
1 TTTTATAA-T
10338745 TTTT-TATAT
1 TTTTATA-AT
10338754 TTTTATAAT
1 TTTTATAAT
10338763 TTTT
1 TTTT
10338767 TAAGAAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
9 28 0.44
10 26 0.41
11 9 0.14
12 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10344381 original size:21 final size:20
Alignment explanation
Indices: 10344344--10344382 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10344334 ATATAAAAAA
**
10344344 ATTTAAAAATATTTTAATTT
1 ATTTAAAAATAAATTAATTT
10344364 ATTTAAAAAATAAATTAAT
1 ATTT-AAAAATAAATTAAT
10344383 AATTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAAAAATAAATTAATTT
Found at i:10344611 original size:19 final size:19
Alignment explanation
Indices: 10344564--10344604 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10344554 ATTTGGGTAA
* *
10344564 TTATTCGTATCTAATCATG
1 TTATTCATATATAATCATG
*
10344583 TTTTTCATATATAATCATG
1 TTATTCATATATAATCATG
10344602 TTA
1 TTA
10344605 ATTATATTGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
TTATTCATATATAATCATG
Found at i:10346765 original size:131 final size:131
Alignment explanation
Indices: 10346598--10346861 Score: 465
Period size: 131 Copynumber: 2.0 Consensus size: 131
10346588 TCGACTTTAG
* * *
10346598 AGAATATGGCCAAGTAGGTTAGCGCTTTATCTAGATACTTCCTTATTTATTCTTTTTTAGCTCTA
1 AGAATATGACCAAGTAGGTTAGCGCTTTATCTAGATACTTCCTTATTCATTCTTCTTTAGCTCTA
* *
10346663 AACTTTTTGTTTATTTGGCTAACCACTAGTTGTGAGTAGCTGTATACAATAATATTTTTCACGTT
66 AACTTTTTATTTATTTGGCTAACCACTAGTTGTGAGTAGCTATATACAATAATATTTTTCACGTT
10346728 T
131 T
* *
10346729 AGAATGTGACCAAGTAGGTTAGTGCTTTATCTAGATACTTCCTTATTCATTCTTCTTTAGCTCTA
1 AGAATATGACCAAGTAGGTTAGCGCTTTATCTAGATACTTCCTTATTCATTCTTCTTTAGCTCTA
10346794 AACTTTTTATTTATTTGGCTAACCACTAGTTGTGAGTAGCTATATACAATAATATTTTTCACGTT
66 AACTTTTTATTTATTTGGCTAACCACTAGTTGTGAGTAGCTATATACAATAATATTTTTCACGTT
10346859 T
131 T
10346860 AG
1 AG
10346862 CTTAGTTGCC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 126 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (131 bp):
AGAATATGACCAAGTAGGTTAGCGCTTTATCTAGATACTTCCTTATTCATTCTTCTTTAGCTCTA
AACTTTTTATTTATTTGGCTAACCACTAGTTGTGAGTAGCTATATACAATAATATTTTTCACGTT
T
Found at i:10349388 original size:34 final size:34
Alignment explanation
Indices: 10349350--10349415 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
10349340 GCATTTTGGG
*
10349350 TCAAATCTCTAAACTTCCTATTTGATTTGTTGCA
1 TCAAATCTCTAAACTTCCTATCTGATTTGTTGCA
* * *
10349384 TCAAATTTCTAAACTTCTTGTCTGATTTGTTG
1 TCAAATCTCTAAACTTCCTATCTGATTTGTTG
10349416 TGTTTTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (34 bp):
TCAAATCTCTAAACTTCCTATCTGATTTGTTGCA
Found at i:10350894 original size:23 final size:23
Alignment explanation
Indices: 10350856--10350906 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10350846 ATAATCTGCT
* * *
10350856 AAATGAGTGTATACAATGGTTCA
1 AAATGAGAGTAAACAAAGGTTCA
*
10350879 GAATGAGAGTAAACAAAGGTTCA
1 AAATGAGAGTAAACAAAGGTTCA
10350902 AAATG
1 AAATG
10350907 TTAGGTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.24
Consensus pattern (23 bp):
AAATGAGAGTAAACAAAGGTTCA
Found at i:10357313 original size:22 final size:22
Alignment explanation
Indices: 10357288--10357348 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
10357278 CTGATTTTTT
10357288 AGCTTAGATTAGTTGGCACCCA
1 AGCTTAGATTAGTTGGCACCCA
* *
10357310 AGCTTAGATTAGTTGACACCTA
1 AGCTTAGATTAGTTGGCACCCA
* *
10357332 AGCCTAGATTAGCTGGC
1 AGCTTAGATTAGTTGGC
10357349 TTTTTAAGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (22 bp):
AGCTTAGATTAGTTGGCACCCA
Found at i:10357837 original size:22 final size:22
Alignment explanation
Indices: 10357794--10357837 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10357784 AACATTTGTA
*
10357794 TATAATCTTTAAGACTTCTAAG
1 TATAATCTTTAAGACCTCTAAG
*
10357816 TATAAT-TTTCAAGACCTGTAAG
1 TATAATCTTT-AAGACCTCTAAG
10357838 CAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (22 bp):
TATAATCTTTAAGACCTCTAAG
Found at i:10357940 original size:19 final size:19
Alignment explanation
Indices: 10357916--10357969 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
10357906 TATAGGTATA
*
10357916 ATTTTCAAGACCTTCGGGT
1 ATTTTCAAGAGCTTCGGGT
10357935 ATTTTCAAGAGCTTCGGGT
1 ATTTTCAAGAGCTTCGGGT
10357954 ATTTTCAAGAGCTTCG
1 ATTTTCAAGAGCTTCG
10357970 AGCAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (19 bp):
ATTTTCAAGAGCTTCGGGT
Found at i:10358371 original size:23 final size:23
Alignment explanation
Indices: 10358341--10358397 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
10358331 AAAAGAAATT
* *
10358341 AAAAA-AAAACCAAAAT-TCAAG
