Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 373 of 378
Found at i:111436502 original size:35 final size:35
Alignment explanation
Indices: 111436456--111436523 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
111436446 GTTTTTTTTT
111436456 GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGGGG
1 GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGGGG
111436491 GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGG
1 GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGG
111436524 TTAGGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.03, C:0.09, G:0.21, T:0.68
Consensus pattern (35 bp):
GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGGGG
Found at i:111437386 original size:30 final size:30
Alignment explanation
Indices: 111437350--111437411 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
111437340 TTTTTGAAAA
111437350 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
111437380 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
111437410 CA
1 CA
111437412 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:111437478 original size:83 final size:81
Alignment explanation
Indices: 111437391--111438476 Score: 318
Period size: 74 Copynumber: 13.4 Consensus size: 81
111437381 AGAAATTAAA
111437391 AAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAGAAAAAAAACAGAAATTGAAAA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAGAAAAAAAACAGAAATT-AAAA
*
111437456 TAGCTCAGCACGTGAGCC
64 TACCTCAGCACGTGAGCC
* *** * **
111437474 AAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATCTGAAAAACAGATTTTG
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGA-AGAA---AAAAAACAGAAATT-
* *
111437539 AAAATACCTC-GACATGTGACCC
60 AAAATACCTCAG-CACGTGAGCC
* * * * **
111437561 GAGGCTCAACTCACATCTCGCAATGTGAGTTGA-TTTTTTGAA-AAATATAAATTG-AA--AAAA
1 -AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAA-AAAAACAGAAATTAAAA
*** * *
111437621 TACCTCAGTGTGTGATCTG
64 TACCTCAGCACGTGAGC-C
*
111437640 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAG-------ATAGAAATTAAAATA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATTAAAATA
* *
111437698 GCTCAGCGCGTGAGCC
66 CCTCAGCACGTGAGCC
*
111437714 AAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTT---G----AAAACAGAAATTGAAAA
1 AA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATT-AAAA
* * *
111437771 TACCTCA--ATGTG-TCTTG
64 TACCTCAGCACGTGAGC--C
* ** * *
111437788 AGGCTCAACT-ATTTCTCGCAATATGAGTTGA--ATTTT---G----AAAACAGAAATTGAAATT
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATT-AAAAT
**
111437843 ACCTCAG--CGTGTCCC
65 ACCTCAGCACGTGAGCC
*
111437858 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAA-ATGG
1 -AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AA-G-A-AAA---AAAACA--G
* ** * *
111437922 AAATTGAAAATACCTCGGCGTGTGATCTG
55 AAATT-AAAATACCTCAGCACGTGAGC-C
* * * * *
111437951 AGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTT---G----ACAACAGAAATTGAAATT
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATT-AAAAT
*
111438009 ACCTCAG--CGTG-TCC
65 ACCTCAGCACGTGAGCC
* **
111438023 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---G---AAAGGCAGAAATTGAAA
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATT-AAA
* **
111438082 ATACCTCGGCGTGTGA-CC
63 ATACCTCAGCACGTGAGCC
* * * * *
111438100 TGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTT---G----ACAACAGAAATTGAAA
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATT-AAA
* *
111438158 TTACCTCAG--CGTG-TCC
63 ATACCTCAGCACGTGAGCC
* *
111438174 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGG
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT----GA-AGAAA---AAAAACAG
**
111438239 AAATTGAAAATACCTCAGCGTGTGA-CC
55 AAATT-AAAATACCTCAGCACGTGAGCC
* * * *** *
111438266 TGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAA
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTT--TTGA-AGAA-AA--AAAACAGAA
**
111438331 ATTGAAAATACCTC-G-GTGTGA-CC
57 ATT-AAAATACCTCAGCACGTGAGCC
* * ** *
111438354 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTAAAACATAATAATGAAGACAGAAAT
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGA-AA-AA--AA-ACAGAAAT
*
111438418 TGAAAATACCTC-G-GCGTGA-CC
59 T-AAAATACCTCAGCACGTGAGCC
* *
111438439 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 --AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
111438477 GAAAAAGTAG
Statistics
Matches: 812, Mismatches: 104, Indels: 171
0.75 0.10 0.16
Matches are distributed among these distances:
71 42 0.05
72 42 0.05
73 15 0.02
74 94 0.12
75 87 0.11
76 37 0.05
77 47 0.06
78 46 0.06
79 10 0.01
80 1 0.00
82 12 0.01
83 35 0.04
84 13 0.02
85 63 0.08
86 9 0.01
87 34 0.04
88 70 0.09
89 5 0.01
90 66 0.08
91 9 0.01
92 75 0.09
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (81 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAAAAAAAACAGAAATTAAAATA
CCTCAGCACGTGAGCC
Found at i:111437733 original size:75 final size:74
Alignment explanation
Indices: 111437562--111437917 Score: 366
Period size: 75 Copynumber: 4.8 Consensus size: 74
111437552 ATGTGACCCG
* * * *
111437562 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTGAAAAATATAAATTGAAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTG--AAAATACCTC
* *
111437627 AGTGTGTGATCTGA
63 A--GCGTGATCTCA
* * *
111437641 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGATAGAAATT-AAAATAGCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCA-
*
111437704 CGCGTGAGC-CA
64 -GCGTGATCTCA
* **
111437715 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC
**
111437780 GTG-TCTTG
66 GTGATCTCA
** * *
111437788 AGGCTCAACT-ATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC
* *
111437851 GTG-TCCCG
66 GTGATCTCA
*
111437859 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAA-ACAGAAATTGAAAA
111437918 ATGGAAATTG
Statistics
Matches: 236, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
71 44 0.19
72 38 0.16
73 13 0.06
74 19 0.08
75 64 0.27
76 12 0.05
78 38 0.16
79 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC
GTGATCTCA
Found at i:111437937 original size:90 final size:89
Alignment explanation
Indices: 111437831--111438006 Score: 248
Period size: 92 Copynumber: 2.0 Consensus size: 89
111437821 TTTGAAAACA
* * *
111437831 GAAATTGAAATTACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-CTT
111437895 TTTTGA-AAGGCAGAAATTGAAAAATG
65 TTTTGACAA--CAGAAATTGAAAAATG
* * *
111437921 GAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
111437986 TTTTGACAACAGAAATTGAAA
65 TTTTGACAACAGAAATTGAAA
111438007 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
90 34 0.44
91 8 0.10
92 35 0.45
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (89 bp):
GAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACAGAAATTGAAAAATG
Found at i:111438030 original size:166 final size:163
Alignment explanation
Indices: 111437751--111438464 Score: 817
Period size: 151 Copynumber: 4.4 Consensus size: 163
111437741 AGTTGATTTT
** * * ** *
111437751 TTGAAAACAGAAATTGAAAATACCTC--AATGTGTCTTGAGGCTCAACT-ATTTCTCGCAATATG
1 TTGAAAA-AGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACG
* *
111437813 AGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
65 AGTTGACTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
111437876 CGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAA
130 CGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAA
*
111437911 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAC
1 TTGAAAAA--GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
*
111437976 GAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
64 GAGTTGACTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
111438041 TCGCAATATGAGTTGATTTTTTTG--A-A-AG---
129 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
* * *
111438069 --G---CAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGA
1 TTGAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGA
* *
111438129 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 GTTGACTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
111438194 GCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
131 GCAATATGAGTTGA-TTTTTTTGAAAGACAGAAA
* *
111438228 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAA--GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* * * *
111438293 GAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAG
64 GAGTTGA--CTTT--------T--T--TGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
* *
111438358 GCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTT-AAA-ACATAATA
115 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAA-A
* *
111438404 ATGAAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAA-AAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
111438465 TGAGCTGATT
Statistics
Matches: 484, Mismatches: 32, Indels: 63
0.84 0.06 0.11
Matches are distributed among these distances:
151 132 0.27
152 8 0.02
153 1 0.00
154 1 0.00
155 1 0.00
156 3 0.01
159 1 0.00
160 7 0.01
161 20 0.04
163 17 0.04
164 19 0.04
