Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 158 of 228
Found at i:47419449 original size:44 final size:44
Alignment explanation
Indices: 47419326--47419451 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 44
47419316 TTTGATCTGC
* * *
47419326 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAT
1 TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCAACCTAT
* *
47419370 TCCACTACTGTCC-AAGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTACTG-CCTAGGGAGATAGGATTTACAATCTTCAACCTAT
* * * *
47419414 TCGACTGCTGCCTAGGGAGATAGGATTTGCTATCTTCA
1 TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCA
47419452 CCGATCTGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 66 0.96
45 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCCTAGGGAGATAGGATTTACAATCTTCAACCTAT
Found at i:47430266 original size:11 final size:11
Alignment explanation
Indices: 47430250--47430278 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
47430240 CGTAATAACG
47430250 ATAAATAAAAA
1 ATAAATAAAAA
47430261 ATAAAT-AAAA
1 ATAAATAAAAA
47430271 ATAAATAA
1 ATAAATAA
47430279 TACAACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:47431192 original size:15 final size:15
Alignment explanation
Indices: 47431174--47431205 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47431164 AAATCTAAAA
47431174 TCACCTTGAAAAGGT
1 TCACCTTGAAAAGGT
47431189 TCACCTTGAAAAGGT
1 TCACCTTGAAAAGGT
47431204 TC
1 TC
47431206 TATTTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (15 bp):
TCACCTTGAAAAGGT
Found at i:47433178 original size:26 final size:27
Alignment explanation
Indices: 47433116--47433196 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 27
47433106 GAAGCACGTT
*
47433116 AGGACAATCTAATGTGGGAAGTCCGCA
1 AGGACAATCTAATGTGGGAAGTCCACA
* * *
47433143 AGAACCATCTATTGT-GGAAGTCCACA
1 AGGACAATCTAATGTGGGAAGTCCACA
* * *
47433169 AGGACTATCTGATATATGGGAAATCCAC
1 AGGACAATCT-A-ATGTGGGAAGTCCAC
47433197 CGGGGCTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
26 18 0.43
27 13 0.31
28 2 0.05
29 9 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
AGGACAATCTAATGTGGGAAGTCCACA
Found at i:47453234 original size:12 final size:12
Alignment explanation
Indices: 47453217--47453242 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47453207 CAAAACAGGC
47453217 TTTTAGCGGCGT
1 TTTTAGCGGCGT
47453229 TTTTAGCGGCGT
1 TTTTAGCGGCGT
47453241 TT
1 TT
47453243 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:47453751 original size:114 final size:113
Alignment explanation
Indices: 47453311--47453738 Score: 606
Period size: 114 Copynumber: 3.8 Consensus size: 113
47453301 AAAATAAGCA
* * ** * * *
47453311 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTTGTTTTATGCGCTC
1 TTAGCGGCGTTTTT-GGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
47453376 TCAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTTAGGTCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCT
* * * * *
47453425 TTCGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAACCCCAACGATGTCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
47453490 TCGAGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCT
* * *
47453539 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCTAACGACACCATTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
* *
47453604 CGTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGTCT
66 CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCT
47453652 TTAGCGGCGTTTTTTGGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCG-TTTTTGGGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
47453716 TTCGGGGATTTAGCGGCGTTTTT
64 TTCGGGGATTTAGCGGCGTTTTT
47453739 GGGGAAGCGC
Statistics
Matches: 280, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
113 104 0.37
114 176 0.63
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCT
Found at i:47453751 original size:227 final size:228
Alignment explanation
Indices: 47453311--47453738 Score: 637
Period size: 227 Copynumber: 1.9 Consensus size: 228
47453301 AAAATAAGCA
**** *
47453311 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTTGTTTTATGCGCTC
1 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
* * *
47453376 TCAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTTAGGTCTTTCGCGGCGTTTTTGG
66 TCAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATACTCAGGTCTTTAGCGGCGTTTTTGG
* * *
47453441 GAAAGCGCCGCAAAAAAACCTAACCCCAACGATGTCGTTTTTTGAGCTTTCGAGGATTTAACGGC
131 GAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACGGC
47453506 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
196 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
* * * * *
47453539 TTAGCGGCGTTTTT-GGGAAAGCGCCGCAAAAAACCTAAGCCTAACGACACCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
*
47453603 TC-GTGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGTCTTTAGCGGCGTTTTTT
66 TCAG-GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATACTCAGGTCTTTAGCGGCG-TTTTT
* * *
47453667 GGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCG
129 GGGAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACG
47453731 GCGTTTTT
194 GCGTTTTT
47453739 GGGGAAGCGC
Statistics
Matches: 178, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
226 1 0.01
227 155 0.87
228 22 0.12
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (228 bp):
TTAGCGGCGTTTTTCAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACACCATTTTATGAGCTC
TCAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATACTCAGGTCTTTAGCGGCGTTTTTGG
GAAAGCGCCGCAAAAAAACCTAACCCCAACGACGCCGTTTTCTGAGCTTTCGAGGATTTAACGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTTT
Found at i:47454045 original size:21 final size:22
Alignment explanation
Indices: 47454008--47454066 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
47453998 GAGTGTGGAT
*
47454008 TTAGGGA-TTATGGTTTAAGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
47454029 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
47454050 TTAGGGGTTTAGAGGTT
1 TTAGGGATTTA-AGGTT
47454067 AGACATTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 16 0.50
22 7 0.22
23 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAAGGG
Found at i:47454068 original size:22 final size:22
Alignment explanation
Indices: 47454026--47454091 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
47454016 TATGGTTTAA
*
47454026 GGGTT-GGGATTTA-AGGTTTAG
1 GGGTTAGGGGTTTAGAGG-TTAG
47454047 GGGTTAGGGGTTTAGAGGTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
*** *
47454069 ACATTAGGGGTTAAGA-GTTAG
1 GGGTTAGGGGTTTAGAGGTTAG
47454090 GG
1 GG
47454092 ATTTAAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 10 0.28
22 23 0.64
23 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.32
Consensus pattern (22 bp):
GGGTTAGGGGTTTAGAGGTTAG
Found at i:47454544 original size:44 final size:44
Alignment explanation
Indices: 47454496--47454603 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
47454486 TTATAAAAAA
* * *
47454496 CAAAATAAAATTTTTTTAGCATAGCAAAATGGTGTCATTTTCTT
1 CAAAATAAAATTTTTTTAGCACAGCAAAACGGCGTCATTTTCTT
* ** * *
47454540 CAAAATGAAATAATTTTAGCACAGTAAAACGGCGTCATTTTGTT
1 CAAAATAAAATTTTTTTAGCACAGCAAAACGGCGTCATTTTCTT
*
47454584 CAAAATGAAATAATTTTTTA
1 CAAAAT-AAA-ATTTTTTTA
47454604 CGGCGTTTCT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 42 0.84
45 2 0.04
46 6 0.12
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (44 bp):
CAAAATAAAATTTTTTTAGCACAGCAAAACGGCGTCATTTTCTT
Found at i:47454778 original size:101 final size:101
Alignment explanation
Indices: 47454643--47454871 Score: 408
Period size: 101 Copynumber: 2.3 Consensus size: 101
47454633 ATAAGCAATA
* *
47454643 GCGGCGTTTTTA-AAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
47454706 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
47454742 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
47454807 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
66 AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
* *
47454843 GCGACGTTTCTATGAAAAACGTCGCAAAA
1 GCGGCGTTTCTATGAAAAACGCCGCAAAA
47454872 GATACGCAAT
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
99 11 0.09
100 11 0.09
101 102 0.82
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (101 bp):
GCGGCGTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAA
AACGACGTCATTTTGTTCAAATTGAAATAATTTTTT
Found at i:47454908 original size:140 final size:139
Alignment explanation
Indices: 47454756--47455010 Score: 483
Period size: 140 Copynumber: 1.8 Consensus size: 139
47454746 CGTTTCTATG
47454756 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
*
47454821 GTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAAAAACGTCGCAAAAGATACGCAATAGCG
66 GTTCAAATTGAAATAA-TTTTTGCGACGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCG
47454886 GCTTTTTTTT
130 GCTTTTTTTT
47454896 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
*
47454961 GTTCAAATTGAAATAATTTTTGCGGCGTTTCTATGAAAAACGCCGCAAAA
66 GTTCAAATTGAAATAATTTTTGCGACGTTTCTATGAAAAACGCCGCAAAA
47455011 AATAAATCAA
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
139 32 0.28
140 81 0.72
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (139 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
GTTCAAATTGAAATAATTTTTGCGACGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCGG
CTTTTTTTT
Found at i:47455055 original size:100 final size:101
Alignment explanation
Indices: 47454896--47455111 Score: 416
Period size: 100 Copynumber: 2.1 Consensus size: 101
47454886 GCTTTTTTTT
47454896 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
47454961 GTTCAAATTGAAATAA-TTTTTGCGGCGTTTCTATG
66 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATG
47454996 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
47455061 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATG
66 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATG
*
47455097 AAAAACGTCGCAAAA
1 AAAAACGCCGCAAAA
47455112 GATACGCAAT
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 81 0.71
101 33 0.29
