Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 159 of 196
Found at i:46689616 original size:17 final size:17
Alignment explanation
Indices: 46689577--46689619 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
46689567 AAAATTATTC
46689577 AATTTTTTATTTTTTTA
1 AATTTTTTATTTTTTTA
**
46689594 TTTTTTTTATTTTTTTA
1 AATTTTTTATTTTTTTA
46689611 AATTTTTTA
1 AATTTTTTA
46689620 ATTTAACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
AATTTTTTATTTTTTTA
Found at i:46694236 original size:114 final size:113
Alignment explanation
Indices: 46694089--46694735 Score: 961
Period size: 114 Copynumber: 5.7 Consensus size: 113
46694079 CGTTTTCCAA
* * * * **
46694089 AAAGCACCGCAAACAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTTGGGGATTTAGCGGCGT
1 AAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGT
*
46694154 TTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
66 TTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* *
46694202 GAAGCGCCGCAAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
1 AAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
* *
46694267 TTTTTAAGAAAGCGCCGTTAATGGTCAGGGATTTAGCGGCGTTTTTGAG
65 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * *
46694316 AAAGCGCCGCAAAAAACATAAGCCCAACGATGCCGTTTTTTGGGCTGTTGGGGATTTAACAGCGT
1 AAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGT
* * *
46694381 TTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCGGTGTTTTTGAA
66 TTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* *
46694429 AAAGCGCCGCAAAAAAACATAAGTCCAACGACGCCGTTTTGTGGGCTTTTGGTGATTTAGCGGCG
1 AAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
* *
46694494 TTTTTAAGAAAGCGCTGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAA
65 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* * *
46694543 AAAGCGCAGCAAAAAAACATAAGCCCAATGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGACG
1 AAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
* * * * *
46694608 TTTTTAATAAAGCACCGCTAATGCTTAGGGCTTTAACGGCGTTTTTGAG
65 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* * *
46694657 AAAGCGCTGCAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTCGGGGATTTAGCGGCGT
1 AAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGT
46694722 TTTTAAGAAAGCGC
66 TTTTAAGAAAGCGC
46694736 AGTAAAAAAA
Statistics
Matches: 482, Mismatches: 50, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
113 175 0.36
114 307 0.64
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (113 bp):
AAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGT
TTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:46694473 original size:227 final size:226
Alignment explanation
Indices: 46694078--46694735 Score: 989
Period size: 227 Copynumber: 2.9 Consensus size: 226
46694068 AGCATTAGGT
** * * * *
46694078 GCGTTTTCCAAAAAGCACCGCAAACAACCTAAGCCCAACGACGCCGTTTTCTT-AGCTTTTGGGG
1 GCGTTTTTGAAAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTT-TTGGGCTTTTGGGG
*
46694142 ATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGGAAGC
65 ATTTAGC-GCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGAAAGC
46694207 GCCGCAAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTT
129 GCCGCAAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTT
*
46694272 AAGAAAGCGCCGTTAATGGTCAGGGATTTAGCG
194 AAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
* * *
46694305 GCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGATGCCGTTTTTTGGGCTGTTGGGGA
1 GCGTTTTTGAAAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTTTTGGGGA
* * * * *
46694370 TTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGATTTAGCGGTGTTTTTGAAAAAGCG
66 TTTAGC-GCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCG
*
46694435 CCGCAAAAAAACATAAGTCC-AACGACGCCGTTTTGTGGGCTTTTGGTGATTTAGCGGCGTTTTT
130 CCGCAAAAAAACATAAG-CCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTT
* *
46694499 AAGAAAGCGCTGCTAATGGTCAGGGCTTTAGCG
194 AAGAAAGCGCCGCTAATGGTCAGGGATTTAGCG
* * *
46694532 GCGTTTTTGAAAAAGCGCAGCAAAAAAACATAAGCCCAATGACGCCGTTTTGTGGGCTTTTGGGG
1 GCGTTTTTGAAAAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTTTTGGGG
* * * *
46694597 ATTTAGCGACGTTTTTAATAAAGCACCGCTAATGCTTAGGGCTTTAACGGCGTTTTTGAGAAAGC
65 ATTTAGCG-CGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGAAAGC
* *
46694662 GCTGC-AAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTCGGGGATTTAGCGGCGTTTTT
129 GCCGCAAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTT
46694726 AAGAAAGCGC
194 AAGAAAGCGC
46694736 AGTAAAAAAA
Statistics
Matches: 388, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
226 4 0.01
227 285 0.73
228 99 0.26
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (226 bp):
GCGTTTTTGAAAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTTTTGGGGA
TTTAGCGCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
CGCAAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTTAA
GAAAGCGCCGCTAATGGTCAGGGATTTAGCG
Found at i:46694735 original size:341 final size:340
Alignment explanation
Indices: 46694087--46694735 Score: 1012
Period size: 341 Copynumber: 1.9 Consensus size: 340
46694077 TGCGTTTTCC
* * *
46694087 AAAAAGCACCGCAAACAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTTGGGGATTTAGCGGC
1 AAAAAGCACCGCAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGC
* ** *
46694152 GTTTTTAATAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAA
66 GTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCAGCAAAAA
* * *
46694217 AACATAAGCCTAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
131 AACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGACGTTTTTAAGAAAGCAC
* * * *
46694282 CGTTAATGGTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGAT
196 CGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGAC
*
46694347 GCCGTTTTTTGGGCTGTTGGGGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGAT
261 GCCGTTTTGTGGGCTGTTGGGGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGAT
46694412 TTAGCGGTGTTTTTG
326 TTAGCGGTGTTTTTG
* * * * *
46694427 AAAAAGCGCCGCAAAAAAACATAAGTCCAACGACGCCGTTTTGTGGGCTTTTGGTGATTTAGCGG
1 AAAAAGCACCGC-AAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCTTTTGGGGATTTAGCGG
*
46694492 CGTTTTTAAGAAAGCGCTGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCAGCAAAA
65 CGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCAGCAAAA
* *
46694557 AAACATAAGCCCAATGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGACGTTTTTAATAAAGCA
130 AAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGACGTTTTTAAGAAAGCA
* * * *
46694622 CCGCTAATGCTTAGGGCTTTAACGGCGTTTTTGAGAAAGCGCTGCAAAAAACATAAGCCTAACGA
195 CCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGA
* *
46694687 CGCCGTTTTGTGGGCT-TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
260 CGCCGTTTTGTGGGCTGTT-GGGGATTTAACAGCGTTTTTAAGAAAGCGC
46694736 AGTAAAAAAA
Statistics
Matches: 278, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
340 13 0.05
341 265 0.95
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (340 bp):
AAAAAGCACCGCAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCTTTTGGGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCAGCAAAAA
AACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGACGTTTTTAAGAAAGCAC
CGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGAC
GCCGTTTTGTGGGCTGTTGGGGATTTAACAGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGAT
TTAGCGGTGTTTTTG
Found at i:46694768 original size:73 final size:72
Alignment explanation
Indices: 46694639--46694792 Score: 236
Period size: 73 Copynumber: 2.1 Consensus size: 72
46694629 TGCTTAGGGC
* * * * * *
46694639 TTTAACGGCGTTTTTGAGAAAGCGCTGCAAAAAACATAAGCCTAACGACGCCGTTTTGTGGGCTT
1 TTTAGCGGCGTTTTTAAGAAAGCGCAGAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTT
46694704 TCGGGGA
66 TCGGGGA
*
46694711 TTTAGCGGCGTTTTTAAGAAAGCGCAGTAAAAAAACATAAGCCAAATGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCAG-AAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
46694776 TTCGGGGA
65 TTCGGGGA
46694784 TTTAGCGGC
1 TTTAGCGGC
46694793 CAAAAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 24 0.32
73 50 0.68
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCAGAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTT
TCGGGGA
Found at i:46694983 original size:14 final size:14
Alignment explanation
Indices: 46694964--46694990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46694954 ATGGTTTTAG
46694964 GGATTATGGATTAA
1 GGATTATGGATTAA
46694978 GGATTATGGATTA
1 GGATTATGGATTA
46694991 GGGGTTGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (14 bp):
GGATTATGGATTAA
Found at i:46695248 original size:15 final size:14
Alignment explanation
Indices: 46695228--46695274 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
46695218 TATTTTAAGG
*
46695228 TTTAGGGAGTATGGA
1 TTTAGGGATTAT-GA
46695243 TTTAGGGATTATGA
1 TTTAGGGATTATGA
*
46695257 ATTAGGGATTATGA
1 TTTAGGGATTATGA
46695271 TTTA
1 TTTA
46695275 AGTGTTTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (14 bp):
TTTAGGGATTATGA
Found at i:46695303 original size:14 final size:14
Alignment explanation
Indices: 46695286--46695332 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
46695276 GTGTTTGGAT
46695286 TTAATGTTTAGGGG
1 TTAATGTTTAGGGG
* *
46695300 TTAAGGGTTTAGGTG
1 TTAA-TGTTTAGGGG
46695315 TTAGATG-TTAGGGG
1 TTA-ATGTTTAGGGG
46695329 TTAA
1 TTAA
46695333 GAGTTAGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 12 0.44
16 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.40
Consensus pattern (14 bp):
TTAATGTTTAGGGG
Found at i:46695311 original size:15 final size:14
Alignment explanation
Indices: 46695286--46695356 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
46695276 GTGTTTGGAT
*
46695286 TTAATGTTTAGGGG
1 TTAAGGTTTAGGGG
*
46695300 TTAAGGGTTTAGGTG
1 TTAA-GGTTTAGGGG
*
46695315 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
*
46695329 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
46695344 TTAAGGTTTAGGG
1 TTAAGGTTTAGGG
46695357 ATTTAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 2 0.04
14 20 0.44
15 23 0.51
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:46695338 original size:14 final size:14