165 8 0.02
166 129 0.27
168 3 0.01
173 31 0.06
175 24 0.05
176 9 0.02
177 7 0.01
178 1 0.00
180 62 0.13
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (163 bp):
TTGAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGA
GTTGACTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTGAAAGACAGAAA
Found at i:111438212 original size:317 final size:315
Alignment explanation
Indices: 111437598--111438476 Score: 1083
Period size: 317 Copynumber: 2.7 Consensus size: 315
111437588 AGTTGATTTT
** * *
111437598 TTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAAT
1 TTGAAAAATGGAAATTG--AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAAT
* * * * *
111437663 ATGAGTTGATTTTTTTGAAGATAGAAATT-AAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTC
64 ACGAGTTGACTTTTTTGAA-ACAGAAATTGAAAATACCTCA--GCGTGA-CCTGAGGCTCAACTC
* ** * *
111437726 ACCTCTCGCAATATAAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTC-AATGTGTCTTG
125 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCGGCTGTGACCTG
** *
111437788 AGGCTCAACT-ATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
190 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
*
111437850 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAA
255 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
*
111437911 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAC
1 TTGAAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAC
* *
111437976 GAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGACTTTTTTGA-AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTC
*
111438041 TCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
130 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCGGC-TGTGACCTGAGGC
* * * *
111438106 TCAACTCGCCACTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
194 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
111438171 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
259 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
* * *
111438228 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAC
* *
111438293 GAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGTGTGACCTGAG
66 GAGTTGA--CTTT--------T--T--TG-AAACAGAAATTGAAAATACCTCAGCGTGACCTGAG
* *
111438358 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTTAAAACATAATAATGAAGACAGAAATTGAAA
116 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT------T--TGA--AAGACAGAAATTGAAA
*
111438423 ATACCTCGGC-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
171 ATACCTCGGCTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
111438477 GAAAAAGTAG
Statistics
Matches: 489, Mismatches: 42, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
309 2 0.00
310 36 0.07
311 77 0.16
312 29 0.06
313 15 0.03
314 17 0.03
315 16 0.03
317 156 0.32
319 4 0.01
327 1 0.00
329 1 0.00
331 66 0.13
332 1 0.00
337 1 0.00
339 42 0.09
341 25 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (315 bp):
TTGAAAAATGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAC
GAGTTGACTTTTTTGAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCGGCTGTGACCTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
Found at i:111438214 original size:76 final size:75
Alignment explanation
Indices: 111437921--111438234 Score: 454
Period size: 74 Copynumber: 4.1 Consensus size: 75
111437911 TTGAAAAATG
* * *
111437921 GAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
111437986 TTTTGACAACA
65 TTTTGACAACA
* *
111437997 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
111438061 TTTGA-AAGGCA
66 TTTGACAA--CA
* * *
111438072 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
111438137 TTTTGACAACA
65 TTTTGACAACA
* *
111438148 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTT
*
111438212 TTTTGAAAGACA
65 TTTTGACA-ACA
111438224 GAAATTGAAAA
1 GAAATTGAAAA
111438235 ACGGAAATTG
Statistics
Matches: 214, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
73 2 0.01
74 75 0.35
75 34 0.16
76 59 0.28
77 42 0.20
78 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:111438233 original size:14 final size:14
Alignment explanation
Indices: 111438214--111438248 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
111438204 TTGATTTTTT
*
111438214 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
111438228 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
111438242 TTGAAAA
1 TTGAAAA
111438249 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:111438437 original size:85 final size:86
Alignment explanation
Indices: 111438144--111438482 Score: 448
Period size: 85 Copynumber: 3.9 Consensus size: 86
111438134 TTTTTTTGAC
* * * *
111438144 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * *
111438209 TTTTTTTGAAAGACAGAA-ATTGAAA
65 --TTTTT-AAAAACATAATAATG-AA
* * * * *
111438234 AACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTC-G-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
111438299 ATTCTTTCAAAAACATAATAATGAA
64 ATT-TTT-AAAAACATAATAATGAA
*
111438324 AACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
111438389 TTTT-AAAACATAATAATGAA
66 TTTTAAAAACATAATAATGAA
*
111438409 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
111438474 TTTGAAAAA
66 TTTTAAAAA
111438483 GTAGAAATTA
Statistics
Matches: 226, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
85 82 0.36
86 4 0.02
87 3 0.01
88 41 0.18
89 3 0.01
90 52 0.23
91 3 0.01
92 38 0.17
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (86 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTTAAAAACATAATAATGAA
Found at i:111438594 original size:73 final size:72
Alignment explanation
Indices: 111438499--111438693 Score: 250
Period size: 72 Copynumber: 2.7 Consensus size: 72
111438489 ATTAAAAGGT
* * * * * * *
111438499 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTATCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
111438564 CCTGAGGC
65 CCCGAGGC
* **
111438572 TCAACTCAGCTCTCGCAATATGAGTTGAAATT-AAAATACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
111438636 CCCGAGGC
65 CCCGAGGC
*
111438644 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAA
111438694 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
71 7 0.07
72 68 0.65
73 30 0.29
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:111447192 original size:12 final size:12
Alignment explanation
Indices: 111447172--111447207 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
111447162 TGGAATATGC
*
111447172 AATGTATGAATG
1 AATGCATGAATG
111447184 AATGCATGAATG
1 AATGCATGAATG
111447196 AATGCATGAATG
1 AATGCATGAATG
111447208 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:111453405 original size:64 final size:64
Alignment explanation
Indices: 111453332--111453542 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
111453322 CTGGGCCAGA
*
111453332 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
111453396 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
111453458 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
111453469 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
111453533 GCCCATTTCA
1 GCCCATTTCA
111453543 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:111453506 original size:137 final size:137
Alignment explanation
Indices: 111453298--111453584 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
111453288 CTATTGGCCT
**
111453298 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
111453363 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
111453428 CATATGC
131 CATATGC
111453435 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
111453500 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
111453565 CATATGC
131 CATATGC
111453572 AAGCCCATTTGGG
1 AAGCCCATTTGGG
111453585 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:111455416 original size:25 final size:26
Alignment explanation
Indices: 111455359--111455466 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
111455349 CATGAAATTC
*
111455359 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
111455385 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
111455410 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111455436 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111455461 TTATCA
1 TTATCA
111455467 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 47 0.59
26 33 0.41
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:111455439 original size:51 final size:51
Alignment explanation
Indices: 111455359--111455466 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
111455349 CATGAAATTC
111455359 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATG-AACATTTACCTAACCTA
* *
111455410 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
111455461 TTATCA
1 TTATCA
111455467 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 15 0.28
51 39 0.72
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
Found at i:111459278 original size:64 final size:64
Alignment explanation
Indices: 111459205--111459415 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
111459195 CTGGGCCAGA
*
