Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 208 of 222
Found at i:65965212 original size:20 final size:20
Alignment explanation
Indices: 65965189--65965228 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
65965179 TTGAGTATCG
65965189 ATTAAAT-TTTAATTTTAAAA
1 ATTAAATATTTAA-TTTAAAA
*
65965209 ATTAACTATTTAATTTAAAA
1 ATTAAATATTTAATTTAAAA
65965229 TAATTGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTAATTTAAAA
Found at i:65965448 original size:3 final size:3
Alignment explanation
Indices: 65965440--65965484 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
65965430 AACAAGGCAA
65965440 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
65965485 GAACACATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65970021 original size:13 final size:13
Alignment explanation
Indices: 65970005--65970057 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
65969995 TTTAAACTAA
65970005 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
65970018 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
*
65970031 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
65970044 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
65970057 A
1 A
65970058 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.24
13 19 0.56
14 7 0.21
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:65970508 original size:11 final size:11
Alignment explanation
Indices: 65970494--65970533 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
65970484 ATTTTAATGA
*
65970494 TATTTTGTTAC
1 TATTTTGCTAC
*
65970505 TATTTTGCTAT
1 TATTTTGCTAC
*
65970516 TATATTGCTAC
1 TATTTTGCTAC
65970527 TATTTTG
1 TATTTTG
65970534 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:65976733 original size:33 final size:33
Alignment explanation
Indices: 65976691--65976776 Score: 172
Period size: 33 Copynumber: 2.6 Consensus size: 33
65976681 AATAACAAAG
65976691 GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGT
1 GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGT
65976724 GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGT
1 GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGT
65976757 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
65976777 ACCATATCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGT
Found at i:65976842 original size:33 final size:34
Alignment explanation
Indices: 65976800--65976934 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 34
65976790 ATGTGAAAGG
*
65976800 GGTTGCTAAGTGTTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
65976833 GGTTGCTAAGTGCTGATTCCACC-ATATC-CTTGAAAGT
1 GGTTGCTAAGTGCTGATTCCACCGA-ATCAC-TG---GT
65976870 AAAAAGGGGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 -------GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
* *
65976910 GGTTGCTAAGTGTTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
65976935 TAACGGTTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 31
0.71 0.03 0.26
Matches are distributed among these distances:
33 39 0.47
34 11 0.13
37 2 0.02
40 2 0.02
43 7 0.08
44 22 0.27
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
Found at i:65976850 original size:76 final size:77
Alignment explanation
Indices: 65976724--65976932 Score: 330
Period size: 76 Copynumber: 2.7 Consensus size: 77
65976714 ACTCTTTGGT
* * **
65976724 GGTTGCTAAGTGCTGATTCCCTGACTCTTTGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTG
* *
65976789 AATGT-GAAAGG
66 AAAGTAAAAAGG
*
65976800 GGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTG
65976865 AAAGTAAAAAGG
66 AAAGTAAAAAGG
* *
65976877 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGTTGAATCCACC
1 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACC
65976933 GATAACGGTT
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
76 64 0.52
77 58 0.48
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (77 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTG
AAAGTAAAAAGG
Found at i:65978969 original size:20 final size:20
Alignment explanation
Indices: 65978944--65978983 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
65978934 ACGGTATCCC
65978944 TGCATTTACCCTTACAAAAT
1 TGCATTTACCCTTACAAAAT
65978964 TGCATTTACCCTTACAAAAT
1 TGCATTTACCCTTACAAAAT
65978984 CAATCTCATT
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:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (20 bp):
TGCATTTACCCTTACAAAAT
Found at i:65979559 original size:16 final size:16
Alignment explanation
Indices: 65979528--65979557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65979518 ATGTGTCTAT
65979528 TTTTTTAAGATATTTA
1 TTTTTTAAGATATTTA
65979544 TTTTTTAA-ATATTT
1 TTTTTTAAGATATTT
65979558 TACTATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAAGATATTTA
Found at i:65980004 original size:23 final size:23
Alignment explanation
Indices: 65979960--65980004 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
65979950 ATTGTCGTTT
* **
65979960 TTTCACTTTGATATTTTTTTTTG
1 TTTCACTTTGATACTTAATTTTG
*
65979983 TTTCATTTTGATACTTAATTTT
1 TTTCACTTTGATACTTAATTTT
65980005 TATATTATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTCACTTTGATACTTAATTTTG
Found at i:65980576 original size:18 final size:19
Alignment explanation
Indices: 65980534--65980586 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
65980524 TTAATCATTT
*
65980534 TTTAA-ATTTTT-AATGAC
1 TTTAATATTTTTAAATTAC
*
65980551 TTTCATATTTTTAAATTA-
1 TTTAATATTTTTAAATTAC
65980569 TTTAATATTTTCTAAATT
1 TTTAATATTTT-TAAATT
65980587 TAAAAGTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.13
18 16 0.53
19 10 0.33
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAATATTTTTAAATTAC
Found at i:65996297 original size:29 final size:30
Alignment explanation
Indices: 65996242--65996320 Score: 72
Period size: 31 Copynumber: 2.6 Consensus size: 30
65996232 ATTTTAAAAT
* *
65996242 TATATATGAA-TTTAGATTTAATGTGTACTTG
1 TATATATGAATTTTA-ATTTAA-GTGTAATTA
*
65996273 TATATATGAATTTTAATTTGA-TGTAATTA
1 TATATATGAATTTTAATTTAAGTGTAATTA
* *
65996302 TATATGTAAAATTTTAATT
1 TATATAT-GAATTTTAATT
65996321 GTGGTTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 12 0.29
30 10 0.24
31 15 0.37
32 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (30 bp):
TATATATGAATTTTAATTTAAGTGTAATTA
Found at i:66002655 original size:21 final size:21
Alignment explanation
Indices: 66002626--66002665 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66002616 CTTTTAAAAC
*
66002626 GATATAACTATTAAAGTAAGA
1 GATACAACTATTAAAGTAAGA
*
66002647 GATACAACTATTCAAGTAA
1 GATACAACTATTAAAGTAA
66002666 CTATCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (21 bp):
GATACAACTATTAAAGTAAGA
Found at i:66013173 original size:6 final size:6
Alignment explanation
Indices: 66013141--66013190 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
66013131 TATCATTGAG
* *
66013141 TTTATT ATTATT TTT-TCGT TTTA-T TTTATT TTTATT TTTATT TTTGTT
1 TTTATT TTTATT TTTAT--T TTTATT TTTATT TTTATT TTTATT TTTATT
66013189 TT
1 TT
66013191 AGTTGCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.16
6 27 0.73
7 4 0.11
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:66013190 original size:17 final size:17
Alignment explanation
Indices: 66013139--66013206 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
66013129 GGTATCATTG
*
66013139 AGTTTATTATTATTTTTT
1 AGTTT-TTATTTTTTTTT
*
66013157 CG-TTTTATTTTATTTTT
1 AGTTTTTATTTT-TTTTT
66013174 A-TTTTTATTTTTGTTTT
1 AGTTTTTATTTTT-TTTT
66013191 AGTTGCTTTATTTTTT
1 AGTT--TTTATTTTTT
66013207 ATTTTCTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 7 0.17
17 21 0.51
18 3 0.07
19 1 0.02
20 9 0.22
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (17 bp):
AGTTTTTATTTTTTTTT
Found at i:66013610 original size:17 final size:17
Alignment explanation
Indices: 66013577--66013610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66013567 ATTAGAATGA
*
66013577 ATTTTTATCGATTTGTT
1 ATTTTTATCGATGTGTT
*
66013594 ATTTTTATTGATGTGTT
1 ATTTTTATCGATGTGTT
66013611 TTGAACTAAA
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:0.18, C:0.03, G:0.15, T:0.65
Consensus pattern (17 bp):
ATTTTTATCGATGTGTT
Found at i:66019619 original size:18 final size:20
Alignment explanation
Indices: 66019598--66019636 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
66019588 TATGTTTTTT
66019598 ATAGA-GACATAATT-TTCA
1 ATAGAGGACATAATTATTCA
*
66019616 ATAGAGGTCATAATTATTCA
1 ATAGAGGACATAATTATTCA
66019636 A
1 A
66019637 CTAATATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATAGAGGACATAATTATTCA
Found at i:66019650 original size:22 final size:22
Alignment explanation
Indices: 66019623--66019665 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
66019613 TCAATAGAGG
*
66019623 TCATAATTATTCAACTAATATC
1 TCATAACTATTCAACTAATATC
* *
66019645 TCATAACTATTCGAGTAATAT
1 TCATAACTATTCAACTAATAT
66019666 TATTTGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (22 bp):
TCATAACTATTCAACTAATATC
Found at i:66021421 original size:17 final size:16
Alignment explanation
Indices: 66021396--66021429 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66021386 ATATCCGTAA
66021396 AATTATATATGAATTTT
1 AATTATATAT-AATTTT
*
66021413 AATTTTATATAATTTT
1 AATTATATATAATTTT
66021429 A
1 A
66021430 TATATGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTATATATAATTTT
Found at i:66021873 original size:37 final size:37
Alignment explanation
Indices: 66021831--66021905 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
66021821 TTAAAACAAA
66021831 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
1 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
66021868 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
