Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 173 of 425
Found at i:52406249 original size:41 final size:41
Alignment explanation
Indices: 52406163--52406255 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
52406153 GGGGAAATCT
* * * * **
52406163 TTAGAAATTTTGGTAAATTCTTTAGAAATTTTAGTAAAATT
1 TTAGAAATTTTAGTAAATCCTTTAGAAAATATAGTAAAACC
*
52406204 TTAGAAATTTTAGTAAATCCTTTA-AAAATATAGATATAACC
1 TTAGAAATTTTAGTAAATCCTTTAGAAAATATAG-TAAAACC
52406245 TTAGAGAATTT
1 TTAGA-AATTT
52406256 GGTAAATGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 7 0.16
41 31 0.72
42 5 0.12
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (41 bp):
TTAGAAATTTTAGTAAATCCTTTAGAAAATATAGTAAAACC
Found at i:52406304 original size:20 final size:20
Alignment explanation
Indices: 52406279--52406318 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52406269 ATATTTTAGT
* *
52406279 ATAAATCCTTAGAATTATTG
1 ATAAATACTTAGAAATATTG
*
52406299 ATAAATATTTAGAAATATTG
1 ATAAATACTTAGAAATATTG
52406319 TTACAAACTG
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:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
ATAAATACTTAGAAATATTG
Found at i:52406315 original size:82 final size:82
Alignment explanation
Indices: 52406163--52406316 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 82
52406153 GGGGAAATCT
* *
52406163 TTAGAAATTTTGGTAAATTCTTTAGAAATTTTAGTAAAATTTTAGAAATTTTAGTAAATCCTTTA
1 TTAGAAATTTTGGTAAATTCTTTAGAAATTTTAGTAAAATCTTAGAAATTTTAGTAAATCATTTA
52406228 AAAATATAGATATAACC
66 AAAATATAGATATAACC
* *
52406245 TTAGAGAA-TTTGGTAAA-TGTTTAGATATTTTAGTATAAATCCTTAG-AATTATT-GATAAAT-
1 TTAGA-AATTTTGGTAAATTCTTTAGAAATTTTAGTA-AAAT-CTTAGAAATT-TTAG-TAAATC
*
52406305 ATTTAGAAATAT
61 ATTTAAAAATAT
52406317 TGTTACAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
81 16 0.26
82 33 0.53
83 13 0.21
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (82 bp):
TTAGAAATTTTGGTAAATTCTTTAGAAATTTTAGTAAAATCTTAGAAATTTTAGTAAATCATTTA
AAAATATAGATATAACC
Found at i:52408291 original size:17 final size:16
Alignment explanation
Indices: 52408271--52408314 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
52408261 TTTTTATAAC
52408271 TTTTTTTTATAATTTT
1 TTTTTTTTATAATTTT
**
52408287 ATTTTTTAAATAATTTT
1 -TTTTTTTTATAATTTT
52408304 TTATTTTTTAT
1 TT-TTTTTTAT
52408315 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTTATAATTTT
Found at i:52408333 original size:41 final size:41
Alignment explanation
Indices: 52408306--52408381 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
52408296 ATAATTTTTT
*
52408306 ATTTTTT-ATTTTTTATTAAGGCCTTTTTT-AATTTGATTG
1 ATTTTTTAATTTTCTATTAAGGCCTTTTTTAAATTTGATTG
52408345 ATTTTTTAAATTTTCTATTAAGGCCTTTTTT-AATTTG
1 ATTTTTT-AATTTTCTATTAAGGCCTTTTTTAAATTTG
52408382 TTATTAAGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 7 0.21
41 27 0.79
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (41 bp):
ATTTTTTAATTTTCTATTAAGGCCTTTTTTAAATTTGATTG
Found at i:52408339 original size:23 final size:23
Alignment explanation
Indices: 52408307--52408398 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 23
52408297 TAATTTTTTA
52408307 TTTTTT-ATTTTTTATTAAGGCC
1 TTTTTTAATTTTTTATTAAGGCC
* *
52408329 TTTTTTAA--TTTGATT---G-A
1 TTTTTTAATTTTTTATTAAGGCC
*
52408346 TTTTTTAAATTTTCTATTAAGGCC
1 TTTTTT-AATTTTTTATTAAGGCC
*
52408370 TTTTTTAATTTGTTATTAAGGCC
1 TTTTTTAATTTTTTATTAAGGCC
52408393 TTTTTT
1 TTTTTT
52408399 TTTTACCCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
17 6 0.11
18 3 0.05
20 5 0.09
21 6 0.11
22 6 0.11
23 23 0.42
24 6 0.11
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (23 bp):
TTTTTTAATTTTTTATTAAGGCC
Found at i:52416476 original size:24 final size:24
Alignment explanation
Indices: 52416448--52416501 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
52416438 TCAAAGAGTT
* *
52416448 ACACGGCCTGGCACATGACCTGTG
1 ACACGGCCTAGCACACGACCTGTG
*
52416472 ACACGGCCTAGCATACGACCTGTG
1 ACACGGCCTAGCACACGACCTGTG
52416496 ACACGG
1 ACACGG
52416502 TCGTCTGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.33, G:0.28, T:0.15
Consensus pattern (24 bp):
ACACGGCCTAGCACACGACCTGTG
Found at i:52417320 original size:56 final size:55
Alignment explanation
Indices: 52417253--52417401 Score: 217
Period size: 56 Copynumber: 2.7 Consensus size: 55
52417243 GTTACATATG
*
52417253 AATCAAATTGCTAAAAGATAATATTGCATAATAATATTCTATAATATCCCATTAGA
1 AATCAAATTGCTAAAA-ATAATATCGCATAATAATATTCTATAATATCCCATTAGA
* * *
52417309 AATCAAATTGCTAAGAAATAATATCGCATTATAATATTCTATAATATCTCATTAGG
1 AATCAAATTGCTAA-AAATAATATCGCATAATAATATTCTATAATATCCCATTAGA
* *
52417365 AATCAAATTGCTAAAATATAATATCCCATACTAATAT
1 AATCAAATTGCTAAAA-ATAATATCGCATAATAATAT
52417402 GCTAACATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
55 2 0.02
56 80 0.95
57 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (55 bp):
AATCAAATTGCTAAAAATAATATCGCATAATAATATTCTATAATATCCCATTAGA
Found at i:52419579 original size:2 final size:2
Alignment explanation
Indices: 52419534--52419562 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52419524 ATTTCAACAT
52419534 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52419563 TTACTTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52423070 original size:73 final size:73
Alignment explanation
Indices: 52422988--52423322 Score: 331
Period size: 73 Copynumber: 4.6 Consensus size: 73
52422978 CCGACCTTTA
* * * * * *
52422988 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAATCTTTGAAAAAGGTTAGGATAAACCCATATAA
1 AAAAAGGTTGGGATAGACCTAGTCTAAGG-CAACCCTTAAAAAAGGTTAGGATAGACTCATTTAA
52423052 GACAACCTT
65 GACAACCTT
** * *
52423061 AAAAAGGTTGGGATAGGTC-AGTCTAAGGCAACCCTTAAAAAAGGTT-GAGATCGACTCGTTTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAG-GATAGACTCATTTAA
* *
52423124 GGCAACCTC
65 GACAACCTT
* * ** * *
52423133 AAAAAGGTTGGGATAAACCTTA-TCTAAGGTAATTCTTGAAAAAGGTTGGGATAGACTCATTTAA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACTCATTTAA
*
52423197 GGCAACCTT
65 GACAACCTT
* * * *
52423206 AAAAAGGTTGGGATAGACATTGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACTCGTCTAA-
1 AAAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACTCATTTAAG
*
52423270 AGCAACCCT
66 A-CAACCTT
* * * *
52423279 AAAAAGGCTGGGATAGACCGT-GTCTAAAGCAACCTTTACAAAAG
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGGCAACCCTTAAAAAAG
52423323 TTGAGATAAA
Statistics
Matches: 215, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
71 1 0.00
72 53 0.25
73 158 0.73
74 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACTCATTTAAG
ACAACCTT
Found at i:52423107 original size:37 final size:36
Alignment explanation
Indices: 52422988--52423314 Score: 260
Period size: 35 Copynumber: 9.0 Consensus size: 36
52422978 CCGACCTTTA
*
52422988 AAAAAGGTTGGGATAGAC-CTAGTC-AAGGCCAATCTTT
1 AAAAAGGTTGGGATAGACTC-AGTCTAAGG-CAA-CCTT
* * * * *
52423025 GAAAAAGGTTAGGATAAACCCA-TATAAGACAACCTT
1 -AAAAAGGTTGGGATAGACTCAGTCTAAGGCAACCTT
*
52423061 AAAAAGGTTGGGATAG-GTCAGTCTAAGGCAACCCTT
1 AAAAAGGTTGGGATAGACTCAGTCTAAGGCAA-CCTT
* * * *
52423097 AAAAAAGGTTGAGATCGACTC-GTTTAAGGCAACCTC
1 -AAAAAGGTTGGGATAGACTCAGTCTAAGGCAACCTT
* * * *
52423133 AAAAAGGTTGGGATAAACCTTA-TCTAAGGTAATTCTT
1 AAAAAGGTTGGGATAGA-CTCAGTCTAAGGCAA-CCTT
*
52423170 GAAAAAGGTTGGGATAGACTCA-TTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACTCAGTCTAAGGCAACCTT
*
52423206 AAAAAGGTTGGGATAGACAT-TGTCTAAGGCAACCCTT
1 AAAAAGGTTGGGATAGAC-TCAGTCTAAGGCAA-CCTT
* * *
52423243 AAAAAAGGTTAGGATAGACTC-GTCTAAAGCAACCCT
1 -AAAAAGGTTGGGATAGACTCAGTCTAAGGCAACCTT
* * *
52423279 AAAAAGGCTGGGATAGAC-CGTGTCTAAAGCAACCTT
1 AAAAAGGTTGGGATAGACTC-AGTCTAAGGCAACCTT
52423315 TACAAAAGTT
Statistics
Matches: 235, Mismatches: 37, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.01
35 70 0.30
36 50 0.21
37 56 0.24
38 55 0.23
39 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACTCAGTCTAAGGCAACCTT
Found at i:52423292 original size:146 final size:145
Alignment explanation
Indices: 52423023--52423293 Score: 395
Period size: 146 Copynumber: 1.9 Consensus size: 145
52423013 AGGCCAATCT
*
52423023 TTGAAAAAGGTTAGGATAAACCCATATAAGACAACCTTAAAAAGGTTGGGATAGGTCAGTCTAAG
1 TTGAAAAAGGTTAGGATAAACCCATATAAGACAACCTTAAAAAGGTTGGGATAGGACAGTCTAAG
* * * *
52423088 GCAACCCTTAAAAAAGGTTGAGATCGACTCGTTTAAGGCAACCTCAAAAAGGTTGGGATAAACCT
66 GCAACCCTTAAAAAAGGTTGAGATAGACTCGTCTAAAGCAACCTCAAAAAGGCTGGGATAAACCT
52423153 TATCTAAGGTAATTC
131 TATCTAAGGTAATTC
* * * * *
52423168 TTGAAAAAGGTTGGGATAGACTCATTTAAGGCAACCTTAAAAAGGTTGGGATA-GACATTGTCTA
1 TTGAAAAAGGTTAGGATAAACCCATATAAGACAACCTTAAAAAGGTTGGGATAGGACA--GTCTA
52423232 AGGCAACCCTTAAAAAAGGTT-AGGATAGACTCGTCTAAAGCAACC-CTAAAAAGGCTGGGATA
64 AGGCAACCCTTAAAAAAGGTTGA-GATAGACTCGTCTAAAGCAACCTC-AAAAAGGCTGGGATA
52423294 GACCGTGTCT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
144 3 0.03
145 50 0.45
146 59 0.53
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (145 bp):
TTGAAAAAGGTTAGGATAAACCCATATAAGACAACCTTAAAAAGGTTGGGATAGGACAGTCTAAG
GCAACCCTTAAAAAAGGTTGAGATAGACTCGTCTAAAGCAACCTCAAAAAGGCTGGGATAAACCT
TATCTAAGGTAATTC
Found at i:52423322 original size:146 final size:143
Alignment explanation
Indices: 52422988--52423359 Score: 412
Period size: 145 Copynumber: 2.6 Consensus size: 143
52422978 CCGACCTTTA
*
52422988 AAAAAGGTTGGGATAGACCTAGTC-AAGGCCAATCTTTGAAAAAGGTTAGGATAAACCCATATAA
1 AAAAAGGTTGGGATAGACCT-GTCTAAGG-CAATCTTT-AAAAAGGTTGGGATAAACCCATATAA
* *
52423052 GACAACCTTAAAAAGGTTGGGATAGGTCAGTCTAAGGCAACCCTTAAAAAAGGTTGAGATCGACT
63 GACAACCTTAAAAAGGTTGGGATAGGACAGTCTAAGGCAACCCTTAAAAAAGGTTGAGATAGACT
* *
52423117 CGTTTAAGGCAACCTC
128 CGTCTAAAGCAACCTC
* * * * * * *
52423133 AAAAAGGTTGGGATAAACCTTATCTAAGGTAATTCTTGAAAAAGGTTGGGATAGACTCATTTAAG
1 AAAAAGGTTGGGATAGACC-TGTCTAAGGCAA-TCTTTAAAAAGGTTGGGATAAACCCATATAAG
*
52423198 GCAACCTTAAAAAGGTTGGGATA-GACATTGTCTAAGGCAACCCTTAAAAAAGGTT-AGGATAGA
64 ACAACCTTAAAAAGGTTGGGATAGGACA--GTCTAAGGCAACCCTTAAAAAAGGTTGA-GATAGA
