Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 159 of 218
Found at i:48339695 original size:187 final size:186
Alignment explanation
Indices: 48339357--48339758 Score: 582
Period size: 186 Copynumber: 2.2 Consensus size: 186
48339347 CTAATGCTCA
*
48339357 GGGATTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTG
1 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTG
48339422 AGCTTTCGGGGATTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTT
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTT
* *
48339487 TTGGGGATACGTCGCAAAAAAACCTAAGCCAAACGACACTGTTTTCTGAGCTTTTG
131 TTGGGGAAACGCCGCAAAAAAACCTAAGCCAAACGACACTGTTTTCTGAGCTTTTG
* *
48339543 GGGATTTAGCGGTGTTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCT
1 GGGATTTAGCGGCG-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCT
* * *
48339607 GAGCTTTCGGGGATTTAGCGTCATTTTTTAGAAAGCGCCGCTAATTCTCAGGGCTTTAG-GGCGT
65 GAGCTTTCGGGGATTTAGCGGC-GTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGT
* * * * * **
48339671 TTTTGGGGAAACGCCGCAAAAAAA--AAAGCCCAACGGTGCCCT-TTTT-TGAGCTATCA
129 TTTTGGGGAAACGCCGCAAAAAAACCTAAGCCAAAC-G-ACACTGTTTTCTGAGCTTTTG
*
48339727 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
48339759 TAATACTCAG
Statistics
Matches: 195, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
183 17 0.09
184 28 0.14
185 5 0.03
186 94 0.48
187 51 0.26
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (186 bp):
GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTG
AGCTTTCGGGGATTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTT
TTGGGGAAACGCCGCAAAAAAACCTAAGCCAAACGACACTGTTTTCTGAGCTTTTG
Found at i:48339753 original size:111 final size:112
Alignment explanation
Indices: 48339547--48340000 Score: 574
Period size: 112 Copynumber: 4.0 Consensus size: 112
48339537 CTTTTGGGGA
* * * ** *
48339547 TTTAGCGGTGTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCG-TTTTTGGGAAAGCACCGCAAAAAA-AAAAGCCCAACGGCGCCGTTTTCTGAGCT
* * * *
48339612 TTCGGGGATTTAGCGTCATTTTTTAGAAAGCGCCGCTAATTCTCAGGGC
64 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
48339661 TTTAG-GGCGTTTTTGGGGAAA-CGCCGCAAAAAAAAAAGCCCAACGGTGCCCTTTTTTGAGCTA
1 TTTAGCGGCGTTTTT-GGGAAAGCACCGCAAAAAAAAAAGCCCAACGGCGCCGTTTTCTGAGCTT
* *
48339724 TCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGC
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
48339772 TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAAACTAAGCCCAACAGCACCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAAA--AAGCCCAACGGCGCCGTTTTCTGAGCT
48339837 TTCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGC
64 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
48339885 TTTAGCGACATTTTTAGGAAAGCACCGCAAAAAAACTAAGCCTAACGGCGCCGTTTTCTGAGCCT
1 TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAA-AAAGCCCAACGGCGCCGTTTTCTGAGCTT
* * *
48339950 TCGAGGATTTAGCGGTG-TTTTAAGAAAGCGCCGCTAATGCTCAGGGA
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
48339997 TTTA
1 TTTA
48340001 AAATAATTTA
Statistics
Matches: 299, Mismatches: 34, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
111 83 0.28
112 104 0.35
113 62 0.21
114 50 0.17
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (112 bp):
TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAAAAAGCCCAACGGCGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:48339844 original size:225 final size:225
Alignment explanation
Indices: 48339543--48340000 Score: 615
Period size: 225 Copynumber: 2.0 Consensus size: 225
48339533 TGAGCTTTTG
* * * *
48339543 GGGATTTAGCGGTGTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
1 GGGATTTAGCGGCGTTTTTTGAGAAAGCACCGCAAAAAAACTAAGCCCAACGACACCGTTTTCTG
* * * * * *
48339608 AGCTTTCGGGGATTTAGCGTCATTTTTTAGAAAGCGCCGCTAATTCTCAGGGCTTTAG-GGCGTT
66 AGCTTTCGGGGATTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATT
* * * *
48339672 TTTGGGGAAA-CGCCGCAAAAAAA-AAAGCCCAACGGTGCCCTTTTTTGAG-CTATC-AGGGATT
130 TTT-AGGAAAGCACCGCAAAAAAACAAAGCCCAACGGCGCCCTTTTCTGAGCCT-TCGA-GGATT
48339733 TAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTCA
192 TAGCGGCG-TTTTAAGAAAGCGCCGCTAATACTCA
* *
48339768 GGGCTTTAGCGGCG-TTTTTGGGAAAGCACCGCAAAAAAAACTAAGCCCAAC-AGCACCGTTTTC
1 GGGATTTAGCGGCGTTTTTTGAGAAAGCACCGC-AAAAAAACTAAGCCCAACGA-CACCGTTTTC
48339831 TGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACAT
64 TGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACAT
* * *
48339896 TTTTAGGAAAGCACCGCAAAAAAACTAAGCCTAACGGCGCCGTTTTCTGAGCCTTCGAGGATTTA
129 TTTTAGGAAAGCACCGCAAAAAAACAAAGCCCAACGGCGCCCTTTTCTGAGCCTTCGAGGATTTA
* *
48339961 GCGGTGTTTTAAGAAAGCGCCGCTAATGCTCA
194 GCGGCGTTTTAAGAAAGCGCCGCTAATACTCA
48339993 GGGATTTA
1 GGGATTTA
48340001 AAATAATTTA
Statistics
Matches: 204, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
224 55 0.27
225 111 0.54
226 35 0.17
227 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (225 bp):
GGGATTTAGCGGCGTTTTTTGAGAAAGCACCGCAAAAAAACTAAGCCCAACGACACCGTTTTCTG
AGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTT
TTAGGAAAGCACCGCAAAAAAACAAAGCCCAACGGCGCCCTTTTCTGAGCCTTCGAGGATTTAGC
GGCGTTTTAAGAAAGCGCCGCTAATACTCA
Found at i:48339917 original size:411 final size:411
Alignment explanation
Indices: 48339134--48339983 Score: 1167
Period size: 411 Copynumber: 2.1 Consensus size: 411
48339124 AAAACAGACT
*
48339134 TTTAGCGGCGTTTTTCAA-AAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTATCGAGCT
1 TTTAGCGGTGTTTTT-AAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTATCGAGCT
**
48339198 TTCGGAGATTTAGCGAGGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTG
65 TTCGGAGATTTAGCGACATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTG
* * * * * * *
48339263 ATAAAGCGCCGCAAAAAAACCTAAGGCAAATGATGACGTTTTTTGAGCTTTCGGGGATTTAGCGG
130 AGAAAGCGCCGCAAAAAAA-CAAAGCCAAACGATGACCTTTTTTGAGCTATCAGGGATTTAGCGG
* **
48339328 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAA
194 CGTTTTTAAGAAAGCGCCGCTAATACTCAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCAAAA
* * *
48339393 AAACCTAAGCCAAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGAAAGCGC
259 AAAACTAAGCCAAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGCGC
* * * * * **
48339458 CGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGGGGATACGTCGCAAAAAAACCTAAGCCAAACGA
324 CGCTAATGCTCAGGGCTTTAGCGACATTTTTGAGGAAACACCGCAAAAAAA-CTAAGCCAAACGA
* * * *
48339523 CACTGTTTTCTGAGCTTTTGGGGA
388 CACCGTTTTCTGAGCCTTCGAGGA
* *
48339547 TTTAGCGGTGTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-TCTGAGC
1 TTTAGCGGTG-TTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTATC-GAGC
* * * * * *
48339611 TTTCGGGGATTTAGCGTCATTTTTTAGAAAGCGCCGCTAATTCTCAGGGCTTTAG-GGCGTTTTT
64 TTTCGGAGATTTAGCGACATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATT
* * * *
48339675 GGGGAAA-CGCCGCAAAAAAA-AAAGCCCAACGGTGCCCTTTTTTGAGCTATCAGGGATTTAGCG
129 -GAGAAAGCGCCGCAAAAAAACAAAGCCAAACGATGACCTTTTTTGAGCTATCAGGGATTTAGCG
* *
48339738 GCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAA
193 GCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCAAA
*
48339803 AAAAACTAAGCCCAAC-AGCACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGC
258 AAAAACTAAGCCAAACGA-CACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGC
*
48339867 GCCGCTAATGCTCAGGGCTTTAGCGACATTTTT-AGGAAAGCACCGCAAAAAAACTAAGCCTAAC
322 GCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGAGGAAA-CACCGCAAAAAAACTAAGCCAAAC
* *
48339931 GGCGCCGTTTTCTGAGCCTTCGAGGA
386 GACACCGTTTTCTGAGCCTTCGAGGA
48339957 TTTAGCGGTG-TTTTAAGAAAGCGCCGC
1 TTTAGCGGTGTTTTTAAGAAAGCGCCGC
48339984 TAATGCTCAG
Statistics
Matches: 385, Mismatches: 46, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
408 16 0.04
410 45 0.12
411 193 0.50
413 33 0.09
414 98 0.25
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (411 bp):
TTTAGCGGTGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTATCGAGCTT
TCGGAGATTTAGCGACATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTGA
GAAAGCGCCGCAAAAAAACAAAGCCAAACGATGACCTTTTTTGAGCTATCAGGGATTTAGCGGCG
TTTTTAAGAAAGCGCCGCTAATACTCAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAA
AACTAAGCCAAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAAAAGCGCCG
CTAATGCTCAGGGCTTTAGCGACATTTTTGAGGAAACACCGCAAAAAAACTAAGCCAAACGACAC
CGTTTTCTGAGCCTTCGAGGA
Found at i:48340274 original size:22 final size:23
Alignment explanation
Indices: 48340226--48340286 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
48340216 TAGGGTTTGT
* *
48340226 GATTTAAGGTTTAGGGGTTAAGG
1 GATTTAGGGGTTAGGGGTTAAGG
48340249 GATTTAGGGGTTAGGGGTT-AGG
1 GATTTAGGGGTTAGGGGTTAAGG
48340271 GATTT-GGGGTTTAGGG
1 GATTTAGGGG-TTAGGG
48340287 TTTCAAGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 4 0.11
22 14 0.40
23 17 0.49
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (23 bp):
GATTTAGGGGTTAGGGGTTAAGG
Found at i:48340287 original size:7 final size:7
Alignment explanation
Indices: 48340214--48340289 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
48340204 GGGGTATCGA
48340214 TTTAGGG
1 TTTAGGG
*
48340221 TTT-GTGA
1 TTTAG-GG
*
48340228 TTTAAGG
1 TTTAGGG
48340235 TTTAGGGG
1 TTTA-GGG
*
48340243 TTAAGGG
1 TTTAGGG
48340250 ATTTAGGG
1 -TTTAGGG
*
48340258 GTTAGGG
1 TTTAGGG
*
48340265 GTTAGGG
1 TTTAGGG
*
48340272 ATTTGGGG
1 -TTTAGGG
48340280 TTTAGGG
1 TTTAGGG
48340287 TTT
1 TTT
48340290 CAAGAGTTAG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
6 1 0.02
7 37 0.69
8 16 0.30
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:48344323 original size:43 final size:43
Alignment explanation
Indices: 48344259--48344489 Score: 277
Period size: 43 Copynumber: 5.4 Consensus size: 43
48344249 TTTTCATGAC
* * * *
48344259 CTTTAGCGGTGTTTGTCGTAAAAGCGCCGCTAAAGATCCTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGCT
* *
48344302 CTTTAGCGGCGTTTGTGGTAAAAGCGCCG-TCAAAGGTCCGGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCCTGCT
* *
48344345 TTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGT-CTAGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCT-GCT
* * *
48344388 CTTTAGCGGCGTTTTTGGAAAAAGCGCCGCTAAAGGTCTTGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGCT
* ** * * *
48344431 CTTTAGCGGCATTTGTGGGAAAAATGCCGCTAAGGGTCCCGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGCT
48344474 CTTTAGCGGCGTTTGT
1 CTTTAGCGGCGTTTGT
48344490 TTCCAAAAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.01
43 157 0.98
44 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGCT
Found at i:48345386 original size:17 final size:17
Alignment explanation
Indices: 48345364--48345397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48345354 ATCCACTAAT
*
48345364 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
48345381 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
48345398 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:48350023 original size:17 final size:17
Alignment explanation
Indices: 48350001--48350034 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48349991 ATCCACTAAT
*
48350001 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
48350018 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
48350035 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:48351534 original size:16 final size:16
Alignment explanation
Indices: 48351513--48351580 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
48351503 TTTGGTTCGC
*
48351513 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
48351529 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
48351545 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
48351561 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
48351577 TGTA
1 TGTA
48351581 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48351617 original size:45 final size:41
Alignment explanation
Indices: 48351561--48351670 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
48351551 GGATTAGAGG
*
48351561 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
48351603 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
48351646 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
48351671 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:48351833 original size:16 final size:16
Alignment explanation