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (101 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATG
Found at i:47455135 original size:241 final size:241
Alignment explanation
Indices: 47454554--47455393 Score: 1417
Period size: 240 Copynumber: 3.5 Consensus size: 241
47454544 ATGAAATAAT
* * * *
47454554 TTTAGCACAGTAAAACGGCGTCATTTTGTTCAAAATGAAATAATTTTTTACGGCGTTTCTATGAA
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
* * **
47454619 AAATGCCGCAAAAGATAAGCAATAGCGGCGTTTTTAAAAAAACGCCGC-AAAAATAAATCAATTT
66 AAACGCCGCAAAAGATAAGCAATAGCGGCTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATTT
47454683 ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCG
131 ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCG
47454748 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
196 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
*
47454794 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGACGTTTCTATGAA
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
* *
47454859 AAACGTCGCAAAAGATACGCAATAGCGGCTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATTT
66 AAACGCCGCAAAAGATAAGCAATAGCGGCTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATTT
47454924 ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAA-TTTTTGCGGCG
131 ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCG
47454988 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
196 TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
47455034 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
* *
47455099 AAACGTCGCAAAAGATACGCAATAGCGGCTTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATT
66 AAACGCCGCAAAAGATAAGCAATAGCGGC-TTTTTTTTAAAAACGCCGCAAAAAATAAATCAATT
47455164 TATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGC
130 TATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGC
*
47455229 GTTTCTATGAAAAACGCCGCAAAAAATAAATTAATTTATAAAAAAAAA
195 GTTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTAT-AAAAAAAA
*
47455277 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTG----AATTTTTTGCGGCGTTTTTCAT-A
1 TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCT-ATGA
* * * * *
47455337 AAAACGCCACAAAGGATAAGCAATAACGG-TATTTTTTAAAAACGCCGCAAAAGATAA
65 AAAACGCCGCAAAAGATAAGCAATAGCGGCTTTTTTTTAAAAACGCCGCAAAAAATAA
47455394 GCACAAAAAA
Statistics
Matches: 574, Mismatches: 21, Indels: 13
0.94 0.03 0.02
Matches are distributed among these distances:
237 26 0.05
239 43 0.07
240 254 0.44
241 158 0.28
242 48 0.08
243 45 0.08
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (241 bp):
TTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAA
AAACGCCGCAAAAGATAAGCAATAGCGGCTTTTTTTTAAAAACGCCGCAAAAAATAAATCAATTT
ATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTTGTTCAAATTGAAATAATTTTTTGCGGCG
TTTCTATGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAA
Found at i:47455236 original size:141 final size:141
Alignment explanation
Indices: 47454996--47455252 Score: 505
Period size: 141 Copynumber: 1.8 Consensus size: 141
47454986 CGTTTCTATG
47454996 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
*
47455061 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAACGTCGCAAAAGATACGCAATAGCG
66 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCG
47455126 GCTTTTTTTTT
131 GCTTTTTTTTT
47455137 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
47455202 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAACGCCGCAAAA
66 GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAACGCCGCAAAA
47455253 AATAAATTAA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 115 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (141 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTTT
GTTCAAATTGAAATAATTTTTTGCGGCGTTTCTATGAAAAACGCCGCAAAAGATACGCAATAGCG
GCTTTTTTTTT
Found at i:47455305 original size:102 final size:97
Alignment explanation
Indices: 47455136--47455349 Score: 340
Period size: 102 Copynumber: 2.2 Consensus size: 97
47455126 GCTTTTTTTT
47455136 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTT
1 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTT
47455201 TGTTCAAATTGAAATAATTTTTTGCGGCGTTTCT-A
66 TGTTCAAATTG----AATTTTTTGCGGCGTTTCTCA
*
47455236 TGAAAAACGCCGCAAAAAATAAATTAATTTATAAAAAAAAATTTAGCATAGTAAAACGACGTCAT
1 T-AAAAACGCCGCAAAAAATAAATCAATTTAT-AAAAAAAATTTAGCATAGTAAAACGACGTCAT
*
47455301 TTTGTTCAAATTGAATTTTTTGCGGCGTTTTTCA
64 TTTGTTCAAATTGAATTTTTTGCGGCGTTTCTCA
*
47455335 TAAAAACGCCACAAA
1 TAAAAACGCCGCAAA
47455350 GGATAAGCAA
Statistics
Matches: 108, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
98 31 0.29
99 2 0.02
100 1 0.01
101 29 0.27
102 45 0.42
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (97 bp):
TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAATTTAGCATAGTAAAACGACGTCATTT
TGTTCAAATTGAATTTTTTGCGGCGTTTCTCA
Found at i:47459556 original size:44 final size:43
Alignment explanation
Indices: 47459508--47459705 Score: 159
Period size: 43 Copynumber: 4.6 Consensus size: 43
47459498 GAACGGTATT
* * **
47459508 TTTAGCTGCGTTTGTGATA-AAAAGTGTCGCTAAAGGTTATGCTC
1 TTTAGCAGCGTTTGT--TAGAAAAGCGTCGCTAAAGGCCATGCTC
* *
47459552 TTTAGCAGCGATTGTTAGAAAAGCGTCGCTAAAGGCCATGTTC
1 TTTAGCAGCGTTTGTTAGAAAAGCGTCGCTAAAGGCCATGCTC
* * * **
47459595 TTTAGCGGCGTTTGTTACAAAAGCGCCGCTAAAGAACATGGC-C
1 TTTAGCAGCGTTTGTTAGAAAAGCGTCGCTAAAGGCCAT-GCTC
* * * * **
47459638 TTTAACGGCGTTTGTAAGAGAAGCGTCGCTAAAGAACATGGC-C
1 TTTAGCAGCGTTTGTTAGAAAAGCGTCGCTAAAGGCCAT-GCTC
* * *
47459681 TTTAGCGGCGTTTGTAAGAGAAGCG
1 TTTAGCAGCGTTTGTTAGAAAAGCG
47459706 CCGCAAATGT
Statistics
Matches: 133, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.02
43 117 0.88
44 14 0.11
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTTAGAAAAGCGTCGCTAAAGGCCATGCTC
Found at i:47459641 original size:43 final size:43
Alignment explanation
Indices: 47459551--47459709 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
47459541 AGGTTATGCT
* * * * ** **
47459551 CTTTAGCAGCGATTGTTAGAAAAGCGTCGCTAAAGGCCATGTT
1 CTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGAACATGGC
* *
47459594 CTTTAGCGGCGTTTGTTACAAAAGCGCCGCTAAAGAACATGGC
1 CTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGAACATGGC
* * *
47459637 CTTTAACGGCGTTTGTAAGAGAAGCGTCGCTAAAGAACATGGC
1 CTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGAACATGGC
*
47459680 CTTTAGCGGCGTTTGTAAGAGAAGCGCCGC
1 CTTTAGCGGCGTTTGTAAGAAAAGCGCCGC
47459710 AAATGTTAGC
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGAACATGGC
Found at i:47462062 original size:20 final size:20
Alignment explanation
Indices: 47462037--47462076 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47462027 GCATGAAATG
47462037 AATGCCTAAAGAGACATTGA
1 AATGCCTAAAGAGACATTGA
47462057 AATGCCTAAAGAGACATTGA
1 AATGCCTAAAGAGACATTGA
47462077 TTCTGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGCCTAAAGAGACATTGA
Found at i:47464511 original size:15 final size:15
Alignment explanation
Indices: 47464471--47464512 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47464461 AATATATAAA
47464471 AATA-TAATAATATT
1 AATACTAATAATATT
*
47464485 AATATTAATAATATT
1 AATACTAATAATATT
47464500 AA-ACTAATTAATA
1 AATACTAA-TAATA
47464513 AAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATACTAATAATATT
Found at i:47464513 original size:18 final size:15
Alignment explanation
Indices: 47464471--47464501 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47464461 AATATATAAA
47464471 AATA-TAATAATATT
1 AATATTAATAATATT
47464485 AATATTAATAATATT
1 AATATTAATAATATT
47464500 AA
1 AA
47464502 ACTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATTAATAATATT
Found at i:47467073 original size:19 final size:20
Alignment explanation
Indices: 47467019--47467098 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 20
47467009 ATAATTCTTA
*
47467019 AATTTTTAGTAA-ATTTAA-
1 AATTTTTAGTAATTTTTAAT
* **
47467037 AATTTTTATTAAAGTTTAAT
1 AATTTTTAGTAATTTTTAAT
*
47467057 AATTTTTA-TAATTTTTATT
1 AATTTTTAGTAATTTTTAAT
47467076 AATTTTTA-T--TTTTT-AT
1 AATTTTTAGTAATTTTTAAT
47467092 AATTTTT
1 AATTTTT
47467099 TTGTCACATG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.15
17 5 0.09
18 11 0.20
19 22 0.41
20 8 0.15
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
AATTTTTAGTAATTTTTAAT
Found at i:47467099 original size:10 final size:9
Alignment explanation
Indices: 47467008--47467098 Score: 73
Period size: 9 Copynumber: 10.1 Consensus size: 9
47466998 AAAATTTATA
*
47467008 TATAATTCT
1 TATAATTTT
47467017 TA-AATTTT
1 TATAATTTT
*
47467025 TAGTAA-ATT
1 TA-TAATTTT
*
47467034 TAAAATTTT
1 TATAATTTT
*
47467043 TATTAAAGTTT
1 TA-T-AATTTT
*
47467054 AATAATTTT
1 TATAATTTT
47467063 TATAATTTT
1 TATAATTTT
47467072 TATTAATTTT
1 TA-TAATTTT
47467082 TAT--TTTT
1 TATAATTTT
47467089 TATAATTTT
1 TATAATTTT
47467098 T
1 T
47467099 TTGTCACATG
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
7 7 0.11
8 9 0.14
9 31 0.48
10 12 0.18
11 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:47471167 original size:3 final size:3
Alignment explanation
Indices: 47471159--47471192 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
47471149 ATTATGGGTG
* *
47471159 TGA TGA TGA TGA TGA TGA TGA CGA CGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
47471193 AGCGATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:47479572 original size:19 final size:20
Alignment explanation
Indices: 47479548--47479589 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
47479538 ATCTCAACCC
47479548 TTCTCATCTCT-TCACTTCA
1 TTCTCATCTCTCTCACTTCA
* *
47479567 TTCTCATTTCTCTCTCTTCA
1 TTCTCATCTCTCTCACTTCA
47479587 TTC
1 TTC
47479590 CCTTCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.12, C:0.36, G:0.00, T:0.52
Consensus pattern (20 bp):
TTCTCATCTCTCTCACTTCA
Found at i:47480547 original size:5 final size:5
Alignment explanation
Indices: 47480537--47480561 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47480527 GCATTGGAAC
47480537 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
47480562 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:47485608 original size:53 final size:53
Alignment explanation
