Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 393 of 427
Found at i:113927680 original size:13 final size:13
Alignment explanation
Indices: 113927662--113927687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113927652 GAAAAAATAT
113927662 ATGTATATGTATA
1 ATGTATATGTATA
113927675 ATGTATATGTATA
1 ATGTATATGTATA
113927688 TAAATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATGTATATGTATA
Found at i:113929327 original size:19 final size:19
Alignment explanation
Indices: 113929291--113929330 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113929281 TTTAAAAATA
*
113929291 GGTCTAGGTTTAATTATTG
1 GGTCTAGGTTTAACTATTG
* *
113929310 GGTCTGGGTTTAGCTATTG
1 GGTCTAGGTTTAACTATTG
113929329 GG
1 GG
113929331 CTGTGGGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.07, G:0.35, T:0.42
Consensus pattern (19 bp):
GGTCTAGGTTTAACTATTG
Found at i:113944928 original size:3 final size:3
Alignment explanation
Indices: 113944920--113944968 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
113944910 TTTCAAAGTA
113944920 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
113944968 A
1 A
113944969 TACTTTAGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:113945133 original size:20 final size:20
Alignment explanation
Indices: 113945108--113945153 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
113945098 AAAAAATTAA
*
113945108 AATTTTTATAAA-TATTTAT
1 AATTTTTAAAAATTATTTAT
*
113945127 AATTTTTAAAAATTATTTTT
1 AATTTTTAAAAATTATTTAT
113945147 AATTTTT
1 AATTTTT
113945154 GTTAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTAT
Found at i:113945331 original size:21 final size:20
Alignment explanation
Indices: 113945302--113945340 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
113945292 TTTAAAAAAT
*
113945302 ATTTTTTCAAATTAAATTAA
1 ATTTTTTCAAACTAAATTAA
*
113945322 ATTTTATTCACACTAAATT
1 ATTTT-TTCAAACTAAATT
113945341 GTGAAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTTTCAAACTAAATTAA
Found at i:113945881 original size:2 final size:2
Alignment explanation
Indices: 113945874--113945904 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113945864 AAATTTTGAA
113945874 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 A
113945905 ATCACTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113948019 original size:50 final size:50
Alignment explanation
Indices: 113947959--113948060 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
113947949 ATTTCAGAGT
* *
113947959 TATATGAGTGTTGGATTAAAGAGATTAACTCTAAATTTAAGTGTATGAGA
1 TATATGAGTGTTGGATTAAAGAGATCAACTCTAAATTTAAGTGTACGAGA
* * *
113948009 TATATGAGTGTTTGATTGAAGAGATCAATTCTAAATTTAAGTGTACGAGA
1 TATATGAGTGTTGGATTAAAGAGATCAACTCTAAATTTAAGTGTACGAGA
113948059 TA
1 TA
113948061 AATCTATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (50 bp):
TATATGAGTGTTGGATTAAAGAGATCAACTCTAAATTTAAGTGTACGAGA
Found at i:113954103 original size:35 final size:36
Alignment explanation
Indices: 113953975--113954106 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
113953965 TCCTCATTGA
** *
113953975 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
113954010 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
113954050 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
113954085 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113954107 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:113961557 original size:35 final size:36
Alignment explanation
Indices: 113961429--113961560 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
113961419 TCCTCATTGA
** *
113961429 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
113961464 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
113961504 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
113961539 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113961561 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:113968938 original size:25 final size:22
Alignment explanation
Indices: 113968886--113968929 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
113968876 TAGTAGTATA
113968886 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
113968908 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
113968930 TATTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:113968968 original size:13 final size:14
Alignment explanation
Indices: 113968950--113968991 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
113968940 TTTCAATTTT
113968950 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
113968963 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
113968978 ATTTTAAATAATAT
1 ATTTT-AATAATAT
113968992 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:113968976 original size:16 final size:16
Alignment explanation
Indices: 113968954--113968990 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
113968944 AATTTTATTT
113968954 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
113968971 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
113968986 TAATA
1 TAATA
113968991 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:113968986 original size:73 final size:75
Alignment explanation
Indices: 113968883--113969045 Score: 174
Period size: 73 Copynumber: 2.2 Consensus size: 75
113968873 ATTTAGTAGT
* * * *
113968883 ATAATAAATTATT-AATATAATAAATATAAATTATTATT-TTAATAAATTATT-TAAATATTTCA
1 ATAATAAATT-TTAAAAATAATAAATATAAA-TAATATTATTAACAAATTATTAAAAATA-TTCA
113968945 AT-TT-TATTTTA
63 ATATTATATTTTA
* * * *
113968956 ATAATAAATTTTAAAAATAATAATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATA
1 ATAATAAATTTTAAAAATAATAAATATAAATAATATTATTAACAAATTATTAAAAATATTCAATA
113969021 TTAATATTTTA
66 TT-ATATTTTA
113969032 ATAATAAATATTTA
1 ATAATAAAT-TTTA
113969046 TTACAATTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
72 8 0.11
73 40 0.53
74 7 0.09
76 16 0.21
77 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.47
Consensus pattern (75 bp):
ATAATAAATTTTAAAAATAATAAATATAAATAATATTATTAACAAATTATTAAAAATATTCAATA
TTATATTTTA
Found at i:113969043 original size:15 final size:15
Alignment explanation
Indices: 113969023--113969079 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
113969013 ATTCAATATT
113969023 AATATTTTAATAATA
1 AATATTTTAATAATA
*
113969038 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
113969057 AATATATTAATAATA
1 AATATTTTAATAATA
*
113969072 AATGTTTT
1 AATATTTT
113969080 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:113970254 original size:24 final size:24
Alignment explanation
Indices: 113970222--113970274 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
113970212 GCCTCTATTT
*
113970222 ATAGGTATAAGAATTATAAAAGAA
1 ATAGATATAAGAATTATAAAAGAA
113970246 ATAGATATAAGAATTATAAAAGAA
1 ATAGATATAAGAATTATAAAAGAA
113970270 ATAGA
1 ATAGA
113970275 GGTCTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (24 bp):
ATAGATATAAGAATTATAAAAGAA
Found at i:113976006 original size:3 final size:3
Alignment explanation
Indices: 113975998--113976023 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
113975988 CCAAAACCAA
113975998 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
113976024 AATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:113978651 original size:40 final size:42
Alignment explanation
Indices: 113978596--113978706 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
113978586 GTACATCATT
* * * *
113978596 AACAGAAGCTCAT-A-AGCTGAACAAAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAAAAACACGTAAGAGTTA
* *
113978636 AACAGAAGCTCATAAGAGCTAAACAGAAACACGTATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAAAAACACGTAAGAGTTA
** * *
113978678 AACAGAAGCTTGTAAGAGTTAAATAAAAA
1 AACAGAAGCTCATAAGAGCTAAACAAAAA