1 AAAAACAAAAACAAAATAACAAG
10358362 AAAAACAAAAACAAAATAACAAG
1 AAAAACAAAAACAAAATAACAAG
10358385 AAATCAACAAAAA
1 AAA--AACAAAAA
10358398 AATGTTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 10 0.33
23 7 0.23
25 8 0.27
ACGTcount: A:0.75, C:0.14, G:0.04, T:0.07
Consensus pattern (23 bp):
AAAAACAAAAACAAAATAACAAG
Found at i:10358692 original size:4 final size:4
Alignment explanation
Indices: 10358683--10358711 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
10358673 TATGTATATG
10358683 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
10358712 TATTATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:10364672 original size:2 final size:2
Alignment explanation
Indices: 10364667--10364700 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
10364657 GAAAAAACGG
*
10364667 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10364701 CACACACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10365632 original size:18 final size:18
Alignment explanation
Indices: 10365596--10365633 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10365586 TTGCAAAAAG
*
10365596 AAAAACAAAAATAAGGAA
1 AAAAACAAAAACAAGGAA
10365614 AAAAACAGAAAACAA-GAA
1 AAAAACA-AAAACAAGGAA
10365632 AA
1 AA
10365634 GTAGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.79, C:0.08, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAACAAAAACAAGGAA
Found at i:10365652 original size:22 final size:23
Alignment explanation
Indices: 10365622--10365664 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10365612 AAAAAAACAG
*
10365622 AAAACAAG-AAAAGTAGAAAAAT
1 AAAACAAGAAAAAATAGAAAAAT
*
10365644 AAAATAAGAAAAAATAGAAAA
1 AAAACAAGAAAAAATAGAAAA
10365665 TAAGGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (23 bp):
AAAACAAGAAAAAATAGAAAAAT
Found at i:10369018 original size:24 final size:24
Alignment explanation
Indices: 10368986--10369032 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10368976 AAATCCTTAG
* *
10368986 TTCATTTAATTGGGCTTAAACTTT
1 TTCAATTAATCGGGCTTAAACTTT
*
10369010 TTCAATTAATCGTGCTTAAACTT
1 TTCAATTAATCGGGCTTAAACTT
10369033 ATACGAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (24 bp):
TTCAATTAATCGGGCTTAAACTTT
Found at i:10369232 original size:15 final size:15
Alignment explanation
Indices: 10369212--10369245 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10369202 AAAAATTTAC
10369212 AAAAGTTAAAAACAA
1 AAAAGTTAAAAACAA
*
10369227 AAAAGTTAAAAATAA
1 AAAAGTTAAAAACAA
10369242 AAAA
1 AAAA
10369246 AAATTATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAAGTTAAAAACAA
Found at i:10370986 original size:22 final size:20
Alignment explanation
Indices: 10370954--10371018 Score: 112
Period size: 20 Copynumber: 3.1 Consensus size: 20
10370944 ATTTTATATC
10370954 TATATTAAAAAATAATATTT
1 TATATTAAAAAATAATATTT
10370974 TATATTTTAAAAAATAATATTT
1 TATA--TTAAAAAATAATATTT
10370996 TATATTAAAAAATAATATTT
1 TATATTAAAAAATAATATTT
10371016 TAT
1 TAT
10371019 TAATTTTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
20 23 0.53
22 20 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATATTAAAAAATAATATTT
Found at i:10374455 original size:26 final size:26
Alignment explanation
Indices: 10374398--10374457 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10374388 GTAATATCAT
*
10374398 ATTTATTATGATTATAAATATAATAA
1 ATTTTTTATGATTATAAATATAATAA
* * *
10374424 AATTTTTATGATTAT-TATGATTATAA
1 ATTTTTTATGATTATAAAT-ATAATAA
10374450 ATTTTTTA
1 ATTTTTTA
10374458 AAATTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (26 bp):
ATTTTTTATGATTATAAATATAATAA
Found at i:10374536 original size:25 final size:24
Alignment explanation
Indices: 10374508--10374561 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
10374498 TATTAGTTAT
10374508 AAAAATAGAAA-AGAAAAAAAGTAGA
1 AAAAATA-AAATAGAAAAAAA-TAGA
* *
10374533 AAAAATAAAATAGGAAAAAATTGA
1 AAAAATAAAATAGAAAAAAATAGA
10374557 AAAAA
1 AAAAA
10374562 ATTGGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (24 bp):
AAAAATAAAATAGAAAAAAATAGA
Found at i:10374542 original size:15 final size:14
Alignment explanation
Indices: 10374509--10374553 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
10374499 ATTAGTTATA
*
10374509 AAAATAGAAAAGAAA
1 AAAATAGAAAA-AAT
10374524 AAAAGTAGAAAAAAT
1 AAAA-TAGAAAAAAT
10374539 AAAATAGGAAAAAAT
1 AAAATA-GAAAAAAT
10374554 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (14 bp):
AAAATAGAAAAAAT
Found at i:10374542 original size:16 final size:16
Alignment explanation
Indices: 10374506--10374542 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10374496 ATTATTAGTT
10374506 ATAAAAATAGAAAAGA