111459205 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
111459269 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
111459331 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
111459342 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
111459406 GCCCATTTCA
1 GCCCATTTCA
111459416 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:111459379 original size:137 final size:137
Alignment explanation
Indices: 111459171--111459457 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
111459161 CTATTGGCCT
**
111459171 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
111459236 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
111459301 CATATGC
131 CATATGC
111459308 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
111459373 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
111459438 CATATGC
131 CATATGC
111459445 AAGCCCATTTGGG
1 AAGCCCATTTGGG
111459458 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:111461263 original size:26 final size:26
Alignment explanation
Indices: 111461227--111461336 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
111461217 CATGAAATTC
*
111461227 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
111461253 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
111461279 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111461305 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111461331 TTATCA
1 TTATCA
111461337 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:111464227 original size:2 final size:2
Alignment explanation
Indices: 111464220--111464265 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
111464210 AAAAGCAAGT
111464220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111464262 TA TA
1 TA TA
111464266 AGAAACAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111473759 original size:2 final size:2
Alignment explanation
Indices: 111473752--111473789 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
111473742 GCTAACATTC
111473752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111473790 GACACGGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111475217 original size:29 final size:28
Alignment explanation
Indices: 111475184--111475240 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
111475174 CAACCTTACC
111475184 CATTTTCCA-ATCCACAATATACTATATAT
1 CATTTTCCATATCC-CAATATA-TATATAT
*
111475213 CATTTTCCATGTCCCAATATATATATAT
1 CATTTTCCATATCCCAATATATATATAT
111475241 AAATACATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 16 0.62
30 3 0.12
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (28 bp):
CATTTTCCATATCCCAATATATATATAT
Found at i:111488168 original size:12 final size:12
Alignment explanation
Indices: 111488153--111488178 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111488143 TATAATTCCC
111488153 TTACCAATTTAA
1 TTACCAATTTAA
111488165 TTACCAATTTAA
1 TTACCAATTTAA
111488177 TT
1 TT
111488179 GGTGCATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
TTACCAATTTAA
Found at i:111489864 original size:11 final size:11
Alignment explanation
Indices: 111489848--111489873 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
111489838 CCCTTCAACA
111489848 TTTATTTTTAT
1 TTTATTTTTAT
111489859 TTTATTTTTAT
1 TTTATTTTTAT
111489870 TTTA
1 TTTA
111489874 CATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:111495403 original size:41 final size:41
Alignment explanation
Indices: 111495341--111495421 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
111495331 TAACAAGATG
*
111495341 TTAAAGGTATTATCTAATCAAGGCACTTAGAAAACCAAAGT
1 TTAAAGGTATTATCTAATCAAGACACTTAGAAAACCAAAGT
*
111495382 TTAACGGTATTATCTAATCAAGACACTTAGAAAACCAAAG
1 TTAAAGGTATTATCTAATCAAGACACTTAGAAAACCAAAG
111495422 AAAACAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (41 bp):
TTAAAGGTATTATCTAATCAAGACACTTAGAAAACCAAAGT
Found at i:111507357 original size:5 final size:5
Alignment explanation
Indices: 111507347--111507381 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
111507337 AACCTTTATT
111507347 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
111507382 TAATGGAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:111507867 original size:23 final size:24
Alignment explanation
Indices: 111507819--111507868 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
111507809 TAGATAAAAA
* *
111507819 AATTATGTTTTGGGTTATGGGTTT
1 AATTATGTATTGGGTTATGGGCTT
111507843 AATTAT-TATTGGGTTA-GGGACTT
1 AATTATGTATTGGGTTATGGG-CTT
111507866 AAT
1 AAT
111507869 ATAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 14 0.61
24 6 0.26
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (24 bp):
AATTATGTATTGGGTTATGGGCTT
Found at i:111507940 original size:31 final size:31
Alignment explanation
Indices: 111507872--111507940 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
111507862 ACTTAATATA
111507872 AATATAAATATATATAATTATTATTTAACAT
1 AATATAAATATATATAATTATTATTTAACAT
* *
111507903 ATATATAATTA-ATATAATGT-TTTTTATAACAT
1 A-ATATAAATATATATAAT-TATTATT-TAACAT
111507935 AATATA
1 AATATA
111507941 TTCGGGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
AATATAAATATATATAATTATTATTTAACAT
Found at i:111511437 original size:21 final size:22
Alignment explanation
Indices: 111511387--111511437 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
111511377 TTAATACATG
* *
111511387 ATAAAATTATACTTTTATTTTT
1 ATAAAATTATAATTTTATTTAT
*
111511409 AAAAAATTATAATTTT-TTTAT
1 ATAAAATTATAATTTTATTTAT
111511430 ATAAAATT
1 ATAAAATT
111511438 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAAATTATAATTTTATTTAT
Found at i:111521383 original size:136 final size:135
Alignment explanation
Indices: 111521140--111521389 Score: 351
Period size: 136 Copynumber: 1.8 Consensus size: 135
111521130 TTCATTGGCT
* * * *
111521140 ACTTGAAATCCCCAACCCTAAAACTATCAAAGCCCAACGACACCCCAAAACAGTTATGGGAATAT
1 ACTTGAAATCCCCAAACCTAAAACTACCAAAACCCAACGACACCCCAAAACAGCTATGGGAATAT
* *
111521205 CACGGTGTTCAAGTTCGAGCAGATAAGATAACCGTAGTCAGATTCTGCCTTTTGTCCGATGAGCT
66 CACGGTCTTCAAGTTCGAGCAGATAAGATAACCGTAGCCAGATTCTGCCTTTTGTCCGATGAGCT
111521270 CGGTG
131 CGGTG
* * * *
111521275 ACTTGAAA-CCTCAAACCTGAACACTACCAAAACCCAACGACACCCCAGAACAAGCTCTGGGAAT
1 ACTTGAAATCCCCAAACCT-AAAACTACCAAAACCCAACGACACCCCAAAAC-AGCTATGGGAAT
* *
111521339 GTCACAGG-CTTCAAGTTCGGGCAGATAAGATAACCGTAGCCAGATTCTGCC
64 ATCAC-GGTCTTCAAGTTCGAGCAGATAAGATAACCGTAGCCAGATTCTGCC
111521390 CCACGTCCTG
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
134 8 0.08
135 36 0.36
136 54 0.54
137 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (135 bp):
ACTTGAAATCCCCAAACCTAAAACTACCAAAACCCAACGACACCCCAAAACAGCTATGGGAATAT
CACGGTCTTCAAGTTCGAGCAGATAAGATAACCGTAGCCAGATTCTGCCTTTTGTCCGATGAGCT
CGGTG
Found at i:111524870 original size:8 final size:8
Alignment explanation
Indices: 111524857--111524889 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
111524847 ATATCAAATT
111524857 ATAATAAA
1 ATAATAAA
111524865 ATAAT-AA
1 ATAATAAA
*
111524872 ATAATGAA
1 ATAATAAA
111524880 ATAATAAA
1 ATAATAAA
111524888 AT
1 AT
111524890 CATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (8 bp):
ATAATAAA
Found at i:111524881 original size:15 final size:15
Alignment explanation
Indices: 111524857--111524887 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111524847 ATATCAAATT
111524857 ATAATAAAATAATAA
1 ATAATAAAATAATAA
*
111524872 ATAATGAAATAATAA
1 ATAATAAAATAATAA
111524887 A
1 A
111524888 ATCATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAATAAAATAATAA
Found at i:111532482 original size:12 final size:13
Alignment explanation
Indices: 111532442--111532475 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
111532432 AAACAGAAGC
*
111532442 TGAAAAATGAGTA
1 TGAAAAATGAATA
111532455 TGAAAAATGAATA
1 TGAAAAATGAATA
111532468 TGAAAAAT
1 TGAAAAAT
111532476 ATTATGATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (13 bp):
TGAAAAATGAATA
Found at i:111535968 original size:126 final size:125
Alignment explanation
Indices: 111535808--111536050 Score: 441
Period size: 126 Copynumber: 1.9 Consensus size: 125
111535798 CTTTTAGCCT
111535808 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
111535873 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATT-TTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
111535934 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
111535999 CTTCGAATTTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAG
111536051 AAGATCAATG
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
125 40 0.35
126 73 0.65
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:111536184 original size:13 final size:12
Alignment explanation
Indices: 111536152--111536201 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
111536142 AACCATATAT
111536152 AAATAA-TAA-A
1 AAATAATTAATA
111536162 AAATAA-TAATA
1 AAATAATTAATA
*
111536173 ATAGTAATTAATA
1 A-AATAATTAATA
111536186 GAAATAATTAATA
1 -AAATAATTAATA
111536199 AAA
1 AAA
111536202 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:111536530 original size:14 final size:14