113978707 GCTCGAGAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 13 0.22
41 1 0.02
42 44 0.76
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAACACGTAAGAGTTA
Found at i:113978660 original size:21 final size:21
Alignment explanation
Indices: 113978596--113978687 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 21
113978586 GTACATCATT
*
113978596 AACAGAAGCTCAT-A-AGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * * *
113978615 AACAAAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTA
113978636 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
113978657 AACAGAAACACGTATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
113978678 AACAGAAGCT
1 AACAGAAGCT
113978688 TGTAAGAGTT
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
19 10 0.18
20 1 0.02
21 44 0.80
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:113978696 original size:21 final size:21
Alignment explanation
Indices: 113978627--113978700 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
113978617 CAAAAACTCT
* *
113978627 TAAGAGTTGAACAGAAGCTCA
1 TAAGAGTTAAACAGAAGCTCG
* * *
113978648 TAAGAGCTAAACAGAAACACG
1 TAAGAGTTAAACAGAAGCTCG
* *
113978669 TATGAGTTAAACAGAAGCTTG
1 TAAGAGTTAAACAGAAGCTCG
113978690 TAAGAGTTAAA
1 TAAGAGTTAAA
113978701 TAAAAAGCTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (21 bp):
TAAGAGTTAAACAGAAGCTCG
Found at i:113981280 original size:16 final size:16
Alignment explanation
Indices: 113981259--113981289 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113981249 ATTTTTATAA
113981259 ATTATATTAATAAATT
1 ATTATATTAATAAATT
*
113981275 ATTATATTATTAAAT
1 ATTATATTAATAAAT
113981290 ATAATAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATATTAATAAATT
Found at i:113982676 original size:2 final size:2
Alignment explanation
Indices: 113982671--113982701 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113982661 TAATATATAT
113982671 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
113982702 TTAATTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113996813 original size:40 final size:40
Alignment explanation
Indices: 113996768--113996857 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
113996758 CGGAATATAA
*
113996768 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAAC
* *
113996808 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAAC
113996848 CCGGATATAA
1 CCGGATATAA
113996858 TTTCCAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAAC
Found at i:113996872 original size:40 final size:40
Alignment explanation
Indices: 113996768--113996894 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
113996758 CGGAATATAA
*** *
113996768 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* ** *
113996808 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * *
113996848 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
113996887 CCGGATAT
1 CCGGATAT
113996895 CATTCAATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 13 0.18
40 60 0.82
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:114000341 original size:13 final size:13
Alignment explanation
Indices: 114000309--114000346 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
114000299 TTTTGTGAAA
114000309 ATGAATAAAATTTT
1 ATGAAT-AAATTTT
*
114000323 -TAAATAAATTTT
1 ATGAATAAATTTT
114000335 ATGAATAAATTT
1 ATGAATAAATTT
114000347 AATTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
ATGAATAAATTTT
Found at i:114001892 original size:13 final size:13
Alignment explanation
Indices: 114001874--114001900 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
114001864 GAAGTAATCG
114001874 CACACGGGCGTGT
1 CACACGGGCGTGT
114001887 CACACGGGCGTGT
1 CACACGGGCGTGT
114001900 C
1 C
114001901 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:114004469 original size:39 final size:39
Alignment explanation
Indices: 114004417--114004505 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
114004407 GACTTTAGGC
*
114004417 CCGGATAT-ATTCCAGT-ACGTAGCCTGCGAACCTCAAGT
1 CCGGATATGTTTCCA-TCACGTAGCCTGCGAACCTCAAGT
* * *
114004455 CCGGATATGTTTCCATCATGTAGCTTGCGGACCTCAAGT
1 CCGGATATGTTTCCATCACGTAGCCTGCGAACCTCAAGT
114004494 CCGGATATGTTT
1 CCGGATATGTTT
114004506 GCAAATATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 9 0.20
39 36 0.80
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (39 bp):
CCGGATATGTTTCCATCACGTAGCCTGCGAACCTCAAGT
Found at i:114005180 original size:21 final size:21
Alignment explanation
Indices: 114005154--114005194 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
114005144 TGCATATTCT
114005154 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
114005175 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
114005195 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:114005590 original size:50 final size:50
Alignment explanation
Indices: 114005495--114005593 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
114005485 TTGGAACACC
* * * * *
114005495 ACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCATT
1 ACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCATT
* *
114005545 ACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 ACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
114005594 CATATATGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (50 bp):
ACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCATT
Found at i:114017610 original size:25 final size:25
Alignment explanation
Indices: 114017564--114017611 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
114017554 AGCTTCCCGA
* * **
114017564 TATTCAGTTCGCATGAGTTTCTCAT
1 TATTCAGCTCGAATGAACTTCTCAT
114017589 TATTCAGCTCGAATGAACTTCTC
1 TATTCAGCTCGAATGAACTTCTC
114017612 GTTTATGGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
TATTCAGCTCGAATGAACTTCTCAT
Found at i:114022094 original size:24 final size:24
Alignment explanation
Indices: 114022045--114022094 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
114022035 GTTAAAAATC
* **
114022045 CAACCCAGAAATGTTAGCATTTTT
1 CAACCCAGAAATGTTAGAATAATT
114022069 CAACCCAGAAATGTT-GAATGAATT
1 CAACCCAGAAATGTTAGAAT-AATT
114022093 CA
1 CA
114022095 GAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (24 bp):
CAACCCAGAAATGTTAGAATAATT
Found at i:114028665 original size:46 final size:46
Alignment explanation
Indices: 114028613--114028836 Score: 288
Period size: 46 Copynumber: 4.8 Consensus size: 46
114028603 GCTCTCTGAA
* * *
114028613 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
114028659 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
114028705 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
114028751 GGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
114028798 AAAAAACT-AGTAAAACCATAGTTGAAAGATACTATGGCA
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCA
114028837 TAATGTCGAA
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 116 0.73
47 44 0.28
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:114028816 original size:93 final size:92
Alignment explanation
Indices: 114028616--114028836 Score: 282
Period size: 93 Copynumber: 2.4 Consensus size: 92
114028606 CTCTGAAATG
* * * * **
114028616 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGT
* **
114028681 TGAAAGATACCATGGCAACGTAACATG
66 TGAAAGATACCATGGCAACATAACAAA
* *
114028708 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGACCATGG
*
114028773 TTGAAAGATACCATGGCAACATGACAAA
65 TTGAAAGATACCATGGCAACATAACAAA
* * *
114028801 AAACT-AGTAAAACCATAGTTGAAAGATACTATGGCA
1 AAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCA
114028837 TAATGTCGAA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
92 40 0.36
93 70 0.63