52423261 CTCGTCTAAAGCAACC-C
126 CTCGTCTAAAGCAACCTC
* * * * * * *
52423278 TAAAAAGGCTGGGATAGACCGTGTCTAAAGCAACCTTTACAAAA-GTTGAGATAAAGCCGTCTAA
1 -AAAAAGGTTGGGATAGACC-TGTCTAAGGCAATCTTTA-AAAAGGTTGGGATAAACCCATATAA
* *
52423342 TACAACTTTAAAAAGGTT
63 GACAACCTTAAAAAGGTT
52423360 AAGACATACC
Statistics
Matches: 189, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
144 3 0.02
145 102 0.54
146 84 0.44
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (143 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAATCTTTAAAAAGGTTGGGATAAACCCATATAAGAC
AACCTTAAAAAGGTTGGGATAGGACAGTCTAAGGCAACCCTTAAAAAAGGTTGAGATAGACTCGT
CTAAAGCAACCTC
Found at i:52424922 original size:39 final size:39
Alignment explanation
Indices: 52424804--52424986 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52424794 TCGTTCAAAC
* * ** * **
52424804 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
52424844 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
52424884 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
52424923 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
52424962 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
52424987 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:52429009 original size:15 final size:15
Alignment explanation
Indices: 52428989--52429020 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52428979 TTGAAGACCC
52428989 TAAGAGCACCTACCT
1 TAAGAGCACCTACCT
*
52429004 TAAGAGCACCTTCCT
1 TAAGAGCACCTACCT
52429019 TA
1 TA
52429021 CATCCGAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (15 bp):
TAAGAGCACCTACCT
Found at i:52430516 original size:110 final size:110
Alignment explanation
Indices: 52430323--52430542 Score: 368
Period size: 110 Copynumber: 2.0 Consensus size: 110
52430313 AATAAGGGTG
* *
52430323 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTAGTTGATATCGGTTAACTGATTCACTGACTAA
1 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTAGTTGACATCGGTTAACTGATTCACTGACCAA
*
52430388 ACCGTTCTTTAGTAGCATTGGTCTCTCCTTCACTCCCGTCTTCAT
66 ACCGTTCTTTAGTAGCATTGGTCTCTCATTCACTCCCGTCTTCAT
* *
52430433 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTGGTTGACATCGGTTAATTGATTCACTGACCAA
1 AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTAGTTGACATCGGTTAACTGATTCACTGACCAA
* * *
52430498 ACTGTTCTTTCGTAGCATTGGTCTCTCATTCACTCTCGTCTTCAT
66 ACCGTTCTTTAGTAGCATTGGTCTCTCATTCACTCCCGTCTTCAT
52430543 TTAATCTTTC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (110 bp):
AAAAAAAAACTTGATTAAAAATAGCTCTGTTCTAGTTGACATCGGTTAACTGATTCACTGACCAA
ACCGTTCTTTAGTAGCATTGGTCTCTCATTCACTCCCGTCTTCAT
Found at i:52430654 original size:21 final size:21
Alignment explanation
Indices: 52430630--52430676 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
52430620 CCAGAATCAT
*
52430630 TAAATCCTAAACTATAAACC-C
1 TAAATCATAAACT-TAAACCTC
*
52430651 TAAATCATAAACTTTAACCTC
1 TAAATCATAAACTTAAACCTC
52430672 TAAAT
1 TAAAT
52430677 TAATTAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATCATAAACTTAAACCTC
Found at i:52431913 original size:140 final size:140
Alignment explanation
Indices: 52431659--52432346 Score: 696
Period size: 140 Copynumber: 5.0 Consensus size: 140
52431649 AACACAAGTT
* * **
52431659 GGCATAGTGTTGGACAAAACCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCTGA-TCC
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACT-C
* * *
52431723 TTATACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGC
65 TTATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGC
52431788 CCAAAAGTGTC
130 CCAAAAGTGTC
* * * *
52431799 GGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATATTCCAACTCT
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
* * * * * *
52431864 TATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTT-----A------G--
66 TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
*
52431916 -AAAAGTGCC
131 CAAAAGTGTC
* * * ** *
52431925 GGCATAGTGTTGAACAAAGCCT-AATCTTATATAAGCATTGTCTTAGGCATGCATATCCCAACTC
1 GGCATAGTGTTGGACAAAG-CTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTC
* * * ** * *
52431989 TTATACAAAGGGTTGGACAAAGTGTACATCAACAAGTTTATCCCAACACTTAGGAAAAGT-TTCG
65 TTATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGG-AAAGTGTT-G
*
52432053 GCCCAAAAGTTTC
128 GCCCAAAAGTGTC
* * * * *
52432066 GGCATAGTGTTGGATAAAG-TCGGCTCCTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTC
1 GGCATAGTGTTGGACAAAGCT-GACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTC
* * * * *
52432130 TTATATAAAG-GATTGGCCAAAGTGTATATTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGG
65 TTATACAAAGAG-TTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGG
52432194 CCCAAAAGTGTC
129 CCCAAAAGTGTC
* * * * *
52432206 AGCATAATGTTGGACAAAGCCGACTCTTTTTTAAGTGTTGCCTTAGGCATGTATATCCCAACTCT
1 GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
* * * ** *
52432271 TATACAAATAGTTGGCCAAAACGTATGTCGACAAGTCTATCCCAACATTTAAAAAAGTG-TCGCC
66 TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
52432335 TCAAAAGTGTC
131 -CAAAAGTGTC
52432346 G
1 G
52432347 CAGTAAGCAT
Statistics
Matches: 445, Mismatches: 79, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
126 100 0.22
127 2 0.00
129 1 0.00
132 1 0.00
135 1 0.00
138 1 0.00
139 4 0.01
140 227 0.51
141 108 0.24
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (140 bp):
GGCATAGTGTTGGACAAAGCTGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACTCT
TATACAAAGAGTTGGCCAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
CAAAAGTGTC
Found at i:52432024 original size:126 final size:127
Alignment explanation
Indices: 52431790--52432048 Score: 317
Period size: 126 Copynumber: 2.0 Consensus size: 127
52431780 GTGTTGGCCC
* * * ** * *
52431790 AAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATAT
1 AAAAGTGCCGGCATAGTGTTGAACAAAGCTAACTCTTATATAAGCATTGCCTTAGGCATGCATAT
* ** * *
52431855 TCCAACTCTTATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTTA-G
66 CCCAACTCTTATACAAAGAGTTGACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
*
52431916 AAAAGTGCCGGCATAGTGTTGAACAAAGCCTAA-TCTTATATAAGCATTGTCTTAGGCATGCATA
1 AAAAGTGCCGGCATAGTGTTGAACAAAG-CTAACTCTTATATAAGCATTGCCTTAGGCATGCATA
* ** * *
52431980 TCCCAACTCTTATACAAAGGGTTGGA-CAAAGTGTACATCAACAAGTTTATCCCAACACTTAGG
65 TCCCAACTCTTATACAAAGAGTT-GACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
52432043 AAAAGT
1 AAAAGT
52432049 TTCGGCCCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
126 99 0.88
127 13 0.12
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (127 bp):
AAAAGTGCCGGCATAGTGTTGAACAAAGCTAACTCTTATATAAGCATTGCCTTAGGCATGCATAT
CCCAACTCTTATACAAAGAGTTGACCAAAACGTACACCAACAAGTTTACCCCAACACTTAGG
Found at i:52432166 original size:267 final size:266
Alignment explanation
Indices: 52431659--52432194 Score: 621
Period size: 267 Copynumber: 2.0 Consensus size: 266
52431649 AACACAAGTT
* * * ** **
52431659 GGCATAGTGTTGGACAAAACCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCTGATCCT
1 GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATCCT
* ** ***
52431724 TATACAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
66 TATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
* * * * *
52431789 CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCTTATTTAAGTGTTGCCTTTGGTATGCATA
131 CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCCTATTTAAGCGTTGCCTTAGGCATACATA
* * * *
52431854 TTCCAACTCTTATACAAAGAGTTGACCAAAACGTATGCCGACAAGTTTACCCCAGCACTTAGAAA
196 TCCCAACTCTTATACAAAGAGTTGACCAAAACGTATACCGACAAGTCTACCCCAACACTTAGAAA
52431919 AGTGCC
261 AGTGCC
* * *
52431925 GGCATAGTGTTGAACAAAGCCTAATCTTATATAAGCATTGTCTTAGGCATGCATATCCCAA-CTC
1 GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATC-C
* ** *
52431989 TTATACAAAGGGTTGGACAAAGTGTACATCAACAAGTTTATCCCAACACTTAGGAAAAGT-TTCG
65 TTATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGG-AAAGTGTT-G
* * **
52432053 GCCCAAAAGTTTCGGCATAGTGTTGGATAAAG-TCGGCTCCTATTTAAGCGTTGCCTTAGGCATA
128 GCCCAAAAGTGTCGGCATAGTGTTGGACAAAGCT-AACTCCTATTTAAGCGTTGCCTTAGGCATA
* * ** ** *
52432117 CATATCCCAACTCTTATATAAAG-GATTGGCCAAAGTGTATATTGACAAGTCTATCCCAACACTT
192 CATATCCCAACTCTTATACAAAGAG-TTGACCAAAACGTATACCGACAAGTCTACCCCAACACTT
* *
52432181 AGGAAAGTGTC
256 AGAAAAGTGCC
52432192 GGC
1 GGC
52432195 CCAAAAGTGT
Statistics
Matches: 223, Mismatches: 42, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
265 1 0.00
266 100 0.45
267 122 0.55
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (266 bp):
GGCATAGTGTTGAACAAAACCGAATCTTATATAAGCATTGCCTTAGGCATGCATATCCCAATCCT
TATACAAAGAGTTGGACAAAGCATACATCAACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCC
CAAAAGTGTCGGCATAGTGTTGGACAAAGCTAACTCCTATTTAAGCGTTGCCTTAGGCATACATA
TCCCAACTCTTATACAAAGAGTTGACCAAAACGTATACCGACAAGTCTACCCCAACACTTAGAAA
AGTGCC
Found at i:52436039 original size:13 final size:15
Alignment explanation
Indices: 52436011--52436047 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
52436001 ATTATTTAAG
52436011 AAAATAATTGAAATT
1 AAAATAATTGAAATT
52436026 AAAA-AATT-AAATT
1 AAAATAATTGAAATT
*
52436039 AAATTAATT
1 AAAATAATT
52436048 TGCCATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 8 0.40
14 8 0.40
15 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAATAATTGAAATT
Found at i:52436169 original size:16 final size:16
Alignment explanation
Indices: 52436148--52436181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52436138 AATTGAGATG
* *
52436148 AGAAAATTATTTAATT
1 AGAAAACTAGTTAATT
52436164 AGAAAACTAGTTAATT
1 AGAAAACTAGTTAATT
52436180 AG
1 AG
52436182 TTTAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (16 bp):
AGAAAACTAGTTAATT
Found at i:52437905 original size:33 final size:32
Alignment explanation
Indices: 52437867--52437973 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 32
52437857 AGATTACTTT
52437867 ATATTTTATATATTATTATATTAAATTATTTAA
1 ATATTTTAT-TATTATTATATTAAATTATTTAA
* **
