Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 143 of 332
Found at i:47004121 original size:26 final size:26
Alignment explanation
Indices: 47004040--47004122 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
47004030 ATGGAGGAAG
* *
47004040 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGGCTATGCCACATT
* * * * *
47004066 CACTGTTATTAGTGGCTATGCCATAAT
1 TACTG-TACTGGTGGCTATGCCACATT
47004093 TACTGATACTGGTGGCT-TGCCACATT
1 TACTG-TACTGGTGGCTATGCCACATT
47004119 TACT
1 TACT
47004123 TTTTCTGGAA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
26 15 0.35
27 28 0.65
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACATT
Found at i:47004347 original size:33 final size:33
Alignment explanation
Indices: 47004310--47004408 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
47004300 TAGGCCCACA
*
47004310 CTGTTACTGTATAGGGCTAAAGCTCAGACTGTT
1 CTGTTACTGTATAGGGCTAAAGCCCAGACTGTT
* * *
47004343 CTGTTACTATATAGGGCTAAGGCCCAGACTGTA
1 CTGTTACTGTATAGGGCTAAAGCCCAGACTGTT
* * **
47004376 CTGATACTGGATAGGGCTCGAGCCCAGACTGTT
1 CTGTTACTGTATAGGGCTAAAGCCCAGACTGTT
47004409 ACTATATGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (33 bp):
CTGTTACTGTATAGGGCTAAAGCCCAGACTGTT
Found at i:47006356 original size:23 final size:23
Alignment explanation
Indices: 47006329--47006377 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
47006319 TGAGTATGAA
*
47006329 TGTATAAATGTATGTAAATGATG
1 TGTATAAATGTATGTAAATGAGG
*
47006352 TGTATAAATGTATGTGAATGAGG
1 TGTATAAATGTATGTAAATGAGG
47006375 TGT
1 TGT
47006378 GTTATTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTATAAATGTATGTAAATGAGG
Found at i:47007001 original size:52 final size:51
Alignment explanation
Indices: 47006912--47007014 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
47006902 TTTCTTAAAA
* * * * **
47006912 TTTTTCATATGATGTCATAACCCACTAGTTACAGTCTTACATGATATGGTC
1 TTTTTCATATGATGCCATAACCAACCAATTACAGTCTTACACAATATGGTC
*
47006963 TTTTTCCATATGATGCCATAACCAACCAATTACGGTCTTACACAATATGGTC
1 TTTTT-CATATGATGCCATAACCAACCAATTACAGTCTTACACAATATGGTC
47007015 CTTTAGTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 5 0.11
52 39 0.89
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (51 bp):
TTTTTCATATGATGCCATAACCAACCAATTACAGTCTTACACAATATGGTC
Found at i:47008264 original size:15 final size:16
Alignment explanation
Indices: 47008244--47008275 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47008234 CACATCCATG
47008244 AAATTAG-GTTAGAAA
1 AAATTAGAGTTAGAAA
47008259 AAATTAGAGTTAGAAA
1 AAATTAGAGTTAGAAA
47008275 A
1 A
47008276 CCAAGAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
AAATTAGAGTTAGAAA
Found at i:47008953 original size:22 final size:22
Alignment explanation
Indices: 47008928--47008976 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
47008918 TAAACCAAAA
*
47008928 CACCACCCAAAAATC-ACAATAT
1 CACCACCCAAAAACCAAC-ATAT
*
47008950 CACCACCCAACAACCAACATAT
1 CACCACCCAAAAACCAACATAT
47008972 CACCA
1 CACCA
47008977 TTATTCAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (22 bp):
CACCACCCAAAAACCAACATAT
Found at i:47010432 original size:34 final size:34
Alignment explanation
Indices: 47010387--47010461 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
47010377 TAAACAGTCG
* *
47010387 GGGCCTAAGCCC-TTATCAATAGCAATATCAGTAT
1 GGGCCTTAGCCCATTA-CAATAACAATATCAGTAT
** *
47010421 GGGCCTTAGCCCATTACGGTAACAATATCAGTGT
1 GGGCCTTAGCCCATTACAATAACAATATCAGTAT
47010455 GGGCCTT
1 GGGCCTT
47010462 CTCCCAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 32 0.91
35 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (34 bp):
GGGCCTTAGCCCATTACAATAACAATATCAGTAT
Found at i:47018233 original size:34 final size:34
Alignment explanation
Indices: 47018192--47018280 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 34
47018182 TAGTAGCAAT
* **
47018192 ATCAGTGTGGGCCTTAGCCTATTACGGTAACAGC
1 ATCAGTGTGGGCCTTAGCCCATTACAATAACAGC
* * *
47018226 ATTAGTGTGGCCCTTAGCCCATTACAATAACAGT
1 ATCAGTGTGGGCCTTAGCCCATTACAATAACAGC
47018260 ATCAGTGTGGGCCTTAGCCCA
1 ATCAGTGTGGGCCTTAGCCCA
47018281 ATTCAGTACA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCATTACAATAACAGC
Found at i:47024575 original size:25 final size:25
Alignment explanation
Indices: 47024540--47024597 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
47024530 CAGCACGTAT
47024540 GAGCTTACCAACTTGTAGCTCGTGA
1 GAGCTTACCAACTTGTAGCTCGTGA
* *
47024565 GAGCTTTCCAATTTGTAGCTCGTGA
1 GAGCTTACCAACTTGTAGCTCGTGA
47024590 GAGCTTAC
1 GAGCTTAC
47024598 TAATTCTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTACCAACTTGTAGCTCGTGA
Found at i:47024602 original size:25 final size:25
Alignment explanation
Indices: 47024540--47024662 Score: 97
Period size: 25 Copynumber: 4.9 Consensus size: 25
47024530 CAGCACGTAT
* * *
47024540 GAGCTTACCAACTTGTAGCTCGTGA
1 GAGCTTACTAATTTATAGCTCGTGA
* * *
47024565 GAGCTTTCCAATTTGTAGCTCGTGA
1 GAGCTTACTAATTTATAGCTCGTGA
* *
47024590 GAGCTTACTAATTCT-CAGCTCG-AA
1 GAGCTTACTAATT-TATAGCTCGTGA
* *
47024614 TGAGCTTATTGATTTATAGCTCGTGA
1 -GAGCTTACTAATTTATAGCTCGTGA
* * *
47024640 GAGCATACTGATTCATAGCTCGT
1 GAGCTTACTAATTTATAGCTCGT
47024663 ATGAGCATAC
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
24 2 0.02
25 77 0.95
26 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTACTAATTTATAGCTCGTGA
Found at i:47024619 original size:50 final size:50
Alignment explanation
Indices: 47024565--47024668 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
47024555 TAGCTCGTGA
* *
47024565 GAGCTT-TCCAATTTGTAGCTCGTGAGAGCTTACTAATTC-TCAGCTCGAAT
1 GAGCTTAT-CAATTTATAGCTCGTGAGAGCATACTAATTCAT-AGCTCGAAT
** * *
47024615 GAGCTTATTGATTTATAGCTCGTGAGAGCATACTGATTCATAGCTCGTAT
1 GAGCTTATCAATTTATAGCTCGTGAGAGCATACTAATTCATAGCTCGAAT
47024665 GAGC
1 GAGC
47024669 ATACATGTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
GAGCTTATCAATTTATAGCTCGTGAGAGCATACTAATTCATAGCTCGAAT
Found at i:47024668 original size:25 final size:25
Alignment explanation
Indices: 47024580--47024672 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 25
47024570 TTCCAATTTG
* *
47024580 TAGCTCGTGAGAGCTTACTAATTC-
1 TAGCTCGTGAGAGCATACTGATTCA
* * * *
47024604 TCAGCTCG-AATGAGCTTATTGATTTA
1 T-AGCTCGTGA-GAGCATACTGATTCA
47024630 TAGCTCGTGAGAGCATACTGATTCA
1 TAGCTCGTGAGAGCATACTGATTCA
47024655 TAGCTCGT-ATGAGCATAC
1 TAGCTCGTGA-GAGCATAC
47024673 ATGTACAAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.05
25 51 0.91
26 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TAGCTCGTGAGAGCATACTGATTCA
Found at i:47030974 original size:17 final size:18
Alignment explanation
Indices: 47030943--47030979 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
47030933 GTTGGGCTGA
47030943 CATGAGCCGTGTGGGCCC
1 CATGAGCCGTGTGGGCCC
47030961 CATGAGCC-TGTGGGCCC
1 CATGAGCCGTGTGGGCCC
47030978 CA
1 CA
47030980 CACAGGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.14, C:0.35, G:0.35, T:0.16
Consensus pattern (18 bp):
CATGAGCCGTGTGGGCCC
Found at i:47033129 original size:13 final size:13
Alignment explanation
Indices: 47033111--47033136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47033101 AAGCAATCGA
47033111 ACACGAGCGTGTC
1 ACACGAGCGTGTC
47033124 ACACGAGCGTGTC
1 ACACGAGCGTGTC
47033137 CCTGTCGAGC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGAGCGTGTC
Found at i:47038009 original size:40 final size:40
Alignment explanation
Indices: 47037961--47038071 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
47037951 ACAATGTTTG
*
47037961 GCACTAAGTGTGCGATTTGAAATAGCTTTGGCTATAAATA
1 GCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
* * * ** *
47038001 GCTCTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
* *
47038041 GCACTAAGTGTGCGATATTGAGATAGTTTCG
1 GCACTAAGTGTGCGAT-TTGAAATAGCTTCG
47038072 ATTCAATATG
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 47 0.81
41 11 0.19
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
Found at i:47045759 original size:24 final size:25
Alignment explanation
Indices: 47045745--47045795 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
47045735 GGTGTATGAG
47045745 ATAGATAAACCTAT-GTGGTTGATA
1 ATAGATAAACCTATGGTGGTTGATA
47045769 ATAGATAAACCTAT-GTGGTTGATA
1 ATAGATAAACCTATGGTGGTTGATA
47045793 ATA
1 ATA
47045796 TTGTGTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (25 bp):
ATAGATAAACCTATGGTGGTTGATA
Found at i:47052875 original size:47 final size:47
Alignment explanation
Indices: 47052780--47053269 Score: 811
Period size: 47 Copynumber: 10.4 Consensus size: 47
47052770 CAGCCAAGAC
*
47052780 AGTGTATATATGTGATAAGGCCT-ATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47052826 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47052873 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47052920 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47052967 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47053014 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47053063 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47053110 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47053157 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
47053204 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47053251 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
47053270 TCCCGAAGGG
Statistics
Matches: 419, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
46 23 0.05
47 350 0.84
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47053063 original size:190 final size:190
Alignment explanation
Indices: 47052780--47053269 Score: 810
Period size: 190 Copynumber: 2.6 Consensus size: 190
47052770 CAGCCAAGAC
*
47052780 AGTGTATATATGTGATAAGGCCT-ATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
* *
47052842 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
66 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
*
47052907 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47052967 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
