Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 231 of 444
Found at i:65214765 original size:42 final size:42
Alignment explanation
Indices: 65214704--65214809 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
65214694 TCATTAAATA
65214704 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
65214747 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
65214789 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
65214810 GGCTTAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 54 0.86
43 9 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:65220055 original size:2 final size:2
Alignment explanation
Indices: 65220048--65220082 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
65220038 TTGAATGCAC
65220048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65220083 CACGTAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65223288 original size:46 final size:45
Alignment explanation
Indices: 65223214--65223389 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
65223204 TATTTGGGCA
65223214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
65223260 TTCGAACTCGTTGAGTTGAGTCCCAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
65223307 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
65223353 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65223390 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:65223369 original size:93 final size:93
Alignment explanation
Indices: 65223210--65223382 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
65223200 GGGATATTTG
* **
65223210 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
65223275 TTGAGTCCCAGTTCGAGAGATGTAACTA
66 TTGAGTCCCAGTTCGAGAGATGTAACTA
* *
65223303 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
65223368 TTGAGTCCGAGTTCG
66 TTGAGTCCCAGTTCG
65223383 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCCAGTTCGAGAGATGTAACTA
Found at i:65226037 original size:40 final size:40
Alignment explanation
Indices: 65225992--65226158 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
65225982 CGGAATATAA
65225992 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
65226032 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
65226071 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65226111 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
65226151 CCGGATAT
1 CCGGATAT
65226159 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65234045 original size:40 final size:40
Alignment explanation
Indices: 65234000--65234164 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
65233990 CGGAATATAA
65234000 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65234040 CCGGATAGAA-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
65234079 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65234119 CCGGATATAATTTCCAGCATAATTGTCTTCGGG--TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65234157 CCGGATAT
1 CCGGATAT
65234165 CATTCAATTT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
38 13 0.13
39 32 0.31
40 58 0.56
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65234064 original size:39 final size:40
Alignment explanation
Indices: 65234016--65234125 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
65234006 ATAATCACGT
*
65234016 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-AAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
**
65234055 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
*
65234095 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
65234126 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGAAACTA
Found at i:65241363 original size:40 final size:40
Alignment explanation
Indices: 65241318--65241485 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
65241308 CGGAATATAA
65241318 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
65241358 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
65241398 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65241438 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
65241478 CCGGATAT
1 CCGGATAT
65241486 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65243998 original size:29 final size:29
Alignment explanation
Indices: 65243963--65244036 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
65243953 GTTGTGAGAT
* *
65243963 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65243992 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65244021 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65244037 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65247349 original size:40 final size:40
Alignment explanation
Indices: 65247279--65247483 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
65247269 CGGATGATAA
* *
65247279 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
65247319 CGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
65247359 CGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
65247399 CGAAGGCATTTGTGCAAGCTACTATATCCGGGCTACGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
65247439 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
65247478 CGAAGG
1 CGAAGG
65247484 TACTTGGTTT
Statistics
Matches: 149, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.10
40 133 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:65254949 original size:44 final size:44
Alignment explanation
Indices: 65254893--65255029 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 44
65254883 TTAAGCCCGG
* * *
65254893 ATATAGTACCAGCACTAAGCCTGAGGGATTTAACCCGGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
65254937 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--ATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
*
65254979 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
65255023 AATATAT
1 -ATATAT
65255030 CGAGTGCTAA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
42 41 0.48
44 39 0.45
45 6 0.07
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
Found at i:65257322 original size:24 final size:24
Alignment explanation
Indices: 65257282--65257329 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65257272 TTGTAACAAG
*
65257282 CTTCATCTTCCTCCTTCTCCTCCT
1 CTTCATCTTCCTCCTTCTACTCCT
*
65257306 CTTCATTCTT-CTTCTTCTACTCCT
1 CTTCA-TCTTCCTCCTTCTACTCCT
65257330 TAGCTACCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (24 bp):
CTTCATCTTCCTCCTTCTACTCCT
Found at i:65257725 original size:3 final size:3
Alignment explanation
Indices: 65257717--65257748 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65257707 CAATGAGATA
*
65257717 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
65257749 AATTATTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:65257873 original size:15 final size:15
Alignment explanation
Indices: 65257853--65257905 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
65257843 TTAACCTATA
65257853 ATAATTACTCATTTC
1 ATAATTACTCATTTC
* * *
65257868 ATAATTA-TAACCTATA
1 ATAATTACT--CATTTC
65257884 ATAATTACTCATTTC
1 ATAATTACTCATTTC
65257899 ATAATTA
1 ATAATTA
65257906 TCTAAATTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 10 0.34
17 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTACTCATTTC
Found at i:65257882 original size:31 final size:31
Alignment explanation
Indices: 65257844--65257906 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
65257834 CAACAATAGT
65257844 TAACCTATAATAATTACTCATTTCATAATTA
1 TAACCTATAATAATTACTCATTTCATAATTA
65257875 TAACCTATAATAATTACTCATTTCATAATTA
1 TAACCTATAATAATTACTCATTTCATAATTA
65257906 T
1 T
65257907 CTAAATTGGT
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:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (31 bp):
TAACCTATAATAATTACTCATTTCATAATTA
Found at i:65260905 original size:39 final size:40
Alignment explanation
Indices: 65260850--65260988 Score: 196
Period size: 39 Copynumber: 3.5 Consensus size: 40
65260840 TAATGGAGAA
*
65260850 TTATATCCGGGC-TAAGTTCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
65260889 TTATATCCGGG-TTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
65260928 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTA
1 TTATATCCGGGCTTAAGTCCCG-AAGGCATTCGTGCTGGTG
65260967 TTATATCCGGGCTTAAAGTCCC
1 TTATATCCGGGCTT-AAGTCCC
65260989 ACATGCTTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
39 71 0.78
40 18 0.20
41 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:65260997 original size:40 final size:40
Alignment explanation
Indices: 65260880--65261006 Score: 145
Period size: 39 Copynumber: 3.2 Consensus size: 40
65260870 GAAGGCATTC
* *
65260880 GTGCTGGTGTTATATCCGGG-TT-AAGTCCCGA-AGGCATTC
1 GTGCTGGTGTTATATCCGGGCTTAAAGTCCC-ACAAGC-TTT
*
65260919 GTGCTGGTGTTATATCCGGGC-TAAAGTCCCGCAAGCTTT
1 GTGCTGGTGTTATATCCGGGCTTAAAGTCCCACAAGCTTT
* *
65260958 GTGCTGGTATTATATCCGGGCTTAAAGTCCCACATGCTTT
1 GTGCTGGTGTTATATCCGGGCTTAAAGTCCCACAAGCTTT
* *
65260998 ATGGTGGTG
1 GTGCTGGTG
65261007 ATTGGATTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