Indices: 47485506--47485610 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
47485496 AACACTTCAC
* * *
47485506 CTTTATAAAGCATAAGTATTGACCTCACACGAAATATAAAACAGGAATATTAA
1 CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAACAGAAATATTAA
*
47485559 CTTTATAAAGCATAATTACTGACCTCACACAAAATAT-AAACTAGAAATATTA
1 CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAAC-AGAAATATTA
47485611 CACACATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 4 0.09
53 43 0.91
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (53 bp):
CTTTATAAAGCATAAGTACTGACCTCACACAAAATATAAAACAGAAATATTAA
Found at i:47490262 original size:19 final size:19
Alignment explanation
Indices: 47490240--47490302 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
47490230 AAATTACAAA
47490240 AAAAATCAAAATTATTTTT
1 AAAAATCAAAATTATTTTT
* * *
47490259 AAAATTTAAAA-TATTTAT
1 AAAAATCAAAATTATTTTT
47490277 AAAAATCCCAAAATTTATATTTT
1 AAAAAT--CAAAA-TTAT-TTTT
47490300 AAA
1 AAA
47490303 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 11 0.33
19 9 0.27
20 4 0.12
22 3 0.09
23 6 0.18
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATCAAAATTATTTTT
Found at i:47497201 original size:24 final size:24
Alignment explanation
Indices: 47497173--47497219 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47497163 CTCAAATAAG
47497173 AAATTCAAGTTTA-AAGTTCGAATC
1 AAATTCAAGTTTACAA-TTCGAATC
* *
47497197 AAATTGAATTTTACAATTCGAAT
1 AAATTCAAGTTTACAATTCGAAT
47497220 AACTCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (24 bp):
AAATTCAAGTTTACAATTCGAATC
Found at i:47502318 original size:17 final size:17
Alignment explanation
Indices: 47502293--47502328 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47502283 AAATCTCAAA
*
47502293 TTTTGATACCTATATCT
1 TTTTGATACCCATATCT
*
47502310 TTTTTATACCCATATCT
1 TTTTGATACCCATATCT
47502327 TT
1 TT
47502329 GACTTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:47508919 original size:23 final size:21
Alignment explanation
Indices: 47508847--47508933 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
47508837 CCTGATTAGT
* * *
47508847 ATACGACACATAA-ATGCCTA
1 ATACGACACACAAGGTGCCTG
*
47508867 AAACGACACACAAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
47508888 ATACAACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* * *
47508909 AAATATGACACATAAAGTGCCTG
1 --ATACGACACACAAGGTGCCTG
47508932 AT
1 AT
47508934 CAGCAAGGCC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 11 0.21
21 25 0.48
23 16 0.31
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:47516773 original size:23 final size:22
Alignment explanation
Indices: 47516720--47516780 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
47516710 AGACACATAA
47516720 GTGCCTGAA-ACGACACACGAG
1 GTGCCTGAATACGACACACGAG
*
47516741 GTGCCT-AATACAACACACGAG
1 GTGCCTGAATACGACACACGAG
47516762 GTGCCTGAAATACGACACA
1 GTGCCTG-AATACGACACA
47516781 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 23 0.66
23 10 0.29
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:47516788 original size:23 final size:23
Alignment explanation
Indices: 47516711--47516815 Score: 87
Period size: 23 Copynumber: 4.8 Consensus size: 23
47516701 ATTAGTATAA
47516711 GACACAT-AAGTGCCTG-AA-AC
1 GACACATAAAGTGCCTGAAATAC
** *
47516731 GACACACGAGGTGCCT--AATAC
1 GACACATAAAGTGCCTGAAATAC
* ** *
47516752 AACACACGAGGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
47516775 GACACATAAAGTGCCT-AATATAC
1 GACACATAAAGTGCCTGAA-ATAC
*
47516798 GTCACATAAAGTGCCTGA
1 GACACATAAAGTGCCTGA
47516816 TCGGCAAGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.11
21 24 0.34
22 2 0.03
23 36 0.51
24 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAAATAC
Found at i:47524721 original size:23 final size:23
Alignment explanation
Indices: 47524683--47524733 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
47524673 AATCAAACGG
* *
47524683 TGTAATATCCCTAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
47524706 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
47524729 AGTAA
1 TGTAA
47524734 GAAAATAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:47536729 original size:19 final size:20
Alignment explanation
Indices: 47536685--47536729 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47536675 ATCATGTTCA
47536685 TATTTTTAACATATTTTAAT
1 TATTTTTAACATATTTTAAT
47536705 TA-TTTTATA-ATA-TTTAAT
1 TATTTTTA-ACATATTTTAAT
47536723 TATTTTT
1 TATTTTT
47536730 CGACAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
20 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTAACATATTTTAAT
Found at i:47537791 original size:7 final size:7
Alignment explanation
Indices: 47537779--47537803 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47537769 GTGGAGACAA
47537779 TACTCTT
1 TACTCTT
47537786 TACTCTT
1 TACTCTT
47537793 TACTCTT
1 TACTCTT
47537800 TACT
1 TACT
47537804 TTATTACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (7 bp):
TACTCTT
Found at i:47541720 original size:15 final size:16
Alignment explanation
Indices: 47541685--47541722 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
47541675 TAATTTTTAT
*
47541685 ATTGAATTTTGAATTG
1 ATTGAATTTTGAATTA
47541701 A-TGAATTTT-AATTA
1 ATTGAATTTTGAATTA
47541715 ATTGAATT
1 ATTGAATT
47541723 AGTGGTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 14 0.70
16 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
ATTGAATTTTGAATTA
Found at i:47549533 original size:37 final size:37
Alignment explanation
Indices: 47549482--47549563 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
47549472 TGATCTGGCA
* *
47549482 TGTTATCGGTTGGATTAGCTCTTATGAGAGTTTGGTG
1 TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
* *
47549519 TGTTATCGGGTGGATTAGCTCTTATGAGCGATTGTTG
1 TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
47549556 TGTT-TCGG
1 TGTTATCGG
47549564 TTGGTTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 4 0.10
37 37 0.90
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.43
Consensus pattern (37 bp):
TGTTATCGGGTGGATTAGCTCTTATGAGAGATTGGTG
Found at i:47555070 original size:26 final size:25
Alignment explanation
Indices: 47555036--47555116 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
47555026 AATATGTGAT
*
47555036 TTAATTTGGTCTTAGTTTAGAACAAA
1 TTAAATTGGTCTTAGTTTAG-ACAAA
* *
47555062 TTAAATTGGTCTTA-TTTCGGACACA
1 TTAAATTGGTCTTAGTTT-AGACAAA
47555087 TT-AATTGTGT-TTATTGTTTAGACAAA
1 TTAAATTG-GTCTTA--GTTTAGACAAA
47555113 TTAA
1 TTAA
47555117 TTGTGTCCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
24 8 0.18
25 11 0.25
26 21 0.48
27 4 0.09
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:47555250 original size:50 final size:51
Alignment explanation
Indices: 47555175--47555270 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
47555165 TGTTTTGTAG
* * * *
47555175 GCTGGATGTGTATGTTGCTTCC-AAAAGGTTCAATGTACGGCAATTGAAAA
1 GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATTGAAAA
* *
47555225 GCTGGATGTATTTGCTGCTTTCAAAAAGGTTCAAAGTACGACAATT
1 GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATT
47555271 AAAGGCAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 18 0.46
51 21 0.54
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (51 bp):
GCTGGATGTATATGCTGCTTCCAAAAAGGTTCAAAGTACGACAATTGAAAA
Found at i:47563148 original size:13 final size:13
Alignment explanation
Indices: 47563130--47563154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47563120 AGTTCTTTAT
47563130 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
47563143 TGCTTTTGAGAA
1 TGCTTTTGAGAA
47563155 TTTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:47563992 original size:64 final size:64
Alignment explanation
Indices: 47563914--47564044 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
47563904 GCAATATGCC
*
47563914 AAATTAGTGGACAGTCCACATCATTAACATTGCATATTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
47563978 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
47564042 AAA
1 AAA
47564045 GTGTCTACCG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (64 bp):
AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
Found at i:47566596 original size:22 final size:22
Alignment explanation
Indices: 47566571--47566613 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47566561 AAAGAAACTC
* * *
47566571 ACCGGCGGAAGAGGAACAAAGA
1 ACCGGAGGAAAAGAAACAAAGA
47566593 ACCGGAGGAAAAGAAACAAAG
1 ACCGGAGGAAAAGAAACAAAG
47566614 GCAAAGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.33, T:0.00
Consensus pattern (22 bp):
ACCGGAGGAAAAGAAACAAAGA
Found at i:47567296 original size:27 final size:26
Alignment explanation
Indices: 47567265--47567338 Score: 121
Period size: 27 Copynumber: 2.8 Consensus size: 26
47567255 CCGGCCCGAA
*
47567265 TTTTATATTAAATATATATTTTTTTAT
1 TTTTA-ATCAAATATATATTTTTTTAT
47567292 TTTTAATCAAATATATATATTTTTTAT
1 TTTTAATCAAATATATAT-TTTTTTAT
47567319 TTTTAATCAAATATATATTT
1 TTTTAATCAAATATATATTT
47567339 ATATATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 14 0.31
27 31 0.69
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAATCAAATATATATTTTTTTAT
Found at i:47567351 original size:27 final size:26
Alignment explanation
Indices: 47567265--47567368 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
47567255 CCGGCCCGAA
* * *
47567265 TTTTATATTAAATATATATTTTTTTAT
1 TTTTA-ATCAAATATATATTTATATAT
* *
47567292 TTTTAATCAAATATATATATTTTTTAT
1 TTTTAATCAAATATATAT-TTATATAT
47567319 TTTTAATCAAATATATATTTATATAT
1 TTTTAATCAAATATATATTTATATAT
* *
47567345 ATATTAA--ATATATATATTTA-ATAT
1 -TTTTAATCAAATATATATTTATATAT
47567369 GGGTTGGGTC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.06
25 12 0.17
26 18 0.26
27 36 0.51
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTAATCAAATATATATTTATATAT
Found at i:47567357 original size:13 final size:12
Alignment explanation
Indices: 47567329--47567368 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
47567319 TTTTAATCAA
*
47567329 ATATATATTTAT
1 ATATATATTAAT
47567341 ATATATATTAAAT
1 ATATATATT-AAT
47567354 ATATATATTTAAT
