Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 50 of 218
Found at i:15263854 original size:321 final size:319
Alignment explanation
Indices: 15263196--15264153 Score: 1272
Period size: 321 Copynumber: 3.0 Consensus size: 319
15263186 GTTCAAAGTC
* * * * * *
15263196 AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AA--AGAAAGCAGATCTTGCCTTCA
1 AACAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCA
* * * * * *
15263258 TGTA-TCGGCGTGAAGTAGATCAAAG-TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAG
66 TGTACT-GGCGTGAAGTAGATCAAAGAT--ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAG
* *
15263321 ATC-AA--AGAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAATATACAGATCTC
128 ATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACAGATCTC
* **
15263383 GCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCG
193 GCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTCCACATACTGGCG
* * * * * *
15263448 TGAAGTAGATCAAAGATACAGATCTCGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAA
258 CGAAGCAGATCAAAAAAACAGATCTCGCCTTCATATACTGGTCGCGAAGCAGATCGAA-GAAA
*
15263511 AAGTAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTC
1 AA-CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTC
15263576 ATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGAT
65 ATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGAT
* *
15263641 CGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGATACAGATCTCGC
130 CGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACAGATCTCGC
* * *
15263706 CTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAACAGATCTTGTCTCCCCATACTGGTGGC
195 CTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTCCACATACTGG-CGC
* * * * * *
15263771 GAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AA-AGA
259 GAAGCAGATC-AA--AAAAA-CAGATCTCGCCTTCATATACTGGTCGCGAAGCAGATCGAAGAAA
* * * *
15263833 TACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCA
1 AACAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCA
15263898 TGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
66 TGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
15263963 GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACAGATCTCGCC
131 GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACAGATCTCGCC
* * ** * *
15264028 TTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAAAGCAGATCTTGTCTTCATGTACTGGTGTGA
196 TTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTCCACATACTGGCGCGA
* * ** * *
15264093 AGTAGATCAAAGATAACAGATCTCGCCTTCCCATATTGGTGGCGAAGCAGATCGAAAGAAA
261 AGCAGATCAAA-AAAACAGATCTCGCCTTCATATACTGGTCGCGAAGCAGATCG-AAGAAA
15264154 GTAGATATTG
Statistics
Matches: 562, Mismatches: 62, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
315 2 0.00
316 33 0.06
317 20 0.04
318 45 0.08
319 45 0.08
320 14 0.02
321 354 0.63
322 13 0.02
323 2 0.00
324 2 0.00
325 13 0.02
326 19 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (319 bp):
AACAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCA
TGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATC
GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATACAGATCTCGCC
TTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTCCACATACTGGCGCGA
AGCAGATCAAAAAAACAGATCTCGCCTTCATATACTGGTCGCGAAGCAGATCGAAGAAA
Found at i:15264086 original size:139 final size:139
Alignment explanation
Indices: 15263392--15264089 Score: 670
Period size: 139 Copynumber: 5.1 Consensus size: 139
15263382 CGCCTTCCCA
15263392 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
1 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
* * *
15263457 TCAAAGATACAGATCTCGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTT
66 TCAAAAATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTT
* ***
15263522 GTCTCCCCA
131 GTCTTCATG
*
15263531 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
1 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
*
15263596 TCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTT
66 TCAAAAATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTT
15263661 GTCTTCATG
131 GTCTTCATG
* ** * * * * * *** * * *
15263670 TACTGG-CGTAAAGTAGATC-AA--AGATA-CAGATCTCGCCTTCCCATACTGGTGGCGAAGCAG
1 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAG
* * * *
15263730 ATCGAAGGAAAAAACAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAG
65 ATC--A--AAAATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAG
15263795 ATCTTGTCTTCATG
126 ATCTTGTCTTCATG
* * * * * * * *** * * *
15263809 TACTGG-CGTGAAGTAGATC-AA--AGATA-CAGATCTCGCCTTCCCATACTGGTGGCGAAGCAG
1 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAG
* * * * *** * * * * *
15263869 ATCGAAGGAAAAAGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AA--AGATA-CAG
65 ATC-AA--AAATA-CAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAG
* * ***
15263929 ATCTCGCCTTCCCA
126 ATCTTGTCTTCATG
15263943 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
1 TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
* *
15264008 TCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAAAGCAGATCTT
66 TCAAAAATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTT
15264073 GTCTTCATG
131 GTCTTCATG
15264082 TACTGGTG
1 TACTGGTG
15264090 TGAAGTAGAT
Statistics
Matches: 466, Mismatches: 75, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
134 52 0.11
135 39 0.08
136 5 0.01
137 7 0.02
138 41 0.09
139 322 0.69