47053032 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
66 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
47053097 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47053157 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAC
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
* * * * * * * * *
47053220 AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47053270 TCCCGAAGGG
Statistics
Matches: 285, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
187 23 0.08
188 78 0.27
190 184 0.65
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
TGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47053155 original size:237 final size:236
Alignment explanation
Indices: 47052784--47053269 Score: 832
Period size: 237 Copynumber: 2.1 Consensus size: 236
47052774 CAAGACAGTG
47052784 TATATATGTGATAAGGCCTATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 TATATATGTGATAAGGCCTATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * *
47052849 AATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAA
47052914 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * *
47052979 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
196 TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
47053020 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCT-ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
47053085 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
65 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGA
*
47053150 ATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
130 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
47053215 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
195 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
47053257 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
47053270 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 20 0.08
237 206 0.87
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (236 bp):
TATATATGTGATAAGGCCTATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
Found at i:47053444 original size:37 final size:37
Alignment explanation
Indices: 47053388--47053466 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47053378 CCGAGCTCTA
* *
47053388 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
47053425 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47053462 AAGAC
1 AAGAC
47053467 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47062591 original size:40 final size:40
Alignment explanation
Indices: 47062476--47062681 Score: 251
Period size: 39 Copynumber: 5.2 Consensus size: 40
47062466 TGGATGATAA
* * * * *
47062476 CCGGGCTCAGTCCCGAAGGCATTTGTGCTACTGACTAATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
* * *
47062517 CC-GGCTAAG-CTCGAAGGCATTTGTGAGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47062555 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47062594 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
47062634 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
47062674 CC-GGCTAA
1 CCGGGCTAA
47062682 ATTCGAAGGT
Statistics
Matches: 145, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 5 0.03
39 72 0.50
40 66 0.46
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47062611 original size:79 final size:79
Alignment explanation
Indices: 47062472--47062656 Score: 248
Period size: 79 Copynumber: 2.3 Consensus size: 79
47062462 TATTTGGATG
* * * * *
47062472 ATAACCGGGCTCAGTCCCGAAGGCATTTGTGCTACTGACTAATTTCCGGCTAAGCTCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGACTGACTAATTACCGGCTAAGCCCGAAGGCAT
47062537 TTGTGAGAGCTACT
66 TTGTGAGAGCTACT
* * *
47062551 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-A-TACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGACTGACTAATTACC-GGCTAAG-CCCGAAGGC
* *
47062614 ATTTGTGCGAGTTACT
64 ATTTGTGAGAGCTACT
47062630 ATAACCGGGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATT
47062657 TGAGCAAGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
77 3 0.03
78 8 0.09
79 82 0.88
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGACTGACTAATTACCGGCTAAGCCCGAAGGCAT
TTGTGAGAGCTACT
Found at i:47062672 original size:79 final size:77
Alignment explanation
Indices: 47062472--47062681 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 77
47062462 TATTTGGATG
* * * * *
47062472 ATAACCGGGCTCAGTCCCGAAGGCATTTGTGCTACT-GACTAATTTCCGGCTAAGCTCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CT-A-TACCGGCTAAGCCCGAAGGCA
47062536 TTTGTGAGAGCTACT
63 TTTGTGAGAGCTACT
* * *
47062551 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATACC-GGCTAAG-CCCGAAGGCA
* *
47062615 TTTGTGCGAGTTACT
63 TTTGTGAGAGCTACT
*
47062630 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATA-CCGGCTAA
47062682 ATTCGAAGGT
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 10 0.09
79 96 0.86
80 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (77 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATACCGGCTAAGCCCGAAGGCATTT
GTGAGAGCTACT
Found at i:47070578 original size:40 final size:40
Alignment explanation
Indices: 47070465--47070679 Score: 240
Period size: 40 Copynumber: 5.4 Consensus size: 40
47070455 GATGATAACT
* * * *
47070465 GGGCTAAGTCCCGAAGGCATTTATGCTACTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCC
** *
47070505 GGGCTAAG-CCTAAAGGCATTTGTGCAAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
* * *
47070544 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
** *
47070584 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
*
47070624 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCC
* *
47070664 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
47070680 TACTTGGTTT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 46 0.30
40 105 0.70
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
Found at i:47070677 original size:119 final size:119
Alignment explanation
Indices: 47070459--47070679 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 119
47070449 TATTTGGATG
* * *
47070459 ATAACTGGGCTAAGTCCCGAAGGCATTTATGCTACTGACTAATTCCGGGCTAAGCCTAAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTACTGACTAATACCGGGCTAAGCCCAAAGGCAT
* *
47070524 TTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
66 TTGAGCAAGCTACTATATCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTACT
* * * *
47070578 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATAACCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCT-ACTGACTAAT-ACCGGGCTAAG-CCCAAAGG
*
47070641 CATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
63 CATTTGAGCAAGCTA-CTATATCCGGGCTAAATCCCGAAGG
47070680 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 60 0.68
120 25 0.28
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTACTGACTAATACCGGGCTAAGCCCAAAGGCAT
TTGAGCAAGCTACTATATCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTACT
Found at i:47076075 original size:15 final size:15
Alignment explanation
Indices: 47076050--47076083 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
47076040 AAGTGATAAA
47076050 AAAAGTACAAAAAAAT
1 AAAAGTAC-AAAAAAT
47076066 AAAA-TACAAAAAAT
1 AAAAGTACAAAAAAT
47076080 AAAA
1 AAAA
47076084 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 3 0.17
16 4 0.22
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAAGTACAAAAAAT
Found at i:47076084 original size:15 final size:15
Alignment explanation
Indices: 47076047--47076084 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
47076037 AAAAAGTGAT
47076047 AAAAAAAGTACAAAA
1 AAAAAAAGTACAAAA
47076062 AAATAAAA-TACAAAA
1 AAA-AAAAGTACAAAA
47076077 AATAAAAA
1 AA-AAAAA
47076085 AAATAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAAGTACAAAA
Found at i:47086082 original size:22 final size:22
Alignment explanation
Indices: 47086056--47086099 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47086046 TCAAAAACGT
47086056 AAAAA-TTATCAAAAATCAAAGC
1 AAAAACTTA-CAAAAATCAAAGC
**
47086078 AAAAACTTACCTAAATCAAAGC
1 AAAAACTTACAAAAATCAAAGC
47086100 TTGCAAGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.18
Consensus pattern (22 bp):
AAAAACTTACAAAAATCAAAGC
Found at i:47087851 original size:33 final size:33
Alignment explanation
Indices: 47087814--47087879 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
47087804 TGTACTATTC
47087814 GGATGCATAGATAACCGACTATTGTGAGCTTTA
1 GGATGCATAGATAACCGACTATTGTGAGCTTTA
*
47087847 GGATGCATAGATAACTGACTATTGTGAGCTTTA
1 GGATGCATAGATAACCGACTATTGTGAGCTTTA
47087880 CTCAAAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (33 bp):
GGATGCATAGATAACCGACTATTGTGAGCTTTA
Found at i:47099806 original size:40 final size:40
Alignment explanation
Indices: 47099728--47099839 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
47099718 ACCCAAGTAT
* **
47099728 CTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCATGAATGC
*
47099767 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATGAATGC
47099807 CTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCA
47099840 CAATCTGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
39 12 0.18
40 52 0.80
41 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATGAATGC
Found at i:47105147 original size:40 final size:40
Alignment explanation
Indices: 47105069--47105249 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
47105059 ACCCAAGTAT
* *
47105069 CTTCGGGATTTAG-CCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * * **
47105108 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
47105148 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
47105188 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
47105228 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
47105250 CATCCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 11 0.09
40 116 0.91
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:47112166 original size:27 final size:27
Alignment explanation
Indices: 47112136--47112215 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 27