Alignment explanation
Indices: 111536511--111536541 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
111536501 ATATATTTAC
*
111536511 ATAATAAATATATA
1 ATAATAAATAAATA
111536525 ATAATAAATAAATA
1 ATAATAAATAAATA
111536539 ATA
1 ATA
111536542 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:111536542 original size:19 final size:18
Alignment explanation
Indices: 111536513--111536549 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
111536503 ATATTTACAT
111536513 AATAAATATATAATAATA
1 AATAAATATATAATAATA
111536531 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
111536550 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:111537003 original size:37 final size:37
Alignment explanation
Indices: 111536953--111537023 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
111536943 TGGAGTTAGC
111536953 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
111536990 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
111537024 AATGGAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.30
Consensus pattern (37 bp):
GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
Found at i:111537035 original size:29 final size:29
Alignment explanation
Indices: 111536991--111537052 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
111536981 TAGGGTGTGG
*
111536991 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTAATGGAGGTAGTGG-TCGGTTTAGTA
* *
111537020 GGGTAATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTAATGGAGGTAGTGGTCGGTTTAGTA
111537049 GGGT
1 GGGT
111537053 GTTTAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.18, C:0.02, G:0.48, T:0.32
Consensus pattern (29 bp):
GGGTAATGGAGGTAGTGGTCGGTTTAGTA
Found at i:111537486 original size:133 final size:134
Alignment explanation
Indices: 111537266--111538110 Score: 1202
Period size: 133 Copynumber: 6.3 Consensus size: 134
111537256 GATCTGCTGT
* * ** *
111537266 AATTTGATCTGTTTTACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
*
111537331 TGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT
65 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
111537395 -CATCAA
130 GC--CAA
** *
111537401 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGTA-TATAGCCTGCTCCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
*
111537465 GCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTC
66 GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT-
*
111537529 ACCAA
130 GCCAA
* * *
111537534 AACTTGATCTGC-TCTGCTCCTGCTCAGCGAAGATAAGAACTAGTA-TTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTC-ACTCCTGCTCAGCGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCC
111537597 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
65 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
111537662 GCCAA
130 GCCAA
*
111537667 AATTTGATCTGCTTCACTCATGCTCAGCGAAGATAAGATCTAGTA-TTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
* * * *
111537731 GCTCACTGAAGATAAGGCTGGTGGCTGAAGTCTGGTCCATTGCCGATATATGGAGATAAGACTTG
66 GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTG
111537796 CCAA
131 CCAA
* *
111537800 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGCCTGCTCCACTCT
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
* * * **
111537865 TACTCAGTAAAGATAAGGCTGGTGGCAGGGATCTGCTCCATTGCCGATACATGGAGATAAGACTT
65 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
111537930 GCCAA
130 GCCAA
* * * *
111537935 ATTTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGTCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
** * * * * * **
111538000 TGCTCAGTGAAGATAAGGCTGGTGATTGGAATTTGCTCCATCGTCGGTATGTGGAGATAAGA-TT
65 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
111538064 CGCCAA
130 -GCCAA
*
111538070 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCT
1 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCT
111538111 GTCAAAATTT
Statistics
Matches: 650, Mismatches: 52, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
132 1 0.00
133 371 0.57
134 6 0.01
135 272 0.42
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTG
CCAA
Found at i:111537863 original size:45 final size:46
Alignment explanation
Indices: 111537805--111538016 Score: 150
Period size: 45 Copynumber: 4.7 Consensus size: 46
111537795 GCCAAAATTT
*
111537805 GATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
* * * * * * * ****
111537851 G-CCTGCTCCACTCTTACTCAGTAAAGATAAG-GCTGGT-GGCAGG
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
* * * * * ** *
111537894 GATCTGCTCCATTGCC-GATACA-TGGAGATAAGA-CTTGCCAAATTTT
1 GATCTGCTCCACT-CCTGCT-CAGTGAAGATAAGATCTAG-TATGTTTA
* *
111537940 GATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
111537986 G-TCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 GATCTGCTCCACTCCTGCTCAGTGAAGATAAG
111538017 GCTGGTGATT
Statistics
Matches: 118, Mismatches: 39, Indels: 19
0.67 0.22 0.11
Matches are distributed among these distances:
43 2 0.02
44 25 0.21
45 59 0.50
46 29 0.25
47 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (46 bp):
GATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTA
Found at i:111539522 original size:13 final size:13
Alignment explanation
Indices: 111539481--111539529 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
111539471 CTCTTTTTTG
*
111539481 TTTTTCTC-TTCG
1 TTTTTCTCTTTCC
*
111539493 TTTTCCT-TTTCC
1 TTTTTCTCTTTCC
111539505 TTTTTTCTCTTTCC
1 -TTTTTCTCTTTCC
111539519 TTTTTCTCTTT
1 TTTTTCTCTTT
111539530 TTTTTTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 9 0.29
13 17 0.55
14 5 0.16
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTTCTCTTTCC
Found at i:111539533 original size:25 final size:26
Alignment explanation
Indices: 111539468--111539535 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
111539458 TTTTCTTTTC
* *
111539468 TTTCTCTTTTTTGTTTTTCTCTTCGTT
1 TTTCTCTTTTTT-TTTCTCTCTTCCTT
*
111539495 TTCCT-TTTCCTTTTTTCTCT-TTCCTT
1 TTTCTCTTT--TTTTTTCTCTCTTCCTT
111539521 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
111539536 TGAAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
25 6 0.18
26 12 0.35
27 13 0.38
28 3 0.09
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTCTCTTTTTTTTTCTCTCTTCCTT
Found at i:111539535 original size:13 final size:13
Alignment explanation
Indices: 111539463--111539536 Score: 53
Period size: 13 Copynumber: 5.6 Consensus size: 13
111539453 TTTGCTTTTC
*
111539463 TTTTCTTTCTCTT
1 TTTTTTTTCTCTT
*
111539476 TTTTGTTTT-TCTC
1 TTTT-TTTTCTCTT
**
111539489 TTCGTTTTC-CTT
1 TTTTTTTTCTCTT
111539501 TTCCTTTTTTCTCTT
1 TT--TTTTTTCTCTT
**
111539516 TCCTTTTTCTCTT
1 TTTTTTTTCTCTT
111539529 TTTTTTTT
1 TTTTTTTT
111539537 GAAAGTGAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
12 8 0.18
13 25 0.56
14 8 0.18
15 4 0.09
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:111542201 original size:47 final size:47
Alignment explanation
Indices: 111542137--111542247 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
111542127 GACATTGAGT
*
111542137 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
111542184 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
111542231 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
111542248 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:111549454 original size:47 final size:47
Alignment explanation
Indices: 111549390--111549500 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
111549380 GACATTGAGT
* *
111549390 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
111549437 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
111549484 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
111549501 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:111551818 original size:21 final size:21
Alignment explanation
Indices: 111551788--111551827 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
111551778 CATCATGTTG
*
111551788 TTCTGTGACTCCAGCATTTTT
1 TTCTGGGACTCCAGCATTTTT
111551809 TTCTGGGACTCCAGCATTT
1 TTCTGGGACTCCAGCATTT
111551828 GATCCCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TTCTGGGACTCCAGCATTTTT
Found at i:111555496 original size:126 final size:126
Alignment explanation
Indices: 111555336--111555574 Score: 442
Period size: 126 Copynumber: 1.9 Consensus size: 126
111555326 GTTTTAGCCT
* *
111555336 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTATGTTAGGGCATGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
111555401 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
*
111555462 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
111555527 CTTCGAATTCTTTAAATACCGAATATTGCCTTTATTTTGAAAATTTTT
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTT
111555575 AAAAGAAGAT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
Found at i:111555714 original size:13 final size:12
Alignment explanation
Indices: 111555682--111555731 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
111555672 AACCATATAT
111555682 AAATAA-TAA-A
1 AAATAATTAATA
111555692 AAATAA-TAATA
1 AAATAATTAATA
*
111555703 ATAGTAATTAATA
1 A-AATAATTAATA