1 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
66021905 A
1 A
66021906 TTAAAAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (37 bp):
AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
Found at i:66024920 original size:20 final size:20
Alignment explanation
Indices: 66024898--66025009 Score: 100
Period size: 20 Copynumber: 5.5 Consensus size: 20
66024888 CCTTTTTTTT
*
66024898 TATTCTTTCATAATTTTTGT
1 TATTCTTTCATAATTTTTGG
* *
66024918 TATTTTTGTTATAA-TTTTGG
1 TATTCTT-TCATAATTTTTGG
* *
66024938 ATATACTTTCATAATTATTGG
1 -TATTCTTTCATAATTTTTGG
* * *
66024959 TAATCTCTCATAATTTTTAG
1 TATTCTTTCATAATTTTTGG
*
66024979 TATTTTTTTCATAATTTTTGG
1 TA-TTCTTTCATAATTTTTGG
*
66025000 TATGCTTTCA
1 TATTCTTTCA
66025010 AAATAAAATT
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
20 39 0.56
21 31 0.44
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (20 bp):
TATTCTTTCATAATTTTTGG
Found at i:66025800 original size:20 final size:20
Alignment explanation
Indices: 66025677--66026077 Score: 128
Period size: 20 Copynumber: 20.9 Consensus size: 20
66025667 TATAATAGGA
* * *
66025677 TACCAAGAATTATAAGAAAG
1 TACCAAAAATTATGAGGAAG
* * * *
66025697 TACCAAAATTTATAAAGAAC
1 TACCAAAAATTATGAGGAAG
*
66025717 TACCAAAACTTATGA-GAATG
1 TACCAAAAATTATGAGGAA-G
* * * *
66025737 AATCAAAATTTATGAGGAAA
1 TACCAAAAATTATGAGGAAG
** ** * *
66025757 TACCAAAAAACACAATGAAT
1 TACCAAAAATTATGAGGAAG
66025777 TACCAAAAATTATGAGGAAG
1 TACCAAAAATTATGAGGAAG
* *
66025797 TACC--AAA--A-GATGTA-
1 TACCAAAAATTATGAGGAAG
* ** *
66025811 TA--AAAAATTACGACAAAA
1 TACCAAAAATTATGAGGAAG
* *
66025829 TA-CAAAAA-AATGAGTAAG
1 TACCAAAAATTATGAGGAAG
66025847 TACCAAAAATTATGAGCGAA-
1 TACCAAAAATTATGAG-GAAG
* * *
66025867 TACTAAAAATTACGAGGGA-
1 TACCAAAAATTATGAGGAAG
* ** *
66025886 TA-CAAAAA-AAAAAGGAAT
1 TACCAAAAATTATGAGGAAG
* *
66025904 TACCAAAAA--ATGTGGATG
1 TACCAAAAATTATGAGGAAG
* * *
66025922 CACCAAAAATTATGAAGATG
1 TACCAAAAATTATGAGGAAG
* *
66025942 TACAAAAAAATTATGATAGAA-
1 TAC-CAAAAATTATGA-GGAAG
* *
66025963 TACTAAAAAATATGAGGAAG
1 TACCAAAAATTATGAGGAAG
66025983 TACC-AAAATTATGAGAGAA-
1 TACCAAAAATTATGAG-GAAG
66026002 TACCATAAAATT-TGAGGAA-
1 TACCA-AAAATTATGAGGAAG
* ** ** * *
66026021 AAATAAAAAAAATGATGATG
1 TACCAAAAATTATGAGGAAG
66026041 TACCAAAACA-TATGAGGAAG
1 TACCAAAA-ATTATGAGGAAG
*
66026061 TACAAAAAATTATGAGG
1 TACCAAAAATTATGAGG
66026078 GAATATCAAG
Statistics
Matches: 278, Mismatches: 77, Indels: 52
0.68 0.19 0.13
Matches are distributed among these distances:
14 5 0.02
15 4 0.01
16 2 0.01
17 8 0.03
18 35 0.13
19 52 0.19
20 143 0.51
21 26 0.09
22 3 0.01
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (20 bp):
TACCAAAAATTATGAGGAAG
Found at i:66025970 original size:22 final size:21
Alignment explanation
Indices: 66025926--66025977 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
66025916 TGGATGCACC
*
66025926 AAAAATTATGAAGATGTACAA
1 AAAAATTATGAAGATATACAA
*
66025947 AAAAATTATGATAGA-ATACTA
1 AAAAATTATGA-AGATATACAA
66025968 AAAAA-TATGA
1 AAAAATTATGA
66025978 GGAAGTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 20 0.71
22 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAATTATGAAGATATACAA
Found at i:66026068 original size:39 final size:38
Alignment explanation
Indices: 66025923--66026069 Score: 107
Period size: 39 Copynumber: 3.7 Consensus size: 38
66025913 ATGTGGATGC
* * *
66025923 ACCAAAAATTATGAAGATGTACAAAAAAATTATGATAGAAT
1 ACCAAAAA-TATGAGGAAGTACAAAAAAA--ATGATAGAGT
* * ** * *
66025964 ACTAAAAAATATGAGGAAGTACCAAAATTATGAGAGAAT
1 AC-CAAAAATATGAGGAAGTACAAAAAAAATGATAGAGT
* ** *
66026003 ACCATAAAATTTGAGGAAAAATAAAAAAAATGAT-GATGT
1 ACCA-AAAATATGAGGAAGTACAAAAAAAATGATAGA-GT
66026042 ACCAAAACATATGAGGAAGTACAAAAAA
1 ACCAAAA-ATATGAGGAAGTACAAAAAA
66026070 TTATGAGGGA
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
38 6 0.07
39 53 0.65
41 17 0.21
42 5 0.06
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (38 bp):
ACCAAAAATATGAGGAAGTACAAAAAAAATGATAGAGT
Found at i:66026439 original size:20 final size:20
Alignment explanation
Indices: 66026405--66026447 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
66026395 CTTGAGTAAA
66026405 TATAAAAAAAAATGAGGAAG
1 TATAAAAAAAAATGAGGAAG
** *
66026425 TATAAAAAATGATGAGGATG
1 TATAAAAAAAAATGAGGAAG
66026445 TAT
1 TAT
66026448 CCAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (20 bp):
TATAAAAAAAAATGAGGAAG
Found at i:66027521 original size:9 final size:9
Alignment explanation
Indices: 66027507--66027567 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 9
66027497 TTAAAATACT
66027507 TTTTTTTAA
1 TTTTTTTAA
66027516 -TTTTTTAA
1 TTTTTTTAA
* **
66027524 ATTTTAAAA
1 TTTTTTTAA
66027533 TTTTTTTAAAA
1 TTTTTTT--AA
66027544 TTTTTTTAAAA
1 TTTTTTT--AA
66027555 TTTTTTTAA
1 TTTTTTTAA
66027564 TTTT
1 TTTT
66027568 AAAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.18
9 16 0.36
11 20 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:66027529 original size:30 final size:28
Alignment explanation
Indices: 66027480--66027558 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
66027470 ATAATAAATA
66027480 TTTTT-ATTATTTT-AATTTTAAAATACTTT
1 TTTTTAATT-TTTTAAATTTTAAAAT--TTT
66027509 TTTTTAATTTTTTAAATTTTAAAATTTT
1 TTTTTAATTTTTTAAATTTTAAAATTTT
**
66027537 TTTAAAATTTTTTTAAAATTTT
1 TTTTTAA-TTTTTT-AAATTTT
66027559 TTTAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 8 0.18
29 15 0.34
30 21 0.48
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTTAATTTTTTAAATTTTAAAATTTT
Found at i:66027539 original size:11 final size:11
Alignment explanation
Indices: 66027525--66027563 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
66027515 ATTTTTTAAA
66027525 TTTTAAAATTT
1 TTTTAAAATTT
66027536 TTTTAAAATTT
1 TTTTAAAATTT
66027547 TTTTAAAATTT
1 TTTTAAAATTT
66027558 TTTTAA
1 TTTTAA
66027564 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:66027567 original size:28 final size:29
Alignment explanation
Indices: 66027536--66027597 Score: 99
Period size: 28 Copynumber: 2.1 Consensus size: 29
66027526 TTTAAAATTT
*
66027536 TTTTAAAATTTTTTTAAAAT-TTTTTTAA
1 TTTTAAAATATTTTTAAAATATTTTTTAA
66027564 TTTTAAAATATTTTTAAAATACTTTTTTAA
1 TTTTAAAATATTTTTAAAATA-TTTTTTAA
66027594 TTTT
1 TTTT
66027598 GTTTTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.61
30 12 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAAATATTTTTTAA
Found at i:66027578 original size:11 final size:11
Alignment explanation
Indices: 66027525--66027590 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
66027515 ATTTTTTAAA
*
66027525 TTTTAAAATTT
1 TTTTAAAATAT
*
66027536 TTTTAAAATTT
1 TTTTAAAATAT
66027547 TTTTAAAAT-T
1 TTTTAAAATAT
*
66027557 TTTT----TAA
1 TTTTAAAATAT
66027564 TTTTAAAATAT
1 TTTTAAAATAT
66027575 TTTTAAAATACT
1 TTTTAAAATA-T
66027587 TTTT
1 TTTT
66027591 TAATTTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 32 0.68
12 5 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:66027635 original size:31 final size:31
Alignment explanation
Indices: 66027546--66027622 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
66027536 TTTTAAAATT
* **
66027546 TTTTTAAAAT--TTTTTTAATTTTAAAAT-A
1 TTTTTAAAATAATTTTTTAATTTTGATTTAA
* *
66027574 TTTTTAAAATACTTTTTTAATTTTGTTTTAA
1 TTTTTAAAATAATTTTTTAATTTTGATTTAA
66027605 TTTTTAAAATAATTTTTT
1 TTTTTAAAATAATTTTTT
66027623 GGTATTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 10 0.24
30 13 0.32
31 18 0.44
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (31 bp):
TTTTTAAAATAATTTTTTAATTTTGATTTAA
Found at i:66029440 original size:98 final size:98
Alignment explanation
Indices: 66029271--66029465 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
66029261 ATACAATAAA
* *
66029271 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
66029336 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
* *
66029369 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
66029434 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66029466 CATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
Found at i:66030167 original size:25 final size:26
Alignment explanation
Indices: 66030137--66030186 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
66030127 ATATAAATAT
66030137 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
* *
66030162 GAAAATATTCGTTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
66030187 TATACATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:66030951 original size:19 final size:19
Alignment explanation
Indices: 66030912--66031003 Score: 120
Period size: 19 Copynumber: 4.9 Consensus size: 19
66030902 AAATTAAATC
66030912 TCTAAGA-T-CATATC-T-
1 TCTAAGATTACATATCATA
66030927 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
66030946 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
66030967 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
66030986 TCTAAGATTACATATCAT
1 TCTAAGATTACATATCAT
66031004 CGAAGATTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
15 7 0.10
16 1 0.01
17 6 0.09
18 1 0.01
19 34 0.51
21 18 0.27
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:66030964 original size:21 final size:21
Alignment explanation
Indices: 66030938--66031000 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
66030928 CTAAGATTAC
66030938 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
66030959 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
66030978 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
66030999 AT
1 AT
66031001 CATCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:66032806 original size:75 final size:76
Alignment explanation
Indices: 66032711--66032892 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 76
66032701 CTGCAGAGAG