47112126 AGTACTCTCG
*
47112136 ATTTACAGAATTACCATTTTACCCTC-A
1 ATTTACA-AATTACCGTTTTACCCTCAA
*
47112163 ATTTACAAAATTATCGTTTTACCCTCAA
1 ATTTAC-AAATTACCGTTTTACCCTCAA
47112191 ATTTTA-AAATTACCGTTTTACCCTC
1 A-TTTACAAATTACCGTTTTACCCTC
47112216 GAATGAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 40 0.85
28 3 0.06
29 4 0.09
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (27 bp):
ATTTACAAATTACCGTTTTACCCTCAA
Found at i:47112662 original size:27 final size:27
Alignment explanation
Indices: 47112617--47112915 Score: 289
Period size: 27 Copynumber: 11.1 Consensus size: 27
47112607 ACAAAATTTT
* *
47112617 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGA
**
47112644 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGA
** * *
47112671 TTTGTAAAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACCGTTTTACCCTCGA
* *
47112698 TTTACAGAATTACTAG-TTTACCCTC-A
1 TTTACAAAATTAC-CGTTTTACCCTCGA
*
47112724 GTTTACAAAATTATCGTTTTACCCTCGA
1 -TTTACAAAATTACCGTTTTACCCTCGA
* *
47112752 TTTACAGAACTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGA
*
47112779 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGA
** * * *
47112806 TTTGTAAAATTATCGTTTTACCATTGA
1 TTTACAAAATTACCGTTTTACCCTCGA
* * * * *
47112833 TTTATAGAATTACTGGTTTATCCTC-A
1 TTTACAAAATTACCGTTTTACCCTCGA
*
47112859 GTTTACAAAATTATCGTTTTACCCTCGA
1 -TTTACAAAATTACCGTTTTACCCTCGA
* ** *
47112887 TTTACAGAATTACTATTTTACCCTTGA
1 TTTACAAAATTACCGTTTTACCCTCGA
47112914 TT
1 TT
47112916 GTGAAATTAT
Statistics
Matches: 223, Mismatches: 43, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
26 3 0.01
27 217 0.97
28 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAAAATTACCGTTTTACCCTCGA
Found at i:47112950 original size:27 final size:27
Alignment explanation
Indices: 47112920--47113096 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
47112910 TTGATTGTGA
*
47112920 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
47112947 AATTACCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
47112974 AATTA-CTAAAATACCCTTATAAGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
47113001 AATTATCGAAATACCCCCGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47113028 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47113055 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
47113082 AATTATGGAGATACC
1 AATTATCGAAATACC
47113097 TTTGTGGGGT
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:47113354 original size:27 final size:27
Alignment explanation
Indices: 47113316--47113368 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
47113306 GAGGAAGCGT
*
47113316 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGACTCTGCCACAATATCTGTA
*
47113343 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGACTCTGCCACAATATCTGT
47113369 TGACCGATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAATATCTGTA
Found at i:47113463 original size:22 final size:22
Alignment explanation
Indices: 47113431--47113489 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
47113421 CCCGTTATTA
*
47113431 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
47113453 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
47113475 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
47113490 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:47115495 original size:40 final size:40
Alignment explanation
Indices: 47115395--47115626 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
47115385 TGGATGATAA
* **
47115395 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
47115436 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
47115476 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
47115516 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * *
47115556 CCGGGCTAAGTCCTGAAGGCATTGGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
47115596 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
47115627 AGCTATATCC
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.05
40 137 0.79
41 24 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:47117189 original size:6 final size:6
Alignment explanation
Indices: 47117180--47117311 Score: 89
Period size: 6 Copynumber: 21.8 Consensus size: 6
47117170 TTGCATTCAC
* *
47117180 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
47117229 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* *
47117277 ATTTTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCT
47117312 CATTTTGGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
5 10 0.10
6 80 0.81
7 5 0.05
8 4 0.04
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47117243 original size:30 final size:30
Alignment explanation
Indices: 47117180--47117311 Score: 221
Period size: 30 Copynumber: 4.4 Consensus size: 30
47117170 TTGCATTCAC
*
47117180 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
47117211 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATATTG
47117241 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATATTG
*
47117271 ATTCTGATTTTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATATTG
47117301 ATTCTGATTCT
1 ATTCTGATTCT
47117312 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
30 76 0.78
31 21 0.22
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATATTG
Found at i:47117347 original size:60 final size:60
Alignment explanation
Indices: 47117180--47117349 Score: 202
Period size: 60 Copynumber: 2.8 Consensus size: 60
47117170 TTGCATTCAC
* * *
47117180 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTCATTCTGTTACC-AATTCTGATTCTGTTTCTGATTCTGTTACTAATATTG
* *
47117241 ATTCTGATTCTGATTCTGTTACTAATAT-TGATTCTGATTT-TGATTCTGTTACTAATATTG
1 ATTCTGATTCTCATTCTGTTACCAAT-TCTGATTCTG-TTTCTGATTCTGTTACTAATATTG
* ** *
47117301 ATTCTGATTCTCATTTTGGTT-CCAATTCTGATAATGTTTCTTATTCTGT
1 ATTCTGATTCTCATTCT-GTTACCAATTCTGATTCTGTTTCTGATTCTGT
47117350 AATGGGCTAA
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
59 4 0.04
60 64 0.67
61 27 0.28
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (60 bp):
ATTCTGATTCTCATTCTGTTACCAATTCTGATTCTGTTTCTGATTCTGTTACTAATATTG
Found at i:47118330 original size:49 final size:50
Alignment explanation
Indices: 47118260--47118497 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 50
47118250 TGAGGTCATG
* * *
47118260 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * *
47118309 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* ** *
47118360 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* **
47118410 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT-GGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
47118459 TGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47118498 GCTTCGGCTA
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 74 0.46
50 48 0.30
51 38 0.24
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:47118389 original size:28 final size:28
Alignment explanation
Indices: 47118357--47118440 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
47118347 AACTTCGATC
47118357 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47118385 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
47118407 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47118435 ACGTGT
1 ACGTGT
47118441 ACTAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47121390 original size:20 final size:18
Alignment explanation
Indices: 47121365--47121401 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
47121355 ATTGCTAAGT
47121365 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
47121385 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
47121402 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:47126947 original size:42 final size:43
Alignment explanation
Indices: 47126876--47126956 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
47126866 TTATGCTTTA
*
47126876 CGTGTAAGACCATGTTTGCGACATCGGCATC-ATATTTGATTT
1 CGTGTAAGACCATGTCTGCGACATCGGCATCGATATTTGATTT
* *
47126918 CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTG
1 CGTGTAAGACCATGTCTGCGACA-TCGGCATCGATATTTG
47126957 GTTACATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGCGACATCGGCATCGATATTTGATTT
Found at i:47137043 original size:28 final size:28
Alignment explanation
Indices: 47136989--47137044 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
47136979 ACAAGGGTTT
* *
47136989 TCACACGGCCTGACACATACCCGTGTCCC
1 TCACACGACCTGACACA-ACCCCTGTCCC
47137018 TCACACGACCATGACAC-ACCCCTGTCC
1 TCACACGACC-TGACACAACCCCTGTCC
47137045 TAGCTCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.23, C:0.46, G:0.14, T:0.16
Consensus pattern (28 bp):
TCACACGACCTGACACAACCCCTGTCCC
Found at i:47140061 original size:24 final size:25
Alignment explanation
Indices: 47140034--47140080 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
47140024 AAAGGTAGAT
47140034 AAATAGAT-GAA-AGAGGAGAGGAAA
1 AAATAGATAGAAGAGAGG-GAGGAAA
*
47140058 AAATATATAGAAGAGAGGGAGGA
1 AAATAGATAGAAGAGAGGGAGGA
47140081 GAGGACGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.34, T:0.11
Consensus pattern (25 bp):
AAATAGATAGAAGAGAGGGAGGAAA
Found at i:47142376 original size:42 final size:43
Alignment explanation
Indices: 47142315--47142432 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 43
47142305 GACTTATGAT
* *
47142315 TTACATGTAAGATCATGTCTAGGACATTGGCATC-ATATTTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGA
*** * *
47142357 TTTTGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGA
*
47142400 TTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACATTGGCAT
47142433 TGTATGAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGA
Found at i:47143898 original size:55 final size:55
Alignment explanation
Indices: 47143834--47143945 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
47143824 ATTATGTGTG
**
47143834 AATGATGTTTATGAATTATTTGTGAAATGTTCCAATTTGGCCGGTAATGCCTCTT
1 AATGATGTTTATGAATTATTTGTGAAATGTTCCAATTTGGCCAATAATGCCTCTT
* ***