111555716 GAAATAATTAATA
1 -AAATAATTAATA
111555729 AAA
1 AAA
111555732 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:111556072 original size:15 final size:14
Alignment explanation
Indices: 111556018--111556079 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 14
111556008 TAACTTCGCT
111556018 TAAATATATATATATA
1 TAAATATATA-ATA-A
* *
111556034 TATATATTTACATAA
1 TAAATATATA-ATAA
111556049 TAAATATATAATAA
1 TAAATATATAATAA
111556063 TAAATAATATAATAA
1 TAAAT-ATATAATAA
111556078 TA
1 TA
111556080 TGAAACATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
14 9 0.22
15 20 0.50
16 11 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATAATAA
Found at i:111556076 original size:8 final size:8
Alignment explanation
Indices: 111556045--111556080 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
111556035 ATATATTTAC
111556045 ATAATA-A
1 ATAATATA
111556052 AT-ATATA
1 ATAATATA
111556059 ATAATA-A
1 ATAATATA
111556066 ATAATATA
1 ATAATATA
111556074 ATAATAT
1 ATAATAT
111556081 GAAACATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.12
7 12 0.46
8 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:111556124 original size:17 final size:17
Alignment explanation
Indices: 111556102--111556135 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
111556092 CAAATTAATT
111556102 AAAATA-ATAGAAAATAA
1 AAAATATATA-AAAATAA
111556119 AAAATATATAAAAATAA
1 AAAATATATAAAAATAA
111556136 TGAGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATATATAAAAATAA
Found at i:111556547 original size:37 final size:37
Alignment explanation
Indices: 111556481--111556552 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
111556471 TGGAGTTAGC
*
111556481 GGGGGTGATGGAATTAGTGGATGGTTTAGTAGGGTAT
1 GGGGGTGATGGAATTAGTGGATGGCTTAGTAGGGTAT
* *
111556518 GGGGGTGATGGAGTTAGTGG-TCGGCTTAGTGGGGT
1 GGGGGTGATGGAATTAGTGGAT-GGCTTAGTAGGGT
111556553 GTTTAATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.31
Consensus pattern (37 bp):
GGGGGTGATGGAATTAGTGGATGGCTTAGTAGGGTAT
Found at i:111557111 original size:16 final size:16
Alignment explanation
Indices: 111557090--111557123 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
111557080 TAATAAAATG
111557090 ATTAATTTATTTTTTT
1 ATTAATTTATTTTTTT
111557106 ATTAATTTATTTTTTT
1 ATTAATTTATTTTTTT
111557122 AT
1 AT
111557124 CTTACATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTAATTTATTTTTTT
Found at i:111561175 original size:2 final size:2
Alignment explanation
Indices: 111561168--111561199 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
111561158 GAAATGCAGC
111561168 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111561200 GCATGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:111570224 original size:15 final size:16
Alignment explanation
Indices: 111570196--111570229 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
111570186 TGTCAAATAC
111570196 AAATGATCTAAATTTG
1 AAATGATCTAAATTTG
*
111570212 AAATGA-CTCAATTTG
1 AAATGATCTAAATTTG
111570227 AAA
1 AAA
111570230 AATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (16 bp):
AAATGATCTAAATTTG
Found at i:111572424 original size:2 final size:2
Alignment explanation
Indices: 111572419--111572443 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111572409 TGTGTGTATG
111572419 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111572444 GAAGAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111577060 original size:22 final size:23
Alignment explanation
Indices: 111577025--111577073 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
111577015 TAAATTTAAT
*
111577025 ATTATACCTTTAAAAAAACTTCAA
1 ATTATACCTTTAAAAAAA-GTCAA
111577049 ATTAT-CC-TTAAAAAAAGTCAA
1 ATTATACCTTTAAAAAAAGTCAA
111577070 ATTA
1 ATTA
111577074 AGTGATCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 2 0.08
24 5 0.21
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTATACCTTTAAAAAAAGTCAA
Found at i:111582630 original size:161 final size:162
Alignment explanation
Indices: 111582353--111582644 Score: 392
Period size: 161 Copynumber: 1.8 Consensus size: 162
111582343 CAGTTCATTT
* * * * * * *
111582353 GGGTGCCAGTCGAAGTTGAATGAGGTCTTTCGAGTTTTGTCATTTAATCTAGCACTTGATTTGGG
1 GGGTGCCAGTCGAAATTCAATCAGGTCTTTCAAGTTTTGTCATTCAATCTAGCACTTGAGTAGGG
* * * *
111582418 GTTATTTTGGGTTGCTTATTCGAGTCATTTTGAGATTGAATCATTTTGGGTTCATGTCATTTCAA
66 GTCATTTTGGGTTACTTATTCAAGTCATTTCGAGATTGAATCATTTTGGGTTCATGTCATTTCAA
111582483 GTTTAGACCATTTTGGACCCAAGTGATCATCC
131 GTTTAGACCATTTTGGACCCAAGTGATCATCC
* *
111582515 GGGTGCCAGTCGAAATTCAA-CAGGTCATTTCAAGTTTTGTCATTCAATTTGGCACTCT-AGTAG
1 GGGTGCCAGTCGAAATTCAATCAGGTC-TTTCAAGTTTTGTCATTCAATCTAGCACT-TGAGTAG
* * * *
111582578 GGGTCA-TTTGGGTTACTTGTTCAAGTCATTTCGAGTTTGGATTATTTTGGGTTCATGTCATTTC
64 GGGTCATTTTGGGTTACTTATTCAAGTCATTTCGAGATTGAATCATTTTGGGTTCATGTCATTTC
111582642 AAG
129 AAG
111582645 ATCAAAACAT
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
161 59 0.53
162 51 0.46
163 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (162 bp):
GGGTGCCAGTCGAAATTCAATCAGGTCTTTCAAGTTTTGTCATTCAATCTAGCACTTGAGTAGGG
GTCATTTTGGGTTACTTATTCAAGTCATTTCGAGATTGAATCATTTTGGGTTCATGTCATTTCAA
GTTTAGACCATTTTGGACCCAAGTGATCATCC
Found at i:111584089 original size:16 final size:16
Alignment explanation
Indices: 111584068--111584106 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
111584058 AGCTTCAAAT
111584068 AATCCAAA-TTAGAAAC
1 AATCCAAACTTA-AAAC
111584084 AATCCAAACTTAAAAC
1 AATCCAAACTTAAAAC
111584100 AA-CCAAA
1 AATCCAAA
111584107 AATTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.59, C:0.23, G:0.03, T:0.15
Consensus pattern (16 bp):
AATCCAAACTTAAAAC
Found at i:111592116 original size:34 final size:34
Alignment explanation
Indices: 111592078--111592144 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
111592068 GTTACTTAAA
*
111592078 ACATGAGAAGATTTCTGAGAAA-TTAAAACCTACG
1 ACATGAGAAGATTTCT-AAAAAGTTAAAACCTACG
111592112 ACATGAGAAGATTTCTAAAAAGTTAAAACCTAC
1 ACATGAGAAGATTTCTAAAAAGTTAAAACCTAC
111592145 AAATAGTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 4 0.13
34 27 0.87
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (34 bp):
ACATGAGAAGATTTCTAAAAAGTTAAAACCTACG
Found at i:111592928 original size:29 final size:30
Alignment explanation
Indices: 111592871--111592936 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
111592861 ATTTAGTTTT
* * *
111592871 AATTGATTCTTTTTAGTAGTATAGGGACTA
1 AATTGATTCTTTTTAATAGTAGAGAGACTA
111592901 AATTGATTC-TTTTAATAGTAGAGAGACTA
1 AATTGATTCTTTTTAATAGTAGAGAGACTA
*
111592930 ATTTGAT
1 AATTGAT
111592937 CAAGTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (30 bp):
AATTGATTCTTTTTAATAGTAGAGAGACTA
Found at i:111595547 original size:16 final size:16
Alignment explanation
Indices: 111595526--111595556 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111595516 ATTCGAGTTT
111595526 AAAAATAATCCAAATA
1 AAAAATAATCCAAATA
*
111595542 AAAAATAATTCAAAT
1 AAAAATAATCCAAAT
111595557 TCAGAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAATCCAAATA
Found at i:111598008 original size:18 final size:18
Alignment explanation
Indices: 111597974--111598008 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
111597964 TTCTGTTCGT
111597974 TTTAATTTTATAGATTTA
1 TTTAATTTTATAGATTTA
111597992 TTTATATTTTATA-ATTT
1 TTTA-ATTTTATAGATTT
111598009 TTGGAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTAATTTTATAGATTTA
Found at i:111598050 original size:20 final size:22
Alignment explanation
Indices: 111598019--111598058 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
111598009 TTGGAATTAT
111598019 AATTTTTATTTATG-GTTTTAA
1 AATTTTTATTTATGTGTTTTAA
111598040 AATTTTT-TTTATGTGTTTT
1 AATTTTTATTTATGTGTTTT
111598059 TAGATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (22 bp):
AATTTTTATTTATGTGTTTTAA
Found at i:111601816 original size:24 final size:24
Alignment explanation
Indices: 111601761--111601810 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
111601751 GATAAACATA
111601761 CACACATTAAATTATAAACCAAAT
1 CACACATTAAATTATAAACCAAAT
111601785 CACACATTAAATTATAAACCAAAT
1 CACACATTAAATTATAAACCAAAT
111601809 CA
1 CA
111601811 AGCATTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (24 bp):
CACACATTAAATTATAAACCAAAT
Found at i:111602461 original size:18 final size:18
Alignment explanation
Indices: 111602427--111602464 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
111602417 TCAACAAACA
*
111602427 ATTTAATAATTATAAAAT
1 ATTTAATAATTAAAAAAT
111602445 ATTTAA-AATTTAAAAAAT
1 ATTTAATAA-TTAAAAAAT
111602463 AT
1 AT
111602465 AAAAAGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAATTAAAAAAT
Found at i:111603329 original size:31 final size:31
Alignment explanation
Indices: 111603276--111603339 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
111603266 TTACAAAATG
* * *
111603276 GTCATTGAATTATTCGAAAGTTTTCATTTAA
1 GTCACTGAACTATTCGAAAGTTTTCATTCAA
* *
111603307 GTCACTGAACTATTTGAAAGTTTTTATTCAA
1 GTCACTGAACTATTCGAAAGTTTTCATTCAA
111603338 GT
1 GT