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (139 bp):
TACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
TCAAAAATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTT
GTCTTCATG
Found at i:15264478 original size:44 final size:44
Alignment explanation
Indices: 15263227--15264461 Score: 638
Period size: 44 Copynumber: 27.3 Consensus size: 44
15263217 CTGGTGGTGG
* *
15263227 AGTAGATCAAAGAAAGCAGATCTTGCCTTCATGTA-TCGGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGA
** * *** * *
15263271 AGTAGATCAAAGTCAACAGATCTTGTCTCCCCATACTGGTGGTGG
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* *
15263316 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGA
* * * * *** * *
15263360 AGTAGATCAAA-TATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* *
15263404 AGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * * * * *
15263451 AGTAGATCAAAG-ATACAGATCTCGCCTTCCTATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * * * *** * *
15263495 AGCAGATCGAAGGAAAAAGTAGATCTTGTCTCCCCATACTGGTGGCGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGG-CGTGA
* * *
15263543 AGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCATGTACTGGCGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * *** * *
15263590 AGTAGATCAAAG-ATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * *
15263634 AGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTAA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * *** * *
15263681 AGTAGATCAAAG-ATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * * *** * *
15263725 AGCAGATCGAAGGAAAAAACAGATCTTGTCTCCCCATACTGGTGGCGA
1 AGTAGATC-AA--AGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* *
15263773 AGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * *** * *
15263820 AGTAGATCAAAG-ATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * *
15263864 AGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCATGTACTGGCGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * *** * *
15263911 AGTAGATCAAAG-ATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* *
15263955 AGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * * *** * *
15264002 AGTAGATCAAA-TATACAGATCTCGCCTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* *
15264046 AGCAGATCGAAAGAAAAAGCAGATCTTGTCTTCATGTACTGGTGTGA
1 AGTAGATC-AAAG-AAAA-CAGATCTTGTCTTCATGTACTGGCGTGA
* * * *** * * *
15264093 AGTAGATCAAAGATAACAGATCTCGCCTTCCCATATTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* ** * *
15264138 AGCAGATCGAAAGAAAGTAGATATTGTCTTCATGTA-TCAGCGTGA
1 AGTAGATC-AAAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGA
** * * *** * *
15264183 AGTAGATCAAAGTCAACAGATCTTATCTCCCCATACTGGTGGTGG
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
** * *
15264228 AGTAGATCAAAGAAAGTAGATCTTGCCTTCATGTA-TCAGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGA
** * *** * *
15264272 AGTAGATCAAAGTCAACAGATCTTGTCTCCCCATACTGGTGGTGG
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * *
15264317 AGTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGA
* *** * *
15264361 AGTAGATCAAAG-AAACAGATCTTGTCTCCCCATACTGGTGGTGG
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGA
* * *
15264405 AGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGA
15264449 AGTAGATCAAAGA
1 AGTAGATCAAAGA
15264462 TAGTAGGTCC
Statistics
Matches: 874, Mismatches: 268, Indels: 98
0.70 0.22 0.08
Matches are distributed among these distances:
43 144 0.16
44 232 0.27
45 163 0.19
46 40 0.05
47 86 0.10
48 209 0.24
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGA
Found at i:15269146 original size:13 final size:13
Alignment explanation
Indices: 15269128--15269153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15269118 AAAGAGATTT
15269128 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
15269141 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
15269154 AATTAAACAT
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:15271113 original size:20 final size:20
Alignment explanation
Indices: 15271088--15271128 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
15271078 GCAAATGTTC
15271088 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
15271108 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
15271128 T
1 T
15271129 CTGCCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:15272091 original size:7 final size:7
Alignment explanation
Indices: 15272079--15272113 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
15272069 AGAAGTGATG
15272079 TGAAAAA
1 TGAAAAA
15272086 TGAAAAGA
1 TGAAAA-A
15272094 TG-AAAA
1 TGAAAAA
15272100 TGAAAAA
1 TGAAAAA
15272107 TGAAAAA
1 TGAAAAA
15272114 GTAAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:15272120 original size:21 final size:21
Alignment explanation
Indices: 15272079--15272129 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
15272069 AGAAGTGATG
*
15272079 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAGATAAAAA
15272100 TGAAAAATGAAAA-AGTAAAAA
1 TGAAAAATGAAAAGA-TAAAAA
15272121 -GTAAAAATG
1 TG-AAAAATG
15272130 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAGATAAAAA
Found at i:15273667 original size:44 final size:44
Alignment explanation
Indices: 15273486--15273828 Score: 180
Period size: 44 Copynumber: 7.8 Consensus size: 44
15273476 CCAATAATTC
* * *
15273486 TATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * ** * * ** * ** *