47143889 AATGATGTTTGTGAATTATTTGTGAAATGTTTTGATTTGGCCAATAATGCCTCTT
1 AATGATGTTTATGAATTATTTGTGAAATGTTCCAATTTGGCCAATAATGCCTCTT
47143944 AA
1 AA
47143946 CCCTAGTCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (55 bp):
AATGATGTTTATGAATTATTTGTGAAATGTTCCAATTTGGCCAATAATGCCTCTT
Found at i:47150064 original size:44 final size:44
Alignment explanation
Indices: 47150001--47150157 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
47149991 TGTGTTTTCA
*
47150001 TGTAAGACCACGTCTAGGACGTTGGCATCGA-ATTATGATTTATG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATATT-TGATTTACG
** * *
47150045 TGTAAGACCGTGTCTAGGACATTGGCATC-ATATTTAATTT-CG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTACG
* * *
47150087 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTTACG
* *
47150130 TGTAAGACCACGTCTGGGTCGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
47150158 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 27 0.29
43 36 0.39
44 30 0.32
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTACG
Found at i:47150135 original size:43 final size:43
Alignment explanation
Indices: 47150013--47150138 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 43
47150003 TAAGACCACG
* * *
47150013 TCTAGGAC-GTTGGCATCGA-ATTATGATTTATGTGTAAGACCGTG
1 TCTAGGACAG-TGGCATCGATATT-TGA-TTACGTGTAAGACCCTA
* * *
47150057 TCTAGGACATTGGCATC-ATATTTAATTTCGTGTAAGACCCTA
1 TCTAGGACAGTGGCATCGATATTTGATTACGTGTAAGACCCTA
* *
47150099 TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
1 TCTAGGACAGTGGCATCGATATTTGATTACGTGTAAGACC
47150139 ACGTCTGGGT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.41
43 22 0.32
44 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TCTAGGACAGTGGCATCGATATTTGATTACGTGTAAGACCCTA
Found at i:47158214 original size:21 final size:21
Alignment explanation
Indices: 47158171--47158216 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47158161 TATATGTGAG
* *
47158171 AAATTTACTTATGCTATGGAT
1 AAATTTACCTATGCTATGAAT
47158192 AAATTTACCTATG-TCATGAAT
1 AAATTTACCTATGCT-ATGAAT
47158213 AAAT
1 AAAT
47158217 ACACTAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATTTACCTATGCTATGAAT
Found at i:47160222 original size:28 final size:28
Alignment explanation
Indices: 47160191--47160246 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
47160181 TTTCTAATTA
* * *
47160191 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
47160219 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
47160247 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:47160708 original size:21 final size:21
Alignment explanation
Indices: 47160684--47160724 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47160674 TTTCTTATAT
*
47160684 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
47160705 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
47160725 AGTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:47160777 original size:15 final size:15
Alignment explanation
Indices: 47160749--47160813 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 15
47160739 GCAAATTACT
47160749 TATTATATTTTTATTA
1 TATTATA-TTTTATTA
*
47160765 TTTTATATTTTATT-
1 TATTATATTTTATTA
*
47160779 TCCTTATATTTTATTCA
1 T-ATTATATTTTATT-A
47160796 TATTATATTATTA-TA
1 TATTATATT-TTATTA
47160811 TAT
1 TAT
47160814 AACTTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 1 0.02
15 23 0.55
16 14 0.33
17 4 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATATTTTATTA
Found at i:47163420 original size:42 final size:41
Alignment explanation
Indices: 47163336--47163495 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 41
47163326 AAGGTTACTA
* * * *
47163336 AGACTATGTGTAAGACCATATC-AGAATATGACATCAATATG
1 AGACTTTGTGTAAGACCATATCTGGGATATGGCATC-ATATG
47163377 AGACTTTGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTTTGTGTAAGACCATATCTGGGATATGGCATC-ATATG
* * * *
47163419 AGATTTTGTGTAAGTCCATAGT-TGGGCTATTGGCATTCATACG
1 AGACTTTGTGTAAGACCATA-TCTGGGATA-TGGCA-TCATATG
** *
47163462 AGA-TTACATGTAAAACCAT-TCTGGGATATGGCAT
1 AGACTT-TGTGTAAGACCATATCTGGGATATGGCAT
47163496 TGGTATGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 27 0.27
42 47 0.47
43 22 0.22
44 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (41 bp):
AGACTTTGTGTAAGACCATATCTGGGATATGGCATCATATG
Found at i:47163691 original size:15 final size:16
Alignment explanation
Indices: 47163665--47163694 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47163655 ATGAACCCTC
47163665 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
47163681 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
47163695 ATAAGACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:47165576 original size:85 final size:85
Alignment explanation
Indices: 47165433--47165604 Score: 299
Period size: 85 Copynumber: 2.0 Consensus size: 85
47165423 GTCCAAGGTT
*
47165433 CAAGCCTCATTGTTCACACTTTTCAATTAATTCTTATGACAATTTTTCCTCATGTTTAATAAGCA
1 CAAGCCTCATTGTTCACACTTTTCAATTAATTATTATGACAATTTTTCCTCATGTTTAATAAGCA
* *
47165498 TTTTTGTCCATCTCTATCAC
66 TTTTAGTCCACCTCTATCAC
*
47165518 CAAGCCTCATTGTTCACACTTTTCAATTAATTATTATGATAATTTTTCCTCATGTTTAATAAGCA
1 CAAGCCTCATTGTTCACACTTTTCAATTAATTATTATGACAATTTTTCCTCATGTTTAATAAGCA
*
47165583 TTTTAGTCCACCTTTATCAC
66 TTTTAGTCCACCTCTATCAC
47165603 CA
1 CA
47165605 TAACTAAGAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (85 bp):
CAAGCCTCATTGTTCACACTTTTCAATTAATTATTATGACAATTTTTCCTCATGTTTAATAAGCA
TTTTAGTCCACCTCTATCAC
Found at i:47169668 original size:40 final size:41
Alignment explanation
Indices: 47169574--47169794 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 41
47169564 TATTCGAATG
*
47169574 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
47169615 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
47169655 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
47169695 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
47169735 ACATCCGGGTTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
47169774 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
47169795 ATTTCTTGAG
Statistics
Matches: 148, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 14 0.09
40 90 0.61
41 29 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:47176393 original size:40 final size:41
Alignment explanation
Indices: 47176299--47176519 Score: 210
Period size: 40 Copynumber: 5.6 Consensus size: 41
47176289 TATTCGAATG
* *
47176299 ATATCCGGGCTAAG-TCCCGAAGACTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
47176340 ATAACTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
47176380 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
47176420 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * *
47176460 ACATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
47176499 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
47176520 ATTTCTTGAG
Statistics
Matches: 147, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.10
39 14 0.10
40 90 0.61
41 27 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:47180441 original size:46 final size:45
Alignment explanation
Indices: 47180389--47180562 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
47180379 TATTTGGGCA
47180389 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* * *
47180435 TCCGAACTCGTTGTGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAAC---G
* * *
47180480 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACG
* *
47180528 -CCAGAGCTCGTTGAGTTGAGTCCGAGTTCAGTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
47180563 AGGAGGGTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 7 0.07
43 4 0.04
45 4 0.04
46 55 0.52
47 23 0.22
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACG
Found at i:47180546 original size:93 final size:93
Alignment explanation
Indices: 47180385--47180555 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
47180375 CGGATATTTG
* *
47180385 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGTG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
47180450 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
* * * *
47180478 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATG-CCAGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
47180542 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
47180556 CAGTTATAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:47194809 original size:66 final size:65
Alignment explanation
Indices: 47194682--47194809 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 65
47194672 TACTATGTGT
* * * *
47194682 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGTCACATGCGTGGTACCAAGTGAAG
47194747 G
65 G
* *
47194748 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTA-GTCACATGCGTGGTACCAAGTG
47194810 TTCACCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
65 4 0.07
66 48 0.89
67 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGTCACATGCGTGGTACCAAGTGAAGG
Found at i:47195201 original size:55 final size:55
Alignment explanation
Indices: 47195135--47195245 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
47195125 AATACAAAGA
47195135 AAGTGTGAAAGAGTGAATTAGCAATAAAACTGTTTTAGACAGTAGCAGTAATGTG
1 AAGTGTGAAAGAGTGAATTAGCAATAAAACTGTTTTAGACAGTAGCAGTAATGTG
47195190 AAGTGTGAAAGAGTGAATTAGCAATAAAACTGTTTTAGACAGTAGCAGTAATGTG
1 AAGTGTGAAAGAGTGAATTAGCAATAAAACTGTTTTAGACAGTAGCAGTAATGTG
47195245 A
1 A
47195246 TTTTGAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (55 bp):
AAGTGTGAAAGAGTGAATTAGCAATAAAACTGTTTTAGACAGTAGCAGTAATGTG
Found at i:47198064 original size:39 final size:40
Alignment explanation
Indices: 47197947--47198209 Score: 320
Period size: 40 Copynumber: 6.6 Consensus size: 40
47197937 CTACTCGTTT
* *
47197947 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
*
47197987 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * *
47198027 CAATGCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
47198066 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