52437900 ATATTTCATGTACCATTATATTAAATTATTTAA
1 ATATTTTAT-TATTATTATATTAAATTATTTAA
*
52437933 AT-TTATT-TTATTATTATATTTAAGTT-TTTAAA
1 ATATT-TTATTATTATTATA-TTAAATTATTT-AA
52437965 ATATTTTAT
1 ATATTTTAT
52437974 GTGTCATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
31 11 0.18
32 15 0.25
33 35 0.57
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (32 bp):
ATATTTTATTATTATTATATTAAATTATTTAA
Found at i:52439906 original size:10 final size:10
Alignment explanation
Indices: 52439891--52439919 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
52439881 AACACCCCCC
52439891 TTTCTTTTCT
1 TTTCTTTTCT
52439901 TTTCTTTTC-
1 TTTCTTTTCT
52439910 TTTCTTTTCT
1 TTTCTTTTCT
52439920 CCCTGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTTCT
Found at i:52439913 original size:4 final size:5
Alignment explanation
Indices: 52439891--52439919 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
52439881 AACACCCCCC
52439891 TTTCT TTTCT TTTCT TTTC- TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
52439920 CCCTGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:52440410 original size:2 final size:2
Alignment explanation
Indices: 52440405--52440430 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52440395 CTGTTTAATC
52440405 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
52440431 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:52442982 original size:117 final size:117
Alignment explanation
Indices: 52442839--52443072 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
52442829 GAGTTGTAAG
52442839 TAAACATATCTTGTTGTAATTGTAATTATTTTGTGTTGGCACTCATTTTCTATTTAAATTAACAT
1 TAAACATATCTTGTTGTAATTGTAATTATTTTGTGTTGGCACTCATTTTCTATTTAAATTAACAT
52442904 TAAACTTAATTGCTTGGACTCTGATGGGAGGAAGTGTAGATACTTGTTGCAA
66 TAAACTTAATTGCTTGGACTCTGATGGGAGGAAGTGTAGATACTTGTTGCAA
52442956 TAAACATATCTTGTTGTAATTGTAATTATTTTGTGTTGGCACTCATTTTCTATTTAAATTAACAT
1 TAAACATATCTTGTTGTAATTGTAATTATTTTGTGTTGGCACTCATTTTCTATTTAAATTAACAT
52443021 TAAACTTAATTGCTTGGACTCTGATGGGAGGAAGTGTAGATACTTGTTGCAA
66 TAAACTTAATTGCTTGGACTCTGATGGGAGGAAGTGTAGATACTTGTTGCAA
52443073 CTTCAAATCG
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (117 bp):
TAAACATATCTTGTTGTAATTGTAATTATTTTGTGTTGGCACTCATTTTCTATTTAAATTAACAT
TAAACTTAATTGCTTGGACTCTGATGGGAGGAAGTGTAGATACTTGTTGCAA
Found at i:52444525 original size:6 final size:6
Alignment explanation
Indices: 52444514--52444547 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
52444504 CATTGTTATA
52444514 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
52444548 GCAAATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:52447212 original size:15 final size:15
Alignment explanation
Indices: 52447157--52447213 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
52447147 TTTATACTAC
52447157 AAAATATTTATTATT
1 AAAATATTTATTATT
** *
52447172 AGTATATTTATAATTGT
1 AAAATATTTATTA-T-T
52447189 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
52447206 AAAATATT
1 AAAATATT
52447214 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:52457376 original size:7 final size:8
Alignment explanation
Indices: 52457345--52457378 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
52457335 TCCCTTGTCC
52457345 TATTTTTAG
1 TATTTTT-G
52457354 TAATTTTTG
1 T-ATTTTTG
52457363 TATTTTTG
1 TATTTTTG
52457371 TATTTTTG
1 TATTTTTG
52457379 GAACCATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 3 0.12
10 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (8 bp):
TATTTTTG
Found at i:52464129 original size:44 final size:43
Alignment explanation
Indices: 52464066--52464149 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
52464056 ATGACGCTTA
*
52464066 CACAACTCATGAAGGAGATATAATTGTATGAGTTAAATTTTTTG
1 CACAACTCATGAAGGAGATATAATTGTAGGAGTT-AATTTTTTG
*
52464110 CACAACTCATGAAGGAGATATAATTTTAGGAGTTAATTTT
1 CACAACTCATGAAGGAGATATAATTGTAGGAGTTAATTTT
52464150 GAATGACAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 6 0.16
44 32 0.84
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (43 bp):
CACAACTCATGAAGGAGATATAATTGTAGGAGTTAATTTTTTG
Found at i:52466860 original size:27 final size:26
Alignment explanation
Indices: 52466808--52466875 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
52466798 AATAGTTAAT
52466808 ACTATATTCATGTCATATATCATATATCA
1 ACTATATTCA--T-ATATATCATATATCA
52466837 ACTATATTACATATATATCATATATCA
1 ACTATATT-CATATATATCATATATCA
*
52466864 ATTATATTCATA
1 ACTATATTCATA
52466876 CTCATTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 4 0.11
27 22 0.59
28 1 0.03
29 8 0.22
30 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (26 bp):
ACTATATTCATATATATCATATATCA
Found at i:52485966 original size:43 final size:42
Alignment explanation
Indices: 52485873--52485979 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
52485863 TTATGATTTA
* ** * *
52485873 CATGTAAGGCCCCGTCTGGGACGTTGGAATCGTATCTGGTTT
1 CATGTAAGACCCCGTCTGGGACAATGGAATCGTATCTGATTG
* * *
52485915 CATGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATTG
1 CATGTAAGACCCCGTCTGGGACAATGGAATCG-TATCTGATTG
* *
52485958 CATGTAAGACCACGCCTGGGAC
1 CATGTAAGACCCCGTCTGGGAC
52485980 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCCCGTCTGGGACAATGGAATCGTATCTGATTG
Found at i:52485986 original size:43 final size:41
Alignment explanation
Indices: 52485873--52485987 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 41
52485863 TTATGATTTA
* * * *
52485873 CATGTAAGGCCCCGTCTGGGACGTTGGAATCGTATCTGGTTT
1 CATGTAA-GACCCGTCTGGGACGTTGGCATCGTATCTGATTG
** *
52485915 CATGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATTG
1 CATGTAAGACCC-GTCTGGGACGTTGGCATCG-TATCTGATTG
*
52485958 CATGTAAGACCACGCCTGGGACGTTGGCAT
1 CATGTAAGACC-CGTCTGGGACGTTGGCAT
52485988 TGTACGATCT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.07
42 23 0.38
43 32 0.53
44 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (41 bp):
CATGTAAGACCCGTCTGGGACGTTGGCATCGTATCTGATTG
Found at i:52488306 original size:20 final size:21
Alignment explanation
Indices: 52488281--52488319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52488271 CTCTTGAAAC
*
52488281 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACAAGCCCGTGTGGA
52488301 AGGGCAACAAGCCCGTGTG
1 AGGGCAACAAGCCCGTGTG
52488320 TTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACAAGCCCGTGTGGA
Found at i:52489621 original size:49 final size:49
Alignment explanation
Indices: 52489508--52489642 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 49
52489498 CATGGGTTAA
* * *
52489508 GATGCCGACACCATGTCCCAGACATGGTATTACACTGGCTTTCATATAGT
1 GATGTCGATACCATGTCCCAGACA-GGTATTACACTGGCTCTCATATAGT
* * * * *
52489558 GAGGTCAATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTA-T
1 GATGTCGATACCATGTCCCAGACAGGTATTACACTGGCTCTCATATAGT
* *
52489606 CGATGTCGATACCATGTCCTAGACATGTATTACACTG
1 -GATGTCGATACCATGTCCCAGACAGGTATTACACTG
52489643 ACACACAACA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
48 1 0.01
49 50 0.71
50 19 0.27
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGTCGATACCATGTCCCAGACAGGTATTACACTGGCTCTCATATAGT
Found at i:52489745 original size:48 final size:48
Alignment explanation
Indices: 52489693--52489785 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
52489683 ACTAGTTTGT
* ** *
52489693 ATATCGCGAGGCCGATACATGTGCC-AGACATGTCTTACACTGGCTTAA
1 ATATCGCAAGGCCGATACATGT-CCTAGACACATCTTACAATGGCTTAA
* *
52489741 ATATCTCAAGGCCGATGCATGTCCTAGACACATCTTACAATGGCT
1 ATATCGCAAGGCCGATACATGTCCTAGACACATCTTACAATGGCT
52489786 CTCATACTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
ATATCGCAAGGCCGATACATGTCCTAGACACATCTTACAATGGCTTAA
Found at i:52490201 original size:30 final size:31
Alignment explanation
Indices: 52490161--52490219 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
52490151 AAGTTCACAT
*
52490161 TTTCAGCAAAATGACCATTTTGCCCTTAGAC
1 TTTCAGCAAAATGACCATTTTACCCTTAGAC
52490192 TTTCA-CAAAATGACCATTTTACCCTTAG
1 TTTCAGCAAAATGACCATTTTACCCTTAG
52490220 GCTCAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (31 bp):
TTTCAGCAAAATGACCATTTTACCCTTAGAC
Found at i:52496740 original size:30 final size:30
Alignment explanation
Indices: 52496706--52496765 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
52496696 ATTTAATACG
52496706 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
52496736 AACTTTTGCATAATTACACTTTTGCTCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52496766 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:52502686 original size:42 final size:42
Alignment explanation
Indices: 52502573--52502733 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
52502563 ATCCGATATG
* *
52502573 TGATATCGTGTAAGACCATGTCTGGGATGTTGGCATCG-ACTTA
1 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGTA--TA
*
52502616 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATC
1 TGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATA
* *
52502659 TGATTTCGTATAAGACC-TGATCTGGGACAG-TGGCATCGATATT
1 TGATTTCGTGTAAGACCATG-TCTGGGAC-GTTGGCATCG-TATA
* * * * *
52502702 TGATTACATGTAAAACCACGTCTGAGACGTTG
1 TGATTTCGTGTAAGACCATGTCTGGGACGTTG
52502734 ACATTGTACG
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 27 0.27
43 38 0.38
44 32 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGTATA
Found at i:52502706 original size:86 final size:85
Alignment explanation
Indices: 52502573--52502733 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
52502563 ATCCGATATG
* * * * *
52502573 TGATATCGTGTAAGACCATGTCTGGGATGTTGGCATCGACTTATGATTTACGTGTAAGACCATGT
1 TGATATCGTATAAGACCATGTCTGGGAAGTTGGCATCGACTTATGA-TTACATGTAAAACCACGT
*
52502638 CTGGGACGTTGGCATCGTATC
65 CTGAGACGTTGGCATCGTATC
* *
52502659 TGATTTCGTATAAGACC-TGATCTGGGACAG-TGGCATCGA-TATTTGATTACATGTAAAACCAC
1 TGATATCGTATAAGACCATG-TCTGGGA-AGTTGGCATCGACT-TATGATTACATGTAAAACCAC
52502721 GTCTGAGACGTTG
63 GTCTGAGACGTTG
52502734 ACATTGTACG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 28 0.44