94 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (92 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGT
TGAAAGATACCATGGCAACATAACAAA
Found at i:114031537 original size:31 final size:31
Alignment explanation
Indices: 114031497--114031568 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
114031487 GTCTACGTAT
* * *
114031497 TTTTTAAATTAATCAATTTTATTCCATGTAC
1 TTTTCAAATTAATCAATTTTAATCCATGCAC
**
114031528 TTTTCAAATTAATCAATTTTAATCTTTGCAC
1 TTTTCAAATTAATCAATTTTAATCCATGCAC
114031559 TTTTCAAATT
1 TTTTCAAATT
114031569 CATTTGGCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTTCAAATTAATCAATTTTAATCCATGCAC
Found at i:114039372 original size:1 final size:1
Alignment explanation
Indices: 114039366--114039391 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
114039356 GGAAGAAAGG
114039366 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
114039392 CTGAGAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:114043789 original size:3 final size:3
Alignment explanation
Indices: 114043783--114043809 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
114043773 TAATCATAAT
114043783 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
114043810 TAGAACACGG
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:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:114047391 original size:3 final size:3
Alignment explanation
Indices: 114047350--114047377 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
114047340 TTCATCGTTT
114047350 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
114047378 TCTTCGTCTC
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:114054093 original size:49 final size:47
Alignment explanation
Indices: 114054033--114054132 Score: 105
Period size: 51 Copynumber: 2.1 Consensus size: 47
114054023 AACTCTTTAA
* * *
114054033 AAATAATATATA-GACAAT-TCAAAATATATAATGTGTAAAAAAGTTTG
1 AAATAATATATATGAAAATATCAAAATAAATAATGTAT-AAAAA-TTTG
* *
114054080 AAATACATAATATATGAAAATATTAAAGTAAATAATGTATAAAAATTTG
1 AAATA-AT-ATATATGAAAATATCAAAATAAATAATGTATAAAAATTTG
114054129 AAAT
1 AAAT
114054133 GAGCGTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
47 5 0.11
48 2 0.05
49 13 0.30
50 10 0.23
51 14 0.32
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (47 bp):
AAATAATATATATGAAAATATCAAAATAAATAATGTATAAAAATTTG
Found at i:114054283 original size:52 final size:52
Alignment explanation
Indices: 114054227--114054348 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
114054217 AGAAAAACAT
* * *
114054227 ATATAAGAAAAATAATAATGAAAATAATATTAG-TATATAAATAG-AAATAAAA
1 ATAT-AGATAAATAATAAT-AAAATAATAGTAGAAATATAAATAGAAAATAAAA
*
114054279 ATATA-ATAAATAGAT-ATATAATAATAGTAGAAATATAAATAGATAAATAAAA
1 ATATAGATAAATA-ATAATAAAATAATAGTAGAAATATAAATAGA-AAATAAAA
114054331 AT-TAGATAAATAATAATA
1 ATATAGATAAATAATAATA
114054349 GTATTAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
49 11 0.18
50 18 0.30
51 7 0.12
52 24 0.40
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (52 bp):
ATATAGATAAATAATAATAAAATAATAGTAGAAATATAAATAGAAAATAAAA
Found at i:114054297 original size:15 final size:16
Alignment explanation
Indices: 114054281--114054364 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 16
114054271 AAATAAAAAT
*
114054281 ATAATAAA-TAGATAT
1 ATAATAAAGTAGATAA
114054296 ATAATAATAGTAG--AA
1 ATAATAA-AGTAGATAA
114054311 AT-ATAAA-TAGATAA
1 ATAATAAAGTAGATAA
*
114054325 ATAA-AAATTAGATAA
1 ATAATAAAGTAGATAA
*
114054340 ATAATAATAGTA-TTAGA
1 ATAATAA-AGTAGATA-A
114054357 ATAATAAA
1 ATAATAAA
114054365 ATAAATATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
12 3 0.05
13 1 0.02
14 11 0.19
15 22 0.39
16 6 0.11
17 14 0.25
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (16 bp):
ATAATAAAGTAGATAA
Found at i:114054304 original size:29 final size:28
Alignment explanation
Indices: 114054272--114054392 Score: 79
Period size: 29 Copynumber: 4.2 Consensus size: 28
114054262 TATAAATAGA
114054272 AATAAAAATATAATAAATAGATATATAAT
1 AATAAAAA-ATAATAAATAGATATATAAT
* * *
114054301 AATAGTAGAAAT-ATAAATAGATAAATAAA
1 AATA--AAAAATAATAAATAGATATATAAT
* *
114054330 AATTAGATAAATAAT-AATAG-TATTAGAAT
1 AA-TA-AAAAATAATAAATAGATA-TATAAT
* *
114054359 AATAAAATAA-ATATAAATAGAAACATAAT
1 AATAAAA-AATA-ATAAATAGATATATAAT
114054388 AATAA
1 AATAA
114054393 TAGCAATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
27 3 0.04
28 8 0.11
29 50 0.70
30 7 0.10
31 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (28 bp):
AATAAAAAATAATAAATAGATATATAAT
Found at i:114054314 original size:17 final size:15
Alignment explanation
Indices: 114054271--114054389 Score: 58
Period size: 15 Copynumber: 8.1 Consensus size: 15
114054261 ATATAAATAG
*
114054271 AAATAAAAATATAAT
1 AAATAGAAATATAAT
*
114054286 AAATAGATATATAAT
1 AAATAGAAATATAAT
114054301 -AATAGTAGAA-AT-AT
1 AAATAG-A-AATATAAT
114054315 AAATAGATAA-ATAA-
1 AAATAGA-AATATAAT
114054329 AAATTAGATAA-ATAAT
1 AAA-TAGA-AATATAAT
* * *
114054345 -AATAGTATTAGAAT
1 AAATAGAAATATAAT
*
114054359 -AATA-AAATAAATAT
1 AAATAGAAATATA-AT
*
114054373 AAATAGAAACATAAT
1 AAATAGAAATATAAT
114054388 AA
1 AA
114054390 TAATAGCAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
13 5 0.06
14 28 0.34
15 43 0.52
16 6 0.07
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:114054369 original size:44 final size:41
Alignment explanation
Indices: 114054272--114054402 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 41
114054262 TATAAATAGA
* *
114054272 AATAAAA-ATATAATAAATAGATATATAATAATAGTAGAAAT
1 AATAAAATAAATAA-AAATAGATAAATAATAATAGTAGAAAT
*
114054313 -ATAAATAGATAAATAAAAATTAGATAAATAATAATAGTATTAGAAT
1 AAT-AA-A-ATAAATAAAAA-TAGATAAATAATAATAGTA-GA-AAT
* * *
114054359 AATAAAATAAATATAAATAGA-AACATAATAATAATAGCAAT
1 AATAAAATAAATAAAAATAGATAA-ATAATAATAGTAGAAAT
114054400 AAT
1 AAT
114054403 TTATTAAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
40 2 0.03
41 8 0.11
42 3 0.04
43 19 0.26
44 33 0.45
45 2 0.03
46 5 0.07
47 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (41 bp):
AATAAAATAAATAAAAATAGATAAATAATAATAGTAGAAAT
Found at i:114054730 original size:43 final size:43
Alignment explanation
Indices: 114054664--114054765 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
114054654 TTTATTTAAA
* *
114054664 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTATAGCGGCGCTTTTCCCAC
114054707 AAACGCCGCTAAAGGTCAAGACCTATAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTATAGCGGCGCTTTTCCCAC
114054750 AAACGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
114054766 AATGAAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAAGACCTATAGCGGCGCTTTTCCCAC
Found at i:114054811 original size:28 final size:27
Alignment explanation
Indices: 114054780--114054833 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
114054770 AAATTTTTAA
*
114054780 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAAAATT-TAAAAGTCATG
* *
114054808 AAAAATATAAAAAATTTAAAATTCAT
1 AAAAAAATAAAAAATTTAAAAGTCAT
114054834 TATCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAAAAATAAAAAATTTAAAAGTCATG
Found at i:114057919 original size:27 final size:27
Alignment explanation
Indices: 114057879--114057953 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
114057869 AAGAGCAGCG
* *
114057879 CGACGGTGACGCAGCAGATGGTCAAGT
1 CGACGGCGATGCAGCAGATGGTCAAGT
**
114057906 CGACGGCGATGCAGCAGATGGTCGGGT
1 CGACGGCGATGCAGCAGATGGTCAAGT
* *
114057933 C--CGACGATGCAGCATATGGTC
1 CGACGGCGATGCAGCAGATGGTC
114057954 GGGTCTGGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 18 0.43
27 24 0.57
ACGTcount: A:0.23, C:0.24, G:0.37, T:0.16
Consensus pattern (27 bp):
CGACGGCGATGCAGCAGATGGTCAAGT
Found at i:114057946 original size:25 final size:25
Alignment explanation
Indices: 114057889--114057975 Score: 95