* * ** * * *
66032711 GTTTGCGCCCAACGCTAGTCGGGTTA-ATTGGA-AATATTGAAAGTGAGCCCAGCTCTAGTTGGA
1 GTTTGCGCCCAGCGCTAGTCGGGATATA-CCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGA
*
66032774 TAAACCAATAAT
65 TAAACCAACAAT
66032786 GTTTGCGCCCAGCGCTAGTC-GGATATACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGAT
1 GTTTGCGCCCAGCGCTAGTCGGGATATACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGAT
* **
66032850 GAACCAACGGT
66 AAACCAACAAT
* *
66032861 GTTTGCACCCAGCGCTAGTC-GGATAAACCGAC
1 GTTTGCGCCCAGCGCTAGTCGGGATATACCGAC
66032893 GATTGTGTGC
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 6 0.07
75 86 0.93
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (76 bp):
GTTTGCGCCCAGCGCTAGTCGGGATATACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGAT
AAACCAACAAT
Found at i:66034291 original size:15 final size:14
Alignment explanation
Indices: 66034266--66034295 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
66034256 TGTTTCAATA
66034266 ATTTATATATATAT
1 ATTTATATATATAT
66034280 ATTTAGTATATATAT
1 ATTTA-TATATATAT
66034295 A
1 A
66034296 CCATCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTATATATATAT
Found at i:66034902 original size:37 final size:37
Alignment explanation
Indices: 66034852--66034948 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
66034842 AGTACATCAT
*
66034852 CAACAAAAGCTCATAGAGCTGGTCCACCCGAACACAC
1 CAACAAAAGCTCATAGAGCTGATCCACCCGAACACAC
* **
66034889 CAACAGAAGCTCATAGAGCTGATCCACTTGAACACAC
1 CAACAAAAGCTCATAGAGCTGATCCACCCGAACACAC
* *
66034926 AAATGAAAA-CTCATAAGAGCTGA
1 CAA-CAAAAGCTCAT-AGAGCTGA
66034949 ATAGAACTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 40 0.78
38 11 0.22
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.14
Consensus pattern (37 bp):
CAACAAAAGCTCATAGAGCTGATCCACCCGAACACAC
Found at i:66034962 original size:20 final size:20
Alignment explanation
Indices: 66034933--66034989 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
66034923 CACAAATGAA
*
66034933 AACTCATAAGAGCTGAATAG
1 AACTCATAAGAGCTGAACAG
*
66034953 AACTCGTAAGAGCTGAACAG
1 AACTCATAAGAGCTGAACAG
*
66034973 AAGCTCAAAAGAGCTGA
1 AA-CTCATAAGAGCTGA
66034990 TCCACCCGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (20 bp):
AACTCATAAGAGCTGAACAG
Found at i:66048136 original size:20 final size:21
Alignment explanation
Indices: 66048111--66048149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66048101 AATTAAAAGT
*
66048111 TTAATTG-AATTGAAATTGCG
1 TTAATTGAAATTAAAATTGCG
66048131 TTAATTGAAATTAAAATTG
1 TTAATTGAAATTAAAATTG
66048150 TAAAGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (21 bp):
TTAATTGAAATTAAAATTGCG
Found at i:66054676 original size:21 final size:21
Alignment explanation
Indices: 66054650--66054718 Score: 129
Period size: 21 Copynumber: 3.3 Consensus size: 21
66054640 TTCTCTCAAA
66054650 CATCAAGCATCTAGCCATATC
1 CATCAAGCATCTAGCCATATC
66054671 CATCAAGCATCTAGCCATATC
1 CATCAAGCATCTAGCCATATC
*
66054692 CATCAAGCATCTGGCCATATC
1 CATCAAGCATCTAGCCATATC
66054713 CATCAA
1 CATCAA
66054719 ACTTCTATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.23
Consensus pattern (21 bp):
CATCAAGCATCTAGCCATATC
Found at i:66055526 original size:9 final size:9
Alignment explanation
Indices: 66055507--66055552 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
66055497 TCGGGTATTT
66055507 TTCGG-TAA
1 TTCGGTTAA
66055515 TTCGGTTAA
1 TTCGGTTAA
66055524 TTCGGTTAA
1 TTCGGTTAA
66055533 TTCGGTTAA
1 TTCGGTTAA
*
66055542 TTCGGGTAA
1 TTCGGTTAA
66055551 TT
1 TT
66055553 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 5 0.14
9 31 0.86
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:66055730 original size:12 final size:12
Alignment explanation
Indices: 66055713--66055737 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66055703 AGTAATTTCG
66055713 GGTCGGTTAACC
1 GGTCGGTTAACC
66055725 GGTCGGTTAACC
1 GGTCGGTTAACC
66055737 G
1 G
66055738 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:66057689 original size:20 final size:21
Alignment explanation
Indices: 66057664--66057708 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
66057654 CTTAGTTCAT
66057664 ATCTAACT-AAGTAACAAAAC
1 ATCTAACTGAAGTAACAAAAC
*
66057684 ATCTAATTGAAGTAACAAAAC
1 ATCTAACTGAAGTAACAAAAC
66057705 ATCT
1 ATCT
66057709 GCATGATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (21 bp):
ATCTAACTGAAGTAACAAAAC
Found at i:66059878 original size:68 final size:70
Alignment explanation
Indices: 66059735--66059878 Score: 159
Period size: 68 Copynumber: 2.1 Consensus size: 70
66059725 TTCTATTTAT
* * * *
66059735 AAAAAATAATTATATTTGAAATAATTAATTAATTTTTTATATTATAATTTACCATACCCACAATG
1 AAAAAATAATTATATTTGAAATAATT-ATTAATTTATAATATTAGAATTTACCATACCCACAATA
* *
66059800 TGAGTG
65 TGAATA
** **
66059806 AAAAAATAATTATATTTGTGATAATT-TT-ATTTATAATATTAGAATTTACCATACCGGCAATAT
1 AAAAAATAATTATATTTGAAATAATTATTAATTTATAATATTAGAATTTACCATACCCACAATAT
66059869 -ACATA
66 GA-ATA
66059874 AAAAA
1 AAAAA
66059879 TAAATATGTG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.02
68 35 0.56
69 2 0.03
71 24 0.39
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (70 bp):
AAAAAATAATTATATTTGAAATAATTATTAATTTATAATATTAGAATTTACCATACCCACAATAT
GAATA
Found at i:66060117 original size:15 final size:15
Alignment explanation
Indices: 66060096--66060135 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
66060086 AAAAATGTGA
66060096 AATTAAAAAACTTATT
1 AATTAAAAAACTT-TT
66060112 AA-TAAAAAA-TTTT
1 AATTAAAAAACTTTT
66060125 AATTAAAAAAC
1 AATTAAAAAAC
66060136 CTTAACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
15 7 0.32
16 2 0.09
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAAAAAACTTTT
Found at i:66061063 original size:19 final size:19
Alignment explanation
Indices: 66061039--66061076 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66061029 ATTCGTCTTC
66061039 GAGGAAAGAGAAACTCAAG
1 GAGGAAAGAGAAACTCAAG
66061058 GAGGAAAGAGAAACTCAAG
1 GAGGAAAGAGAAACTCAAG
66061077 TTAAGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.32, T:0.05
Consensus pattern (19 bp):
GAGGAAAGAGAAACTCAAG
Found at i:66063230 original size:19 final size:20
Alignment explanation
Indices: 66063206--66063246 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
66063196 GAATTTAGTA
*
66063206 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
66063225 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
66063245 AA
1 AA
66063247 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:66069813 original size:19 final size:20
Alignment explanation
Indices: 66069789--66069829 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
66069779 GAATTTAGGC
*
66069789 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
66069808 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
66069828 AA
1 AA
66069830 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:66074947 original size:21 final size:22
Alignment explanation
Indices: 66074918--66074964 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
66074908 CAGAAGGAGT
*
66074918 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66074940 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66074961 GAGT
1 GAGT
66074965 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:66079000 original size:17 final size:18
Alignment explanation
Indices: 66078978--66079011 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
66078968 TCCAAAATGT
66078978 GTAGATAAAA-AACACAG
1 GTAGATAAAACAACACAG
66078995 GTAGATAAAACAACACA
1 GTAGATAAAACAACACA
66079012 CATATCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.12
Consensus pattern (18 bp):
GTAGATAAAACAACACAG
Found at i:66079025 original size:31 final size:31
Alignment explanation
Indices: 66078987--66079046 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
66078977 TGTAGATAAA
*
66078987 AAACACAGGTAGATAAAACAACACACATATC
1 AAACACAGGTAGATAAAAAAACACACATATC
*
66079018 AAACACAGGTAGATAAAAAAACACCCATA
1 AAACACAGGTAGATAAAAAAACACACATA
66079047 GGAAAGATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.12
Consensus pattern (31 bp):
AAACACAGGTAGATAAAAAAACACACATATC
Found at i:66083804 original size:4 final size:4
Alignment explanation
Indices: 66083795--66083830 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
66083785 ACAAACAGAA
66083795 GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG
66083831 TGTGTGTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:66083844 original size:12 final size:11
Alignment explanation
Indices: 66083827--66083868 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
66083817 TGGATGGATG
66083827 GATGTGTGTGT
1 GATGTGTGTGT
66083838 -ATGTGTGTGT
1 GATGTGTGTGT
*
66083848 G-TGTGTGTGC
1 GATGTGTGTGT
66083858 GCATGTGTGTG
1 G-ATGTGTGTG
66083869 GTACCTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 19 0.70
12 8 0.30
ACGTcount: A:0.07, C:0.05, G:0.45, T:0.43
Consensus pattern (11 bp):
GATGTGTGTGT
Found at i:66088413 original size:9 final size:9
Alignment explanation
Indices: 66088399--66088427 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
66088389 ACAAAACATT
66088399 AAAGAAAAG
1 AAAGAAAAG
66088408 AAAGAAAA-
1 AAAGAAAAG
66088416 AAAGAAAAG
1 AAAGAAAAG
66088425 AAA
1 AAA
66088428 AGTTAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:66092943 original size:28 final size:28
Alignment explanation
Indices: 66092908--66092968 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
66092898 GTTATTTTTC
66092908 AAAATATCATACCAATAAATTTAATAAA
1 AAAATATCATACCAATAAATTTAATAAA
66092936 AAAATATCATACCAATAAATTTAATAAA
1 AAAATATCATACCAATAAATTTAATAAA
66092964 AAAAT
1 AAAAT
66092969 TAACAATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAATATCATACCAATAAATTTAATAAA
Found at i:66094114 original size:22 final size:24
Alignment explanation
Indices: 66094072--66094116 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
66094062 ATAAATAATA
66094072 TTATTAATATTTTGTTGAAAATATT
1 TTATTAATA-TTTGTTGAAAATATT
66094097 TTATTAATA-TT-TTGAAAATA
1 TTATTAATATTTGTTGAAAATA
66094117 AATGTATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
25 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
TTATTAATATTTGTTGAAAATATT
Found at i:66094150 original size:18 final size:17
Alignment explanation
Indices: 66094127--66094160 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66094117 AATGTATAGA
*
66094127 TTATAATTTATAAATATT
1 TTATAATATA-AAATATT
66094145 TTATAATATAAAATAT
1 TTATAATATAAAATAT
66094161 GAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAATATAAAATATT
Found at i:66096238 original size:12 final size:12
Alignment explanation
Indices: 66096221--66096245 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66096211 GGTGTTCATT
66096221 CGGTTAACCGAC
1 CGGTTAACCGAC
66096233 CGGTTAACCGAC
1 CGGTTAACCGAC
66096245 C
1 C
66096246 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:66096420 original size:9 final size:9
Alignment explanation
Indices: 66096406--66096484 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
66096396 TTTGGTTAAA
66096406 AATTACCCG
1 AATTACCCG
66096415 AATTACCCG
1 AATTACCCG
66096424 AATTACCCG
1 AATTACCCG
66096433 AATTACCCG
1 AATTACCCG
66096442 AATTACCCG
1 AATTACCCG
*
66096451 AATTAACCG
1 AATTACCCG
*
66096460 AATTAACCG
1 AATTACCCG
*
66096469 AATTAACCG
1 AATTACCCG
66096478 AATTACC
1 AATTACC
66096485 GAAAAATACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:66097600 original size:51 final size:51
Alignment explanation
Indices: 66097522--66097747 Score: 224
Period size: 51 Copynumber: 4.4 Consensus size: 51
66097512 GTACCTATGA
*
66097522 ACATGTGTATAGTACTAAGTGCAGGCTACTACGTGTATC-AATAGACAATGGTC
1 ACATGTG--TAGTACTATGTGCAGGCTACTACGTGTATCGAAT-GACAATGGTC
* * * * * **
66097575 ACATGTGTAGTACTATGTACAGGCTACTATGTGTACCGGATTACCTTGGTC
1 ACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGACAATGGTC
* * * * * *
66097626 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACTGGAAAG-C-TTGATC
1 ACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGAATGACAATGGTC
* * *
66097676 ACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAATGGTC
1 ACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGACAATGGTC
* *
66097727 ACATGGGTGGTACTATGTGCA
1 ACATGTGTAGTACTATGTGCA
66097748 AACCACCGAA
Statistics
Matches: 140, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 39 0.28
51 86 0.61
52 4 0.03
53 7 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
ACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGACAATGGTC
Found at i:66106721 original size:21 final size:20
Alignment explanation
Indices: 66106696--66106747 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
66106686 CCAAAAAATG
*
66106696 TTTTATAGACATCTAATCTAT
1 TTTTATAGAAATC-AATCTAT
* *
66106717 TTTTAGAAAAATCAATCTAT
1 TTTTATAGAAATCAATCTAT
66106737 TTTT-TAGAAAT
1 TTTTATAGAAAT
66106748 TATTTTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (20 bp):
TTTTATAGAAATCAATCTAT
Found at i:66109903 original size:25 final size:24
Alignment explanation
Indices: 66109875--66109954 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 24
66109865 ATTCGAGAAT
66109875 GCTCATACGAGCACATAAACGGGAA
1 GCTCATACGAGC-CATAAACGGGAA
* *
66109900 GCTCTCTCTCGAGCCATATAACGGGAA
1 GCTC-AT-ACGAGCCATA-AACGGGAA
** *
66109927 GCTCATGTGAGCCATGTAACGGGAA
1 GCTCATACGAGCCAT-AAACGGGAA
66109952 GCT
1 GCT
66109955 TATCCGGGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
25 22 0.49
26 6 0.13
27 17 0.38
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (24 bp):
GCTCATACGAGCCATAAACGGGAA
Found at i:66110003 original size:24 final size:25
Alignment explanation
Indices: 66109975--66110029 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
66109965 GTATAACAGA
*
66109975 AAGCTCATAAGAGCCA-TAATTAGG
1 AAGCTCATAAGAGCCATTAATCAGG
**
66109999 AAGCTCATGCGAGCCATTAATCAGG
1 AAGCTCATAAGAGCCATTAATCAGG
66110024 AAGCTC
1 AAGCTC
66110030 CAGATAGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (25 bp):
AAGCTCATAAGAGCCATTAATCAGG
Found at i:66110025 original size:25 final size:24
Alignment explanation
Indices: 66109967--66110029 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
66109957 TCCGGGTTGT
*
66109967 ATAA-CAGAAAGCTCATAAGAGCC
1 ATAATCAGGAAGCTCATAAGAGCC
* **
66109990 ATAATTAGGAAGCTCATGCGAGCC
1 ATAATCAGGAAGCTCATAAGAGCC
66110014 ATTAATCAGGAAGCTC
1 A-TAATCAGGAAGCTC
66110030 CAGATAGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 4 0.12
24 16 0.48
25 13 0.39
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
ATAATCAGGAAGCTCATAAGAGCC
Found at i:66110050 original size:25 final size:25
Alignment explanation
Indices: 66110022--66110097 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
66110012 CCATTAATCA
*
66110022 GGAAGCTCCAGATAGCCATATATCG
1 GGAAGCTCAAGATAGCCATATATCG
*
66110047 GGAAGTTCAAG-TGAGCC--ATATCG
1 GGAAGCTCAAGAT-AGCCATATATCG
** *
66110070 GGAAGCTCTGGAGAGCCATATATCG
1 GGAAGCTCAAGATAGCCATATATCG
66110095 GGA
1 GGA
66110098 CGCTTATAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 18 0.44
24 1 0.02
25 22 0.54
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (25 bp):
GGAAGCTCAAGATAGCCATATATCG
Found at i:66110085 original size:23 final size:23
Alignment explanation
Indices: 66109975--66110090 Score: 72
Period size: 25 Copynumber: 4.8 Consensus size: 23
66109965 GTATAACAGA
**
66109975 AAGCTCATA-AGAGCCATAATTAGG
1 AAGCTCA-AGAGAGCCAT-ATCGGG
* * *
66109999 AAGCTCATGCGAGCCATTAATCAGG
1 AAGCTCAAGAGAGCCA-T-ATCGGG
* *
66110024 AAGCTCCAGATAGCCATATATCGGG
1 AAGCTCAAGAGAGCC--ATATCGGG
* *
66110049 AAGTTCAAGTGAGCCATATCGGG
1 AAGCTCAAGAGAGCCATATCGGG
**
66110072 AAGCTCTGGAGAGCCATAT
1 AAGCTCAAGAGAGCCATAT
66110091 ATCGGGACGC
Statistics
Matches: 72, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
23 23 0.32
24 13 0.18
25 34 0.47
26 1 0.01
27 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (23 bp):
AAGCTCAAGAGAGCCATATCGGG
Found at i:66111136 original size:43 final size:43
Alignment explanation
Indices: 66111047--66111142 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
66111037 AGGTCACGGC
* *
66111047 CTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGCT
1 CTTTAGCGGCATTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
* **
66111090 CTTTAGCGGCATTTGTGACTTAAGCGCCGCTAAAAGTTATTAT
1 CTTTAGCGGCATTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
66111133 CTTTAGCGGC
1 CTTTAGCGGC
66111143 TCTTTACCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCATTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
Found at i:66111311 original size:44 final size:42
Alignment explanation
Indices: 66111134--66111321 Score: 169
Period size: 43 Copynumber: 4.3 Consensus size: 42
66111124 AGTTATTATC
* * * *
66111134 TTTAGCGGCTCTTTACCCACAAACGCCGCTAAAGAGCTTGACT
1 TTTAGCGGCGCTTT-CTCACAAACGCCGCAAAAGACCTTGACT
* * * * *
66111177 TTTAGCGGCGCTTCCACTACAAACGCCACAAAATACCTTGACC
1 TTTAGCGGCGCTTTCTC-ACAAACGCCGCAAAAGACCTTGACT
* * * **
66111220 TTTAGCGGCGCTTTGATCACAAACGCCGCTAAAAGGCATTGGGT
1 TTTAGCGGCGCTTT-CTCACAAACGCCGC-AAAAGACCTTGACT
* *
66111264 TTTAGCGGTGCGTTTCTCACAAACACCGCGAAAAGACCTTGACT
1 TTTAGCGGCGC-TTTCTCACAAACGCCGC-AAAAGACCTTGACT
*
66111308 TTTAGCGACGCTTT
1 TTTAGCGGCGCTTT
66111322 TCATAAAAAC
Statistics
Matches: 113, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.02
43 58 0.51
44 50 0.44
45 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGCTTTCTCACAAACGCCGCAAAAGACCTTGACT
Found at i:66111320 original size:88 final size:86
Alignment explanation
Indices: 66111151--66111321 Score: 202
Period size: 88 Copynumber: 2.0 Consensus size: 86
66111141 GCTCTTTACC
* *
66111151 CACAAACGCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTCCACTACAAACGCCACAAAATACCTT
1 CACAAACGCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTCCACTACAAACACCACAAAAGACCTT
*
66111216 GACCTTTAGCGGCGCTTTGAT
66 GACCTTTAGCGACGCTTTGAT
** * * * *
66111237 CACAAACGCCGCTAAA-AGGCATTGGGTTTTAGCGGTGCGTTTCTC-ACAAACACCGCGAAAAGA
1 CACAAACGCCGCTAAAGA-GC-TTGACTTTTAGCGGCGC-TTCCACTACAAACACCAC-AAAAGA
*
66111300 CCTTGACTTTTAGCGACGCTTT
62 CCTTGACCTTTAGCGACGCTTT
66111322 TCATAAAAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 1 0.01
86 18 0.25
87 23 0.32
88 29 0.41
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (86 bp):
CACAAACGCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTCCACTACAAACACCACAAAAGACCTT
GACCTTTAGCGACGCTTTGAT
Found at i:66117198 original size:16 final size:16
Alignment explanation
Indices: 66117175--66117659 Score: 143
Period size: 16 Copynumber: 27.9 Consensus size: 16
66117165 TATATATGAG
66117175 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
66117191 TTACGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
66117207 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
*
66117223 CGTTATGTAAGTTAAGTA
1 --TTATGTAAGTTATGTA
* *
66117241 TTATATAAGTTATGCAA
1 TTATGTAAGTTATG-TA
* ** *
66117258 GTCCGACAAGTTAATGTA
1 TTATG-TAAGTT-ATGTA
* * * *
66117276 TAATATAAATTAATTTA
1 TTATGTAAGTT-ATGTA
*
66117293 GTTATGTGAGTTATGTA
1 -TTATGTAAGTTATGTA
* *
66117310 TAATAT-TATGTAACT-TA
1 T--TATGTAAGTTA-TGTA
*
66117327 TTATGTTA-TTATGTAA
1 TTATGTAAGTTATGT-A
66117343 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
66117359 GTTATGTAAGTTAAGTA
1 -TTATGTAAGTTATGTA
* *
66117376 TTATATAAGTTATGCAA
1 TTATGTAAGTTATG-TA
* ** *
66117393 GTCCGACAAGTTAATGTA
1 TTATG-TAAGTT-ATGTA
* * * *
66117411 TAATATAAATTAATTTA
1 TTATGTAAGTT-ATGTA
*