47198106 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * *
47198145 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
47198186 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
47198210 CATCATTCGA
Statistics
Matches: 191, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 66 0.35
40 110 0.58
41 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:47198067 original size:79 final size:79
Alignment explanation
Indices: 47197948--47198209 Score: 350
Period size: 79 Copynumber: 3.3 Consensus size: 79
47197938 TACTCGTTTA
* * * *
47197948 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
47198012 TTTAGTAACTCGCACC
64 TTTAGTAACTCGCACC
*
47198028 AATGCCTTCGGGCTTAGCTCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATT
47198093 TAGTAACTCGCACC
66 TAGTAACTCGCACC
**
47198107 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
* * * *
47198171 ATGGTCACTTAGCA-C
65 TTAGTAAC-TCGCACC
*
47198186 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
47198210 CATCATTCGA
Statistics
Matches: 165, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
78 3 0.02
79 134 0.81
80 28 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATT
TAGTAACTCGCACC
Found at i:47198163 original size:119 final size:121
Alignment explanation
Indices: 47197947--47198209 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 121
47197937 CTACTCGTTT
*
47197947 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* * *
47198011 ATTTAGTAACTCGCACCAATGCCTTCGGGCTTAG-CTCGGA-ATTAGT-A-TCTCGCAC
66 AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGTC-CGGATA-TAGTCACT-TAGCAC
* * * *
47198066 AAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* * *
47198129 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGTCCGGATATAGTCACTTAGCAC
47198186 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
47198210 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
118 34 0.27
119 78 0.62
120 13 0.10
121 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
AAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGTCCGGATATAGTCACTTAGCAC
Found at i:47206042 original size:39 final size:39
Alignment explanation
Indices: 47205998--47206248 Score: 217
Period size: 39 Copynumber: 6.6 Consensus size: 39
47205988 GCTACTCGTT
*
47205998 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
47206038 -AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* *
47206077 CCAA----TTCGGG-CTTA-----GATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
*
47206105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * *
47206145 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * * * *
47206184 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
47206225 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47206249 ACATCATTCG
Statistics
Matches: 174, Mismatches: 19, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
28 10 0.06
29 5 0.03
30 1 0.01
32 6 0.03
33 4 0.02
35 4 0.02
36 6 0.03
38 3 0.02
39 71 0.41
40 53 0.30
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:47206204 original size:107 final size:106
Alignment explanation
Indices: 47205998--47206193 Score: 265
Period size: 107 Copynumber: 1.9 Consensus size: 106
47205988 GCTACTCGTT
*
47205998 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCAAAATGCCTTCGGGACTTAACCCGGA
* * *
47206063 TTTAGTAACTCGCACCAATTCGGGCTTAGATTAGTACTCGCA
66 ATTAGTAACTCGCACCAAATC-GCCTTAGATTAGTACTCGCA
* * *
47206105 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA-AAATGCCTTCGGGACTTAACCCG
*
47206168 GAATTAGTATCTCGCA-CAAAT-GCCTT
64 GAATTAGTAACTCGCACCAAATCGCCTT
47206194 CGGATCTTAG
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
104 4 0.05
106 4 0.05
107 57 0.72
108 14 0.18
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (106 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCAAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCACCAAATCGCCTTAGATTAGTACTCGCA
Found at i:47206233 original size:79 final size:79
Alignment explanation
Indices: 47206092--47206249 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 79
47206082 TCGGGCTTAG
* * *
47206092 ATTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCG
1 ATTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCG
47206157 GG-CTTAGCCCGGA
66 GGACTTAGCCCGGA
** * *
47206170 ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCT
1 ATTAGTA-CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCT
47206233 TCGGGACTTAGCCCGGA
63 TCGGGACTTAGCCCGGA
47206250 CATCATTCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 10 0.14
79 44 0.64
80 15 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
ATTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCG
GGACTTAGCCCGGA
Found at i:47208674 original size:42 final size:41
Alignment explanation
Indices: 47208566--47208730 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
47208556 TTATGATATG
* * * *
47208566 TGATTTCGTGTAAGACCACATTTGGGACATTGGCCTCGATT
1 TGATTTCGTGTAAGACCACGTCTAGGACATTGGCATCGATT
* *
47208607 TGAGATTTACGAGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTAGGACATTGGCATCG-ATT
** * *
47208652 TGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGACATT
1 TGATTTCGTGTAAGACCACGTCTAGGACATTGGCATCG--ATT
* * *
47208695 TGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTAGGACATTGGCAT
47208731 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 42 0.42
44 26 0.26
45 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCACGTCTAGGACATTGGCATCGATT
Found at i:47211470 original size:54 final size:54
Alignment explanation
Indices: 47211389--47211499 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
47211379 ATGGCTGCCT
* * * *
47211389 GAACAGATATTGTGACAGAGTCACCAGATACAAATA-TTGTGGTAGAGCCACCA
1 GAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCACAGCCACCA
* *
47211442 GAACAGATATTTGTGGC-GTAGCCACCAGAAACAGATATTTGTGGCACAGCCACCA
1 GAACAGATA-TTGTGACAG-AGCCACCAGAAACAAATATTTGTGGCACAGCCACCA
47211497 GAA
1 GAA
47211500 TGCTTCCTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 10 0.20
54 21 0.43
55 18 0.37
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
GAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCACAGCCACCA
Found at i:47211483 original size:28 final size:28
Alignment explanation
Indices: 47211390--47211499 Score: 118
Period size: 27 Copynumber: 4.0 Consensus size: 28
47211380 TGGCTGCCTG
* * *
47211390 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCACAGCCACCAGA
* * * *
47211417 TACAAATA-TTGTGGTAGAGCCACCAG-
1 AACAGATATTTGTGGCACAGCCACCAGA
**
47211443 AACAGATATTTGTGGCGTAGCCACCAGA
1 AACAGATATTTGTGGCACAGCCACCAGA
47211471 AACAGATATTTGTGGCACAGCCACCAGA
1 AACAGATATTTGTGGCACAGCCACCAGA
47211499 A
1 A
47211500 TGCTTCCTCC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 6 0.09
27 36 0.52
28 27 0.39
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (28 bp):
AACAGATATTTGTGGCACAGCCACCAGA
Found at i:47213473 original size:40 final size:40
Alignment explanation
Indices: 47213428--47213619 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
47213418 ATAACCACAA
* * *
47213428 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
47213468 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
47213508 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
47213548 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
47213588 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
47213620 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:47213512 original size:80 final size:80
Alignment explanation
Indices: 47213399--47213618 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
47213389 ACCCAAGTTT
* * * * * * * * *
47213399 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
47213462 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
47213478 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
47213542 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
47213558 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
47213619 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:47219213 original size:17 final size:18
Alignment explanation
Indices: 47219191--47219225 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
47219181 TGTTTATTGT
47219191 GTGGGGCCCACA-AGCCC
1 GTGGGGCCCACACAGCCC
47219208 GTGGGGCCCACACAGCCC
1 GTGGGGCCCACACAGCCC
47219226 AATGTGGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.43, G:0.34, T:0.06
Consensus pattern (18 bp):
GTGGGGCCCACACAGCCC
Found at i:47219234 original size:19 final size:17
Alignment explanation
Indices: 47219192--47219240 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
47219182 GTTTATTGTG
*
47219192 TGGGGCCCACAAGCCCG
1 TGGGGCCCACAAGCCCA
47219209 TGGGGCCCACACAGCCCAA
1 TGGGGCCCACA-AGCCC-A
*
47219228 TGTGGCCCA-AAGC
1 TGGGGCCCACAAGC
47219241 GGCCTAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.50
18 6 0.21
19 8 0.29
ACGTcount: A:0.22, C:0.39, G:0.31, T:0.08
Consensus pattern (17 bp):
TGGGGCCCACAAGCCCA
Found at i:47220110 original size:25 final size:25
Alignment explanation
Indices: 47220092--47220139 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
47220082 GATGGGCACG
47220092 TTAGGTAGAATAGTAGATGAAAACC
1 TTAGGTAGAATAGTAGATGAAAACC
47220117 TTAGGTAGAATAGTAGATGAAAA
1 TTAGGTAGAATAGTAGATGAAAA
47220140 GAGAATTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.25
Consensus pattern (25 bp):
TTAGGTAGAATAGTAGATGAAAACC
Found at i:47230209 original size:41 final size:41
Alignment explanation
Indices: 47230095--47230211 Score: 100
Period size: 41 Copynumber: 2.9 Consensus size: 41
47230085 TTTAATAATT
*
47230095 CACCGGC-ATAAAGCCTGCTAGGCAT-AAGCCTG-TATCACA
1 CACCGGCAAT-AAGCCTGCTAGGCATAAAGCCTGATTTCACA
* * ** * * *
47230134 CACCGGTAA-AAGGCTTGCTAAAC-TCAAAGTCTGATTTTATA
1 CACCGGCAATAA-GCCTGCTAGGCAT-AAAGCCTGATTTCACA
47230175 CACCGGCAATAAGCCTGCTAGGCATAAAGCCTGATTT
1 CACCGGCAATAAGCCTGCTAGGCATAAAGCCTGATTT
47230212 AATTCACCAG