Period size: 25 Copynumber: 3.4 Consensus size: 25
114057879 CGACGGTGAC
**
114057889 GCAGCAGATGGTCAAGTCGACGGCGAT
1 GCAGCAGATGGTCGGGTC--CGGCGAT
*
114057916 GCAGCAGATGGTCGGGTCCGACGAT
1 GCAGCAGATGGTCGGGTCCGGCGAT
* *
114057941 GCAGCATATGGTCGGGTCTGGCGAT
1 GCAGCAGATGGTCGGGTCCGGCGAT
*
114057966 ACAG-AGATGG
1 GCAGCAGATGG
114057976 GTTGGGATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
24 5 0.10
25 31 0.60
27 16 0.31
ACGTcount: A:0.23, C:0.21, G:0.39, T:0.17
Consensus pattern (25 bp):
GCAGCAGATGGTCGGGTCCGGCGAT
Found at i:114058773 original size:14 final size:14
Alignment explanation
Indices: 114058737--114058775 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
114058727 TCATACACTT
114058737 TAAACCCTAAAACA
1 TAAACCCTAAAACA
* * *
114058751 TATATCCTAAATCA
1 TAAACCCTAAAACA
114058765 TAAACCCTAAA
1 TAAACCCTAAA
114058776 CTATAATGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAAACA
Found at i:114058942 original size:22 final size:21
Alignment explanation
Indices: 114058894--114058952 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
114058884 AACTCCTAGT
*
114058894 CCCTAAACCCTAAACCATAAC
1 CCCTAAAACCTAAACCATAAC
** *
114058915 TACTAAAACATAAACCATAAAC
1 CCCTAAAACCTAAACCAT-AAC
*
114058937 CCCTAACACCTAAACC
1 CCCTAAAACCTAAACC
114058953 CCTAAAACTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.15
Consensus pattern (21 bp):
CCCTAAAACCTAAACCATAAC
Found at i:114058965 original size:15 final size:15
Alignment explanation
Indices: 114058926--114058965 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
114058916 ACTAAAACAT
114058926 AAACCATAAACCCCTA
1 AAACC-TAAACCCCTA
*
114058942 ACACCTAAACCCCTA
1 AAACCTAAACCCCTA
*
114058957 AAACTTAAA
1 AAACCTAAA
114058966 ATAGTAACTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCTAAACCCCTA
Found at i:114058999 original size:21 final size:20
Alignment explanation
Indices: 114058970--114059012 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
114058960 CTTAAAATAG
114058970 TAACTCATAAACATTAAACCCT
1 TAAC-CATAAACA-TAAACCCT
*
114058992 TAACCATATACCATAAACCCT
1 TAACCATA-AACATAAACCCT
114059013 AAACTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (20 bp):
TAACCATAAACATAAACCCT
Found at i:114059373 original size:39 final size:41
Alignment explanation
Indices: 114059268--114059409 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
114059258 CGTTTCTTAT
* *
114059268 AAAAGCGCCGCTAATGCTCTGGTCTTTAACTGCGTTTTGCC
1 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
114059309 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
1 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
114059350 AAAAGCG-C-CTAATGCTCTGGTCTTTAGCGGCGTTTTAG-C
1 AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTT-GCC
* *
114059389 AAAAACGCCGCTATTGCTCTG
1 AAAAGCGCCGCTAATGCTCTG
114059410 TGTTTTACAA
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
39 35 0.37
40 3 0.03
41 56 0.60
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTGCC
Found at i:114059455 original size:12 final size:12
Alignment explanation
Indices: 114059440--114059465 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114059430 GTTTTTTGAT
114059440 AAAACGCCGCTA
1 AAAACGCCGCTA
114059452 AAAACGCCGCTA
1 AAAACGCCGCTA
114059464 AA
1 AA
114059466 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:114061185 original size:19 final size:20
Alignment explanation
Indices: 114061155--114061198 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
114061145 CGAAAAATTA
*
114061155 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
114061175 TTTCT-GAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
114061194 TTTCT
1 TTTCT
114061199 AGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:114064450 original size:20 final size:22
Alignment explanation
Indices: 114064412--114064451 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
114064402 AGGACTTAAC
114064412 TATTATATTATATTATGAATAT
1 TATTATATTATATTATGAATAT
*
114064434 TATTAT-TTAT-TTGTGAAT
1 TATTATATTATATTATGAAT
114064452 TATTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTATATTATATTATGAATAT
Found at i:114069345 original size:3 final size:3
Alignment explanation
Indices: 114069339--114069410 Score: 71
Period size: 3 Copynumber: 25.0 Consensus size: 3
114069329 ATCTAAGATT
* ** *
114069339 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
114069382 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
114069411 AGTTAAAGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 7 0.12
3 47 0.82
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:114069385 original size:34 final size:34
Alignment explanation
Indices: 114069344--114069411 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
114069334 AGATTTTATT
*
114069344 ATTATTATTAATTATTAGTATGGTT-TTATATTAA
1 ATTATTATT-ATTATTAGTATGATTATTATATTAA
* *
114069378 ATTATTATTATTATTATTATTATTATTATATTAA
1 ATTATTATTATTATTAGTATGATTATTATATTAA
114069412 GTTAAAGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (34 bp):
ATTATTATTATTATTAGTATGATTATTATATTAA
Found at i:114071709 original size:19 final size:20
Alignment explanation
Indices: 114071685--114071722 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114071675 TAATTAGATT
114071685 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
114071704 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
114071723 TATAAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:114071954 original size:13 final size:14
Alignment explanation
Indices: 114071912--114071956 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
114071902 TAATAATGAT
114071912 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
114071927 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
114071940 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
114071953 TAAA
1 TAAA
114071957 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:114076976 original size:30 final size:30
Alignment explanation
Indices: 114076941--114077000 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
114076931 TATTTTATTA
*
114076941 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
114076971 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
114077001 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:114077559 original size:21 final size:22
Alignment explanation
Indices: 114077535--114077583 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
114077525 GGAAGAGAGA
*
114077535 AAAAAAAAG-AGAA-AGGAGAAG
1 AAAAAAAAGAAGAAGAAGA-AAG
114077556 -AAAAAAAGAAGAAGAAGAAAG
1 AAAAAAAAGAAGAAGAAGAAAG
114077577 AAAAAAA
1 AAAAAAA
114077584 GTAATGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAGAAGAAGAAAG
Found at i:114077561 original size:20 final size:20
Alignment explanation
Indices: 114077526--114077584 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
114077516 CCACACGCCG
114077526 GAAGAGAGAA-AAAAAAAG-A
1 GAAG-GAGAAGAAAAAAAGAA
114077545 GAAAGGAGAAGAAAAAAAGAA
1 G-AAGGAGAAGAAAAAAAGAA
*
114077566 GAAGAAGAAAGAAAAAAAG
1 GAAGGAG-AAGAAAAAAAG
114077585 TAATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 6 0.17
20 16 0.46
21 13 0.37
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
GAAGGAGAAGAAAAAAAGAA
Found at i:114077584 original size:21 final size:20
Alignment explanation
Indices: 114077526--114077584 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 20
114077516 CCACACGCCG
*
114077526 GAAGAGAGAAAAAAA-AAGA
1 GAAGAAAGAAAAAAAGAAGA
114077545 GAAAGGAGAAGAAAAAAAGAAGAA
1 G-AA-GA-AAGAAAAAAAGAAG-A
114077569 GAAGAAAGAAAAAAAG
1 GAAGAAAGAAAAAAAG
114077585 TAATGTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 13 0.38
22 11 0.32
23 5 0.15