Indices: 48351796--48351837 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48351786 TTAATCATAT
*
48351796 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
48351812 TT-AAATATATTATAA
1 TTAAAATATATTATAA
48351827 TTAAAATATAT
1 TTAAAATATAT
48351838 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:48351844 original size:14 final size:15
Alignment explanation
Indices: 48351805--48351846 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48351795 TTTAAACATA
*
48351805 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48351820 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48351834 A-TATAATTTAATA
1 ATTATAATTAAATA
48351847 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:48354868 original size:13 final size:13
Alignment explanation
Indices: 48354850--48354875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48354840 AACAGCTAAG
48354850 GCCTTCCTTATAC
1 GCCTTCCTTATAC
48354863 GCCTTCCTTATAC
1 GCCTTCCTTATAC
48354876 TCTTAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (13 bp):
GCCTTCCTTATAC
Found at i:48366177 original size:22 final size:20
Alignment explanation
Indices: 48366150--48366194 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
48366140 GTATATTTTA
*
48366150 TTTATTTTTATATAAATATTTG
1 TTTATTTCTAT-T-AATATTTG
*
48366172 TTTATTTCTATTTATATTTG
1 TTTATTTCTATTAATATTTG
48366192 TTT
1 TTT
48366195 GCTAACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTATTTCTATTAATATTTG
Found at i:48373131 original size:206 final size:206
Alignment explanation
Indices: 48372777--48373168 Score: 552
Period size: 206 Copynumber: 1.9 Consensus size: 206
48372767 ACGCGATGGG
* * * ** * *
48372777 CGTCGTAGGGGGCTTGAGCTGAGTCTTCCTCTCTGGGCAGTATGCTGAGTTTGGATACGAGTGAG
1 CGTCGTAGGAGGCTCGAGCTGAGTCTTCCTCTCTGGGAAGTATGCCAAATTTCGATACGAGTGAG
* *
48372842 ACACCAATTTCACCTACTACTAAGACTGGGTCTCAAAGCCACTCGACTAGGGACGACGCACTGTT
66 ACACCAATTTCACCTACTACTAAGACTAGGTCTCAAAACCACTCGACTAGGGACGACGCACTGTT
*
48372907 CCAAGCCATACTGAGAGTTTTGGAGAGGGTCGCTGGACCCTATTCTGGATCTGGGGGCCACGGAT
131 CCAAGCCATACTGAGAGTTTTGGAGAGGGTCGCTGGACCCAATTCTGGATCTGGGGGCCACGGAT
48372972 CGATAAGTGAA
196 CGATAAGTGAA
* *
48372983 CGTCGTAGGAGGCTCGAGTTGAGTCTTCCTCTTTGGGAAGTATGCCAAATTTCGATACGAGTGAG
1 CGTCGTAGGAGGCTCGAGCTGAGTCTTCCTCTCTGGGAAGTATGCCAAATTTCGATACGAGTGAG
* ** * * * * * *
48373048 ACACCGATTTCATGTACTACTGAGACTAGGTCTCAAAACCGCTTGGCTAGGGACGATGCATTG-T
66 ACACCAATTTCACCTACTACTAAGACTAGGTCTCAAAACCACTCGACTAGGGACGACGCACTGTT
* * *
48373112 CTTAAGTCATGCTGAGAGTTTTGGAGAGGGTCGCTGGACCCAATTCTGGATCTGGGG
131 C-CAAGCCATACTGAGAGTTTTGGAGAGGGTCGCTGGACCCAATTCTGGATCTGGGG
48373169 ACCGTGGGTT
Statistics
Matches: 161, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
205 2 0.01
206 159 0.99
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (206 bp):
CGTCGTAGGAGGCTCGAGCTGAGTCTTCCTCTCTGGGAAGTATGCCAAATTTCGATACGAGTGAG
ACACCAATTTCACCTACTACTAAGACTAGGTCTCAAAACCACTCGACTAGGGACGACGCACTGTT
CCAAGCCATACTGAGAGTTTTGGAGAGGGTCGCTGGACCCAATTCTGGATCTGGGGGCCACGGAT
CGATAAGTGAA
Found at i:48379288 original size:43 final size:43
Alignment explanation
Indices: 48379240--48379327 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
48379230 TGATTTTTAC
48379240 AGTTTTTCAAACTTCCGTTGCGGAATGATTTGGTTAACCTTAA
1 AGTTTTTCAAACTTCCGTTGCGGAATGATTTGGTTAACCTTAA
48379283 AGTTTTTCAAACTTCCGTTGCGGAATGATTTGGTTAACCTTAA
1 AGTTTTTCAAACTTCCGTTGCGGAATGATTTGGTTAACCTTAA
48379326 AG
1 AG
48379328 GATAAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (43 bp):
AGTTTTTCAAACTTCCGTTGCGGAATGATTTGGTTAACCTTAA
Found at i:48380561 original size:18 final size:18
Alignment explanation
Indices: 48380516--48380567 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
48380506 AACTAAAAGT
48380516 AAACATAAACATAAAAATAA
1 AAACA-AAA-ATAAAAATAA
*
48380536 AAATAAAAATAAAAATAA
1 AAACAAAAATAAAAATAA
* *
48380554 AACCAAAAAGAAAA
1 AAACAAAAATAAAA
48380568 CAAATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 21 0.75
19 3 0.11
20 4 0.14
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.12
Consensus pattern (18 bp):
AAACAAAAATAAAAATAA
Found at i:48380567 original size:6 final size:6
Alignment explanation
Indices: 48380509--48380555 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
48380499 TAAAGATAAC
* * *
48380509 TAAAAG TAAACA TAAACA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
48380556 CCAAAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:48382261 original size:17 final size:17
Alignment explanation
Indices: 48382214--48382280 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
48382204 ATTAAATAGC
*
48382214 ATAAATAAAATAGAATAAA
1 ATAAAT-AAATAAAAT-AA
* *
48382233 ATATATATATAAAATAA
1 ATAAATAAATAAAATAA
** **
48382250 ATACTTAAATAAGTTAA
1 ATAAATAAATAAAATAA
48382267 ATAAATAAATAAAA
1 ATAAATAAATAAAA
48382281 AGAAAGACTG
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 24 0.67
18 7 0.19
19 5 0.14
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (17 bp):
ATAAATAAATAAAATAA
Found at i:48395109 original size:17 final size:18
Alignment explanation
Indices: 48395067--48395110 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
48395057 TATTCATTTT
48395067 TTCCAAAAATAATTTATA
1 TTCCAAAAATAATTTATA
***
48395085 TGATAAAAATAATTTA-A
1 TTCCAAAAATAATTTATA
48395102 TTCCAAAAA
1 TTCCAAAAA
48395111 AAATACTGAT
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (18 bp):
TTCCAAAAATAATTTATA
Found at i:48396386 original size:30 final size:30
Alignment explanation
Indices: 48396343--48396410 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
48396333 TCCACCCCTC
48396343 TCTTTTC-TTTTCTGGTATGAAAATATTAT
1 TCTTTTCTTTTTCTGGTATGAAAATATTAT
48396372 TCTTTTCTTTTTCTGGTATGAAAATATTAT
1 TCTTTTCTTTTTCTGGTATGAAAATATTAT
48396402 TCTTTTCTT
1 TCTTTTCTT
48396411 CCATAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (30 bp):
TCTTTTCTTTTTCTGGTATGAAAATATTAT
Found at i:48397110 original size:28 final size:28
Alignment explanation
Indices: 48397078--48397135 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48397068 ATATGTATGT
48397078 ATGTGCGTATTTCTTAGTGCTATAGAAG
1 ATGTGCGTATTTCTTAGTGCTATAGAAG
48397106 ATGTGCGTATTTCTTAGTGCTATAGAAG
1 ATGTGCGTATTTCTTAGTGCTATAGAAG
48397134 AT
1 AT
48397136 CTTCTAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (28 bp):
ATGTGCGTATTTCTTAGTGCTATAGAAG
Found at i:48398790 original size:12 final size:11
Alignment explanation
Indices: 48398759--48398788 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
48398749 TTAAGTAAAC
48398759 AAATAAATATT
1 AAATAAATATT
48398770 AAATGAAATATT
1 AAAT-AAATATT
48398782 AAATAAA
1 AAATAAA
48398789 ATGTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AAATAAATATT
Found at i:48400508 original size:44 final size:43
Alignment explanation
Indices: 48400460--48400790 Score: 259
Period size: 44 Copynumber: 7.7 Consensus size: 43
48400450 GTTTTAATCC
48400460 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTTCGTCT
* * *
48400504 GCTCCACTGCAACTTCAGGGAGATAAGACTGG---ATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTTCG-TCT
* * * ** *
48400545 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGG-TTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTTTTCGTCT
* * *
48400590 GCTTCACTGCAATTTCAGAGAGATAAGATTGGTTTATTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTTCGTCT
* * *
48400634 CCTCCACTGCAACTTCAGGGAGATAAGATTGG---ATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTTCG-TCT
* * * *
48400675 ACTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATC--C-
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTT-TTCGTCT
* * * * *
48400719 GCTCCACTACAACTTCAGGGAGATAGGGTTGATTTATTCCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTTCGTCT
*
48400763 ACTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
48400791 CTGGATACGA
Statistics
Matches: 223, Mismatches: 44, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
40 6 0.03
41 62 0.28
42 5 0.02
43 5 0.02
44 116 0.52
45 27 0.12
46 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTTCGTCT
Found at i:48400858 original size:44 final size:42
Alignment explanation
Indices: 48400452--48400872 Score: 211
Period size: 44 Copynumber: 9.8 Consensus size: 42
48400442 GATTCATCGT
* * *
48400452 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTGG-
1 TTTAATCCTCTCTACTGCAACTTCAGAGAGATAAGACTTGGA
** * *
48400492 TTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TGGA
1 TTT-AATC--CT-CTCTACTGCAACTTCAGAGAGATAAGACTTGGA
*** * *
48400537 TGCGAT-CTGCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTT
1 TTTAATCCT-CTCTACTGCAACTTCAGAGAGATAAGA-CT-TGG-A
* *
48400582 TTTAATCCGCT-TCACTGCAATTTCAGAGAGATAAGA-TTGG-
1 TTTAATCCTCTCT-ACTGCAACTTCAGAGAGATAAGACTTGGA
* * *
48400622 TTTATTTCGTCTCCTCCACTGCAACTTCAGGGAGATAAGA-TTGGA
1 TTTA-ATC--CT-CTCTACTGCAACTTCAGAGAGATAAGACTTGGA
*** *
48400667 TGCGAT-CTACTCTACTGCAACTTCAGAGAGATAAGATCTATGGT
1 TTTAATCCT-CTCTACTGCAACTTCAGAGAGATAAGA-CT-TGGA
* * * * **
48400711 TTTAATCCGCTCCACTACAACTTCAGGGAGAT-AGGGTT-GA
1 TTTAATCCTCTCTACTGCAACTTCAGAGAGATAAGACTTGGA
* *
48400751 TTTATTCCGTCTACTCCACTGCAACTTCAGGGAGATAAGAC-TGGA
1 TTTAATCC-TCT-CT--ACTGCAACTTCAGAGAGATAAGACTTGGA
*** * * * *
48400796 TACGAT-CTGCTGTACTGCAACTTCAGAGATATGAGATCTATGGT
1 TTTAATCCT-CTCTACTGCAACTTCAGAGAGATAAGA-CT-TGGA
*
48400840 TTTAATCCTCTCTACTGCAACTTCAGGGAGATA
1 TTTAATCCTCTCTACTGCAACTTCAGAGAGATA
48400873 GAAACTAAGA
Statistics
Matches: 286, Mismatches: 62, Indels: 62
0.70 0.15 0.15
Matches are distributed among these distances:
40 15 0.05
41 81 0.28
42 7 0.02
43 8 0.03
44 137 0.48
45 37 0.13
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
TTTAATCCTCTCTACTGCAACTTCAGAGAGATAAGACTTGGA
Found at i:48400865 original size:85 final size:85
Alignment explanation
Indices: 48400460--48400872 Score: 285
Period size: 85 Copynumber: 4.8 Consensus size: 85
48400450 GTTTTAATCC
* * ** *
48400460 GCTCCACTGCAACTTCAGGGAGATAAGA--TTGG-TTTCTTTCGTCTGCTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGAGAGATGAGATCTTGGATTT-AATCCTCT-CT-CACTGCAACTTCAG
*
48400522 GGAGATAAGACTGGATGCGATCT
63 GGAGATAAGACTGGATTCGATCT
* * * * *
48400545 GCTCTACTGCAACTTCAGAGAGATGAGATCTATGGTTTTTAATCCGCT-TCACTGCAATTTCAGA
1 GCTCCACTGCAACTTCAGAGAGATGAGATCT-TGG-ATTTAATCCTCTCTCACTGCAACTTCAGG
*
48400609 GAGATAAGATTGGTTTATTTCG-TCT
64 GAGATAAGACTGG---A-TTCGATCT
* * * *** *
48400634 CCTCCACTGCAACTTCAGGGAGATAAGA--TTGGATGCGAT-CTACTCT-ACTGCAACTTCAGAG
1 GCTCCACTGCAACTTCAGAGAGATGAGATCTTGGATTTAATCCT-CTCTCACTGCAACTTCAGGG
* ** *
48400695 AGATAAGATCTATGGTTTTAATCC
65 AGATAAGA-C--TGGATTCGATCT
* * ** *
48400719 GCTCCACTACAACTTCAGGGAGAT-AG-GGTT-GATTTATTCCGTCTACTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGAGAGATGAGATCTTGGATTTAATCC-TCT-CT-CACTGCAACTTCAG
*
48400781 GGAGATAAGACTGGATACGATCT
63 GGAGATAAGACTGGATTCGATCT
** * *
48400804 GCTGTACTGCAACTTCAGAGATATGAGATCTATGGTTTTAATCCTCTCT-ACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATGAGATCT-TGGATTTAATCCTCTCTCACTGCAACTTCAGGG
48400868 AGATA
65 AGATA
48400873 GAAACTAAGA
Statistics
Matches: 255, Mismatches: 47, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
84 9 0.04
85 127 0.50
86 34 0.13
87 7 0.03
88 32 0.13
89 40 0.16
90 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGAGAGATGAGATCTTGGATTTAATCCTCTCTCACTGCAACTTCAGGGA
GATAAGACTGGATTCGATCT
Found at i:48400873 original size:129 final size:129
Alignment explanation
Indices: 48400450--48400872 Score: 666
Period size: 129 Copynumber: 3.3 Consensus size: 129
48400440 ATGATTCATC
* *
48400450 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTCGTCTGCTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCTACTCCACTGCA
48400515 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * *
48400579 GTTTTTAATCCGCTTCACTGCAATTTCAGAGAGATAAGATTGGTTTATTTCGTCTCCTCCACTGC
1 G-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCTACTCCACTGC
* * *
48400644 AACTTCAGGGAGATAAGATTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATG
65 AACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* * * * *
48400709 GTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGGTTGATTTATTCCGTCTACTCCACTGCA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCTACTCCACTGCA
* * *
48400774 ACTTCAGGGAGATAAGACTGGATACGATCTGCTGTACTGCAACTTCAGAGATATGAGATCTATG