39 43 0.57
40 32 0.43
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (40 bp):
GTGCTGGTGTTATATCCGGGCTTAAAGTCCCACAAGCTTT
Found at i:65265794 original size:19 final size:20
Alignment explanation
Indices: 65265770--65265810 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
65265760 GAATTTAGGC
65265770 AAATA-TTAAGTA-AAAATTG
1 AAATATTTAA-TATAAAATTG
65265789 AAATATTTAATATAAAATTG
1 AAATATTTAATATAAAATTG
65265809 AA
1 AA
65265811 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
AAATATTTAATATAAAATTG
Found at i:65268619 original size:40 final size:40
Alignment explanation
Indices: 65268564--65268640 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
65268554 TATTCGGATG
*
65268564 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
65268604 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
65268641 GCCTTCGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:65268705 original size:40 final size:40
Alignment explanation
Indices: 65268649--65268760 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
65268639 TTGCCTTCGG
*
65268649 GCTAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
65268689 GCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
* * *
65268729 GCGAGTTG-CTATATCC-AGCTAAATCCCGAAGG
1 GCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
65268761 TACTTGGGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.20
40 50 0.77
41 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
GCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
Found at i:65283560 original size:40 final size:44
Alignment explanation
Indices: 65283504--65283602 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 44
65283494 TTGGAAGCAT
**
65283504 TGGCACTAAGTGTGCGATTTAAAC-TAGCTTCGGCT-ACT-AAA
1 TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
*
65283545 -GGCACTAAGTGTGCGATACCAACTTAGCTTCGGCTAACTGAAA
1 TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
65283588 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
65283603 AGAATCATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
40 20 0.39
41 11 0.22
42 3 0.06
43 3 0.06
44 14 0.27
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
Found at i:65285163 original size:30 final size:31
Alignment explanation
Indices: 65285127--65285195 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
65285117 GGTTTCATTT
* *
65285127 TAGTCACTCAAC-TTTTTAAAAA-TAACAAAA
1 TAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
65285157 TAGTCACTAACGTTATAAAAAAGTGACAAAA
1 TAGTCACTAACGTTATAAAAAAGTAACAAAA
*
65285188 CAGTCACT
1 TAGTCACT
65285196 GATTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.48
31 14 0.42
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (31 bp):
TAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:65288565 original size:26 final size:26
Alignment explanation
Indices: 65288535--65288586 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
65288525 AAAGATACGC
65288535 ATTGCAGTGGCTAACAAAATTAGGTT
1 ATTGCAGTGGCTAACAAAATTAGGTT
65288561 ATTGCAGTGGCTAACAAAATTAGGTT
1 ATTGCAGTGGCTAACAAAATTAGGTT
65288587 TACTTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (26 bp):
ATTGCAGTGGCTAACAAAATTAGGTT
Found at i:65299409 original size:80 final size:79
Alignment explanation
Indices: 65299263--65299523 Score: 316
Period size: 77 Copynumber: 3.4 Consensus size: 79
65299253 CGGCTAGAAG
* * * *
65299263 CAATCCCGAAACAGA-TTTTATGTTACTCGTTTTT-TAAATAAAACAACTTTGGAATAAAAGCGT
1 CAATCCCGAAACAGATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
65299326 TGAACGGCGGGAAT
66 TGAACGGCGGGAAT
* *
65299340 CAATCCCGAAACAAATTTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCA
1 CAATCCCGAAACAGA-TTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCG
* **
65299405 TTGAATGATGGGAAT
65 TTGAACGGCGGGAAT
* * * * *
65299420 CAATTCCGAAAC-GATTTTTA-CTTACTCGTTTTTGGAAATAAGACAATTTTGGAATAAAATCGT
1 CAATCCCGAAACAGATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
*
65299483 TGAACGGCGAGAAT
66 TGAACGGCGGGAAT
* * *
65299497 CAGTCCCAAAACA-TTTTTTATTTTACT
1 CAATCCCGAAACAGATTTTTATTTTACT
65299524 TTTAATTTCC
Statistics
Matches: 154, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
77 77 0.50
78 11 0.07
79 19 0.12
80 47 0.31
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (79 bp):
CAATCCCGAAACAGATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
TGAACGGCGGGAAT
Found at i:65299893 original size:17 final size:17
Alignment explanation
Indices: 65299871--65299905 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65299861 AGATTGTTAG
65299871 ACAAAACACGTTAGCGA
1 ACAAAACACGTTAGCGA
65299888 ACAAAACACGTTAGCGA
1 ACAAAACACGTTAGCGA
65299905 A
1 A
65299906 AAATAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (17 bp):
ACAAAACACGTTAGCGA
Found at i:65301231 original size:85 final size:85
Alignment explanation
Indices: 65301083--65301251 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
65301073 ACCATAATAC
* *
65301083 TTTTACTTTTCCCTAATATGTGACCTATATTTAATGATATTAGAAAAGAGCGCATATTTTTCATA
1 TTTTACTTTTCCCTAATATGTGACCTATATTGAATGATATTAGAAAAGAGAGCATATTTTTCATA
65301148 GAATATATTAATGATGTGTT
66 GAATATATTAATGATGTGTT
* *
65301168 TTTTTCTTTTCCCTAATATGTGAGCTATATTGAATGATATTAGAAAAGAGAGCATATTTTTCATA
1 TTTTACTTTTCCCTAATATGTGACCTATATTGAATGATATTAGAAAAGAGAGCATATTTTTCATA
65301233 GAATATATTAATGATGTGT
66 GAATATATTAATGATGTGT
65301252 CCTCAAAGAA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (85 bp):
TTTTACTTTTCCCTAATATGTGACCTATATTGAATGATATTAGAAAAGAGAGCATATTTTTCATA
GAATATATTAATGATGTGTT
Found at i:65302582 original size:16 final size:17
Alignment explanation
Indices: 65302560--65302598 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
65302550 AAATTTAGGG
*
65302560 AAAAAAA-AGAATGTTGT
1 AAAAAAATA-AATGTTCT
65302577 AAAAAAATAAATGTTCT
1 AAAAAAATAAATGTTCT
65302594 AAAAA
1 AAAAA
65302599 TCTTAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAAAAATAAATGTTCT
Found at i:65304225 original size:19 final size:19
Alignment explanation
Indices: 65304160--65304227 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 19
65304150 AATTGATCAG
* *
65304160 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
65304178 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
*
65304197 TGTA--CAGTAACAATTAAA
1 T-TATTCAGTAACAATCAAA
65304215 TTATTCAGTAACA
1 TTATTCAGTAACA
65304228 GTCGATCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 2 0.05
18 26 0.63
19 11 0.27
20 2 0.05
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:65304880 original size:2 final size:2
Alignment explanation
Indices: 65304873--65304911 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
65304863 CACCTACTAC
65304873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65304912 AAATAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65305544 original size:15 final size:15
Alignment explanation
Indices: 65305524--65305561 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
65305514 AATTTTCCCC
*
65305524 TTTTTCCTTCTTTCT
1 TTTTTCCTTCCTTCT
65305539 TTTTTCCTTCCTTCT
1 TTTTTCCTTCCTTCT
65305554 TTCTTTCC
1 TT-TTTCC
65305562 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCCTTCCTTCT
Found at i:65308540 original size:47 final size:45
Alignment explanation
Indices: 65308392--65308705 Score: 170
Period size: 47 Copynumber: 6.7 Consensus size: 45
65308382 TTTTTGTGTA
* * *
65308392 CCAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGA-TG
* ** * * * *
65308438 CCAGTATAAGACCATGTCTGGGAGGTGGCATCGGCAC-AGAGATAAGTA
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCGAGATGA-TG
* *
65308486 CCGGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACGATGATAA
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAT-G
* * * * * *
65308533 CCAGTGTAAGACGTGTCTGGGACACGCAT-TGGCTAAGAGTTG-TG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGATG
* * * * *
65308577 CTAGTGTTAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AGAT--GA-TG
* * * *
65308625 CTAGTATAAGACCATGTCTGGGACATGGCACCGGCCTCGATGATGATAG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-GATGAT-G
*
65308674 CCAGTGTAAGACCATGTTTGGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATC
65308706 GGTAACTTAT
Statistics
Matches: 204, Mismatches: 45, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 3 0.01
46 27 0.13
47 56 0.27
48 31 0.15
49 47 0.23
50 6 0.03
51 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGATG
Found at i:65309555 original size:55 final size:55
Alignment explanation
Indices: 65309471--65309585 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
65309461 TAAACATTTT
* * *
65309471 AGTCAGTGTTGTACACAGGTAGGCCACACGGACGTATGCCATGGTCGTG-TCTTAA
1 AGTCAGTATTGTACACAGGCAGGCCACACGGACGTATGCCATGGCCGTGTTCTT-A
* * * * *
65309526 AGTCAGTATTGTACACGGGCAGGTCACACGGGCGTGTGGCATGGCCGTGTTCTTA
1 AGTCAGTATTGTACACAGGCAGGCCACACGGACGTATGCCATGGCCGTGTTCTTA
65309581 AGTCA
1 AGTCA
65309586 AATTTGCACA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 47 0.92