1 ATAAAAATAGAAAAGA
10374522 A-AAAAAGTAGAAAA-A
1 ATAAAAA-TAGAAAAGA
10374537 ATAAAA
1 ATAAAA
10374543 TAGGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
ATAAAAATAGAAAAGA
Found at i:10380961 original size:15 final size:15
Alignment explanation
Indices: 10380941--10380975 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10380931 AAAAATTTAC
10380941 AAAAGTTAAAAACAA
1 AAAAGTTAAAAACAA
*
10380956 AAAAGTTAAAAATAA
1 AAAAGTTAAAAACAA
10380971 AAAAG
1 AAAAG
10380976 AATTATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAGTTAAAAACAA
Found at i:10382639 original size:8 final size:8
Alignment explanation
Indices: 10382628--10382666 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10382618 TAATTTTTAG
10382628 TTTATATA
1 TTTATATA
10382636 TTTATATA
1 TTTATATA
*
10382644 ATTATATAA
1 TTTATAT-A
10382653 TTT-TATA
1 TTTATATA
10382660 TTTATAT
1 TTTATAT
10382667 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 20 0.74
9 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:10382676 original size:24 final size:24
Alignment explanation
Indices: 10382632--10382707 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 24
10382622 TTTTAGTTTA
* *
10382632 TATATTTATA-TAATTATATAATTT
1 TATATTTATATTAA-AAAATAATTT
10382656 TATATTTATATTAAAAAATAA---
1 TATATTTATATTAAAAAATAATTT
*
10382677 TAT-TTTATTTTAAAAAATAATATT
1 TATATTTATATTAAAAAATAAT-TT
10382701 GTATATT
1 -TATATT
10382708 AAAAAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 16 0.38
21 3 0.07
24 15 0.36
25 6 0.14
26 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
TATATTTATATTAAAAAATAATTT
Found at i:10382689 original size:20 final size:20
Alignment explanation
Indices: 10382660--10382722 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
10382650 TAATTTTATA
10382660 TTTATATTAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
*
10382680 TTTATTTTAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
*
10382700 TGTATATT-AAAAA-AATAT
1 TTTATATTAAAAAATAATAT
10382718 TTTAT
1 TTTAT
10382723 TAATTTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.23
19 5 0.13
20 25 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTATATTAAAAAATAATAT
Found at i:10385247 original size:51 final size:51
Alignment explanation
Indices: 10385171--10385269 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
10385161 CTTTTATGTA
* *
10385171 AATGAAATTAAGCTTATTCAAAAGAAAGAAACGTGAGAAAGAGAAGAACTC
1 AATGAAATTAAGCTTATCCAAAAGAAAGAAACGTGACAAAGAGAAGAACTC
*
10385222 AATGAAATTGAGCTTATCCAAAAGAAAGAAACGTGACAAAGAGAAGAA
1 AATGAAATTAAGCTTATCCAAAAGAAAGAAACGTGACAAAGAGAAGAA
10385270 ATATATTACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.54, C:0.10, G:0.20, T:0.16
Consensus pattern (51 bp):
AATGAAATTAAGCTTATCCAAAAGAAAGAAACGTGACAAAGAGAAGAACTC
Found at i:10386120 original size:17 final size:17
Alignment explanation
Indices: 10386095--10386128 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10386085 TATGACAACG
*
10386095 ATCACATTTTTAATGAT
1 ATCACATTTATAATGAT
*
10386112 ATCATATTTATAATGAT
1 ATCACATTTATAATGAT
10386129 TATAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCACATTTATAATGAT
Found at i:10386390 original size:19 final size:19
Alignment explanation
Indices: 10386368--10386408 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10386358 ATAATAAGAG
10386368 ATAAATAAACATATAAAA-A
1 ATAAATAAACATA-AAAATA
*
10386387 ATAAATAATCATAAAAATA
1 ATAAATAAACATAAAAATA
10386406 ATA
1 ATA
10386409 TATTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAATAAACATAAAAATA
Found at i:10388149 original size:8 final size:8
Alignment explanation
Indices: 10388138--10388176 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10388128 TAATTTTTAG
10388138 TTTATATA
1 TTTATATA
10388146 TTTATATA
1 TTTATATA
*
10388154 ATTATATAA
1 TTTATAT-A
10388163 TTT-TATA
1 TTTATATA
10388170 TTTATAT
1 TTTATAT
10388177 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 20 0.74
9 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:10388186 original size:24 final size:25
Alignment explanation
Indices: 10388142--10388195 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
10388132 TTTTAGTTTA
* *
10388142 TATATTTATATAATTATATAAT-TT
1 TATATTTATATAATAAAATAATATT
10388166 TATATTTATATTAA-AAAATAATATT
1 TATATTTATA-TAATAAAATAATATT
10388191 T-TATT
1 TATATT
10388196 AATTTCGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTTATATAATAAAATAATATT
Found at i:10390909 original size:26 final size:26
Alignment explanation
Indices: 10390875--10390955 Score: 71
Period size: 25 Copynumber: 3.1 Consensus size: 26
10390865 ACACAAACTT