66 ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
* *
48400838 GTTTTAATCCTCTCTACTGCAACTTCAGGGAGATA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
48400873 GAAACTAAGA
Statistics
Matches: 267, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
129 146 0.55
130 121 0.45
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (129 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTCGTCTACTCCACTGCA
ACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATG
Found at i:48401233 original size:199 final size:199
Alignment explanation
Indices: 48400880--48401613 Score: 1040
Period size: 199 Copynumber: 3.7 Consensus size: 199
48400870 ATAGAAACTA
* * * * * * *
48400880 AGATTCGCCGTTGTAGCTTCAATCAGTTCCATTGCACCACCAAGG-AAGTAAGATTCGCTGTTGC
1 AGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACC-AGGAAAGTAAGATTCACCGTTGC
* * * * * *
48400944 GGCTTCAATCTTTTTAATTGTAATGTCAGGGAAGCAAGATTCACCTTTGTAGCTTTAATCTACTC
65 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTC
* * * * *
48401009 CACTGCACCGCTAGGAAAATAAGATTCACCGTTGCAACTTTAATCTTTTTAATTGCAATGTCAGG
130 CACTGCACCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGCAATGTCGGG
48401074 GAACG
195 GAACG
* *
48401079 AGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGAAAGTAAGATTCACCGTTGTG
1 AGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGAAAGTAAGATTCACCGTTGCG
*
48401144 GCTGCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
66 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
*
48401209 ACTGCACCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGTAATGTCGGGG
131 ACTGCACCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGCAATGTCGGGG
48401274 AACG
196 AACG
* * * *
48401278 AGATTCACCGTTGTAGCTTCAATCTGATCCATTGCATCTCTAGGAAAGTAAGATTCGCCGTTGCG
1 AGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGAAAGTAAGATTCACCGTTGCG
* * * * *
48401343 GCTTTAATATTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCT
66 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
* * * * * *
48401408 ACTGCATCACCAGAAAAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGG
131 ACTGCACCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGCAATGTCGGGG
48401473 AACG
196 AACG
* * *
48401477 AGATTCACCGTTGTAGCTTCAATTTGATCCACTGCATCGCTAGGAAAGTAAGATTCGA-CGTTGC
1 AGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGAAAGTAAGATTC-ACCGTTGC
* * *
48401541 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAACAAGATTCGCTGTCGTAGCTTTAATCTGCTC
65 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTC
*
48401606 CATTGCAC
130 CACTGCAC
48401614 TGTCAGGGAA
Statistics
Matches: 484, Mismatches: 49, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
198 3 0.01
199 481 0.99
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (199 bp):
AGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCACCAGGAAAGTAAGATTCACCGTTGCG
GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
ACTGCACCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAATCTTTTTAATTGCAATGTCGGGG
AACG
Found at i:48401601 original size:50 final size:50
Alignment explanation
Indices: 48400873--48401601 Score: 258
Period size: 50 Copynumber: 14.6 Consensus size: 50
48400863 CAGGGAGATA
** * **** **
48400873 GAAACTAAGATTCGCCGTTGTAGCTTCAATCAGTTCCATTGCACCACCAAG
1 GAAAC-AAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
** * ** * * *
48400924 GAAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTTAATTGTAATGTCAGG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * ** * * ** *
48400974 GAAGCAAGATTCACCTTTGTAGCTTTAATCTACTCCACTGCACCG-CTAGG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTC-GGG
* * * * * * * *
48401024 AAAATAAGATTCACCGTTGCAACTTTAATCTTTTTAATTGCAATGTCAGG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* ** * * ** **
48401074 G-AACGAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGC-ATCACCAG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * *
48401122 GAAAGTAAGATTCACCGTTGTGGCTGCAATCTTTTAAATTGCAATGTCGGG
1 GAAA-CAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * ** * * ** **
48401173 GAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCG-CCAG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * *
48401222 GAAAGTAAGATTCACCGTTG-CGACTTCAATCTTTTTAATTGTAATGTCGGG
1 GAAA-CAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAATTGCAATGTCGGG
* * ** * * **
48401273 G-AACGAGATTCACCGTTGTAGCTTCAATCTGATCCATTGC-ATCTCTAG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* ** * * *
48401321 GAAAGTAAGATTCGCCGTTGCGGCTTTAATATTTTAAATTGCAATGTCGGG
1 GAAA-CAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * ** * * ** **
48401372 GAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCTACTGC-ATCACCAG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * ** *
48401421 AAAAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGG
1 GAAA-CAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * * * * **
48401472 G-AACGAGATTCACCGTTGTAGCTTCAAT-TTGATCCACTGC-ATCG-CTAG
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCTT-TTCAATTGCAAT-GTCGGG
* * ** *
48401520 GAAAGTAAGATTCGACGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGG
1 GAAA-CAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
* * *
48401571 GAAACAAGATTCGCTGTCGTAGCTTTAATCT
1 GAAACAAGATTCGCCGTTGTAGCTTCAATCT
48401602 GCTCCATTGC
Statistics
Matches: 465, Mismatches: 192, Indels: 43
0.66 0.27 0.06
Matches are distributed among these distances:
48 18 0.04
49 99 0.21
50 312 0.67
51 36 0.08
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
GAAACAAGATTCGCCGTTGTAGCTTCAATCTTTTCAATTGCAATGTCGGG
Found at i:48401940 original size:24 final size:24
Alignment explanation
Indices: 48401908--48401965 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
48401898 TGGATTGCCC
48401908 CCACTGTAATATTCAA-AGTTCAAT
1 CCACTGTAATATTCAAGA-TTCAAT
* * *
48401932 CCACTGTAATCTTCAAGATTTAGT
1 CCACTGTAATATTCAAGATTCAAT
48401956 CCACTGTAAT
1 CCACTGTAAT
48401966 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATATTCAAGATTCAAT
Found at i:48402870 original size:13 final size:12
Alignment explanation
Indices: 48402850--48402893 Score: 65
Period size: 11 Copynumber: 3.8 Consensus size: 12
48402840 GCCTCTCATT
48402850 TTTTCTTTTTTG
1 TTTTCTTTTTTG
48402862 TTCTTCTTTTTT-
1 TT-TTCTTTTTTG
48402874 TTTTCTTTTTTG
1 TTTTCTTTTTTG
48402886 TTTT-TTTT
1 TTTTCTTTT
48402894 CAAGTGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.43
12 8 0.27
13 9 0.30
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (12 bp):
TTTTCTTTTTTG
Found at i:48405993 original size:19 final size:20
Alignment explanation
Indices: 48405964--48406015 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
48405954 CGCTTCGTGA
* *
48405964 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
48405983 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
48406003 AAATG-AATGCAAA
1 AAATGTAATGCAAA
48406016 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:48408142 original size:19 final size:19
Alignment explanation
Indices: 48408100--48408137 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48408090 TGTAAGTTTG
*
48408100 ATAAAAATTAAGTAAATAA
1 ATAAAAATTAAATAAATAA
48408119 ATAAAAATTAAATGAAATA
1 ATAAAAATTAAAT-AAATA
48408138 TTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAAATTAAATAAATAA
Found at i:48408148 original size:12 final size:12
Alignment explanation
Indices: 48408116--48408148 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48408106 ATTAAGTAAA
48408116 TAAATAAAA-AT
1 TAAATAAAATAT
*
48408127 TAAATGAAATAT
1 TAAATAAAATAT
48408139 TAAATAAAAT
1 TAAATAAAAT
48408149 GTTTTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:48415730 original size:23 final size:22
Alignment explanation
Indices: 48415678--48415730 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48415668 TCCACGTCTT
*
48415678 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48415700 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48415723 TTTCTTTT
1 TTTCTTTT
48415731 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48418501 original size:26 final size:27
Alignment explanation
Indices: 48418472--48418522 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
48418462 ACAAGTGAGG
48418472 AAAAAGAAAAAGAGA-TGAAAAAGAGC
1 AAAAAGAAAAAGAGAGTGAAAAAGAGC
* **
48418498 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAGTGAAAAAGA
48418523 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAGTGAAAAAGAGC
Found at i:48418542 original size:22 final size:21
Alignment explanation
Indices: 48418517--48418567 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
48418507 TTGAGAGTGA
* * *
48418517 AAAAGAAATTGAAGAAGAAGAG
1 AAAAGAAATTAAAAAAGAA-AC
48418539 AAAATG-AATTAAAAAAGAAAC
1 AAAA-GAAATTAAAAAAGAAAC
48418560 AAAAGAAA
1 AAAAGAAA
48418568 AAGACGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.04
21 7 0.29
22 15 0.62
23 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.10
Consensus pattern (21 bp):
AAAAGAAATTAAAAAAGAAAC
Found at i:48419934 original size:10 final size:10
Alignment explanation
Indices: 48419919--48419945 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48419909 AAGTTTTATT
48419919 TTTATTTTTA
1 TTTATTTTTA
48419929 TTTATTTTTA
1 TTTATTTTTA
48419939 TTTATTT
1 TTTATTT
48419946 ACTTAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:48424472 original size:23 final size:23
Alignment explanation
Indices: 48424401--48424476 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
48424391 GTTTTTTATT
*
48424401 TTTTGGATTTAGGGTTATTTCGA
1 TTTTGGATTTAAGGTTATTTCGA
** *
48424424 TTTT--ATTTTCAATTTTTATTTTGA
1 TTTTGGA-TTT-AA-GGTTATTTCGA
48424448 TTTTGGATTTAAGGTTATTTCGA
1 TTTTGGATTTAAGGTTATTTCGA
48424471 TTTTGG
1 TTTTGG
48424477 TTTCATTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 1 0.02
22 3 0.07
23 19 0.46
24 14 0.34
25 3 0.07
26 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.59
Consensus pattern (23 bp):
TTTTGGATTTAAGGTTATTTCGA
Found at i:48424481 original size:47 final size:47
Alignment explanation
Indices: 48424401--48424490 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
48424391 GTTTTTTATT
* *
48424401 TTTTGGATTTAGGGTTATTTCGATTTTATTTTCAATTT-TTATTTTGA
1 TTTTGGATTTAAGGTTATTTCGATTTTAGTTTC-ATTTGTTATTTTGA
*
48424448 TTTTGGATTTAAGGTTATTTCGATTTTGGTTTCATTTGTTATT
1 TTTTGGATTTAAGGTTATTTCGATTTTAGTTTCATTTGTTATT
48424491 AATGTGCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 4 0.10
47 35 0.90
ACGTcount: A:0.18, C:0.04, G:0.17, T:0.61
Consensus pattern (47 bp):
TTTTGGATTTAAGGTTATTTCGATTTTAGTTTCATTTGTTATTTTGA
Found at i:48424982 original size:15 final size:15
Alignment explanation
Indices: 48424964--48425023 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
48424954 TGTCTAATTT
*
48424964 TGATGTGTCTGGTAG
1 TGATGTGTCTGATAG
*
48424979 TGATGTGTCTGTTAG
1 TGATGTGTCTGATAG
* * *
48424994 TTATGTATCTGAAAG
1 TGATGTGTCTGATAG
*
48425009 TGATGTGTCTAATAG
1 TGATGTGTCTGATAG
48425024 GATAAGGGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.42
Consensus pattern (15 bp):
TGATGTGTCTGATAG
Found at i:48429077 original size:25 final size:25
Alignment explanation
Indices: 48429042--48429098 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
48429032 GTCACATGAC
48429042 TGTTTTAGTGACTATTTTTTAATAT
1 TGTTTTAGTGACTATTTTTTAATAT
* * *
48429067 TGTTTTGGTGACTATTTTTTAGTTT
1 TGTTTTAGTGACTATTTTTTAATAT
48429092 TGTTTTA
1 TGTTTTA
48429099 TCACATGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.63
Consensus pattern (25 bp):
TGTTTTAGTGACTATTTTTTAATAT
Found at i:48430893 original size:3 final size:3
Alignment explanation
Indices: 48430885--48430925 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
48430875 TTCTCTTTTC
* *
48430885 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT ATT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
48430926 ACTGCATAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:48441521 original size:44 final size:45
Alignment explanation
Indices: 48441439--48441658 Score: 150
Period size: 44 Copynumber: 4.8 Consensus size: 45
48441429 TACCATAGCG
* * * *
48441439 AGTCTTAT-CTCCTTGAATTTGTAGTGGAGTAAGA-TGAAGCTACAA
1 AGTCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCTACAA
*
48441484 A-TCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATA