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
38 3 0.05
39 14 0.24
40 7 0.12
41 31 0.53
42 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGGCATAAAGCCTGATTTCACA
Found at i:47233570 original size:29 final size:29
Alignment explanation
Indices: 47233538--47233779 Score: 221
Period size: 29 Copynumber: 8.4 Consensus size: 29
47233528 TTAGAAACAG
* *
47233538 CCACAAGGGCTTCCATTTAATAGAGATCA
1 CCACAAAGGCTTCCATTTAACAGAGATCA
* *
47233567 CCACAAAGGCTTCC-TTTAACA-AAACCA
1 CCACAAAGGCTTCCATTTAACAGAGATCA
*
47233594 GCCACAAAGGCTTCCATTTAACAAAGATCA
1 -CCACAAAGGCTTCCATTTAACAGAGATCA
* * * *
47233624 CCAAAAAGGATTCC-TTTAACA-AAAACAA
1 CCACAAAGGCTTCCATTTAACAGAGATC-A
* * *
47233652 CCACAGAGGCTTCCATTTAACAAAGATCG
1 CCACAAAGGCTTCCATTTAACAGAGATCA
47233681 CCACAAAGGCATT-CATTTAACAGAGAT-A
1 CCACAAAGGC-TTCCATTTAACAGAGATCA
* *
47233709 GCCACAAAAGCTTTCATTTAACAGAGAT-A
1 -CCACAAAGGCTTCCATTTAACAGAGATCA
* **
47233738 GCCACAAGGGCTTCC-TTGTAACAGAGATTG
1 -CCACAAAGGCTTCCATT-TAACAGAGATCA
47233768 CCACAAAGGCTT
1 CCACAAAGGCTT
47233780 ACTTATATTG
Statistics
Matches: 177, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
27 7 0.04
28 43 0.24
29 118 0.67
30 9 0.05
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (29 bp):
CCACAAAGGCTTCCATTTAACAGAGATCA
Found at i:47233728 original size:58 final size:57
Alignment explanation
Indices: 47233530--47233779 Score: 279
Period size: 57 Copynumber: 4.4 Consensus size: 57
47233520 TCTATTCTTT
* * *
47233530 AGAAACAGCCACAAGGGCTTCCATTTAATAGAGATCACCACAAAGGCTTCCTTTAAC
1 AGAAACAGCCACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCCTTTAAC
* *
47233587 A-AAACCAGCCACAAAGGCTTCCATTTAACAAAGATCACCAAAAAGGATTCCTTTAAC
1 AGAAA-CAGCCACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCCTTTAAC
* * * * *
47233644 AAAAACAACCACAGAGGCTTCCATTTAACAAAGATCGCCACAAAGGCATTCATTTAAC
1 AGAAACAGCCACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGC-TTCCTTTAAC
* * * * * *
47233702 AGAGATAGCCACAAAAGCTTTCATTTAACAGAGAT-AGCCACAAGGGCTTCCTTGTAAC
1 AGAAACAGCCACAAAGGCTTCCATTTAACAAAGATCA-CCACAAAGGCTTCCTT-TAAC
* **
47233760 AGAGATTGCCACAAAGGCTT
1 AGAAACAGCCACAAAGGCTT
47233780 ACTTATATTG
Statistics
Matches: 164, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
56 3 0.02
57 91 0.55
58 70 0.43
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (57 bp):
AGAAACAGCCACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCCTTTAAC
Found at i:47234283 original size:18 final size:16
Alignment explanation
Indices: 47234251--47234289 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
47234241 TTAGTAAATG
47234251 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
47234267 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
47234285 AATAA
1 AATAA
47234290 AATTCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:47235206 original size:31 final size:31
Alignment explanation
Indices: 47235164--47235239 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
47235154 AATATGTGAA
* ** *
47235164 GTGCAATTAAGACCATGGCATTGATATATGT
1 GTGCAACTAAGACCATGGCATCAATATATAT
*
47235195 GTGCAAGTAAGACCATGGCATCAATATATAT
1 GTGCAACTAAGACCATGGCATCAATATATAT
*
47235226 GTGCGACTAAGACC
1 GTGCAACTAAGACC
47235240 GCATTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (31 bp):
GTGCAACTAAGACCATGGCATCAATATATAT
Found at i:47235279 original size:56 final size:56
Alignment explanation
Indices: 47235218--47235407 Score: 265
Period size: 56 Copynumber: 3.4 Consensus size: 56
47235208 CATGGCATCA
* * * * * * *
47235218 ATATATATGTGCGACTAAGACCGCATTTAAAATGTTGGCATCAATATGCGATTCGG
1 ATATATGTGTGCGAGTAAGACCACGTTTAAAATGTTGGCATCGATATGTGATTCCG
* *
47235274 ATATATGTGTGCGAGTAAGACCACGTTTAATACT-TTGGCATCGATATGTGATTCCT
1 ATATATGTGTGCGAGTAAGACCACGTTTAA-AATGTTGGCATCGATATGTGATTCCG
*
47235330 ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAAAATGTTGGCATCGATATGTGATTCCG
*
47235386 ATTTATGTGTGCGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
47235408 CTGTCTGGGA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
55 1 0.01
56 116 0.97
57 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAAAATGTTGGCATCGATATGTGATTCCG
Found at i:47235432 original size:112 final size:111
Alignment explanation
Indices: 47235218--47235438 Score: 266
Period size: 112 Copynumber: 2.0 Consensus size: 111
47235208 CATGGCATCA
* *
47235218 ATATATATGTGCGACTAAGACCGCATTTAAAATGTTGGCATCAATATGCGATTCGGATATATGTG
1 ATATATATGTGCGACTAAGACCACATTTAAAATGTTGGCATCAATATGCGATTCCGATATATGTG
* * *
47235283 TGCGAGTAAGACCACGTTTAATACTTTGGCATCGATATGTGATTCCT
66 TGCGAGTAAGACCACGTTGAATAC-GTGCCATCGATATGTGATTCCT
* * * * * * *
47235330 ATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATTTATGTG
1 ATATATATGTGCGACTAAGACCACATTTAAAATGTTGGCATCAATATGCGATTCCGATATATGTG
* *
47235395 TGCGAGTAAGACC-CTGTCTGGGATA-GTGCCATTGATATGTGATT
66 TGCGAGTAAGACCAC-GT-T-GAATACGTGCCATCGATATGTGATT
47235439 ACATGTAAGA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
111 1 0.01
112 87 0.95
113 1 0.01
114 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (111 bp):
ATATATATGTGCGACTAAGACCACATTTAAAATGTTGGCATCAATATGCGATTCCGATATATGTG
TGCGAGTAAGACCACGTTGAATACGTGCCATCGATATGTGATTCCT
Found at i:47235672 original size:18 final size:19
Alignment explanation
Indices: 47235638--47235673 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47235628 AATGCAATTT
47235638 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
47235657 ATATATG-TGTATATGAA
1 ATATATGATGTAAATGAA
47235674 TAGTACATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:47238038 original size:23 final size:24
Alignment explanation
Indices: 47237998--47238042 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
47237988 CAAGTCATAC
*
47237998 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAACCTCTACACTCCATCT
47238022 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACTCCAT
47238043 ATGGGGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACTCCATCT
Found at i:47238349 original size:27 final size:27
Alignment explanation
Indices: 47238316--47238524 Score: 242
Period size: 27 Copynumber: 7.7 Consensus size: 27
47238306 ATCACTCAGT
**
47238316 GGCAAAACAGTCATCCTACCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * *
47238343 GGTAAAATAGTCATTTTACCTCATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * *
47238370 GACAAAACCGTCATTTTACCATATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* *
47238397 GGCAAAACAGTCAATTTAACACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
*
47238424 GGCAAAACAGTCATTTTGCCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* *
47238451 GGCAAAATC-GCCATTTTATCACATAAG
1 GGCAAAA-CAGTCATTTTACCACATAAG
* *
47238478 GGCAAAATC-GTCATTTTAACATATAAG
1 GGCAAAA-CAGTCATTTTACCACATAAG
*
47238505 GGCAAAATAGTCATTTTACC
1 GGCAAAACAGTCATTTTACC
47238525 TTACAGGGGT
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 152 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCACATAAG
Found at i:47238451 original size:81 final size:81
Alignment explanation
Indices: 47238316--47238524 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
47238306 ATCACTCAGT
* * * *
47238316 GGCAAAACAGTC-ATCCTACCACATAAGGGTAAAATAGTCATTTTACCTCATAAGGACAAAACCG
1 GGCAAAACAGTCAAT-TTAACACATAAGGGCAAAATAGTCATTTTACCACATAAGGACAAAACCG
* *
47238380 TCATTTTACCATATAAG
65 CCATTTTACCACATAAG
* * * *
47238397 GGCAAAACAGTCAATTTAACACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGCAAAATCGC
1 GGCAAAACAGTCAATTTAACACATAAGGGCAAAATAGTCATTTTACCACATAAGGACAAAACCGC
*
47238462 CATTTTATCACATAAG
66 CATTTTACCACATAAG
* *
47238478 GGCAAAATC-GTCATTTTAACATATAAGGGCAAAATAGTCATTTTACC
1 GGCAAAA-CAGTCAATTTAACACATAAGGGCAAAATAGTCATTTTACC
47238525 TTACAGGGGT
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 108 0.97
82 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (81 bp):
GGCAAAACAGTCAATTTAACACATAAGGGCAAAATAGTCATTTTACCACATAAGGACAAAACCGC
CATTTTACCACATAAG
Found at i:47238560 original size:27 final size:26
Alignment explanation
Indices: 47238514--47238665 Score: 96
Period size: 27 Copynumber: 5.8 Consensus size: 26
47238504 GGGCAAAATA
* *
47238514 GTCATTTTACCTTA-CAGGGGTATTAC
1 GTCATTTTACCCTATGA-GGGTATTAC
*
47238540 AGTCATTTTACCCTATGGGGGTA-TATC
1 -GTCATTTTACCCTATGAGGGTATTA-C
* * *
47238567 GTTCAATTTACCCTCT--GGGTATTTC
1 G-TCATTTTACCCTATGAGGGTATTAC
* **
47238592 GGTCATTTTACCCTATGAGGATATTTT
1 -GTCATTTTACCCTATGAGGGTATTAC
* * *
47238619 GTCATCTTACCCTATGAGAGTATTTC
1 GTCATTTTACCCTATGAGGGTATTAC
* *
47238645 GATCATCTTACCCTATAAGGG
1 G-TCATTTTACCCTATGAGGG
47238666 AAAAACAGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
25 18 0.18
26 28 0.28
27 55 0.54
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCCTATGAGGGTATTAC
Found at i:47238628 original size:26 final size:26
Alignment explanation
Indices: 47238541--47238660 Score: 104
Period size: 27 Copynumber: 4.6 Consensus size: 26
47238531 GGGTATTACA
* * * *
47238541 GTCATTTTACCCTATGGGGGTATATC
1 GTCATCTTACCCTATGAGAGTATTTC
*
47238567 GTTCAAT-TTACCCTCTG-G-GTATTTC
1 G-TC-ATCTTACCCTATGAGAGTATTTC
* *
47238592 GGTCATTTTACCCTATGAG-GATATTTT
1 -GTCATCTTACCCTATGAGAG-TATTTC
47238619 GTCATCTTACCCTATGAGAGTATTTC
1 GTCATCTTACCCTATGAGAGTATTTC
47238645 GATCATCTTACCCTAT
1 G-TCATCTTACCCTAT
47238661 AAGGGAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.03
25 17 0.21
26 28 0.35
27 31 0.39
28 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.41
Consensus pattern (26 bp):
GTCATCTTACCCTATGAGAGTATTTC
Found at i:47244238 original size:15 final size:16
Alignment explanation
Indices: 47244204--47244244 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
47244194 TAATAAATGA
47244204 ATAATAAAATGATATT
1 ATAATAAAATGATATT
* *
47244220 ATAATAATAT-ATGTT
1 ATAATAAAATGATATT
47244235 ATAATAAAAT
1 ATAATAAAAT
47244245 TCATCATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
ATAATAAAATGATATT
Found at i:47245232 original size:56 final size:56
Alignment explanation
Indices: 47245145--47245336 Score: 285