10390875 AATAAAAATTTATCTTGATATTTATA
1 AATAAAAATTTATCTTGATATTTATA
*
10390901 AATATAAATATATATC-T-ATAATTT-T-
1 AATA-AAA-ATTTATCTTGAT-ATTTATA
* *
10390926 AATAGAAATTTTATTTTGATATTTATA
1 AATA-AAAATTTATCTTGATATTTATA
10390953 AAT
1 AAT
10390956 CAAGAGTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
24 4 0.09
25 12 0.28
26 10 0.23
27 11 0.26
28 6 0.14
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (26 bp):
AATAAAAATTTATCTTGATATTTATA
Found at i:10391665 original size:22 final size:22
Alignment explanation
Indices: 10391630--10391671 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10391620 TATTCAATTT
*
10391630 ATTATTAAATATAATATTTTTA
1 ATTATTAAATATAAAATTTTTA
10391652 ATTATT-AATGATAAAATTTT
1 ATTATTAAAT-ATAAAATTTT
10391672 ATTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTATTAAATATAAAATTTTTA
Found at i:10391741 original size:13 final size:13
Alignment explanation
Indices: 10391718--10391750 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10391708 ATATTTTATT
10391718 TATTT-TAAAAAA
1 TATTTATAAAAAA
10391730 TATTTATAAAAAA
1 TATTTATAAAAAA
10391743 TATTTATA
1 TATTTATA
10391751 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:10391753 original size:19 final size:19
Alignment explanation
Indices: 10391729--10391770 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
10391719 ATTTTAAAAA
10391729 ATATTTATAAAAAA-TATTT
1 ATATTTA-AAAAAATTATTT
10391748 ATATTTAAAAAAATTATTT
1 ATATTTAAAAAAATTATTT
10391767 ATAT
1 ATAT
10391771 GACAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTTAAAAAAATTATTT
Found at i:10391816 original size:20 final size:20
Alignment explanation
Indices: 10391783--10391835 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
10391773 CAATTAAAAA
10391783 ATAATAAAAGATAAATAAACAT
1 ATAA-AAAA-ATAAATAAACAT
*
10391805 ATAAAAAAATAAATAATCAT
1 ATAAAAAAATAAATAAACAT
10391825 A-AAAAATAATA
1 ATAAAAA-AATA
10391836 TATTTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.17
20 16 0.55
21 4 0.14
22 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAAAAATAAATAAACAT
Found at i:10398819 original size:23 final size:23
Alignment explanation
Indices: 10398789--10398834 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10398779 TTATTTTTTA
*
10398789 ATATAAATATAAAATTATATAAT
1 ATATAAATATAAAATTAAATAAT
10398812 ATATAAATATAAAATTAAATAAT
1 ATATAAATATAAAATTAAATAAT
10398835 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAAATATAAAATTAAATAAT
Found at i:10401863 original size:19 final size:19
Alignment explanation
Indices: 10401822--10401865 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10401812 GGTAATGAGT
* *
10401822 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
10401841 AAAATAATAATAATAAG-TA
1 AAAATAATAATAA-AAGATA
10401860 AAAATA
1 AAAATA
10401866 TAAAATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:10402718 original size:35 final size:31
Alignment explanation
Indices: 10402655--10402719 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 31
10402645 ATTTAGAACC
* *
10402655 AGATAAATAAAAGACTAAAATATAAAAAAAA
1 AGATAAATAAAAGACAAAAAGATAAAAAAAA
*
10402686 AGATAAATAAATAAGACAAACAAGATATAAAAAA
1 AGATAAAT-AA-AAGACAAA-AAGATAAAAAAAA
10402720 GAAATGTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.29
32 2 0.07
33 7 0.25
34 11 0.39
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (31 bp):
AGATAAATAAAAGACAAAAAGATAAAAAAAA
Found at i:10403070 original size:18 final size:18
Alignment explanation
Indices: 10403047--10403092 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10403037 CAAAGATTCA
*
10403047 AGATTCGCAAAGGTTTTT
1 AGATTCGCAAAGATTTTT
*
10403065 AGATTCGTAAAGATTTTT
1 AGATTCGCAAAGATTTTT
*
10403083 AGATTTGCAA
1 AGATTCGCAA
10403093 GAATGGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (18 bp):
AGATTCGCAAAGATTTTT
Found at i:10403243 original size:86 final size:86
Alignment explanation
Indices: 10403079--10403243 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 86
10403069 TCGTAAAGAT
* ** *
10403079 TTTTAGATTTGCAAGAATGGAAGATTCACAAGATTTCAAGTTTTGCAAAGGTTCTAGATTCGTAG
1 TTTTAGATTCGCAAGAATGGAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCGAAG
*
10403144 AGGTTTCAGGTTCACAAGGAC
66 AGGTTTCAAGTTCACAAGGAC
** *
10403165 TTTTAGATTCGCAAGAATGGAAGATTTGCAAGATTTCAAGTTTCACAAAGGTTCTAGATTTGCAA
1 TTTTAGATTCGCAAGAATGGAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCG-AA
*
10403230 G-GGTTTTAAGTTCA
65 GAGGTTTCAAGTTCA
10403244 TAAAAAATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 67 0.97
87 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (86 bp):
TTTTAGATTCGCAAGAATGGAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCGAAG
AGGTTTCAAGTTCACAAGGAC
Found at i:10404523 original size:12 final size:11
Alignment explanation
Indices: 10404505--10404555 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
10404495 TTTTCCTTTC
10404505 TTTTTTTTGTT
1 TTTTTTTTGTT
*
10404516 TTTATTTT-TT
1 TTTTTTTTGTT
*
10404526 ATTTTTTTGTTT
1 TTTTTTTTG-TT
10404538 TTTTTTTTGCTT
1 TTTTTTTTG-TT
10404550 TTTTTT
1 TTTTTT
10404556 GCACACTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
10 8 0.24
11 7 0.21
12 18 0.55
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:10404533 original size:22 final size:22
Alignment explanation
Indices: 10404505--10404556 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
10404495 TTTTCCTTTC
10404505 TTTTTTTTGTTTTTATTTTTT-A
1 TTTTTTTTGTTTTT-TTTTTTGA
*
10404527 -TTTTTTTGTTTTTTTTTTTGC
1 TTTTTTTTGTTTTTTTTTTTGA
10404548 TTTTTTTTG
1 TTTTTTTTG
10404557 CACACTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 6 0.22
21 13 0.48
22 8 0.30
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.87
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTTTTTTGA
Found at i:10409495 original size:19 final size:19
Alignment explanation
Indices: 10409454--10409515 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
10409444 TGTAATGAGT
*
10409454 AAAATAATAATTAAAAATG
1 AAAATAATAATTAAAAATA
*
10409473 AAAATAATAA-TAATAAGTA
1 AAAATAATAATTAA-AAATA
*
10409492 AAAATAAAAAATCTAAAAATA
1 AAAAT-AATAAT-TAAAAATA
10409513 AAA
1 AAA
10409516 TGCAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.09
19 18 0.51
20 4 0.11
21 7 0.20
22 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAATAATTAAAAATA
Found at i:10409499 original size:6 final size:6
Alignment explanation
Indices: 10409454--10409566 Score: 63
Period size: 6 Copynumber: 18.2 Consensus size: 6
10409444 TGTAATGAGT
* * * *
10409454 AAAATA ATAATTA AAAATG AAAATA ATAATA ATAAGTA AAAATAA AAAATCTA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA A-AAATA AAAAT-A AAAA--TA
* * *
10409507 AAAAT- AAAATG CAAATA AAATATA AAAAGT- AAAAT- AAAAT- AAAATG
1 AAAATA AAAATA AAAATA AAA-ATA AAAA-TA AAAATA AAAATA AAAATA
10409553 AAAATA GAAAATA A
1 AAAATA -AAAATA A
10409567 GATGAAAGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
5 16 0.19
6 36 0.42
7 27 0.32
8 5 0.06
9 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:10409512 original size:25 final size:25
Alignment explanation
Indices: 10409459--10409513 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
10409449 TGAGTAAAAT
* *
10409459 AATAATTAAAAATGAAAATAATAAT
1 AATAAGTAAAAATGAAAATAATAAA
10409484 AATAAGTAAAAAT-AAAA-AATCTAAA
1 AATAAGTAAAAATGAAAATAA--TAAA
10409509 AATAA
1 AATAA
10409514 AATGCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.08
24 4 0.15
25 20 0.77
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (25 bp):
AATAAGTAAAAATGAAAATAATAAA
Found at i:10409532 original size:24 final size:24
Alignment explanation
Indices: 10409467--10409551 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
10409457 ATAATAATTA
* *
10409467 AAAATGAAAATAATA-ATAATAAGT
1 AAAAT-AAAATAAAATATAAAAAGT
* *
10409491 AAAA-ATAA-AAAATCTAAAAA-T
1 AAAATAAAATAAAATATAAAAAGT
*
10409512 AAAATGCAAATAAAATATAAAAAGT
1 AAAAT-AAAATAAAATATAAAAAGT
10409537 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
10409552 GAAAATAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
21 8 0.17
22 8 0.17
23 2 0.04
24 24 0.50
25 6 0.12
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (24 bp):
AAAATAAAATAAAATATAAAAAGT
Found at i:10409543 original size:30 final size:30
Alignment explanation
Indices: 10409507--10409563 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10409497 AAAAAATCTA
* *
10409507 AAAATAAAATGCAAAT-AAAATATAAAAAGT
1 AAAATAAAAT-AAAATGAAAATAGAAAAAGT
10409537 AAAATAAAATAAAATGAAAATAGAAAA
1 AAAATAAAATAAAATGAAAATAGAAAA
10409564 TAAGATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (30 bp):
AAAATAAAATAAAATGAAAATAGAAAAAGT
Found at i:10409557 original size:46 final size:45
Alignment explanation
Indices: 10409467--10409558 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
10409457 ATAATAATTA
* * **
10409467 AAAATGAAAATAATAATAATAAGTAAAAATAAAAAATCTAAAAAT
1 AAAATGAAAATAAAAATAAAAAGTAAAAATAAAAAAAATAAAAAT
* *
10409512 AAAATGCAAATAAAATATAAAAAGT-AAAATAAAATAAAATGAAAAT
1 AAAATGAAAATAAAA-ATAAAAAGTAAAAATAAAA-AAAATAAAAAT
10409558 A
1 A
10409559 GAAAATAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (45 bp):
AAAATGAAAATAAAAATAAAAAGTAAAAATAAAAAAAATAAAAAT
Found at i:10409563 original size:23 final size:22