1 AGTCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTA-CA-A
48441530 GTGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA-TGAAGCTACAA
1 ---AGTCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCTACAA
* * * ** * *
48441578 A-TCTTATATCCCTAAAGTTACAGTGCATCCGATTGAAGATA-AA
1 AGTCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAA
* * * *
48441621 ATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAA
1 AGTCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAA
48441659 ATTACAATGG
Statistics
Matches: 138, Mismatches: 22, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
43 10 0.07
44 82 0.59
45 5 0.04
46 1 0.01
48 1 0.01
49 4 0.03
50 31 0.22
51 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (45 bp):
AGTCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAA
Found at i:48441559 original size:94 final size:94
Alignment explanation
Indices: 48441388--48441602 Score: 315
Period size: 94 Copynumber: 2.3 Consensus size: 94
48441378 GTGAAACAAT
* * * *
48441388 AAATCCTATACCCCTAAAGTTGTAGTGGGTCGAATTGAATTTACCATAGCGAGTCTTATCTCCTT
1 AAATCTTATACCCCTAAAGTTGCAGTGGGTCGAATTGAAGTTACCATAGCGAGTCTTATCTCCCT
* * *
48441453 GAATTTGTAGTGGAGTAAGATGAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATGAAGCTAC
* *
48441482 AAATCTTATACCCCTGAAGTTGCAGTGGGTC-AGATTGAAGTTACCATAGTGAGTCTTATCTCCC
1 AAATCTTATACCCCTAAAGTTGCAGTGGGTCGA-ATTGAAGTTACCATAGCGAGTCTTATCTCCC
48441546 TGAAGTTGCAGTGGAGCAAGATGAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATGAAGCTAC
* *
48441576 AAATCTTATATCCCTAAAGTTACAGTG
1 AAATCTTATACCCCTAAAGTTGCAGTG
48441603 CATCCGATTG
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
93 1 0.01
94 107 0.99
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
AAATCTTATACCCCTAAAGTTGCAGTGGGTCGAATTGAAGTTACCATAGCGAGTCTTATCTCCCT
GAAGTTGCAGTGGAGCAAGATGAAGCTAC
Found at i:48441571 original size:50 final size:49
Alignment explanation
Indices: 48441423--48441571 Score: 143
Period size: 50 Copynumber: 3.1 Consensus size: 49
48441413 TGGGTCGAAT
* * * * *
48441423 TGAATTTACCATAGCGAGTCTTATCTCCTTGAATTTGTAGTGGAGTAAGA
1 TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
*
48441473 TGAAGCTA-CA-A--A-TCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGA
1 TGAAGTTACCATAGGAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA
48441516 TTGAAGTTACCATAGTGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
1 -TGAAGTTACCATAG-GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
48441567 TGAAG
1 TGAAG
48441572 CTACAAATCT
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
43 4 0.05
44 27 0.34
45 4 0.05
46 1 0.01
48 1 0.01
49 4 0.05
50 35 0.44
51 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (49 bp):
TGAAGTTACCATAGGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
Found at i:48441690 original size:138 final size:138
Alignment explanation
Indices: 48441488--48441865 Score: 427
Period size: 138 Copynumber: 2.7 Consensus size: 138
48441478 CTACAAATCT
* * * * * * *
48441488 TATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGTGAGTCTTATCTCCCTGAAGTT
1 TATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGTGAATCCTATCTCCCTGAAGTT
* * **
48441553 GCAGTGGAGCAAGATGAAGCTACAAATCTTATATCCCTAAAGTTACAGTGCATCCGATTGAAGAT
66 GCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTTACAATGCATCAAATTGAAGAT
48441618 AAAATTCC
131 AAAATTCC
* * * *
48441626 TATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGCGAATCCTATTTTCCTAAAGTT
1 TATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGTGAATCCTATCTCCCTGAAGTT
* * * * * * ** *
48441691 GCGGTGAAGC-GGAATGAAGCTTCAAATCCTATATCCCTGAATTTGTAATGGATCAAATTGAAGA
66 GCAGTGGAGCAAG-ATGAAGCTACAAATCCTATATCCCTAAAGTTACAATGCATCAAATTGAAGA
*
48441755 TACAATTCC
130 TAAAATTCC
* * * * * *
48441764 TATACCGTTGAAGTTGTAATGGGTCGGAATGAAACTACAATGGTGAATCGTATCTCCCTGAAGTT
1 TATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGTGAATCCTATCTCCCTGAAGTT
* * *
48441829 GCAGTAGAGCAAGATAAAGCTACAAATACTATA-CCCT
66 GCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCT
48441866 TGAAGTTGCA
Statistics
Matches: 196, Mismatches: 42, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
137 5 0.03
138 190 0.97
139 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (138 bp):
TATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGTGAATCCTATCTCCCTGAAGTT
GCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTTACAATGCATCAAATTGAAGAT
AAAATTCC
Found at i:48441869 original size:94 final size:94
Alignment explanation
Indices: 48441763--48441960 Score: 245
Period size: 94 Copynumber: 2.1 Consensus size: 94
48441753 GATACAATTC
* * *
48441763 CTATACCGTTGAAGTTGTAATGGGTCGGAATGA-AACTACAATGGTGAATCGTATCTCCCTGAAG
1 CTATACCCTTGAAGTTGCAATGGGTC-GAATGAGAACTACAATAGTGAATCGTATCTCCCTGAAG
48441827 TTGCAGTAGAGCAAGATAAAGCTACAAATA
65 TTGCAGTAGAGCAAGATAAAGCTACAAATA
* * ** * * *
48441857 CTATACCCTTGAAGTTGCAGTGGGTCGAATTAGAGTTACCATAGTTAATCTTATCTCCCTGAAGT
1 CTATACCCTTGAAGTTGCAATGGGTCGAATGAGAACTACAATAGTGAATCGTATCTCCCTGAAGT
* * * *
48441922 TGCAGTGGAGCAAGATGAAGTTACAAATC
66 TGCAGTAGAGCAAGATAAAGCTACAAATA
48441951 CTATATCCCT
1 CTATA-CCCT
48441961 GATGTTATAG
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
93 5 0.06
94 79 0.90
95 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (94 bp):
CTATACCCTTGAAGTTGCAATGGGTCGAATGAGAACTACAATAGTGAATCGTATCTCCCTGAAGT
TGCAGTAGAGCAAGATAAAGCTACAAATA
Found at i:48442078 original size:50 final size:48
Alignment explanation
Indices: 48442024--48442172 Score: 110
Period size: 50 Copynumber: 3.1 Consensus size: 48
48442014 ATGGGTCAGA
48442024 ATGAAATTATAATGGCGAATCCTATCTCCCTGAAGTTACAGTGGTGCAAG
1 ATGAAA-TATAATGGCGAATCCTATCTCCCTGAAGTTACAGTGG-GCAAG
* * * * * * *
48442074 ATGAAA-CT-A---CAAATCCTATATCCCTAAATTTACTGTGGGTCAAA
1 ATGAAATATAATGGCGAATCCTATCTCCCTGAAGTTACAGTGGG-CAAG
* * * * *
48442118 ATGAAACTACAATGGTGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAG
1 ATGAAA-TATAATGGCGAATCCTATCTCCCTGAAGTTACAGTGG-GCAAG
48442168 ATGAA
1 ATGAA
48442173 GATACAAATC
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
43 1 0.01
44 33 0.46
47 2 0.03
48 1 0.01
50 34 0.47
51 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGAAATATAATGGCGAATCCTATCTCCCTGAAGTTACAGTGGGCAAG
Found at i:48442085 original size:94 final size:94
Alignment explanation
Indices: 48441947--48442239 Score: 304
Period size: 94 Copynumber: 3.1 Consensus size: 94
48441937 TGAAGTTACA
* * * * * *
48441947 AATCCTATATCCCTGATGTTATAGTGGAT-CAA-ATTGAAGATACAATTTCTATGCCCCTAAAGT
1 AATCCTATCTCCCTGAAGTTACAGTGG-TGCAAGA-TGAAGATACAAATCCTATACCCCTAAAGT
* * *
48442010 TGCAATGGGTCAGAATGAAATTATAATGGCG
64 TGCAGTGGGTCAGAATGAAACTACAATGGCG
* *
48442041 AATCCTATCTCCCTGAAGTTACAGTGGTGCAAGATGAA-ACTACAAATCCTATATCCCTAAATTT
1 AATCCTATCTCCCTGAAGTTACAGTGGTGCAAGATGAAGA-TACAAATCCTATACCCCTAAAGTT
* * * *
48442105 ACTGTGGGTCAAAATGAAACTACAATGGTG
65 GCAGTGGGTCAGAATGAAACTACAATGGCG
* * * * * *
48442135 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGATACAAATCCTATACCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGTGGTGCAAGATGAAGATACAAATCCTATACCCCTAAAGTTG
* * * *
48442200 CAGTGGGTCAGATTGAAGCTACCATGGTG
66 CAGTGGGTCAGAATGAAACTACAATGGCG
*
48442229 AATCTTATCTC
1 AATCCTATCTC
48442240 TCTAAGGATT
Statistics
Matches: 166, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
93 2 0.01
94 162 0.98
95 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (94 bp):
AATCCTATCTCCCTGAAGTTACAGTGGTGCAAGATGAAGATACAAATCCTATACCCCTAAAGTTG
CAGTGGGTCAGAATGAAACTACAATGGCG
Found at i:48442217 original size:232 final size:232
Alignment explanation
Indices: 48441625--48442217 Score: 676
Period size: 232 Copynumber: 2.6 Consensus size: 232
48441615 GATAAAATTC
* * * * * *
48441625 CTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAATTACAATGGCGAATCCTAT-TTTCCTAAAG
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTGAATCTTATCTCT-CTGAAG
* * * * * * *
48441689 TTGCGGTGAAGC-GGAATGAAGCTTCAAATCCTATATCCCTGAATTTGTAATGGATCAAATTGAA
65 TTGCAGTGGAGCAAG-ATGAAGATACAAATCCTATATCCCTGAAGTTGTAGTGGATCAAATTGAA
** * * * * *
48441753 GATACAATTCCTATACCGTTGAAGTTGTAATGGGTCGGAATGAAACTACAATGGTGAATCGTATC
129 GATACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATC
*
48441818 TCCCTGAAGTTGCAGTAGAGCAAGATAAAGCTACAAATA
194 TCCCTGAAGTTACAGTAGAGCAAGATAAAGCTACAAATA
* * * * * * * *
48441857 CTATACCCTTGAAGTTGCAGTGGGTC-GAATTAGAGTTACCATAGTTAATCTTATCTCCCTGAAG
1 CTATACCCTTAAAGTTACAGTGGGTCAGAATGA-AATTACAATGGTGAATCTTATCTCTCTGAAG
* * *
48441921 TTGCAGTGGAGCAAGATGAAGTTACAAATCCTATATCCCTGATGTTATAGTGGATCAAATTGAAG
65 TTGCAGTGGAGCAAGATGAAGATACAAATCCTATATCCCTGAAGTTGTAGTGGATCAAATTGAAG
* * * *
48441986 ATACAATTTCTATGCCCCTAAAGTTGCAATGGGTCAGAATGAAATTATAATGGCGAATCCTATCT
130 ATACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCT
* * *
48442051 CCCTGAAGTTACAGTGGTGCAAGATGAAA-CTACAAATC
195 CCCTGAAGTTACAGTAGAGCAAGAT-AAAGCTACAAATA
* * * *
48442089 CTATATCCC-TAAATTTACTGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAAG
1 CTATA-CCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTGAATCTTATCTCTCTGAAG
* * *
48442153 TTGCAGTGGAGCAAGATGAAGATACAAATCCTATA-CCTCTGAAGTTGCAGTGGGTCAGATTGAA
65 TTGCAGTGGAGCAAGATGAAGATACAAATCCTATATCC-CTGAAGTTGTAGTGGATCAAATTGAA
48442217 G
129 G
48442218 CTACCATGGT
Statistics
Matches: 302, Mismatches: 52, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
231 7 0.02
232 283 0.94
233 12 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (232 bp):
CTATACCCTTAAAGTTACAGTGGGTCAGAATGAAATTACAATGGTGAATCTTATCTCTCTGAAGT
TGCAGTGGAGCAAGATGAAGATACAAATCCTATATCCCTGAAGTTGTAGTGGATCAAATTGAAGA
TACAATTCCTATACCCCTAAAGTTGCAATGGGTCAGAATGAAACTACAATGGCGAATCCTATCTC
CCTGAAGTTACAGTAGAGCAAGATAAAGCTACAAATA
Found at i:48442240 original size:94 final size:92
Alignment explanation
Indices: 48441981--48442267 Score: 308
Period size: 94 Copynumber: 3.1 Consensus size: 92
48441971 TGGATCAAAT
* * * * * * * *
48441981 TGAAGATACAATTTCTATGCCCCTAAAGTTGCAATGGGTCAGAATGAAATTATAATGGCGAATCC
1 TGAAGATACAAATCCTAT-ACCCTAAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCT
* *
48442046 TATCTCCCTGAAGTTACAGTGGTGCAAGA
65 TATCTCTCTGAAGTT-CAGTGGAGCAAGA
* * * *
48442075 TGAA-ACTACAAATCCTATATCCCTAAATTTACTGTGGGTCAAAATGAAACTACAATGGTGAATC
1 TGAAGA-TACAAATCCTATA-CCCTAAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATC
48442139 TTATCTCTCTGAAGTTGCAGTGGAGCAAGA
64 TTATCTCTCTGAAGTT-CAGTGGAGCAAGA
* * * *
48442169 TGAAGATACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATGGTGAATCT
1 TGAAGATACAAATCCTATACC-CTAAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCT
* *
48442234 TATCTCTCT-AAGGATTCAATGGAGTAAGA
65 TATCTCTCTGAA-G-TTCAGTGGAGCAAGA
48442263 TGAAG
1 TGAAG
48442268 CCACAAATAT
Statistics
Matches: 162, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
93 5 0.03
94 154 0.95
95 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (92 bp):
TGAAGATACAAATCCTATACCCTAAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCTT
ATCTCTCTGAAGTTCAGTGGAGCAAGA
Found at i:48442274 original size:94 final size:94
Alignment explanation
Indices: 48442001--48442360 Score: 291
Period size: 94 Copynumber: 3.8 Consensus size: 94
48441991 ATTTCTATGC
* * * * * * * * * *
48442001 CCCTAAAGTTGCAATGGGTCAGAATGAAATTATAATGGCGAATCCTATCTCCCTGAAGTTACAGT
1 CCCTAAAGTTACAGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAAGTTGCAAT
* *
48442066 GGTGCAAGATGAAACTACAAATCCTATAT
66 GGAGCAAGATGAAGCTACAAATCCTATAT
* * *
48442095 CCCTAAATTTACTGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAAGTTGCAGT
1 CCCTAAAGTTACAGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAAGTTGCAAT
*
48442160 GGAGCAAGATGAAGATACAAATCCTATA-
66 GGAGCAAGATGAAGCTACAAATCCTATAT
* * * * * *
48442188 CCTCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATGGTGAATCTTATCTCTCT-AAGGATT-C
1 CC-CTAAAGTTACAGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAA-G-TTGC
* * **
48442251 AATGGAGTAAGATGAAGCCACAAATATTATAT
63 AATGGAGCAAGATGAAGCTACAAATCCTATAT
* * * * * * *****
48442283 CCCTGGAA-TTGCAGTGGAAT-GAATTGAAATTACAACAACAAATCTTATCTC-CTTGAAGTTGC
1 CCCT-AAAGTTACAGTGG-GTCAAAATGAAACTACAATGGTGAATCTTATCTCTC-TGAAGTTGC
48442345 AATGGAGCAAGATGAA
63 AATGGAGCAAGATGAA
48442361 ACTGTAACAC
Statistics