56 4 0.08
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (55 bp):
AGTCAGTATTGTACACAGGCAGGCCACACGGACGTATGCCATGGCCGTGTTCTTA
Found at i:65309597 original size:55 final size:55
Alignment explanation
Indices: 65309495--65309600 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 55
65309485 ACAGGTAGGC
* * *
65309495 CACACGGACGTATGCCATGGTCGTGTCTTAAAGTCAGTATTGTACACGGGCAGGT
1 CACACGGACGTATGCCATGGCCGTGTCTTAAAGTCAATATTGCACACGGGCAGGT
* * *
65309550 CACACGGGCGTGTGGCATGGCCGTGTTCTT-AAGTCAA-ATTTGCACACGGGC
1 CACACGGACGTATGCCATGGCCGTG-TCTTAAAGTCAATA-TTGCACACGGGC
65309601 TGAGAGCACG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 38 0.88
56 4 0.09
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (55 bp):
CACACGGACGTATGCCATGGCCGTGTCTTAAAGTCAATATTGCACACGGGCAGGT
Found at i:65309639 original size:33 final size:33
Alignment explanation
Indices: 65309597--65309659 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
65309587 ATTTGCACAC
65309597 GGGCTGAGAGCACGGGTATGTCCCAAGCCAGAT
1 GGGCTGAGAGCACGGGTATGTCCCAAGCCAGAT
*
65309630 GGGCTGAGAGCACGGGTGTGTCCCAAGCCA
1 GGGCTGAGAGCACGGGTATGTCCCAAGCCA
65309660 CACGGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.14
Consensus pattern (33 bp):
GGGCTGAGAGCACGGGTATGTCCCAAGCCAGAT
Found at i:65312323 original size:20 final size:20
Alignment explanation
Indices: 65312300--65312350 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
65312290 ATTATTGTGT
*
65312300 TAATTTAATTTTAATTATTA
1 TAATTTAATTTTAAATATTA
*
65312320 TAA-TTAAATTTAAATATTA
1 TAATTTAATTTTAAATATTA
65312339 T-ATTTCAATTTT
1 TAATTT-AATTTT
65312351 TTAAGCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 17 0.65
20 8 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTTAATTTTAAATATTA
Found at i:65312893 original size:9 final size:9
Alignment explanation
Indices: 65312881--65312908 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
65312871 ATTAAATTAA
65312881 TTTTAAATT
1 TTTTAAATT
65312890 TTTTAAATT
1 TTTTAAATT
65312899 TTTTAAATT
1 TTTTAAATT
65312908 T
1 T
65312909 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAAATT
Found at i:65314371 original size:21 final size:22
Alignment explanation
Indices: 65314345--65314395 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
65314335 AAGTAAGTTT
65314345 AAAAAAAAACG-AAAAAAATTC
1 AAAAAAAAACGAAAAAAAATTC
65314366 --AAAAAAACGAAAAAAAAATTC
1 AAAAAAAAACG-AAAAAAAATTC
*
65314387 AAACAAAAA
1 AAAAAAAAA
65314396 TTCTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 9 0.36
21 10 0.40
23 6 0.24
ACGTcount: A:0.78, C:0.10, G:0.04, T:0.08
Consensus pattern (22 bp):
AAAAAAAAACGAAAAAAAATTC
Found at i:65314394 original size:13 final size:13
Alignment explanation
Indices: 65314375--65314408 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
65314365 CAAAAAAACG
65314375 AAAAAAAAATTC-
1 AAAAAAAAATTCT
*
65314387 AAACAAAAATTCT
1 AAAAAAAAATTCT
65314400 AAAAAAAAA
1 AAAAAAAAA
65314409 CAAAATCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAAAATTCT
Found at i:65315487 original size:30 final size:28
Alignment explanation
Indices: 65315451--65315506 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65315441 AAGCGAAAAA
* *
65315451 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
65315481 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
65315507 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:65318098 original size:14 final size:14
Alignment explanation
Indices: 65318079--65318123 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
65318069 AACTCATCTT
*
65318079 AGTTTAATTAAATG
1 AGTTTAATTTAATG
65318093 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
65318106 AATTTAATTTAATG
1 AGTTTAATTTAATG
65318120 AGTT
1 AGTT
65318124 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:65320889 original size:3 final size:3
Alignment explanation
Indices: 65320883--65321009 Score: 68
Period size: 3 Copynumber: 43.0 Consensus size: 3
65320873 TTAGTTAATT
* * * *
65320883 TTA TTA TT- TTC TT- TTA CTA TTA TTTA TTA TCA TTA TTA -TA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * *
65320926 TTA CTA TTA TTG TTA TT- TTT TTA TTT TTA TTA CTA CTCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA
* * *
65320972 TTA TTA TT- GTA TTA TTG TTA TTA TT- TTCC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
65321010 CCATCAAAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
2 11 0.12
3 75 0.80
4 6 0.06
5 2 0.02
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65320950 original size:17 final size:17
Alignment explanation
Indices: 65320883--65321009 Score: 78
Period size: 17 Copynumber: 7.2 Consensus size: 17
65320873 TTAGTTAATT
*
65320883 TTATTATTTTCTT-TTA
1 TTATTATTTTATTATTA
* *
65320899 CTATTA-TTTATTATCA
1 TTATTATTTTATTATTA
*
65320915 TTATTATATTTTTACTATTA
1 TTA-T-TA-TTTTATTATTA
* * *
65320935 TTGTTATTTTTTTATTT
1 TTATTATTTTATTATTA
*
65320952 TTATTACTACTCTATTATTA
1 TTATTA-T--TTTATTATTA
* *
65320972 TTATTATTGTATTATTG
1 TTATTATTTTATTATTA
*
65320989 TTATTATTTTCCTTATTA
1 TTATTATTTT-ATTATTA
65321007 TTA
1 TTA
65321010 CCATCAAAAT
Statistics
Matches: 83, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
15 5 0.06
16 9 0.11
17 31 0.37
18 13 0.16
19 2 0.02
20 23 0.28
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTATTTTATTATTA
Found at i:65320987 original size:20 final size:19
Alignment explanation
Indices: 65320900--65321009 Score: 79
Period size: 20 Copynumber: 5.9 Consensus size: 19
65320890 TTTCTTTTAC
*
65320900 TATTATTTATTATCATTAT
1 TATTATTTATTATTATTAT
*
65320919 TA-TATTT-TTACTATTAT
1 TATTATTTATTATTATTAT
* *
65320936 TGTTATTT-TT-TTATTTT
1 TATTATTTATTATTATTAT
*
65320953 TATTA-CTACTCTATTATTAT
1 TATTATTTA-T-TATTATTAT
*
65320973 TATTATTGTATTATTGTTAT
1 TATTATT-TATTATTATTAT
**
65320993 TATT-TTCCTTATTATTA
1 TATTATTTATTATTATTA
65321010 CCATCAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
16 1 0.01
17 18 0.25
18 21 0.30
19 5 0.07
20 23 0.32
21 1 0.01
22 2 0.03
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:65320994 original size:60 final size:60
Alignment explanation
Indices: 65320880--65320996 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
65320870 AAATTAGTTA
* *
65320880 ATTTTATTATTTTCTTTTACTATTATTTATTATCATTATTATATTTTTACTATTATTGTT
1 ATTTTATTATTTTCTATTACTATTATTTATTATCATTATTATATTATTACTATTATTGTT
* * * **
65320940 ATTTTTTTATTTT-TATTACTACTCTA-TTATTATTATTATTGTATTATTGTTATTATT
1 ATTTTATTATTTTCTATTACTA-T-TATTTATTATCATTATTATATTATTACTATTATT
65320997 TTCCTTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 7 0.15
60 39 0.81
61 2 0.04
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (60 bp):
ATTTTATTATTTTCTATTACTATTATTTATTATCATTATTATATTATTACTATTATTGTT
Found at i:65321083 original size:22 final size:21
Alignment explanation
Indices: 65321041--65321088 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
65321031 TCTATACTTA
*
65321041 TTTATTTATTATTATTATATT
1 TTTATTTATTACTATTATATT
*
65321062 TTTATTTATTCCTATTTATATT
1 TTTATTTATTACTA-TTATATT
65321084 TTTAT
1 TTTAT
65321089 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTTATTACTATTATATT
Found at i:65321093 original size:2 final size:2
Alignment explanation
Indices: 65321086--65321131 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
65321076 TTTATATTTT
65321086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65321128 TA TA
1 TA TA
65321132 AATGCGTGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65321218 original size:3 final size:3
Alignment explanation
Indices: 65321210--65321303 Score: 73
Period size: 3 Copynumber: 31.3 Consensus size: 3
65321200 ACTTTAGATT
* * * * * *
65321210 TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
65321258 TTA CTA CTA TCA TTA TTT TTA TTA TTA ATA TTA TTA -TA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
65321303 T
1 T
65321304 AATTTACTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.95
4 2 0.03
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65327167 original size:2 final size:2
Alignment explanation
Indices: 65327160--65327185 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65327150 ATACACAAAA
65327160 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
65327186 TTAATTTTTT
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:65328244 original size:20 final size:21
Alignment explanation
Indices: 65328216--65328254 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
65328206 CAAAATAAGC
*
65328216 AAACAAGCT-TATTGAGCTGG
1 AAACAAGCTGAATTGAGCTGG
*
65328236 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
65328255 CAACGAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGG
Found at i:65332226 original size:25 final size:24
Alignment explanation
Indices: 65332177--65332227 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
65332167 TAATTAAATA
65332177 TATTATATTATATTGTTATACTTTC
1 TATTATATTATA-TGTTATACTTTC
*
65332202 TATTGATATTATA-GTTAGTATTTTC
1 TATT-ATATTATATGTTA-TACTTTC
65332227 T
1 T