15273530 TATCTCTCTAAGCAATAATGGAGCAGATCAAATATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * * *
15273574 TACCTCCCTGGGGTTA-CAGTGGAGTACATTAAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* *
15273618 TATCTCCCTAGGCAGCAGCGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** *
15273662 TATCTCCCTAGGTAGTAGTAGAGTAGATCGAGGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
15273706 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* *
15273750 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * *
15273794 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGAT
15273829 GGCGGATATT
Statistics
Matches: 210, Mismatches: 73, Indels: 32
0.67 0.23 0.10
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 38 0.18
44 124 0.59
45 31 0.15
46 5 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:15273690 original size:132 final size:132
Alignment explanation
Indices: 15273430--15273884 Score: 721
Period size: 132 Copynumber: 3.4 Consensus size: 132
15273420 GGAGCAGGTT
* * * *
15273430 GATGGCGGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAATAATTCTATCTCCTT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * *
15273495 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCTCTAAGCAATAATGGAGCAGATCA
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
15273560 AA
131 AA
* * *
15273562 TATGGCAGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * *
15273627 AGGCAGCAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGTAGTAGTAGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
*
15273692 AG
131 AA
15273694 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
15273759 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
15273824 AA
131 AA
* * *
15273826 GATGGCGGATATTACCTCACTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
15273885 TGAAGATTAC
Statistics
Matches: 293, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 293 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
AA
Found at i:15273962 original size:107 final size:107
Alignment explanation
Indices: 15273776--15273991 Score: 362
Period size: 107 Copynumber: 2.0 Consensus size: 107
15273766 AGTGGAATAG
* *
15273776 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATATTAC
1 ATTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATATTAC
*
15273841 CTCACTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
66 CTCACTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCT
* *
15273883 ATTGAAGATTACAGATATTATCTCCCTCAGCAGTAGTGGAGCAGATC-AAGGATGGCGGATTTTA
1 ATTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATATTA
*
15273947 CCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCT
65 CCTCACTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCT
15273990 AT
1 AT
15273992 CTCCCTAGAC
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 2 0.02
107 100 0.98
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (107 bp):
ATTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATATTAC
CTCACTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCT
Found at i:15275843 original size:18 final size:18
Alignment explanation
Indices: 15275822--15275882 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
15275812 ATTCATATGT
*
15275822 ATTTTATAGTATATATAC
1 ATTTTATAATATATATAC
* *
15275840 ATTTCATAATATTTATAC
1 ATTTTATAATATATATAC
*
15275858 ATTTTCTATAATATACATAC
1 A-TTT-TATAATATATATAC
15275878 ATTTT
1 ATTTT
15275883 TTATATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 17 0.49
19 6 0.17
20 12 0.34
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTATAATATATATAC
Found at i:15275868 original size:20 final size:20
Alignment explanation
Indices: 15275826--15275887 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
15275816 ATATGTATTT
*
15275826 TATAGTATATATACA-TTTC
1 TATAATATATATACATTTTC
*
15275845 -ATAATATTTATACATTTTC
1 TATAATATATATACATTTTC
* *
15275864 TATAATATACATACATTTTT
1 TATAATATATATACATTTTC
15275884 TATA
1 TATA
15275888 TCTTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 20 0.56
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.50
Consensus pattern (20 bp):
TATAATATATATACATTTTC
Found at i:15275989 original size:16 final size:16
Alignment explanation
Indices: 15275956--15275989 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15275946 TATTGTACAT
**
15275956 ATATATATGTATTTGA
1 ATATATATGTATGCGA
15275972 ATATATATGTATGCGA
1 ATATATATGTATGCGA
15275988 AT
1 AT
15275990 TTTCATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (16 bp):
ATATATATGTATGCGA
Found at i:15283027 original size:9 final size:9
Alignment explanation
Indices: 15283013--15283037 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15283003 TCCCACCAAC
15283013 AAGTTCTAA
1 AAGTTCTAA
15283022 AAGTTCTAA
1 AAGTTCTAA
15283031 AAGTTCT
1 AAGTTCT
15283038 TTGTATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (9 bp):
AAGTTCTAA
Found at i:15288460 original size:27 final size:27
Alignment explanation
Indices: 15288422--15288477 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15288412 AAATTAAATG
*
15288422 AATTGTTATTATTTTTTATTTATTCAT
1 AATTATTATTATTTTTTATTTATTCAT
15288449 AATTATTATTATTTTTTATTTATTCAT
1 AATTATTATTATTTTTTATTTATTCAT
15288476 AA
1 AA
15288478 AGACACCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (27 bp):
AATTATTATTATTTTTTATTTATTCAT
Found at i:15288488 original size:27 final size:27
Alignment explanation