111603340 TACTAGGGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (31 bp):
GTCACTGAACTATTCGAAAGTTTTCATTCAA
Found at i:111604082 original size:34 final size:34
Alignment explanation
Indices: 111604043--111604112 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
111604033 TCAAAGATAC
111604043 AAACAAAGGCATTGTGTCACAACAACACATTAGA
1 AAACAAAGGCATTGTGTCACAACAACACATTAGA
111604077 AAACAAAGGCATTGTGTCACAACAACACATTAGA
1 AAACAAAGGCATTGTGTCACAACAACACATTAGA
111604111 AA
1 AA
111604113 TGTTGATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (34 bp):
AAACAAAGGCATTGTGTCACAACAACACATTAGA
Found at i:111609533 original size:33 final size:30
Alignment explanation
Indices: 111609495--111609570 Score: 109
Period size: 30 Copynumber: 2.4 Consensus size: 30
111609485 TCTTAAAAAA
111609495 AACTTTCAATTGTAGAAGAGA-AGGAAAAAATGG
1 AACTTTCAATTGTAGAA-A-ACA--AAAAAATGG
111609528 AACTTTCAATTGTAGAAAACAAAAAAATGG
1 AACTTTCAATTGTAGAAAACAAAAAAATGG
111609558 AACTTTCAATTGT
1 AACTTTCAATTGT
111609571 TGTAGGTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
30 22 0.52
31 1 0.02
32 2 0.05
33 17 0.40
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.26
Consensus pattern (30 bp):
AACTTTCAATTGTAGAAAACAAAAAAATGG
Found at i:111610776 original size:14 final size:14
Alignment explanation
Indices: 111610757--111610785 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111610747 AGTTTGGTTA
111610757 TTTCAAGCTTAGAT
1 TTTCAAGCTTAGAT
111610771 TTTCAAGCTTAGAT
1 TTTCAAGCTTAGAT
111610785 T
1 T
111610786 ATTAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTTCAAGCTTAGAT
Found at i:111618682 original size:8 final size:8
Alignment explanation
Indices: 111618669--111618705 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
111618659 TTATGTTTAG
111618669 TATATTAT
1 TATATTAT
111618677 TATATTAT
1 TATATTAT
111618685 TATATTAT
1 TATATTAT
111618693 TATATTAT
1 TATATTAT
111618701 TATAT
1 TATAT
111618706 AATAAAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:111618738 original size:5 final size:5
Alignment explanation
Indices: 111618728--111618769 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
111618718 TTATGTTTTA
111618728 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
111618770 AAACTAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:111619112 original size:15 final size:15
Alignment explanation
Indices: 111619092--111619148 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
111619082 CGATGAATTT
*
111619092 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
111619107 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
111619122 ATTGAAATTATATTG
1 ATTGAAATTATATTG
111619137 ATTG-AATTATAT
1 ATTGAAATTATAT
111619149 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:111619568 original size:21 final size:21
Alignment explanation
Indices: 111619533--111619649 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
111619523 AGGCACTTTA
111619533 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
111619556 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
111619577 TGTGTCGTATCAGGCACCTTG
1 TGTGTCGTATCAGGCACCTCG
*
111619598 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
111619619 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
111619640 TGTGTCGTAT
1 TGTGTCGTAT
111619650 ACTGATCAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 75 0.89
23 9 0.11
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:111619621 original size:63 final size:64
Alignment explanation
Indices: 111619520--111619649 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 64
111619510 GGCTTTACCG
* * *
111619520 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTATGTGTCG-ATATCAGGCACCTCGTGTGTCGTATCAGGCACCTCATGTGTCGT
* * * * *
111619585 ATCAGGCACCTTGTGTGTC-ATATCAGGCACCTCGTGTGTCGTTTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGATATCAGGCACCTCGTGTGTCGTATCAGGCACCTCATGTGTCGT
111619648 AT
1 AT
111619650 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 40 0.70
65 17 0.30
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.35
Consensus pattern (64 bp):
ATCAGGCACCTTATGTGTCGATATCAGGCACCTCGTGTGTCGTATCAGGCACCTCATGTGTCGT
Found at i:111621696 original size:42 final size:42
Alignment explanation
Indices: 111621650--111621753 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 42
111621640 GATCAGGGAC
*
111621650 ATGGGCGTGTACCCAGGCCGTGTGA-GCCACACGGGCAAGGAA
1 ATGGGCGTGTACCCAGGCCGTGT-ATGCCACACAGGCAAGGAA
*
111621692 ATGGGC----ACCCAGGCAGTGTATGCCACACAGGCAAGGAA
1 ATGGGCGTGTACCCAGGCCGTGTATGCCACACAGGCAAGGAA
* **
111621730 ATGGGTGTGTGTCCAGGCCGTGTA
1 ATGGGCGTGTACCCAGGCCGTGTA
111621754 ACTCATTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.02
38 33 0.65
42 17 0.33
ACGTcount: A:0.24, C:0.24, G:0.37, T:0.15
Consensus pattern (42 bp):
ATGGGCGTGTACCCAGGCCGTGTATGCCACACAGGCAAGGAA
Found at i:111621879 original size:104 final size:105
Alignment explanation
Indices: 111621699--111621958 Score: 318
Period size: 104 Copynumber: 2.5 Consensus size: 105
111621689 GAAATGGGCA
* * *
111621699 CCCAGGCAGTGT-ATGCCACACAGGCAAGGAAATGGGTGTGTGTCCAGGCCGTGTAACTCATTGT
1 CCCAGGCCGTGTGA-GCCACACAGGCAAGGAAATGGGCGTGTGTCCAGGCCGTGTAACTCACTGT
*
111621763 TTACGCTTTAGAACCACACGACCA-A-AGACATG-GACGTGTG
65 TTACGATTTAGAACCACACGACCAGACA-ACATGTG-CGTGTG
* * * * *
111621803 CCCAGGCCGTGTGAGCCACACGGGTAAGGATATTGGCGTGTGTCCAGGTCGTGTAACTCACTGTT
1 CCCAGGCCGTGTGAGCCACACAGGCAAGGAAATGGGCGTGTGTCCAGGCCGTGTAACTCACTGTT
*
111621868 TACGATTTAGAACCACACGAGCAGACAACATGTGCGTGTG
66 TACGATTTAGAACCACACGACCAGACAACATGTGCGTGTG
* * * *
111621908 -TCAGGCCGTGTGAGCCACACAGGCAAGGACATAGGC--ATGTCCAGGCCGTGT
1 CCCAGGCCGTGTGAGCCACACAGGCAAGGAAATGGGCGTGTGTCCAGGCCGTGT
111621959 GGCATATGAA
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
102 13 0.10
104 107 0.79
105 13 0.10
106 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (105 bp):
CCCAGGCCGTGTGAGCCACACAGGCAAGGAAATGGGCGTGTGTCCAGGCCGTGTAACTCACTGTT
TACGATTTAGAACCACACGACCAGACAACATGTGCGTGTG
Found at i:111622101 original size:22 final size:22
Alignment explanation
Indices: 111622058--111622101 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
111622048 ATTTGATTGT
*
111622058 ATGAGGACTATCTGATGGCCTG
1 ATGAGGACTATCTGATGACCTG
*
111622080 ATGATGGACTATTTG-TGACCTG
1 ATGA-GGACTATCTGATGACCTG
111622102 TACGTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.32
Consensus pattern (22 bp):
ATGAGGACTATCTGATGACCTG
Found at i:111622783 original size:22 final size:22
Alignment explanation
Indices: 111622752--111622799 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
111622742 AAAACTATTT
111622752 TTTATCTTTTACATAAAATCAA
1 TTTATCTTTTACATAAAATCAA
*
111622774 TTTATGTTTTACATAAAATCAA
1 TTTATCTTTTACATAAAATCAA
111622796 TTTA
1 TTTA
111622800 AATCAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTATCTTTTACATAAAATCAA
Found at i:111622839 original size:14 final size:13
Alignment explanation
Indices: 111622820--111622866 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
111622810 GACTTTAATT
111622820 TATTTTTAATATAA
1 TATTTTT-ATATAA
111622834 TATTTTTATA-AA
1 TATTTTTATATAA
*
111622846 TATATATTATATAA
1 TAT-TTTTATATAA
111622860 TATTTTT
1 TATTTTT
111622867 TATCCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 5 0.17
13 12 0.41
14 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:111624427 original size:16 final size:17
Alignment explanation
Indices: 111624398--111624430 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
111624388 TTCAACTAAT
*
111624398 TTTTTAATATATTTTTA
1 TTTTTAATAAATTTTTA
111624415 TTTTT-ATAAATTTTTA
1 TTTTTAATAAATTTTTA
111624431 ATAATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAATAAATTTTTA
Found at i:111626642 original size:14 final size:14
Alignment explanation
Indices: 111626623--111626651 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111626613 AAAAGTTGAC
111626623 TAATTAAATAGCTT
1 TAATTAAATAGCTT
111626637 TAATTAAATAGCTT
1 TAATTAAATAGCTT
111626651 T
1 T
111626652 GTTGTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATTAAATAGCTT
Found at i:111631816 original size:29 final size:29
Alignment explanation
Indices: 111631764--111631833 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
111631754 AAACGTACAA
*
111631764 ACATACAAAGTAA-TAATTAAATAATGCATG
1 ACATACAAA--AAGTAATAAAATAATGCATG
* *
111631794 ATATATAAAAAGTAATAAAATAATGCATG
1 ACATACAAAAAGTAATAAAATAATGCATG
111631823 ACATACAAAAA
1 ACATACAAAAA
111631834 AGAGTACTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 25 0.74
30 7 0.21
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (29 bp):
ACATACAAAAAGTAATAAAATAATGCATG
Found at i:111632477 original size:3 final size:3
Alignment explanation
Indices: 111632469--111632518 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
111632459 CAAGTAAGAT
*
111632469 ATA ATA ATA ATA ATA ATA AT- ATA A-A ATA ATA AT- GTA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111632513 ATA ATA
1 ATA ATA
111632519 GTTTGTGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 7 0.17
3 34 0.83