Alignment explanation
Indices: 46695293--46695341 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
46695283 GATTTAATGT
*
46695293 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGAG
*
46695307 TTTAGGTGTT-AGATG
1 -TTAGGGGTTAAGA-G
46695322 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
46695336 TTAGGG
1 TTAGGG
46695342 ATTTAAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:46695354 original size:29 final size:29
Alignment explanation
Indices: 46695272--46695356 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
46695262 GGATTATGAT
* *
46695272 TTAAGTGTTT-GGATTTAATGTTTAGGGG
1 TTAAGAGTTTAGGATTTAAGGTTTAGGGG
* *
46695300 TTAAGGGTTTAGG-TGTT-AGATGTTAGGGG
1 TTAAGAGTTTAGGAT-TTAAGGT-TTAGGGG
46695329 TTAAGAG-TTAGGGATTTAAGGTTTAGGG
1 TTAAGAGTTTA-GGATTTAAGGTTTAGGG
46695357 ATTTAGGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
28 15 0.33
29 27 0.59
30 4 0.09
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (29 bp):
TTAAGAGTTTAGGATTTAAGGTTTAGGGG
Found at i:46696169 original size:101 final size:99
Alignment explanation
Indices: 46695902--46696285 Score: 362
Period size: 101 Copynumber: 3.7 Consensus size: 99
46695892 ATTTTATAAA
* * * *
46695902 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCAGAGCAAAACGGTGTCATTTTGTTCAA
1 AAATCAATTTATAAAAAA-ATAA-AAAAAA--CTT-GCATAGCAAAACGGCGTCATTTTGTTCAA
*
46695967 AATGAAATAATATTTTGCAGCGTTTTTATGGAAAACGCCGCAAAAAAT
61 AATG--A-AATA----GCGGCGTTTTTAT--AAAACGCCGCAAAAAAT
* * * * *
46696015 AAATTAATTT-TAAAAAAATAAAAAAATCTAGCATAGAAAAACGGTGTCATTTTGTTCAAAATGA
1 AAATCAATTTATAAAAAAATAAAAAAAACTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
46696079 AATAGCGGCGTTTTTGATAAAAGCGCCGCAAAAAAT
66 AATAGCGGCGTTTTT-ATAAAA-CGCCGCAAAAAAT
*
46696115 AAATCAATTTAGT-AAAAAATAAAAAAAAGTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATG
1 AAATCAATTTA-TAAAAAAATAAAAAAAACTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATG
* *
46696179 AAATCGCGGCGTTTTATAAAAAAACGCCGC-AAAAAT
65 AAATAGCGGCGTTTT-T-ATAAAACGCCGCAAAAAAT
* * * *
46696215 AAATCAAATTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGT-AGTTTTGTTCA
1 AAATCAATTTATAAAAAA-ATAA-AAAAAA--CTT-GCATAGCAAAACGGCGTCA-TTTTGTTCA
46696279 AAATGAA
60 AAATGAA
46696286 TTTTTTTTGC
Statistics
Matches: 238, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
99 5 0.02
100 53 0.22
101 71 0.30
102 13 0.05
104 7 0.03
105 33 0.14
107 31 0.13
108 1 0.00
110 5 0.02
111 3 0.01
112 7 0.03
113 9 0.04
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (99 bp):
AAATCAATTTATAAAAAAATAAAAAAAACTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
AATAGCGGCGTTTTTATAAAACGCCGCAAAAAAT
Found at i:46696468 original size:130 final size:128
Alignment explanation
Indices: 46696323--46696580 Score: 471
Period size: 130 Copynumber: 2.0 Consensus size: 128
46696313 CGCCGCTAAA
46696323 GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTTTTAAAAAATAGCCC
1 GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTTTTAAAAAATAGCCC
*
46696388 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATAAATTTTTTTGGCGGCGTTTT
66 CATTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATAAA-TTTTTT-GCGGCGTTTT
*
46696453 GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
1 GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTTTTAAAAAATAGCCC
*
46696518 CATTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAATTTTTTGCGGCGTTTT
66 CATTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATAAATTTTTTGCGGCGTTTT
46696581 TCATAAAAAC
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
128 10 0.08
129 6 0.05
130 109 0.87
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (128 bp):
GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTTTTAAAAAATAGCCC
CATTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATAAATTTTTTGCGGCGTTTT
Found at i:46696706 original size:277 final size:287
Alignment explanation
Indices: 46696253--46697005 Score: 996
Period size: 277 Copynumber: 2.6 Consensus size: 287
46696243 AATTTTTAGA
* *
46696253 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTTT-ATGAGAAACGCC
1 ATAGCAAAACGGCGTAGTTTTATTCAAAATGAA-TTTTTTTGCGGCGTTTTTCAT-AAAAACGCC
* *
46696317 GCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCAACAAAATAATTTTACTTTTAAAAAA
64 GCTAAAGGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAA
46696382 TAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAAT-AAATTTTTTTGGCG
129 TAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTT-GCG
* *
46696446 GCG-TTT-TG-GT-AA-GC-AA-T-AG-CGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTAC
193 GCGTTTTATGAATAAACGCAAAGTAAGACGACGTTTTTGTAAAAAACGCCACAAAATAATTTTAC
46696502 TTTTAAAAAATAGCCCCATTTTAGCATAGC
258 TTTTAAAAAATAGCCCCATTTTAGCATAGC
46696532 ATAGCAAAACGGCGTAGTTTTATTCAAAATGAA-TTTTTTGCGGCGTTTTTCATAAAAACGCCGC
1 ATAGCAAAACGGCGTAGTTTTATTCAAAATGAATTTTTTTGCGGCGTTTTTCATAAAAACGCCGC
46696596 TAAAGGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATA
66 TAAAGGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATA
*
46696661 GCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGTG
131 GCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCG
46696726 TTTTTATGAAAAAATAAAAACGCCGCTAAAGGTAAGCAATAACGACGTTTTTGTAAAAAACGCCA
196 -TTTTATG----AAT--AAA---CGC-AAA-GTAAG-----ACGACGTTTTTGTAAAAAACGCCA
*
46696791 CAAAATAATTTTACTTTTAAAAAATAGCCCCCTTTTAGCATAGC
244 CAAAATAATTTTACTTTTAAAAAATAGCCCCATTTTAGCATAGC
* * * *
46696835 ATAGCAAAACGGTGTAGTTTTATTCAAAATAAAATTTTTTTGCGGCG-TTTGCGTAAAAACGCCG
1 ATAGCAAAACGGCGTAGTTTTATTCAAAAT-GAATTTTTTTGCGGCGTTTTTCATAAAAACGCCG
*
46696899 CTAAAGGTAAGCAATAG-TAC---------AAAAACGCCACAAAATAATTTTACTTTTAAAAAAT
65 CTAAAGGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAAT
* * **
46696954 AG-CCCCTTTTAACATAGCATAACAAAACGGTATAGTTTTATTCAAAATGAAA
130 AGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAA
46697006 AAACTTTTAC
Statistics
Matches: 427, Mismatches: 17, Indels: 46
0.87 0.03 0.09
Matches are distributed among these distances:
277 143 0.33
278 12 0.03
279 35 0.08
280 2 0.00
285 1 0.00
288 2 0.00
292 2 0.00
293 46 0.11
294 39 0.09
296 1 0.00
297 2 0.00
303 96 0.22
304 34 0.08
305 12 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (287 bp):
ATAGCAAAACGGCGTAGTTTTATTCAAAATGAATTTTTTTGCGGCGTTTTTCATAAAAACGCCGC
TAAAGGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATA
GCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCG
TTTTATGAATAAACGCAAAGTAAGACGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTT
TAAAAAATAGCCCCATTTTAGCATAGC
Found at i:46696812 original size:156 final size:150
Alignment explanation
Indices: 46696453--46697005 Score: 823
Period size: 156 Copynumber: 3.8 Consensus size: 150
46696443 GCGGCGTTTT
*
46696453 GGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
1 GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
*
46696518 CATTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATG-AA-TTTTTTGCGGCGTTTT
66 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTT
46696581 T-CATAAAAACGCCGCTAAA
131 TGCATAAAAACGCCGCTAAA
46696600 GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
1 GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
*
46696665 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGTGTTTT
66 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCG-TTT
*
46696730 TATGAAAAAATAAAAACGCCGCTAAA
130 T-TG----CATAAAAACGCCGCTAAA
*
46696756 GGTAAGCAATAACGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
1 GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
* *
46696821 CCTTTTAGCATAGCATAGCAAAACGGTGTAGTTTTATTCAAAATAAAATTTTTTTGCGGCG--TT
66 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTT
*
46696884 TGCGTAAAAACGCCGCTAAA
131 TGCATAAAAACGCCGCTAAA
*
46696904 GGTAAGCAATAG-TAC---------AAAAACGCCACAAAATAATTTTACTTTTAAAAAATAG-CC
1 GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
* * **
46696958 CCTTTTAACATAGCATAACAAAACGGTATAGTTTTATTCAAAATGAAA
66 CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAA
46697006 AAACTTTTAC
Statistics
Matches: 381, Mismatches: 16, Indels: 28
0.90 0.04 0.07
Matches are distributed among these distances:
137 46 0.12
138 37 0.10
147 110 0.29
148 29 0.08
149 11 0.03
150 4 0.01
151 1 0.00
152 2 0.01
153 2 0.01
156 139 0.36
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (150 bp):
GGTAAGCAATAGCGACGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCC
CCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTT
TGCATAAAAACGCCGCTAAA
Found at i:46698432 original size:15 final size:15
Alignment explanation
Indices: 46698412--46698441 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46698402 CTTATAGGTT
*
46698412 TAAATTATTATATAG
1 TAAATTAGTATATAG
46698427 TAAATTAGTATATAG
1 TAAATTAGTATATAG
46698442 AATCATCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:46700653 original size:12 final size:12
Alignment explanation
Indices: 46700633--46700665 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46700623 TTGTTTCAGG
46700633 TTGTATTATTAA
1 TTGTATTATTAA
*
46700645 TTGTGTTATTAA
1 TTGTATTATTAA
46700657 TT-TATTATT
1 TTGTATTATT
46700666 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTATTATTAA
Found at i:46701009 original size:43 final size:43
Alignment explanation
Indices: 46700937--46701018 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
46700927 AGTGGCATTA
* *
46700937 GTGATAAAAGCGCCGCTAAAGCTCGTGGTCTTTAGCGGCGTTT
1 GTGACAAAAGCGCCGCTAAAGCTCATGGTCTTTAGCGGCGTTT
* *
46700980 GTGACAAACGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
1 GTGACAAAAGCGCCGCTAAAGCTCATGGTCTTTAGCGGC
46701019 ATTTTTTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (43 bp):
GTGACAAAAGCGCCGCTAAAGCTCATGGTCTTTAGCGGCGTTT
Found at i:46703490 original size:30 final size:29
Alignment explanation
Indices: 46703433--46703490 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
46703423 TGATTTGAAT
*
46703433 TTTTTAAAAATATTATATAATTTTCATAA
1 TTTTTAAAAATATTATATAATTCTCATAA
*
46703462 TTTTTAATAATGATTATAT-ATTACTCATA
1 TTTTTAAAAAT-ATTATATAATT-CTCATA
46703491 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTTAAAAATATTATATAATTCTCATAA