Indices: 15288431--15288488 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
15288421 GAATTGTTAT
** * *
15288431 TATTTTTTATTTATTCATAATTATTAT
1 TATTTTTTATTTATTCATAAAGATCAC
15288458 TATTTTTTATTTATTCATAAAGA-CACC
1 TATTTTTTATTTATTCATAAAGATCA-C
15288485 TATT
1 TATT
15288489 GAAAGATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTTTTTATTTATTCATAAAGATCAC
Found at i:15290095 original size:27 final size:27
Alignment explanation
Indices: 15290057--15290120 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
15290047 AAAAAATAAA
*
15290057 GAAAATAGATAA-AAAATTATAAAATAT
1 GAAAATATATAAGAAAA-TATAAAATAT
* *
15290084 GAAAATATATAAGTACATATAAAATAT
1 GAAAATATATAAGAAAATATAAAATAT
*
15290111 -ATAATATATA
1 GAAAATATATA
15290121 TATGAAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 21 0.66
28 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (27 bp):
GAAAATATATAAGAAAATATAAAATAT
Found at i:15290226 original size:16 final size:16
Alignment explanation
Indices: 15290198--15290271 Score: 87
Period size: 16 Copynumber: 4.7 Consensus size: 16
15290188 ACAGGAAGAA
15290198 AAAAATGTATATAGAT
1 AAAAATGTATATAGAT
* * *
15290214 ATATATCTATATAGA-
1 AAAAATGTATATAGAT
*
15290229 AAAAATGTATATAGAA
1 AAAAATGTATATAGAT
15290245 AAAAATGTATATAGAT
1 AAAAATGTATATAGAT
* *
15290261 ATATATGTATA
1 AAAAATGTATA
15290272 GATATGTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
15 12 0.25
16 36 0.75
ACGTcount: A:0.54, C:0.01, G:0.11, T:0.34
Consensus pattern (16 bp):
AAAAATGTATATAGAT
Found at i:15290256 original size:31 final size:31
Alignment explanation
Indices: 15290197--15290259 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
15290187 AACAGGAAGA
* * *
15290197 AAAAAATGTATATAGATATATATCTATATAG
1 AAAAAATGTATATAGAAAAAAATCTATATAG
*
15290228 AAAAAATGTATATAGAAAAAAATGTATATAG
1 AAAAAATGTATATAGAAAAAAATCTATATAG
15290259 A
1 A
15290260 TATATATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (31 bp):
AAAAAATGTATATAGAAAAAAATCTATATAG
Found at i:15292444 original size:158 final size:156
Alignment explanation
Indices: 15292089--15292404 Score: 481
Period size: 158 Copynumber: 2.0 Consensus size: 156
15292079 AATTACAAAT
* * * *
15292089 GAACAAAATCTTACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
1 GAACAAAATCTCACAAACCAAGATGCATCAAGACCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
* *
15292154 TTGGGGGCAAAAAGGAATTGGTTTTTATTTTAGTTTACAAGTTTTTTTTTATATATATAATTTTC
66 TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTTTACAAG--TTTTTTTATATAAATAATTTTC
* *
15292219 TACAGTTTTAAATTTTTTAGATTTTTAA
129 TAAAGTTTTAAATGTTTTAGATTTTTAA
* * * *
15292247 GAACAAAATCTCACAAACCAAGTTGCTTCAAGAGCTTTTTGTGCCAAGAAAAATCTGGGTTTTTA
1 GAACAAAATCTCACAAACCAAGATGCATCAAGACCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
*
15292312 TTGGGGGCAAAAGGGAATAGGTTTTTATTTTAGTTTACAAG-TTTTTTATATAAATAATTTTCTA
66 TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTTTACAAGTTTTTTTATATAAATAATTTTCTA
15292376 AAGCTTTTAAATGTTTTAGATTTTTAA
131 AAG-TTTTAAATGTTTTAGATTTTTAA
15292403 GA
1 GA
15292405 TTTTCACTTT
Statistics
Matches: 150, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
155 24 0.16
156 24 0.16
158 102 0.68
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (156 bp):
GAACAAAATCTCACAAACCAAGATGCATCAAGACCTTTTTGTGCCAAGAAAAATCTGGATTTTTA
TTGGGGGCAAAAAGGAATAGGTTTTTATTTTAGTTTACAAGTTTTTTTATATAAATAATTTTCTA
AAGTTTTAAATGTTTTAGATTTTTAA
Found at i:15301697 original size:125 final size:123
Alignment explanation
Indices: 15301526--15301764 Score: 354
Period size: 125 Copynumber: 1.9 Consensus size: 123
15301516 CTTCTACTAT
* *
15301526 GATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCA
1 GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
*
15301590 TGTAAGAAATAATTTTTTTTTACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACAAG
66 TGTAAGAAATAA-TTTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACAAG
* * *
15301650 GATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTC
1 GATGCTAT-TTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTC
** * *
15301715 ATGTTGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTGTCAAATCGC
65 ATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
15301765 GCCCTCGTGG
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
124 32 0.31
125 55 0.53
126 16 0.16
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (123 bp):
GATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
TGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACAAG
Found at i:15302983 original size:20 final size:20
Alignment explanation
Indices: 15302958--15302997 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15302948 TTTATTCTTA
15302958 CAAAATCT-ATATAACAATTT
1 CAAAATCTGATATAA-AATTT
*
15302978 CAAAATGTGATATAAAATTT
1 CAAAATCTGATATAAAATTT
15302998 ACCTCGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
CAAAATCTGATATAAAATTT
Found at i:15303762 original size:14 final size:15
Alignment explanation
Indices: 15303745--15303778 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15303735 AATAAATATC
15303745 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
15303759 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
15303774 TAAAA
1 TAAAA
15303779 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:15303991 original size:21 final size:22
Alignment explanation
Indices: 15303965--15304006 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15303955 ATTTGGATAT
*