24 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
GAAGAAAGAAAAAAAGAAGA
Found at i:114081029 original size:33 final size:33
Alignment explanation
Indices: 114080945--114081029 Score: 80
Period size: 33 Copynumber: 2.6 Consensus size: 33
114080935 ATTCACTTCA
* * * *
114080945 GTACTCCACTCCTTCCGACTCGTATCCACCGCC
1 GTACTCTACTCCTTCCGGCCCGTATCAACCGCC
* * * * **
114080978 GTACTTTACTCATCCCGGCCCGTATCAATCGTT
1 GTACTCTACTCCTTCCGGCCCGTATCAACCGCC
114081011 GTACTCTACTCCTTCCGGC
1 GTACTCTACTCCTTCCGGC
114081030 TCAAGTTTAT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.15, C:0.41, G:0.14, T:0.29
Consensus pattern (33 bp):
GTACTCTACTCCTTCCGGCCCGTATCAACCGCC
Found at i:114084531 original size:27 final size:27
Alignment explanation
Indices: 114084486--114084552 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
114084476 TGGGCCCTAT
* * *
114084486 CATTTGCGCCTCTGGGATAGGTACAAC
1 CATTTGCGCCTTTGAGATAGGCACAAC
114084513 CATTTGCGCCTTTGAGATAGGCACAAC
1 CATTTGCGCCTTTGAGATAGGCACAAC
*
114084540 CATTTGTGCCTTT
1 CATTTGCGCCTTT
114084553 CTCTCGCGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (27 bp):
CATTTGCGCCTTTGAGATAGGCACAAC
Found at i:114086386 original size:6 final size:6
Alignment explanation
Indices: 114086375--114086400 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
114086365 TTTGCAACCC
114086375 AAGGGG AAGGGG AAGGGG AAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AA
114086401 ATGGGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:114086571 original size:14 final size:14
Alignment explanation
Indices: 114086552--114086578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114086542 AGAAAAGCTT
114086552 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
114086566 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
114086579 AGGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:114090810 original size:30 final size:30
Alignment explanation
Indices: 114090770--114090826 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
114090760 TTTGATAAGT
114090770 AATTAATA-TTTAT-TACTTGAAAATATTTAA
1 AATTAATATTTTATATA-TT-AAAATATTTAA
*
114090800 AATTTATATTTTATATATTAAAATATT
1 AATTAATATTTTATATATTAAAATATT
114090827 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTTAA
Found at i:114095116 original size:7 final size:7
Alignment explanation
Indices: 114095101--114095152 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
114095091 TTAATTATCA
*
114095101 TTATAGT
1 TTATGGT
114095108 TTATGGT
1 TTATGGT
114095115 TTATGGT
1 TTATGGT
* *
114095122 TTAAGAT
1 TTATGGT
*
114095129 ATATGGT
1 TTATGGT
*
114095136 TTAGGGT
1 TTATGGT
*
114095143 TTAAGGT
1 TTATGGT
114095150 TTA
1 TTA
114095153 GGAGTTAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:114095219 original size:7 final size:7
Alignment explanation
Indices: 114095207--114095318 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
114095197 GGGATTATAA
114095207 TTTAGGG
1 TTTAGGG
114095214 TTTAGGG
1 TTTAGGG
*
114095221 GTTA-GG
1 TTTAGGG
114095227 TTT-GGAG
1 TTTAGG-G
*
114095234 TTTAAGG
1 TTTAGGG
*
114095241 TGTAAGGG
1 T-TTAGGG
*
114095249 TTTGGGG
1 TTTAGGG
*
114095256 TTAAGGG
1 TTTAGGG
*
114095263 TTAAGGG
1 TTTAGGG
*
114095270 TTTAGAG
1 TTTAGGG
*
114095277 TTTAGTG
1 TTTAGGG
114095284 TTTATGGG
1 TTTA-GGG
*
114095292 -ATAGGGG
1 TTTA-GGG
* *
114095299 TTAAAAGG
1 TT-TAGGG
114095307 TTTAGGG
1 TTTAGGG
114095314 TTTAG
1 TTTAG
114095319 ATTAATTAGT
Statistics
Matches: 78, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
6 5 0.06
7 60 0.77
8 12 0.15
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:114101208 original size:209 final size:209
Alignment explanation
Indices: 114100848--114101253 Score: 787
Period size: 209 Copynumber: 1.9 Consensus size: 209
114100838 GGTAATCATA
114100848 ATTCATATAATTCAATTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTTC
1 ATTCATATAATTCAATTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTTC
114100913 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
66 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
114100978 TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
131 TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
114101043 TGACGGCAGTGTTT
196 TGACGGCAGTGTTT
*
114101057 ATTCATATAATTCACTT-AGTGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTT
1 ATTCATATAATTCAATTGA-TGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTT
114101121 CATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGT
65 CATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGT
114101186 ATAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTG
130 ATAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTG
114101251 ATG
195 ATG
114101254 CATGTAAATT
Statistics
Matches: 195, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
208 1 0.01
209 194 0.99
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (209 bp):
ATTCATATAATTCAATTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTTC
ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
TGACGGCAGTGTTT
Found at i:114101268 original size:13 final size:13
Alignment explanation
Indices: 114101252--114101297 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
114101242 ATGTTGTTGA
114101252 TGCATGTAAATTC
1 TGCATGTAAATTC
114101265 TGCATGT-AA-T-
1 TGCATGTAAATTC
*
114101275 TAC-TGTAAATTC
1 TGCATGTAAATTC
114101287 TGCATGTAAAT
1 TGCATGTAAAT
114101298 GGGCATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 3 0.11
10 4 0.15
11 2 0.07
12 4 0.15
13 14 0.52
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (13 bp):
TGCATGTAAATTC
Found at i:114107822 original size:19 final size:21
Alignment explanation
Indices: 114107791--114107836 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
114107781 AAAAATATAA
114107791 ATTTTAGAATTTTT-ATAAA-T
1 ATTTTAGAATTTTTGA-AAATT
114107811 ATTTTA-AATTTTTGAAAATT
1 ATTTTAGAATTTTTGAAAATT
114107831 ATTTTA
1 ATTTTA
114107837 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTAGAATTTTTGAAAATT
Found at i:114108009 original size:23 final size:23
Alignment explanation
Indices: 114107982--114108035 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
114107972 AACTCGAAAT
*
114107982 TTAAATTACT-TATTCGAATTAAC
1 TTAAATTACTCGATTC-AATTAAC
*
114108005 TTAAATAACTCGATTCAATTAAC
1 TTAAATTACTCGATTCAATTAAC
114108028 TTGAAATT
1 TT-AAATT
114108036 CAAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.41
Consensus pattern (23 bp):
TTAAATTACTCGATTCAATTAAC
Found at i:114111040 original size:12 final size:11
Alignment explanation
Indices: 114111023--114111053 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
114111013 TTCTCATGTA
114111023 TATATTATTATT
1 TATATTATTA-T
114111035 TATATTATTAT
1 TATATTATTAT
114111046 TATATTAT
1 TATATTAT
114111054 ATATACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTATTAT
Found at i:114111134 original size:3 final size:3
Alignment explanation
Indices: 114111128--114111185 Score: 55
Period size: 3 Copynumber: 18.0 Consensus size: 3
114111118 TTCTGACTAC
*
114111128 TAT TAT TAT ATAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
114111174 TAT TAT TAT TAT
1 TAT TAT TAT TAT
114111186 CACCCCTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 34 0.68
4 15 0.30
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:114111177 original size:12 final size:13
Alignment explanation
Indices: 114111128--114111185 Score: 61
Period size: 12 Copynumber: 4.7 Consensus size: 13
114111118 TTCTGACTAC
*
114111128 TATTATTATATA-
1 TATTATTATGTAT
114111140 TA-TATATATGTAT
1 TATTAT-TATGTAT
*
114111153 TATTGTT-TGTAT
1 TATTATTATGTAT
114111165 TATTATTAT-TAT
1 TATTATTATGTAT
114111177 TATTATTAT
1 TATTATTAT