Found at i:46710294 original size:16 final size:16
Alignment explanation
Indices: 46710273--46710305 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46710263 AATTAATATC
46710273 TTAATTCTGTCTAGTA
1 TTAATTCTGTCTAGTA
*
46710289 TTAATTTTGTCTAGTA
1 TTAATTCTGTCTAGTA
46710305 T
1 T
46710306 CAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (16 bp):
TTAATTCTGTCTAGTA
Found at i:46722337 original size:18 final size:17
Alignment explanation
Indices: 46722286--46722337 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
46722276 CCCGGCCCAA
* *
46722286 TTTTAAATT-TATAATA
1 TTTTATATTATATAATT
* *
46722302 TTTTATATTATGTTATT
1 TTTTATATTATATAATT
46722319 TTTATATATTATATAATT
1 TTT-TATATTATATAATT
46722337 T
1 T
46722338 ATAACACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:46730389 original size:2 final size:2
Alignment explanation
Indices: 46730384--46730412 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46730374 TAACAAAAAA
46730384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46730413 ACTTAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46733049 original size:17 final size:18
Alignment explanation
Indices: 46733013--46733056 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
46733003 TGAGGAAGGT
46733013 AATAAAATGTACATAAAA
1 AATAAAATGTACATAAAA
*
46733031 AATAAAATGTATA-AAAA
1 AATAAAATGTACATAAAA
46733048 AATCAAAAT
1 AAT-AAAAT
46733057 AAATCTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
AATAAAATGTACATAAAA
Found at i:46733817 original size:7 final size:7
Alignment explanation
Indices: 46733756--46733816 Score: 104
Period size: 7 Copynumber: 8.7 Consensus size: 7
46733746 AAAGTATTTT
46733756 AAAATTA
1 AAAATTA
46733763 AAAATTA
1 AAAATTA
46733770 AAAATTA
1 AAAATTA
46733777 AAAATTA
1 AAAATTA
46733784 AAAATTA
1 AAAATTA
46733791 AAAATTA
1 AAAATTA
*
46733798 AAAAATA
1 AAAATTA
*
46733805 AAAATAA
1 AAAATTA
46733812 AAAAT
1 AAAAT
46733817 ATATATTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:46734896 original size:3 final size:3
Alignment explanation
Indices: 46734888--46734944 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
46734878 TTCTTTTTAT
* *
46734888 TTA TTA TTA TTA TT- TTA TGA TTA TT- TTA TTA TT- TTG TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46734932 TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TT
46734945 TTCACAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 10 0.22
3 36 0.78
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:46734905 original size:11 final size:11
Alignment explanation
Indices: 46734891--46734946 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
46734881 TTTTTATTTA
46734891 TTATTATTATT
1 TTATTATTATT
*
46734902 TTATGATTATT
1 TTATTATTATT
46734913 TTATTATT-TT
1 TTATTATTATT
46734923 GTTATT-TTATT
1 -TTATTATTATT
46734934 ATTATT-TTATT
1 -TTATTATTATT
46734945 TT
1 TT
46734947 CACAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 6 0.15
11 34 0.85
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (11 bp):
TTATTATTATT
Found at i:46734918 original size:8 final size:8
Alignment explanation
Indices: 46734887--46734946 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
46734877 TTTCTTTTTA
46734887 TTTATTAT
1 TTTATTAT
46734895 TATTATT-T
1 T-TTATTAT
*
46734903 TATGATTAT
1 T-TTATTAT
46734912 TTTATTAT
1 TTTATTAT
*
46734920 TTTGTTAT
1 TTTATTAT
46734928 TTTATTAT
1 TTTATTAT
46734936 TATT-TTAT
1 T-TTATTAT
46734944 TTT
1 TTT
46734947 CACAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
7 2 0.04
8 34 0.76
9 9 0.20
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (8 bp):
TTTATTAT
Found at i:46735132 original size:18 final size:16
Alignment explanation
Indices: 46735115--46735144 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46735105 TCATTTTTTA
46735115 TTAT-TTTATATATAT
1 TTATATTTATATATAT
46735130 TTATATTTATATATA
1 TTATATTTATATATA
46735145 CGTGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTATATATAT
Found at i:46736695 original size:16 final size:16
Alignment explanation
Indices: 46736674--46736707 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46736664 TGTGTTTCAC
46736674 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
46736690 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
46736706 TT
1 TT
46736708 CATTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGGCAT
Found at i:46737175 original size:19 final size:19
Alignment explanation
Indices: 46737151--46737195 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46737141 CGTCTCTTTC
* *
46737151 TGCATT-CATTTCATGCATT
1 TGCATTACATTACAT-CATA
46737170 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
46737189 TGCATTA
1 TGCATTA
46737196 AAGACTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:46739072 original size:25 final size:24
Alignment explanation
Indices: 46739044--46739097 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
46739034 CTTACGATCA
*
46739044 TTTTTGAACCAA-TATTCTTTCAGTT
1 TTTTTGAA-CAATTATTATTTCA-TT
*
46739069 TTTTTGAATAATTATTATTTCATT
1 TTTTTGAACAATTATTATTTCATT
46739093 TTTTT
1 TTTTT
46739098 AGATTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTTTGAACAATTATTATTTCATT
Found at i:46740483 original size:17 final size:16
Alignment explanation
Indices: 46740454--46740492 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
46740444 GAGGATTTTT
46740454 TTATATTATTTAATAA
1 TTATATTATTTAATAA
46740470 TTATATTCATTTAATAA
1 TTATATT-ATTTAATAA
46740487 TTATAT
1 TTATAT
46740493 AAATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTATTTAATAA
Found at i:46746245 original size:110 final size:109
Alignment explanation
Indices: 46746034--46746354 Score: 394
Period size: 110 Copynumber: 2.9 Consensus size: 109
46746024 TTCAAAAAAG
* * *
46746034 AAAATTTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAATTTT-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
46746099 GGTTTCGATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTA
65 GGTTTCGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTA
* *
46746144 AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAATGTGCTG
1 AAAATTTTAAAATAAGGCAATATTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
46746209 GGTGTCGATTTTTCTCATTCAACCAAAT-GACTAAATATCATTTTA
65 GGTTTCGATTTTTCTCATTCGACCAAATAG-CCAAATATCATTTTA
** * ** * ** * *
46746254 AAAATTTCGAAGTAAGATAATATTTTGTGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGG
1 AAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* *
46746319 GTTTAGATTTTTC-CATTTGACCAAATAGCCAAATAT
66 GTTTCGATTTTTCTCATTCGACCAAATAGCCAAATAT
46746355 TCTCTTAAAT
Statistics
Matches: 180, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
108 18 0.10
109 62 0.34
110 100 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (109 bp):
AAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
GTTTCGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTA
Found at i:46749193 original size:13 final size:13
Alignment explanation
Indices: 46749175--46749200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46749165 ACCCCAGATG
46749175 GCACAATGCGAAT
1 GCACAATGCGAAT
46749188 GCACAATGCGAAT
1 GCACAATGCGAAT
46749201 ATCATGCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
GCACAATGCGAAT
Found at i:46750482 original size:13 final size:14
Alignment explanation
Indices: 46750462--46750506 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
46750452 AAAAAGAAAG
46750462 AAAA-GAAAAATG-
1 AAAATGAAAAATGA
*
46750474 AGAATGAAAAATGA
1 AAAATGAAAAATGA
46750488 AAAATG-AAAATGA
1 AAAATGAAAAATGA
46750501 AAAATG
1 AAAATG
46750507 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 3 0.10
13 21 0.72
14 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (14 bp):
AAAATGAAAAATGA
Found at i:46750488 original size:7 final size:7
Alignment explanation
Indices: 46750462--46750506 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
46750452 AAAAAGAAAG
46750462 AAAA-GA
1 AAAATGA
46750468 AAAATG-
1 AAAATGA
*
46750474 AGAATGA
1 AAAATGA
46750481 AAAATGA
1 AAAATGA
46750488 AAAATG-
1 AAAATGA
46750494 AAAATGA
1 AAAATGA
46750501 AAAATG
1 AAAATG
46750507 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 15 0.44
7 19 0.56
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (7 bp):
AAAATGA
Found at i:46750491 original size:20 final size:20
Alignment explanation
Indices: 46750462--46750506 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
46750452 AAAAAGAAAG
*
46750462 AAAA-GAAAAATGAGAATGA
1 AAAATGAAAAATGAAAATGA
46750481 AAAATGAAAAATGAAAATGA
1 AAAATGAAAAATGAAAATGA
46750501 AAAATG
1 AAAATG
46750507 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAATGAAAAATGAAAATGA
Found at i:46751935 original size:86 final size:86
Alignment explanation
Indices: 46751746--46752393 Score: 994
Period size: 86 Copynumber: 7.5 Consensus size: 86
46751736 CAATGAAGTT
* * *
46751746 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTACCTCTCTTGGT
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGTT
* * * *
46751811 TATA-CTGAAGCTGGTTAAAGACA
64 TGTAGCAG-AGCTGGTTGAAGATA
* * * *
46751834 ACAGATCTTGCCTTCCTGTATTTACAGCGAAGCAAATCGAAGACAAACCTTGCCTCTCTCGTTTA
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
46751899 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
*
46751920 GCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
*
46751985 TAGCAGAGCTGGTTGAAGACA
66 TAGCAGAGCTGGTTGAAGATA
* * * *
46752006 ACAGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATCAAAGGCAAACCTTGCCTCTCTCATTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
46752071 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
* *
46752092 GCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCATTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
* *
46752157 TAGTAGAGCTGGTTGAAGACA
66 TAGCAGAGCTGGTTGAAGATA
* *
46752178 ACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTACCTCTCTCGTTTG
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
46752243 TAGCAGAGCTGGTTGAAGATA
66 TAGCAGAGCTGGTTGAAGATA
*
46752264 GA-AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTT
1 -ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTT
46752328 GTAGCAGAGCTGGTTGAAGATA