Matches: 217, Mismatches: 40, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
93 7 0.03
94 200 0.92
95 10 0.05
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (94 bp):
CCCTAAAGTTACAGTGGGTCAAAATGAAACTACAATGGTGAATCTTATCTCTCTGAAGTTGCAAT
GGAGCAAGATGAAGCTACAAATCCTATAT
Found at i:48443473 original size:37 final size:37
Alignment explanation
Indices: 48443423--48443505 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
48443413 GTCTAATATG
48443423 ACGTCATTTTGGGTTTGACTTCTAGACGCCCAAAACA
1 ACGTCATTTTGGGTTTGACTTCTAGACGCCCAAAACA
* * *
48443460 ACGTCGTTTTGGGTTTGACTTTTAGACGCCCAAAACG
1 ACGTCATTTTGGGTTTGACTTCTAGACGCCCAAAACA
48443497 ACGTCATTT
1 ACGTCATTT
48443506 AAGGACCGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (37 bp):
ACGTCATTTTGGGTTTGACTTCTAGACGCCCAAAACA
Found at i:48445178 original size:13 final size:13
Alignment explanation
Indices: 48445160--48445185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48445150 TAAATCTAAC
48445160 ATTTTATTAAAAT
1 ATTTTATTAAAAT
48445173 ATTTTATTAAAAT
1 ATTTTATTAAAAT
48445186 GACAAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTATTAAAAT
Found at i:48446825 original size:18 final size:16
Alignment explanation
Indices: 48446802--48446849 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 16
48446792 AACAATTTCC
48446802 TTTAATTAATTTAGAAAA
1 TTTAATTAA-TTA-AAAA
48446820 TTTAATTAATT--AAA
1 TTTAATTAATTAAAAA
48446834 TTTAATTAATTAAAAA
1 TTTAATTAATTAAAAA
48446850 AATCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.50
16 3 0.11
17 2 0.07
18 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTAATTAATTAAAAA
Found at i:48462317 original size:27 final size:27
Alignment explanation
Indices: 48462284--48462481 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
48462274 TTAAGCATAC
48462284 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
* *
48462311 AGTCATTTTATAACATAGTGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
*
48462338 AGTCATTTTATAACATAGGCGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
* * *
48462365 AGTCA-TTT-TACCATTTGAGGGCATAAC
1 AGTCATTTTATAACA-TAG-GGGCATAAT
48462392 AGTCA-TTTATAAACATAGGGGCATAAT
1 AGTCATTTTAT-AACATAGGGGCATAAT
** * *
48462419 AGTCATTTTACCACGTAAGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
*
48462446 AGTCA-TTTATAACATAAGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
48462472 AGTCATTTTA
1 AGTCATTTTA
48462482 CCACGTGAGG
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.03
26 28 0.19
27 104 0.71
28 7 0.05
29 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAT
Found at i:48462342 original size:54 final size:54
Alignment explanation
Indices: 48462278--48462511 Score: 332
Period size: 54 Copynumber: 4.4 Consensus size: 54
48462268 ATAACATTAA
** *
48462278 GCAT-ACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACAT-AGTG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTGAG-G
* **
48462331 GCATAACAGTCATTTTATAACATAGGCGCATAATAGTCATTTTACCATTTGAGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
*
48462385 GCATAACAGTCA-TTTATAAACATAGGGGCATAATAGTCATTTTACCACGTAAGG
1 GCATAACAGTCATTTTAT-AACATAGGGGCATAATAGTCATTTTACCACGTGAGG
* *
48462439 GCATAATAGTCA-TTTATAACATAAGGGCATAATAGTCATTTTACCACGTGAGG
1 GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
*
48462492 ACATAACAGTCATTTTATAA
1 GCATAACAGTCATTTTATAA
48462512 TAGTTTGGGG
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
53 53 0.33
54 108 0.66
55 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (54 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTGAGG
Found at i:48462387 original size:81 final size:79
Alignment explanation
Indices: 48462284--48462511 Score: 255
Period size: 81 Copynumber: 2.8 Consensus size: 79
48462274 TTAAGCATAC
*
48462284 AGTCATTTTATAACATAGGGGCATAATAGTCATTTTATAACATAGTGGCATAACAGTCATTTTAT
1 AGTCA-TTTATAACATAAGGGCATAATAGTCATTTTATAACATAG-GGCATAACAGTCATTTTAT
48462349 AACAT-AGGCGCATAAT
64 AACATAAGG-GCATAAT
* * * *
48462365 AGTCATTT-TACCATTTGAGGGCATAACAGTCA-TTTATAAACATAGGGGCATAATAGTCATTTT
1 AGTCATTTATAACA--TAAGGGCATAATAGTCATTTTAT-AACATA-GGGCATAACAGTCATTTT
** *
48462428 ACCACGTAAGGGCATAAT
62 ATAACATAAGGGCATAAT
** * *
48462446 AGTCATTTATAACATAAGGGCATAATAGTCATTTTACCACGTGAGGACATAACAGTCATTTTATA
1 AGTCATTTATAACATAAGGGCATAATAGTCATTTTATAACAT-AGGGCATAACAGTCATTTTATA
48462511 A
65 A
48462512 TAGTTTGGGG
Statistics
Matches: 121, Mismatches: 18, Indels: 17
0.78 0.12 0.11
Matches are distributed among these distances:
79 4 0.03
80 44 0.36
81 65 0.54
82 8 0.07
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (79 bp):
AGTCATTTATAACATAAGGGCATAATAGTCATTTTATAACATAGGGCATAACAGTCATTTTATAA
CATAAGGGCATAAT
Found at i:48462496 original size:27 final size:27
Alignment explanation
Indices: 48462284--48462508 Score: 208
Period size: 27 Copynumber: 8.4 Consensus size: 27
48462274 TTAAGCATAC
** *
48462284 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTACCACATAAGGGCATAAT
** *
48462311 AGTCATTTTATAACAT-AGTGGCATAAC
1 AGTCATTTTACCACATAAG-GGCATAAT
**
48462338 AGTCATTTTATAACAT-AGGCGCATAAT
1 AGTCATTTTACCACATAAGG-GCATAAT
** * *
48462365 AGTCATTTTACCATTTGAGGGCATAAC
1 AGTCATTTTACCACATAAGGGCATAAT
* *
48462392 AGTCATTTATA-AACATAGGGGCATAAT
1 AGTCATTT-TACCACATAAGGGCATAAT
*
48462419 AGTCATTTTACCACGTAAGGGCATAAT
1 AGTCATTTTACCACATAAGGGCATAAT
48462446 AGTCATTTATA--ACATAAGGGCATAAT
1 AGTCATTT-TACCACATAAGGGCATAAT
* * * *
48462472 AGTCATTTTACCACGTGAGGACATAAC
1 AGTCATTTTACCACATAAGGGCATAAT
48462499 AGTCATTTTA
1 AGTCATTTTA
48462509 TAATAGTTTG
Statistics
Matches: 168, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
25 2 0.01
26 26 0.15
27 133 0.79
28 7 0.04
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCATAAT
Found at i:48467635 original size:21 final size:21
Alignment explanation
Indices: 48467611--48467650 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48467601 AAATTAGAAT
* *
48467611 ATAAAAATTAAATTAAAAACA
1 ATAAAAATAAAAATAAAAACA
48467632 ATAAAAATAAAAATAAAAA
1 ATAAAAATAAAAATAAAAA
48467651 ATGGCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAACA
Found at i:48470242 original size:26 final size:29
Alignment explanation
Indices: 48470181--48470248 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
48470171 AAAGAAAATG
*
48470181 AATATAATAATACAATAATAAATAGTGAT
1 AATATAATAATACAATAATAAATAATGAT
*
48470210 ACA-ATAATAA-A-AATGAT-AATAATGAT
1 A-ATATAATAATACAATAATAAATAATGAT
48470236 AATATAAGTAATA
1 AATATAA-TAATA
48470249 AAGAACCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.03
26 13 0.39
27 8 0.24
28 2 0.06
29 8 0.24
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
AATATAATAATACAATAATAAATAATGAT
Found at i:48473724 original size:2 final size:2
Alignment explanation
Indices: 48473717--48473746 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48473707 GTATAATAAA
48473717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48473747 TTGTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48474273 original size:26 final size:29
Alignment explanation
Indices: 48474212--48474279 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
48474202 AAAGAAAATG
*
48474212 AATATAATAATACAATAATAAATAGTGAT
1 AATATAATAATACAATAATAAATAATGAT
*
48474241 ACA-ATAATAA-A-AATGAT-AATAATGAT
1 A-ATATAATAATACAATAATAAATAATGAT
48474267 AATATAAGTAATA
1 AATATAA-TAATA
48474280 AAGAACCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.03
26 13 0.39
27 8 0.24
28 2 0.06
29 8 0.24
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
AATATAATAATACAATAATAAATAATGAT
Found at i:48476372 original size:175 final size:174
Alignment explanation
Indices: 48476018--48476495 Score: 612
Period size: 175 Copynumber: 2.7 Consensus size: 174
48476008 TGTAACCTTT
* * * *
48476018 AACCAGCTCCAATGCAACCGATG-GAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATACAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
** * * ** *
48476080 CAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-
63 CAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATC-ACAATCGAAAGAGGCAAGG-TTTGTG
* * *
48476142 T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTTCTTT
126 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTTCTTC
* *
48476190 AACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCA
1 AACCAGCTCCA-TACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* *
48476255 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAATCGAAAGAGGCAAGGTTTGTGTCTT
65 GGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATCACAATCGAAAGAGGCAAGGTTTGTGTCTT
**
48476320 CGATCTGCTTCGCTGTCAATGCA-GAAGGCAAGATCTTTTGTCTTC
130 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT-TCTTC
* *
48476365 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCAT-ACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* *
48476430 GGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGACTT
65 GGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATCACAATCGAAAGAGGCAAGGTTTGTGTCTT
48476495 C
130 C
48476496 ATTGATCTGT
Statistics
Matches: 268, Mismatches: 28, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
171 7 0.03
172 28 0.10
173 40 0.15
174 44 0.16
175 149 0.56
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (174 bp):
AACCAGCTCCATACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAG
GAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATCACAATCGAAAGAGGCAAGGTTTGTGTCTTC
GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTTCTTC
Found at i:48476387 original size:87 final size:88
Alignment explanation
Indices: 48476014--48476495 Score: 606
Period size: 88 Copynumber: 5.5 Consensus size: 88
48476004 AATCTGTAAC
* ** * * *
48476014 CTTTAACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTT
1 CTTTAACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTC
**
48476076 AATGCAGGAAGGCAAGATCTGCT-T
64 AATGCAGGAAGGCAAGATCTTTTGT
* * * ** * *
48476100 CTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTT
1 CTTTAACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTC
* **
48476162 AATGTAGGAAGGCAAGATCTGCT-T
64 AATGCAGGAAGGCAAGATCTTTTGT
* * *
48476186 CTTTAACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
1 CTTTAACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
48476250 ATGCAGGAAGGCAAGATCTTTTGT
65 ATGCAGGAAGGCAAGATCTTTTGT
* * *
48476274 CTTCAACCAGCTCTATCACAATCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
1 CTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
48476339 TGCA-GAAGGCAAGATCTTTTGT
66 TGCAGGAAGGCAAGATCTTTTGT
*
48476361 CTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
1 CTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
*
48476426 TGTAGGAAGGCAAGATCTTTTGT
66 TGCAGGAAGGCAAGATCTTTTGT
*
48476449 CTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGACTTC
1 CTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTC
48476496 ATTGATCTGT
Statistics
Matches: 360, Mismatches: 29, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
85 6 0.02
86 108 0.30
87 120 0.33
88 125 0.35
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (88 bp):
CTTTAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
TGCAGGAAGGCAAGATCTTTTGT
Found at i:48485056 original size:26 final size:29
Alignment explanation
Indices: 48484995--48485062 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
48484985 AAAGAAAATG
*
48484995 AATATAATAATACAATAATAAATAGTGAT
1 AATATAATAATACAATAATAAATAATGAT
*
48485024 ACA-ATAATAA-A-AATGAT-AATAATGAT
1 A-ATATAATAATACAATAATAAATAATGAT
48485050 AATATAAGTAATA
1 AATATAA-TAATA
48485063 AAGAACCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.03
26 13 0.39
27 8 0.24
28 2 0.06
29 8 0.24
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
AATATAATAATACAATAATAAATAATGAT
Found at i:48486901 original size:86 final size:87
Alignment explanation
Indices: 48486795--48487208 Score: 473
Period size: 88 Copynumber: 4.8 Consensus size: 87
48486785 AATCTGTAAC
* * * * *
48486795 CTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTA
1 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCA
48486858 ATGCAGGAAGGCAAGATCTGCTT
65 ATGCAGGAAGGCAAGATCTGCTT
* * * * *
48486881 CTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
1 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCA
*
48486944 ATGTAGGAAGGCAAGATCTGCTT