Alignment explanation
Indices: 10409519--10409589 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
10409509 AATAAAATGC
*
10409519 AAATAAAATATAAAAAGTAAAATA
1 AAATAAAAT-GAAAAAG-AAAATA
10409543 AAATAAAATGAAAATAGAAAATA
1 AAATAAAATGAAAA-AGAAAATA
* * *
10409566 AGATGAAA-GAAAAAGAAAAAA
1 AAATAAAATGAAAAAGAAAATA
10409587 AAA
1 AAA
10409590 CCTATGATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.22
22 5 0.12
23 16 0.39
24 11 0.27
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (22 bp):
AAATAAAATGAAAAAGAAAATA
Found at i:10409565 original size:18 final size:17
Alignment explanation
Indices: 10409467--10409573 Score: 78
Period size: 18 Copynumber: 6.2 Consensus size: 17
10409457 ATAATAATTA
*
10409467 AAAATGAAAATAATAAT-
1 AAAATAAAAATAA-AATG
10409484 AATAAGTAAAAATAAAA--
1 AA-AA-TAAAAATAAAATG
**
10409501 AATCTAAAAATAAAATG
1 AAAATAAAAATAAAATG
* *
10409518 CAAATAAAATATAAAAAG
1 AAAATAAAA-ATAAAATG
10409536 TAAAAT-AAAATAAAATG
1 -AAAATAAAAATAAAATG
*
10409553 AAAATAGAAAATAAGATG
1 AAAATA-AAAATAAAATG
10409571 AAA
1 AAA
10409574 GAAAAAGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
15 11 0.15
16 5 0.07
17 17 0.24
18 27 0.38
19 12 0.17
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAATAAAAATAAAATG
Found at i:10413639 original size:18 final size:18
Alignment explanation
Indices: 10413616--10413653 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10413606 AATGCAAAGC
10413616 ATAAAAT-AATAAAAAATA
1 ATAAAATAAAT-AAAAATA
10413634 ATAAAATAAATAAAAATA
1 ATAAAATAAATAAAAATA
10413652 AT
1 AT
10413654 GCAAAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAATAAATAAAAATA
Found at i:10423276 original size:20 final size:19
Alignment explanation
Indices: 10423239--10423299 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 19
10423229 AAAATAAATT
10423239 TAAAAATATAATAAAATAA
1 TAAAAATATAATAAAATAA
10423258 TAAAAAT-T-ATAAAATAA
1 TAAAAATATAATAAAATAA
*
10423275 TACTTAAATATGAATGAAAATAA
1 TA--AAAATAT-AAT-AAAATAA
10423298 TA
1 TA
10423300 TTATCGATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 11 0.31
18 1 0.03
19 11 0.31
20 1 0.03
22 2 0.06
23 9 0.26
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAAAATATAATAAAATAA
Found at i:10424915 original size:111 final size:111
Alignment explanation
Indices: 10424721--10424929 Score: 259
Period size: 111 Copynumber: 1.9 Consensus size: 111
10424711 ATGCGTAATT
* * * *
10424721 ATGAAGCAATCAAAATGGTATTTTTATAATTATGTTGAGAAAGTATTATAATAATTTTGGTCAAT
1 ATGAAGCAATCAAAATGGCATTTTTATAATTATGTTGAGAAACTATTATAATAATTTAGCTCAAT
10424786 TATAATATAAATGGTATTTTCATAATTATGGTATAAGAGGCATTAG
66 TATAATATAAATGGTATTTTCATAATTATGGTATAAGAGGCATTAG
10424832 ATGAAGCAATCAAAA-GAGCATTTTT-TAAATTATAGTT-AGAAACTATTA-AAGTAATTTAAGC
1 ATGAAGCAATCAAAATG-GCATTTTTAT-AATTAT-GTTGAGAAACTATTATAA-TAATTT-AGC
* * *
10424893 T-GATTATAATAT-AACGTGTATTTTCCTAATTATGGTA
61 TCAATTATAATATAAATG-GTATTTTCATAATTATGGTA
10424930 AGAGAGATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
110 7 0.08
111 73 0.86
112 5 0.06
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (111 bp):
ATGAAGCAATCAAAATGGCATTTTTATAATTATGTTGAGAAACTATTATAATAATTTAGCTCAAT
TATAATATAAATGGTATTTTCATAATTATGGTATAAGAGGCATTAG
Found at i:10424955 original size:85 final size:86
Alignment explanation
Indices: 10424846--10425039 Score: 196
Period size: 85 Copynumber: 2.3 Consensus size: 86
10424836 AGCAATCAAA
* * * **
10424846 AGAGCATTTT-TTAAATTATAGTTAGAAACTATTAAAGTAATTTAAG-CTGATTATAATATAACG
1 AGAGCATTTTCAT-AATTATGGTTAGAAACTATTAAAAT-ATTTAAGACAAATTATAATATAACG
* *
10424909 TGTATTTTCCTAATTATGGTAAG
64 GGTATTTTCATAATTATGGTAAG
** ** * *
10424932 AGAG-ATTTTCATAATTATGGTTAGAAGGTATTAAAATATTTTTGACAAATTATAATATGAGGGG
1 AGAGCATTTTCATAATTATGGTTAGAAACTATTAAAATATTTAAGACAAATTATAATATAACGGG
* *
10424996 TATTTTCATTATTATGGTAGG
66 TATTTTCATAATTATGGTAAG
* *
10425017 AGGGCATTTTTATAATTATGGTT
1 AGAGCATTTTCATAATTATGGTT
10425040 GTTAGCGCAT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
84 5 0.06
85 61 0.69
86 22 0.25
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.42
Consensus pattern (86 bp):
AGAGCATTTTCATAATTATGGTTAGAAACTATTAAAATATTTAAGACAAATTATAATATAACGGG
TATTTTCATAATTATGGTAAG
Found at i:10425494 original size:18 final size:16
Alignment explanation
Indices: 10425448--10425496 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
10425438 GAAATTTAAA
10425448 TTAAATGTGAATTTTTT
1 TTAAATGTG-ATTTTTT
10425465 TT-AATGTGGATTTCTTT
1 TTAAATGT-GATTT-TTT
10425482 TTAAATTGTGATTTT
1 TTAAA-TGTGATTTT
10425497 GTCTCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 9 0.32