65 GTAGCAGAGCTGGTTGAAGATA
* * * *
46752350 ACAGATCTTGCCTTCCTGCATTGGCAGTGAAGTAGGTCGAAGAC
1 ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
46752394 GGTGGATTTT
Statistics
Matches: 518, Mismatches: 39, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
85 1 0.00
86 475 0.92
87 3 0.01
88 39 0.08
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (86 bp):
ACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGTTTG
TAGCAGAGCTGGTTGAAGATA
Found at i:46752616 original size:130 final size:130
Alignment explanation
Indices: 46752383--46752771 Score: 462
Period size: 130 Copynumber: 3.0 Consensus size: 130
46752373 GCAGTGAAGT
* * * *
46752383 AGGTCGAAGACGGTGGATTTTACCTCCCTGATTTCGGTGGAGTACATTGAAGCCAATAGTTTTAT
1 AGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCCAATAGTTCTAT
* * *
46752448 CTCCCTGGGCAACAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
66 CTCACTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
* ***
46752513 AGGTCGAAGATGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTAT
1 AGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCCAATAGTTCTAT
***
46752578 CTCACTGGTTGACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
66 CTCACTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
* * ** * * *
46752643 AGGTCGAATATGACAAATTTTACCTCCCTGATTACGGTGGAGTATATTGAAGCCAGTAGATCTTA
1 AGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCCAATAGTTC-TA
* ** ** ** * * *
46752708 TCTCCCTAAGCAGTAGTGGAGCAGATC--ACATT-CAG-TCTTATCTTCCTAAGCAGTAGTGGAG
65 TCTCACTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAG
46752769 C
130 C
46752770 AG
1 AG
46752772 ACTAAAAACA
Statistics
Matches: 222, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
127 27 0.12
128 3 0.01
129 4 0.02
130 169 0.76
131 19 0.09
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (130 bp):
AGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTGAAGCCAATAGTTCTAT
CTCACTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
Found at i:46754240 original size:23 final size:23
Alignment explanation
Indices: 46754214--46754286 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
46754204 AGTGCCACAT
46754214 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
46754237 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
46754260 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
46754283 TGAT
1 TGAT
46754287 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:46760353 original size:23 final size:23
Alignment explanation
Indices: 46760327--46760399 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
46760317 AGTGCCACAT
46760327 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
46760350 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
46760373 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
46760396 TGAT
1 TGAT
46760400 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:46761756 original size:17 final size:17
Alignment explanation
Indices: 46761734--46761768 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46761724 ATCACATAAA
46761734 CCCTAGCCCAAACCTAC
1 CCCTAGCCCAAACCTAC
46761751 CCCTAGCCCAAACCTAC
1 CCCTAGCCCAAACCTAC
46761768 C
1 C
46761769 AACCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.06, T:0.11
Consensus pattern (17 bp):
CCCTAGCCCAAACCTAC
Found at i:46763949 original size:110 final size:109
Alignment explanation
Indices: 46763738--46764058 Score: 394
Period size: 110 Copynumber: 2.9 Consensus size: 109
46763728 TTCAAAAAAG
* ** * *
46763738 AAAATTTTCTAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAATTTT-AAAATAAGATAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
46763803 GGTTTCGATTTTTCTCGTTCGACCTAATAGCCAAATATCCTTTTA
65 GGTTTCGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTA
* *
46763848 AAAATTTTAAAATAAGATAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAATGTGCTG
1 AAAATTTTAAAATAAGATAATATTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
46763913 GGTGTCGATTTTTCTCATTCAACCAAAT-GACTAAATATCATTTTA
65 GGTTTCGATTTTTCTCATTCGACCAAATAG-CCAAATATCATTTTA
** * * ** * *
46763958 AAAATTTCGAAGTAAGATAATATTTTGTGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGG
1 AAAATTTTAAAATAAGATAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* *
46764023 GTTTAGATTTTTC-CATTTGACCAAATAGCCAAATAT
66 GTTTCGATTTTTCTCATTCGACCAAATAGCCAAATAT
46764059 TCTCTTAAAT
Statistics
Matches: 180, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
108 18 0.10
109 60 0.33
110 102 0.57
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (109 bp):
AAAATTTTAAAATAAGATAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
GTTTCGATTTTTCTCATTCGACCAAATAGCCAAATATCATTTTA
Found at i:46779218 original size:22 final size:20
Alignment explanation
Indices: 46779193--46779232 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
46779183 TTTGTTTCAA
46779193 ATCTTAAATTTGATTTATATTT
1 ATCTTAAATTT--TTTATATTT
46779215 ATCTTAAATTTTTTATAT
1 ATCTTAAATTTTTTATAT
46779233 GAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (20 bp):
ATCTTAAATTTTTTATATTT
Found at i:46790131 original size:38 final size:38
Alignment explanation
Indices: 46790087--46790162 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
46790077 AATCTATGTT
46790087 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
1 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
46790125 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
1 AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
46790163 TATTTTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (38 bp):
AGTTCCAGATTTTCAGTTTAATTGAATAAGTTGTTAGC
Found at i:46794998 original size:15 final size:14
Alignment explanation
Indices: 46794972--46795014 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
46794962 AGTTTTAAAA
*
46794972 ATAAAGAATTAAATT
1 ATAAA-AATTAAATG
*
46794987 ATGATAAATTAAATG
1 AT-AAAAATTAAATG
46795002 ATAAAAATTAAAT
1 ATAAAAATTAAAT
46795015 CTTAAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.42
15 12 0.50
16 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATAAAAATTAAATG
Found at i:46810134 original size:12 final size:12
Alignment explanation
Indices: 46810117--46810141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46810107 TTTAACATAA
46810117 TGAAATATATAT
1 TGAAATATATAT
46810129 TGAAATATATAT
1 TGAAATATATAT
46810141 T
1 T
46810142 TTCATCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TGAAATATATAT
Found at i:46818665 original size:5 final size:5
Alignment explanation
Indices: 46818655--46818694 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
46818645 TTCTTCGTGT
*
46818655 TTTTA TTTTA TTTTA -TTTA TTTTA TCTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
46818695 ATATATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:46818679 original size:19 final size:19
Alignment explanation
Indices: 46818655--46818691 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46818645 TTCTTCGTGT
*
46818655 TTTTATTTTATTTTATTTA
1 TTTTATCTTATTTTATTTA
46818674 TTTTATCTTATTTTATTT
1 TTTTATCTTATTTTATTT
46818692 TATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATCTTATTTTATTTA
Found at i:46819379 original size:20 final size:20
Alignment explanation
Indices: 46819351--46819400 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 20
46819341 AGCAAAGTCA
46819351 AAGAAAAAAACAGCAAGCAAA-
1 AAGAAAAAAA-A-CAAGCAAAG
46819372 AAGCAAAAAAAACAAGCAAAG
1 AAG-AAAAAAAACAAGCAAAG
46819393 AAGAAAAA
1 AAGAAAAA
46819401 GAGAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 13 0.48
21 7 0.26
22 7 0.26
ACGTcount: A:0.74, C:0.12, G:0.14, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAACAAGCAAAG
Found at i:46819498 original size:7 final size:7
Alignment explanation
Indices: 46819483--46819570 Score: 61
Period size: 7 Copynumber: 12.3 Consensus size: 7
46819473 GGCTGAACGG
*
46819483 AGAAGAA
1 AGAAAAA
46819490 AGAAAAA
1 AGAAAAA
46819497 AGAAAAGA
1 AGAAAA-A
46819505 AGAAAGAA
1 AGAAA-AA
*
46819513 AGAAGAA
1 AGAAAAA
* * *
46819520 ACAGAGA
1 AGAAAAA
*
46819527 AGAAAGA
1 AGAAAAA
46819534 AGAAAAA
1 AGAAAAA
46819541 A-AAAGAA
1 AGAAA-AA
46819548 AGAAAAA
1 AGAAAAA
***
46819555 AGGGGAA
1 AGAAAAA
46819562 AGAAAAA
1 AGAAAAA
46819569 AG
1 AG
46819571 GGGAAAGAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
6 3 0.05
7 44 0.71
8 14 0.23
9 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:46819501 original size:11 final size:11
Alignment explanation
Indices: 46819485--46819570 Score: 84
Period size: 11 Copynumber: 7.3 Consensus size: 11
46819475 CTGAACGGAG
46819485 AAGAAAGAAAA
1 AAGAAAGAAAA
*
46819496 AAGAAAAGAAGA
1 AAG-AAAGAAAA
46819508 AAGAAAGAAGAA
1 AAGAAAGAA-AA
*
46819520 ACAGAGAAGAAAG
1 A-AGA-AAGAAAA
46819533 AAGAAA-AAAA
1 AAGAAAGAAAA
46819543 AAGAAAGAAAA
1 AAGAAAGAAAA
46819554 AAGGGGAAAGAAAA
1 AA---GAAAGAAAA
46819568 AAG
1 AAG
46819571 GGGAAAGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.14
11 18 0.29
12 15 0.24
13 5 0.08
14 16 0.25
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:46819518 original size:14 final size:14
Alignment explanation
Indices: 46819483--46819582 Score: 85
Period size: 14 Copynumber: 7.0 Consensus size: 14
46819473 GGCTGAACGG
46819483 AGAAGAAAGAAAAA
1 AGAAGAAAGAAAAA
*
46819497 AGAAAAGAAGAAAGAA
1 AGAAGA-AAGAAA-AA
* * *
46819513 AGAAGAAACAGAGA
1 AGAAGAAAGAAAAA
46819527 AGAA-AGAAGAAAAA
1 AGAAGA-AAGAAAAA
*
46819541 AAAAGAAAGAAAAA
1 AGAAGAAAGAAAAA
**
46819555 AGGGGAAAGAAAAA
1 AGAAGAAAGAAAAA
**
46819569 AGGGGAAAGAAAAA
1 AGAAGAAAGAAAAA
46819583 TAAAAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
13 1 0.01
14 51 0.73
15 11 0.16
16 7 0.10
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAGAAAGAAAAA
Found at i:46819566 original size:4 final size:4
Alignment explanation
Indices: 46819485--46819556 Score: 61
Period size: 4 Copynumber: 19.8 Consensus size: 4
46819475 CTGAACGGAG
* *
46819485 AAGA AAGA AA-A AAGA AA-A GAAGA AAGA AAG- AAGA AACA GAG- AAGA
1 AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA
46819530 AAG- AAGA AA-A AA-A AAGA AAGA AA-A AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
46819557 GGGAAAGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