66117428 GTTATGTGAGTTATGTATAATA
1 -TTATGTAAGTTATG-----TA
*
66117450 TTATGTAACTTATTATGTTA
1 TTATGTAA---GTTATG-TA
66117470 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
66117486 TTATGTAAGTTAAGTA
1 TTATGTAAGTTATGTA
*
66117502 TTATGTAAGTTATGCAA
1 TTATGTAAGTTATG-TA
* ** *
66117519 GTCCGACAAGTTAATGTA
1 TTATG-TAAGTT-ATGTA
* * * *
66117537 TAATATAAATTAATTTA
1 TTATGTAAGTT-ATGTA
*
66117554 GTTATGTGAGTTATGTATAATA
1 -TTATGTAAGTTATG-----TA
*
66117576 TTATGTAACTTATTATGTTA
1 TTATGTAA---GTTATG-TA
66117596 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
66117612 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
66117629 GTTATGTAAGTTAAGTA
1 -TTATGTAAGTTATGTA
*
66117646 TTATATAAGTTATG
1 TTATGTAAGTTATG
66117660 CAAGTCCGAC
Statistics
Matches: 340, Mismatches: 88, Indels: 82
0.67 0.17 0.16
Matches are distributed among these distances:
14 1 0.00
15 6 0.02
16 131 0.39
17 69 0.20
18 76 0.22
19 9 0.03
20 20 0.06
21 14 0.04
22 4 0.01
24 10 0.03
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:66117202 original size:25 final size:25
Alignment explanation
Indices: 66117173--66117259 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
66117163 AGTATATATG
*
66117173 AGTTATGTAAGTTATGTATTACGTA
1 AGTTATGTAAGTTATGTATTATGTA
66117198 AGTTATGT-A-TTATGTAAATTATGTA
1 AGTTATGTAAGTTATGT--ATTATGTA
* * *
66117223 CGTTATGTAAGTTAAGTATTATATA
1 AGTTATGTAAGTTATGTATTATGTA
*
66117248 AGTTATGCAAGT
1 AGTTATGTAAGT
66117260 CCGACAAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.12
24 1 0.02
25 39 0.75
26 1 0.02
27 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
AGTTATGTAAGTTATGTATTATGTA
Found at i:66117371 original size:135 final size:135
Alignment explanation
Indices: 66117215--66117712 Score: 834
Period size: 135 Copynumber: 3.7 Consensus size: 135
66117205 TATTATGTAA
*
66117215 ATTATGTACGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
1 ATTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
66117280 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGTAAGT
66 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGTAAGT
66117345 TATGT
131 TATGT
66117350 ATTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
1 ATTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
66117415 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGT-A--
66 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGTAAGT
66117477 -A-G-
131 TATGT
*
66117479 -TTATGT-A-TTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
1 ATTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
66117541 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGTAAGT
66 ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGT-A--
66117606 TATGTATTATGT
128 -A-G--TTATGT
66117618 AAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATA
1 -A-TTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATA
66117683 ATATAAATTAATTTAGTTATGTGAGTTATG
64 ATATAAATTAATTTAGTTATGTGAGTTATG
66117713 CAAGTTGTTA
Statistics
Matches: 342, Mismatches: 3, Indels: 27
0.92 0.01 0.07
Matches are distributed among these distances:
126 115 0.34
127 1 0.00
128 6 0.02
130 1 0.00
131 2 0.01
134 1 0.00
135 125 0.37
137 1 0.00
138 1 0.00
142 6 0.02
143 1 0.00
144 82 0.24
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (135 bp):
ATTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAAGTTAATGTATAAT
ATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTATGTTATTATGTAAGT
TATGT
Found at i:66117384 original size:25 final size:25
Alignment explanation
Indices: 66117335--66117394 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
66117325 TATTATGTTA
* *
66117335 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTAAGTATTATATAAG
66117360 TTATGTAAGTTAAGTATTATATAAG
1 TTATGTAAGTTAAGTATTATATAAG
*
66117385 TTATGCAAGT
1 TTATGTAAGT
66117395 CCGACAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTAAGTATTATATAAG
Found at i:66117474 original size:126 final size:126
Alignment explanation
Indices: 66117332--66117641 Score: 534
Period size: 126 Copynumber: 2.4 Consensus size: 126
66117322 ACTTATTATG
* *
66117332 TTATTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGT
1 TTATTATGTTA-TTATGTAAGTTATGT-A-TTATGTAAGTTAAGTATTATGTAAGTTATGCAAGT
66117395 CCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAAC
63 CCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAAC
66117459 TTATTATGTTATTATGTAAGTTATGTATTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCG
1 TTATTATGTTATTATGTAAGTTATGTATTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCG
66117524 ACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAAC
66 ACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAAC
*
66117585 TTATTATGTTATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
1 TTATTATGTTATTATGTAAGTTATGTATTATGTAAGTTAAGT-A-TTATGTAAGTTA
66117642 AGTATTATAT
Statistics
Matches: 176, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
126 145 0.82
127 13 0.07
128 18 0.10
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (126 bp):
TTATTATGTTATTATGTAAGTTATGTATTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCG
ACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAAC
Found at i:66117571 original size:34 final size:35
Alignment explanation
Indices: 66117526--66117712 Score: 116
Period size: 34 Copynumber: 5.2 Consensus size: 35
66117516 CAAGTCCGAC
66117526 AAGTTAATGTATAATATAAATTAAT-TTAGTTATGT
1 AAGTT-ATGTATAATATAAATTAATGTTAGTTATGT
*
66117561 GAGTTATGTATAATATTATGTAACTTATTATGTTA-TTATGT
1 AAGTTATGTATAATA-TA---AA-TTA--ATGTTAGTTATGT
* * * *
66117602 AAGTTATGTATTATGTAAGTT-ATGTAAGTTATGT
1 AAGTTATGTATAATATAAATTAATGTTAGTTATGT
* * * ** ** *
66117636 AAGTTAAGTATTATATAAGTT-ATGCAAG-TCCGAC
1 AAGTTATGTATAATATAAATTAATGTTAGTTATG-T
66117670 AAGTTAATGTATAATATAAATTAAT-TTAGTTATGT
1 AAGTT-ATGTATAATATAAATTAATGTTAGTTATGT
*
66117705 GAGTTATG
1 AAGTTATG
66117713 CAAGTTGTTA
Statistics
Matches: 118, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
33 7 0.06
34 49 0.42
35 25 0.21
36 6 0.05
37 1 0.01
38 2 0.02
39 3 0.03
40 2 0.02
41 20 0.17
42 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.44
Consensus pattern (35 bp):
AAGTTATGTATAATATAAATTAATGTTAGTTATGT
Found at i:66117628 original size:25 final size:25
Alignment explanation
Indices: 66117588--66117664 Score: 86
Period size: 25 Copynumber: 3.0 Consensus size: 25
66117578 ATGTAACTTA
66117588 TTATGTTATTATGTAAGTTATGT-A-
1 TTATG-TATTATGTAAGTTATGTAAG
66117612 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * *
66117639 TTAAGTATTATATAAGTTATGCAAG
1 TTATGTATTATGTAAGTTATGTAAG
66117664 T
1 T
66117665 CCGACAAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 6 0.13
25 32 0.70
26 2 0.04
27 5 0.11
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:66117630 original size:261 final size:267
Alignment explanation
Indices: 66117200--66117712 Score: 914
Period size: 261 Copynumber: 1.9 Consensus size: 267
66117190 ATTACGTAAG
66117200 TTATGTATTATGTAAATTATGTACGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGAC
1 TTATGTATTATGTAAATTATGTAC-TTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGAC
66117265 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTA
65 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTA
66117330 TGTTATTATGT-A-A-G-TTATGT-A-TTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTAT
130 TGTTATTATGTAATATGATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTAT
66117389 GCAAGTCCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTAT
195 GCAAGTCCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTAT
66117454 GTAACTTA
260 GTAACTTA
* *
66117462 TTATGTTATTATGTAAGTTATGTA-TTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCGAC
1 TTATG-TATTATGTAAATTATGTACTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGAC
66117526 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTA
65 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTA
66117591 TGTTATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGT
130 TGTTATTATGTAA--TATG-ATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGT
66117656 TATGCAAGTCCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATG
192 TATGCAAGTCCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATG
66117713 CAAGTTGTTA
Statistics
Matches: 239, Mismatches: 2, Indels: 12
0.94 0.01 0.05
Matches are distributed among these distances:
261 115 0.48
262 6 0.03
263 17 0.07
265 1 0.00
266 1 0.00
268 6 0.03
269 1 0.00
270 92 0.38
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (267 bp):
TTATGTATTATGTAAATTATGTACTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACA
AGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTAT
GTTATTATGTAATATGATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATG
CAAGTCCGACAAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATG
TAACTTA
Found at i:66117777 original size:19 final size:19
Alignment explanation
Indices: 66117753--66117828 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
66117743 TTACGTAACT
66117753 TATTATGTAATAAGTTATG
1 TATTATGTAATAAGTTATG
66117772 TATTATG---TAAG-T-T-
1 TATTATGTAATAAGTTATG
66117785 TA-TA--T-ATAAGTTATG
1 TATTATGTAATAAGTTATG
66117800 TATTATGTAATAAGTTATG
1 TATTATGTAATAAGTTATG
66117819 TATTATGTAA
1 TATTATGTAA
66117829 GTTTATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
12 6 0.12
13 3 0.06
14 2 0.04
15 3 0.06
16 6 0.12
18 1 0.02
19 27 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (19 bp):
TATTATGTAATAAGTTATG
Found at i:66117778 original size:144 final size:142
Alignment explanation
Indices: 66117462--66117799 Score: 440
Period size: 144 Copynumber: 2.4 Consensus size: 142
66117452 ATGTAACTTA
* *