Period size: 56 Copynumber: 3.4 Consensus size: 56
47245135 ACCATGGCAT
* * *
47245145 CGATATATGTGTGTGAGTAAGACCACGTTTAATACATTGACATCGATATGTGATTC
1 CGATATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
* * *
47245201 TGATATATGTGTGCGAGTAAGACCACGTTTAATACTTTGGCATCGATATGTGATTC
1 CGATATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
* * * *
47245257 CGATATATATGTGCGAATAAGACAACGTTTAATACGTTGGCATCAATATGTGATTC
1 CGATATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
*
47245313 CGATTTATATGTGCGAGTAAGACC
1 CGATATATATGTGCGAGTAAGACC
47245337 CTGTCTGGGA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 123 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
CGATATATATGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTC
Found at i:47245354 original size:56 final size:55
Alignment explanation
Indices: 47245145--47245367 Score: 207
Period size: 56 Copynumber: 4.0 Consensus size: 55
47245135 ACCATGGCAT
* * * * * *
47245145 CGATATATGTGTGTGAGTAAGACCACGTTTAATACATTGACATCGATATGTGATTC
1 CGATATATATGTGCGAATAAGACAACGTTGAATACA-TGGCATCGATATGTGATTC
* * * * * *
47245201 TGATATATGTGTGCGAGTAAGACCACGTTTAATACTTTGGCATCGATATGTGATTC
1 CGATATATATGTGCGAATAAGACAACGTTGAATAC-ATGGCATCGATATGTGATTC
* * *
47245257 CGATATATATGTGCGAATAAGACAACGTTTAATACGTTGGCATCAATATGTGATTC
1 CGATATATATGTGCGAATAAGACAACGTTGAATAC-ATGGCATCGATATGTGATTC
* * * *
47245313 CGATTTATATGTGCGAGTAAGAC-CCTGTCTGGGATA-ATGGCATCGATATGTGATT
1 CGATATATATGTGCGAATAAGACAAC-GT-T-GAATACATGGCATCGATATGTGATT
47245368 ACATGTAGGA
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
55 1 0.01
56 141 0.97
57 1 0.01
58 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (55 bp):
CGATATATATGTGCGAATAAGACAACGTTGAATACATGGCATCGATATGTGATTC
Found at i:47245354 original size:112 final size:111
Alignment explanation
Indices: 47245145--47245367 Score: 279
Period size: 112 Copynumber: 2.0 Consensus size: 111
47245135 ACCATGGCAT
* * * * * * *
47245145 CGATATATGTGTGTGAGTAAGACCACGTTTAATACATTGACATCGATATGTGATTCTGATATATG
1 CGATATATATGTGCGAATAAGACAACGTTTAATACATTGACATCAATATGTGATTCCGATATATA
* *
47245210 TGTGCGAGTAAGACCACGTTTAATACTTTGGCATCGATATGTGATTC
66 TGTGCGAGTAAGACCACGTTGAATAC-ATGGCATCGATATGTGATTC
* * *
47245257 CGATATATATGTGCGAATAAGACAACGTTTAATACGTTGGCATCAATATGTGATTCCGATTTATA
1 CGATATATATGTGCGAATAAGACAACGTTTAATACATTGACATCAATATGTGATTCCGATATATA
*
47245322 TGTGCGAGTAAGACC-CTGTCTGGGATA-ATGGCATCGATATGTGATT
66 TGTGCGAGTAAGACCAC-GT-T-GAATACATGGCATCGATATGTGATT
47245368 ACATGTAGGA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
111 1 0.01
112 90 0.95
113 1 0.01
114 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (111 bp):
CGATATATATGTGCGAATAAGACAACGTTTAATACATTGACATCAATATGTGATTCCGATATATA
TGTGCGAGTAAGACCACGTTGAATACATGGCATCGATATGTGATTC
Found at i:47246786 original size:19 final size:22
Alignment explanation
Indices: 47246757--47246796 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
47246747 GTAAAATGTA
47246757 AAAGTTGCTTA-TT-ATTTGTT
1 AAAGTTGCTTAGTTGATTTGTT
47246777 AAAG-TGCTTAGTTGATTTGT
1 AAAGTTGCTTAGTTGATTTGT
47246797 CTTATTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (22 bp):
AAAGTTGCTTAGTTGATTTGTT
Found at i:47256386 original size:42 final size:43
Alignment explanation
Indices: 47256332--47256455 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
47256322 TACTGAGATG
* *
47256332 TGATTACATGTAAGACCATGTCTGGGACAGTGGCATTG-TAT-
1 TGATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATA
*
47256373 TGTATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TG-ATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATA
* * *
47256417 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGT
1 TGATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGT
47256456 GTAACACCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.03
42 33 0.45
43 36 0.49
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATA
Found at i:47261956 original size:42 final size:42
Alignment explanation
Indices: 47261905--47262016 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 42
47261895 ACTGAGATTG
*
47261905 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACT-A
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGA-TGA
* * *
47261947 CGTGTAAGACCATAACTGGGCTATTAGCATCGATACGAGATGA
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATGA
*
47261990 CATGTAAGACCATATCTGGGATATGGC
1 CGTGTAAGACCATATCTGGGATATGGC
47262017 CTTGGTACGG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGATGA
Found at i:47268459 original size:42 final size:42
Alignment explanation
Indices: 47268405--47268520 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
47268395 AAGGTTATTG
* **
47268405 AGATTACGTGTAAGACCATATCTGGGATATGACATCGATATG
1 AGATTACATGTAAGACCATATCTGGGATATGACATCGATACA
* * * * *
47268447 AGACTT-CATGTAAGAACATAGCTAGGTTATTGGCATCGATACA
1 AGA-TTACATGTAAGACCATATCTGGGATA-TGACATCGATACA
*
47268490 AGATTACATGTAAGACCATATCTGGAATATG
1 AGATTACATGTAAGACCATATCTGGGATATG
47268521 GCCTTGGTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGACATCGATACA
Found at i:47274967 original size:150 final size:150
Alignment explanation
Indices: 47274696--47275028 Score: 544
Period size: 150 Copynumber: 2.2 Consensus size: 150
47274686 ATCTATTGTG
47274696 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
* * * *
47274761 ACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCAAGTGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCAAGTGTGTAGTACTAAGTGCAGGCT
* **
47274826 ACTACGTGTATCAGATGGTT
131 ACTACGTGTACCAGATAATT
*
47274846 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
47274911 ACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACA-TGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCA-AGTGTGTAGTACTAAGTGCAGGC
* *
47274975 TACTATGTGTACCGGATAATT
130 TACTACGTGTACCAGATAATT
*
47274996 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
47275029 TGCGTACTAG
Statistics
Matches: 171, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
149 32 0.19
150 138 0.81
151 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCAAGTGTGTAGTACTAAGTGCAGGCT
ACTACGTGTACCAGATAATT
Found at i:47274977 original size:100 final size:97
Alignment explanation
Indices: 47274704--47275041 Score: 415
Period size: 100 Copynumber: 3.4 Consensus size: 97
47274694 TGAGGTCACG
* *
47274704 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACATGTGTAGTACTAAGTG
* * * * *
47274769 TAGGCTACTATGCGTACCCGATAACTTCGATCAA
66 CAGGCTACTATGTGTACCGGATAA-TT-GGTCCA
* * * ** *
47274803 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 -TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
*
47274868 TGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
64 TGCAGGCTACTATGTGTACCGGATAATTGGTC-CA
* ** * *
47274903 TGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCACATGTGTAGTACTAAG
47274968 TGCAGGCTACTATGTGTACCGGATAATTGGTCACA
64 TGCAGGCTACTATGTGTACCGGATAATTGGTC-CA
* *
47275003 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
47275042 GCCTTGTCTA
Statistics
Matches: 205, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
99 34 0.17
100 130 0.63
101 41 0.20
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (97 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGTGTACCGGATAATTGGTCCA
Found at i:47274982 original size:26 final size:26
Alignment explanation
Indices: 47274953--47275030 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
47274943 CTTCGATCAC
47274953 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * *
47274979 ATGTGTACCGGA-TAATTG--GTC-AC-
1 ATGTGTA--GTACTAAGTGCAGGCTACT
47275002 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
47275028 ATG
1 ATG
47275031 CGTACTAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 7 0.18
24 4 0.10
25 4 0.10
26 10 0.26
27 5 0.13
28 2 0.05
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:47275029 original size:49 final size:50
Alignment explanation
Indices: 47274697--47275041 Score: 410
Period size: 49 Copynumber: 6.9 Consensus size: 50
47274687 TCTATTGTGA
* *
47274697 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTC
* * * *
47274746 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTC
* * * * ** *
47274797 GATCA-AGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACA-TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTC
* * *
47274847 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTC
* * ** *
47274896 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTC
* *
47274947 GATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTC
* *
47274996 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
47275042 GCCTTGTCTA
Statistics
Matches: 251, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
49 123 0.49
50 50 0.20
51 78 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTC
Found at i:47275071 original size:100 final size:100
Alignment explanation
Indices: 47274697--47275079 Score: 294
Period size: 100 Copynumber: 3.8 Consensus size: 100
47274687 TCTATTGTGA
* * *** * * *
47274697 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCATGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATAACTTCGATCACAAGTGTAG
* * * * * *
47274760 TACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
66 AAATAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * *** * ** * * **
47274796 CGATCA-AGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGT
1 -GGTCACA-TGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATAACTTCGATCACAAGTGT
* *
47274859 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGAAATAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
47274896 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACATGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATAACTTCGATCACAAGTGTAG
* * *
47274961 TACTAAGTGCAGGCTACTATGTGTACCGGATAATT
66 AAATAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
47274996 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATAGCCTT-G-TCTACAAGTGT