3 21 0.38
4 34 0.61
5 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:46819736 original size:23 final size:24
Alignment explanation
Indices: 46819677--46819743 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 24
46819667 AAAAAAAACC
*
46819677 AAAATAGAA-AAAGAAGCAGCAGA
1 AAAAAAGAAGAAAGAAGCAGCAGA
46819700 AAAAAAGAAAGAAAGAAGCAG-A-A
1 AAAAAAG-AAGAAAGAAGCAGCAGA
46819723 AAAAGAAGAAGAAAGAAGCAG
1 AAAA-AAGAAGAAAGAAGCAG
46819744 TCCAGCAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 24 0.60
24 6 0.15
25 10 0.25
ACGTcount: A:0.69, C:0.06, G:0.24, T:0.01
Consensus pattern (24 bp):
AAAAAAGAAGAAAGAAGCAGCAGA
Found at i:46819941 original size:13 final size:14
Alignment explanation
Indices: 46819925--46819954 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46819915 TGGGTAAATT
46819925 TTTTA-TCCATTTA
1 TTTTAGTCCATTTA
46819938 TTTTAGTCCATTTA
1 TTTTAGTCCATTTA
46819952 TTT
1 TTT
46819955 AAATATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.13, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTAGTCCATTTA
Found at i:46820354 original size:17 final size:17
Alignment explanation
Indices: 46820327--46820372 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
46820317 AAAAAAATCG
46820327 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
46820344 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
46820362 TGTTTCAAAAT
1 TGTTTCAAAAT
46820373 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:46820458 original size:17 final size:18
Alignment explanation
Indices: 46820430--46820521 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 18
46820420 TTCTTTTTTA
46820430 AAAAATTC-CGTG-TTTC
1 AAAAATTCTCGTGATTTC
***
46820446 AAAAATTCTCGTGAATAAAA
1 AAAAATTCTCGTG-AT-TTC
*
46820466 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTGATTTC
* *
46820483 -AAAATTCCCGTG-TTTGA
1 AAAAATTCTCGTGATTT-C
*
46820500 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTGATTTC
46820517 AAAAA
1 AAAAA
46820522 AAAATTTCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
16 17 0.30
17 17 0.30
18 10 0.18
19 6 0.11
20 7 0.12
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (18 bp):
AAAAATTCTCGTGATTTC
Found at i:46820503 original size:36 final size:34
Alignment explanation
Indices: 46820429--46820520 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 34
46820419 TTTCTTTTTT
* *
46820429 AAAAAATTCCGTG-TTTCAAAAATTCTCGTGAATAAA
1 AAAAAATTTCGTGTTTTC-AAAATTCCCGTGAAT--A
** *
46820465 AAAAAATTTCGTGTTTTCAAAATTCCCGTGTTTG
1 AAAAAATTTCGTGTTTTCAAAATTCCCGTGAATA
46820499 AAAAAATTTCGTGTTTTCAAAA
1 AAAAAATTTCGTGTTTTCAAAA
46820521 AAAAATTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 22 0.44
36 24 0.48
37 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (34 bp):
AAAAAATTTCGTGTTTTCAAAATTCCCGTGAATA
Found at i:46820577 original size:19 final size:19
Alignment explanation
Indices: 46820554--46820840 Score: 103
Period size: 18 Copynumber: 15.4 Consensus size: 19
46820544 TTTGATGTTA
46820554 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* * * * *
46820573 CCGTG-TTTGACAAATTTT
1 TCGTGTTTTCAAAAAATTC
46820591 TC-TGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* *
46820609 TCGTGTTTTCAAAATTTTCATGTTT
1 TCGTGTTTTCAAAA-----A-ATTC
46820634 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
*
46820653 TCGTGTTTTTAAAAAAAATT-
1 TCGTG-TTTT-CAAAAAATTC
**
46820673 TCGTG-TTT-AAAAAA-AA
1 TCGTGTTTTCAAAAAATTC
* *
46820689 TCATGTTTTC--AAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
46820706 TCGTGTTTTC-AAAATTTT
1 TCGTGTTTTCAAAAAATTC
46820724 TCGTG---TCAAAAAAATTC
1 TCGTGTTTTC-AAAAAATTC
* * * *
46820741 TCATG-TATCGAAAATTTC
1 TCGTGTTTTCAAAAAATTC
46820759 -CGTGTTTTCAAAAAAAAATT-
1 TCGTGTTTTC---AAAAAATTC
*
46820779 TCGTG-TTTC-AAAGA-TC
1 TCGTGTTTTCAAAAAATTC
*
46820795 TTCGTGTTTTCAAAAATTATTA
1 -TCGTGTTTTCAAAAA--ATTC
*
46820817 TTGTG-TTTC--AAAATTC
1 TCGTGTTTTCAAAAAATTC
46820833 TCGTGTTT
1 TCGTGTTT
46820841 AAAAACAAAA
Statistics
Matches: 200, Mismatches: 36, Indels: 66
0.66 0.12 0.22
Matches are distributed among these distances:
15 3 0.01
16 25 0.12
17 34 0.17
18 52 0.26
19 27 0.14
20 18 0.09
21 23 0.12
22 1 0.00
24 1 0.00
25 16 0.08
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
TCGTGTTTTCAAAAAATTC
Found at i:46820597 original size:36 final size:36
Alignment explanation
Indices: 46820557--46820635 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
46820547 GATGTTATCG
*
46820557 TGTTTTCAAAAAATTCCCGTGTTTGACAAATTTTTC-
1 TGTTTTCAAAAAATTCCCGTGTTT-ACAAAATTTTCA
* *
46820593 TGTTTTCAAAAAATTCTCGTGTTTTCAAAATTTTCA
1 TGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCA
46820629 TGTTTTC
1 TGTTTTC
46820636 GTGTTTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (36 bp):
TGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCA
Found at i:46820659 original size:27 final size:25
Alignment explanation
Indices: 46820609--46820661 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
46820599 CAAAAAATTC
*
46820609 TCGTGTTTTCAAAATTTTCATGTTT
1 TCGTGTTTTCAAAATTCTCATGTTT
*
46820634 TCGTGTTTTCAAAAAATTCTCGTGTTT
1 TCGTGTTTTC--AAAATTCTCATGTTT
46820661 T
1 T
46820662 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
27 14 0.58
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (25 bp):
TCGTGTTTTCAAAATTCTCATGTTT
Found at i:46820667 original size:20 final size:18
Alignment explanation
Indices: 46820632--46820729 Score: 76
Period size: 17 Copynumber: 5.4 Consensus size: 18
46820622 ATTTTCATGT
*
46820632 TTTCGTGTTTTCAAAAAA
1 TTTCGTGTTTTAAAAAAA
46820650 TTCTCGTGTTTTTAAAAAAAA
1 TT-TCGTG-TTTT-AAAAAAA
46820671 TTTCGTG-TTTAAAAAAA
1 TTTCGTGTTTTAAAAAAA
* * * *
46820688 -ATCATGTTTT-CAAAAT
1 TTTCGTGTTTTAAAAAAA
* **
46820704 TTTCGTGTTTTCAAAATT
1 TTTCGTGTTTTAAAAAAA
46820722 TTTCGTGT
1 TTTCGTGT
46820730 CAAAAAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.12
17 18 0.28
18 17 0.26
19 5 0.08
20 9 0.14
21 8 0.12
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTCGTGTTTTAAAAAAA
Found at i:46820685 original size:80 final size:79
Alignment explanation
Indices: 46820543--46820715 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 79
46820533 TGGATATTTT
* * * * ** **
46820543 TTTTGATGTTATCGTGTTTTCAAAAAATTCCCGTGTTTGACAAATTTTTCTGTTTTCAAAAAATT
1 TTTTCATGTTTTCGTGTTTTCAAAAAATTCCCGTGTTTAAAAAAAATTTCTGTTTT-AAAAAAAA
* *
46820608 CTCGTGTTTTCAAAA
65 ATCATGTTTTCAAAA
*
46820623 TTTTCATGTTTTCGTGTTTTCAAAAAATTCTCGTGTTTTTAAAAAAAATTTC-GTGTTT-AAAAA
1 TTTTCATGTTTTCGTGTTTTCAAAAAATTCCCGTG--TTTAAAAAAAATTTCTGT-TTTAAAAAA
46820686 AAATCATGTTTTCAAAA
63 AAATCATGTTTTCAAAA
*
46820703 TTTTCGTGTTTTC
1 TTTTCATGTTTTC
46820716 AAAATTTTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
80 62 0.79
81 2 0.03
82 14 0.18
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (79 bp):
TTTTCATGTTTTCGTGTTTTCAAAAAATTCCCGTGTTTAAAAAAAATTTCTGTTTTAAAAAAAAA
TCATGTTTTCAAAA
Found at i:46820726 original size:18 final size:17
Alignment explanation
Indices: 46820692--46820840 Score: 77
Period size: 17 Copynumber: 8.3 Consensus size: 17
46820682 AAAAAAATCA
46820692 TGTTTTCAAAATTTTCG
1 TGTTTTCAAAATTTTCG
46820709 TGTTTTCAAAATTTTTCG
1 TGTTTTCAAAA-TTTTCG
**** * *
46820727 TGTCAAAAAAATTCTCA
1 TGTTTTCAAAATTTTCG
* *
46820744 TG-TATCGAAAATTTCCG
1 TGTTTTC-AAAATTTTCG
*
46820761 TGTTTTCAAAAAAAAATTTCG
1 TGTTTTC----AAAATTTTCG
*
46820782 TG-TTTCAAAGATCTTCG
1 TGTTTTCAAA-ATTTTCG
**
46820799 TGTTTTCAAAAATTATTAT
1 TGTTTTC-AAAATT-TTCG
*
46820818 TGTGTTTCAAAATTCTCG
1 TGT-TTTCAAAATTTTCG
46820836 TGTTT
1 TGTTT
46820841 AAAAACAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
16 4 0.04
17 35 0.36
18 26 0.27
19 14 0.14
20 8 0.08
21 10 0.10
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:46820787 original size:20 final size:22
Alignment explanation
Indices: 46820751--46820790 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
46820741 TCATGTATCG
46820751 AAAATTTCCGTGTTTTCAAAAA
1 AAAATTTCCGTGTTTTCAAAAA
46820773 AAAATTT-CGTG-TTTCAAA
1 AAAATTTCCGTGTTTTCAAA
46820791 GATCTTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAATTTCCGTGTTTTCAAAAA
Found at i:46820823 original size:38 final size:37
Alignment explanation
Indices: 46820632--46820840 Score: 111
Period size: 38 Copynumber: 5.7 Consensus size: 37
46820622 ATTTTCATGT
*
46820632 TTTCGTGTTTTCAAAAAATTCTCGTGTTTT-TAAAAAAAA
1 TTTCGTG-TTTC--AAAATTCTCGTGTTTTCAAAAAAAAA
* *** * *
46820671 TTTCGTGTTTAAAAAAAATCATGTTTTC----AAAAT
1 TTTCGTGTTTCAAAATTCTCGTGTTTTCAAAAAAAAA
*
46820704 TTTCGTGTTTTCAAAATTTTTCGTG---TC--AAAAAAA
1 TTTCGTG-TTTCAAAA-TTCTCGTGTTTTCAAAAAAAAA
* *
46820738 TTCTCATGTATCGAAAATT-TCCGTGTTTTCAAAAAAAAA
1 TT-TCGTGTTTC-AAAATTCT-CGTGTTTTCAAAAAAAAA
**
46820777 TTTCGTGTTTCAAAGA-TCTTCGTGTTTTC-AAAAATTA
1 TTTCGTGTTTCAAA-ATTC-TCGTGTTTTCAAAAAAAAA
*
46820814 TTATTGTGTTTCAAAATTCTCGTGTTT
1 TT-TCGTGTTTCAAAATTCTCGTGTTT
46820841 AAAAACAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
32 2 0.02
33 12 0.09
34 22 0.17
35 12 0.09
36 12 0.09
37 23 0.17
38 33 0.25
39 17 0.13
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTCGTGTTTCAAAATTCTCGTGTTTTCAAAAAAAAA
Found at i:46821615 original size:34 final size:34
Alignment explanation
Indices: 46821572--46821640 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
46821562 GATGTTAAAT
*
46821572 TTACTCATAGATCCGGATAGATCAAATATGGAGC
1 TTACTCATAGATCCGGATAGATCAAATACGGAGC
*
46821606 TTACTCATAGATCTGGATAGATCAAATACGGAGC
1 TTACTCATAGATCCGGATAGATCAAATACGGAGC
46821640 T
1 T
46821641 ATATCGAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (34 bp):
TTACTCATAGATCCGGATAGATCAAATACGGAGC
Found at i:46823584 original size:140 final size:140
Alignment explanation
Indices: 46823332--46823744 Score: 521
Period size: 140 Copynumber: 3.0 Consensus size: 140
46823322 GTCGGCACAA
* * * * *
46823332 TGTTGGACAAAGCTGACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAGCCTTTATACAA
1 TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
* * * *
46823397 AGA-TTGGGTCAAAGCGTATGCCGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCCCAAAAG
66 AGAGTT-GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAG
*
46823461 TGT-TGACATAG
130 TGTCGGA-ATAG
*