66117462 TTATGTTATTATGTAAGTTATGTATTATGTAAGTTAAGTATTATGTAAGTTATGCAAGTCCGACA
1 TTATG-TATTATATAAGTTATGTATTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACA
* *
66117527 AGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGTATAATATTATGTAACTTATTAT
65 AGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGCATAATATTATATAACTTATTAT
* * *
66117592 GTTATTATGTAAG
130 ATTATTACGTAAC
*
66117605 TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGAC
1 TTATGTATTATATAAGTTATGT-A-TTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGAC
* * *
66117670 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGCA-AGTTGTTATATAAGTT-TC
64 AAGTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGCATA-ATATTATATAACTTAT-
66117733 TATATATAAGTTACGTAAC
127 TATAT-T-A-TTACGTAAC
66117752 TTAT-TATGTA-ATAAGTTATGTATTATGTAAGTT---TA-TATATAAGTTATG
1 TTATGTAT-TATATAAGTTATGTATTATGTAAGTTAAGTATTATATAAGTTATG
66117800 TATTATGTAA
Statistics
Matches: 177, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
140 13 0.07
141 2 0.01
142 17 0.10
143 8 0.05
144 108 0.61
145 2 0.01
146 14 0.08
147 13 0.07
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (142 bp):
TTATGTATTATATAAGTTATGTATTATGTAAGTTAAGTATTATATAAGTTATGCAAGTCCGACAA
GTTAATGTATAATATAAATTAATTTAGTTATGTGAGTTATGCATAATATTATATAACTTATTATA
TTATTACGTAAC
Found at i:66117796 original size:28 final size:28
Alignment explanation
Indices: 66117762--66117843 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
66117752 TTATTATGTA
66117762 ATAAGTTATGTATTATGTAAGTTTATAT
1 ATAAGTTATGTATTATGTAAGTTTATAT
66117790 ATAAGTTATGTATTA--T--G----TA-
1 ATAAGTTATGTATTATGTAAGTTTATAT
66117809 ATAAGTTATGTATTATGTAAGTTTATAT
1 ATAAGTTATGTATTATGTAAGTTTATAT
66117837 ATAAGTT
1 ATAAGTT
66117844 GTTATATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 18
0.71 0.00 0.29
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
21 1 0.02
23 1 0.02
24 1 0.02
26 1 0.02
27 2 0.04
28 22 0.49
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (28 bp):
ATAAGTTATGTATTATGTAAGTTTATAT
Found at i:66117872 original size:47 final size:47
Alignment explanation
Indices: 66117753--66117843 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
66117743 TTACGTAACT
66117753 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
1 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
66117800 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTT
1 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTT
66117844 GTTATATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.49
Consensus pattern (47 bp):
TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
Found at i:66117986 original size:21 final size:21
Alignment explanation
Indices: 66117955--66118123 Score: 76
Period size: 21 Copynumber: 7.4 Consensus size: 21
66117945 CAATTCTTTC
66117955 TAAAATTATAAAATTTATTATT
1 TAAAA-TATAAAATTTATTATT
* *
66117977 GAAAATAT-AAATGTTAATATT
1 TAAAATATAAAAT-TTATTATT
* *
66117998 TAGAAA-ATAACATTTACAATTCTTT
1 TA-AAATATAAAATTT---ATT-ATT
66118023 CTAAAATTATAAAATTTATTATT
1 -TAAAA-TATAAAATTTATTATT
* * *
66118046 GAAAATAT-AGATGTTAATATT
1 TAAAATATAAAAT-TTATTATT
*
66118067 TAGAAA-ATAACATTTACAATTATTT
1 TA-AAATATAAAATTT---ATTA-TT
66118092 CTAAAATTATAAAATTTATTATT
1 -TAAAA-TATAAAATTTATTATT
*
66118115 GAAAATATA
1 TAAAATATA
66118124 GATGTTAATA
Statistics
Matches: 111, Mismatches: 16, Indels: 41
0.66 0.10 0.24
Matches are distributed among these distances:
20 7 0.06
21 34 0.31
22 24 0.22
23 4 0.04
24 12 0.11
25 10 0.09
26 4 0.04
27 16 0.14
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATATAAAATTTATTATT
Found at i:66118011 original size:69 final size:69
Alignment explanation
Indices: 66117936--66118192 Score: 428
Period size: 69 Copynumber: 3.7 Consensus size: 69
66117926 TTGAATTACG
*
66117936 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAAATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
66118001 AAAA
66 AAAA
66118005 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
66118070 AAAA
66 AAAA
*
66118074 TAACATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
66118139 AAAAA
66 -AAAA
* * *
66118144 TAACATGTACAATTAGTTT-TAAAAATATAAAATTTATTATT-AACAATAT
1 TAACATTTACAATT-CTTTCTAAAATTATAAAATTTATTATTGAA-AATAT
66118193 TTAAATATAG
Statistics
Matches: 180, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
69 134 0.74
70 43 0.24
71 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (69 bp):
TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
AAAA
Found at i:66119568 original size:12 final size:12
Alignment explanation
Indices: 66119531--66119570 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
66119521 CAAACAGTTT
*
66119531 CAAACTTATGAA
1 CAAAATTATGAA
66119543 CAAAATTA-GTAA
1 CAAAATTATG-AA
66119555 CAAAATTATGAA
1 CAAAATTATGAA
66119567 CAAA
1 CAAA
66119571 CAGTATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:66119581 original size:24 final size:24
Alignment explanation
Indices: 66119520--66119581 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
66119510 ATCCTGTAAT
*
66119520 ACAAACAGT-TT-CAAACTTATGA
1 ACAAACAGTATTACAAAATTATGA
* *
66119542 ACAAA-ATTAGTAACAAAATTATGA
1 ACAAACAGTA-TTACAAAATTATGA
66119566 ACAAACAGTATTACAA
1 ACAAACAGTATTACAA
66119582 GCCTGCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 1 0.03
24 20 0.65
25 3 0.10
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.24
Consensus pattern (24 bp):
ACAAACAGTATTACAAAATTATGA
Found at i:66119636 original size:12 final size:12
Alignment explanation
Indices: 66119619--66119644 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66119609 ACAGGATAGT
66119619 CAAAATTATGAA
1 CAAAATTATGAA
66119631 CAAAATTATGAA
1 CAAAATTATGAA
66119643 CA
1 CA
66119645 GTTTCAAACT
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:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:66120088 original size:23 final size:24
Alignment explanation
Indices: 66120042--66120099 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
66120032 GGTTCTAGAA
66120042 TTGGGGG-ATTTTGGGGGAAAAAT
1 TTGGGGGAATTTTGGGGGAAAAAT
*
66120065 TTGGGGGGAATTTT-GGGG-ATAAT
1 TT-GGGGGAATTTTGGGGGAAAAAT
66120088 TTGGGGGAATTT
1 TTGGGGGAATTT
66120100 CGGCTAAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 10 0.31
23 8 0.25
24 9 0.28
25 5 0.16
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.34
Consensus pattern (24 bp):
TTGGGGGAATTTTGGGGGAAAAAT
Found at i:66120430 original size:16 final size:17
Alignment explanation
Indices: 66120411--66120445 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66120401 ATTTATTTCA
*
66120411 TAATTTTATC-TTTAAT
1 TAATTGTATCTTTTAAT
66120427 TAATTGTATCTTTTAAT
1 TAATTGTATCTTTTAAT
66120444 TA
1 TA
66120446 CTAAGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (17 bp):
TAATTGTATCTTTTAAT
Found at i:66120940 original size:15 final size:15
Alignment explanation
Indices: 66120920--66120964 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
66120910 CTAACTTGAG
66120920 TACCTAACCCCTAAA
1 TACCTAACCCCTAAA
*
66120935 TACCTAACCCCTAAG
1 TACCTAACCCCTAAA
66120950 T-CTCTAACCCCTAAA
1 TAC-CTAACCCCTAAA
66120965 CCTTAATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (15 bp):
TACCTAACCCCTAAA
Found at i:66122328 original size:41 final size:41
Alignment explanation
Indices: 66122049--66122329 Score: 132
Period size: 41 Copynumber: 6.8 Consensus size: 41
66122039 TTTTAAAACC
* * *
66122049 AAACGCCGCTAAATACCT-TAACATTAGTGGCGATTGACCAA
1 AAACGCCACTAAA-ACCTCCAACATTAGCGGCGATTGACCAA
** * * *
66122090 AACACGCCACTATCACCCCCAACCAATAGCGGCGCA-T-ACATAA
1 AA-ACGCCACTAAAACCTCCAA-CATTAGCGGCG-ATTGAC-CAA
* * * *
66122133 AAACGCCAGTAAAA-TTCACAACATTAGCGGCG-CT-AGCATA
1 AAACGCCACTAAAACCTC-CAACATTAGCGGCGATTGACCA-A
* * *
66122173 GAAACGCCGCTAAATACCT-TAACATTAGTGGCGATTGACCAAA
1 -AAACGCCACTAAA-ACCTCCAACATTAGCGGCGATTGACC-AA
** * * *
66122216 AAACGCCACTATCACCTCCAACCGA-TAGCGGCGCTACGA-GAA
1 AAACGCCACTAAAACCTCCAA-C-ATTAGCGGCGAT-TGACCAA
* ** * * *
66122258 AAATGCTGCTAATACCT-TAACACTAGCGGCGATTGACCAA
1 AAACGCCACTAAAACCTCCAACATTAGCGGCGATTGACCAA
*
66122298 AAACGCCACTAAAACCTCCACCATTAGCGGCG
1 AAACGCCACTAAAACCTCCAACATTAGCGGCG
66122330 CAAACATAAA
Statistics
Matches: 172, Mismatches: 47, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
39 4 0.02
40 28 0.16
41 56 0.33
42 52 0.30
43 27 0.16
44 5 0.03
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (41 bp):
AAACGCCACTAAAACCTCCAACATTAGCGGCGATTGACCAA
Found at i:66136326 original size:19 final size:19
Alignment explanation
Indices: 66136252--66136327 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
66136242 TAAGAAAATA
* *
66136252 TTTATTTCTTTATATATTT
1 TTTATTTATATATATATTT
* *
66136271 TTAAATTT-TATATATTATTA
1 TT-TATTTATATATA-TATTT
66136291 TTTATTGTCA-ATA-ATATTT
1 TTTATT-T-ATATATATATTT
66136310 TTTATTTATATATATATT
1 TTTATTTATATATATATT
66136328 AATTTGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
17 1 0.02
18 4 0.09
19 25 0.56
20 12 0.27
21 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTATTTATATATATATTT
Found at i:66138540 original size:28 final size:28
Alignment explanation
Indices: 66138487--66138541 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
66138477 CAAGATTGAT
* * *
66138487 AGTTATTTCTTTATCTTTGTTAATCTAC
1 AGTTATTTCATTATATTCGTTAATCTAC
66138515 AGTTATTTCATTATATGTCGTT-ATCTA
1 AGTTATTTCATTATAT-TCGTTAATCTA
66138542 TATGCTACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.55
Consensus pattern (28 bp):
AGTTATTTCATTATATTCGTTAATCTAC
Found at i:66146577 original size:103 final size:104
Alignment explanation
Indices: 66146333--66146598 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
66146323 GTTGTACATA
** *
66146333 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