1 ATATATA-TTAAT
47567367 AT
1 AT
47567369 GGGTTGGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 9 0.36
13 14 0.56
14 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATATATTAAT
Found at i:47567641 original size:26 final size:26
Alignment explanation
Indices: 47567612--47567661 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47567602 CTTAAACCAA
*
47567612 ACTTTTCAAAAGTACTTCTCAAAATC
1 ACTTTTCAAAAGCACTTCTCAAAATC
*
47567638 ACTTTTCCAAAGCACTTCTCAAAA
1 ACTTTTCAAAAGCACTTCTCAAAA
47567662 GCAATGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAATC
Found at i:47567663 original size:13 final size:13
Alignment explanation
Indices: 47567612--47567664 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
47567602 CTTAAACCAA
* *
47567612 ACTTTTCAAAAGT
1 ACTTCTCAAAAGC
*
47567625 ACTTCTCAAAATC
1 ACTTCTCAAAAGC
* *
47567638 ACTTTTCCAAAGC
1 ACTTCTCAAAAGC
47567651 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
47567664 A
1 A
47567665 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:47577201 original size:37 final size:37
Alignment explanation
Indices: 47577159--47577233 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
47577149 TGCACGCACT
*
47577159 TAACCTCTTC-AGTGATCTTCCCCTTATGTACCAGAAC
1 TAACCTCTTCGA-TGATCTTCCCCTTATCTACCAGAAC
* *
47577196 TAACCTCTTCGATGGTCTTCGCCTTATCTACCAGAAC
1 TAACCTCTTCGATGATCTTCCCCTTATCTACCAGAAC
47577233 T
1 T
47577234 GCGAACTCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (37 bp):
TAACCTCTTCGATGATCTTCCCCTTATCTACCAGAAC
Found at i:47592014 original size:22 final size:22
Alignment explanation
Indices: 47591954--47592017 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
47591944 AGAACTTTGA
*
47591954 ATCTATATCTGATATGCTCTGC
1 ATCTATATCTGATATGCTCTAC
* * *
47591976 ATTTGTATTTGATATGCTCTAC
1 ATCTATATCTGATATGCTCTAC
47591998 ATCTATATCT-ATGATGCTCT
1 ATCTATATCTGAT-ATGCTCT
47592018 GTTTCTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
ATCTATATCTGATATGCTCTAC
Found at i:47597267 original size:45 final size:45
Alignment explanation
Indices: 47597218--47597367 Score: 124
Period size: 45 Copynumber: 3.2 Consensus size: 45
47597208 TCCGATCTAT
47597218 TCCACTGTCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTAC
1 TCCACTGTCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTAC
* * * * * * *
47597263 TCCACTGT--AGTCACAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTAT
1 TCCACTGTCAAAT-ACAGGGAGATAGAGT-T---ATC----AGCTTCAATGTAC
* *
47597315 TCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTAC
1 TCCACTGTCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTAC
47597360 TCCACTGT
1 TCCACTGT
47597368 AGTTAGGGAG
Statistics
Matches: 77, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
43 2 0.03
44 12 0.16
45 25 0.32
48 3 0.04
49 3 0.04
52 18 0.23
53 12 0.16
54 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCACTGTCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTAC
Found at i:47597485 original size:44 final size:43
Alignment explanation
Indices: 47597383--47597950 Score: 525
Period size: 44 Copynumber: 12.9 Consensus size: 43
47597373 GGGAGGTAAA
* * * * *
47597383 ATCTGCCATCTTCGATCTGCTTCGCTGCCAACTACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTC-C-ACCAA-TATAGGAAGACAAG
* * * * * *
47597429 ATCTACAATCTTCGATCTACTTCACGCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
47597473 ATCTGCTTTCTTCGATCTACTTGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT-CCACCAATATAGGAAGACAAG
* * *
47597517 ATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
47597560 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
47597604 ATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGGAAGACAAG
* * *
47597649 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
47597692 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
47597736 AT-TGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * *
47597780 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
47597823 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
47597867 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* *
47597912 ATCTGC-ATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGA
47597951 TAGGACCTAT
Statistics
Matches: 423, Mismatches: 81, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
42 8 0.02
43 109 0.26
44 224 0.53
45 59 0.14
46 23 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAAG
Found at i:47597685 original size:132 final size:132
Alignment explanation
Indices: 47597438--47597958 Score: 938
Period size: 132 Copynumber: 4.0 Consensus size: 132
47597428 GATCTACAAT
* *
47597438 CTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTT-GCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
* * *
47597502 GTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCT
*
47597567 AT
131 AC
*
47597569 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTTGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
47597634 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCT
47597699 AC
131 AC
47597701 CTTCGATCTACTTCACGCCAATACATGAAGACAAGAT-TGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
47597765 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCT
47597830 AC
131 AC
47597832 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
*
47597897 ATATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCT
66 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCT
47597959 ATTTACGCCT
Statistics
Matches: 378, Mismatches: 10, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
131 185 0.49
132 193 0.51
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCT
AC
Found at i:47597905 original size:263 final size:263
Alignment explanation
Indices: 47597438--47597955 Score: 939
Period size: 263 Copynumber: 2.0 Consensus size: 263
47597428 GATCTACAAT
* * *
47597438 CTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTGCCACCAG
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTGCCACCAA
47597503 TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
66 TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
* *
47597568 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTTGCCACC
131 CCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
47597633 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
196 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
47597698 TAC
261 TAC
47597701 CTTCGATCTACTTCACGCCAATACATGAAGACAAGAT-TGCTTTCTGCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTT-GCCACCA
* * *
47597765 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
65 ATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCT
47597830 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
130 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
*
47597895 CAATATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGA
195 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
47597956 CCTATTTACG
Statistics
Matches: 245, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
262 18 0.07
263 227 0.93
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (263 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTGCCACCAA
TATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
CCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC
TAC
Found at i:47612783 original size:26 final size:26
Alignment explanation
Indices: 47612736--47612785 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
47612726 ATGTTTAAAA
*
47612736 ACTTTTTATTTATTATTTTTATTTTC
1 ACTTTTTATTTATTATTCTTATTTTC
*
47612762 ACTTTTATCTTTATTA-TCTTATTT
1 ACTTTT-TATTTATTATTCTTATTT
47612786 AAGTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (26 bp):
ACTTTTTATTTATTATTCTTATTTTC
Found at i:47630556 original size:71 final size:66
Alignment explanation
Indices: 47630479--47630626 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
47630469 CAAATGGCAA
* * * *
47630479 AATCTTACATTCTAACCAAATGAAATAAATAAATAAAAAGGTAATGTAATATACTTAGTAATGTG
1 AATCTTACATTCCAACCAAATG----AAACAAA-AAAAAGGTAATATAATATACCTAGTAATGTG
*
47630544 CTAAGT
61 CTAAAT
*
47630550 AATCTTATATTCCAACCAAATGAAACAAAAAAAAGGTAATATAATATACCTAGTAATGTGCTAAA
1 AATCTTACATTCCAACCAAATGAAACAAAAAAAAGGTAATATAATATACCTAGTAATGTGCTAAA
47630615 T
66 T
47630616 AATCTTACATT
1 AATCTTACATT
47630627 TTGACAATCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
66 44 0.63
67 6 0.09
71 20 0.29
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (66 bp):
AATCTTACATTCCAACCAAATGAAACAAAAAAAAGGTAATATAATATACCTAGTAATGTGCTAAA
T
Found at i:47636700 original size:51 final size:50
Alignment explanation
Indices: 47636640--47637285 Score: 589
Period size: 51 Copynumber: 12.7 Consensus size: 50
47636630 GATGAACACG
* * *
47636640 TGTGTAGTACTGTGTGAAGGCTATTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
* * * * * *
47636691 TGTGTAGTACTGAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * * *
47636742 TGTGTAGTACTGGGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * * *
47636793 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * * *
47636844 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * *
47636895 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * * *
47636946 TGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
** * * * * *
47636997 TGTGTAGTACTAAGTGAAGGCTACGATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAA-ATTTGGTCACA
* * *
47637048 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGCCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAAT-TTGGTCACA
* *
47637099 TGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAA--TTTGGTCACA
* * * * * *
47637150 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAAACTTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATC-GAT-AAATTTGGTCACA
* * * * * * *
47637200 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACCATAAAACTTGATCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGAT-AAATTTGGTCACA
* *
47637250 TGTGTAGTACTATGTGAAGGCTATTATGTGTATCGA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGA
47637286 ATGATAAAAG
Statistics