46823472 TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
1 TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
* * * * *
46823537 AGAGTTGACCAAGGTGTATGTCGGTAAGTCTATCCGAACACTTAGGAAAGTGTCGACCCAAAAGT
66 AGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
46823602 GTCGGAATAG
131 GTCGGAATAG
* * * * *
46823612 TATTGGATAAAGTCGA-TTCTTATTTAAACATT-TCCTTAGGCATGCATATCCCAAGCC-TTATA
1 TGTTGGACAAAGTTGACTT-TTATTTAAGCGTTGT-CTTAGGCATGCATATCCCAA-CCTTTATA
* * **
46823674 CAAAGAGTTGGCCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAAAAAAGTGTCGACCCAAA
63 CAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAA
46823739 AGTGTC
128 AGTGTC
46823745 ACCTTAAGAC
Statistics
Matches: 237, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
139 3 0.01
140 228 0.96
141 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (140 bp):
TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
AGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
GTCGGAATAG
Found at i:46824064 original size:8 final size:8
Alignment explanation
Indices: 46824051--46824116 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
46824041 CACAAAATAT
46824051 ATATTATA
1 ATATTATA
46824059 ATATTATA
1 ATATTATA
46824067 ATATTAT-
1 ATATTATA
*
46824074 ATGTTA-A
1 ATATTATA
*
46824081 TTATTA-A
1 ATATTATA
*
46824088 GTATATATATT
1 --ATAT-TATA
46824099 ATATTAT-
1 ATATTATA
46824106 ATATTATA
1 ATATTATA
46824114 ATA
1 ATA
46824117 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:46824101 original size:7 final size:7
Alignment explanation
Indices: 46824048--46824113 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
46824038 GGCCACAAAA
46824048 TATATAT
1 TATATAT
46824055 TATAATAT
1 TAT-ATAT
46824063 TATAATAT
1 TAT-ATAT
*
46824071 TATATGT
1 TATATAT
46824078 TA-ATTAT
1 TATA-TAT
46824085 TAAGTATAT
1 T-A-TATAT
46824094 ATATTATAT
1 -TA-TATAT
46824103 TATATAT
1 TATATAT
46824110 TATA
1 TATA
46824114 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:46824126 original size:30 final size:32
Alignment explanation
Indices: 46824058--46824126 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
46824048 TATATATTAT
* *
46824058 AATATTATAATATTATATGTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
46824091 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
46824121 AATATA
1 AATATA
46824127 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:46824917 original size:15 final size:15
Alignment explanation
Indices: 46824897--46824946 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
46824887 TGATGAATTT
46824897 ATTGAATTTATATTG
1 ATTGAATTTATATTG
46824912 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
46824929 ATTGAATATATATTG
1 ATTGAATTTATATTG
46824944 ATT
1 ATT
46824947 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:46824987 original size:29 final size:28
Alignment explanation
Indices: 46824929--46824992 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
46824919 TGGTATATAT
*
46824929 ATTGAATATATATTGATTATTTGAATTGA
1 ATTGAATATATATTGA-TATTTGAAGTGA
*
46824958 ATTGAATATATGTTG-TATTTGAAAAGTGA
1 ATTGAATATATATTGATATTTG--AAGTGA
46824987 ATTGAA
1 ATTGAA
46824993 ACCCTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
29 25 0.81
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (28 bp):
ATTGAATATATATTGATATTTGAAGTGA
Found at i:46825073 original size:41 final size:38
Alignment explanation
Indices: 46825027--46825157 Score: 99
Period size: 41 Copynumber: 3.3 Consensus size: 38
46825017 GTCGGATGTA
46825027 GATGAGACACTAGGTGTTAATTTACTACTTCGGATTAATTC
1 GATGAGACACT-GGTGTTAATTTA-TACTTCGGATT-ATTC
* ** * **
46825068 GATGAGGCACTGGGTGCCAATTTAT--TTCGGTTTAGCC
1 GATGAGACACT-GGTGTTAATTTATACTTCGGATTATTC
*
46825105 GATGAGACACTGAGTGTCT-ATTTATTACTTCGAATTATTC
1 GATGAGACACTG-GTGT-TAATTTA-TACTTCGGATTATTC
46825145 GATGATG-CACTGG
1 GATGA-GACACTGG
46825158 GTGCCAAACT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
36 1 0.01
37 20 0.29
38 8 0.11
39 1 0.01
40 19 0.27
41 21 0.30
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (38 bp):
GATGAGACACTGGTGTTAATTTATACTTCGGATTATTC
Found at i:46827958 original size:96 final size:96
Alignment explanation
Indices: 46827794--46827987 Score: 275
Period size: 96 Copynumber: 2.0 Consensus size: 96
46827784 TATTATCTAT
* * * *
46827794 ATATATGTAATGAGTAACTAAGCTTTACTCGTATAGTATTCAATATGTTATCCAGTCTTTTGCAA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
46827859 CAAAATGGGGG-CACCGCCTCACATTTCGATC
66 CAAAA-GGGGGACACCGCCTCACATTTCGATC
* *
46827890 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATTTTATCCAGAT-TATTACA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAG-TCTATTACA
* * *
46827954 ACAAAAGGGGGATATCGCCTTACATTTCGATC
65 ACAAAAGGGGGACACCGCCTCACATTTCGATC
46827986 AT
1 AT
46827988 CGCTTCATAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 5 0.06
96 81 0.93
97 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (96 bp):
ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
CAAAAGGGGGACACCGCCTCACATTTCGATC
Found at i:46830899 original size:13 final size:13
Alignment explanation
Indices: 46830881--46830911 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
46830871 TTCCAGCAAC
46830881 TATGAATTTATTT
1 TATGAATTTATTT
46830894 TATGAATTTATTT
1 TATGAATTTATTT
*
46830907 GATGA
1 TATGA
46830912 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:46831081 original size:50 final size:50
Alignment explanation
Indices: 46831006--46831298 Score: 487
Period size: 50 Copynumber: 5.8 Consensus size: 50
46830996 ATTTGGGTAA
46831006 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
46831056 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
46831106 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
46831156 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
46831206 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
46831256 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46831299 TGTTATTATC
Statistics
Matches: 227, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
50 193 0.85
51 34 0.15
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46835543 original size:42 final size:42
Alignment explanation
Indices: 46835476--46835673 Score: 254
Period size: 42 Copynumber: 4.7 Consensus size: 42
46835466 GTGCTAAACA
* ** *
46835476 GAAACCCATAAGGGTTGAA-TGGAAGCTCGTAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACT-GAAGCTCAAAAGAGCTGAACG
* *** *
46835518 AAAATTGATAAGGGTTAAACTGAAGCTTAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* *
46835560 GAAACTCAGAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTC-AAAAGAGCTGAACG
46835603 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* *
46835645 GAAATCCATAAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
46835674 TATGAGTTAA
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 95 0.70
43 41 0.30
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
Found at i:46835984 original size:45 final size:46
Alignment explanation
Indices: 46835899--46835985 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 46
46835889 ATTTCAATTT
* * * *
46835899 ATAATTTAACGATATTTCATTTTTTTAACAATATGCTAAATATATA
1 ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATATATA
*
46835945 ATAATTTAACAATATTTCA-TTTTTCAAAAATATATTAAATA
1 ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATA
46835986 CGTAACATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 18 0.50
46 18 0.50
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (46 bp):
ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATATATA
Found at i:46837802 original size:31 final size:32
Alignment explanation
Indices: 46837746--46837830 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 32
46837736 TCATATACTA
*
46837746 AATAAAATAATAAAATATCTCATTAAA-ATATT
1 AATAAAATAATAAAATATCTAATTAAATA-ATT
**
46837778 AATAAAATAAT-ATTTATCTAATTAAATAATT
1 AATAAAATAATAAAATATCTAATTAAATAATT
46837809 -ATAAAATATCATCAAAATATCT
1 AATAAAATA--AT-AAAATATCT
46837831 CTAATATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.19
31 15 0.35
32 14 0.33
34 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAAAATAATAAAATATCTAATTAAATAATT
Found at i:46842851 original size:3 final size:3
Alignment explanation
Indices: 46842843--46842870 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46842833 CCTACGATTG
46842843 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46842871 GTTGCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:46845569 original size:170 final size:170
Alignment explanation
Indices: 46845287--46846546 Score: 1802
Period size: 170 Copynumber: 7.4 Consensus size: 170
46845277 AAAATAAATG
*
46845287 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * * *
46845352 CAACGGCGATTATAAATTTTTTCCTATCAAAAGAAGTTTTTGGATTTCTTGTCAAATTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
*
46845417 TTGCATGCGTAAAATATTAGAAAACTACCGAAAAAT-AGCA
131 TTGCATG-GTAAAATATTAGAAAACTACCGAAAAATCAACA
* * *
46845457 AGTCGTTCTAGTATAGTGGTGAGTATTCCCGCCTGTCGCGCGGGTGACCCGGGTTCGATCCCTGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
*
46845522 CAACGGCGATTATTAATATTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* *
46845587 TTGCATGGATAAAATGTTAGAGAACTACCGAAAAAT-AACA
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAAATCAACA
46845627 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
46845692 CAACGGCGAATT-TTAATTATTTTCCTATCATATAAAGTTTTTAGATTTCTGGACAAACTCCAGA
66 CAACGGCG-ATTATTAATT-TTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGA
* *
46845756 TACTGCATGG-ATAAATACTAGAAAACTACCG-AAAATCAACA
129 TATTGCATGGTA-AAATATTAGAAAACTACCGAAAAATCAACA
46845797 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
** *
46845862 CAACGGCGATTATTAATTTTTTCCTATCAAAAACGGTTTTTGGTTTTCTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* *
46845927 CTGCATGGCTAAAATGTTAGAAAACTACC-AAAAA-CTAACA
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAAATC-AACA
46845967 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGAT-CCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
46846031 CAACGGCGATTGTTAAGTTTTTCCTATCAAAAAAAGTTTTTGGATTTTTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* * **