86 35 0.55
87 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (85 bp):
TGATATCGTATAAGACCATGTCTGGGAAGTTGGCATCGACTTATGATTACATGTAAAACCACGTC
TGAGACGTTGGCATCGTATC
Found at i:52507515 original size:21 final size:22
Alignment explanation
Indices: 52507491--52507531 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52507481 CGCTAGACAT
*
52507491 AGGGGC-ACACGCCTGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
52507512 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
52507532 ACCAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:52508482 original size:42 final size:42
Alignment explanation
Indices: 52508435--52508519 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
52508425 TGAAGCTTAG
* * *
52508435 TAAGTTGCATGAAAATAAATATAATGACATCTTTACCATTCA
1 TAAGTTGCAAGAAAATAAATATAATGACACCTCTACCATTCA
52508477 TAAGTTGCAAGAAAATAAATATAATGACACCTCTACCATTCA
1 TAAGTTGCAAGAAAATAAATATAATGACACCTCTACCATTCA
52508519 T
1 T
52508520 CATCATGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (42 bp):
TAAGTTGCAAGAAAATAAATATAATGACACCTCTACCATTCA
Found at i:52508943 original size:46 final size:46
Alignment explanation
Indices: 52508889--52509059 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
52508879 ACATCATGTA
52508889 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCAAGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCAAGAG
* ** * * *
52508935 GCCAATGCATGTCCCAAACATGTCTTACACTAACTCTCGTCTCA-AT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATC-AAGAG
* *
52508981 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATCAA-GAG
*
52509029 GCCGATGCATGTCCCATACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
52509060 AGCACACAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
46 53 0.51
47 28 0.27
48 23 0.22
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCAAGAG
Found at i:52509008 original size:94 final size:92
Alignment explanation
Indices: 52508889--52509060 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 92
52508879 ACATCATGTA
52508889 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCAA-GAGGCCAATGCATGTCCCAA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CAT-AATGAGGCCAATGCATGTCCCAA
52508952 ACATGTCTTACACTAACTCTCGTCTCAAT
64 ACATGTCTTACACTAACTCTCGTCTCAAT
* * * *
52508981 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCCAA
52509046 ACATGTCTTACACTA
64 ACATGTCTTACACTA
52509061 GCACACAAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 7 0.10
93 15 0.21
94 49 0.68
95 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCCAAAC
ATGTCTTACACTAACTCTCGTCTCAAT
Found at i:52509041 original size:140 final size:140
Alignment explanation
Indices: 52508801--52509059 Score: 342
Period size: 140 Copynumber: 1.8 Consensus size: 140
52508791 AAGTCGATAC
* **
52508801 CATGTCCCAAACATGGTCTTACACTGACTCCCACGTATCCGTGCCAACGCCATATCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAACT-CCACGTATCAATGCCAACGCCATATCCCAGACATG
* *
52508866 GTCTTATACTGACACATCATGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCA
65 GTCTTACACTGACACATAATGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCA
52508931 AGAGGCCAATG
130 AGAGGCCAATG
* * * * * *
52508942 CATGTCCCAAACAT-GTCTTACACTAACT-CTCGTCTCAATGCCGATGTCATGTCCCAGACATGG
1 CATGTCCCAAACATGGTCTTACACTAACTCCACGTATCAATGCCAACGCCATATCCCAGACATGG
* * * *
52509005 TCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCATACATGTCTTACACT
66 TCTTACACT-G-ACACATAATGTAGCCGATGCATGTCCCAAACATGTCTTACACT
52509060 AGCACACAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
138 35 0.35
139 1 0.01
140 51 0.50
141 14 0.14
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAACTCCACGTATCAATGCCAACGCCATATCCCAGACATGG
TCTTACACTGACACATAATGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCAA
GAGGCCAATG
Found at i:52512660 original size:40 final size:40
Alignment explanation
Indices: 52512615--52512744 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52512605 CGGAATACAA
52512615 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52512655 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52512695 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52512735 CCGGATATAA
1 CCGGATATAA
52512745 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52520734 original size:40 final size:40
Alignment explanation
Indices: 52520689--52520818 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52520679 CGGAATACAA
52520689 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52520729 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52520769 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52520809 CCGGATATAA
1 CCGGATATAA
52520819 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52528795 original size:40 final size:40
Alignment explanation
Indices: 52528750--52528879 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52528740 CGGAATACAA
52528750 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52528790 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52528830 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52528870 CCGGATATAA
1 CCGGATATAA
52528880 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52534445 original size:47 final size:47
Alignment explanation
Indices: 52534371--52534645 Score: 192
Period size: 47 Copynumber: 5.9 Consensus size: 47
52534361 GGGTATAATA
* *
52534371 CCGATGCCATATCCCAGACATGTTCTTACACTGGCTCTCACGTTAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTTAAG
* * * **
52534418 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATTCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACG--TT-AAG
* * * * * *
52534468 CTGATGCAATGTCCCAGACATGGTCTTATACTGACACATCATG-T-AG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACGTTAAG
* * * * *
52534514 CCGAT-ACATGTCCCAAACAT-GTCTTACACTGGTTTACATCAAG--AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG-CT-C-TCACGTTAAG
* *
52534560 CCGATG-CATGTCCCAGACAT-GTCTTATACTAGCTCT--CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGT-T-AA-G
* *
52534606 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
52534646 TAATGTGGCT
Statistics
Matches: 178, Mismatches: 33, Indels: 31
0.74 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
43 1 0.01
44 11 0.06
45 14 0.08
46 46 0.26
47 51 0.29
48 16 0.09
49 2 0.01
50 33 0.19
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTTAAG
Found at i:52534664 original size:47 final size:44
Alignment explanation
Indices: 52534371--52534683 Score: 183
Period size: 47 Copynumber: 6.7 Consensus size: 44
52534361 GGGTATAATA
* *
52534371 CCGATGCCATATCCCAGACATGTTCTTACACTGGCTCTCACGTTAAGT-
1 CCGATG-CATGTCCCAGACATGGTCTTACACT-GCTCTCA---TAAGTG
* *
52534419 -CGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATTCGTG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTG-CTCTCA--TA--AGTG
* * *
52534468 CTGATGCAATGTCCCAGACATGGTCTTATACTGACACATCAT--GTAG
1 CCGATGC-ATGTCCCAGACATGGTCTTACACTG-CTC-TCATAAGT-G
* * * * *
52534514 CCGATACATGTCCCAAACAT-GTCTTACACTGGTTTACATCAAGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGCTCT-CAT-AAG-TG
* *
52534560 CCGATGCATGTCCCAGACAT-GTCTTATACTAGCTCTCGTCTCAA-TG
1 CCGATGCATGTCCCAGACATGGTCTTACACT-GCTCTC--AT-AAGTG
*
52534606 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACT-GCTCTCATAA-GT-G
* *
52534654 CTGATGCATGTCCCATACAT-GTCTTACACT
1 CCGATGCATGTCCCAGACATGGTCTTACACT
52534684 AGCACACAAA
Statistics
Matches: 213, Mismatches: 31, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 10 0.05
45 16 0.08
46 56 0.26
47 65 0.31
48 27 0.13
49 2 0.01
50 31 0.15
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGCTCTCATAAGTG
Found at i:52537885 original size:20 final size:20
Alignment explanation
Indices: 52537879--52537984 Score: 76
Period size: 20 Copynumber: 5.3 Consensus size: 20
52537869 ATACGTAATA
* *
52537879 ATAAAAATAAAAATTATATAT
1 ATAATAATAAAAA-TATATAC
* *
52537900 ATAGTATTAAAAATATATAC
1 ATAATAATAAAAATATATAC
52537920 ATAATAAT-AAAA-ATATA-
1 ATAATAATAAAAATATATAC
* *
52537937 ATATTAA-AAGATATATATAC
1 ATAATAATAA-AAATATATAC
* *
52537957 GTAATATATAAAAAATGTATAC
1 ATAATA-AT-AAAAATATATAC
52537979 ATAATA
1 ATAATA
52537985 TAATATTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
17 7 0.11
18 7 0.11
19 9 0.14
20 16 0.25
21 11 0.17
22 13 0.20
23 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATAATAAAAATATATAC
Found at i:52537902 original size:47 final size:48
Alignment explanation
Indices: 52537841--52537934 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
52537831 AACGATATAT
*
52537841 AAATATATACATATATGTATT-AAAATATATACGTAATAATAAAAATAA
1 AAATATATACATATA-GTATTAAAAATATATACATAATAATAAAAATAA
*
52537889 AAAT-TATATATATAGTATTAAAAATATATACATAATAATAAAAATA
1 AAATATATACATATAGTATTAAAAATATATACATAATAATAAAAATA
52537935 TAATATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 5 0.12
47 34 0.79
48 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (48 bp):
AAATATATACATATAGTATTAAAAATATATACATAATAATAAAAATAA
Found at i:52537983 original size:22 final size:24
Alignment explanation
Indices: 52537934--52537986 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
52537924 TAATAAAAAT
52537934 ATAATAT-TAAAAGATATATATAC
1 ATAATATATAAAAGATATATATAC
* *
52537957 GTAATATATAAAA-A-ATGTATAC
1 ATAATATATAAAAGATATATATAC
52537979 ATAATATA
1 ATAATATA
52537987 ATATTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 14 0.54
23 7 0.27
24 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
ATAATATATAAAAGATATATATAC
Found at i:52537995 original size:24 final size:23
Alignment explanation
Indices: 52537949--52538010 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
52537939 ATTAAAAGAT
*
52537949 ATATATACGTAATAT-ATAAAAA
1 ATATATACATAATATAATAAAAA
* *
52537971 ATGTATACATAATATAATATTAAA
1 ATATATACATAATATAATA-AAAA
* *
52537995 ATATTTACATAGTATA
1 ATATATACATAATATA
52538011 TACATATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.41