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATA-ACTTCGATC-ACAAGTGT
* *
47275059 -GAAAATATGTGCAGGCAACTA
64 AG-AAATAAGTGCAGGCTACTA
47275080 AGTATCAGTT
Statistics
Matches: 238, Mismatches: 37, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
99 37 0.16
100 157 0.66
101 44 0.18
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAAGCTACTATACGTACCAGATAACTTCGATCACAAGTGTAG
AAATAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:47276469 original size:42 final size:42
Alignment explanation
Indices: 47276410--47276492 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
47276400 CTAGTTAATA
*
47276410 TAAGAATGTATATTATATACATGATGGTAAGCAAATATGTTC
1 TAAGAATGTATATTATATACAGGATGGTAAGCAAATATGTTC
*
47276452 TAAGAATTTATATTATATACAGGATGGTAAGCAAATATGTT
1 TAAGAATGTATATTATATACAGGATGGTAAGCAAATATGTT
47276493 TAAAGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (42 bp):
TAAGAATGTATATTATATACAGGATGGTAAGCAAATATGTTC
Found at i:47279946 original size:3 final size:3
Alignment explanation
Indices: 47279938--47279992 Score: 74
Period size: 3 Copynumber: 17.3 Consensus size: 3
47279928 TTTAATTATG
*
47279938 TTA TTA TTA CTTGAA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA -TT--A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47279986 TTA TTA T
1 TTA TTA T
47279993 CATTGTAATC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 42 0.89
4 2 0.04
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:47280567 original size:53 final size:54
Alignment explanation
Indices: 47280499--47280706 Score: 240
Period size: 55 Copynumber: 3.9 Consensus size: 54
47280489 TTTCCTTTTT
* * * * * *
47280499 GAACTTACCATTGCCATGTCTTGACATGATCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
47280552 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
47280606 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
47280661 GAACTTATCAATGTCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
47280707 ATCTTACCAA
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.32
54 41 0.31
55 45 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:47280738 original size:47 final size:47
Alignment explanation
Indices: 47280685--47280806 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
47280675 CATGCCTTGG
* * * *
47280685 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGACACGTTCCAAA
47280732 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGACACGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGACACGTTCCAAA
*
47280779 CATGGTCTTCCATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
47280807 GTTCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGACACGTTCCAAA
Found at i:47287897 original size:28 final size:28
Alignment explanation
Indices: 47287812--47287897 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
47287802 GTGAGCATGA
* * *
47287812 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* **
47287840 ATATAAATGTGATTTGGGCCTAATAAGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
47287869 ATATGAATATGATTGGGCCTGATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
47287897 A
1 A
47287898 AATACAGGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:47288803 original size:3 final size:3
Alignment explanation
Indices: 47288797--47288826 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
47288787 AATAATAATA
*
47288797 ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47288827 TCCATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:47295101 original size:8 final size:8
Alignment explanation
Indices: 47295088--47295137 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
47295078 ATGAATCGAC
47295088 AAATGCCG
1 AAATGCCG
47295096 AAATGCCG
1 AAATGCCG
*
47295104 AAATGCCA
1 AAATGCCG
* *
47295112 AAAAGTCG
1 AAATGCCG
47295120 AAATGCCG
1 AAATGCCG
*
47295128 AAAAGCCG
1 AAATGCCG
47295136 AA
1 AA
47295138 GGTTTGGCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (8 bp):
AAATGCCG
Found at i:47295109 original size:16 final size:16
Alignment explanation
Indices: 47295088--47295137 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
47295078 ATGAATCGAC
*
47295088 AAATGCCGAAATGCCG
1 AAATGCCGAAAAGCCG
* *
47295104 AAATGCCAAAAAGTCG
1 AAATGCCGAAAAGCCG
47295120 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
47295136 AA
1 AA
47295138 GGTTTGGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:47295429 original size:29 final size:29
Alignment explanation
Indices: 47295362--47295469 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
47295352 TGAATGTGAC
* * * *
47295362 TGGGCCTAACGGACCATATAAATGTAATT
1 TGGGCCTAATGGGCCATATACATGTGATT
*
47295391 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* * *
47295420 TGGGCCTAATAGGCCATACGA-ATATGA-T
1 TGGGCCTAATGGGCCATA-TACATGTGATT
*
47295448 TGGGCCTAATGGGCCAGATACA
1 TGGGCCTAATGGGCCATATACA
47295470 CGTATGTGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.28
29 45 0.69
30 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:47296354 original size:3 final size:3
Alignment explanation
Indices: 47296348--47296393 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
47296338 TATTACTTGA
47296348 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47296394 CATTGTAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47297097 original size:54 final size:54
Alignment explanation
Indices: 47296902--47297109 Score: 222
Period size: 55 Copynumber: 3.9 Consensus size: 54
47296892 TTTCCTTTTT
* * * * * * *
47296902 GAACTTACCATTGCCATGTCTTGACATGATCTTACGTGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** *
47296955 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
47297009 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
47297064 GAACTTATCAATGCCATGCCTTGGCATGGTCTTATATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
47297110 ATCTTACCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.32
54 41 0.32
55 44 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:47297144 original size:47 final size:47
Alignment explanation
Indices: 47297088--47297209 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
47297078 CATGCCTTGG
* * * *
47297088 CATGGTCTTATATGATATCCTTATCTTACCAAATGCCATGCTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGCTCCAAA
*
47297135 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGCTCCAAA
47297182 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
47297210 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGCTCCAAA
Found at i:47297284 original size:47 final size:46
Alignment explanation
Indices: 47297072--47297344 Score: 187
Period size: 47 Copynumber: 5.8 Consensus size: 46
47297062 TAGAACTTAT
* * * * * *
47297072 CAATGCCATGCCTTGGCATGGTCTTATATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATCAATGC
*** * * *
47297117 CAAATGCCATGCTCCAAACATGGTCTTACATGGTATCCTTGTC-TTAC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTATCAATGC
* *** * *
47297164 AAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 -CAATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTATC--AATGC
**
47297214 CAATGCCACATCTTGA-AGTGGTCTTACATGG-AGTCCTTAATCAATGC
1 CAATGCCATGTCTTGACA-TGGTCTTACATGGTA-TCCTT-ATCAATGC
* * * * ** *
47297261 CGATGCCATGTCTTGACATGGTCTTACACGGAATCCTT-GCCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATCAATGC
47297306 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
47297345 ACCGTCAATT
Statistics
Matches: 185, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 39 0.21
46 9 0.05
47 103 0.56
48 23 0.12
49 9 0.05
50 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (46 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATCAATGC
Found at i:47300204 original size:64 final size:64
Alignment explanation
Indices: 47300103--47300232 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 64
47300093 TCCAGAGATC
* * * *
47300103 CATATAACAGGATGCTCATAAAGAGCTGCGGTATGTCCGCAACATATGCAGGATCACTACCGAT
1 CATATAACAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGAT
* * *
47300167 CATATAACAGGACGCTTACAAGGAGCTACGGTATGTCCGCAACACATGCAGGATCACTATCGAT
1 CATATAACAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGAT
47300231 CA
1 CA
47300233 GGATGCTCGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (64 bp):
CATATAACAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGAT
Found at i:47304636 original size:41 final size:41
Alignment explanation
Indices: 47304583--47304699 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
47304573 TTATGTGGCG
47304583 AAAGCGCTTCCAGTTGGAAGCGTTTTCCTACAAAT-ACGCTA
1 AAAGCGCTTCCAGTTGGAAGCGTTTTCCTACAAATCA-GCTA
* *** * * *
47304624 AAAGCACTTCCAGCCAGAATCGCTTTT-TTGCAAATCAGCTA
1 AAAGCGCTTCCAGTTGGAAGCG-TTTTCCTACAAATCAGCTA
* *
47304665 AAAACGCTTCCAGTTGGAAGCGTTTTCGTA-AAATC
1 AAAGCGCTTCCAGTTGGAAGCGTTTTCCTACAAATC
47304700 GGTCTAGTCT
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
40 9 0.16
41 44 0.76
42 5 0.09
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (41 bp):
AAAGCGCTTCCAGTTGGAAGCGTTTTCCTACAAATCAGCTA
Found at i:47305411 original size:11 final size:11
Alignment explanation
Indices: 47305386--47305427 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
47305376 TCTTAAAAAA
47305386 ATAAAAAT-TT
1 ATAAAAATATT
*
47305396 GTAAAAATATT
1 ATAAAAATATT
47305407 ATAAAAATATT
1 ATAAAAATATT
47305418 -T-AAAATATT
1 ATAAAAATATT
47305427 A
1 A
47305428 AAACTGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
10 8 0.29
11 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
ATAAAAATATT
Found at i:47305412 original size:21 final size:20
Alignment explanation
Indices: 47305386--47305427 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
47305376 TCTTAAAAAA
47305386 ATAAAAAT-TTGTAAAAATATT
1 ATAAAAATATT-T-AAAATATT
47305407 ATAAAAATATTTAAAATATT
1 ATAAAAATATTTAAAATATT
47305427 A
1 A
47305428 AAACTGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 9 0.45
22 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATATTTAAAATATT
Done.