Matches: 485, Mismatches: 95, Indels: 30
0.80 0.16 0.05
Matches are distributed among these distances:
50 93 0.19
51 384 0.79
52 8 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAATTTGGTCACA
Found at i:47636812 original size:102 final size:102
Alignment explanation
Indices: 47636636--47637272 Score: 958
Period size: 102 Copynumber: 6.3 Consensus size: 102
47636626 TATCGATGAA
* * *
47636636 CACGTGTGTAGTACTGTGTGAAGGCTATTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
47636701 TGAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
47636738 CACGTGTGTAGTACTGGGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
47636803 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
47636840 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
47636905 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
47636942 CACATGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
47637007 TAAGTGAAGGCTACGATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
47637044 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGCCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
** * *
47637109 TGTGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *** * *
47637146 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CTG-TAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATC-GATAAATGATGGTCACATGTGTAGTA
* * * * * * *
47637209 CTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
65 CTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGT
*
47637246 CACGTGTGTAGTACTATGTGAAGGCTA
1 CACGTGTGTAGTACTGTGTGAAGGCTA
47637273 TTATGTGTAT
Statistics
Matches: 499, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
100 32 0.06
101 45 0.09
102 422 0.85
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:47644425 original size:16 final size:18
Alignment explanation
Indices: 47644394--47644426 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
47644384 TTGTTTTATT
47644394 TATTTTATCATTAATTAC
1 TATTTTATCATTAATTAC
47644412 TATTTTA-C-TTAATTA
1 TATTTTATCATTAATTA
47644427 TCCTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTATCATTAATTAC
Found at i:47645445 original size:219 final size:219
Alignment explanation
Indices: 47645066--47645504 Score: 779
Period size: 219 Copynumber: 2.0 Consensus size: 219
47645056 GAGGCAGCTC
*
47645066 ATTTGTTCCTTAGACATGTGGTGAAATATTGGGGAGTGTCACAGTCTATCATTAATGATTGAGGG
1 ATTTGTTCCTTAGACATGTGGTGAAATATTGGGGAGTGTCACAGTCTATCATTAATGATCGAGGG
* *
47645131 GTGATTCACGAGCTGGTTCTGGACGGAGTTGTTCAAGTTAATGGGATCAGACTTGATCTTTTCCA
66 GTGATTCACGAGCTGGTTCTGGACGAAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCCA
*
47645196 CTAGTATACATCCACAAACCGATGGTCAAACATAGTAAGCGAATGCGTTGTCGGGAACGTATCTT
131 CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCTT
*
47645261 CGATACTATGTGAGTGCCGCACAA
196 CGATACTATGTGAGTGCCACACAA
*
47645285 ATTTGTTCCTTAGACATGTGGTGAAATATTGGGGAGTGTCACAGTCTATCATTAATGATCGATGG
1 ATTTGTTCCTTAGACATGTGGTGAAATATTGGGGAGTGTCACAGTCTATCATTAATGATCGAGGG
* *
47645350 GTGATTCACGAGCTGGTTCTGGACGAAGTTGTTTAAGTTAATAGGCTCAGACTTGATCTTTTCCA
66 GTGATTCACGAGCTGGTTCTGGACGAAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCCA
* *
47645415 CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGTGAATGCGTTGTCGGGGACGTATCTT
131 CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCTT
*
47645480 CGGTACTATGTGAGTGCCACACAA
196 CGATACTATGTGAGTGCCACACAA
47645504 A
1 A
47645505 AGGACTGGCC
Statistics
Matches: 209, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 209 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (219 bp):
ATTTGTTCCTTAGACATGTGGTGAAATATTGGGGAGTGTCACAGTCTATCATTAATGATCGAGGG
GTGATTCACGAGCTGGTTCTGGACGAAGTTGTTCAAGTTAATAGGATCAGACTTGATCTTTTCCA
CTAGTATACATCCACAAACCGATGGTCAAACATAGCAAGCGAATGCGTTGTCGGGAACGTATCTT
CGATACTATGTGAGTGCCACACAA
Found at i:47646432 original size:20 final size:19
Alignment explanation
Indices: 47646379--47646435 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
47646369 AGCTTGGCAC
* *
47646379 ATATGGAATGTAATCTTTG
1 ATATGAAATGTAATCTTAG
*
47646398 A-A-GAAATGCAATCTTAG
1 ATATGAAATGTAATCTTAG
47646415 ATATGAAATGTAAATCTTAG
1 ATATGAAATGT-AATCTTAG
47646435 A
1 A
47646436 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 13 0.42
18 2 0.06
19 7 0.23
20 9 0.29
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (19 bp):
ATATGAAATGTAATCTTAG
Found at i:47647487 original size:17 final size:17
Alignment explanation
Indices: 47647467--47647501 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47647457 ATTTAATTAA
47647467 TTTTAAAATAAAATATG
1 TTTTAAAATAAAATATG
* *
47647484 TTTTTACATAAAATATG
1 TTTTAAAATAAAATATG
47647501 T
1 T
47647502 GGGTGTGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (17 bp):
TTTTAAAATAAAATATG
Found at i:47648365 original size:14 final size:13
Alignment explanation
Indices: 47648341--47648371 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
47648331 CATTATACAA
47648341 TATATATAAGAAT
1 TATATATAAGAAT
47648354 TATATGATAAGAAT
1 TATAT-ATAAGAAT
47648368 TATA
1 TATA
47648372 CGAATCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TATATATAAGAAT
Found at i:47649593 original size:25 final size:27
Alignment explanation
Indices: 47649548--47649602 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
47649538 GTTGTCAATC
* *
47649548 AATTATTATAAATGATTATTT-TT-TT
1 AATTAATATAAATGATAATTTATTCTT
47649573 AATTAATAT-AATGATGAATTTATTCTT
1 AATTAATATAAATGAT-AATTTATTCTT
47649600 AAT
1 AAT
47649603 ATTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 12 0.48
26 2 0.08
27 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
AATTAATATAAATGATAATTTATTCTT
Found at i:47650912 original size:12 final size:12
Alignment explanation
Indices: 47650889--47650932 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
47650879 AGAGATTGGA
*
47650889 GTGTGAGTTTGT
1 GTGTGTGTTTGT
*
47650901 GTTTGTGTTTGT
1 GTGTGTGTTTGT
*
47650913 GTGTGTGTGTGT
1 GTGTGTGTTTGT
47650925 GTGTGTGT
1 GTGTGTGT
47650933 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.00, G:0.43, T:0.55
Consensus pattern (12 bp):
GTGTGTGTTTGT
Found at i:47650917 original size:2 final size:2
Alignment explanation
Indices: 47650898--47650933 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
47650888 AGTGTGAGTT
* *
47650898 TG TG TT TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
47650934 AGAGAGAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (2 bp):
TG
Found at i:47662898 original size:16 final size:16
Alignment explanation
Indices: 47662868--47662916 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
47662858 TATATGTATC
47662868 ATAAATATATAAAATTA
1 ATAAATAT-TAAAATTA
47662885 ATAAATATTAAAATCT-
1 ATAAATATTAAAAT-TA
*
47662901 ATAAAT-TTAAACTTA
1 ATAAATATTAAAATTA
47662916 A
1 A
47662917 ATGATAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 12 0.41
17 9 0.31
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATATTAAAATTA
Found at i:47663818 original size:6 final size:7
Alignment explanation
Indices: 47663803--47663830 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47663793 ATTAAATAGA
47663803 TTTTATT
1 TTTTATT
47663810 TTTTATT
1 TTTTATT
47663817 TTTTATT
1 TTTTATT
47663824 TTTTATT
1 TTTTATT
47663831 CTTCTCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:47664979 original size:15 final size:15
Alignment explanation
Indices: 47664955--47665001 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
47664945 TTTCAAAATT
47664955 TATT-TATATAT-CA
1 TATTGTATATATACA
47664968 TACTTGTATATATACA
1 TA-TTGTATATATACA
* *
47664984 TATTGTGTAAATACA
1 TATTGTATATATACA
47664999 TAT
1 TAT
47665002 ACATATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 21 0.72
16 4 0.14
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTGTATATATACA
Found at i:47668619 original size:25 final size:25
Alignment explanation
Indices: 47668591--47668644 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
47668581 AAATGTGGAC
*
47668591 AAAATAAAACAATAAAATTGTAGAT
1 AAAATAAAACAACAAAATTGTAGAT
* *
47668616 AAAATAAAACCACAAAATTGTGGAT
1 AAAATAAAACAACAAAATTGTAGAT
47668641 AAAA
1 AAAA
47668645 CCATGGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.20
Consensus pattern (25 bp):
AAAATAAAACAACAAAATTGTAGAT
Found at i:47671279 original size:31 final size:31
Alignment explanation
Indices: 47671244--47671305 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
47671234 AACTTAACTC
47671244 ATGCATCAATAAATAATCCTAGTAACTAGAT
1 ATGCATCAATAAATAATCCTAGTAACTAGAT
47671275 ATGCATCAATAAATAATCCTAGTAACTAGAT
1 ATGCATCAATAAATAATCCTAGTAACTAGAT
47671306 TAATTAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
ATGCATCAATAAATAATCCTAGTAACTAGAT
Found at i:47671577 original size:50 final size:52
Alignment explanation
Indices: 47671452--47671582 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 52
47671442 TGAACAAATG
* * *
47671452 AGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGA
** * * *
47671504 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
*
47671554 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
47671583 CAGAACACAC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 31 0.48
51 15 0.23
52 19 0.29
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:47698790 original size:24 final size:24
Alignment explanation
Indices: 47698740--47698794 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
47698730 TTGATTTCAT
*
47698740 TACAGAAACCATATATCCTGTTACA
1 TACATAAACCATATATCC-GTTACA
*
47698765 TACATAAACCCATATATCC-TTCCA
1 TACATAAA-CCATATATCCGTTACA
47698789 TACATA
1 TACATA
47698795 CACGCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 7 0.26
26 10 0.37
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (24 bp):
TACATAAACCATATATCCGTTACA
Found at i:47711337 original size:35 final size:36
Alignment explanation
Indices: 47711290--47711362 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
47711280 CCTAAAGTTT
47711290 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
1 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
*
47711326 TACA-TTCTTAACCCTGTAATGCCATCATATTCATA