65332228 GTTTTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (24 bp):
TATTATATTATATGTTATACTTTC
Found at i:65335402 original size:25 final size:25
Alignment explanation
Indices: 65335373--65335431 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
65335363 TCGGGCTTTG
*
65335373 AACCCAATACTTTATAATTTGAGCC
1 AACCCAATACTTTATAATTTGAGCA
65335398 AACCCAATACTTTATAATTTGAGCA
1 AACCCAATACTTTATAATTTGAGCA
65335423 AACCCAATA
1 AACCCAATA
65335432 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (25 bp):
AACCCAATACTTTATAATTTGAGCA
Found at i:65337820 original size:27 final size:27
Alignment explanation
Indices: 65337765--65337826 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
65337755 TTGGGACATT
*
65337765 AACACGGGGTAGTCCATCAGGACACTA
1 AACATGGGGTAGTCCATCAGGACACTA
* * * *
65337792 AACGTGGGGTAGTCCATCGGGATAGTA
1 AACATGGGGTAGTCCATCAGGACACTA
65337819 AACATGGG
1 AACATGGG
65337827 AATTTTGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.32, T:0.18
Consensus pattern (27 bp):
AACATGGGGTAGTCCATCAGGACACTA
Found at i:65339142 original size:46 final size:47
Alignment explanation
Indices: 65339051--65339144 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
65339041 CAAGTGTGTG
*
65339051 TAAATAATGACCTAATGCTCTCTTTATATAGAGAGAGTTTAGAGAGT
1 TAAATAATGACCCAATGCTCTCTTTATATAGAGAGAGTTTAGAGAGT
* *
65339098 TAAATAATGACCCAATGGTCTCTTT-TATAGGGAGAGTTTAGAGAGT
1 TAAATAATGACCCAATGCTCTCTTTATATAGAGAGAGTTTAGAGAGT
65339144 T
1 T
65339145 CAACTGTGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 21 0.48
47 23 0.52
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (47 bp):
TAAATAATGACCCAATGCTCTCTTTATATAGAGAGAGTTTAGAGAGT
Found at i:65339315 original size:20 final size:18
Alignment explanation
Indices: 65339268--65339359 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 18
65339258 CAAGAGAAAC
*
65339268 ATTAAATTAA-ATTTAGT
1 ATTAAATTAATATTTAAT
65339285 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
65339305 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
*
65339321 ACT--ATTAATA--TAAGT
1 ATTAAATTAATATTTAA-T
65339336 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
65339353 ATTAAAT
1 ATTAAAT
65339360 ATATTAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
14 9 0.15
15 3 0.05
16 6 0.10
17 21 0.35
18 4 0.07
19 3 0.05
20 14 0.23
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:65347050 original size:19 final size:20
Alignment explanation
Indices: 65347026--65347063 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65347016 GGTACCACCA
65347026 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
65347045 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65347064 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:65347408 original size:93 final size:93
Alignment explanation
Indices: 65347293--65347463 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65347283 GCCCCTAAGT
*
65347293 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCAGACTCAACTCA
65347357 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
65347386 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
65347451 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65347464 TCGACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65347453 original size:46 final size:46
Alignment explanation
Indices: 65347288--65347460 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
65347278 AACCCGCCCC
* * *
65347288 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
65347334 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
65347382 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
65347427 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65347461 TGCTCGACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:65350499 original size:14 final size:14
Alignment explanation
Indices: 65350474--65350501 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65350464 TATTAATCAA
65350474 TATATGATAATTTG
1 TATATGATAATTTG
65350488 TATATGATAATTTG
1 TATATGATAATTTG
65350502 GCAACTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TATATGATAATTTG
Found at i:65353405 original size:20 final size:19
Alignment explanation
Indices: 65353379--65353439 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
65353369 AATGAATTAA
65353379 ATTTAATATTAAGATAATT
1 ATTTAATATTAAGATAATT
65353398 ACTTTAATATTAA-ATTAATT
1 A-TTTAATATTAAGA-TAATT
** *
65353418 AAATAATATTAAGATAAGT
1 ATTTAATATTAAGATAATT
65353437 ATT
1 ATT
65353440 AAATTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTTAATATTAAGATAATT
Found at i:65353441 original size:12 final size:10
Alignment explanation
Indices: 65353402--65353477 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
65353392 ATAATTACTT
65353402 TAATATTAAA
1 TAATATTAAA
*
65353412 TTA-ATTAAA
1 TAATATTAAA
65353421 TAATATTAAGA
1 TAATATTAA-A
65353432 TAAGTATTAAA
1 TAA-TATTAAA
65353443 TTAA-ATT---
1 -TAATATTAAA
65353450 TAATATTAAA
1 TAATATTAAA
*
65353460 T-ATTTTAAAA
1 TAATATT-AAA
65353470 TAATATTA
1 TAATATTA
65353478 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 20
0.68 0.05 0.26
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
9 12 0.23
10 16 0.31
11 9 0.17
12 9 0.17
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (10 bp):
TAATATTAAA
Found at i:65353458 original size:39 final size:36
Alignment explanation
Indices: 65353373--65353477 Score: 97
Period size: 39 Copynumber: 2.7 Consensus size: 36
65353363 GTAAATAATG
65353373 AATTAAATTTAATATTAAGATAATTACTTTAATATTAAATT
1 AATTAAA--TAATATTAAGATAA-TA--TTAATATTAAATT
65353414 AATTAAATAATATTAAGATAAGTATTAA-ATTAAATTT
1 AATTAAATAATATTAAGATAA-TATTAATATTAAA-TT
* *
65353451 AATATTAAAT-ATTTTAAAATAATATTA
1 -A-ATTAAATAATATTAAGATAATATTA
65353478 TTTTTGGAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
36 6 0.10
37 11 0.19
38 11 0.19
39 23 0.40
41 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (36 bp):
AATTAAATAATATTAAGATAATATTAATATTAAATT
Found at i:65353874 original size:9 final size:9
Alignment explanation
Indices: 65353860--65353889 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
65353850 AAAATATCAT
65353860 ATTAATTTA
1 ATTAATTTA
*
65353869 ATTAATTTG
1 ATTAATTTA
65353878 ATTAATTTA
1 ATTAATTTA
65353887 ATT
1 ATT
65353890 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:65356007 original size:24 final size:24
Alignment explanation
Indices: 65355975--65356061 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
65355965 AATCTCAAAT
65355975 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
65355999 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
*
65356023 GCACTACGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
65356047 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
65356062 ACATAATAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:65356027 original size:48 final size:48
Alignment explanation
Indices: 65355975--65356083 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
65355965 AATCTCAAAT
** *
65355975 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
*
65356023 GCACTACGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
65356071 GCACTATGTGTGC
1 GCACTATGTGTGC
65356084 AACGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:65369264 original size:27 final size:28
Alignment explanation
Indices: 65369208--65369277 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
65369198 AAACTTGTAC
65369208 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65369236 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65369263 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65369278 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65369288 original size:27 final size:27
Alignment explanation
Indices: 65369208--65369289 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
65369198 AAACTTGTAC
* *
65369208 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
65369236 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
65369263 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65369290 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65374663 original size:94 final size:94
Alignment explanation
Indices: 65374502--65374685 Score: 350
Period size: 94 Copynumber: 2.0 Consensus size: 94
65374492 AATGTATCAG
*
65374502 TCTGCCAATGAATACATCTTTGTCTCTATATGTGAAGTCAACTACTTTGATAGCCAAGACTAGTC
1 TCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACTAGTC
65374567 ATCCCCTCAATTTGTTTTGTAGAAGTCAT
66 ATCCCCTCAATTTGTTTTGTAGAAGTCAT
65374596 TCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACTAGTC
1 TCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACTAGTC
*
65374661 ATCTCCTCAATTTGTTTTGTAGAAG
66 ATCCCCTCAATTTGTTTTGTAGAAG
65374686 ACATAATAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (94 bp):
TCTGCCAATGAATACATCTTTGTCTCTACATGTGAAGTCAACTACTTTGATAGCCAAGACTAGTC
ATCCCCTCAATTTGTTTTGTAGAAGTCAT
Found at i:65381537 original size:20 final size:20
Alignment explanation