66146398 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
66146437 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
66146502 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
66146540 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
66146599 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:66159218 original size:44 final size:43
Alignment explanation
Indices: 66159117--66159709 Score: 331
Period size: 44 Copynumber: 13.7 Consensus size: 43
66159107 AAAACTTGGA
* * * * * *
66159117 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
*
66159157 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * * * * *
66159201 TCCTATCTTCTTGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAG
* * *
66159246 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AG
* * * * *
66159290 TAC-TATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AACCTTAG
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG
* * * * * * * * * *
66159333 ATCTTATTTCTCTGAAATTGTAG-AGAGTAGA-T-CGCATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
66159374 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * *
66159418 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAG
* * * *
66159463 CCTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTA-AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AG
* * * * * * **
66159507 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAA-AATCTTGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG
* * * * * * *
66159550 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGTATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
66159591 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * * *
66159635 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAAACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAG
* *
66159680 CCTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
66159710 GTTAAAGCCG
Statistics
Matches: 424, Mismatches: 93, Indels: 67
0.73 0.16 0.11
Matches are distributed among these distances:
40 61 0.14
41 26 0.06
42 14 0.03
43 21 0.05
44 194 0.46
45 106 0.25
46 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
Found at i:66159270 original size:89 final size:89
Alignment explanation
Indices: 66159157--66159750 Score: 313
Period size: 89 Copynumber: 6.8 Consensus size: 89
66159147 TCGCATCTAG
* * *
66159157 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCTTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCTCCCTGAAGTTGCA
*
66159222 GTGAAGCAGACTGAAGATGGCAAA
66 GTGGAGCAGACTGAAGATGGCAAA
* * * * * *
66159246 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGC-CG-ATAATACTATCTCCCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AGTCCTATCTCCCTGAAGTTG
* * * **** *
66159309 CAGTGGAGCGGA-TTAAAACCTTAGA
64 CAGTGGAGCAGACTGAAGATGGCAAA
* * * * * * * * * *
66159334 TCTTATTTCTCTGAAATTGTAG-AGAGTAGA-T-CGC-ATCTAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCTCCCTGAAGTTGCA
* *
66159395 GTGGAGCAGACT-AAG-TAAGCAAG
66 GTGGAGCAGACTGAAGAT-GGCAAA
* * *
66159418 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAA-ACCTTATCTCCCTGAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCC-TATCTCCCTGAAGT
* * *
66159480 TGCAGTGGAGCAG-GTTAA-A-GCCGATAA
62 TGCAGTGGAGCAGACTGAAGATGGC-A-AA
* * * * * * ** * *
66159507 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAA--AATCTTGGATCTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC-AAG-TCCTATCTCCCTGAAGTTG
* * * * *
66159570 CAG-AGAGTAGA-TCG--TAT--CTAG
64 CAGTGGAGCAGACT-GAAGATGGCAAA
* *
66159591 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCTC-CCTGAAGTTGC
* *
66159655 AGTGGGGCAAACTGAAGATGGCAAA
65 AGTGGAGCAGACTGAAGATGGCAAA
* * ** * * *
66159680 CCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGC-CG-ATAATCCTATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AGTCCTATCTCCCTGAAGTTG
66159743 CAGTGGAG
64 CAGTGGAG
66159751 TGGATTAAAA
Statistics
Matches: 368, Mismatches: 100, Indels: 74
0.68 0.18 0.14
Matches are distributed among these distances:
83 2 0.01
84 99 0.27
85 12 0.03
86 8 0.02
87 17 0.05
88 51 0.14
89 170 0.46
90 9 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCTCCCTGAAGTTGCA
GTGGAGCAGACTGAAGATGGCAAA
Found at i:66159450 original size:217 final size:217
Alignment explanation
Indices: 66159062--66159840 Score: 1272
Period size: 217 Copynumber: 3.6 Consensus size: 217
66159052 GAACAGATCA
* * * *
66159062 AAAGCCAATGATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAAACTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
*
66159127 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * * ** *
66159192 GCAAGCAAGTCCTATCTTCTTGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
* *
66159257 TGAAGTTGTAGTGGAGCAGATT
196 TGAAGTTGCAGTGGAGCAGGTT
* * * * * *
66159279 AAAGCCGATAATACTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATTTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
* * *
66159344 CTGAAATTGTAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66159409 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
66159474 TGAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
*
66159496 AAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
* *
66159561 CTGAAGTTGCAGAGAGTAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* *
66159626 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAAACTGAAGATGGCAAACCTTATCTCCT
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
66159691 TGAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
*
66159713 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
*
66159778 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGACA-TTGCAGTGGAGTAGACT
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACT
66159841 GCAGCACTAG
Statistics
Matches: 522, Mismatches: 39, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
217 521 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCTTGGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
TGAAGTTGCAGTGGAGCAGGTT
Found at i:66160191 original size:5 final size:5
Alignment explanation
Indices: 66160183--66160214 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
66160173 ACAAGAAAGG
*
66160183 AAATA AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
66160215 GCATATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:66161146 original size:20 final size:20
Alignment explanation
Indices: 66161115--66161165 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
66161105 TAGTAATTTC
66161115 TTATTA-TTTTTTAATGTAA
1 TTATTATTTTTTTAATGTAA
* * *
66161134 TTATTATTTTTTTCATTTAT
1 TTATTATTTTTTTAATGTAA
66161154 TTATTTATTTTT
1 TTA-TTATTTTT
66161166 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 13 0.48
21 8 0.30
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATTATTTTTTTAATGTAA
Found at i:66162649 original size:33 final size:32
Alignment explanation
Indices: 66162612--66162710 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 32
66162602 AATGGTTGGC
* *
66162612 TGTCCATTGAGATGCCCGAACAGTCATGTGCTG
1 TGTCCATTGAG-TGCACGAACAGCCATGTGCTG
* *
66162645 TGTCCATTGGTGTGCACGAACAGCCTTGTGCTG
1 TGTCCATT-GAGTGCACGAACAGCCATGTGCTG
* *
66162678 TGTCCATTGATGTGCACGAACAGCTATGAGCTG
1 TGTCCATTGA-GTGCACGAACAGCCATGTGCTG
66162711 AGTAAGCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.02
33 53 0.95
34 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (32 bp):
TGTCCATTGAGTGCACGAACAGCCATGTGCTG
Found at i:66164945 original size:3 final size:3
Alignment explanation
Indices: 66164880--66164926 Score: 58
Period size: 3 Copynumber: 14.7 Consensus size: 3
66164870 TAAATGGGTA
*
66164880 AAT AAT AAT TAT AAT AAT AAAT GCAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT AAT AAT AAT AA
66164927 AACTGATTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
3 33 0.85
4 3 0.08
5 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66168518 original size:23 final size:22
Alignment explanation
Indices: 66168478--66168527 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
66168468 AATTAAGGTT
*
66168478 AAAATAGTAATAAGTAAATA-AC
1 AAAATAGTAATAAATAAA-ACAC
*
66168500 AAAATATTAAATAAATAAAACAC
1 AAAATAGT-AATAAATAAAACAC
66168523 AAAAT
1 AAAAT
66168528 GACATGCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAATAGTAATAAATAAAACAC
Found at i:66169456 original size:44 final size:42
Alignment explanation
Indices: 66169406--66169521 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 42
66169396 ATGAGTATTT
66169406 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTTGAGGTTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTGA---TTAC
66169450 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGACGTTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAC-TTTGATTAC
*
66169493 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
66169522 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
42 1 0.02
43 29 0.45
44 29 0.45
45 1 0.02
46 5 0.08
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTGATTAC
Found at i:66170363 original size:23 final size:23
Alignment explanation
Indices: 66170320--66170365 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
66170310 ATTAATTATA
* *
66170320 GACTTATAGATTGACGTATAATT
1 GACTTATAAATAGACGTATAATT
66170343 GACTTATAAATAGA-GTGATAATT
1 GACTTATAAATAGACGT-ATAATT
66170366 AGTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
GACTTATAAATAGACGTATAATT
Found at i:66174688 original size:24 final size:22
Alignment explanation
Indices: 66174660--66174722 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
66174650 AATTCTAAAC
66174660 CATTTAATAACTCATCTAATAACT
1 CATTTAATAACTCATCT-ATAA-T
66174684 CATTTAATGAAC-CAT-T-TAAT