23 3 0.09
24 16 0.50
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATATACATAATATAATAAAAA
Found at i:52538388 original size:24 final size:24
Alignment explanation
Indices: 52538328--52538388 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
52538318 ATATGATAAC
52538328 ATAAAAATATATAACTAATAATAT
1 ATAAAAATATATAACTAATAATAT
* * *
52538352 TTAAGAATGTAT-ACATAAT-ATAGT
1 ATAAAAATATATAAC-TAATAATA-T
52538376 ATAAAAATATATA
1 ATAAAAATATATA
52538389 TATACGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (24 bp):
ATAAAAATATATAACTAATAATAT
Found at i:52538559 original size:22 final size:22
Alignment explanation
Indices: 52538540--52538615 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
52538530 ATACTAATGC
52538540 TAATAAATAAT-AAATATAATAA
1 TAAT-AATAATAAAATATAATAA
*
52538562 TAATAGTAATAAAATATAATAGTA
1 TAATAATAATAAAATATAATA--A
*
52538586 TATATAATATTAAAAT-TAA-AA
1 TA-ATAATAATAAAATATAATAA
52538607 TAA-AATAAT
1 TAATAATAAT
52538616 GAGAAAAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 8 0.17
22 14 0.30
23 1 0.02
24 6 0.13
25 11 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
TAATAATAATAAAATATAATAA
Found at i:52538580 original size:28 final size:30
Alignment explanation
Indices: 52538527--52538594 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
52538517 TTAAGTGAAA
*
52538527 ATAATACTAATGCTAATAAATAATAA-A-T
1 ATAATAATAATGCTAATAAATAATAATAGT
52538555 ATAATAATAATAG-TAATAAA-ATATAATAGT
1 ATAATAATAAT-GCTAATAAATA-ATAATAGT
52538585 ATATATAATA
1 ATA-ATAATA
52538595 TTAAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 1 0.03
28 21 0.62
29 2 0.06
30 4 0.12
31 6 0.18
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (30 bp):
ATAATAATAATGCTAATAAATAATAATAGT
Found at i:52540124 original size:23 final size:24
Alignment explanation
Indices: 52540084--52540145 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 24
52540074 ATTTATCAAA
52540084 AAAATTTAACATAATTAAAAATAACT-
1 AAAATTTAA-A-AATTAAAAATAA-TG
52540110 AAAA-TTAAAAATTAAAAATAATG
1 AAAATTTAAAAATTAAAAATAATG
52540133 AAAATTTAAAAAT
1 AAAATTTAAAAAT
52540146 AACGAATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.03
23 16 0.47
24 9 0.26
25 4 0.12
26 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTTAAAAATTAAAAATAATG
Found at i:52540319 original size:10 final size:10
Alignment explanation
Indices: 52540304--52540343 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
52540294 TAAATAAAAG
52540304 GTTTGAGAGA
1 GTTTGAGAGA
52540314 GTTTGAGAGA
1 GTTTGAGAGA
**
52540324 GTTAAAGAGA
1 GTTTGAGAGA
52540334 GTTTGAGAGA
1 GTTTGAGAGA
52540344 ATGATGTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.28
Consensus pattern (10 bp):
GTTTGAGAGA
Found at i:52541109 original size:17 final size:17
Alignment explanation
Indices: 52541087--52541120 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52541077 ATTATGGGTA
*
52541087 TGATATTTCAAATATTT
1 TGATATGTCAAATATTT
*
52541104 TGATATGTGAAATATTT
1 TGATATGTCAAATATTT
52541121 CAAATATCAT
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:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
TGATATGTCAAATATTT
Found at i:52543374 original size:68 final size:69
Alignment explanation
Indices: 52543167--52543442 Score: 536
Period size: 69 Copynumber: 4.0 Consensus size: 69
52543157 ATAAAATGAA
52543167 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTTATCTTTCC
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGA-TTTTTTTTTATCTTTCC
52543232 TTTAT
65 TTTAT
52543237 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
52543302 TTAT
66 TTAT
52543306 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGA-TTTTTTTTATCTTTCCT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
52543370 TTAT
66 TTAT
52543374 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
52543439 TTAT
66 TTAT
52543443 TTCCCATAAA
Statistics
Matches: 205, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
68 68 0.33
69 90 0.44
70 47 0.23
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.58
Consensus pattern (69 bp):
AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
TTAT
Found at i:52543415 original size:137 final size:138
Alignment explanation
Indices: 52543167--52543442 Score: 536
Period size: 137 Copynumber: 2.0 Consensus size: 138
52543157 ATAAAATGAA
52543167 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTTATCTTTCC
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGA-TTTTTTTTTATCTTTCC
52543232 TTTATAATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCT
65 TTTATAATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCT
52543297 TTCCTTTAT
130 TTCCTTTAT
52543306 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGA-TTTTTTTTATCTTTCCT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
52543370 TTATAATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTT
66 TTATAATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTT
52543435 TCCTTTAT
131 TCCTTTAT
52543443 TTCCCATAAA
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
137 90 0.66
139 47 0.34
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.58
Consensus pattern (138 bp):
AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCT
TTATAATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTTATCTT
TCCTTTAT
Found at i:52543444 original size:41 final size:39
Alignment explanation
Indices: 52543402--52543480 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 39
52543392 ACTTTTCTAT
**
52543402 TTTTTATCAAATAAAATGATTTTTTTTTATCTTTCCTTTA
1 TTTTT-TCAAATAAAATGAACTTTTTTTATCTTTCCTTTA
**
52543442 ---TTTCCCATAAAATGAACTTTTTTTATCTTTCCTTTA
1 TTTTTTCAAATAAAATGAACTTTTTTTATCTTTCCTTTA
52543478 TTT
1 TTT
52543481 CCTTTTATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (39 bp):
TTTTTTCAAATAAAATGAACTTTTTTTATCTTTCCTTTA
Found at i:52543452 original size:36 final size:36
Alignment explanation
Indices: 52543412--52543482 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
52543402 TTTTTATCAA
**
52543412 ATAAAATGATTTTTTTTTATCTTTCCTTTATTTCCC
1 ATAAAATGAACTTTTTTTATCTTTCCTTTATTTCCC
52543448 ATAAAATGAACTTTTTTTATCTTTCCTTTATTTCC
1 ATAAAATGAACTTTTTTTATCTTTCCTTTATTTCC
52543483 TTTTATGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.03, T:0.56
Consensus pattern (36 bp):
ATAAAATGAACTTTTTTTATCTTTCCTTTATTTCCC
Found at i:52546755 original size:21 final size:21
Alignment explanation
Indices: 52546718--52546757 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52546708 AAGTTGAATT
*
52546718 AATTTAATAATAGTACAAATA
1 AATTTAATAATAATACAAATA
52546739 AATTTAAT-ATGAATACAAA
1 AATTTAATAAT-AATACAAA
52546758 GTGTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTTAATAATAATACAAATA
Found at i:52547998 original size:76 final size:75
Alignment explanation
Indices: 52547867--52548009 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 75
52547857 ATACACTCAG
* * * * *
52547867 ACTATAAATACTATATTAAATTTTCTGTTTGGGGAGTTAGTTTTAGGGTTTTAGCTTGTAGTTTA
1 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTAGTTTTAGGGTTCTAGCTTGTA-TTTA
52547932 GTTGGACTTAA
65 GTTGGACTTAA
52547943 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTCA-TTTTAGGGTTCTAGCTTGTATTTA
1 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTT-AGTTTTAGGGTTCTAGCTTGTATTTA
52548007 GTT
65 GTT
52548010 AGCTTTCAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
75 7 0.11
76 53 0.87
77 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (75 bp):
ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTAGTTTTAGGGTTCTAGCTTGTATTTAG
TTGGACTTAA
Found at i:52552874 original size:93 final size:93
Alignment explanation
Indices: 52552762--52552933 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52552752 GCCCATAAGT
* *
52552762 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52552827 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52552855 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52552920 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52552934 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52552929 original size:46 final size:46
Alignment explanation
Indices: 52552754--52552929 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52552744 TGTAACCCGC
* * *
52552754 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52552800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52552850 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52552893 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52552930 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52555358 original size:30 final size:30
Alignment explanation
Indices: 52555314--52555402 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
52555304 CAAAGATAAC
52555314 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
52555343 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
52555373 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52555403 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:52555362 original size:15 final size:15
Alignment explanation
Indices: 52555314--52555393 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
52555304 CAAAGATAAC
*
52555314 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52555328 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52555343 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
52555358 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
52555373 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52555388 AAGAAA
1 AAGAAA
52555394 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52555402 original size:15 final size:15
Alignment explanation
Indices: 52555325--52555402 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
52555315 AGAAAACCGA
52555325 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52555340 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