Indices: 65381512--65381551 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65381502 TATGGCGGAT
*
65381512 AATTCTTCTCATGAGGTTTC
1 AATTCTCCTCATGAGGTTTC
* *
65381532 AATTCTCCTCTTGTGGTTTC
1 AATTCTCCTCATGAGGTTTC
65381552 TCATCTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (20 bp):
AATTCTCCTCATGAGGTTTC
Found at i:65386328 original size:50 final size:50
Alignment explanation
Indices: 65386261--65386416 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
65386251 AAAGGGTCCA
* * * *
65386261 TGAACTGTCTATCCAAAGTATGTACGTGCTAG-TTATTTATGTTCTATGTG
1 TGAACTGTCTATACAAAGTATGTACATG-TAGATTATATAAGTTCTATGTG
* * *
65386311 TGAATTGTCTATACAAAGTATGTGCATGTTGATTATATAAGTTCTATGTG
1 TGAACTGTCTATACAAAGTATGTACATGTAGATTATATAAGTTCTATGTG
* *** *
65386361 TGAACTGTCTATAAAAAGTATGTGTGTGATA-ATTATATAAGTTATATGTG
1 TGAACTGTCTATACAAAGTATGTACATG-TAGATTATATAAGTTCTATGTG
65386411 TGAACT
1 TGAACT
65386417 AGTACTGCAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 88 0.97
51 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (50 bp):
TGAACTGTCTATACAAAGTATGTACATGTAGATTATATAAGTTCTATGTG
Found at i:65388179 original size:40 final size:39
Alignment explanation
Indices: 65388135--65388260 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
65388125 GGGACTCAAC
*
65388135 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
65388175 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
65388215 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
65388255 CCGGAT
1 CCGGAT
65388261 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:65392983 original size:43 final size:43
Alignment explanation
Indices: 65392922--65393079 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
65392912 CAATGTCATA
* ** *
65392922 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTG
1 TCCCAGATATGGTCTTACACGAAATCACAATA-CGATGCCAATG
* *
65392965 TCCCAGATAGGGTCTTACACGAAATCATAATACGATGCCAATG
1 TCCCAGATATGGTCTTACACGAAATCACAATACGATGCCAATG
* ** * *
65393008 TCCCAGACATGGTCTTACAC-ATAATCTTAATACAATTCCAATG
1 TCCCAGATATGGTCTTACACGA-AATCACAATACGATGCCAATG
* * * *
65393051 TACCAGACATGGTCTTACATGTAATCACA
1 TCCCAGATATGGTCTTACACGAAATCACA
65393080 TCTCGATAAC
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 92 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACACGAAATCACAATACGATGCCAATG
Found at i:65395923 original size:3 final size:3
Alignment explanation
Indices: 65395915--65395984 Score: 106
Period size: 3 Copynumber: 23.3 Consensus size: 3
65395905 AAACAGATAT
* *
65395915 TTA TTA TTA TAA TTA TTAA TTA TTA TTT TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
65395960 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
65395985 GGAATAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65396135 original size:20 final size:21
Alignment explanation
Indices: 65396096--65396135 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
65396086 TAAAGATATT
* *
65396096 TATAAATATTAATTAATTAAA
1 TATAAATATAAATAAATTAAA
65396117 TATAAA-ATAAATAAATTAA
1 TATAAATATAAATAAATTAA
65396136 TTTGTGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAAATATAAATAAATTAAA
Found at i:65403423 original size:40 final size:40
Alignment explanation
Indices: 65403378--65403544 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65403368 CGGAATATAA
65403378 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
65403418 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
65403458 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65403498 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65403537 CCGGATAT
1 CCGGATAT
65403545 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65403528 original size:80 final size:79
Alignment explanation
Indices: 65403394--65403542 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
65403384 ATAATCACGT
*
65403394 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGG-CTTAGCC
65403459 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
65403474 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGCTTAGC
65403537 CCGGAT
64 CCGGAT
65403543 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:65410960 original size:40 final size:40
Alignment explanation
Indices: 65410915--65411081 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65410905 CGGAATATAA
65410915 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
65410955 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
65410994 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65411034 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
65411074 CCGGATAT
1 CCGGATAT
65411082 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65410979 original size:39 final size:40
Alignment explanation
Indices: 65410931--65411040 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
65410921 ATAATCACGT
* *
65410931 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
65410970 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
65411010 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
65411041 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:65414109 original size:40 final size:40
Alignment explanation
Indices: 65414054--65414217 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
65414044 TGAATGATAC
* * *
65414054 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
65414094 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
65414134 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
65414174 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
65414214 CCGG
1 CCGG
65414218 TTGAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:65420139 original size:80 final size:80
Alignment explanation
Indices: 65420055--65420203 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
65420045 TATGGTAACC
* * * *
65420055 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
65420119 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
65420135 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
65420200 CCGG
66 CCGG
65420204 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:65420145 original size:40 final size:38
Alignment explanation
Indices: 65420096--65420203 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
65420086 ATCACGATTT
*
65420096 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
65420136 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
65420176 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
65420204 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:65428254 original size:80 final size:80
Alignment explanation
Indices: 65428170--65428318 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
65428160 TATGGTAACC
* * * *
65428170 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
65428234 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
65428250 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
65428315 CCGG
66 CCGG
65428319 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:65428260 original size:40 final size:38
Alignment explanation
Indices: 65428211--65428318 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
65428201 ATCACGATTT
*
65428211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
65428251 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
65428291 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
65428319 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:65431313 original size:10 final size:10
Alignment explanation
Indices: 65431298--65431325 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
65431288 AGGATTTAAT
65431298 TTTAATTATC
1 TTTAATTATC
65431308 TTTAATTATC
1 TTTAATTATC
65431318 TTTAATTA
1 TTTAATTA
65431326 ATTGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATTATC
Found at i:65435007 original size:46 final size:44
Alignment explanation
Indices: 65434954--65435107 Score: 126
Period size: 46 Copynumber: 3.5 Consensus size: 44
65434944 TTTGTGTGCT
65434954 AGTGTAAGACATGTCTGGGACATACATTGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-CATTGGCC-TATTATGAGAGCC
* *
65435000 AGTGTAAGACCATGTCT-GG-CATCA---G--TATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATCATTGGCCTATT---ATGAGAGCC
**
65435041 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACAT-CATTGGCCT-ATTATG-AGAGCC
*
65435087 AGTATAAGACATGTCTGGGAC
1 AGTGTAAGACATGTCTGGGAC
65435108 GTGCATCGGC
Statistics
Matches: 87, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
38 4 0.05
40 7 0.08
41 19 0.22
42 3 0.03
43 2 0.02
44 2 0.02
45 3 0.03
46 37 0.43
47 8 0.09
48 1 0.01
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATCATTGGCCTATTATGAGAGCC
Found at i:65435113 original size:46 final size:45
Alignment explanation
Indices: 65435045--65435163 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 45
65435035 AGAGCTAGTG
65435045 TAAGACATGTCTGGGACATGCATTGGCCT-CAAGATGTAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATTGGCCTACAAGATGT--GCCAGTA
* * * *
65435091 TAAGACATGTCTGGGACGTGCATCGG-CTACATGATGTGTCAGTA
1 TAAGACATGTCTGGGACATGCATTGGCCTACAAGATGTGCCAGTA