114111186 CACCCCTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.08
12 30 0.77
13 4 0.10
14 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:114119019 original size:21 final size:21
Alignment explanation
Indices: 114118995--114119038 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
114118985 TGGTTAACTT
*
114118995 GTAACACTATTTTAATAAAGG
1 GTAACACTAATTTAATAAAGG
*
114119016 GTAAGACTAATTTAATAAAGG
1 GTAACACTAATTTAATAAAGG
114119037 GT
1 GT
114119039 TTTAAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (21 bp):
GTAACACTAATTTAATAAAGG
Found at i:114119864 original size:2 final size:2
Alignment explanation
Indices: 114119857--114119890 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
114119847 AATAGATTTG
114119857 AT AT AT AT 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
114119891 TGTGTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114121171 original size:31 final size:31
Alignment explanation
Indices: 114121136--114121198 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
114121126 AATTTTTAAC
114121136 AATATAACCAATTTATTTTTTGATCTAACAT
1 AATATAACCAATTTATTTTTTGATCTAACAT
114121167 AATATAACCAATTTATTTTTTGATCTAACAT
1 AATATAACCAATTTATTTTTTGATCTAACAT
114121198 A
1 A
114121199 CAAAGAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
AATATAACCAATTTATTTTTTGATCTAACAT
Found at i:114121211 original size:31 final size:31
Alignment explanation
Indices: 114121141--114121213 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
114121131 TTAACAATAT
* *
114121141 AACCAATTTATTTTTTGATCTAACATAATAT
1 AACCAATTTATTTTTTGATCTAACATAAAAG
114121172 AACCAATTTATTTTTTGATCTAACATACAAAG
1 AACCAATTTATTTTTTGATCTAACATA-AAAG
*
114121204 AA-TAATTTAT
1 AACCAATTTAT
114121214 CTAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (31 bp):
AACCAATTTATTTTTTGATCTAACATAAAAG
Found at i:114123423 original size:29 final size:30
Alignment explanation
Indices: 114123356--114123411 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
114123346 ATGATTTGTG
* * *
114123356 AAAATTGAATCAAATCAAAATTTCATGAAT
1 AAAATTGCATAAAATCAAAAGTTCATGAAT
114123386 AAAATTGCATAAAATC-AAAGTTCATG
1 AAAATTGCATAAAATCAAAAGTTCATG
114123412 TATACAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.29
Consensus pattern (30 bp):
AAAATTGCATAAAATCAAAAGTTCATGAAT
Found at i:114123718 original size:89 final size:88
Alignment explanation
Indices: 114123555--114123769 Score: 227
Period size: 89 Copynumber: 2.4 Consensus size: 88
114123545 TTAAGGGTGC
* * * * * * *
114123555 AAACCTTCAAACATATT-AAAAAAAGAAATTAAGTCTCTACTTTTTTTTGTACTTATTTGCGTAC
1 AAACCCTCAAACAT-TTAAAAAAAAAAAATTAAGCCCCTACTTTTTTTTGCACTCAATTGCGTAC
* *
114123619 TTGAACTTTTAAAATGCA-TAAAA
65 TTGAAATTTTAAAATACATTAAAA
* *
114123642 AAACCCTCAAACCTTTAAAAAAAAAACAATTAAGCCCCTACTATTTTTTTGCACTCAATTGGGTA
1 AAACCCTCAAACATTTAAAAAAAAAA-AATTAAGCCCCTACT-TTTTTTTGCACTCAATTGCGTA
*
114123707 TTTGAAATTTTAAAATACATTAAAA
64 CTTGAAATTTTAAAATACATTAAAA
* * * *
114123732 ATACTCTCAAACTTTTTCAAAAAAAATAAATTAAGCCC
1 AAACCCTCAAAC-ATTT-AAAAAAAAAAAATTAAGCCC
114123770 TTGCTTTTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
86 2 0.02
87 20 0.19
88 13 0.12
89 34 0.32
90 15 0.14
91 13 0.12
92 9 0.08
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.34
Consensus pattern (88 bp):
AAACCCTCAAACATTTAAAAAAAAAAAATTAAGCCCCTACTTTTTTTTGCACTCAATTGCGTACT
TGAAATTTTAAAATACATTAAAA
Found at i:114123878 original size:10 final size:11
Alignment explanation
Indices: 114123852--114123877 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
114123842 TAAAAATATT
114123852 AAAAATTAGGA
1 AAAAATTAGGA
114123863 AAAAATTAGGA
1 AAAAATTAGGA
114123874 AAAA
1 AAAA
114123878 TATAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAAATTAGGA
Found at i:114123902 original size:37 final size:36
Alignment explanation
Indices: 114123837--114123907 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
114123827 AAATTTTAAT
114123837 AAAAATAAAAATATTAAAAATTAGGAAAAAATTAGG
1 AAAAATAAAAATATTAAAAATTAGGAAAAAATTAGG
* *
114123873 AAAAATATAAAATATATAGAAA-TATGAAAAAATTA
1 AAAAATA-AAAATAT-TAAAAATTAGGAAAAAATTA
114123908 TAAAAGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 7 0.23
37 19 0.61
38 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (36 bp):
AAAAATAAAAATATTAAAAATTAGGAAAAAATTAGG
Found at i:114128367 original size:19 final size:20
Alignment explanation
Indices: 114128343--114128381 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
114128333 TTAAAGTTCA
114128343 TTGATAAAA-TAAATTATTG
1 TTGATAAAATTAAATTATTG
114128362 TTGATAAAATTTAAATTATT
1 TTGATAAAA-TTAAATTATT
114128382 TATCCTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TTGATAAAATTAAATTATTG
Found at i:114144040 original size:21 final size:21
Alignment explanation
Indices: 114143991--114144084 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
114143981 AGGCTACACA
* * **
114143991 GAAGCACATAAGTGTTAAATA
1 GAAGCTCATAAGGGTTAAACG
* *
114144012 GAAACTCATAAGGGTTGAACG
1 GAAGCTCATAAGGGTTAAACG
* *
114144033 GAAGCTCAT-AGGAGCTAAATG
1 GAAGCTCATAAGG-GTTAAACG
* * *
114144054 GAAACCCATAAGGGTTAAACT
1 GAAGCTCATAAGGGTTAAACG
114144075 GAAGCTCATA
1 GAAGCTCATA
114144085 TGAGCTAAAC
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 3 0.06
21 48 0.89
22 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
GAAGCTCATAAGGGTTAAACG
Found at i:114144052 original size:42 final size:42
Alignment explanation
Indices: 114144006--114144104 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
114143996 ACATAAGTGT
* *
114144006 TAAATAGAAACTCATAAGGGTTGAACGGAAGCTCATAGGAGC
1 TAAATAGAAACCCATAAGGGTTAAACGGAAGCTCATAGGAGC
* * *
114144048 TAAATGGAAACCCATAAGGGTTAAACTGAAGCTCATATGAGC
1 TAAATAGAAACCCATAAGGGTTAAACGGAAGCTCATAGGAGC
*
114144090 TAAACAGAAACCCAT
1 TAAATAGAAACCCAT
114144105 TTAGTTAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
TAAATAGAAACCCATAAGGGTTAAACGGAAGCTCATAGGAGC
Found at i:114144133 original size:21 final size:21
Alignment explanation
Indices: 114144004--114144138 Score: 85
Period size: 21 Copynumber: 6.5 Consensus size: 21
114143994 GCACATAAGT
* * *
114144004 GTTAAATAGAAACTCATAAGG
1 GTTAAACAGAAACTCATATGA
* * * *
114144025 GTTGAACGGAAGCTCATAGGA
1 GTTAAACAGAAACTCATATGA
* ** * * *
114144046 GCTAAATGGAAACCCATAAGG
1 GTTAAACAGAAACTCATATGA
* *
114144067 GTTAAACTGAAGCTCATATGA
1 GTTAAACAGAAACTCATATGA
* * *
114144088 GCTAAACAGAAACCCAT-TTA
1 GTTAAACAGAAACTCATATGA
*
114144108 GTTAAACAGAAACTTATATGA
1 GTTAAACAGAAACTCATATGA
114144129 GTT-AACAGAA
1 GTTAAACAGAA
114144139 GCTCGTGAGA
Statistics
Matches: 84, Mismatches: 29, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
20 23 0.27
21 61 0.73
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (21 bp):
GTTAAACAGAAACTCATATGA
Found at i:114145815 original size:17 final size:18
Alignment explanation
Indices: 114145773--114145816 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
114145763 ATTTCGTTTG
*
114145773 TTTATTTTTCTTTATTTA
1 TTTATTTTTCGTTATTTA
**
114145791 TTCCTTTTT-GTTATTTA
1 TTTATTTTTCGTTATTTA
114145808 TTTATTTTT
1 TTTATTTTT
114145817 ATTCTCTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTATTTTTCGTTATTTA
Found at i:114153730 original size:65 final size:66
Alignment explanation
Indices: 114153646--114153769 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
114153636 TATCAAACAG
* * *
114153646 CTATCAACTGCGGCTACAA-TTCTGACGCAATATGGAATTAACTCATGTAACGACATTACAAAAA
1 CTATCAACTGCGGATACAATTTCGGACGCAATATGAAATTAACTCATGTAACGACATTACAAAAA
114153710 T
66 T
* * *
114153711 CTATCAACTGC-GATGACAATTTCGGACTCAATCTGAAATTAACTCATGTAGCGACATTA
1 CTATCAACTGCGGAT-ACAATTTCGGACGCAATATGAAATTAACTCATGTAACGACATTA