46846096 TTGCATGGCTAAAATGTTAGAAAACTACCG-AAAATTAAGG
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAAATCAACA
* ** *
46846136 AGTC---GTAGTATAGTGGTGAATATTCCCGCCTGTCACGCGGGTGACCCGTTTTCGATCCCCTG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* *
46846198 CAACGGCGATTGTTAAGTTTTTTTCCTATCAAAAAAAGTTTTTGGATTTTTGGACAAACTCCAGA
66 CAACGGCGATTATTAA--TTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGA
*
46846263 TATTGCATGGGTAAAATATTAGAAAACAACCG-AAAATCAACA
129 TATTGCAT-GGTAAAATATTAGAAAACTACCGAAAAATCAACA
* *
46846305 A---GTTGTAGTATAGTGGTAAGTATTCCCGTCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * * *
46846367 GAACGGCGATTATTAGTGCTTTTCTTATCAAATAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
66 CAACGGCGATTATTAAT-TTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
46846432 ATTGCATCGGTAAAATATTAGAAAACTACCG-AAAATCAACA
130 ATTGCAT-GGTAAAATATTAGAAAACTACCGAAAAATCAACA
* * * **
46846473 AGTTGTTGTA-TAGTGGTGGTGAGTAATCCCAG-CTGTCACGCGGGTGACCCGTTTTCGATCCCC
1 AGTCGTTGTAGTA-TAGTGGTGAGTATTCCC-GCCTGTCACGCGGGTGACCCGGGTTCGATCCCC
*
46846536 GGTAACGGCGA
64 GGCAACGGCGA
46846547 CTAACTTTTT
Statistics
Matches: 992, Mismatches: 73, Indels: 49
0.89 0.07 0.04
Matches are distributed among these distances:
166 49 0.05
167 21 0.02
168 83 0.08
169 308 0.31
170 416 0.42
171 114 0.11
172 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (170 bp):
AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
TTGCATGGTAAAATATTAGAAAACTACCGAAAAATCAACA
Found at i:46854325 original size:100 final size:95
Alignment explanation
Indices: 46854141--46854337 Score: 304
Period size: 100 Copynumber: 2.0 Consensus size: 95
46854131 CGGGCAGTTG
*
46854141 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
1 CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
46854206 TCCATGATTCTCTCTTGTTTAAACGTGTAA
66 TCCATGATTCTCTCTTGTTTAAACGTGTAA
* * * *
46854236 CTGCTCTATCTACACAACCAAGGAAACCTAGTAAAGAAGTAAGAAAAGTAGCAATTAAGTTGGCT
1 CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGT-----AAGTAGCAAATAAGGTAGCT
46854301 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
61 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
46854336 CT
1 CT
46854338 TTGTTGTTGA
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
95 38 0.41
100 54 0.59
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (95 bp):
CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
TCCATGATTCTCTCTTGTTTAAACGTGTAA
Found at i:46858006 original size:24 final size:24
Alignment explanation
Indices: 46857943--46858007 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
46857933 ATTCAATCAC
* *
46857943 AATTTCTCACATTTTCAATTCAAT
1 AATTTTTCACAATTTCAATTCAAT
* *
46857967 CATTTTTC-CACCTTTCAA-TCAAT
1 AATTTTTCACA-ATTTCAATTCAAT
46857990 AATTATTTCACAATTTCA
1 AATT-TTTCACAATTTCA
46858008 CACATTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 10 0.30
24 21 0.64
25 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (24 bp):
AATTTTTCACAATTTCAATTCAAT
Found at i:46858150 original size:3 final size:3
Alignment explanation
Indices: 46858142--46858188 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
46858132 ATTCCCACTC
* * * *
46858142 ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46858189 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:46858190 original size:12 final size:12
Alignment explanation
Indices: 46858142--46858188 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
46858132 ATTCCCACTC
*
46858142 ATAATAATAATA
1 ATAATATTAATA
*
46858154 ATAATACTAATA
1 ATAATATTAATA
46858166 ATAA-ATTAATA
1 ATAATATTAATA
*
46858177 CTAATATTAATA
1 ATAATATTAATA
46858189 CTTACCTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:46858482 original size:24 final size:23
Alignment explanation
Indices: 46858442--46858488 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
46858432 CTCAATTTAA
46858442 TCCTAACTAAATTCACT-TATTT
1 TCCTAACTAAATTCACTCTATTT
*
46858464 TCCTAACTCAATTCACACTCTATTT
1 TCCTAACTAAATT--CACTCTATTT
46858489 CTATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.43
Consensus pattern (23 bp):
TCCTAACTAAATTCACTCTATTT
Found at i:46858906 original size:17 final size:17
Alignment explanation
Indices: 46858886--46858925 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
46858876 TTTCCTATTC
*
46858886 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
46858903 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
46858920 TAGTTT
1 T-GTTT
46858926 ATGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:46858969 original size:16 final size:17
Alignment explanation
Indices: 46858941--46858972 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46858931 TTGTTTATTA
46858941 TTTAATAAATATAATAC
1 TTTAATAAATATAATAC
46858958 TTTAAT-AATATAATA
1 TTTAATAAATATAATA
46858973 TAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAAATATAATAC
Found at i:46858970 original size:5 final size:5
Alignment explanation
Indices: 46858962--46858993 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
46858952 TAATACTTTA
46858962 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
46858994 TTTCTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:46859557 original size:20 final size:20
Alignment explanation
Indices: 46859529--46859569 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46859519 GTAGTGCTGT
**
46859529 ATAGAGGCACTGAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
*
46859549 ATAGTGGCACCAAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
46859569 A
1 A
46859570 CCCGTATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (20 bp):
ATAGAGGCACCAAAGTGCAA
Found at i:46860231 original size:83 final size:83
Alignment explanation
Indices: 46860092--46860257 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
46860082 AATATCGAAA
46860092 TCATTATATTTTAGTTCTTATGTTCAAAACTAACAACTTTCACTTTACAAATTAGTCTTTTTTTA
1 TCATTATATTTTAGTTCTTATGTTCAAAACTAACAACTTTCACTTTACAAATTAGTCTTTTTTTA
46860157 TTTCTAAGATTATAAACT
66 TTTCTAAGATTATAAACT
46860175 TCATTATATTTTAGTTCTTATGTTCAAAACTAACAACTTTCACTTTACAAATTAGTCTTTTTTTA
1 TCATTATATTTTAGTTCTTATGTTCAAAACTAACAACTTTCACTTTACAAATTAGTCTTTTTTTA
46860240 TTTCTAAGATTATAAACT
66 TTTCTAAGATTATAAACT
46860258 AACATATAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (83 bp):
TCATTATATTTTAGTTCTTATGTTCAAAACTAACAACTTTCACTTTACAAATTAGTCTTTTTTTA
TTTCTAAGATTATAAACT
Found at i:46869222 original size:8 final size:8
Alignment explanation
Indices: 46869176--46869223 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
46869166 AATATTTTTC
46869176 AAATATAAA
1 AAATAT-AA
*
46869185 AAATTAAAA
1 AAA-TATAA
46869194 AAAGTATAA
1 AAA-TATAA
46869203 AAATATAA
1 AAATATAA
46869211 AAATATAA
1 AAATATAA
46869219 AAATA
1 AAATA
46869224 ATTTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
8 18 0.51
9 15 0.43
10 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AAATATAA
Found at i:46885406 original size:24 final size:23
Alignment explanation
Indices: 46885375--46885420 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
46885365 GGTTAATGAC
46885375 TTTAGTTT-CAACTATATATTTGA
1 TTTAGTTTGC-ACTATATATTTGA
*
46885398 TTTATGTTTGCATTATATATTTG
1 TTTA-GTTTGCACTATATATTTG
46885421 GCTTAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTAGTTTGCACTATATATTTGA
Found at i:46892134 original size:20 final size:19
Alignment explanation
Indices: 46892106--46892158 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
46892096 AATTTCAGTA
*
46892106 TTTTATATTTTTAGAATTAT
1 TTTTCTATTTTTA-AATTAT
* *
46892126 TTTTCTA-TTTTATATTTT
1 TTTTCTATTTTTAAATTAT
46892144 TTTCTCTATTTTTAA
1 TTT-TCTATTTTTAA
46892159 TAATTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 9 0.33
20 11 0.41
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTATTTTTAAATTAT
Found at i:46892136 original size:19 final size:19
Alignment explanation
Indices: 46892114--46892155 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
46892104 TATTTTATAT
46892114 TTTTAGAATTATTTT-TCTA
1 TTTTA-AATTATTTTCTCTA
* *
46892133 TTTTATATTTTTTTCTCTA
1 TTTTAAATTATTTTCTCTA
46892152 TTTT
1 TTTT
46892156 TAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTAAATTATTTTCTCTA
Found at i:46892754 original size:27 final size:27
Alignment explanation
Indices: 46892716--46892770 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
46892706 GATCAAGGAA
* **
46892716 TGTGTTGAATTTTTATCTTTTAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
46892743 TGTGTCGAATTTTTATCTTCCAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
46892770 T
1 T
46892771 ATTAGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (27 bp):
TGTGTCGAATTTTTATCTTCCAATCCC
Found at i:46901681 original size:9 final size:9
Alignment explanation
Indices: 46901667--46901697 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46901657 GTTAAACGAA
46901667 TCGAGTTAT
1 TCGAGTTAT
*
46901676 TCGAGTTAA
1 TCGAGTTAT
46901685 TCGAGTTAT
1 TCGAGTTAT
46901694 TCGA
1 TCGA
46901698 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:46902027 original size:30 final size:31
Alignment explanation
Indices: 46901993--46902052 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
46901983 AAACCTTTTA
*
46901993 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
46902023 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
46902053 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:46912751 original size:34 final size:34
Alignment explanation
Indices: 46912708--46912773 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
46912698 TGTAAAATGT
46912708 TTTTCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCGTAAAATGAATTACTGGAAAATATTTTAC
*
46912741 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGAATTACTGGAAAATATTTT
46912774 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.37
35 14 0.47
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (34 bp):
TTTTCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:46914147 original size:27 final size:27
Alignment explanation
Indices: 46914117--46914186 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
46914107 AATAATCAAT
*
46914117 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