52555354 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52555369 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52555385 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52555400 ATA
1 ATA
52555403 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52558466 original size:93 final size:93
Alignment explanation
Indices: 52558354--52558525 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52558344 GCCCATAAGT
* *
52558354 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52558419 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52558447 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52558512 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52558526 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52558521 original size:46 final size:46
Alignment explanation
Indices: 52558346--52558521 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52558336 TGTAACCCGC
* * *
52558346 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52558392 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52558442 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52558485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52558522 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52561694 original size:20 final size:20
Alignment explanation
Indices: 52561669--52561727 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
52561659 TTGTAAGGGA
*
52561669 TTGCACTTCGGTACCTCTGG
1 TTGCACTTCGGTGCCTCTGG
52561689 TTGCACTTCGGTGCCTCT-G
1 TTGCACTTCGGTGCCTCTGG
*
52561708 TAAGCACTTCGGTGCCTCTG
1 T-TGCACTTCGGTGCCTCTG
52561728 TTACAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.10, C:0.31, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGG
Found at i:52567455 original size:80 final size:80
Alignment explanation
Indices: 52567256--52567459 Score: 241
Period size: 80 Copynumber: 2.5 Consensus size: 80
52567246 TGAATGATAC
* ** *
52567256 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
52567321 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * * *
52567336 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCTGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
52567401 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
* *
52567416 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTA-TGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTGGTTATATCCGG
52567460 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 102 0.96
81 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:52567459 original size:40 final size:40
Alignment explanation
Indices: 52567256--52567436 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
52567246 TGAATGATAC
* **
52567256 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
52567296 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
52567336 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * * *** *
52567376 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
52567416 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
52567437 ATTGTGCTTA
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:52567687 original size:24 final size:24
Alignment explanation
Indices: 52567653--52567718 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
52567643 TGTGTGTGTT
* *
52567653 TATGATGATGA-AGTGTGAAGTAA
1 TATGATTATGAGAATGTGAAGTAA
* *
52567676 GTATGATTATGAGAATGTGTATTAA
1 -TATGATTATGAGAATGTGAAGTAA
52567701 TATGATTATGAGAATGTG
1 TATGATTATGAGAATGTG
52567719 TATTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 28 0.76
25 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGATTATGAGAATGTGAAGTAA
Found at i:52567719 original size:24 final size:24
Alignment explanation
Indices: 52567677--52567726 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
52567667 GTGAAGTAAG
52567677 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
52567701 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
52567725 TA
1 TA
52567727 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:52575452 original size:40 final size:40
Alignment explanation
Indices: 52575397--52575604 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
52575387 TGAATGATAC
* *
52575397 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
**
52575437 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
52575477 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *** *
52575517 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
52575557 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
52575597 CC-GGCTAA
1 CCGGGCTAA
52575605 ATTTCGAAGA
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 5 0.03
40 141 0.97
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:52575828 original size:24 final size:24
Alignment explanation
Indices: 52575794--52575859 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
52575784 TGTGTGTGTT
* *
52575794 TATGATGATGA-AGTGTGAAGTAA
1 TATGATTATGAGAATGTGAAGTAA
* *
52575817 GTATGATTATGAGAATGTGTATTAA
1 -TATGATTATGAGAATGTGAAGTAA
52575842 TATGATTATGAGAATGTG
1 TATGATTATGAGAATGTG
52575860 TATTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 28 0.76
25 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGATTATGAGAATGTGAAGTAA
Found at i:52575860 original size:24 final size:24
Alignment explanation
Indices: 52575818--52575867 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
52575808 GTGAAGTAAG
52575818 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
52575842 TATGATTATGAGAATGTGTATTAA
1 TATGATTATGAGAATGTGTATTAA
52575866 TA
1 TA
52575868 AAGTGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (24 bp):
TATGATTATGAGAATGTGTATTAA
Found at i:52577585 original size:39 final size:40
Alignment explanation
Indices: 52577471--52577652 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
52577461 ACGACTCGCT
** * **
52577471 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
52577511 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
52577551 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
52577590 CGAATGCCTTC-GGATCCTAGTCC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
52577630 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
52577653 ACATCATTCG
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.02
39 52 0.46
40 58 0.51
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:52581050 original size:42 final size:42
Alignment explanation
Indices: 52580999--52581108 Score: 157
Period size: 43 Copynumber: 2.6 Consensus size: 42
52580989 GTTGAGAATA
* **
52580999 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCACCGATATGAGATCC
* *
52581041 CGTGTAAGACCATAGCTGGGCTATTGGCACCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCACCGATATGAGATCC
*
52581084 CATGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
52581109 ACATTGGTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 23 0.39
43 36 0.61
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCACCGATATGAGATCC
Found at i:52582401 original size:20 final size:21
Alignment explanation
Indices: 52582373--52582411 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
52582363 CTGTTTTGAT
52582373 GAAAATTTTCT-AAGTTTTGG
1 GAAAATTTTCTAAAGTTTTGG
* *
52582393 GAAACTTTTTTAAAGTTTT
1 GAAAATTTTCTAAAGTTTT
52582412 CGGTTTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (21 bp):
GAAAATTTTCTAAAGTTTTGG
Found at i:52587642 original size:80 final size:80
Alignment explanation
Indices: 52587558--52587706 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
52587548 TATGGTAACC
* * * *
52587558 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
52587622 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
52587638 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
52587703 CCGG
66 CCGG
52587707 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:52587648 original size:40 final size:38
Alignment explanation
Indices: 52587599--52587706 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
52587589 ATCACGATTT
*
52587599 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
52587639 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
52587679 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
52587707 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:52595789 original size:38 final size:39
Alignment explanation
Indices: 52595691--52595839 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 39
52595681 ATCACGATTT
*
52595691 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
52595731 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * * ** *
52595771 GCA-ATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
52595809 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
52595840 TCATTCAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
38 28 0.32
39 4 0.05
40 55 0.63
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:52606871 original size:40 final size:40
Alignment explanation
Indices: 52606763--52607012 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
52606753 CGGGATTTAA
* * * * *
52606763 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
52606803 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52606843 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52606883 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52606923 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52606963 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
52607003 CCGGATATAT
1 CCGGATATAT
52607013 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:52609936 original size:24 final size:24
Alignment explanation
Indices: 52609904--52609998 Score: 172
Period size: 24 Copynumber: 4.0 Consensus size: 24
52609894 CTGTCAGGAA
52609904 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
52609928 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
52609952 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