114153770 GTGCAGAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 2 0.04
65 15 0.29
66 34 0.67
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (66 bp):
CTATCAACTGCGGATACAATTTCGGACGCAATATGAAATTAACTCATGTAACGACATTACAAAAA
T
Found at i:114155249 original size:30 final size:30
Alignment explanation
Indices: 114155213--114155275 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
114155203 ATAATTAGGG
*
114155213 TTCAAATGATTTAAGATTAAGTTTTAATTT
1 TTCAAATGATTTAAAATTAAGTTTTAATTT
114155243 TTCAAATGATTTAAAATTAAGTTTTAATTT
1 TTCAAATGATTTAAAATTAAGTTTTAATTT
114155273 TTC
1 TTC
114155276 TCCTATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.51
Consensus pattern (30 bp):
TTCAAATGATTTAAAATTAAGTTTTAATTT
Found at i:114160352 original size:21 final size:21
Alignment explanation
Indices: 114160326--114160368 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
114160316 GATGAAGAAG
114160326 ACCATGAGATGAAAAAAAAAA
1 ACCATGAGATGAAAAAAAAAA
114160347 ACCATGAGATGAAAAAAAAAA
1 ACCATGAGATGAAAAAAAAAA
114160368 A
1 A
114160369 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.09
Consensus pattern (21 bp):
ACCATGAGATGAAAAAAAAAA
Found at i:114163073 original size:2 final size:2
Alignment explanation
Indices: 114163066--114163102 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
114163056 GTGAGTGATA
114163066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114163103 GATTATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114173816 original size:3 final size:3
Alignment explanation
Indices: 114173808--114173845 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
114173798 GTCTTTTCAT
*
114173808 TTA TTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
114173846 GGTCTTCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:114179878 original size:35 final size:35
Alignment explanation
Indices: 114179832--114179903 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
114179822 AATTGCAAGA
114179832 AGGCTACTCCAGTTTCATCTTAGAAGGCTCAGGAC
1 AGGCTACTCCAGTTTCATCTTAGAAGGCTCAGGAC
114179867 AGGCTACTCCAGTTTCATCTTAGAAGGCTCAGGAC
1 AGGCTACTCCAGTTTCATCTTAGAAGGCTCAGGAC
114179902 AG
1 AG
114179904 ATGAAACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (35 bp):
AGGCTACTCCAGTTTCATCTTAGAAGGCTCAGGAC
Found at i:114180634 original size:87 final size:87
Alignment explanation
Indices: 114180532--114180707 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
114180522 ATGATAAATT
114180532 GCTAAATGAATCTTCTTCTTCTCTACTTCTCTCTCTGTTCTTTCCCTTCAATCTTTTCTATTTTT
1 GCTAAATGAATCTTCTTCTTCTCTACTTCTCTCTCTGTTCTTTCCCTTCAATCTTTTCTATTTTT
114180597 CTGAAACGAAGTGCATCATATA
66 CTGAAACGAAGTGCATCATATA
114180619 GCTAAATGAATCTTCTTCTTCTCTACTTCTCTCTCTGTTCTTTCCCTTCAATCTTTTCTATTTTT
1 GCTAAATGAATCTTCTTCTTCTCTACTTCTCTCTCTGTTCTTTCCCTTCAATCTTTTCTATTTTT
114180684 CTGAAACGAAGTGCATCATATA
66 CTGAAACGAAGTGCATCATATA
114180706 GC
1 GC
114180708 AAAAGCTTCC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.45
Consensus pattern (87 bp):
GCTAAATGAATCTTCTTCTTCTCTACTTCTCTCTCTGTTCTTTCCCTTCAATCTTTTCTATTTTT
CTGAAACGAAGTGCATCATATA
Found at i:114187082 original size:12 final size:13
Alignment explanation
Indices: 114187048--114187094 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
114187038 CAAAAATTCT
*
114187048 AATTAAATTAATCA
1 AATTAAATT-TTCA
114187062 AATTTAAA-TTTCA
1 AA-TTAAATTTTCA
*
114187075 AGTTAAATTTTCA
1 AATTAAATTTTCA
114187088 AATTAAA
1 AATTAAA
114187095 ATAATTCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 5 0.18
13 15 0.54
14 3 0.11
15 5 0.18
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (13 bp):
AATTAAATTTTCA
Found at i:114188952 original size:325 final size:324
Alignment explanation
Indices: 114188363--114189015 Score: 1261
Period size: 325 Copynumber: 2.0 Consensus size: 324
114188353 TTAATAGATT
*
114188363 TAATTGTTGTTGTTTGATCAGAACTGAAATTCAAAATTCTAAAAGTATAAAAATTAAAACAGCCA
1 TAATTGTTGTTGTTTGATCAGAACTGAAATTCAAAATTCTAAAAGTATAAAAATTAAAACAACCA
114188428 AAATAGAATATAAAAACTAAATATAATTTGACCTATATTTAATGCAATGATAATGGAGTGGTGAA
66 AAATAGAATATAAAAACTAAATATAATTTGACCTATATTTAATGCAATGATAATGGAGTGGTGAA
* *
114188493 CCATTTCCTTGAAATTTGATTAAGGTAATTTTTATTTTTTTGAAACTATTTCAGATTGGGCTTAT
131 CCATTTCCTTGAAATTTGATTAAGGTAATTTTTATTTTTTTGAAACTATTCCAGATTGGGCTCAT
*
114188558 ATTATTAAAAAATAAACCAAATTACAAAGTCTAAATACAAGCTTATTATCCGAACCAGCCCACAA
196 ATTATTAAAAAATAAACCAAACTACAAAGTCTAAATACAAGCTTATTATCCGAACCAGCCCACAA
114188623 TTCAAAATTATTGAAAAACCGATCCTAAAGAATTCAAATGGCCAGAAAAAAAATCTAGATATTA
261 TTCAAAATTATTGAAAAACCGATCCTAAAGAATTCAAATGGCCAGAAAAAAAATCTAGATATTA
114188687 TAATTGTTGTTGTTTGATCAGAACTGAAATTCAAAATTCTAAAAGTATAAAAATTAAAACCAACC
1 TAATTGTTGTTGTTTGATCAGAACTGAAATTCAAAATTCTAAAAGTATAAAAATTAAAA-CAACC
114188752 AAAATAGAATATAAAAACTAAATATAATTTGACCTATATTTAATGCAATGATAATGGAGTGGTGA
65 AAAATAGAATATAAAAACTAAATATAATTTGACCTATATTTAATGCAATGATAATGGAGTGGTGA
114188817 ACCATTTCCTTGAAATTTGATTAAGGTAATTTTTATTTTTTTGAAACTATTCCAGATTGGGCTCA
130 ACCATTTCCTTGAAATTTGATTAAGGTAATTTTTATTTTTTTGAAACTATTCCAGATTGGGCTCA
114188882 TATTATTAAAAAATAAACCAAACTACAAAGTCTAAATACAAGCTTATTATCCGAACCAGCCCACA
195 TATTATTAAAAAATAAACCAAACTACAAAGTCTAAATACAAGCTTATTATCCGAACCAGCCCACA
114188947 ATTCAAAATTATTGAAAAACCGATCCTAAAGAATTCAAATGGCCAGAAAAAAAATCTAGATATTA
260 ATTCAAAATTATTGAAAAACCGATCCTAAAGAATTCAAATGGCCAGAAAAAAAATCTAGATATTA
114189012 TAAT
1 TAAT
114189016 AGAATAGTCT
Statistics
Matches: 324, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
324 59 0.18
325 265 0.82
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (324 bp):
TAATTGTTGTTGTTTGATCAGAACTGAAATTCAAAATTCTAAAAGTATAAAAATTAAAACAACCA
AAATAGAATATAAAAACTAAATATAATTTGACCTATATTTAATGCAATGATAATGGAGTGGTGAA
CCATTTCCTTGAAATTTGATTAAGGTAATTTTTATTTTTTTGAAACTATTCCAGATTGGGCTCAT
ATTATTAAAAAATAAACCAAACTACAAAGTCTAAATACAAGCTTATTATCCGAACCAGCCCACAA
TTCAAAATTATTGAAAAACCGATCCTAAAGAATTCAAATGGCCAGAAAAAAAATCTAGATATTA
Found at i:114192646 original size:18 final size:18
Alignment explanation
Indices: 114192625--114192659 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114192615 AATCAGTAAT
* *
114192625 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
114192643 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
114192660 TTCAACAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:114192694 original size:45 final size:45
Alignment explanation
Indices: 114192643--114192746 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
114192633 GTAGCAGTAG
* * * *
114192643 CAGTAACAGTAACAGTATTCAACAGACAAAGTGTTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
*
114192688 CAGTAACGGTAACAGTATTCGACACACAAAGTGCTGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
114192733 CAGTAACGGTAACA
1 CAGTAACGGTAACA
114192747 ATAACAGTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:114193316 original size:6 final size:6
Alignment explanation
Indices: 114193301--114193344 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
114193291 AAATCTCTAG
** *
114193301 TTTTTCC TTTTTC TTTTTC TTTCCC TTTTTC TTTCTC TTTTTC T
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
114193345 CCCCTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:114193322 original size:12 final size:12
Alignment explanation
Indices: 114193301--114193344 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
114193291 AAATCTCTAG
*
114193301 TTTTTCCTTTTTC
1 TTTTT-CTTTCTC
*
114193314 TTTTTCTTTCCC
1 TTTTTCTTTCTC
114193326 TTTTTCTTTCTC
1 TTTTTCTTTCTC
114193338 TTTTTCT
1 TTTTTCT
114193345 CCCCTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:114193329 original size:18 final size:18
Alignment explanation
Indices: 114193306--114193340 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
114193296 TCTAGTTTTT
*