15303965 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
15303987 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
15304007 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:15304014 original size:30 final size:30
Alignment explanation
Indices: 15303978--15304036 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
15303968 TTGAAGGAAA
* *
15303978 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
15304008 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
15304037 AATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:15304033 original size:22 final size:22
Alignment explanation
Indices: 15304008--15304084 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
15303998 ATTTGAGAGT
*
15304008 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
15304030 TTGAGAGAATTTTTTAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
15304052 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAATTTTTGAAGGAAA
15304073 TTGAGAGAATTT
1 TTGAGAGAATTT
15304085 GTTTGTGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 15 0.30
22 35 0.70
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:15307405 original size:22 final size:22
Alignment explanation
Indices: 15307352--15307405 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
15307342 ATTAACTCAA
15307352 TCATAAAACATTTCAATTCACT
1 TCATAAAACATTTCAATTCACT
* ** *
15307374 TAATTCAACATTTCATTATCA-T
1 TCATAAAACATTTCAAT-TCACT
15307396 TCATAAAACA
1 TCATAAAACA
15307406 AACAATCATT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (22 bp):
TCATAAAACATTTCAATTCACT
Found at i:15313355 original size:50 final size:50
Alignment explanation
Indices: 15313231--15313466 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
15313221 GATAATAACA
* * *
15313231 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGATGTT-TCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATCT-CGG
* * * * *
15313280 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
* * * * * *
15313330 TGCCCATGCCATATCCCAAACATGGTCTTAC--GGGGGATCAATCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTC--TCATCTCGG
** *
15313380 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
* *
15313430 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
15313467 CCTCTTTACC
Statistics
Matches: 157, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 10 0.06
49 37 0.24
50 105 0.67
52 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCGG
Found at i:15315358 original size:23 final size:24
Alignment explanation
Indices: 15315304--15315355 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15315294 ACAAATAAAT
* *
15315304 TACTACTAAAATAATAACCAATTA
1 TACTAATAAAATAATAACCAACTA
15315328 TACTAATAAAA-AATAACCAACTA
1 TACTAATAAAATAATAACCAACTA
15315351 -ACTAA
1 TACTAA
15315356 ATACACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 10 0.38
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (24 bp):
TACTAATAAAATAATAACCAACTA
Found at i:15319273 original size:16 final size:16
Alignment explanation
Indices: 15319240--15319273 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15319230 ACTATCTGTT
* *
15319240 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
15319256 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
15319272 AA
1 AA
15319274 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:15321709 original size:17 final size:17
Alignment explanation
Indices: 15321676--15321723 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
15321666 TTCTCTCGCA
15321676 TTTATA-TTTTTT-A-T
1 TTTATAGTTTTTTAATT
15321690 TTTAT-GTTGTTTTAATT
1 TTTATAGTT-TTTTAATT
*
15321707 TTTTTAGTTTTTTAATT
1 TTTATAGTTTTTTAATT
15321724 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 1 0.04
17 13 0.46
18 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTATAGTTTTTTAATT
Found at i:15321728 original size:17 final size:19
Alignment explanation
Indices: 15321686--15321728 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
15321676 TTTATATTTT
15321686 TTATTTTATGTTGTTTTAA
1 TTATTTTATGTTGTTTTAA
*
15321705 TTTTTTTA-GTT-TTTTAA
1 TTATTTTATGTTGTTTTAA
15321722 TTATTTT
1 TTATTTT
15321729 TTAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (19 bp):
TTATTTTATGTTGTTTTAA
Found at i:15321877 original size:99 final size:100
Alignment explanation
Indices: 15321758--15321958 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 100
15321748 TCTTCAAATG
15321758 TTTAATCAAAATATCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATAAAAATA
1 TTTAATCAAAATATCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATAAAAATA
*
15321823 TATAT-TTTATATATATCATTATGTTAAAAATATT
66 TATATATTTATATATACCATTATGTTAAAAATATT
* * * *
15321857 TTTAATTAATAAT-TCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATGAAATT
1 TTTAATCAA-AATATCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATAAAAAT
* *
15321921 ATATATATTTATATTTACCATTATGTTAAATATATT
65 ATATATATTTATATATACCATTATGTTAAAAATATT
15321957 TT
1 TT
15321959 ATTTTTAACT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 62 0.67
100 31 0.33
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (100 bp):
TTTAATCAAAATATCTTTTATTTATATAAATAAAATAATAAATATGTAACTATATAATAAAAATA
TATATATTTATATATACCATTATGTTAAAAATATT
Found at i:15322909 original size:25 final size:24
Alignment explanation
Indices: 15322877--15322926 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15322867 TGTAATTAAA
*
15322877 TAAAATTTAAAAAGTTATGTTATTTC