65435135 TAAGACCATGTCTGGGACATGGCATTGGC
1 TAAGA-CATGTCTGGGACAT-GCATTGGC
65435164 AAAGATACAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 11 0.17
45 15 0.24
46 37 0.59
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATTGGCCTACAAGATGTGCCAGTA
Found at i:65436027 original size:20 final size:20
Alignment explanation
Indices: 65436002--65436042 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
65435992 TAGACACACG
65436002 GGCGTG-TGTCTAGGCCGTGT
1 GGCGTGTTGTC-AGGCCGTGT
*
65436022 GGCGTGTTGTCCGGCCGTGT
1 GGCGTGTTGTCAGGCCGTGT
65436042 G
1 G
65436043 CCCTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.22, G:0.46, T:0.29
Consensus pattern (20 bp):
GGCGTGTTGTCAGGCCGTGT
Found at i:65437123 original size:27 final size:27
Alignment explanation
Indices: 65437081--65437339 Score: 120
Period size: 27 Copynumber: 9.6 Consensus size: 27
65437071 TTAGTTTACC
**
65437081 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCAAAATACCCCCAGTTTGTA
* *
65437107 AAATTACCAAAAGTACCCCCGGTTTATA
1 AAATTACCAAAA-TACCCCCAGTTTGTA
* ** *
65437135 AAATTA-CAGAAATATCATC-GATTGTA
1 AAATTACCA-AAATACCCCCAGTTTGTA
** *
65437161 AAATTACTGAAATACCCTC-GATTTGTA
1 AAATTACCAAAATACCCCCAG-TTTGTA
* * *
65437188 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCCCAGTTTGTA
** *
65437215 AAATTATTAAAATACCCTC-GATTTGTA
1 AAATTACCAAAATACCCCCAG-TTTGTA
** * *** *
65437242 AAATTACTGAAATA-TCATTGACTTGTA
1 AAATTACCAAAATACCCCCAG-TTTGTA
* * *
65437269 AAATTACCAAAGTACCCTC-GATTTATA
1 AAATTACCAAAATACCCCCAG-TTTGTA
* * *
65437296 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCAAAATACCCCCAG-TTTGTA
*
65437323 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
65437340 TTATATGGTA
Statistics
Matches: 184, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
26 32 0.17
27 137 0.74
28 15 0.08
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCAGTTTGTA
Found at i:65437252 original size:81 final size:80
Alignment explanation
Indices: 65437081--65437366 Score: 305
Period size: 81 Copynumber: 3.6 Consensus size: 80
65437071 TTAGTTTACC
* * * *
65437081 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAAGTACCCCCGGTTTATAAAATTACAGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAGTACCCTC-GTTTATAAAATTACA-A
*
65437145 AATATCATCGA-TTGTA
64 AATATCCTCGATTTGTA
** *
65437161 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCAGTTTGCAAAATTATTAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAGTACCCTC-GTTTATAAAATTA-CAA
*
65437225 AATACCCTCGATTTGTA
64 AATATCCTCGATTTGTA
* * * * *
65437242 AAATTACTGAAATATCATTGACTTGTAAAATTACC-AAAGTACCCTCGATTTATAAAATTACCCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAGTACCCTCG-TTTATAAAATTA-CAA
65437306 AATATCCTCGATTTGTA
64 AATATCCTCGATTTGTA
* * * *
65437323 AAATTACCGAAATACCCT-TATATGGTAGAATTACCGAAA-TACCC
1 AAATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAAGTACCC
65437367 CTGTAGGGTA
Statistics
Matches: 172, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 49 0.28
81 120 0.70
82 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAAGTACCCTCGTTTATAAAATTACAAAA
TATCCTCGATTTGTA
Found at i:65437354 original size:27 final size:27
Alignment explanation
Indices: 65437324--65437734 Score: 556
Period size: 27 Copynumber: 15.3 Consensus size: 27
65437314 CGATTTGTAA
* * *
65437324 AATTACCGAAATACCCTTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
65437351 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
65437378 AATTACTGAAATACCCCTGTAGGATAT
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65437405 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65437432 AGTTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * *
65437459 AATTTCCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65437486 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65437513 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65437540 AATTACCAAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65437567 AATTACTGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65437594 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
65437621 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
65437648 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
65437675 AATTACTAAAATACCGCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
65437702 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
65437728 AATTACC
1 AATTACC
65437735 ATTTTGCCCA
Statistics
Matches: 337, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.04
27 322 0.96
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:65437355 original size:54 final size:54
Alignment explanation
Indices: 65437102--65437363 Score: 271
Period size: 54 Copynumber: 4.9 Consensus size: 54
65437092 ATACCCCCAG
* * * * *
65437102 TTGTAAAATTACCAAAAGTACCCCCGGTTTATAAAATTACAGAAATATCATCGA-
1 TTGTAAAATTACCGAAA-TACCCTCGATTTGTAAAATTACCGAAATATCATCGAT
* * *
65437156 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-AGT
1 TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATATCATCGA-T
* *** * * *
65437210 TTGCAAAATTATTAAAATACCCTCGATTTGTAAAATTACTGAAATATCATTGAC
1 TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATATCATCGAT
* * *
65437264 TTGTAAAATTACC-AAAGTACCCTCGATTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCGAAA-TACCCTCGATTTGTAAAATTACCGAAATATCATCGAT
* * *
65437318 TTGTAAAATTACCGAAATACCCT-TATATGGTAGAATTACCGAAATA
1 TTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCGAAATA
65437364 CCCCTGTAGG
Statistics
Matches: 172, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 33 0.19
54 134 0.78
55 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATATCATCGAT
Found at i:65438187 original size:31 final size:31
Alignment explanation
Indices: 65438150--65438222 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
65438140 ATATTCTGAT
* * *
65438150 TTTTGATTCTGTTGCCTGATACTGATTTTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTAA
65438181 TTTTGATTCTGTTACCTGATACTGATTCTAA
1 TTTTGATTCTGTTACCTGATACTGATTCTAA
65438212 TTTTGATTCTG
1 TTTTGATTCTG
65438223 ATTCTGTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTAA
Found at i:65438220 original size:12 final size:12
Alignment explanation
Indices: 65438203--65438267 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
65438193 TACCTGATAC
65438203 TGATTCTAATTT
1 TGATTCTAATTT
* *
65438215 TGATTCTGATTC
1 TGATTCTAATTT
*
65438227 TG-TCACCTAATTT
1 TGAT--TCTAATTT
* *
65438240 TGATTCTGATTC
1 TGATTCTAATTT
*
65438252 TGATTCTAGTTT
1 TGATTCTAATTT
65438264 TGAT
1 TGAT
65438268 AATGTTTCTT
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
11 1 0.03
12 30 0.77
13 7 0.18
14 1 0.03
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (12 bp):
TGATTCTAATTT
Found at i:65438224 original size:6 final size:6
Alignment explanation
Indices: 65438142--65438258 Score: 60
Period size: 6 Copynumber: 18.8 Consensus size: 6
65438132 TTGCATTCAT
* * * *
65438142 ATTCTG ATTTTTG ATTCTG -TTGCCTG ATACTG ATTTTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
65438192 -TTACCTG ATACTG ATTCTA ATTTTG ATTCTG ATTCTG -TCACCTA ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
65438242 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
65438259 AGTTTTGATA
Statistics
Matches: 83, Mismatches: 18, Indels: 20
0.69 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 62 0.75
7 13 0.16
8 3 0.04
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:65438244 original size:37 final size:37
Alignment explanation
Indices: 65438165--65438258 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
65438155 ATTCTGTTGC
* * * * *
65438165 CTGATACTGATTTTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTAATTTTGATTCTGATTCTGTCACCTAATA
*
65438202 CTGATTCTAATTTTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTAATTTTGATTCTGATTCTGTCACCTAATA
* * *
65438239 TTGATTCTGATTCTGATTCT
1 CTGATTCTAATTTTGATTCT
65438259 AGTTTTGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (37 bp):
CTGATTCTAATTTTGATTCTGATTCTGTCACCTAATA
Found at i:65442424 original size:40 final size:40
Alignment explanation
Indices: 65442339--65442489 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
65442329 AATTGAATGA
* * * **
65442339 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
65442379 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
65442420 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
65442459 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
65442490 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:65442503 original size:40 final size:40
Alignment explanation
Indices: 65442379--65442505 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
65442369 CTGGAAATTT
* * * * *
65442379 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
65442419 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
65442459 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
65442499 TATCCGG
1 TATCCGG