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111632498 original size:13 final size:13
Alignment explanation
Indices: 111632469--111632515 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
111632459 CAAGTAAGAT
*
111632469 ATAATAATA-ATA
1 ATAATAATATAAA
111632481 ATAATAATATAAA
1 ATAATAATATAAA
*
111632494 ATAATAATGTAAA
1 ATAATAATATAAA
111632507 ATAATAATA
1 ATAATAATA
111632516 ATAGTTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:111635398 original size:53 final size:53
Alignment explanation
Indices: 111635257--111635407 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
111635247 ACAAGTGTGC
* **
111635257 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
111635310 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
111635363 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
111635408 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:111651411 original size:34 final size:33
Alignment explanation
Indices: 111651318--111651414 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
111651308 ATTTTGAGTA
* *
111651318 CCTCTTTTAAAGATTTTAAAATTTTAATTAGAC
1 CCTCTTTCAAAAATTTTAAAATTTTAATTAGAC
* *
111651351 CCTTTTTCAAAAGTTTTAAAATTTTAATTAGAC
1 CCTCTTTCAAAAATTTTAAAATTTTAATTAGAC
111651384 CCTCTTTCAAAAATTTTGAAAATTTTAATTA
1 CCTCTTTCAAAAATTTT-AAAATTTTAATTA
111651415 AACCTTTCAG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.77
34 13 0.23
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.45
Consensus pattern (33 bp):
CCTCTTTCAAAAATTTTAAAATTTTAATTAGAC
Found at i:111652129 original size:43 final size:44
Alignment explanation
Indices: 111652064--111652150 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
111652054 ATTCTATTAC
* *
111652064 GTGTTTAGTTTTTTTTTAAGAATTAGTGGTAAGATTCATTAAAT
1 GTGTTTAGTTTTTTCTTAAGAATTAGTGATAAGATTCATTAAAT
111652108 GTGTTTAG-TTTTTCTTAAGAATTAGTGATAAGATTCATTAAAT
1 GTGTTTAGTTTTTTCTTAAGAATTAGTGATAAGATTCATTAAAT
111652151 TTTTAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.48
Consensus pattern (44 bp):
GTGTTTAGTTTTTTCTTAAGAATTAGTGATAAGATTCATTAAAT
Found at i:111652611 original size:2 final size:2
Alignment explanation
Indices: 111652604--111652628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111652594 ACTGTTTTCT
111652604 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111652629 TCTCTCCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111653241 original size:12 final size:12
Alignment explanation
Indices: 111653220--111653256 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
111653210 GTTATTTCCA
111653220 TTTCCACCGCCG
1 TTTCCACCGCCG
*
111653232 TTTGCACCGCCG
1 TTTCCACCGCCG
*
111653244 TTTCCACCACCG
1 TTTCCACCGCCG
111653256 T
1 T
111653257 CATCTTCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.11, C:0.46, G:0.16, T:0.27
Consensus pattern (12 bp):
TTTCCACCGCCG
Found at i:111653899 original size:2 final size:2
Alignment explanation
Indices: 111653892--111653921 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
111653882 AACTTAGTAG
111653892 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111653922 GTAAGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111655694 original size:42 final size:42
Alignment explanation
Indices: 111655635--111655720 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
111655625 TATTGTTCGA
* *
111655635 ACAATGACATCTTAAACAGATAAAGTCTTAACATCAATGAAT
1 ACAATGACATCTTAAACAGATAAAGTCTCAACATCAATAAAT
*
111655677 ACAATGACATCTTAAACAGTTAAAGTCTCAACATCAATAAAT
1 ACAATGACATCTTAAACAGATAAAGTCTCAACATCAATAAAT
111655719 AC
1 AC
111655721 CTATGTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.26
Consensus pattern (42 bp):
ACAATGACATCTTAAACAGATAAAGTCTCAACATCAATAAAT
Found at i:111656040 original size:48 final size:47
Alignment explanation
Indices: 111655964--111656055 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 47
111655954 GTACTTAAAC
*
111655964 TTAAGATCTCAAAGATTTCAAAGCTTCAATTTTGAAAAAATAAATGTT
1 TTAACATCTCAAAGATTTCAAAGCTTCAATTTTGAAAAAA-AAATGTT
* *
111656012 TTAACATCTCAAAGTTTTCGAAGCTTCAATTTTGAAAAAAAAAT
1 TTAACATCTCAAAGATTTCAAAGCTTCAATTTTGAAAAAAAAAT
111656056 TCAAGAATGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (47 bp):
TTAACATCTCAAAGATTTCAAAGCTTCAATTTTGAAAAAAAAATGTT
Found at i:111660307 original size:11 final size:11
Alignment explanation
Indices: 111660293--111660317 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
111660283 TTCATATTTT
111660293 CTTTTCTTCTC
1 CTTTTCTTCTC
111660304 CTTTTCTTCTC
1 CTTTTCTTCTC
111660315 CTT
1 CTT
111660318 AAGTGGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
CTTTTCTTCTC
Found at i:111662191 original size:76 final size:76
Alignment explanation
Indices: 111662104--111662254 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
111662094 AATTTATTTT
*
111662104 AAAATTTATAATTTTTATGAGGGTTAAAATGTAAAAATTTTATTATAAGTTTAAAATTTTATAAT
1 AAAATTTATAATTTTTATGAGAGTTAAAATGTAAAAATTTTATTATAAGTTTAAAATTTTATAAT
111662169 TTTAAAAAATA
66 TTTAAAAAATA
*
111662180 AAAATTTATAATTTTTATGAGAGTTAAAATGTAAAAATTTTATTGTAAGTTTAAAATTTTATAAT
1 AAAATTTATAATTTTTATGAGAGTTAAAATGTAAAAATTTTATTATAAGTTTAAAATTTTATAAT
111662245 TTTAAAAAAT
66 TTTAAAAAAT
111662255 TAAATTACAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (76 bp):
AAAATTTATAATTTTTATGAGAGTTAAAATGTAAAAATTTTATTATAAGTTTAAAATTTTATAAT
TTTAAAAAATA
Found at i:111662220 original size:25 final size:25
Alignment explanation
Indices: 111662102--111662248 Score: 89
Period size: 25 Copynumber: 5.8 Consensus size: 25
111662092 AGAATTTATT
* * **
111662102 TTAAAATTTATAATTTTTATGAGGG
1 TTAAAATTTAAAAATTTTATGAAAG
* *
111662127 TTAAAATGTAAAAATTTTATTATAAG
1 TTAAAATTTAAAAATTTTATGA-AAG
* * * *
111662153 TTTAAAATTTTATAATTTTA-AAAAA
1 -TTAAAATTTAAAAATTTTATGAAAG
* * * *
111662178 TAAAAATTTATAATTTTTATGAGAG
1 TTAAAATTTAAAAATTTTATGAAAG
* *
111662203 TTAAAATGTAAAAATTTTATTGTAAG
1 TTAAAATTTAAAAATTTTA-TGAAAG
* *
111662229 TTTAAAATTTTATAATTTTA
1 -TTAAAATTTAAAAATTTTA
111662249 AAAAATTAAA
Statistics
Matches: 89, Mismatches: 28, Indels: 8
0.71 0.22 0.06
Matches are distributed among these distances:
24 14 0.16
25 37 0.42
26 6 0.07
27 32 0.36
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAAAATTTAAAAATTTTATGAAAG
Found at i:111662610 original size:12 final size:12
Alignment explanation
Indices: 111662578--111662617 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
111662568 CACGTCAATT
*
111662578 ATTAATAATAAA
1 ATTAATAAAAAA
* *
111662590 ATGAGTAAAAAA
1 ATTAATAAAAAA
111662602 ATTAATAAAAAA
1 ATTAATAAAAAA
111662614 ATTA
1 ATTA
111662618 GTTTACTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (12 bp):
ATTAATAAAAAA
Found at i:111665170 original size:5 final size:5
Alignment explanation
Indices: 111665160--111665192 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
111665150 CAAAATTGTG
111665160 AAAAT AAAAT AAAAT AAAAT AAAGA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAA
111665193 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:111665390 original size:24 final size:24
Alignment explanation
Indices: 111665341--111665392 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111665331 AATCAAAGTG
* *
111665341 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
111665365 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
111665389 AAAT
1 AAAT
111665393 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:111669731 original size:24 final size:23
Alignment explanation
Indices: 111669715--111669759 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
111669705 AATCAAAGTG
111669715 AAATATATTATACTAATAAATGC
1 AAATATATTATACTAATAAATGC
*
111669738 TAAATATATTATACTCATAAAT
1 -AAATATATTATACTAATAAAT
111669760 ATCAAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATATATTATACTAATAAATGC
Found at i:111673407 original size:3 final size:3
Alignment explanation
Indices: 111673399--111673426 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
111673389 AGTAACATTC
111673399 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
111673427 TTTTTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:111673973 original size:20 final size:19
Alignment explanation
Indices: 111673948--111673989 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
111673938 CATAATGATA
* *
111673948 TATATAATATATATTTTTAT
1 TATATAAT-TACATATTTAT
111673968 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
111673987 TAT
1 TAT
111673990 TTTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:111674110 original size:26 final size:26
Alignment explanation
Indices: 111674059--111674110 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
111674049 ATTCTAATAT
*
111674059 TATAAAATCAAAATTATTTTTTATTA
1 TATAAAATCAAAATTATTTTTAATTA
111674085 TATATAAAT-AAAA-TATTTATTAATTA
1 TATA-AAATCAAAATTATTT-TTAATTA
111674111 AAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 14 0.61
27 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TATAAAATCAAAATTATTTTTAATTA
Found at i:111676484 original size:131 final size:131
Alignment explanation
Indices: 111676250--111676843 Score: 828