1 TAAATTTTAAAAA-TTAT-TTATTTC
*
15322903 TAAATTTTGAAAATTATTTATTTC
1 TAAATTTTAAAAATTATTTATTTC
15322927 CTGATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
TAAATTTTAAAAATTATTTATTTC
Found at i:15323356 original size:10 final size:10
Alignment explanation
Indices: 15323341--15323392 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
15323331 GGATGAGTTC
15323341 AAAATTATAA
1 AAAATTATAA
15323351 AAAATT-T-A
1 AAAATTATAA
*
15323359 GAAATTATAA
1 AAAATTATAA
15323369 AAAA-TACTAA
1 AAAATTA-TAA
*
15323379 AAAATTGTAA
1 AAAATTATAA
15323389 AAAA
1 AAAA
15323393 AATTCAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.17
9 4 0.11
10 24 0.69
11 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:15325650 original size:31 final size:31
Alignment explanation
Indices: 15325615--15325701 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
15325605 GATGTGAATT
15325615 AAATGGAAAAAGTAATTAGATATGATATTCA
1 AAATGGAAAAAGTAATTAGATATGATATTCA
* * *
15325646 AAATGAAAAAAG--A-GA-ATGTGA-ATT--
1 AAATGGAAAAAGTAATTAGATATGATATTCA
*
15325670 AAATGGAAAAATTAATTAGATATGATAATTCA
1 AAATGGAAAAAGTAATTAGATATGAT-ATTCA
15325702 TTTTCGATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 15
0.65 0.11 0.24
Matches are distributed among these distances:
24 10 0.24
26 4 0.10
27 6 0.15
28 6 0.15
29 1 0.02
30 3 0.07
31 11 0.27
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.28
Consensus pattern (31 bp):
AAATGGAAAAAGTAATTAGATATGATATTCA
Found at i:15327061 original size:28 final size:28
Alignment explanation
Indices: 15327030--15327088 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
15327020 ACACACCCAA
*
15327030 AATAAATAT-AAATCCTCCATAACACACC
1 AATAAATATCAAATCCTCC-CAACACACC
*
15327058 AAT--ATATCATATCCTCCCAACACACC
1 AATAAATATCAAATCCTCCCAACACACC
15327084 AATAA
1 AATAA
15327089 GGCATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
26 15 0.58
27 8 0.31
28 3 0.12
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (28 bp):
AATAAATATCAAATCCTCCCAACACACC
Found at i:15328068 original size:14 final size:14
Alignment explanation
Indices: 15328049--15328092 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
15328039 GCCTCTGTTC
15328049 TTTCTTTCTTTTTG
1 TTTCTTTCTTTTTG
15328063 TTTCTTTC-TTTTG
1 TTTCTTTCTTTTTG
*
15328076 TTTTCTTT-TATTTG
1 -TTTCTTTCTTTTTG
15328090 TTT
1 TTT
15328093 ACTAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTTG
Found at i:15328280 original size:24 final size:21
Alignment explanation
Indices: 15328253--15328300 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 21
15328243 ATATTTATAA
15328253 TATAATTAATTTAATAATATACTT
1 TATAATTAATTT-AT-ATATA-TT
15328277 TATAATTAATTTATATATATT
1 TATAATTAATTTATATATATT
15328298 TAT
1 TAT
15328301 CTAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 2 0.08
24 12 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATAATTAATTTATATATATT
Found at i:15328291 original size:11 final size:11
Alignment explanation
Indices: 15328253--15328291 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
15328243 ATATTTATAA
15328253 TATAATTAATT
1 TATAATTAATT
*
15328264 TAATAATATACTT
1 T-ATAAT-TAATT
15328277 TATAATTAATT
1 TATAATTAATT
15328288 TATA
1 TATA
15328292 TATATTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:15337142 original size:31 final size:31
Alignment explanation
Indices: 15337096--15337170 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
15337086 ATCGTTAACT
* *
15337096 CAGTGAAACTCACAAAATGAGAGGAAAGTAA
1 CAGTAAAACTTACAAAATGAGAGGAAAGTAA
*
15337127 TAGTAAAACTTACAAAATGAGAGGAAAGTAA
1 CAGTAAAACTTACAAAATGAGAGGAAAGTAA
15337158 CAGTAAAACTTAC
1 CAGTAAAACTTAC
15337171 TCAATAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (31 bp):
CAGTAAAACTTACAAAATGAGAGGAAAGTAA
Found at i:15339768 original size:20 final size:21
Alignment explanation
Indices: 15339728--15339767 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15339718 TAATAGTAGA
15339728 TTTAGAAATAAATCCTAAAAT
1 TTTAGAAATAAATCCTAAAAT
* *
15339749 TTTAGAGATAAATCGTAAA
1 TTTAGAAATAAATCCTAAA
15339768 TAAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTAGAAATAAATCCTAAAAT
Found at i:15340337 original size:24 final size:24
Alignment explanation
Indices: 15340310--15340355 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
15340300 CTAATTAAAT
* * *
15340310 TTTATAAATAATTAATATTTATTG
1 TTTAAAAACAATTAAAATTTATTG
*
15340334 TTTAAAAACATTTAAAATTTAT
1 TTTAAAAACAATTAAAATTTAT
15340356 ATTTCATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTAAAAACAATTAAAATTTATTG
Found at i:15343545 original size:22 final size:22
Alignment explanation
Indices: 15343520--15343564 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15343510 AAAATTAGGG
* *
15343520 TTTTTTTTGTATTTTTAATGAA
1 TTTTTTTTATATTTTTAAAGAA
15343542 TTTTTTTTATATTTTTAAAGAA
1 TTTTTTTTATATTTTTAAAGAA
15343564 T
1 T
15343565 ATTGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTTTTATATTTTTAAAGAA
Found at i:15352403 original size:17 final size:17
Alignment explanation
Indices: 15352381--15352416 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15352371 AAATTAATGG
15352381 GAAAAGATGGTTTGGTA
1 GAAAAGATGGTTTGGTA
15352398 GAAAAGATGGTTTGGTA
1 GAAAAGATGGTTTGGTA
15352415 GA
1 GA
15352417 TTGAGGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (17 bp):
GAAAAGATGGTTTGGTA
Found at i:15355291 original size:22 final size:22
Alignment explanation