17 9 0.32
18 7 0.25
19 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.59
Consensus pattern (16 bp):
TTAAATGTGATTTTTT
Found at i:10428968 original size:3 final size:3
Alignment explanation
Indices: 10428960--10428990 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10428950 TTATAAGATT
10428960 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10428991 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:10428985 original size:14 final size:14
Alignment explanation
Indices: 10428960--10429010 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
10428950 TTATAAGATT
10428960 TTATTATTATTATTA
1 TTATT-TTATTATTA
10428975 TTATTTTATTATTA
1 TTATTTTATTATTA
*
10428989 TTTATTTT-TTATGTT
1 -TTATTTTATTAT-TA
10429004 TTATTTT
1 TTATTTT
10429011 TGTTGCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:10428985 original size:17 final size:17
Alignment explanation
Indices: 10428957--10429000 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
10428947 CAATTATAAG
10428957 ATTTTATTATTATTA-TT
1 ATTTT-TTATTATTATTT
10428974 ATTATTTTATTATTATTT
1 ATT-TTTTATTATTATTT
10428992 ATTTTTTAT
1 ATTTTTTAT
10429001 GTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTATTATTT
Found at i:10430531 original size:18 final size:17
Alignment explanation
Indices: 10430508--10430583 Score: 50
Period size: 18 Copynumber: 4.3 Consensus size: 17
10430498 TTGTATCATT
10430508 TTTTTTTGTATTTATTTA
1 TTTTTTTGT-TTTATTTA
*
10430526 TTTTTTT-TCATGCT-TTTA
1 TTTTTTTGT--T-TTATTTA
* *
10430544 TTTGTTTATTTTATTTTA
1 TTTTTTTGTTTTA-TTTA
10430562 TTTTATTTG-TTTATTTA
1 TTTT-TTTGTTTTATTTA
10430579 TTTTT
1 TTTTT
10430584 GAAAATTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.04
17 10 0.21
18 30 0.64
19 5 0.11
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTTGTTTTATTTA
Found at i:10430555 original size:23 final size:23
Alignment explanation
Indices: 10430518--10430577 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
10430508 TTTTTTTGTA
* *
10430518 TTTATTTATTT-TTTT-TCATGCT
1 TTTATTTGTTTATTTTAT-ATGAT
* *
10430540 TTTATTTGTTTATTTTATTTTAT
1 TTTATTTGTTTATTTTATATGAT
10430563 TTTATTTGTTTATTT
1 TTTATTTGTTTATTT
10430578 ATTTTTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 10 0.31
23 21 0.66
24 1 0.03
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTATTTGTTTATTTTATATGAT
Found at i:10430583 original size:23 final size:23
Alignment explanation
Indices: 10430539--10430582 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10430529 TTTTTCATGC
10430539 TTTTATTTGTTTATTTTATTTTA
1 TTTTATTTGTTTATTTTATTTTA
10430562 TTTTATTTGTTTA-TTTATTTT
1 TTTTATTTGTTTATTTTATTTT
10430583 TGAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTATTTGTTTATTTTATTTTA
Found at i:10438640 original size:23 final size:21
Alignment explanation
Indices: 10438582--10438640 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
10438572 AATTTTTGAG
*
10438582 TTTTAAATGAGAATCTTAAAT
1 TTTTGAATGAGAATCTTAAAT
*
10438603 TCTTGTAAT-ATGAATCTCTAAAGT
1 TTTTG-AATGA-GAATCT-TAAA-T
10438627 TTTTGAATGAGAAT
1 TTTTGAATGAGAAT
10438641 TTTTGAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 4 0.13
22 9 0.30
23 11 0.37
24 6 0.20
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTTGAATGAGAATCTTAAAT
Found at i:10438765 original size:22 final size:22
Alignment explanation
Indices: 10438738--10438801 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
10438728 ATCTTTGAAC
*
10438738 TTGAATGAGAATTTTTGAAATT
1 TTGAATGAGAATCTTTGAAATT
*
10438760 TTGAATGA-AA-CCTTGAAATTT
1 TTGAATGAGAATCTTTGAAA-TT
* *
10438781 TTGAATGAGAATGTTTAAAAT
1 TTGAATGAGAATCTTTGAAAT
10438802 CTTGGAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.18
21 12 0.35
22 11 0.32
23 5 0.15
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (22 bp):
TTGAATGAGAATCTTTGAAATT
Found at i:10438900 original size:21 final size:20
Alignment explanation
Indices: 10438864--10438954 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 20
10438854 GAAATCTCTA
10438864 GAATTTTAGAATGTGAATCTTT
1 GAATTTT-G-ATGTGAATCTTT
*
10438886 GAATTTTGCATGTGAA-CCTT
1 GAATTTTG-ATGTGAATCTTT
*
10438906 GAAGTCTTGGATGTGAATCTTT
1 GAA-T-TTTGATGTGAATCTTT
* * *
10438928 AAAGTTTT-TTGTGAATTTTT
1 GAA-TTTTGATGTGAATCTTT
10438948 GAATTTT
1 GAATTTT
10438955 CACACGAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.07
20 18 0.32
21 18 0.32
22 17 0.30
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (20 bp):
GAATTTTGATGTGAATCTTT
Found at i:10439165 original size:17 final size:17
Alignment explanation
Indices: 10439140--10439172 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10439130 ATTTTTCATT