52609976 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
52609999 GGAAATCTAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:52611460 original size:27 final size:27
Alignment explanation
Indices: 52611430--52611529 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
52611420 AGTGGCTACA
52611430 CCACAATTATCTGATCTGGTGGCTCTG
1 CCACAATTATCTGATCTGGTGGCTCTG
*
52611457 CCACATATT-TCTGTTCTGGTGGCTCTG
1 CCACA-ATTATCTGATCTGGTGGCTCTG
* *
52611484 CCACGATTATCTGTATCTGGTGACTCTG
1 CCACAATTATCTG-ATCTGGTGGCTCTG
* *
52611512 TCAC-ATTATCTGTTCTGG
1 CCACAATTATCTGATCTGG
52611530 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 8 0.12
27 38 0.59
28 18 0.28
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (27 bp):
CCACAATTATCTGATCTGGTGGCTCTG
Found at i:52614784 original size:46 final size:47
Alignment explanation
Indices: 52614730--52614897 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 47
52614720 TCTCGTAGCC
52614730 GATG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCAAGGCT
1 GATGACATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCT
** * * * * * *
52614776 GAT-ACATGTCCCAGACACATCTTATAGTAGCTCTCGTCTTAATGTT
1 GATGACATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCT
* * * ** *
52614822 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGACATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCAAGGCT
*
52614870 GATG-CATGTCCCAAACATGTCTTACACT
1 GATGACATGTCCCAGACATGTCTTACACT
52614898 AGCCAAGAAT
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 48 0.51
47 27 0.28
48 19 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGACATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCT
Found at i:52618254 original size:16 final size:16
Alignment explanation
Indices: 52618233--52618263 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
52618223 TTAATACAAA
52618233 GAAAGTGTGAAAGAGT
1 GAAAGTGTGAAAGAGT
52618249 GAAAGTGTGAAAGAG
1 GAAAGTGTGAAAGAG
52618264 ATATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.16
Consensus pattern (16 bp):
GAAAGTGTGAAAGAGT
Found at i:52620198 original size:34 final size:34
Alignment explanation
Indices: 52620157--52620228 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
52620147 ACAAAGAAAG
52620157 AAGAAAAGCTACTATTGAGGCTCGAGATGTCAGA
1 AAGAAAAGCTACTATTGAGGCTCGAGATGTCAGA
52620191 AAGAAAAGCTACTATTGAGGCTCGAGATGTCAGA
1 AAGAAAAGCTACTATTGAGGCTCGAGATGTCAGA
52620225 AAGA
1 AAGA
52620229 GGCCGATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (34 bp):
AAGAAAAGCTACTATTGAGGCTCGAGATGTCAGA
Found at i:52627884 original size:27 final size:27
Alignment explanation
Indices: 52627854--52628007 Score: 155
Period size: 29 Copynumber: 5.5 Consensus size: 27
52627844 ATAGTGAATC
52627854 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
52627881 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
*
52627909 CGCACACTTAGTGCTAGAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
52627936 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
52627965 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
52627994 TGCACACTTAGTGC
1 CGCACACTTAGTGC
52628008 CATTCTCGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 39 0.37
28 26 0.25
29 40 0.38
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:52627930 original size:55 final size:55
Alignment explanation
Indices: 52627854--52627957 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
52627844 ATAGTGAATC
*
52627854 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTAGAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
52627909 CGCACACTTAGTGCTAGAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTAGAAAATCAGCTCGCACACATAGTGCTATATAAT
52627958 TTGAGCTCGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTAGAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:52636130 original size:40 final size:40
Alignment explanation
Indices: 52636085--52636214 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52636075 CGGAATACAA
52636085 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
52636125 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
52636165 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52636205 CCGGATATAA
1 CCGGATATAA
52636215 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52636229 original size:40 final size:40
Alignment explanation
Indices: 52636085--52636248 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
52636075 CGGAATACAA
* **
52636085 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
52636125 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
52636165 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
52636205 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
52636245 CCGG
1 CCGG
52636249 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:52639137 original size:31 final size:31
Alignment explanation
Indices: 52639089--52639203 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
52639079 TTAGTCTTGA
* * *
52639089 CATAT-ACTTGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
52639119 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52639150 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52639181 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
52639204 ACTATACACG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:52639290 original size:42 final size:42
Alignment explanation
Indices: 52639227--52639318 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
52639217 TGGCCCTTAG
*
52639227 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
52639269 GCCTATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
52639311 GCCCATTT
1 GCCCATTT
52639319 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:52639494 original size:25 final size:25
Alignment explanation
Indices: 52639466--52639535 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
52639456 CTCTTTTAAT
52639466 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
52639491 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52639516 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52639536 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:52640497 original size:27 final size:27
Alignment explanation
Indices: 52640440--52640620 Score: 172
Period size: 27 Copynumber: 6.7 Consensus size: 27
52640430 TTTCATCCTA
* * * *
52640440 CAAGGGTGTTTTGGTAAATATACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
52640467 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
52640494 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
52640521 TGAGGGTATTTTGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
52640547 CCAGTGGTATTTCGGTACTTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
52640574 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
52640601 CTAGGGGTATTTTGGTAATT
1 C-AAGGGTATTTTGGTAATT
52640621 CTATCCTACA
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 125 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:52640556 original size:81 final size:79
Alignment explanation
Indices: 52640442--52640653 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 79
52640432 TCATCCTACA
* * * **
52640442 AGGGTGTTTTGGTAAATATACAAACCAAGGGTATTTCTGTAATTTTGTAAA-TCAAGGGTATTTT
1 AGGGTATTTTGGT-AATTTACAAACCAAGGGTATTTCGGTAATTTTACAAACT-AAGGGTATTTT
*
52640506 GGTAATTTTACAAATT
64 GGTAATTTTACAAACT
* *
52640522 GAGGGTATTTTGGTAATTTCACAAACC-AGTGGTATTTCGGTACTTTTACAAACTAGGGGTATTT
1 -AGGGTATTTTGGTAATTT-ACAAACCAAG-GGTATTTCGGTAATTTTACAAACTAAGGGTATTT
52640586 TGGTAATTTTACAAACT
63 TGGTAATTTTACAAACT
** * *
52640603 AGGGGTATTTTGGTAATTCTATCCTA-CAAGGGTATTTCAGTAATTTCACAA
1 A-GGGTATTTTGGTAATT-TA-CAAACCAAGGGTATTTCGGTAATTTTACAA
52640654 TCGAGGGTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
80 7 0.06
81 98 0.88
82 6 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTACAAACCAAGGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGG
TAATTTTACAAACT
Found at i:52640636 original size:54 final size:54
Alignment explanation
Indices: 52640460--52640653 Score: 167
Period size: 54 Copynumber: 3.6 Consensus size: 54
52640450 TTGGTAAATA
* *** * * * *
52640460 TACAAACCAAGGGTATTTCT-GTAATTTTGTAAATCAAGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTT-TGGTAATTTCACAAACCAGGGGTATTTCGGTAATTC
* * * * *
52640514 TACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTCGGTACTTT
1 TACAAACTAAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTC
* * * *
52640568 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTC
1 TACAAACTAAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTC
** **
52640622 TATCCTAC-AAGGGTATTTCAGTAATTTCACAA
1 TA-CAAACTAAGGGTATTTTGGTAATTTCACAA
52640654 TCGAGGGTAA
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.01
54 108 0.96
55 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTC
Found at i:52640719 original size:27 final size:27
Alignment explanation
Indices: 52640652--52640742 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
52640642 GTAATTTCAC
*
52640652 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
* *
52640679 ACT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
* *
52640705 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
52640732 AATCGAGGGTA
1 AATCGAGGGTA
52640743 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.41
27 33 0.59
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:52640752 original size:27 final size:27
Alignment explanation
Indices: 52640652--52640767 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
52640642 GTAATTTCAC
* * *
52640652 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
52640679 ACT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
* *
52640705 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*** *
52640732 AATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
52640759 AGTCGAGGG
1 AATCGAGGG
52640768 CATTTCAATA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 23 0.31