65 ATGCAGGAAGGCAAGATCTGCTT
* *
48486967 CTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
1 CTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
**
48487031 ATGCAGGAAGGCAAGATCTTTTGT
65 ATGCAGGAAGGCAAGATCTGCT-T
* * **
48487055 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 CTTTAACCAGCTCCACT-ACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
* **
48487119 ATGCAGAAAGGCAAGATCTTTTGT
65 ATGCAGGAAGGCAAGATCTGCT-T
* ** * *
48487143 CTTCAACCAGCTCCA-TCACAACCGAAAGCGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCA
1 CTTTAACCAGCTCCACT-ACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
48487207 AT
65 AT
48487209 TGAAATTTAA
Statistics
Matches: 296, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
85 6 0.02
86 110 0.37
87 37 0.12
88 143 0.48
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
TGCAGGAAGGCAAGATCTGCTT
Found at i:48487058 original size:45 final size:45
Alignment explanation
Indices: 48487007--48487146 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 45
48486997 GCAAGGTTTG
48487007 TGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTT
1 TGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTT
* * ** * * * * *
48487052 TGTCTTCAACCAGC-TCTA-TCACAACCGAAAG-AGGCAAGGT-TTG
1 TGTCTTCGACCTGCTTC-ACTGTCAA-TGCAGGAAGGCAAGATCTTT
* * *
48487095 TGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTT
1 TGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTT
48487140 TGTCTTC
1 TGTCTTC
48487147 AACCAGCTCC
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 15 0.22
44 28 0.41
45 25 0.37
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (45 bp):
TGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTT
Found at i:48487087 original size:44 final size:44
Alignment explanation
Indices: 48487039--48487177 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
48487029 CAATGCAGGA
48487039 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * * **
48487083 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCA-ATGC-AGAA-
1 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACAACCGA-AAG
*
48487127 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
*
48487171 CGGCAAG
1 AGGCAAG
48487178 GTTTGTGTCT
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 17 0.25
44 26 0.38
45 17 0.25
46 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
Found at i:48487101 original size:43 final size:43
Alignment explanation
Indices: 48487052--48487189 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
48487042 CAAGATCTTT
48487052 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
* * * * ** * *
48487095 TGTCTTCGATCTGCTTCGCTGTCA-ATGC-AGAA-AGGCAAGATCTTT
1 TGTCTTCAACCAGC-T--CTATCACAACCGA-AAGAGGCAAGGT-TTG
* *
48487140 TGTCTTCAACCAGCTCCATCACAACCGAAAGCGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
48487183 TGTCTTC
1 TGTCTTC
48487190 GATCTGCTTC
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 24 0.35
44 19 0.28
45 17 0.25
46 5 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
Found at i:48490880 original size:27 final size:29
Alignment explanation
Indices: 48490840--48490956 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 29
48490830 AATCATGGGA
*
48490840 AAAATGAC-CGAATTACCCTCGA-AGGTT
1 AAAATGACTCGAATTACCCTCGACAGGGT
* *
48490867 AAAATGACTC-AATTACCCCCGAC-TGGT
1 AAAATGACTCGAATTACCCTCGACAGGGT
*
48490894 AAAATGACT-GAATTACCCTC-AAAGGGT
1 AAAATGACTCGAATTACCCTCGACAGGGT
* *
48490921 AAAATGAC-CGAAATACCCTC-ATAGGGT
1 AAAATGACTCGAATTACCCTCGACAGGGT
48490948 AAAATGACT
1 AAAATGACT
48490957 GTTATACCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (29 bp):
AAAATGACTCGAATTACCCTCGACAGGGT
Found at i:48490949 original size:54 final size:53
Alignment explanation
Indices: 48490832--48490957 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
48490822 AATGTGCGAA
* * * * *
48490832 TCATGGGAAAAATGACCGAATTACCCTCGAAGGTTAAAATGACTCAATTACCC
1 TCATGGGTAAAATGACTGAATTACCCTCAAAGGGTAAAATGACTCAAATACCC
*
48490885 CCGACT-GGTAAAATGACTGAATTACCCTCAAAGGGTAAAATGAC-CGAAATACCC
1 TC-A-TGGGTAAAATGACTGAATTACCCTCAAAGGGTAAAATGACTC-AAATACCC
48490939 TCATAGGGTAAAATGACTG
1 TCAT-GGGTAAAATGACTG
48490958 TTATACCCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
52 1 0.02
53 3 0.05
54 56 0.92
55 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (53 bp):
TCATGGGTAAAATGACTGAATTACCCTCAAAGGGTAAAATGACTCAAATACCC
Found at i:48491146 original size:27 final size:26
Alignment explanation
Indices: 48491116--48491175 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
48491106 TGTACTAGTG
*
48491116 GCTTTGCCACATATATTGTTGCTGGCA
1 GCTTTGCCACAT-TATTGTTACTGGCA
**
48491143 GCTTTGCTGCATTATTGTTACTGGCA
1 GCTTTGCCACATTATTGTTACTGGCA
*
48491169 GTTTTGC
1 GCTTTGC
48491176 TGCATCACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (26 bp):
GCTTTGCCACATTATTGTTACTGGCA
Found at i:48491161 original size:26 final size:26
Alignment explanation
Indices: 48491129--48491204 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
48491119 TTGCCACATA
*
48491129 TATTGTTGCTGGCAGCTTTGCTGCAT
1 TATTGTTACTGGCAGCTTTGCTGCAT
*
48491155 TATTGTTACTGGCAGTTTTGCTGCAT
1 TATTGTTACTGGCAGCTTTGCTGCAT
* * * * *
48491181 CACTATTAGTAGCAGCTTTGCTGC
1 TATTGTTACTGGCAGCTTTGCTGC
48491205 GATATTGGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TATTGTTACTGGCAGCTTTGCTGCAT
Found at i:48497163 original size:27 final size:27
Alignment explanation
Indices: 48497127--48497300 Score: 160
Period size: 27 Copynumber: 6.4 Consensus size: 27
48497117 TGCGAATCAT
* *
48497127 GGGTAAAATGACTGAATTACCCTCGAT
1 GGGTAAAATGACTGAATTACCCCCGAA
*
48497154 GGGTAAAATGA-TCGAATTACCCCCAAA
1 GGGTAAAATGACT-GAATTACCCCCGAA
**
48497181 GGGTAAAATGACCAAATTACCCCCGAA
1 GGGTAAAATGACTGAATTACCCCCGAA
* * * **
48497208 GGGTAAAATGGCCGAATAACCTTCGAA
1 GGGTAAAATGACTGAATTACCCCCGAA
*
48497235 GGGTAAAATGACTGAAATACCCCC-ATA
1 GGGTAAAATGACTGAATTACCCCCGA-A
*
48497262 GGGTAAAATAACCAT-AA-TACCCCC-ATA
1 GGGTAAAATGA-C-TGAATTACCCCCGA-A
48497289 GGGTAAAATGAC
1 GGGTAAAATGAC
48497301 CATTATACCC
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.02
27 116 0.94
28 3 0.02
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGACTGAATTACCCCCGAA
Found at i:48497265 original size:81 final size:81
Alignment explanation
Indices: 48497127--48497301 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
48497117 TGCGAATCAT
* * * * *
48497127 GGGTAAAATGACTGAATTACCCTCGATGGGTAAAATGATCGAATTACCCCCAAAGGGTAAAATGA
1 GGGTAAAATGACCGAATAACCCTCGAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATAA
48497192 CCA-AATTACCCCCGA-A
66 CCATAA-TACCCCC-ATA
* * *
48497208 GGGTAAAATGGCCGAATAACCTTCGAAGGGTAAAATGA-CTGAAATACCCCCATAGGGTAAAATA
1 GGGTAAAATGACCGAATAACCCTCGAAGGGTAAAATGATC-GAAATACCCCCAAAGGGTAAAATA
48497272 ACCATAATACCCCCATA
65 ACCATAATACCCCCATA
48497289 GGGTAAAATGACC
1 GGGTAAAATGACC
48497302 ATTATACCCC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
80 2 0.02
81 78 0.95
82 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (81 bp):
GGGTAAAATGACCGAATAACCCTCGAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATAA
CCATAATACCCCCATA
Found at i:48497492 original size:27 final size:26
Alignment explanation
Indices: 48497449--48497547 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 26
48497439 AGGGGAAGTA
**
48497449 TACT-GTACTGGTGGCTTTGCCACAT
1 TACTGGTACTGGCAGCTTTGCCACAT
* ***
48497474 ATGCTGGTACTGGCAGCTTTGGTGCAT
1 -TACTGGTACTGGCAGCTTTGCCACAT
* **
48497501 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGGTACTGGCAGCTTTGCCACAT
* **
48497527 CACTATTACTGGCAGCTTTGC
1 TACTGGTACTGGCAGCTTTGC
48497548 TGCGATATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 45 0.74
27 16 0.26
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
TACTGGTACTGGCAGCTTTGCCACAT
Found at i:48497513 original size:26 final size:26
Alignment explanation
Indices: 48497481--48497550 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
48497471 CATATGCTGG
* * *
48497481 TACTGGCAGCTTTGGTGCATTACTGT
1 TACTGGCAGCTTTGCTGCATCACTAT
48497507 TACTGGCAGCTTTGCTGCATCACTAT
1 TACTGGCAGCTTTGCTGCATCACTAT
48497533 TACTGGCAGCTTTGCTGC
1 TACTGGCAGCTTTGCTGC
48497551 GATATTGGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCATCACTAT
Found at i:48498202 original size:17 final size:17
Alignment explanation
Indices: 48498177--48498215 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
48498167 AACATTACTA
48498177 AAGAAGTTTCCAAACTT
1 AAGAAGTTTCCAAACTT
*
48498194 AAGAGGTTTCCAAACTT
1 AAGAAGTTTCCAAACTT
48498211 AAGAA
1 AAGAA
48498216 ACGAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (17 bp):
AAGAAGTTTCCAAACTT
Found at i:48520520 original size:99 final size:99
Alignment explanation
Indices: 48520347--48520531 Score: 248
Period size: 99 Copynumber: 1.9 Consensus size: 99
48520337 TAAATTATTG
** * * *
48520347 AATGTTAAATTGTTAAAATGTTTCTGATTGTAAAGTAATGCTCCGTAACTCTAATCTGATGACGG
1 AATGTTAAAAAGTTAAAATGTTTCTGATTGTAAAGTAATACTCCGTAACCCTAATCAGATGACGG
48520412 AGATGGGTTAGGGGTGTTACATTTATTGGTATCA
66 AGATGGGTTAGGGGTGTTACATTTATTGGTATCA
* * * * *
48520446 AATGTTAAAAAGTTTAAATGTTTTTTATTGTAAGGTAATACTCTGTAACCCTAATTCAG-TGACG
1 AATGTTAAAAAGTTAAAATGTTTCTGATTGTAAAGTAATACTCCGTAACCCTAA-TCAGATGACG
48520510 GAGACT-GGTTAGGGGTGTTACA
65 GAGA-TGGGTTAGGGGTGTTACA
48520532 CCATTCACGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 70 0.95
100 4 0.05
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (99 bp):
AATGTTAAAAAGTTAAAATGTTTCTGATTGTAAAGTAATACTCCGTAACCCTAATCAGATGACGG
AGATGGGTTAGGGGTGTTACATTTATTGGTATCA
Found at i:48522629 original size:29 final size:28
Alignment explanation
Indices: 48522597--48522669 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
48522587 GCTTAAGTAC
48522597 ATTTTCTTTTA-TTTGAATGTTTATTTCTT
1 ATTTTCTTTTAGTTTG-ATGTTTATTT-TT
* * *
48522626 ATTTTCATTTTAGTTTGTTTTTTGTTTTT
1 ATTTTC-TTTTAGTTTGATGTTTATTTTT
*
48522655 ATTTTCTTTTTGTTT
1 ATTTTCTTTTAGTTT
48522670 AGTTTTCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 8 0.21
29 14 0.37
30 12 0.32
31 4 0.11
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.74
Consensus pattern (28 bp):
ATTTTCTTTTAGTTTGATGTTTATTTTT
Found at i:48522653 original size:17 final size:18
Alignment explanation
Indices: 48522633--48522678 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
48522623 CTTATTTTCA
48522633 TTTTAGTTTGT-TTTTTGT
1 TTTTAGTTT-TCTTTTTGT
48522651 TTTTA-TTTTCTTTTTG-
1 TTTTAGTTTTCTTTTTGT
48522667 -TTTAGTTTTCTT
1 TTTTAGTTTTCTT
48522679 GAGGACAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 9 0.35
18 5 0.19
ACGTcount: A:0.07, C:0.04, G:0.11, T:0.78
Consensus pattern (18 bp):
TTTTAGTTTTCTTTTTGT
Found at i:48523902 original size:12 final size:12
Alignment explanation
Indices: 48523885--48523944 Score: 75
Period size: 12 Copynumber: 4.8 Consensus size: 12
48523875 TTTAAGTTGC
48523885 TTGTTTATTTTA
1 TTGTTTATTTTA
48523897 TTGTTTATTTTA
1 TTGTTTATTTTA
* **
48523909 TTGATTTAAGTTGC
1 TTG-TTT-ATTTTA
48523923 TTGTTTATTTTA
1 TTGTTTATTTTA
48523935 TTGTTTATTT
1 TTGTTTATTT
48523945 ACTTTAGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 28 0.70
13 6 0.15
14 6 0.15
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.70
Consensus pattern (12 bp):
TTGTTTATTTTA
Found at i:48523917 original size:38 final size:38
Alignment explanation
Indices: 48523866--48523944 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
48523856 TCCTGATTGG
48523866 TTTTATTGATTTAAGTTGCTTGTTTATTTTATTGTTTA
1 TTTTATTGATTTAAGTTGCTTGTTTATTTTATTGTTTA
48523904 TTTTATTGATTTAAGTTGCTTGTTTATTTTATTGTTTA
1 TTTTATTGATTTAAGTTGCTTGTTTATTTTATTGTTTA
48523942 TTT
1 TTT
48523945 ACTTTAGTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.67
Consensus pattern (38 bp):
TTTTATTGATTTAAGTTGCTTGTTTATTTTATTGTTTA
Found at i:48526423 original size:20 final size:20
Alignment explanation
Indices: 48526398--48526438 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
48526388 ATTTTCAAAC
48526398 TAAGACTCCCACAAAACTCT
1 TAAGACTCCCACAAAACTCT
*
48526418 TAAGACTCTCACAAAACTCT
1 TAAGACTCCCACAAAACTCT
48526438 T
1 T
48526439 CTTTTCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.32, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAGACTCCCACAAAACTCT
Found at i:48528232 original size:16 final size:18