Indices: 15355243--15355298 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
15355233 TTTTCTATGA
* *
15355243 AAAAATATAAATTTATGGTTTG
1 AAAAATATAAATTTAAGATTTG
*
15355265 AAAAATGTAAATTTTAAGATTTG
1 AAAAATATAAA-TTTAAGATTTG
*
15355288 AAAACTATAAA
1 AAAAATATAAA
15355299 ATAATATTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (22 bp):
AAAAATATAAATTTAAGATTTG
Found at i:15356588 original size:31 final size:32
Alignment explanation
Indices: 15356553--15356626 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
15356543 TCCAATGAGC
*
15356553 TAAAATTAAATTT-AAAAACTTTTAAGGGA-GA
1 TAAAATAAAATTTGAAAAA-TTTTAAGGGATGA
* *
15356584 TAAAATAAAATTTGTAAAATTTTAGGGGATGA
1 TAAAATAAAATTTGAAAAATTTTAAGGGATGA
*
15356616 TAAGATAAAAT
1 TAAAATAAAAT
15356627 GGTGGTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.57
32 16 0.43
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.32
Consensus pattern (32 bp):
TAAAATAAAATTTGAAAAATTTTAAGGGATGA
Found at i:15356924 original size:9 final size:9
Alignment explanation
Indices: 15356910--15356977 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
15356900 ACTATTAATT
15356910 TTTTTTATA
1 TTTTTTATA
15356919 TTTTTTATA
1 TTTTTTATA
* *
15356928 CTTTTTAAA
1 TTTTTTATA
* *
15356937 TTTGTAATA
1 TTTTTTATA
* *
15356946 ATTTTTATGC
1 TTTTTTAT-A
*
15356956 TTTTTTCAAA
1 TTTTTT-ATA
15356966 TTTTTTATA
1 TTTTTTATA
15356975 TTT
1 TTT
15356978 AAAAAATTAA
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
9 31 0.72
10 11 0.26
11 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTTTATA
Found at i:15358087 original size:7 final size:7
Alignment explanation
Indices: 15358068--15358106 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
15358058 TCTGCTACCT
15358068 TTCTTT-
1 TTCTTTC
15358074 TTCTTTC
1 TTCTTTC
*
15358081 CTCTTTC
1 TTCTTTC
15358088 TTCTTTC
1 TTCTTTC
15358095 TTCTTT-
1 TTCTTTC
15358101 TTCTTT
1 TTCTTT
15358107 GTCATCTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTTC
Found at i:15358188 original size:10 final size:11
Alignment explanation
Indices: 15358163--15358212 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
15358153 ATGAATTTTC
15358163 AAAAACATAATT
1 AAAAACAT-ATT
15358175 AAAAACAT-TT
1 AAAAACATATT
15358185 AAAAACATAGTT
1 AAAAACATA-TT
*
15358197 AATAAA-ATTTT
1 AA-AAACATATT
15358208 AAAAA
1 AAAAA
15358213 TAATTACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 13 0.38
11 4 0.12
12 14 0.41
13 3 0.09
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (11 bp):
AAAAACATATT
Found at i:15358188 original size:22 final size:22
Alignment explanation
Indices: 15358163--15358218 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15358153 ATGAATTTTC
15358163 AAAAACATAATTAA-AAACATTT
1 AAAAACATAATTAATAAA-ATTT
*
15358185 AAAAACATAGTTAATAAAATTT
1 AAAAACATAATTAATAAAATTT
*
15358207 TAAAA-ATAATTA
1 AAAAACATAATTA
15358219 CAATATCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 21 0.70
23 3 0.10
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAACATAATTAATAAAATTT
Found at i:15362971 original size:25 final size:25
Alignment explanation
Indices: 15362939--15363033 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 25
15362929 GGCTCTTTGT
15362939 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCTGATTAATGGCTCTCCG
* * * **
15362964 GAGCTTCC-CAAT-ATGGCTCACTT
1 GAGCTTCCTGATTAATGGCTCTCCG
* * *
15362987 GAACTTCCCGA-TATATGGCTATCCG
1 GAGCTTCCTGATTA-ATGGCTCTCCG
*
15363012 GAGCTTCTTGATTAATGGCTCT
1 GAGCTTCCTGATTAATGGCTCT
15363034 TCAGAGATAC
Statistics
Matches: 51, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
23 16 0.31
24 3 0.06
25 30 0.59
26 2 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCCG
Found at i:15371689 original size:63 final size:63
Alignment explanation
Indices: 15371581--15371744 Score: 168
Period size: 63 Copynumber: 2.6 Consensus size: 63
15371571 TTATGGCTCG
* * * * * * * * *
15371581 TGTGACACTAATTCACAAACAGTGAGTTACACGGCTTAGAGACATG-TCTGTGTCCTTATCCCA
1 TGTGACCCTAAATCATAAACAGTGAGTTACACGACCTGGACACATGCTC-GTGTCCCTAGCCCA
* * * **
15371644 TGTGAGCCTAAATCATAAACACTGAGTTACACGACCTGGACACATGCTCGTGTCCCTGGCCTG
1 TGTGACCCTAAATCATAAACAGTGAGTTACACGACCTGGACACATGCTCGTGTCCCTAGCCCA
* *
15371707 TGTTACCCTAAATCATAAAAAGTGAGTTACACGACCTG
1 TGTGACCCTAAATCATAAACAGTGAGTTACACGACCTG
15371745 TCATACGGTC
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 80 0.98
64 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (63 bp):
TGTGACCCTAAATCATAAACAGTGAGTTACACGACCTGGACACATGCTCGTGTCCCTAGCCCA
Found at i:15373659 original size:15 final size:15
Alignment explanation
Indices: 15373612--15373659 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
15373602 TTTTTCTTAA
*
15373612 ATTATATTTTAAGATT
1 ATTA-ATTTTAATATT
*
15373628 AATAA-TTTAATATTT
1 ATTAATTTTAATA-TT
15373643 ATTAATTTTAATATT
1 ATTAATTTTAATATT
15373658 AT
1 AT
15373660 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.22
15 11 0.41
16 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTAATTTTAATATT
Found at i:15373673 original size:30 final size:31
Alignment explanation
Indices: 15373612--15373673 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
15373602 TTTTTCTTAA
* *
15373612 ATTATATTTTAAGATTAATAATTTAATATTT
1 ATTATATTTTAAGATTAATAAATTAAAATTT
*
15373643 ATTA-ATTTTAATATT-ATAAAATTAAAATTT
1 ATTATATTTTAAGATTAAT-AAATTAAAATTT
15373673 A
1 A
15373674 ATTCAAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.07