*
10439140 CTTGTGAATCTTTGAAC
1 CTTGAGAATCTTTGAAC
10439157 CTTGAGAATCTTTGAA
1 CTTGAGAATCTTTGAA
10439173 TTTCATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (17 bp):
CTTGAGAATCTTTGAAC
Found at i:10444948 original size:21 final size:21
Alignment explanation
Indices: 10444919--10444972 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
10444909 TGATAGAAAA
*
10444919 GATTAATCCCCTAAGGGAAGG
1 GATTGATCCCCTAAGGGAAGG
*
10444940 GATTGATCCCTTAAGGGAAGG
1 GATTGATCCCCTAAGGGAAGG
*
10444961 GATCGATCCCCT
1 GATTGATCCCCT
10444973 CCTTACCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (21 bp):
GATTGATCCCCTAAGGGAAGG
Found at i:10449503 original size:78 final size:78
Alignment explanation
Indices: 10449374--10449530 Score: 260
Period size: 78 Copynumber: 2.0 Consensus size: 78
10449364 TGTTGCTAAC
* *
10449374 TTTGAAGTTTTTTTCCTCCATAAAAATGGTACTATTTAGAGCTCTAGGAGAAGCAAGCGAAAGCT
1 TTTGAAGTTTTTTTCCTCCATAAAAATGATACTATTTAGAGCTATAGGAGAAGCAAGCGAAAGCT
10449439 AACCCACAATCTA
66 AACCCACAATCTA
* * * *
10449452 TTTGAAGTTTTTTTCCTCTATAAAAATGATACTATTTAGAGCTATAGGAGAAGTAAGTGGAAGCT
1 TTTGAAGTTTTTTTCCTCCATAAAAATGATACTATTTAGAGCTATAGGAGAAGCAAGCGAAAGCT
10449517 AACCCACAATCTA
66 AACCCACAATCTA
10449530 T
1 T
10449531 GTTATGCGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (78 bp):
TTTGAAGTTTTTTTCCTCCATAAAAATGATACTATTTAGAGCTATAGGAGAAGCAAGCGAAAGCT
AACCCACAATCTA
Found at i:10449663 original size:3 final size:3
Alignment explanation
Indices: 10449655--10449697 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10449645 AAAAACTTGA
10449655 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10449698 GCATGATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10449758 original size:21 final size:21
Alignment explanation
Indices: 10449720--10449865 Score: 122
Period size: 21 Copynumber: 7.1 Consensus size: 21
10449710 TTTGATATTG
*
10449720 TTGCGTGATTAT-TTATTTAT
1 TTGCATGATTATATTATTTAT
*
10449740 TTGCATGATTATATTATTTGT
1 TTGCATGATTATATTATTTAT
* *
10449761 TTGCATGACTATTTTATTTAT
1 TTGCATGATTATATTATTTAT
* * *
10449782 TTACAAGATTATATTATTTAC
1 TTGCATGATTATATTATTTAT
* *
10449803 TTCCAT-AAT-TATTATTTAT
1 TTGCATGATTATATTATTTAT
* *
10449822 TTCCATGATT-TATTATATATTT
1 TTGCATGATTATATTAT-T-TAT
* *
10449844 TTGCATGCTTAT-TTTTTTAT
1 TTGCATGATTATATTATTTAT
10449864 TT
1 TT
10449866 ATTATGATAT
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
19 15 0.15
20 25 0.25
21 47 0.47
22 13 0.13
23 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (21 bp):
TTGCATGATTATATTATTTAT
Found at i:10449781 original size:25 final size:22
Alignment explanation
Indices: 10449728--10449910 Score: 81
Period size: 21 Copynumber: 8.6 Consensus size: 22
10449718 TGTTGCGTGA
10449728 TTATTTATTTATTTGCATGATT
1 TTATTTATTTATTTGCATGATT
* * *
10449750 ATA-TTATTTGTTTGCATGACT
1 TTATTTATTTATTTGCATGATT
* * *
10449771 AT-TTTATTTATTTACAAGATT
1 TTATTTATTTATTTGCATGATT
* * * *
10449792 ATA-TTATTTACTTCCAT-A-A
1 TTATTTATTTATTTGCATGATT
*
10449811 TTA-TTATTTATTTCCATGA-T
1 TTATTTATTTATTTGCATGATT
10449831 TTATTATATATT-TTTGCATGCTTATT
1 TTATT-TAT-TTATTTGCATG---ATT
10449857 TT-TTTATTTATTATG-AT-ATT
1 TTATTTATTTATT-TGCATGATT
10449877 TT-TGTTATGATT-TTTGCATGATT
1 TTAT-TTAT--TTATTTGCATGATT
10449900 TTA--TATTTATT
1 TTATTTATTTATT
10449911 GTATGATATT
Statistics
Matches: 127, Mismatches: 15, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
19 17 0.13
20 13 0.10
21 55 0.43
22 16 0.13
23 11 0.09
24 7 0.06
25 5 0.04
26 3 0.02
ACGTcount: A:0.26, C:0.07, G:0.08, T:0.60
Consensus pattern (22 bp):
TTATTTATTTATTTGCATGATT
Found at i:10449817 original size:19 final size:20
Alignment explanation
Indices: 10449793--10449837 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
10449783 TACAAGATTA
10449793 TATTATTTACTTCCAT-AAT
1 TATTATTTACTTCCATGAAT
* *
10449812 TATTATTTATTTCCATGATT
1 TATTATTTACTTCCATGAAT
10449832 TATTAT
1 TATTAT
10449838 ATATTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTATTTACTTCCATGAAT
Found at i:10449994 original size:24 final size:24
Alignment explanation
Indices: 10449967--10450032 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
10449957 GAACATCTTT
*
10449967 GCATGGTTTATT-ATGATACTTTTG
1 GCATGATTTATTCATGATA-TTTTG
10449991 GCATGATTTATTGCATGATATTTT-
1 GCATGATTTATT-CATGATATTTTG
*
10450015 GTAT-ATTTATTACATGAT
1 GCATGATTTATT-CATGAT
10450033 TGCATGATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.35
24 14 0.38
25 4 0.11
26 6 0.16
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.50
Consensus pattern (24 bp):
GCATGATTTATTCATGATATTTTG
Done.