46914144 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
46914172 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
46914187 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:46918460 original size:6 final size:6
Alignment explanation
Indices: 46918449--46918479 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
46918439 AATATTTCCC
*
46918449 ACAGAA ACAGAA ACAGAA ACAAAA ACAGAA A
1 ACAGAA ACAGAA ACAGAA ACAGAA ACAGAA A
46918480 ATACAAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (6 bp):
ACAGAA
Found at i:46922939 original size:46 final size:45
Alignment explanation
Indices: 46922872--46923242 Score: 469
Period size: 46 Copynumber: 8.6 Consensus size: 45
46922862 TTTGAGTACT
*
46922872 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
46922918 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
46922964 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
46923000 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
46923046 TCTGATCAAGTGA-AAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
46923081 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
46923127 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
46923173 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
46923218 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
46923243 ATCATATGTA
Statistics
Matches: 291, Mismatches: 13, Indels: 45
0.83 0.04 0.13
Matches are distributed among these distances:
35 18 0.06
36 40 0.14
37 3 0.01
39 3 0.01
40 3 0.01
41 3 0.01
42 6 0.02
43 12 0.04
44 6 0.02
45 31 0.11
46 166 0.57
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:46922995 original size:36 final size:36
Alignment explanation
Indices: 46922954--46923107 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
46922944 GGTAGCATTA
46922954 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
46922990 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
46923035 AGCTACACTTATCTGATCAAGTG-AAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
46923071 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
46923107 G
1 G
46923108 TTAGCCTTAG
Statistics
Matches: 101, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
35 21 0.21
36 44 0.44
37 1 0.01
39 2 0.02
42 2 0.02
44 1 0.01
45 9 0.09
46 21 0.21
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:46923001 original size:82 final size:81
Alignment explanation
Indices: 46922908--46923242 Score: 460
Period size: 81 Copynumber: 4.0 Consensus size: 81
46922898 GGTAGCATTA
*
46922908 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
46922973 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
46922990 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
46923055 GTG-AAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
46923071 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
46923136 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
*
46923156 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
46923221 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
46923242 G
1 G
46923243 ATCATATGTA
Statistics
Matches: 228, Mismatches: 13, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
81 76 0.33
82 76 0.33
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:46923086 original size:35 final size:36
Alignment explanation
Indices: 46923036--46923107 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
46923026 GGTAGCTTTA
46923036 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
46923071 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
46923107 G
1 G
46923108 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:46933292 original size:23 final size:23
Alignment explanation
Indices: 46933266--46933341 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
46933256 ATAAGTGCCA
46933266 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46933289 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46933312 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46933335 CACTGAT
1 CACTGAT
46933342 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46940643 original size:23 final size:23
Alignment explanation
Indices: 46940617--46940692 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
46940607 ATAAGTGCCA
46940617 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46940640 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46940663 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46940686 CACTGAT
1 CACTGAT
46940693 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46944147 original size:10 final size:10
Alignment explanation
Indices: 46944132--46944197 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
46944122 TATTCTAAAA
46944132 ATTAAAAATT
1 ATTAAAAATT
46944142 ATT-AAAATT
1 ATTAAAAATT
46944151 ATTTAAAAATT
1 A-TTAAAAATT
* *
46944162 ATAAAAAAAT
1 ATTAAAAATT
**
46944172 ATTTTTAAATT
1 A-TTAAAAATT
*
46944183 -TTAAAAATA
1 ATTAAAAATT
46944192 ATTAAA
1 ATTAAA
46944198 TATTGACATA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 13 0.30
10 18 0.42
11 12 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:46944169 original size:21 final size:21
Alignment explanation
Indices: 46944133--46944189 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
46944123 ATTCTAAAAA
* *
46944133 TTAAAAATTAT-TAAAATTAT
1 TTAAAAATTATAAAAAAATAT
46944153 TTAAAAATTATAAAAAAATAT
1 TTAAAAATTATAAAAAAATAT
** *
46944174 TTTTAAATTTTAAAAA
1 TTAAAAATTATAAAAA
46944190 TAATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTATAAAAAAATAT
Found at i:46945245 original size:16 final size:16
Alignment explanation
Indices: 46945220--46945253 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46945210 TAATAAATCT
* *
46945220 AAAATTTAAAATTTAA
1 AAAATATAAAAATTAA
46945236 AAAATATAAAAATTAA
1 AAAATATAAAAATTAA
46945252 AA
1 AA
46945254 TTAACTAATT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAATTAA
Found at i:46945267 original size:31 final size:32
Alignment explanation
Indices: 46945208--46945272 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
46945198 TTATTATTTT
46945208 TATAATAAATCTAAAATTTAAAATTTAAAAAA
1 TATAATAAATCTAAAATTTAAAATTTAAAAAA
46945240 TATAA-AAAT-TAAAA-TTAACTAATTTAAAAAA
1 TATAATAAATCTAAAATTTAA--AATTTAAAAAA
46945271 TA
1 TA
46945273 CATATACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 4 0.13
30 5 0.16
31 17 0.55
32 5 0.16
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (32 bp):
TATAATAAATCTAAAATTTAAAATTTAAAAAA
Found at i:46946594 original size:21 final size:21
Alignment explanation
Indices: 46946570--46946613 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
46946560 GCAAAGTCTA
46946570 AGAAGAA-TG-GAAGCCAAGAGG
1 AGAAGAAGTGAGAAG-CAA-AGG
46946591 AGAAGAAGTGAGAAGCAAAGG
1 AGAAGAAGTGAGAAGCAAAGG
46946612 AG
1 AG
46946614 TTCGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.39, T:0.05
Consensus pattern (21 bp):
AGAAGAAGTGAGAAGCAAAGG
Found at i:46952670 original size:31 final size:32
Alignment explanation
Indices: 46952627--46952710 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 32
46952617 TAGGATAAAC
*
46952627 TACATTTTTAATCATTTAATTATTAACAAATT-
1 TACA-TTTTAATCATTTAATTATTAAAAAATTA
*
46952659 TACATTTTAATCATATAATTA-TAAAAAATTA
1 TACATTTTAATCATTTAATTATTAAAAAATTA
46952690 TA-A-TTTAATCATTTAATTATT
1 TACATTTTAATCATTTAATTATT
46952711 CGAAATTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.32
30 10 0.21
31 18 0.38
32 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (32 bp):
TACATTTTAATCATTTAATTATTAAAAAATTA
Found at i:46952716 original size:29 final size:29
Alignment explanation
Indices: 46952627--46952717 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
46952617 TAGGATAAAC
46952627 TACATTTTTAATCATTTAATTATTAACAAATT
1 TACA-TTTTAATCATTTAATTATT--CAAATT
* ** *
46952659 TACATTTTAATCATATAATTATAAAAAAT
1 TACATTTTAATCATTTAATTATTCAAATT
* *
46952688 TATAATTTAATCATTTAATTATTCGAAATT
1 TACATTTTAATCATTTAATTATTC-AAATT
46952718 GGTTATTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
29 23 0.48
30 4 0.08
31 17 0.35
32 4 0.08
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (29 bp):
TACATTTTAATCATTTAATTATTCAAATT
Found at i:46956004 original size:38 final size:38
Alignment explanation
Indices: 46955953--46956026 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
46955943 ACACTGTCCG
46955953 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
1 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
*
46955991 CGGTGAATTGTATTTTGTCATCTCTACTTTAAACTT
1 CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTT
46956027 GGGAAGGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (38 bp):
CGGTGAATTGTATTTTGTCATCTCTACTCTAAACTTCC
Found at i:46956208 original size:16 final size:16
Alignment explanation
Indices: 46956169--46956217 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
46956159 AGTACATTTG
* *
46956169 TGTGTGTCTATGTATG
1 TGTGTGTATATGTATA
* *
46956185 TATATGTATATGTATA
1 TGTGTGTATATGTATA
*
46956201 TGTGTGTATATATATA
1 TGTGTGTATATGTATA
46956217 T
1 T
46956218 CACTTCAACG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
TGTGTGTATATGTATA
Found at i:46956571 original size:48 final size:48
Alignment explanation
Indices: 46956497--46956592 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
46956487 AGAGGCCAAG
* * * *
46956497 GGCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCTTTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
*
46956545 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
46956593 CTTTCATCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.49
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCCGCACTTCTTCTTCCTCTGAAACATTA
Found at i:46957291 original size:30 final size:30
Alignment explanation
Indices: 46957229--46957298 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
46957219 CTGCAGTTCC
* * * **
46957229 AACAGTAGCACAACGCGCAGCTATAATTAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
46957259 AACAGTAGCAGAAAGCCCAGCTACAACCAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
46957289 AACAGGAGCA
1 AACAGTAGCA
46957299 TGATGGCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (30 bp):
AACAGTAGCACAAAGCCCAGCTACAACCAG
Done.