114193306 CCTTTTTCTTTTTCTTTC
1 CCTTTTTCTTTCTCTTTC
114193324 CCTTTTTCTTTCTCTTT
1 CCTTTTTCTTTCTCTTT
114193341 TTCTCCCCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CCTTTTTCTTTCTCTTTC
Found at i:114193354 original size:24 final size:24
Alignment explanation
Indices: 114193301--114193355 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
114193291 AAATCTCTAG
* *
114193301 TTTTTCCTTTTTCTTTTTCTTTCCC
1 TTTTT-CTTTCTCTTTTTCTTCCCC
114193326 TTTTTCTTTCTCTTTTTC-TCCCC
1 TTTTTCTTTCTCTTTTTCTTCCCC
114193349 TGTTTTC
1 T-TTTTC
114193356 GAATGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 17 0.63
25 5 0.19
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTCTCTTTTTCTTCCCC
Found at i:114199858 original size:18 final size:18
Alignment explanation
Indices: 114199837--114199871 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114199827 AATCAGTAAT
* *
114199837 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
114199855 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
114199872 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:114199957 original size:45 final size:45
Alignment explanation
Indices: 114199855--114199961 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
114199845 GTAGCAGTAG
114199855 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTATAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTATAA
*** * *
114199900 CAGTAGTTGTAACAGTATTCGACACACAAAGTG-TCGAAT-TGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAATCT-ATAA
*
114199945 CAGTAACGGTAACAGTA
1 CAGTAACAGTAACAGTA
114199962 ACAGTAGTCG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
44 2 0.04
45 50 0.96
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTATAA
Found at i:114204382 original size:19 final size:20
Alignment explanation
Indices: 114204358--114204395 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
114204348 TCTCATTTTT
114204358 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
114204377 TATTTGTTTTTATGTTTTA
1 TATTTGTTTTTATGTTTTA
114204396 GATGTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:114206536 original size:19 final size:19
Alignment explanation
Indices: 114206514--114206570 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
114206504 CAAAAATAAT
114206514 AAAAAAATATTAAAAATTA
1 AAAAAAATATTAAAAATTA
* * *
114206533 AAAATAATAATAATAATTA
1 AAAAAAATATTAAAAATTA
** *
114206552 TTATAAATATTACAAAATT
1 AAAAAAATATTA-AAAATT
114206571 GTAAAAATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAAATATTAAAAATTA
Found at i:114207101 original size:2 final size:2
Alignment explanation
Indices: 114207094--114207119 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114207084 GTCTTTAGAA
114207094 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
114207120 GGGTTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114207483 original size:26 final size:27
Alignment explanation
Indices: 114207447--114207503 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
114207437 TTATTATGAA
114207447 AATGAGTTGTTTTCAACCGTACCTGT-
1 AATGAGTTGTTTTCAACCGTACCTGTC
114207473 AATGAGTTGTTTTCAACCGTACCTGTC
1 AATGAGTTGTTTTCAACCGTACCTGTC
114207500 AATG
1 AATG
114207504 TCATTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
AATGAGTTGTTTTCAACCGTACCTGTC
Found at i:114208807 original size:16 final size:17
Alignment explanation
Indices: 114208768--114208815 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
114208758 AAAAGGAAAT
*
114208768 AAAAGAGAGAGAGAAGA
1 AAAAGAGAGACAGAAGA
* *
114208785 AACAGAGA-ACAGACGA
1 AAAAGAGAGACAGAAGA
*
114208801 AAAAGAGAGAAAGAA
1 AAAAGAGAGACAGAA
114208816 AAGGGGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.65, C:0.06, G:0.29, T:0.00
Consensus pattern (17 bp):
AAAAGAGAGACAGAAGA
Found at i:114209558 original size:6 final size:6
Alignment explanation
Indices: 114209547--114209585 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
114209537 TGATCAAAAT
*
114209547 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
114209586 TATTGAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:114209574 original size:18 final size:18
Alignment explanation
Indices: 114209547--114209592 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
114209537 TGATCAAAAT
*
114209547 TGAAAGTGAAAGTGAAAG
1 TGAAATTGAAAGTGAAAG
114209565 TGAAATTGAAAGTGAAAG
1 TGAAATTGAAAGTGAAAG
*
114209583 TGATATTGAA
1 TGAAATTGAA
114209593 TTGAGAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (18 bp):
TGAAATTGAAAGTGAAAG
Found at i:114209592 original size:12 final size:12
Alignment explanation
Indices: 114209543--114209581 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
114209533 TTTGTGATCA
114209543 AAATTGAAAGTG
1 AAATTGAAAGTG
*
114209555 AAAGTGAAAGTG
1 AAATTGAAAGTG
114209567 AAATTGAAAGTG
1 AAATTGAAAGTG
114209579 AAA
1 AAA
114209582 GTGATATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.21
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:114217112 original size:20 final size:21
Alignment explanation
Indices: 114217075--114217114 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
114217065 TAATGAGAAT
114217075 TTTCAAAACTTTTAAGAAAGC
1 TTTCAAAACTTTTAAGAAAGC
*
114217096 TTTCAAAA-TTTTGAGAAAG
1 TTTCAAAACTTTTAAGAAAG
114217115 TCTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
TTTCAAAACTTTTAAGAAAGC
Found at i:114217197 original size:20 final size:20
Alignment explanation
Indices: 114217172--114217211 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
114217162 CAAAGTATTG
114217172 ATTGTGCACCAAATAGTTTT
1 ATTGTGCACCAAATAGTTTT
114217192 ATTGTGCACCAAATAGTTTT
1 ATTGTGCACCAAATAGTTTT
114217212 TCTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTGTGCACCAAATAGTTTT
Found at i:114222347 original size:19 final size:18
Alignment explanation
Indices: 114222303--114222368 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
114222293 AATCCATAAT
*
114222303 TTTCTTTTTTCTTTTTCT-
1 TTTCTTTTTTC-ATTTCTG
* *
114222321 TTCCCTTTTTTCCTTCTCTG
1 TT-TCTTTTTTCATT-TCTG
*
114222341 TTTCTTTTTTCAATTCTG
1 TTTCTTTTTTCATTTCTG
114222359 TTTCTTTTTT
1 TTTCTTTTTT
114222369 ATTCTTTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 18 0.45
19 20 0.50
20 2 0.05
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTCTTTTTTCATTTCTG
Found at i:114222372 original size:16 final size:17
Alignment explanation
Indices: 114222337--114222373 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
114222327 TTTTTCCTTC
114222337 TCTGTTTCTTTTTTCAAT
1 TCTGTTTCTTTTTT-AAT
114222355 TCTGTTTCTTTTTT-AT
1 TCTGTTTCTTTTTTAAT
114222371 TCT
1 TCT
114222374 TTTGTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
18 14 0.74
ACGTcount: A:0.08, C:0.16, G:0.05, T:0.70
Consensus pattern (17 bp):
TCTGTTTCTTTTTTAAT
Found at i:114222394 original size:19 final size:18
Alignment explanation
Indices: 114222339--114222394 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
114222329 TTTCCTTCTC
* * *
114222339 TGTTTCTTTTTTCAATTC
1 TGTTTCTTTTTTTACTTT
*
114222357 TGTTTCTTTTTTATTCTTT
1 TGTTTCTTTTTT-TACTTT
114222376 TGTTTCTTTTATTTACTTT
1 TGTTTCTTTT-TTTACTTT
114222395 ATGTATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 12 0.39
19 17 0.55
20 2 0.06
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.73
Consensus pattern (18 bp):
TGTTTCTTTTTTTACTTT
Found at i:114222414 original size:13 final size:13
Alignment explanation
Indices: 114222398--114222430 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
114222388 TTACTTTATG
114222398 TATTATATTATTA
1 TATTATATTATTA
*
114222411 TATTATTTTATTA
1 TATTATATTATTA
114222424 TATTATA
1 TATTATA
114222431 CTTAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTATATTATTA
Done.