Period size: 131 Copynumber: 4.6 Consensus size: 131
111676240 AGAAAATTGA
* * * * * * * *
111676250 AACCCAGCAC-AGTAGGGCACGACTCCTCGAATTTCTAGACATCGGACATTGCCTT-GTTTT--A
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAA
* * *
111676311 GAA--TTTAGAGAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAAT
65 GAATTTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAAT
111676374 CAC
129 CAC
*
111676377 AACCCATCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
*
111676442 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAATCG
66 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAATCA
111676507 C
131 C
111676508 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
*
111676573 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAATCG
66 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAATCA
111676638 C
131 C
* * *
111676639 AACCTAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
* * * *
111676704 AATTTTTAAAGTCATGAGTGAAATTCCAAAGGAATGTTCGATTGTTTTGAACAAA-TGAGAAATC
66 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGA-AAATC
111676768 AC
130 AC
** * * ** * *
111676770 AACCCAGCACGATAGGGCACGATT-TTCGAATTTCCAAACACCA-AGTATTGCCTTCGTTTTAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACA-TAGAACATTACCTTCGTTTTGAA
111676833 GAATTTTTAAA
65 GAATTTTTAAA
111676844 TGGATAATTA
Statistics
Matches: 426, Mismatches: 33, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
127 44 0.10
128 6 0.01
130 45 0.11
131 325 0.76
132 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (131 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATAGAACATTACCTTCGTTTTGAAG
AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGAAAATCA
C
Found at i:111686783 original size:22 final size:22
Alignment explanation
Indices: 111686733--111686783 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
111686723 AAACATAAAT
*
111686733 ATTTAATTATTTATATTTATTA
1 ATTTAATTATATATATTTATTA
*
111686755 ATATAATTA-ATATGATTTATTA
1 ATTTAATTATATAT-ATTTATTA
*
111686777 TTTTAAT
1 ATTTAAT
111686784 GTTACTACGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAATTATATATATTTATTA
Found at i:111689454 original size:27 final size:27
Alignment explanation
Indices: 111689423--111689477 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
111689413 GTCTCAGGAA
111689423 AATTTTTCAAACAACGGAAAATATTTT
1 AATTTTTCAAACAACGGAAAATATTTT
111689450 AATTTTTCAAACAACGGAAAATATTTT
1 AATTTTTCAAACAACGGAAAATATTTT
111689477 A
1 A
111689478 TACAGAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (27 bp):
AATTTTTCAAACAACGGAAAATATTTT
Found at i:111694948 original size:15 final size:15
Alignment explanation
Indices: 111694930--111694959 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
111694920 ATAACTAAAG
111694930 AAAAAATA-ATAGAT
1 AAAAAATAGATAGAT
111694944 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
111694959 A
1 A
111694960 GATGAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:111696613 original size:3 final size:3
Alignment explanation
Indices: 111696607--111696632 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
111696597 ACACCAGACC
111696607 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
111696633 AGTTAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:111697614 original size:49 final size:49
Alignment explanation
Indices: 111697557--111697654 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
111697547 TTTATTATTT
111697557 AAAGGAAATTGGATTGCCATTAGTTTCTGCATTTAGGTACTTGGGAAAC
1 AAAGGAAATTGGATTGCCATTAGTTTCTGCATTTAGGTACTTGGGAAAC
111697606 AAAGGAAATTGGATTGCCATTAGTTTCTGCATTTAGGTACTTGGGAAAC
1 AAAGGAAATTGGATTGCCATTAGTTTCTGCATTTAGGTACTTGGGAAAC
111697655 TAAGTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (49 bp):
AAAGGAAATTGGATTGCCATTAGTTTCTGCATTTAGGTACTTGGGAAAC
Found at i:111700543 original size:29 final size:29
Alignment explanation
Indices: 111700477--111700533 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
111700467 TTTTTCTCAC
* *
111700477 CCAACTATAAAAAGTTAGAAAATGGTCAT
1 CCAACTATTAAAAGTTACAAAATGGTCAT
*
111700506 CCAACTATTAAAAGTTACAAATTGGTCA
1 CCAACTATTAAAAGTTACAAAATGGTCA
111700534 ATTAACTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (29 bp):
CCAACTATTAAAAGTTACAAAATGGTCAT
Found at i:111702848 original size:15 final size:15
Alignment explanation
Indices: 111702828--111702857 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
111702818 TCTTCATATA
111702828 AAGTTGGTTGTGGTG
1 AAGTTGGTTGTGGTG
111702843 AAGTTGGTTGTGGTG
1 AAGTTGGTTGTGGTG
111702858 GTGTTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.40
Consensus pattern (15 bp):
AAGTTGGTTGTGGTG
Found at i:111707123 original size:8 final size:8
Alignment explanation
Indices: 111707106--111707136 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
111707096 CTTGGGTTTT
*
111707106 TGTTTAAA
1 TGTTTGAA
111707114 TGTTTGAA
1 TGTTTGAA
111707122 TGTTTGAA
1 TGTTTGAA
111707130 TGTTTGA
1 TGTTTGA
111707137 GTTTTAGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (8 bp):
TGTTTGAA
Found at i:111718732 original size:30 final size:30
Alignment explanation
Indices: 111718676--111718748 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
111718666 AATTAAACTA
* * *
111718676 AATTTTATTTTTTTTATTTATCATATAATT
1 AATTTTATTTTTATGATATATCATATAATT
111718706 AATTTTAATTTTTATGATATAT-ATATATATAT
1 AATTTT-ATTTTTATGATATATCATATA-AT-T
*
111718738 AATATTATTTT
1 AATTTTATTTT
111718749 AGCATCATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 11 0.31
31 19 0.53
32 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
AATTTTATTTTTATGATATATCATATAATT
Found at i:111724063 original size:2 final size:2
Alignment explanation
Indices: 111724056--111724080 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111724046 GAAAATAAAT
111724056 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111724081 GTGGGGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111724337 original size:15 final size:15
Alignment explanation
Indices: 111724317--111724379 Score: 81
Period size: 15 Copynumber: 3.9 Consensus size: 15
111724307 CAGATTGTAT
111724317 TTTACTTCATTTATA
1 TTTACTTCATTTATA
111724332 TTTACTTCATTTACTTGTA
1 TTTACTTCATTTA----TA
111724351 TTTTACTTCATTTATA
1 -TTTACTTCATTTATA
111724367 TTTACTTCATTTA
1 TTTACTTCATTTA
111724380 CTAAAAATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
15 26 0.60
16 2 0.05
19 2 0.05
20 13 0.30
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTACTTCATTTATA
Found at i:111724343 original size:9 final size:9
Alignment explanation
Indices: 111724317--111724381 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
111724307 CAGATTGTAT
111724317 TTTACTTCA
1 TTTACTTCA
111724326 TTTA--T-A
1 TTTACTTCA
111724332 TTTACTTCA
1 TTTACTTCA
*
111724341 TTTACTTGTA
1 TTTACTT-CA
111724351 TTTTACTTCA
1 -TTTACTTCA
111724361 TTTA--T-A
1 TTTACTTCA
111724367 TTTACTTCA
1 TTTACTTCA
111724376 TTTACT
1 TTTACT
111724382 AAAAATGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
6 10 0.22
7 2 0.04
8 2 0.04
9 23 0.50
10 2 0.04
11 7 0.15
ACGTcount: A:0.23, C:0.15, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTACTTCA
Found at i:111724357 original size:20 final size:19
Alignment explanation
Indices: 111724310--111724365 Score: 75
Period size: 15 Copynumber: 3.1 Consensus size: 19
111724300 TCATATTCAG
111724310 ATTGTATTTTACTTCATTT
1 ATTGTATTTTACTTCATTT
111724329 A---TA-TTTACTTCATTT
1 ATTGTATTTTACTTCATTT
111724344 ACTTGTATTTTACTTCATTT
1 A-TTGTATTTTACTTCATTT
111724364 AT
1 AT
111724366 ATTTACTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 13 0.41
16 2 0.06
19 4 0.12
20 13 0.41
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTGTATTTTACTTCATTT
Found at i:111724357 original size:35 final size:35
Alignment explanation
Indices: 111724311--111724381 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
111724301 CATATTCAGA
111724311 TTGTATTTTACTTCATTTATATTTACTTCATTTAC
1 TTGTATTTTACTTCATTTATATTTACTTCATTTAC
111724346 TTGTATTTTACTTCATTTATATTTACTTCATTTAC
1 TTGTATTTTACTTCATTTATATTTACTTCATTTAC
111724381 T
1 T
111724382 AAAAATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.03, T:0.61
Consensus pattern (35 bp):
TTGTATTTTACTTCATTTATATTTACTTCATTTAC
Found at i:111724532 original size:67 final size:67
Alignment explanation
Indices: 111724449--111724596 Score: 235
Period size: 67 Copynumber: 2.2 Consensus size: 67
111724439 GCTCTTCTCT
* *
111724449 TGATTATGAGTTTAGATTTTAAAAATTTTTGA-AAACTAAATTGATCTGATTTAGTGGTTAAATG
1 TGATTATGTGGTTAGA-TTTAAAAATTTTTGACAAACTAAATTGATCTGATTTAGTGGTTAAATG
111724513 TTC
65 TTC
* * *
111724516 TGATTATGTGGTTAGATTTGAAAATTTTTGACAAAGTGAATTGATCTGATTTAGTGGTTAAATGT
1 TGATTATGTGGTTAGATTTAAAAATTTTTGACAAACTAAATTGATCTGATTTAGTGGTTAAATGT
111724581 TC
66 TC
111724583 TGATTATGTGGTTA
1 TGATTATGTGGTTA
111724597 AATGACCTGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
66 14 0.19
67 61 0.81
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (67 bp):
TGATTATGTGGTTAGATTTAAAAATTTTTGACAAACTAAATTGATCTGATTTAGTGGTTAAATGT
TC
Done.