27 51 0.69
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:52642200 original size:43 final size:43
Alignment explanation
Indices: 52642152--52642286 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
52642142 TCCTGGACGT
* * * *
52642152 GGTCTTGCATGTAATTCAATATAGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * *
52642195 GGTCTTACATG-AAATCAGATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * *
52642237 GGTCTTATACGTAAATCTC-A-ATCGATGCCTGTGTCCCAGACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
52642280 GGTCTTA
1 GGTCTTA
52642287 TACGATGTCT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
42 32 0.43
43 39 0.52
44 2 0.03
45 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:52642287 original size:43 final size:42
Alignment explanation
Indices: 52642175--52642291 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
52642165 ATTCAATATA
* * * *
52642175 GATGCCTCTGTCCCAGACAGGGTCTTACATGAAATCAGATAC
1 GATGCCTATGTCCCAGACACGGTCTTATACGAAATCAGATAC
* *
52642217 GATGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCA-AT-C
1 GATGCCTATGTCCCAGACACGGTCTTATACG-AAA--TCAGATAC
*
52642260 GATGCCTGTGTCCCAGACACGGTCTTATACGA
1 GATGCCTATGTCCCAGACACGGTCTTATACGA
52642292 TGTCTCAGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.42
43 32 0.50
44 2 0.03
45 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (42 bp):
GATGCCTATGTCCCAGACACGGTCTTATACGAAATCAGATAC
Found at i:52648255 original size:20 final size:20
Alignment explanation
Indices: 52648230--52648268 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
52648220 TCCTTAAAAC
52648230 AGGGCACACA-CCCGTGTGGA
1 AGGGCA-ACAGCCCGTGTGGA
52648250 AGGGCAACATGCCCGTGTG
1 AGGGCAACA-GCCCGTGTG
52648269 ACCAACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 6 0.35
21 8 0.47
ACGTcount: A:0.23, C:0.28, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGCAACAGCCCGTGTGGA
Found at i:52649493 original size:47 final size:47
Alignment explanation
Indices: 52649395--52649606 Score: 161
Period size: 47 Copynumber: 4.5 Consensus size: 47
52649385 GTGCCCATGC
* *
52649395 CATGTCCCAGACATGGTCTTACGCTAGCTCATATCTCAAGTCGATGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGT
* *
52649442 CATGTCCCAGACATGGTCTTACACT-G-TCTATTATGTCGTAGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTAGCTC-A-TATCTC-AAGCCGATGT
* * * * ** * *
52649489 CATGTCCCAGACAT-GTTTTACATTGGCTTACGTCTCGAGGCCAATG-
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAGCCGATGT
* * * *
52649535 CATGTCCCAAACAT-GTCTTACATTAGCTC-TCGTCTTAATGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGT
52649581 CTATGTCCCAGACATGGTCTTACACT
1 C-ATGTCCCAGACATGGTCTTACACT
52649607 GGCTTTCATA
Statistics
Matches: 133, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 56 0.42
47 57 0.43
48 17 0.13
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGT
Found at i:52649539 original size:46 final size:45
Alignment explanation
Indices: 52649486--52649611 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 45
52649476 GTCGTAGCCG
* *
52649486 ATGCATGTCCCAGACATGTTTTACATTGGCTTACGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACATTGGCTT-CGTCTCAAGGCCA
* * * * *
52649532 ATGCATGTCCCAAACATGTCTTACATTAGCTCTCGTCTTAATGCCG
1 ATGCATGTCCCAGACATGTCTTACATTGGCT-TCGTCTCAAGGCCA
*
52649578 ATGCTATGTCCCAGACATGGTCTTACACTGGCTT
1 ATGC-ATGTCCCAGACAT-GTCTTACATTGGCTT
52649612 TCATAATATG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 41 0.61
47 14 0.21
48 12 0.18
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACATTGGCTTCGTCTCAAGGCCA
Found at i:52652022 original size:46 final size:46
Alignment explanation
Indices: 52651969--52652144 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
52651959 TATTTGGGCA
*
52651969 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52652015 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52652060 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52652108 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52652145 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52652124 original size:93 final size:93
Alignment explanation
Indices: 52651965--52652137 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
52651955 GGGATATTTG
* *
52651965 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52652030 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
52652058 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52652123 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
52652138 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:52654815 original size:48 final size:48
Alignment explanation
Indices: 52654714--52654835 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
52654704 TAGGGGATAT
* * ** * *
52654714 ATTGATTTGGCTTTGGGCCATGATATCGGCACTTTGGGTGTGTGTTAC
1 ATTGATTTGGCTTCGGGCCATGATATCGGCACCTCAGGTGCGAGTTAC
* *
52654762 TTTGATTTGGCTTCAGGCCATGATATCGGCACCTCAGGTGCGAGCTT-C
1 ATTGATTTGGCTTCGGGCCATGATATCGGCACCTCAGGTGCGAG-TTAC
*
52654810 ATTGATTTGGCTACGGGCCATGATAT
1 ATTGATTTGGCTTCGGGCCATGATAT
52654836 TAGCAGTTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
48 60 0.97
49 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATCGGCACCTCAGGTGCGAGTTAC
Found at i:52659295 original size:15 final size:15
Alignment explanation
Indices: 52659263--52659291 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52659253 ATTTTTAGTG
52659263 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
52659278 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
52659292 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:52661773 original size:28 final size:28
Alignment explanation
Indices: 52661658--52661771 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
52661648 TGTGAGCATG
* *
52661658 AATATGAATGTGACTGGGCCTAACGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
*
52661686 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATGAATGTGA-TTGGGCCTAATGGGC
*
52661715 AATAT-ACAGGTGATTCGGGCCTAATGGGC
1 AATATGA-ATGTGATT-GGGCCTAATGGGC
* * *
52661744 CATATGAATATGATTGGGCTTAATGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
52661772 CAGATACAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
AATATGAATGTGATTGGGCCTAATGGGC
Found at i:52661887 original size:33 final size:33
Alignment explanation
Indices: 52661845--52661911 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
52661835 TACATAAGAC
52661845 ATAATTAATATATTACAACCGTGGACAAGTCAA
1 ATAATTAATATATTACAACCGTGGACAAGTCAA
*
52661878 ATAATTAATATATTACGACCGTGGACAAGTCAA
1 ATAATTAATATATTACAACCGTGGACAAGTCAA
52661911 A
1 A
52661912 GGGTTAAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (33 bp):
ATAATTAATATATTACAACCGTGGACAAGTCAA
Found at i:52662850 original size:20 final size:21
Alignment explanation
Indices: 52662821--52662866 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52662811 ATAACTAAAA
* *
52662821 GGTTTTTTTTA-GTTAAGTAG
1 GGTTTCTTTTATGTTAAGAAG
*
52662841 GGTTTCTTTTATTTTAAGAAG
1 GGTTTCTTTTATGTTAAGAAG
52662862 GGTTT
1 GGTTT
52662867 TCGATGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (21 bp):
GGTTTCTTTTATGTTAAGAAG
Found at i:52664054 original size:281 final size:281
Alignment explanation
Indices: 52663551--52664116 Score: 1080
Period size: 281 Copynumber: 2.0 Consensus size: 281
52663541 CAATAATGGC
*
52663551 ACGAGGAATCGGGGGTATTCTGGAGCGACTTCGTGCAAATGGGGATGAGATCTTTAAGGGCGTGG
1 ACGAGGAATCGGGGGTATTCCGGAGCGACTTCGTGCAAATGGGGATGAGATCTTTAAGGGCGTGG
52663616 CTGGTGTGGCTCCTAATGTGGCTGAATACTGGTTGTAGGCCACAGAAAGGATAATGGAGGATTTG
66 CTGGTGTGGCTCCTAATGTGGCTGAATACTGGTTGTAGGCCACAGAAAGGATAATGGAGGATTTG
* *
52663681 GACTGTTCACCTGAACAAAAGCTGAAAGGGGCGGTGTCATTACTTAGGGAAGAAGCTTACCAGTG
131 GACTATTCACCTGAACAAAAGCTGAAAGGGGCGGTGTCACTACTTAGGGAAGAAGCTTACCAGTG
*
52663746 GTGGCTAACAATGAAAGAGGGCATCCAACCTGAGCGGGTCACGTGGGAGTTCTTTCAGGCAGTAT
196 GTGGCTAACAATGAAAGAGGGCATCCAACCTGAGCGGGTCACGTGGGAGTTCTTTCAGGCAGCAT
52663811 CTCAGGGGAAGTATGTAGGTG
261 CTCAGGGGAAGTATGTAGGTG
52663832 ACGAGGAATCGGGGGTATTCCGGAGCGACTTCGTGCAAATGGGGATGAGATCTTTAAGGGCGTGG
1 ACGAGGAATCGGGGGTATTCCGGAGCGACTTCGTGCAAATGGGGATGAGATCTTTAAGGGCGTGG
52663897 CTGGTGTGGCTCCTAATGTGGCTGAATACTGGTTGTAGGCCACAGAAAGGATAATGGAGGATTTG
66 CTGGTGTGGCTCCTAATGTGGCTGAATACTGGTTGTAGGCCACAGAAAGGATAATGGAGGATTTG
52663962 GACTATTCACCTGAACAAAAGCTGAAAGGGGCGGTGTCACTACTTAGGGAAGAAGCTTACCAGTG
131 GACTATTCACCTGAACAAAAGCTGAAAGGGGCGGTGTCACTACTTAGGGAAGAAGCTTACCAGTG
*
52664027 GTGGCTAACAGTGAAAGAGGGCATCCAACCTGAGCGGGTCACGTGGGAGTTCTTTCAGGCAGCAT
196 GTGGCTAACAATGAAAGAGGGCATCCAACCTGAGCGGGTCACGTGGGAGTTCTTTCAGGCAGCAT
52664092 CTCAGGGGAAGTATGTAGGTG
261 CTCAGGGGAAGTATGTAGGTG
52664113 -CGAG
1 ACGAG
52664117 TTACGTGGAA
Statistics
Matches: 280, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
280 4 0.01
281 276 0.99
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.23
Consensus pattern (281 bp):
ACGAGGAATCGGGGGTATTCCGGAGCGACTTCGTGCAAATGGGGATGAGATCTTTAAGGGCGTGG
CTGGTGTGGCTCCTAATGTGGCTGAATACTGGTTGTAGGCCACAGAAAGGATAATGGAGGATTTG
GACTATTCACCTGAACAAAAGCTGAAAGGGGCGGTGTCACTACTTAGGGAAGAAGCTTACCAGTG
GTGGCTAACAATGAAAGAGGGCATCCAACCTGAGCGGGTCACGTGGGAGTTCTTTCAGGCAGCAT
CTCAGGGGAAGTATGTAGGTG
Found at i:52666594 original size:29 final size:27
Alignment explanation
Indices: 52666514--52666628 Score: 77
Period size: 29 Copynumber: 4.0 Consensus size: 27
52666504 AATATGAATA
* * *
52666514 TGATTGGGCCTAACGGGCCATGTAAATG
1 TGATTGGGCCTAATGGGCCATAT-AAGG
* *
52666542 TGATTTGGGCCTAATGGACAATATACAGG
1 TGA-TTGGGCCTAATGGGCCATATA-AGG
* **
52666571 TGATTCGGGCTTAATGGGCCATATGAATA
1 TGATT-GGGCCTAATGGGCCATAT-AAGG
* * *
52666600 TGATTAGGCTTAATGGGCCAGATATAGG
1 TGATTGGGCCTAATGGGCCATATA-AGG
52666628 T
1 T
52666629 ATGTGGATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 24 0.35
29 42 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (27 bp):
TGATTGGGCCTAATGGGCCATATAAGG
Done.