1 CATTTAAT-AACTCATCTATAAT
66174704 CATTTAATAACTCCATCTA
1 CATTTAATAACT-CATCTA
66174723 CACAACAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.09
20 9 0.26
21 6 0.18
22 1 0.03
23 1 0.03
24 11 0.32
25 3 0.09
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (22 bp):
CATTTAATAACTCATCTATAAT
Found at i:66174699 original size:12 final size:12
Alignment explanation
Indices: 66174660--66174703 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
66174650 AATTCTAAAC
66174660 CATTTAATAACT
1 CATTTAATAACT
*
66174672 CATCTAATAACT
1 CATTTAATAACT
66174684 CATTTAATGAAC-
1 CATTTAAT-AACT
66174696 CATTTAAT
1 CATTTAAT
66174704 CATTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 26 0.90
13 3 0.10
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (12 bp):
CATTTAATAACT
Found at i:66186044 original size:15 final size:15
Alignment explanation
Indices: 66186024--66186058 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66186014 ACAGATCGGG
*
66186024 TCAGTTTTTGGTTTC
1 TCAGTTTTTGGTTGC
*
66186039 TCAGTTTTTTGTTGC
1 TCAGTTTTTGGTTGC
66186054 TCAGT
1 TCAGT
66186059 CCTACTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (15 bp):
TCAGTTTTTGGTTGC
Found at i:66197954 original size:21 final size:22
Alignment explanation
Indices: 66197928--66197982 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 22
66197918 ATTCCCGTCT
66197928 CCTTCTCT-TTCTGTTTTCTTA
1 CCTTCTCTCTTCTGTTTTCTTA
66197949 CCTTCTCTATTTCTTCTGTTTTCTTA
1 CCTTCTC----TCTTCTGTTTTCTTA
66197975 CCTTCTCT
1 CCTTCTCT
66197983 ATTTCTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 7 0.24
22 1 0.03
25 1 0.03
26 20 0.69
ACGTcount: A:0.05, C:0.31, G:0.04, T:0.60
Consensus pattern (22 bp):
CCTTCTCTCTTCTGTTTTCTTA
Found at i:66197969 original size:26 final size:26
Alignment explanation
Indices: 66197936--66197989 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
66197926 CTCCTTCTCT
66197936 TTCTGTTTTCTTACCTTCTCTATTTC
1 TTCTGTTTTCTTACCTTCTCTATTTC
66197962 TTCTGTTTTCTTACCTTCTCTATTTC
1 TTCTGTTTTCTTACCTTCTCTATTTC
66197988 TT
1 TT
66197990 TTAACGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.07, C:0.26, G:0.04, T:0.63
Consensus pattern (26 bp):
TTCTGTTTTCTTACCTTCTCTATTTC
Found at i:66199074 original size:165 final size:166
Alignment explanation
Indices: 66198767--66199099 Score: 510
Period size: 165 Copynumber: 2.0 Consensus size: 166
66198757 GGGGACAATC
* *
66198767 AAATATTTATGTACAAAGCTACTATTCATAAAATTGACGTTCTTAGTAGACTCTATGCATATGTT
1 AAATATTTATGTACAAAGCTACTATTCATAAAATTGACGTTCTTAGTAAACTCTATGCA-ATGCT
* *
66198832 GGATACGTGTACTACTCTGGACTGCTTGCTAGATGCTTCTTGGGCATATGCGAGCAAAGACCGCG
65 GGATACGTGTACTACTCTGGACTGCTTGCTAGATGCTCCTTGGGCATATGCGAGCAAAGACCACG
* * *
66198897 AGCTCCCTTTGCGAACACCCTCTGATGTGTGCGGCTG
130 AGATCCCTTTGCGAACAACCTCTGATGTGTGCGACTG
*
66198934 AAATATTTATGTGCAAAGCTACTATTCA-AAGAATTGACGTTCTTAGTAAACTCTATGC-ATGCT
1 AAATATTTATGTACAAAGCTACTATTCATAA-AATTGACGTTCTTAGTAAACTCTATGCAATGCT
* * *
66198997 GGATACGTGTACTACTCTAGG-CTGCTTGCTGGATGCTCCTTGGGCATATGTGAGCAAAGACCAT
65 GGATACGTGTACTACTCT-GGACTGCTTGCTAGATGCTCCTTGGGCATATGCGAGCAAAGACCAC
*
66199061 GAGATCTCTTTGCGAACAACCTCTGATGTGTGCGACTG
129 GAGATCCCTTTGCGAACAACCTCTGATGTGTGCGACTG
66199099 A
1 A
66199100 GTCCGCAAGC
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
165 95 0.62
166 4 0.03
167 53 0.35
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (166 bp):
AAATATTTATGTACAAAGCTACTATTCATAAAATTGACGTTCTTAGTAAACTCTATGCAATGCTG
GATACGTGTACTACTCTGGACTGCTTGCTAGATGCTCCTTGGGCATATGCGAGCAAAGACCACGA
GATCCCTTTGCGAACAACCTCTGATGTGTGCGACTG
Found at i:66202713 original size:51 final size:51
Alignment explanation
Indices: 66202658--66202866 Score: 321
Period size: 51 Copynumber: 4.1 Consensus size: 51
66202648 ATCACATTTA
66202658 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
66202709 TCACTTGTCACTGATCAGATAAGTGTAGCCTAAAGCTACCACTTATCAGTTG
1 TCACTTGTCACTGATCAGATAAGTGTAG-CTAAAGCTACCACTTATCACTTG
*
66202761 TCACCTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * * * *
66202811 CCACTTGTCATTGATCAAATAAGTGTAGCTGAAGCTGCTACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
66202862 CCACT
1 TCACT
66202867 GATAAAAAGT
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
50 45 0.31
51 53 0.36
52 49 0.33
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:66203485 original size:25 final size:27
Alignment explanation
Indices: 66203457--66203522 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
66203447 AAATATACTA
66203457 TTCACACAT-A-CTATGAAACTTTATT
1 TTCACACATGAGCTATGAAACTTTATT
*
66203482 TTCACGCATGAGCTATGAAACTTTATT
1 TTCACACATGAGCTATGAAACTTTATT
*
66203509 TTCACGCATGAGCT
1 TTCACACATGAGCT
66203523 TAAACCATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 8 0.21
26 1 0.03
27 29 0.76
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (27 bp):
TTCACACATGAGCTATGAAACTTTATT
Found at i:66203498 original size:27 final size:27
Alignment explanation
Indices: 66203467--66203522 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
66203457 TTCACACATA
66203467 CTATGAAACTTTATTTTCACGCATGAG
1 CTATGAAACTTTATTTTCACGCATGAG
66203494 CTATGAAACTTTATTTTCACGCATGAG
1 CTATGAAACTTTATTTTCACGCATGAG
66203521 CT
1 CT
66203523 TAAACCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (27 bp):
CTATGAAACTTTATTTTCACGCATGAG
Found at i:66203535 original size:23 final size:26
Alignment explanation
Indices: 66203467--66203535 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
66203457 TTCACACATA
* *
66203467 CTATGAAACTTTATTTTCACGCATGAG
1 CTATGAAAC-TCATGTTCACGCATGAG
* *
66203494 CTATGAAACTTTATTTTCACGCATGAG
1 CTATGAAAC-TCATGTTCACGCATGAG
66203521 CT-T-AAAC-CATGTTCA
1 CTATGAAACTCATGTTCA
66203536 ATAATGCACA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.15
25 4 0.10
26 1 0.03
27 29 0.73
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (26 bp):
CTATGAAACTCATGTTCACGCATGAG
Found at i:66207883 original size:13 final size:13
Alignment explanation
Indices: 66207865--66207889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66207855 TCCAGCAACT
66207865 ATGAATTTATTTC
1 ATGAATTTATTTC
66207878 ATGAATTTATTT
1 ATGAATTTATTT
66207890 GATGTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:66208100 original size:50 final size:50
Alignment explanation
Indices: 66207989--66208237 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
66207979 ATTTGGGTAA
* * * *
66207989 AGAGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTCTTGAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--C-CGA-A--ACG
*
66208045 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAAACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAACG
* * *
66208095 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAACG
* * * *
66208145 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGC-TTGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTT-GGCACCGAAACG
** * * *
66208195 AGAACATTCCATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
66208238 TGTTTTTTAC
Statistics
Matches: 171, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 94 0.55
51 31 0.18
52 3 0.02
53 2 0.01
54 1 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAACG
Found at i:66208187 original size:100 final size:103
Alignment explanation
Indices: 66207989--66208238 Score: 301
Period size: 100 Copynumber: 2.4 Consensus size: 103
66207979 ATTTGGGTAA
* *
66207989 AGAGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTCTTGAGATCACGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCTCGAGAT--CGAGAGGTCCC
*
66208054 ATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAAACG
63 ATATAAGACCATGTCTGAGACATGGCGTTGGCACCGAAACG
* * * *
66208095 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCA-C-CGAGAT-GAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTCGAGATCGAGAGGTCCCATA
* * *
66208157 TAAGACCATGTCTGGGACATGGC-TTGGGCACCGATATG
66 TAAGACCATGTCTGAGACATGGCGTT-GGCACCGAAACG
* * * *
66208195 AGAACATTCCATGTAAGACCATGCCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
66208239 GTTTTTTACC
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
99 2 0.02
100 45 0.36
101 34 0.27
103 5 0.04
104 1 0.01
106 38 0.30
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTCGAGATCGAGAGGTCCCATA
TAAGACCATGTCTGAGACATGGCGTTGGCACCGAAACG
Found at i:66211185 original size:23 final size:22
Alignment explanation
Indices: 66211159--66211202 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
66211149 AATTTTTTTA
*
66211159 TAAAATTATAAAATATATATTTC
1 TAAAATTATAAAA-AAATATTTC
*
66211182 TAAAATTCTAAAAAAATATTT
1 TAAAATTATAAAAAAATATTT
66211203 AAAGTTGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTATAAAAAAATATTTC
Found at i:66211528 original size:25 final size:28
Alignment explanation
Indices: 66211477--66211530 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
66211467 AAGTCAAAAC
* *
66211477 TATTTATTAATATTTAATATTATATTTT
1 TATTTATTAATATTAAATATTAAATTTT
66211505 TATTT-TTAAT-TTAAAT-TTAAATTTT
1 TATTTATTAATATTAAATATTAAATTTT
66211530 T
1 T
66211531 TGTTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 5 0.21
27 5 0.21
28 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATTAATATTAAATATTAAATTTT
Found at i:66214162 original size:17 final size:18
Alignment explanation
Indices: 66214140--66214185 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
66214130 CGATGTAAAA
66214140 TAATATTATATAAATT-T
1 TAATATTATATAAATTGT
*
66214157 TAATA-TATAT-ATTTGT
1 TAATATTATATAAATTGT
*
66214173 TAGTATTATATAA
1 TAATATTATATAA
66214186 GTATATGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 10 0.42
17 10 0.42
18 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TAATATTATATAAATTGT
Done.