65442506 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:65447226 original size:41 final size:42
Alignment explanation
Indices: 65447181--65447330 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 42
65447171 CGGCACGAAG
* * *
65447181 CCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATTTCT
1 CCTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTTCT
* **
65447222 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATT-TCT
* * * ** * **
65447265 CCTGCTAGGCCTGAAGCCCGATATTATCCCACCGGCAATATAG
1 CCTGCTAGACTTGAAGCCCGATATCATTTCACCGGC-ATTTCT
* *
65447308 CCTGCTAGGCCTGAAGCCCGATA
1 CCTGCTAGACTTGAAGCCCGATA
65447331 ATATTATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 20 0.21
42 13 0.14
43 59 0.63
44 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (42 bp):
CCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTTCT
Found at i:65447280 original size:43 final size:43
Alignment explanation
Indices: 65447207--65447330 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
65447197 TCTGAACTCA
** *
65447207 TTCACCGGCATT-TCTCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
*
65447249 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
** *
65447292 CCCACCGGCAATATAGCCTGCTAGGCCTGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
65447331 ATATTATTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 12 0.16
43 62 0.84
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
Found at i:65449285 original size:14 final size:15
Alignment explanation
Indices: 65449256--65449285 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65449246 CAAAATTTAG
65449256 ACATGATACTTTCAC
1 ACATGATACTTTCAC
65449271 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
65449285 A
1 A
65449286 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:65453748 original size:40 final size:40
Alignment explanation
Indices: 65453663--65453753 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
65453653 CTTTTATCAA
** * *
65453663 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATAAAGCCTGCTAGGATTTAAACCCGAACTC
** *
65453703 ATCACCGGCATAAAGCCTGCTA-GATTTAAGTCTGAACTC
1 ATCACCGGCATAAAGCCTGCTAGGATTTAAACCCGAACTC
65453742 ATTCACCGGCAT
1 A-TCACCGGCAT
65453754 TTCACCTGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 13 0.30
40 30 0.70
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (40 bp):
ATCACCGGCATAAAGCCTGCTAGGATTTAAACCCGAACTC
Found at i:65453796 original size:42 final size:43
Alignment explanation
Indices: 65453758--65453913 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
65453748 CGGCATTTCA
*
65453758 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCAGCATTATAG
1 CCTGCTAGGCCTGAAGCCCGATATCATTTCACCAGCATTATAG
* * ** * *
65453801 CCTGCTATGCCTGAAGCCCGATATTATCCCACCGGCAATATAG
1 CCTGCTAGGCCTGAAGCCCGATATCATTTCACCAGCATTATAG
* * *
65453844 CCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAG-TTTAAAG
1 CCTGCTAGGCCTGAAGCCCGAT-ATCA-T-TTCACCAGCATTATAG
* *
65453888 CTTGCTAGGCC-GAGGCCCGAATATCA
1 CCTGCTAGGCCTGAAGCCCG-ATATCA
65453914 CATTTCGATA
Statistics
Matches: 91, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
43 66 0.73
44 20 0.22
45 5 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
CCTGCTAGGCCTGAAGCCCGATATCATTTCACCAGCATTATAG
Found at i:65458814 original size:44 final size:44
Alignment explanation
Indices: 65458684--65458827 Score: 152
Period size: 44 Copynumber: 3.3 Consensus size: 44
65458674 GACGTCCCGA
* *
65458684 ACATGGTCTTACATGT-AAT-TCAGTATCGACGCCTCTGTCCCAG
1 ACATGGTCTTACACGTAAATCTCA-TATCGACGCCTATGTCCCAG
* * ** *
65458727 ACAGGGTCTTACAC-AAAATCAGATAT-GATGCCTATGTCCCAG
1 ACATGGTCTTACACGTAAATCTCATATCGACGCCTATGTCCCAG
* * *
65458769 ACATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAG
1 ACATGGTCTTACACGTAAATCTCATATCGACGCCTATGTCCCAG
*
65458813 ACACGGTCTTACACG
1 ACATGGTCTTACACG
65458828 ATAGCTCAGA
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 29 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
ACATGGTCTTACACGTAAATCTCATATCGACGCCTATGTCCCAG
Found at i:65471672 original size:47 final size:46
Alignment explanation
Indices: 65471605--65471733 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 46
65471595 TTATGTGCCT
65471605 GTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TACGAGAGCCA
1 GTGTAAGACATGTCT-GGACATGCATCGGCCACATATACGAGAGCCA
* *
65471651 GTGTAAGACCATGTCTAGGACATGGCATCGG-CA-TTGATACGAGAGCTA
1 GTGTAAGA-CATGTCT-GGACAT-GCATCGGCCACAT-ATACGAGAGCCA
*
65471699 GTGTAAGACATGTCTGAGACATGCATCGGCTACAT
1 GTGTAAGACATGTCTG-GACATGCATCGGCCACAT
65471734 GATGTGTCAG
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
46 17 0.24
47 28 0.39
48 26 0.37
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGACATGCATCGGCCACATATACGAGAGCCA
Found at i:65471783 original size:92 final size:94
Alignment explanation
Indices: 65471605--65471809 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 94
65471595 TTATGTGCCT
* *
65471605 GTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTAGG
1 GTGTAAGACATGTCTGAGACATGCATCGGCCACATTA-GAGAGCCAGTATAAGACCATGTCTAGG
* *
65471670 ACATGGCATCGGCATTGATACG-AGAG-CTA
65 ACATGGCATCAGCATGGATACGAAGAGTC-A
* * * * *
65471699 GTGTAAGACATGTCTGAGACATGCATCGGCTACA-T-GATGTGTCAGTATAAGACCATGTTTGGG
1 GTGTAAGACATGTCTGAGACATGCATCGGCCACATTAGA-GAGCCAGTATAAGACCATGTCTAGG
65471762 ACATGGCATCAGCATGGATACGTAAGAGTCA
65 ACATGGCATCAGCATGGATACG-AAGAGTCA
65471793 GTGTAAGACCATGTCTG
1 GTGTAAGA-CATGTCTG
65471810 GGATATGACG
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 40 0.41
93 1 0.01
94 45 0.46
95 9 0.09
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GTGTAAGACATGTCTGAGACATGCATCGGCCACATTAGAGAGCCAGTATAAGACCATGTCTAGGA
CATGGCATCAGCATGGATACGAAGAGTCA
Found at i:65472354 original size:31 final size:31
Alignment explanation
Indices: 65472316--65472378 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
65472306 TTGAGTTTTG
65472316 TGTCATTGTTAATTGGCCAAATGTGTTGGCT
1 TGTCATTGTTAATTGGCCAAATGTGTTGGCT
65472347 TGTCATTGTTAATTGGCCAAATGTGTTGGCT
1 TGTCATTGTTAATTGGCCAAATGTGTTGGCT
65472378 T
1 T
65472379 ACTCTAGCAT
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:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (31 bp):
TGTCATTGTTAATTGGCCAAATGTGTTGGCT
Found at i:65473483 original size:25 final size:24
Alignment explanation
Indices: 65473446--65473587 Score: 133
Period size: 25 Copynumber: 5.8 Consensus size: 24
65473436 TCTCAATAAA
* * *
65473446 TGGCTTTCTTGAGCTTCCCGTTGTT
1 TGGCTCTCATGAGCTTCCCGTT-AT
* *
65473471 TGGCTCTGATGAGCTTCCCGATAAT
1 TGGCTCTCATGAGCTTCCCG-TTAT
*
65473496 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCTCATGAGCTTCCCG-TTAT
*
65473521 TGGCTCTCCA-GAGCTTCCCGATAT
1 TGGCTCT-CATGAGCTTCCCGTTAT
* *
65473545 TGGCTCGCATGAGCTTCCCGTTACA
1 TGGCTCTCATGAGCTTCCCGTTA-T
* *
65473570 TGACTCACATGAGCTTCC
1 TGGCTCTCATGAGCTTCC
65473588 TATTTCATGG
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.02
24 20 0.20
25 73 0.74
26 3 0.03
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGTTAT
Found at i:65473500 original size:50 final size:49
Alignment explanation
Indices: 65473441--65473567 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 49
65473431 AAGCATCTCA
* * * ** *
65473441 ATAAATGGCTTTCTTGAGCTTCCCGTTGTTTGGCTCT-GATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCGTT-AATGGCTCTCCA-GAGCTTCCCG
65473491 ATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCCAGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG-TTAATGGCTCTCCAGAGCTTCCCG
*
65473541 AT-ATTGGCTCGCATGAGCTTCCCGTTA
1 ATAATTGGCTCTCATGAGCTTCCCGTTA
65473568 CATGACTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 3 0.04
49 21 0.31
50 41 0.60
51 3 0.04
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (49 bp):
ATAATTGGCTCTCATGAGCTTCCCGTTAATGGCTCTCCAGAGCTTCCCG
Found at i:65473584 original size:49 final size:51
Alignment explanation
Indices: 65473479--65473587 Score: 154
Period size: 49 Copynumber: 2.2 Consensus size: 51
65473469 TTTGGCTCTG
* * *
65473479 ATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCC
1 ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
65473530 A-GAGCTTCCCGAT-ATTGGCTCGCATGAGCTTCCCG-TTACATGACTC-AC
1 ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTA-ATGACTCTAC
65473578 ATGAGCTTCC
1 ATGAGCTTCC
65473588 TATTTCATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 5 0.09
49 35 0.66
50 12 0.23
51 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.29
Consensus pattern (51 bp):
ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
Found at i:65473596 original size:25 final size:25
Alignment explanation
Indices: 65473552--65473601 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65473542 TATTGGCTCG
*
65473552 CATGAGCTTCCCGTTACATGACTCA
1 CATGAGCTTCCCATTACATGACTCA
* * *
65473577 CATGAGCTTCCTATTTCATGGCTCA
1 CATGAGCTTCCCATTACATGACTCA
65473602 AAAAAGCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (25 bp):
CATGAGCTTCCCATTACATGACTCA
Found at i:65475655 original size:40 final size:40