1 TACATTTCTTAACCCCGTAATGCCATCATATTCATA
47711361 TA
1 TA
47711363 ATCCATCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (36 bp):
TACATTTCTTAACCCCGTAATGCCATCATATTCATA
Found at i:47714025 original size:36 final size:36
Alignment explanation
Indices: 47713978--47714053 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
47713968 GTTATATTGT
* *
47713978 GAACCATGTTAACTTGGTGAAT-TATATTATTATGGC
1 GAACCATGTTAACTTGGTG-ATGTATATTAATATGAC
*
47714014 GAACCATGTTAATTTGGTGATGTATATTAATATGAC
1 GAACCATGTTAACTTGGTGATGTATATTAATATGAC
47714050 GAAC
1 GAAC
47714054 TATATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (36 bp):
GAACCATGTTAACTTGGTGATGTATATTAATATGAC
Found at i:47714062 original size:36 final size:36
Alignment explanation
Indices: 47713978--47714065 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
47713968 GTTATATTGT
* * * *
47713978 GAACCATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACCATATTAATTTGGTGAATTATATTAATATGAC
*
47714014 GAACCATGTTAATTTGGTG-ATGTATATTAATATGAC
1 GAACCATATTAATTTGGTGAAT-TATATTAATATGAC
*
47714050 GAACTATATTAATTTG
1 GAACCATATTAATTTG
47714066 CCAAACTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 2 0.04
36 44 0.96
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (36 bp):
GAACCATATTAATTTGGTGAATTATATTAATATGAC
Found at i:47714696 original size:17 final size:17
Alignment explanation
Indices: 47714676--47714776 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
47714666 TTATGATGGA
47714676 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* * **
47714693 GCATGAATTATTATTCG
1 GCATGAACTGTTATTTT
* * *
47714710 GTATGAATTGGTATTTT
1 GCATGAACTGTTATTTT
** *
47714727 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
* ** *
47714744 GCATGAGCTGTCCTTTG
1 GCATGAACTGTTATTTT
*
47714761 GCAAGAACTGTTATTT
1 GCATGAACTGTTATTT
47714777 CATATGAACA
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:47716472 original size:14 final size:14
Alignment explanation
Indices: 47716450--47716483 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47716440 TTTAAAAAAA
* *
47716450 ATATGTATATGTGT
1 ATATATATATGTAT
47716464 ATATATATATGTAT
1 ATATATATATGTAT
47716478 ATATAT
1 ATATAT
47716484 GTATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:47716620 original size:20 final size:21
Alignment explanation
Indices: 47716597--47716647 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
47716587 AGAAGAATAT
*
47716597 GTATATATATAAATTATA-AA
1 GTATATATATAAAATATATAA
*
47716617 GTATATA-AAAAAATATATAA
1 GTATATATATAAAATATATAA
*
47716637 GTATGTATATA
1 GTATATATATA
47716648 TATAACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 8 0.32
20 15 0.60
21 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (21 bp):
GTATATATATAAAATATATAA
Found at i:47716695 original size:3 final size:3
Alignment explanation
Indices: 47716681--47716770 Score: 76
Period size: 3 Copynumber: 28.7 Consensus size: 3
47716671 TAAATGGGTA
* *
47716681 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AA- ATAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* *
47716729 GAT AAT AAT AAT AAT AAGT -TT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT AAT AA
47716771 CGGGACTAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.03
3 59 0.81
4 9 0.12
5 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:47716708 original size:18 final size:17
Alignment explanation
Indices: 47716682--47716770 Score: 89
Period size: 18 Copynumber: 5.4 Consensus size: 17
47716672 AAATGGGTAA
*
47716682 ATAAAAATAATAATAAG
1 ATAATAATAATAATAAG
*
47716699 GTAAGTAATAATAATAA-
1 ATAA-TAATAATAATAAG
*
47716716 AT-ACAATAATAAT--G
1 ATAATAATAATAATAAG
47716730 ATAATAATAATAATAAG
1 ATAATAATAATAATAAG
*
47716747 TTTAATAATAATAATAA-
1 -ATAATAATAATAATAAG
47716764 ATAATAA
1 ATAATAA
47716771 CGGGACTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
14 2 0.03
15 19 0.32
16 7 0.12
17 5 0.08
18 26 0.44
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (17 bp):
ATAATAATAATAATAAG
Found at i:47718111 original size:43 final size:43
Alignment explanation
Indices: 47718058--47718159 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
47718048 TCCACTGCGT
* * *
47718058 CTTGTCGCTTCGATCTACTCCACTGCACTTTAGAAAGATATGA
1 CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
* * * *
47718101 CTTGTAGCTTCAATCCACTCTACTGCACTTCAGAAAGGTTTGA
1 CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
47718144 CTTGTAGCTTCAATCT
1 CTTGTAGCTTCAATCT
47718160 TCTTCGCAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (43 bp):
CTTGTAGCTTCAATCTACTCCACTGCACTTCAGAAAGATATGA
Found at i:47718687 original size:89 final size:93
Alignment explanation
Indices: 47718452--47718703 Score: 250
Period size: 89 Copynumber: 2.7 Consensus size: 93
47718442 TTAATCTGTT
** *
47718452 CCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTTAATCTGCTCTACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGAGGATAAGATTTGCTAT-TTCAATCTGCTCTACTGCAACTTCAGGGAGA
** * * *
47718517 T-AGATCCATCATTTTAACCCGCTCCACTGCT
65 TAAGA-CCAT-ATAGTAA-CCGATCAACTGCC
* * * * *
47718548 CTACTGCAACTTCAAGGAGG-TAGGATTAG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 CCACTGCAACTTC-AGGAGGATAAGATTTGCT-ATTTCAATCTGCTCTACTGCAACTTCAGGGAG
47718611 ATAAGA-C-T-TAGT-A-CGATCAATCTGCC
64 ATAAGACCATATAGTAACCGATCAA-CTGCC
* *
47718637 CCACTGCAACTTCAGGAGGATAAGATTTGCTATTTCAACCTGCTCTACTGCAACTTCAGAGAGAT
1 CCACTGCAACTTCAGGAGGATAAGATTTGCTATTTCAATCTGCTCTACTGCAACTTCAGGGAGAT
47718702 AA
66 AA
47718704 AGTTTGATAT
Statistics
Matches: 130, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
88 11 0.08
89 55 0.42
90 2 0.02
91 2 0.02
93 1 0.01
94 1 0.01
95 31 0.24
96 23 0.18
97 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (93 bp):
CCACTGCAACTTCAGGAGGATAAGATTTGCTATTTCAATCTGCTCTACTGCAACTTCAGGGAGAT
AAGACCATATAGTAACCGATCAACTGCC
Found at i:47718703 original size:44 final size:43
Alignment explanation
Indices: 47718273--47718747 Score: 198
Period size: 44 Copynumber: 10.6 Consensus size: 43
47718263 TTAGTCTGAC
* * * * * *
47718273 CTACTGCAACTTCAGCG-GTATAAGATTAGCAGCTTCAGTCTACT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTGTA-TTTCAATCTGCT
* * * * *
47718317 CCACTGCAACTTCAGGGAGATAAGGTTTGCTACTTCAACCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTTG-TATTTCAATCTGCT
* * * * * *
47718361 CTACTGCAACTTTAAAGAGATAAGGTTTG-ATAT-GATCTGTT
1 CTACTGCAACTTCAGAGAGATAAGATTTGTATTTCAATCTGCT
* * * *
47718402 CTACTGTAACTTCATAGAGATGAGATTAGTTATGGTAGATTT-AATCTGTT
1 CTACTGCAACTTCAGAGAGAT-A-A-GA-TT-T-GT--ATTTCAATCTGCT
* * *
47718452 CCACTGCAACTTCAG-GAAAATAAGATTTGCTATCTTTAATCTGCT
1 CTACTGCAACTTCAGAG-AGATAAGATTTG-TAT-TTCAATCTGCT
* *** *
47718497 CTACTGCAACTTCAGGGAGAT-AGATCCATCATTTTAACCCGCTCCACTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTTGT-ATTTCAA-----T---CTGCT
* * * *
47718548 CTACTGCAACTTCA-AGGAGGTAGGATTAGTAACTTCAATCTGCT
1 CTACTGCAACTTCAGA-GAGATAAGATTTGT-ATTTCAATCTGCT
* * * ** *
47718592 CCACTGCAACTTCAGGGAGATAAGACTTAGTACGATCAATCTGCC
1 CTACTGCAACTTCAGAGAGATAAGA-TTTGTA-TTTCAATCTGCT
* *
47718637 CCACTGCAACTTCAG-GAGGATAAGATTTGCTATTTCAACCTGCT
1 CTACTGCAACTTCAGAGA-GATAAGATTTG-TATTTCAATCTGCT
* *
47718681 CTACTGCAACTTCAGAGAGATAA-AGTTTG-ATAT-GATCTGCT
1 CTACTGCAACTTCAGAGAGATAAGA-TTTGTATTTCAATCTGCT
* *
47718722 CTACTACAACTTCAGAGAGATGAGAT
1 CTACTGCAACTTCAGAGAGATAAGAT
47718748 CTGTGGCTCT
Statistics
Matches: 334, Mismatches: 62, Indels: 73
0.71 0.13 0.16
Matches are distributed among these distances:
41 51 0.15
42 7 0.02
43 10 0.03
44 128 0.38
45 70 0.21
46 4 0.01
47 3 0.01
48 2 0.01
49 2 0.01
50 25 0.07
51 23 0.07
52 9 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
CTACTGCAACTTCAGAGAGATAAGATTTGTATTTCAATCTGCT
Found at i:47718823 original size:44 final size:44
Alignment explanation
Indices: 47718774--47718971 Score: 186
Period size: 44 Copynumber: 4.5 Consensus size: 44
47718764 AAACATTTGC
* * *
47718774 TATCTTCAGTCTGCTACACTGCAACCTCAGTGAGATAAGACTTG
1 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* * **
47718818 TATCTTCA-ACATG-TCCCACTGCAACTTCAGGGGGATAAGGTTTG
1 TATCTTCAGTC-TGCT-CCACTGCAACTTCAGGGAGATAAGACTTG
* * *
47718862 ACATCCTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTG
1 -TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
** * **
47718907 TATCTTCAACCTGCCCCACTGCAACTTCAAGGG-GATAAGGTTTG
1 TATCTTCAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTTG
*
47718951 TTATCCTCAGTCTGCTCCACT
1 -TATCTTCAGTCTGCTCCACT
47718972 ACTGCTTAAG
Statistics
Matches: 121, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
43 2 0.02
44 64 0.53
45 53 0.44
46 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
Found at i:47718930 original size:89 final size:89
Alignment explanation
Indices: 47718779--47718971 Score: 305
Period size: 89 Copynumber: 2.2 Consensus size: 89
47718769 TTTGCTATCT
* * *
47718779 TCAGTCTGCTACACTGCAACCTCAGTGAGATAAGACTTGTATCTTCAACATGTCCCACTGCAACT
1 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
*
47718844 TCAGGGGGATAAGGTTTGACATCC
66 TCAAGGGGATAAGGTTTGACATCC
* * *
47718868 TCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAACCTGCCCCACTGCAACT
1 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
**
47718933 TCAAGGGGATAAGGTTTGTTATCC
66 TCAAGGGGATAAGGTTTGACATCC
47718957 TCAGTCTGCTCCACT
1 TCAGTCTGCTCCACT
47718972 ACTGCTTAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 95 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (89 bp):
TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTCAACATGCCCCACTGCAACT
TCAAGGGGATAAGGTTTGACATCC
Found at i:47719054 original size:45 final size:45
Alignment explanation
Indices: 47718983--47719453 Score: 635
Period size: 45 Copynumber: 10.5 Consensus size: 45
47718973 CTGCTTAAGG
* * *
47718983 AGACAGGATCTGCAATC-TCCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGA
*
47719028 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * *
47719073 AGACAAGACCTGCTATCTTCAATCTACTTCGCTGCCGATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
*
47719118 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * *
47719163 AGACAAGACCTGCTATCTTCAATCTACTTCGCTGCCGATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* *
47719208 AGACAATATCTGCTATCTTTAGTCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * * *
47719253 AGACAA-AACATGCTATCTT-TGATCTACTTTGCTGCCAATATAGGA
1 AGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGA
* *
47719298 AAACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAAGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
* * * * * *
47719343 GGACAAGACCTGCTATCTTTTA-TCTACTTTGCTACCGATACAGGA
1 AGACAAGATCTGCTATC-TTCAGTCTACTTCGCTGCCAATACAGGA
*
47719388 AGACAAAATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
*
47719433 AGACAAGACCTGCTATCTTCA
1 AGACAAGATCTGCTATCTTCA
47719454 CTGATCTGTT
Statistics
Matches: 371, Mismatches: 48, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
44 6 0.02
45 356 0.96
46 9 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (45 bp):
AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGA
Found at i:47719136 original size:90 final size:90
Alignment explanation
Indices: 47719004--47719453 Score: 720
Period size: 90 Copynumber: 5.0 Consensus size: 90
47718994 GCAATCTCCG
* *
47719004 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATAC
1 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
47719069 AGGAAGACAAGACCTGCTATCTTCA
66 AGGAAGACAAGACCTGCTATCTTCA
*
47719094 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTACCAATAC
1 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
47719159 AGGAAGACAAGACCTGCTATCTTCA
66 AGGAAGACAAGACCTGCTATCTTCA
* *
47719184 ATCTACTTCGCTGCCGATACAGGAAGACAATATCTGCTATCTTTAGTCTACTTCGCTGCCAATAC
1 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
* * **
47719249 AGGAAGACAAAACATGCTATCTTTG
66 AGGAAGACAAGACCTGCTATCTTCA
* * * *
47719274 ATCTACTTTGCTGCCAATATAGGAAAACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
1 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
* * **
47719339 AAGAGGACAAGACCTGCTATCTTTT
66 AGGAAGACAAGACCTGCTATCTTCA
* * *
47719364 ATCTACTTTGCTACCGATACAGGAAGACAAAATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
1 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
47719429 AGGAAGACAAGACCTGCTATCTTCA
66 AGGAAGACAAGACCTGCTATCTTCA
47719454 CTGATCTGTT
Statistics
Matches: 332, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 332 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (90 bp):
ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATAC
AGGAAGACAAGACCTGCTATCTTCA
Found at i:47725763 original size:17 final size:19
Alignment explanation
Indices: 47725741--47725786 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
47725731 CTGTAAGATA
47725741 AATATTAAAATAA-A-TTT
1 AATATTAAAATAATATTTT
*
47725758 AATATTAAGATAATTATTTT
1 AATATTAAAATAA-TATTTT
47725778 AATATTAAA
1 AATATTAAA
47725787 TTAACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.50
19 1 0.04
20 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAAATAATATTTT
Found at i:47725764 original size:52 final size:50
Alignment explanation
Indices: 47725654--47725765 Score: 118
Period size: 52 Copynumber: 2.2 Consensus size: 50
47725644 TAATCACTTC
* * * *
47725654 AATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAATATTA
1 AATATTAAATCAATAGAATACTTATCAAGATAAATATTAAAATAATATTA
* *
47725704 AATCTATTAAATCAATAGAATATTTATCTGTAAGATAAATATTAAAATAA-ATTT
1 AA--TATTAAATCAATAGAATACTTATC---AAGATAAATATTAAAATAATATTA
47725758 AATATTAA
1 AATATTAA
47725766 GATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
50 2 0.04
52 27 0.53
54 5 0.10
55 17 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (50 bp):
AATATTAAATCAATAGAATACTTATCAAGATAAATATTAAAATAATATTA
Found at i:47726250 original size:19 final size:18
Alignment explanation
Indices: 47726226--47726262 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
47726216 GAAAATATCA
47726226 TATTAATTTTAATTAATTT
1 TATTAA-TTTAATTAATTT
*
47726245 TATTAATTTAATTTATTT
1 TATTAATTTAATTAATTT
47726263 GATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTAATTTAATTAATTT
Found at i:47730601 original size:18 final size:17
Alignment explanation
Indices: 47730575--47730622 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
47730565 TAAAAATAAA
47730575 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
47730593 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
47730611 AATGTTTTGAAA
1 AACGTTTTGAAA
47730623 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:47732112 original size:14 final size:14
Alignment explanation
Indices: 47732093--47732142 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
47732083 ATTACAATAT
*
47732093 TTAATTTAGAATTA
1 TTAATTTAAAATTA
47732107 TTAATTTAAAATT-
1 TTAATTTAAAATTA
* *
47732120 TTAGAATTATAATTA
1 TTA-ATTTAAAATTA
47732135 -TAATTTAA
1 TTAATTTAA
47732143 TTATACATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (14 bp):
TTAATTTAAAATTA
Found at i:47732135 original size:6 final size:6
Alignment explanation
Indices: 47732124--47732173 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
47732114 AAAATTTTAG
**
47732124 AATTAT AATTAT AATT-T AATTAT ACATT-T AAAAAT AATTAT AATT-T
1 AATTAT AATTAT AATTAT AATTAT A-ATTAT AATTAT AATTAT AATTAT
47732170 AATT
1 AATT
47732174 GAAGTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
5 11 0.30
6 23 0.62
7 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:47732145 original size:11 final size:12
Alignment explanation
Indices: 47732124--47732173 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
47732114 AAAATTTTAG
47732124 AATTATAATTAT
1 AATTATAATTAT
47732136 AATT-TAATTAT
1 AATTATAATTAT
**
47732147 ACATT-TAAAAAT
1 A-ATTATAATTAT
47732159 AATTATAATT-T
1 AATTATAATTAT
47732170 AATT
1 AATT
47732174 GAAGTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTATAATTAT
Found at i:47733432 original size:3 final size:3
Alignment explanation
Indices: 47733424--47733478 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
47733414 TAATATTTCC
47733424 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47733472 ATT ATT A
1 ATT ATT A
47733479 ATTTTTTACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:47735958 original size:34 final size:34
Alignment explanation
Indices: 47735915--47736030 Score: 196
Period size: 34 Copynumber: 3.4 Consensus size: 34
47735905 CAACGACATA
* *
47735915 AGAAGGCATACAACATGACAACCACATCCTAACG
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
* *
47735949 AGAAGGCATACGACATGACAGCGACATCCTAACA
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
47735983 AGAAGGCATACGACATGACAGCCACATCCTAACG
1 AGAAGGCATACGACATGACAGCCACATCCTAACG
47736017 AGAAGGCATACGAC
1 AGAAGGCATACGAC
47736031 GTCACAATGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 76 1.00
ACGTcount: A:0.41, C:0.28, G:0.20, T:0.11
Consensus pattern (34 bp):
AGAAGGCATACGACATGACAGCCACATCCTAACG
Found at i:47737086 original size:24 final size:24
Alignment explanation
Indices: 47737054--47737100 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
47737044 TACATCTTTG
*
47737054 TAATATATATGTACATATATTTTA
1 TAATATATATATACATATATTTTA
*
47737078 TAATTTATATATACATATATTTT
1 TAATATATATATACATATATTTT
47737101 TGTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATATATATATACATATATTTTA
Found at i:47737334 original size:24 final size:23
Alignment explanation
Indices: 47737298--47737342 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47737288 ATACTTTATT
* *
47737298 ATTTTTATAATTTTGTTCATGTTC
1 ATTTTGATAA-TTTATTCATGTTC
*
47737322 ATTTTGATTATTTATTCATGT
1 ATTTTGATAATTTATTCATGT
47737343 CTTTATCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (23 bp):
ATTTTGATAATTTATTCATGTTC
Found at i:47744463 original size:20 final size:20
Alignment explanation
Indices: 47744435--47744473 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47744425 GAAGAGAGAG
47744435 AAAAGAAAATAATAAAACAT
1 AAAAGAAAATAATAAAACAT
* *
47744455 AAAATAAAATAATATAACA
1 AAAAGAAAATAATAAAACA
47744474 ACAACTCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAGAAAATAATAAAACAT
Found at i:47746009 original size:21 final size:20
Alignment explanation
Indices: 47745913--47746051 Score: 62
Period size: 19 Copynumber: 7.0 Consensus size: 20
47745903 TTATTTATAT
*
47745913 GTTATAAAAATATGA-AATAA
1 GTTATAAAAATAT-ATAAAAA
* *
47745933 -TTATAAAAATATTTTAGAAA
1 GTTATAAAAATA-TATAAAAA
*
47745953 -TTA-AATTAAATTTATTAAAAA
1 GTTATAA--AAATATA-TAAAAA
*
47745974 -TT-TAAAAAAACTATAAAAA
1 GTTATAAAAATA-TATAAAAA
**
47745993 GTTATATAAAATATAT-ATGA
1 GTTATA-AAAATATATAAAAA
*
47746013 -TTATAAAAATTATTTAAAAA
1 GTTATAAAAA-TATATAAAAA
*
47746033 GTTATAAACAT-TATAAAAA
1 GTTATAAAAATATATAAAAA
47746052 ATATAGAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
18 4 0.04
19 38 0.42
20 17 0.19
21 26 0.29
22 5 0.06
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
GTTATAAAAATATATAAAAA
Found at i:47746024 original size:9 final size:9
Alignment explanation
Indices: 47745914--47746062 Score: 61
Period size: 9 Copynumber: 15.2 Consensus size: 9
47745904 TATTTATATG
47745914 TTATAAAAA
1 TTATAAAAA
47745923 -TATGAAATAA
1 TTAT-AAA-AA
47745933 TTATAAAAATA
1 TTAT-AAAA-A
* *
47745944 TTTTAGAAA
1 TTATAAAAA
47745953 TTA-AATTAAA
1 TTATAA--AAA
47745963 TTTATTAAAAA
1 -TTA-TAAAAA
*
47745974 TTTAAAAAAA
1 -TTATAAAAA
*
47745984 CTATAAAAA
1 TTATAAAAA
47745993 GTTATATAAAA
1 -TTATA-AAAA
**
47746004 -TATATATGA
1 TTATA-AAAA
47746013 TTATAAAAA
1 TTATAAAAA
47746022 TTATTTAAAAA
1 TTA--TAAAAA
*
47746033 GTTATAAACA
1 -TTATAAAAA
47746043 TTATAAAAA
1 TTATAAAAA
* *
47746052 ATATAGAAA
1 TTATAAAAA
47746061 TT
1 TT
47746063 TTTTATTATT
Statistics
Matches: 107, Mismatches: 18, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.04
9 41 0.38
10 27 0.25
11 30 0.28
12 3 0.03
13 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:47746052 original size:21 final size:21
Alignment explanation
Indices: 47746013--47746052 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47746003 ATATATATGA
**
47746013 TTATAAAAATTATTTAAAAAG
1 TTATAAAAATTATAAAAAAAG
*
47746034 TTATAAACATTATAAAAAA
1 TTATAAAAATTATAAAAAA