Alignment explanation
Indices: 48528206--48528242 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
48528196 TGTTCTTGCG
48528206 TTTTCTATTTT-CTTTAT
1 TTTTCTATTTTACTTTAT
*
48528223 TTTTCT-TTTTATTTTAT
1 TTTTCTATTTTACTTTAT
48528240 TTT
1 TTT
48528243 ATTTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTATTTTACTTTAT
Found at i:48541425 original size:44 final size:43
Alignment explanation
Indices: 48541314--48541425 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 43
48541304 CAACAAGTCT
* *
48541314 TATCTCCTTGAAGTTACAGTGGACCAGACTGAAGCTACTAATCC
1 TATCTCCTT-AAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
*
48541358 TATCTCCTTAAGGTTGCAGTGGAGCGGACTGAAGCTACTAATCC
1 TATCTCCTTAA-GTTGCAGTGGAGCAGACTGAAGCTACTAATCC
48541402 TATCTCCTTAAGCTTGCAGTGGAG
1 TATCTCCTTAAG-TTGCAGTGGAG
48541426 AGGATTAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
43 3 0.05
44 60 0.95
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (43 bp):
TATCTCCTTAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
Found at i:48541445 original size:44 final size:44
Alignment explanation
Indices: 48541352--48541448 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
48541342 CTGAAGCTAC
* * * * *
48541352 TAATCCTATCTCCTTAAGGTTGCAGTGGAGCGGACTGAAGCTAC
1 TAATCCTATCTCCTTAAGCTTGCAGTGGAGAGGACTAAAACTAA
*
48541396 TAATCCTATCTCCTTAAGCTTGCAGTGGAGAGGATTAAAAC-AA
1 TAATCCTATCTCCTTAAGCTTGCAGTGGAGAGGACTAAAACTAA
48541439 TGAATCCTAT
1 T-AATCCTAT
48541449 ACCTTTGAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 2 0.04
44 44 0.96
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TAATCCTATCTCCTTAAGCTTGCAGTGGAGAGGACTAAAACTAA
Found at i:48544209 original size:10 final size:10
Alignment explanation
Indices: 48544194--48544223 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
48544184 GTAATTTTGA
48544194 TATTTAAAAT
1 TATTTAAAAT
*
48544204 TATTTAAAAA
1 TATTTAAAAT
48544214 TATTTAAAAT
1 TATTTAAAAT
48544224 CTATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:48545831 original size:82 final size:82
Alignment explanation
Indices: 48545738--48545902 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
48545728 TTAATTAAAA
48545738 TAGTCTAACATGTTTATGTTATAAATCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAATCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
48545803 TTTATGCTTCCGTTATT
66 TTTATGCTTCCGTTATT
* *
48545820 TAGTCTAACATGTTTATGTTATAAGTCTATTAAGAATATTTTAAATTTATAAATAGATAAAATAG
1 TAGTCTAACATGTTTATGTTATAAATCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
*
48545885 TTTATGTTTCCGTTATT
66 TTTATGCTTCCGTTATT
48545902 T
1 T
48545903 TTTTTTCTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (82 bp):
TAGTCTAACATGTTTATGTTATAAATCTATTAAGAATATATTAAATTTATAAATAGATAAAATAG
TTTATGCTTCCGTTATT
Found at i:48546000 original size:19 final size:19
Alignment explanation
Indices: 48545978--48546043 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
48545968 TTTAATTTTT
48545978 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
48545997 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
48546015 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
48546034 TTAAATTAAA
1 TTAAATTAAA
48546044 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:48546509 original size:27 final size:27
Alignment explanation
Indices: 48546452--48546542 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
48546442 TTTTTTTGGT
*
48546452 ATATTTTGGTAAATAAACCAAATTTATA
1 ATATTTTGGTAAATAAA-AAAATTTATA
48546480 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
48546507 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
48546533 ATATTTTGGT
1 ATATTTTGGT
48546543 TATTTTTTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 15 0.24
27 30 0.48
28 17 0.27
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATTTATA
Found at i:48548942 original size:21 final size:21
Alignment explanation
Indices: 48548917--48548957 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
48548907 ATTAATTGAA
48548917 ATCCAAATC-TAAATTTGAACT
1 ATCCAAA-CATAAATTTGAACT
48548938 ATCCAAACAATAAATTTGAA
1 ATCCAAAC-ATAAATTTGAA
48548958 TTAATTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (21 bp):
ATCCAAACATAAATTTGAACT
Found at i:48553731 original size:14 final size:15
Alignment explanation
Indices: 48553702--48553734 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
48553692 GGGGAAAACA
48553702 AAAATAAAACAAAAT
1 AAAATAAAACAAAAT
*
48553717 AAAAT-AAACAGAAT
1 AAAATAAAACAAAAT
48553731 AAAA
1 AAAA
48553735 ATAACATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAACAAAAT
Found at i:48553735 original size:15 final size:15
Alignment explanation
Indices: 48553696--48553738 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48553686 GATTTTGGGG
*
48553696 AAAACAAAAATAAAAC
1 AAAATAAAAAT-AAAC
48553712 AAAAT-AAAATAAAC
1 AAAATAAAAATAAAC
*
48553726 AGAATAAAAATAA
1 AAAATAAAAATAA
48553739 CATCATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 12 0.50
16 4 0.17
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAATAAAAATAAAC
Found at i:48555434 original size:27 final size:28
Alignment explanation
Indices: 48555383--48555435 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
48555373 ATACATATAA
* * *
48555383 ATGGTTGTTCACTCCCTTTTGTTGGTTC
1 ATGGATGTTCACTCCCTTGTATTGGTTC
48555411 ATGGATGTTCA-TCCCTTGTATTGGT
1 ATGGATGTTCACTCCCTTGTATTGGT
48555436 ATGTATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (28 bp):
ATGGATGTTCACTCCCTTGTATTGGTTC
Found at i:48562192 original size:511 final size:519
Alignment explanation
Indices: 48561218--48562572 Score: 1949
Period size: 511 Copynumber: 2.6 Consensus size: 519
48561208 TACTGGGCAT
* * *
48561218 ACGCCAGATTTTTAGCTTTTGATGATCTTCATTTTCTCGCATTTTTGTTATACACTTAGTTCATT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGCGTTTTTGTTATACACTTAGTTCATT
* *
48561283 TTTTATGTGAAAGCAATCTCGAGAACTCTGAAACCTAAGAAATAGCATTCCAAAGACTATTTTTG
66 TTTTATGTGAAAGCAATCTCGAG-ACTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCG
* * * *
48561348 CAATAAATTTACGAATTCAACACAAGTAAACTGAACAATGCACACGAACTTACTGCCAACGAACA
130 CAATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACA
*
48561413 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTGACAACCTTTTCCTAAAAGCAA
195 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGCAA
* *
48561478 AACCAACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCGTAGT
260 AACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAGT
*
48561543 CGATTGGAACGACACATGCGACCATAGGGAAACATTCTAAAATTTGGGCCTACATGCCCGTGTGT
325 CGATTGGAACGACACATGCGACCATAGGGAAACATTCTAAAATTTGGGCCTACATGCCCGTGTGG
* * * * *
48561608 TCCACACGTCCAAAATGGCCTTGTCCCTGGGATCACATGGCCTAGCCCATGACCACACACACACC
390 CCCACACGTCCAAAATAGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACAAC
* * ** *
48561673 CGTCACATGACACACGACCTAC-CA-C-ATG-G-C-TGG-G-C-ACACGCTTGTGTGGTGTCAAC
455 CATCACATGACACACGACCTACACAGCTAGGCGCCGTGGCGTCGACACGCCCGTGTGGCGTCAAC
* * * * *
48561729 ACGCCAAATTTTTAGCTTTTGACGACCGTCATTTTCACACGTTTTTGTTATACACTTAGTTCGTT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGCGTTTTTGTTATACACTTAGTTCATT
* * * * * *
48561794 TTTTATGTGAAAACATTCTCGAGACTTTGAAACCTAAGAAATAACATTCCAATGACTACTTTCAC
66 TTTTATGTGAAAGCAATCTCGAGACTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGC
* *
48561859 ATTCAATTTACGAATTCAACACAACTAAACTGAACAACGCACAGGAACTTACCGCCAACGAACAC
131 AATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACAC
*
48561924 AATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTTCCTAAAAACAA
196 AATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACC-TTTTCCTAAAAGCAA
* * * *
48561989 AACCCACTAATTAATGGTTACAAATTAACATCACTAGCATCCCATAATTGTAAATGCTCTATAGT
260 AACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAGT
* *
48562054 CGATTGGAACTACACATGCGACCATAGGGAAACATTCTGAAATTTGGGCCTACATGCCCGTGTGG
325 CGATTGGAACGACACATGCGACCATAGGGAAACATTCTAAAATTTGGGCCTACATGCCCGTGTGG
* * *
48562119 CCCACATGTCCAAAATAGCCTTGTCCCTGGGCCCACATGGCCTGGCCCACGACCACACACACAAC
390 CCCACACGTCCAAAATAGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACAAC
*
48562184 CATCACATGACATACGACCTACAACACGGCTAGGCACACGCCCGTGTGGCGTCGACACGCCCGTG
455 CATCACATGACACACGACCTAC-ACA--GCTAGG----CG-CC--GTGGCGTCGACACGCCCGTG
*
48562249 TGGCGTCGAC
510 TGGCGTCAAC
*
48562259 ACGCCAGATTTTTAGCTTTTGACGATCGTCA-TTTCTTGCGTTTTTGTTATACACTTAGTTCATT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGCGTTTTTGTTATACACTTAGTTCATT
* * *
48562323 TTTTATGTGAAAGCAATCTCAAGACCTCTAAAACCTAAGAAATAGCATTCCAACGACTACTTTCG
66 TTTTATGTGAAAGCAATCTCGAGA-CTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCG
* * * * * *
48562388 CAAGCAATTTATGAATTTAACACAACTAAA-TCGAACAACGCACATGAACTTAACGCCAACGGAC
130 CAATCAATTTACGAATTCAACACAACTAAACT-GAACAACGCACACGAACTTACCGCCAACGAAC
*
48562452 ACAATCACACACGAATTAGATCGTTGGAGTGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGCA
194 ACAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGCA
* * *
48562517 AATCCCAATAATTAATGGCTATAAATTAACATCACTAGCATCCCATAATTCTAAAC
259 AAACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAAC
48562573 ACTAAAGATA
Statistics
Matches: 745, Mismatches: 77, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
510 143 0.19
511 290 0.39
513 2 0.00
516 1 0.00
517 2 0.00
522 1 0.00
524 1 0.00
527 3 0.00
528 1 0.00
529 115 0.15
530 186 0.25
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (519 bp):
ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGCGTTTTTGTTATACACTTAGTTCATT
TTTTATGTGAAAGCAATCTCGAGACTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGC
AATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACAC
AATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGCAAA
ACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAGTC
GATTGGAACGACACATGCGACCATAGGGAAACATTCTAAAATTTGGGCCTACATGCCCGTGTGGC
CCACACGTCCAAAATAGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACAACC
ATCACATGACACACGACCTACACAGCTAGGCGCCGTGGCGTCGACACGCCCGTGTGGCGTCAAC
Found at i:48562243 original size:19 final size:19
Alignment explanation
Indices: 48562219--48562263 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
48562209 ACGGCTAGGC
48562219 ACACGCCCGTGTGGCGTCG
1 ACACGCCCGTGTGGCGTCG
48562238 ACACGCCCGTGTGGCGTCG
1 ACACGCCCGTGTGGCGTCG
48562257 ACACGCC
1 ACACGCC
48562264 AGATTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.40, G:0.33, T:0.13
Consensus pattern (19 bp):
ACACGCCCGTGTGGCGTCG
Found at i:48562743 original size:10 final size:10
Alignment explanation
Indices: 48562719--48562762 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
48562709 GATTTTGGGG
*
48562719 AAAACAAAAAC
1 AAAAC-AAAAT
48562730 AAAACAAAAT
1 AAAACAAAAT
*
48562740 AAAATAAAAT
1 AAAACAAAAT
48562750 -AAACAAAAT
1 AAAACAAAAT
48562759 AAAA
1 AAAA
48562763 ATAACATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 16 0.55
11 5 0.17
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:48566780 original size:17 final size:16
Alignment explanation
Indices: 48566741--48566783 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
48566731 TTAAAATGTT
48566741 TTACTTTC-TTTGAAA
1 TTACTTTCATTTGAAA
48566756 TCTAACTTTCATTTGAATA
1 T-T-ACTTTCATTTGAA-A
48566775 TTACTTTCA
1 TTACTTTCA
48566784 CATAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 13 0.54
18 7 0.29
19 2 0.08
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (16 bp):
TTACTTTCATTTGAAA
Found at i:48567803 original size:22 final size:21
Alignment explanation
Indices: 48567752--48567835 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 21
48567742 TTATTTTCAC
*
48567752 TAAAAAATTCAATATCAATATCCT
1 TAAAAAATTC--TCTCAAT-TCCT
*
48567776 TCAAAAATTCTCTCAATTCCGT
1 TAAAAAATTCTCTCAATTCC-T
48567798 TAAAAAATTCTCTCAAATTCCT
1 TAAAAAATTCTCTC-AATTCCT
**
48567820 TTCAAAATTCTCTCAA
1 TAAAAAATTCTCTCAA
48567836 ACTCTCAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
21 5 0.09
22 33 0.62
23 6 0.11
24 9 0.17
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (21 bp):
TAAAAAATTCTCTCAATTCCT
Found at i:48567842 original size:30 final size:30
Alignment explanation
Indices: 48567807--48567865 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
48567797 TTAAAAAATT
* *
48567807 CTCTCAAATTCCTTTCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
48567837 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
48567866 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:48567876 original size:21 final size:22
Alignment explanation
Indices: 48567837--48567878 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48567827 TTCTCTCAAA
48567837 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
48567859 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
48567879 ATATCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:48570298 original size:28 final size:28
Alignment explanation
Indices: 48570253--48570565 Score: 378
Period size: 28 Copynumber: 11.7 Consensus size: 28
48570243 TTTTGACATT
* *
48570253 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
*
48570281 ATATAATTAAAAACCCTAA-C----TTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* **
48570304 ACTTAATTAAAAA-CCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570331 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570359 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570382 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570410 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
*
48570433 ATTTAATTAAAAACCGTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570461 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570489 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
48570517 A-TTAA--AAACCCTAACCCTAACCTAATTTA
1 ATTTAATTAAA----AACCCTAACCTAATTTA
48570546 A-TTAATGTAAAAACCCTAAC
1 ATTTAAT-TAAAAACCCTAAC
48570566 ATAACTCAGC
Statistics
Matches: 252, Mismatches: 10, Indels: 46
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.02
23 56 0.22
24 2 0.01
25 5 0.02
26 2 0.01
27 21 0.08
28 136 0.54
29 22 0.09
32 3 0.01
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAATTTA
Found at i:48570299 original size:23 final size:23
Alignment explanation
Indices: 48570272--48570531 Score: 241
Period size: 23 Copynumber: 10.3 Consensus size: 23
48570262 AAAACCCTAA
*
48570272 CCTAACTTAATATAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
*
48570295 CCTAACTTAACTTAATTAAAAACC
1 CCTAACTTAATTTAATTAAAAA-C
*
48570319 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACTTAATTTAATTAAAAAC
48570345 CCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTTAATTAAAAAC
*
48570373 CCTAACATAATTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
48570396 CCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTTAATTAAAAAC
*
48570424 CCTAACATAATTTAATTAAAAACC
1 CCTAACTTAATTTAATTAAAAA-C
*
48570448 GTAACCTAATTTAATTTAATTAAAAAC
1 ----CCTAACTTAATTTAATTAAAAAC
48570475 CCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTTAATTAAAAAC
*
48570503 CCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTTAATTAAAAAC
48570526 CCTAAC
1 CCTAAC
48570532 CCTAACCTAA
Statistics
Matches: 201, Mismatches: 12, Indels: 48
0.77 0.05 0.18
Matches are distributed among these distances:
23 88 0.44
24 4 0.02
26 1 0.00
27 24 0.12
28 84 0.42
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (23 bp):
CCTAACTTAATTTAATTAAAAAC
Found at i:48570396 original size:51 final size:51
Alignment explanation
Indices: 48570272--48570519 Score: 342
Period size: 51 Copynumber: 4.8 Consensus size: 51
48570262 AAAACCCTAA
* * * *
48570272 CCTAACTTAATATAATTAAAAACCCTAACTTAACTTAA-TTAA--AAACCTAA-
1 CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAA---AAC
*
48570322 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
48570373 CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
1 CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
*
48570424 CCTAACATAATTTAATTAAAAACCGTAACCTAATTTAATTTAATTAAAAAC
1 CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
48570475 CCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAATT
1 CCTAA-C--A--TAATTTAATTAAAAACCCTAACCTAATTTAATT
48570520 AAAAACCCTA
Statistics
Matches: 182, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
50 36 0.20
51 109 0.60
52 1 0.01
53 3 0.02
54 1 0.01
56 32 0.18
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (51 bp):
CCTAACATAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
Found at i:48570520 original size:51 final size:51
Alignment explanation
Indices: 48570253--48570550 Score: 321
Period size: 51 Copynumber: 5.7 Consensus size: 51
48570243 TTTTGACATT
* *
48570253 ATTTGATTAAAAACCCTAACCTAACTTAATATAATTAAAAACCCTAA-CTTA
1 ATTTAATTAAAAACCCTAACCTAAC-TAATTTAATTAAAAACCCTAACCTTA
*
48570304 ACTTAATTAAAAA-CCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAA-CTAATTTAATTAAAAACCCTAACC----TTA
48570359 ATTTAATTAAAAACCCTAA-C--A-TAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTAATTTAATTAAAAACCCTAACC----TTA
*
48570410 ATTTAATTAAAAACCCTAA-C--A-TAATTTAATTAAAAACCGTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTAATTTAATTAAAAACCCTAACC----TTA
*
48570461 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACC-TA
1 ATTTAATTAAAAACCCTAACCTAA-CTAATTTAATTAAAAACCCTAACCTTA
48570512 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAA
1 ATTTAATTAAAAACCCTAA-CCTAA-CTAATTTAATTAA
48570551 TGTAAAAACC
Statistics
Matches: 226, Mismatches: 8, Indels: 25
0.87 0.03 0.10
Matches are distributed among these distances:
50 30 0.13
51 133 0.59
52 18 0.08
53 1 0.00
54 1 0.00
55 16 0.07
56 27 0.12
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.33
Consensus pattern (51 bp):
ATTTAATTAAAAACCCTAACCTAACTAATTTAATTAAAAACCCTAACCTTA
Found at i:48574028 original size:123 final size:124
Alignment explanation
Indices: 48573769--48574031 Score: 386
Period size: 123 Copynumber: 2.1 Consensus size: 124
48573759 ACGAAGGCGG
* *
48573769 GATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAA
1 GATTTCACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCGAA
* * * * **
48573834 ATCGGGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGATATCAGC
66 ATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGATAGAAGC
* * *
48573893 GATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAA-TATTTCTTACATGACC-ACTATAGCGA
1 GATTTCACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCGA
*
48573956 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
65 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGATAGAAGC
*
48574016 GATTTCCCACTATTTG
1 GATTTCACACTATTTG
48574032 ACCAGATACA
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
123 75 0.60
124 34 0.27
125 15 0.12
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
GATTTCACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCGAA
ATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGATAGAAGC
Found at i:48574777 original size:19 final size:20
Alignment explanation
Indices: 48574741--48574788 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
48574731 TAAAATAAGC
*
48574741 TTAAAAATCAAAACA-TTTA
1 TTAAAAATTAAAACATTTTA
48574760 TTAAAAATTATAAA-ATTTTA
1 TTAAAAATTA-AAACATTTTA
*
48574780 TAAAAAATT
1 TTAAAAATT
48574789 TCAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATTAAAACATTTTA
Found at i:48577384 original size:19 final size:19
Alignment explanation
Indices: 48577360--48577397 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48577350 GAATTCATAG
48577360 CTCGAAGACATGGGTAAAT
1 CTCGAAGACATGGGTAAAT
48577379 CTCGAAGACATGGGTAAAT
1 CTCGAAGACATGGGTAAAT
48577398 TATATACTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
CTCGAAGACATGGGTAAAT
Found at i:48577957 original size:57 final size:59
Alignment explanation
Indices: 48577869--48577996 Score: 170
Period size: 57 Copynumber: 2.2 Consensus size: 59
48577859 AAATGAATAG
* ** *
48577869 AATGATAAAATAGAGAAATAAGAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAA
1 AATGA-AAAATGGAGAAATAAGAAACATTTGGAAATGAACATGATCTTCTCCAAAATGAA
* * *
48577929 AAT-AAAAATGGAGAAAT-AGAATCATTTGGAAATGAACGTGGTCTTCTCCAAAATGAA
1 AATGAAAAATGGAGAAATAAGAAACATTTGGAAATGAACATGATCTTCTCCAAAATGAA
48577986 AATGAAAAATG
1 AATGAAAAATG
48577997 AATTTATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
57 37 0.62
58 19 0.32
59 1 0.02
60 3 0.05
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (59 bp):
AATGAAAAATGGAGAAATAAGAAACATTTGGAAATGAACATGATCTTCTCCAAAATGAA
Found at i:48583593 original size:42 final size:42
Alignment explanation
Indices: 48583534--48583614 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
48583524 TGCCATACGT
** *
48583534 CCAGGCACACGGGTGTGTGTTTAGGCCGTTTGATCCACATGG
1 CCAGGCACACGGGTGTGTGTCAAGGCCGTTTGAGCCACATGG
*
48583576 CCAGGCACACTGGTGTGTGTCAAGGCCGTTTGAGCCACA
1 CCAGGCACACGGGTGTGTGTCAAGGCCGTTTGAGCCACA
48583615 CGGTCATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (42 bp):
CCAGGCACACGGGTGTGTGTCAAGGCCGTTTGAGCCACATGG
Found at i:48586614 original size:19 final size:19
Alignment explanation
Indices: 48586572--48586641 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
48586562 AATACTAACG
48586572 AAAAGAATAAGAATAATAAGAAT
1 AAAA-AATAAGAATAAT---AAT
48586595 AAAAAATAAGAATAATAAT
1 AAAAAATAAGAATAATAAT
** * *
48586614 AGTAAAT-AGAAAAATAAA
1 AAAAAATAAGAATAATAAT
48586632 AATAAAATAA
1 AA-AAAATAA
48586642 ATCAAACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 10 0.26
19 12 0.31
20 1 0.03
22 12 0.31
23 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.19
Consensus pattern (19 bp):
AAAAAATAAGAATAATAAT
Found at i:48587900 original size:136 final size:134
Alignment explanation
Indices: 48587658--48587925 Score: 428
Period size: 136 Copynumber: 2.0 Consensus size: 134
48587648 ACAAGCTTAG
** ** *
48587658 AAGCTTGTTGTTAGTTTGGCGTGGTGAAAGTTGGTATTGAGGGGAGTGTTGAATATCAACACAAC
1 AAGCTTGCCGTTAGTTTGGCAAGGTGAAAGTTGGTATTGAGGGGAATGTTGAATATCAACACAAC
48587723 TTATTGAAAAATATATTTTGACAATGTTTATATTGTAAAAAGTTTAACTTTGGTGAGTAGTTTTT
66 TTATTGAAAAATATATTTTGACAATGTTTATATTGTAAAAAGTTTAACTTTGGTGAGTAGTTTTT
48587788 AGCT
131 AGCT
* *
48587792 AAGCTTGCCGTTAGTTTGGCAAGGTGAAAGTTGGTGTTGAAGGGGAATGTTGAATATTAACACCA
1 AAGCTTGCCGTTAGTTTGGCAAGGTGAAAGTTGGTATTG-AGGGGAATGTTGAATATCAACA-CA
* * *
48587857 ACTTATTGAAAAATATATTTTGTCAATGTTTATATTGTAAAAAGTTTAATTTTGTTGAGTAGTTT
64 ACTTATTGAAAAATATATTTTGACAATGTTTATATTGTAAAAAGTTTAACTTTGGTGAGTAGTTT
48587922 TTAG
129 TTAG
48587926 GTACTAAGTT
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
134 34 0.28
135 20 0.16
136 68 0.56
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (134 bp):
AAGCTTGCCGTTAGTTTGGCAAGGTGAAAGTTGGTATTGAGGGGAATGTTGAATATCAACACAAC
TTATTGAAAAATATATTTTGACAATGTTTATATTGTAAAAAGTTTAACTTTGGTGAGTAGTTTTT
AGCT
Found at i:48597294 original size:19 final size:20
Alignment explanation
Indices: 48597256--48597295 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48597246 TTATAATTGC
**
48597256 TTTTATGATATTTTTTATTT
1 TTTTATGATATTTTAAATTT
48597276 TTTTATGA-ATTTTAAATTT
1 TTTTATGATATTTTAAATTT
48597295 T
1 T
48597296 GTAATGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATGATATTTTAAATTT
Found at i:48597816 original size:20 final size:20
Alignment explanation
Indices: 48597793--48597832 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48597783 CTATTCAAAC
*
48597793 AATATTACTTGAATAATTAT
1 AATATTACATGAATAATTAT
*
48597813 AATATTAGATGAATAATTAT
1 AATATTACATGAATAATTAT
48597833 GGGTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (20 bp):
AATATTACATGAATAATTAT
Found at i:48598426 original size:28 final size:28
Alignment explanation
Indices: 48598392--48598447 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
48598382 GTTAGGGACC
*
48598392 AAATTTTAAAAAATTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
48598420 AAATTTTAAAAAACTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
48598448 TTTAAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (28 bp):
AAATTTTAAAAAACTAACAAATTTAGGG
Found at i:48599182 original size:11 final size:12
Alignment explanation
Indices: 48599119--48599183 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
48599109 AACTAATCCT
48599119 CTCTCAAATTTC
1 CTCTCAAATTTC
48599131 CTCTC-AATTTC
1 CTCTCAAATTTC
*
48599142 CTCTC-AATTTG
1 CTCTCAAATTTC
48599153 CTCTCAAA-TTC
1 CTCTCAAATTTC
48599164 CT-TCCAAATTT-
1 CTCT-CAAATTTC
48599175 CTCTCAAAT
1 CTCTCAAAT
48599184 CCATAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.02
11 36 0.77
12 10 0.21
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Done.