Alignment explanation
Indices: 65475611--65475701 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
65475601 ATTGAGTTGT
*
65475611 TGGACTTTCTTAAACTCATCTTAGTTAATTATTGATTTCC
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
** *
65475651 TGGACTTTATTTTACTCATCTTAGTTAATTATTGATTTGC
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
*
65475691 TAGACTTTATT
1 TGGACTTTATT
65475702 TTTATTAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (40 bp):
TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
Found at i:65475702 original size:40 final size:40
Alignment explanation
Indices: 65475624--65475703 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
65475614 ACTTTCTTAA
*
65475624 ACTCATCTTAGTTAATTATTGATTTCCTGGACTTTATTTT
1 ACTCATCTTAGTTAATTATTGATTTCCTAGACTTTATTTT
*
65475664 ACTCATCTTAGTTAATTATTGATTTGCTAGACTTTATTTT
1 ACTCATCTTAGTTAATTATTGATTTCCTAGACTTTATTTT
65475704 TATTAAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.53
Consensus pattern (40 bp):
ACTCATCTTAGTTAATTATTGATTTCCTAGACTTTATTTT
Found at i:65477757 original size:22 final size:22
Alignment explanation
Indices: 65477723--65477766 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
65477713 AAAATAACAA
* *
65477723 AAATTCATCAAAAATAATTATG
1 AAATTAATCAAAAATAAATATG
* *
65477745 AAATTAATTAAAATTAAATATG
1 AAATTAATCAAAAATAAATATG
65477767 TTCATATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATTAATCAAAAATAAATATG
Found at i:65480112 original size:40 final size:40
Alignment explanation
Indices: 65480064--65480271 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
65480054 TCTTCGGAAT
* * *
65480064 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGAGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
65480103 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * * *
65480143 TTAGCCCGGATATGACAACTCGCACGAATACCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
65480183 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * * *
65480223 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCAGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
65480263 TTAGCCCGG
1 TTAGCCCGG
65480272 GTATCATTCA
Statistics
Matches: 139, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 5 0.04
40 132 0.95
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:65491191 original size:25 final size:25
Alignment explanation
Indices: 65491163--65491242 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
65491153 GCTCTCTTGG
*
65491163 GCTTCCTGTTATTTGGCTCTTACGA
1 GCTTCCTGTTATTTGGCTCTTATGA
* * * *
65491188 GCTTCCCGATAATTGGCTCTCATGA
1 GCTTCCTGTTATTTGGCTCTTATGA
**
65491213 GCTTCCTGTT-TACGGCTCTTATGA
1 GCTTCCTGTTATTTGGCTCTTATGA
65491237 GCTTCC
1 GCTTCC
65491243 CATTACATGG
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
24 16 0.36
25 28 0.64
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.39
Consensus pattern (25 bp):
GCTTCCTGTTATTTGGCTCTTATGA
Found at i:65491254 original size:49 final size:48
Alignment explanation
Indices: 65491131--65491267 Score: 141
Period size: 49 Copynumber: 2.8 Consensus size: 48
65491121 TTATTGAGAG
** * * **
65491131 CTTATGAGAATCCCAATATATGGCTCTCTTGGGCTTCCTGTTATTTGGCT
1 CTTATGAGCTTCCC-ATA-ATGGCTCTCATGAGCTTCCTGTTATACGGCT
*
65491181 CTTACGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCTGTT-TACGGCT
1 CTTATGAGCTTCCC-ATAA-TGGCTCTCATGAGCTTCCTGTTATACGGCT
*
65491230 CTTATGAGCTTCCCATTACATGGCTCACATGAGCTTCC
1 CTTATGAGCTTCCCA-TA-ATGGCTCTCATGAGCTTCC
65491268 CCTTTCATGG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.51
50 35 0.47
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (48 bp):
CTTATGAGCTTCCCATAATGGCTCTCATGAGCTTCCTGTTATACGGCT
Found at i:65492451 original size:461 final size:464
Alignment explanation
Indices: 65491618--65492541 Score: 1712
Period size: 461 Copynumber: 2.0 Consensus size: 464
65491608 AGGGCTTTTA
65491618 GCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAATTC
1 GCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAATTC
*
65491683 CATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGTAA
66 CATGTTATACAAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGTAA
*
65491748 CTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTTCCATTTCG
131 CTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTTCG
65491813 GTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACATA
196 GTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACATA
*
65491878 TAAATATTTTGTTAATATTAGCCATTTGTTTGGCTTTTATATGGTATGTATATATATATGGCCTT
261 TAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCCTT
65491943 GTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATA-G-GT-TGATATGTTATG
326 GTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTGTATGATATGTTATG
65492005 TTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATGTGTTA
391 TTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATGTGTTA
65492070 ATATATATG
456 ATATATATG
*
65492079 GCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAATGGTAAGTTAAATTC
1 GCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAATTC
65492144 CATGTTATACAAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGTAA
66 CATGTTATACAAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGTAA
*
65492209 CTTGGAAGCTCGTTAAGGTTGGAATCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTTCG
131 CTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTTCG
*
65492274 GTATATATAGTAAATTATTTTGATTATAATGGCATGTATAGGCTAAATTGGCCTA-TGCTGACAT
196 GTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCC-ACTGCTGACAT
65492338 ATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCCT
260 ATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCCT
*
65492403 TGTTATGGTTTATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATGT
325 TGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGG--TGT-ATGATATGT
*
65492468 TATGTTTAGGACATGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATGT
387 TATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATGT
65492533 GTTAATATA
452 GTTAATATA
65492542 GGTGGAAGGA
Statistics
Matches: 448, Mismatches: 8, Indels: 8
0.97 0.02 0.02
Matches are distributed among these distances:
461 363 0.81
462 2 0.00
465 2 0.00
467 81 0.18
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (464 bp):
GCCAATTTGATTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACGGTAAGTTAAATTC
CATGTTATACAAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGTAA
CTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTTCG
GTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACATA
TAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCCTT
GTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTGTATGATATGTTATG
TTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATGTGTTA
ATATATATG
Found at i:65495432 original size:9 final size:9
Alignment explanation
Indices: 65495408--65495448 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
65495398 GATGAAGAGA
65495408 AAAGAAAAG
1 AAAGAAAAG
65495417 AAAAGAAAAG
1 -AAAGAAAAG
65495427 AAAGAAAAG
1 AAAGAAAAG
65495436 -AAGAAGAAG
1 AAAGAA-AAG
65495445 AAAG
1 AAAG
65495449 GAAGTAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.17
9 12 0.41
10 12 0.41
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:65495437 original size:52 final size:55
Alignment explanation
Indices: 65495378--65495482 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 55
65495368 GGCTATGGAG
*
65495378 GAAAAGAAGAAG-AG-A-AAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAA
1 GAAAAGAAGAAGAAGAAGAAGTAAATGAAGAGAAAAGAAAAGAAAAGAAAAGAAA
**
65495430 GAAAAGAAGAAGAAGAAAGGAAGTAAATGAAGAGAGGAGAAAAGAAAAGAAAA
1 GAAAAGAAGAAGAAG-AA-GAAGTAAATGAAGAGAAAAGAAAAGAAAAGAAAA
65495483 TAAAATAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
52 12 0.27
53 2 0.04
55 1 0.02
57 30 0.67
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.04
Consensus pattern (55 bp):
GAAAAGAAGAAGAAGAAGAAGTAAATGAAGAGAAAAGAAAAGAAAAGAAAAGAAA
Found at i:65495452 original size:14 final size:14
Alignment explanation
Indices: 65495378--65495452 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
65495368 GGCTATGGAG
65495378 GAAAAGAAGAAG-A
1 GAAAAGAAGAAGAA
* *
65495391 G-AAAGTAGATGAA
1 GAAAAGAAGAAGAA
*
65495404 GAGAA-AAGAA-AA
1 GAAAAGAAGAAGAA
65495416 GAAAAGAA-AAGAAA
1 GAAAAGAAGAAG-AA
65495430 GAAAAGAAGAAGAA
1 GAAAAGAAGAAGAA
*
65495444 GAAAGGAAG
1 GAAAAGAAG
65495453 TAAATGAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
12 16 0.33
13 8 0.16
14 22 0.45
15 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (14 bp):
GAAAAGAAGAAGAA
Found at i:65495490 original size:5 final size:5
Alignment explanation
Indices: 65495405--65495443 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
65495395 GTAGATGAAG
65495405 AGAAA AGAAA AGAAA AGAAA AG-AA AGAAA AGAAGA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA
65495444 GAAAGGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Done.