47746053 TATAGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TTATAAAAATTATAAAAAAAG
Found at i:47746664 original size:29 final size:28
Alignment explanation
Indices: 47746625--47746692 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
47746615 AAGTCCCATG
47746625 TGTAT-AATTGCACCA-AAACAAAGTTTA
1 TGTATAAATTGCA-CATAAACAAAGTTTA
47746652 TGTATCAAATTGCACATTGAAACAAAGTTTA
1 TGTAT-AAATTGCACA-T-AAACAAAGTTTA
47746683 TGTATAAATT
1 TGTATAAATT
47746693 TGATATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 7 0.19
30 5 0.14
31 17 0.47
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (28 bp):
TGTATAAATTGCACATAAACAAAGTTTA
Found at i:47746783 original size:21 final size:20
Alignment explanation
Indices: 47746737--47746776 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47746727 AAAGTGTTAT
47746737 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATA-G
*
47746758 AAAAATTTATGTAAATTAT
1 AAAAATTTA-GAAAATTAT
47746777 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
AAAAATTTAGAAAATTATAG
Found at i:47746783 original size:22 final size:21
Alignment explanation
Indices: 47746737--47746785 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
47746727 AAAGTGTTAT
*
47746737 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATAGA
*
47746758 AAAAATTTATGTAAATTATTA-A
1 AAAAATTTA-GAAAATTA-TAGA
47746780 AAAAAT
1 AAAAAT
47746786 ATTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 13 0.54
23 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAAATTTAGAAAATTATAGA
Found at i:47748000 original size:32 final size:32
Alignment explanation
Indices: 47747964--47748027 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
47747954 AATATTATTT
47747964 TATATTATTTAAT-AATTTTT-AAATTTTAAAAA
1 TATATT-TTT-ATGAATTTTTAAAATTTTAAAAA
*
47747996 TATATTTTTTTGAATTTTTAAAATTTTAAAAA
1 TATATTTTTATGAATTTTTAAAATTTTAAAAA
47748028 CTAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 1 0.03
31 10 0.34
32 18 0.62
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
TATATTTTTATGAATTTTTAAAATTTTAAAAA
Found at i:47762613 original size:96 final size:95
Alignment explanation
Indices: 47762369--47762656 Score: 367
Period size: 96 Copynumber: 3.0 Consensus size: 95
47762359 GTTTTTAGAT
* *
47762369 TTTAAGGTTTTAAGG-TTTTAAGAAAAAAATTAAATAAATAAGGGTTTAGG--A-TT---TAAGT
1 TTTAAGG-TTTAAGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGTTACTTGAGTAAAT
*
47762427 TAATTATAAATTTTAAAAAAAATAGATTAGAG
65 TAATTATAAATTTTAAAAAAAA-AGATTAGGG
* **
47762459 TTT-AGCGTTTATGGTTTTTAAGGAAAAAAAAAGAAATAAATTAGGGTTTATGGTTACTTGAGTA
1 TTTAAG-GTTTAAGGTTTTTAA-G-AAAAAAATTAAATAAATTAGGGTTTA-GGTTACTTGAGTA
47762523 AATTAATTATAAATTTTAAAAAAAAAGATTAGGG
62 AATTAATTATAAATTTTAAAAAAAAAGATTAGGG
*
47762557 TTTAAGGTTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAAT
1 TTTAAGGTTTAAGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTA-GGTTACTTGAGTAAAT
* *
47762622 TAATTATAAATTTTAAAAAAATTAGACTAGGG
65 TAATTATAAATTTTAAAAAAA-AAGATTAGGG
47762654 TTT
1 TTT
47762657 TTAAGGAAAA
Statistics
Matches: 173, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
89 8 0.05
90 10 0.06
91 1 0.01
92 23 0.13
93 2 0.01
95 1 0.01
96 63 0.36
97 12 0.07
98 25 0.14
99 28 0.16
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.37
Consensus pattern (95 bp):
TTTAAGGTTTAAGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGTTACTTGAGTAAATT
AATTATAAATTTTAAAAAAAAAGATTAGGG
Found at i:47762680 original size:82 final size:84
Alignment explanation
Indices: 47762566--47762739 Score: 307
Period size: 82 Copynumber: 2.1 Consensus size: 84
47762556 GTTTAAGGTT
47762566 TAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
1 TAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
47762631 ATTTT-AAAAAAATTAGAC
66 ATTTTAAAAAAAATTAGAC
* *
47762649 TAGGGTTTTTAAG-GAAAAATTAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAA
1 TAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
*
47762713 ATTTTAAAAAAAATTAGAT
66 ATTTTAAAAAAAATTAGAC
47762732 TAGGGTTT
1 TAGGGTTT
47762740 AGTGTTTAGG
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
82 54 0.62
83 33 0.38
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (84 bp):
TAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
ATTTTAAAAAAAATTAGAC
Found at i:47763053 original size:126 final size:126
Alignment explanation
Indices: 47762825--47763364 Score: 900
Period size: 126 Copynumber: 4.3 Consensus size: 126
47762815 TAATTTAAAA
* * * * *
47762825 AAGCTCCCACGTGGATGCTCTTTTACTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
* * * ** *
47762890 CTGAGCAAATAGTGTCAAAAACATTTTAAGCAGGATGCATTGTCAGTAAAAATACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
*
47762951 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
*
47763016 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
* * *
47763077 AAGCTCCCAAGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATATTTTTGAGAAGATTTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
* *
47763142 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
* *
47763203 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATTTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
47763268 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
47763329 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
47763365 CATATTTGGC
Statistics
Matches: 391, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 391 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAACAAAAGTACTGAAAG
Found at i:47766657 original size:21 final size:21
Alignment explanation
Indices: 47766633--47766694 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
47766623 TTGTCCAGCT
*
47766633 TCCGGCAGGGGTTGTGGTTGC
1 TCCGGCAGGGGTTCTGGTTGC
* *
47766654 TCCGGC-GAGGATTCTGGTTCC
1 TCCGGCAG-GGGTTCTGGTTGC
* *
47766675 TCCGGTAGGGGATCTGGTTG
1 TCCGGCAGGGGTTCTGGTTG
47766695 TCAATGTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.08, C:0.21, G:0.42, T:0.29
Consensus pattern (21 bp):
TCCGGCAGGGGTTCTGGTTGC
Found at i:47769335 original size:34 final size:35
Alignment explanation
Indices: 47769291--47769357 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
47769281 CAGTAAAATA
* *
47769291 TTTTCCGTAAAATG-ATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
*
47769325 TTTTCTGTAAAATGAATTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
47769358 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:47769344 original size:20 final size:20
Alignment explanation
Indices: 47769306--47769345 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47769296 CGTAAAATGA
**
47769306 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGAATTACT
*
47769326 TTTCTGTAAAATGAATTACT
1 TTTCTGGAAAATGAATTACT
47769346 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGAATTACT
Found at i:47774016 original size:3 final size:3
Alignment explanation
Indices: 47774008--47774053 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
47773998 TAATGTTACC
* *
47774008 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
47774054 CATTTAATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:47782109 original size:3 final size:3
Alignment explanation
Indices: 47782101--47782179 Score: 54
Period size: 3 Copynumber: 25.7 Consensus size: 3
47782091 TTAGCATTTT
* *
47782101 TTA TTA TTA TTTA GTTA TTA TTA TTA TCA TTA TTA TCT- TTA CTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * *
47782148 TTA -TA TTTA TTA ATA CTA TTG TTA GTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
47782180 GTTTTCTTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 3 0.05
3 47 0.80
4 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:47782556 original size:15 final size:14
Alignment explanation
Indices: 47782522--47782569 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
47782512 TTTCTTTGTT
47782522 TTTTTATTGTATTTA
1 TTTTTATT-TATTTA
47782537 CTTTTTATTTATTTCA
1 -TTTTTATTTATTT-A
*
47782553 TTTTCA-TTATTTA
1 TTTTTATTTATTTA
47782566 TTTT
1 TTTT
47782570 GAATGAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 10 0.33
16 9 0.30
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:47783539 original size:18 final size:19
Alignment explanation
Indices: 47783499--47783543 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
47783489 ATATAATTTT
47783499 TTAAAATATATATAATACA
1 TTAAAATATATATAATACA
*
47783518 TTAAAA-ATACTA-AATACG
1 TTAAAATATA-TATAATACA
47783536 TTAAAATA
1 TTAAAATA
47783544 AATGTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAATATATATAATACA
Found at i:47783799 original size:12 final size:12
Alignment explanation
Indices: 47783761--47783801 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
47783751 AAATAGCATG
47783761 AAAACAGTAAAA
1 AAAACAGTAAAA
*
47783773 AAAA-AG-AGAAG
1 AAAACAGTA-AAA
47783784 AAAACAGTAAAA
1 AAAACAGTAAAA
47783796 AAAACA
1 AAAACA
47783802 ACAGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 1 0.04
11 8 0.33
12 14 0.58
13 1 0.04
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAACAGTAAAA
Found at i:47804790 original size:34 final size:33
Alignment explanation
Indices: 47804734--47804801 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 33
47804724 TGAATAGGTT
*
47804734 GCTCCCCCTTAATAAAAGTCATTTTCAATTTAA
1 GCTCCCCCCTAATAAAAGTCATTTTCAATTTAA
47804767 GCTCCCCCCTATATGAAAA-TCATTTTCAATTTAA
1 GCTCCCCCCTA-AT-AAAAGTCATTTTCAATTTAA
47804801 G
1 G
47804802 GCATAAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 10 0.31
34 18 0.56
35 4 0.12
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (33 bp):
GCTCCCCCCTAATAAAAGTCATTTTCAATTTAA
Found at i:47815721 original size:42 final size:42
Alignment explanation
Indices: 47815674--47815754 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
47815664 AGACCTAATA
* * * **
47815674 GAAACCCTTAAGGGTTGAATGGAAGCTCGTAAGAGCTGAGCG
1 GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAGCG
47815716 GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGA
1 GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGA
47815755 ACAAAATCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAGCG
Done.