30 21 0.78
31 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTATATTTTAAGATTAATAAATTAAAATTT
Found at i:15373820 original size:67 final size:69
Alignment explanation
Indices: 15373686--15373825 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 69
15373676 TCAAGTAAGT
* *
15373686 AAAATATTAAAATAAAAACATAATTTATTTAAAATCGAGTTAATATTTAACATATAAAAAATTAT
1 AAAATATTAAAATAAAAACATAATTTATTTAAAATCGAATTAATATTTAACATATAAAAAATCAT
15373751 AAA-
66 AAAG
*
15373754 AAAATATTAAAATAAAAA-ATAATTTATTTAAAATCGAATTAATATTTAACATATAAAAAGTCAT
1 AAAATATTAAAATAAAAACATAATTTATTTAAAATCGAATTAATATTTAACATATAAAAAATCAT
15373818 AAAG
66 AAAG
15373822 AAAA
1 AAAA
15373826 AATTCAGACA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 46 0.68
68 22 0.32
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (69 bp):
AAAATATTAAAATAAAAACATAATTTATTTAAAATCGAATTAATATTTAACATATAAAAAATCAT
AAAG
Found at i:15375276 original size:14 final size:14
Alignment explanation
Indices: 15375257--15375293 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15375247 ATTAAAATTC
15375257 ATAATATTTTTATA
1 ATAATATTTTTATA
15375271 ATAATATTTTT-TA
1 ATAATATTTTTATA
15375284 A-AAT-TTTTTA
1 ATAATATTTTTA
15375294 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 3 0.14
14 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATAATATTTTTATA
Found at i:15375299 original size:12 final size:13
Alignment explanation
Indices: 15375257--15375306 Score: 63
Period size: 12 Copynumber: 4.1 Consensus size: 13
15375247 ATTAAAATTC
15375257 ATAATATTTTTATA
1 ATAATATTTTT-TA
15375271 ATAATATTTTTT-
1 ATAATATTTTTTA
15375283 A-AA-ATTTTTTA
1 ATAATATTTTTTA
15375294 ATAA-ATTTTTTA
1 ATAATATTTTTTA
15375306 A
1 A
15375307 AAACTCGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.21
11 3 0.09
12 12 0.35
13 1 0.03
14 11 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATAATATTTTTTA
Found at i:15375309 original size:23 final size:22
Alignment explanation
Indices: 15375262--15375308 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 22
15375252 AATTCATAAT
15375262 ATTTTTATAATAATATTTTTTAAA
1 ATTTTT-TAATAA-ATTTTTTAAA
15375286 ATTTTTTAATAAATTTTTTAAA
1 ATTTTTTAATAAATTTTTTAAA
15375308 A
1 A
15375309 ACTCGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTTAATAAATTTTTTAAA
Found at i:15375317 original size:23 final size:22
Alignment explanation
Indices: 15375269--15375323 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
15375259 AATATTTTTA
* **
15375269 TAATAATATTTTTTAAAATTTTT
1 TAATAA-ATTTTTTAAAACTCGT
15375292 TAATAAATTTTTTAAAAACTCGT
1 TAATAAATTTTTT-AAAACTCGT
15375315 TAATAAATT
1 TAATAAATT
15375324 GAAAAAGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATAAATTTTTTAAAACTCGT
Found at i:15375413 original size:15 final size:15
Alignment explanation
Indices: 15375356--15375424 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 15
15375346 ATACTTTTAG
15375356 AAATATTTAACTAATTTA
1 AAATATTTAA-T-A-TTA
*
15375374 AAATCAGTT-ATATTA
1 AAAT-ATTTAATATTA
*
15375389 ATATTATTTAACT-TTA
1 A-AATATTTAA-TATTA
15375405 AAATATTTAATATTA
1 AAATATTTAATATTA
15375420 AAATA
1 AAATA
15375425 ATACAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
14 1 0.02
15 23 0.55
16 8 0.19
17 2 0.05
18 5 0.12
19 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (15 bp):
AAATATTTAATATTA
Found at i:15375963 original size:19 final size:19
Alignment explanation
Indices: 15375939--15375980 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
15375929 CCTAATTAGA
15375939 ATTTCTCTTCTCTCTCCAT
1 ATTTCTCTTCTCTCTCCAT
*
15375958 A-TT-TCTTCTCTCTCTAT
1 ATTTCTCTTCTCTCTCCAT
15375975 ATTTCT
1 ATTTCT
15375981 TCTCATACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 14 0.70
18 4 0.20
19 2 0.10
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTCTCTTCTCTCTCCAT
Found at i:15375969 original size:15 final size:17
Alignment explanation
Indices: 15375944--15375984 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
15375934 TTAGAATTTC
*
15375944 TCTTCTCTCTCCATATT
1 TCTTCTCTCTCTATATT
15375961 TCTTCTCTCTCTATATT
1 TCTTCTCTCTCTATATT
15375978 TCTTCTC
1 TCTTCTC
15375985 ATACTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.56
Consensus pattern (17 bp):
TCTTCTCTCTCTATATT
Found at i:15388771 original size:27 final size:22
Alignment explanation
Indices: 15388721--15388763 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
15388711 TACATGATTT
15388721 TTTTATTTAAGGAATTCAATAG
1 TTTTATTTAAGGAATTCAATAG
15388743 TTTTATTTAAGGAATTCAATA
1 TTTTATTTAAGGAATTCAATA
15388764 ATTTAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTTATTTAAGGAATTCAATAG
Found at i:15392643 original size:44 final size:44
Alignment explanation
Indices: 15392594--15392683 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
15392584 GTGGGGCATG
* *
15392594 TCTGTTTTCATAGACTCCCTTGAGTGCACCATTGTGGAGGCCAA
1 TCTGTTTTCATAAACTCCCTTGAGTGCACCATTGTAGAGGCCAA
* * *
15392638 TCTGTTTTCATAAACTCCCTTGTGTGCACCCTTGTAGAGGTCAA
1 TCTGTTTTCATAAACTCCCTTGAGTGCACCATTGTAGAGGCCAA
15392682 TC
1 TC
15392684 GCAACAGAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (44 bp):
TCTGTTTTCATAAACTCCCTTGAGTGCACCATTGTAGAGGCCAA
Found at i:15396917 original size:18 final size:17
Alignment explanation
Indices: 15396868--15396918 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
15396858 ACTAGATCAA
*
15396868 AAAATTGTAAAAATATT
1 AAAATTGTAAAAATTTT
15396885 AAATATTGTTAAAAATATTTT
1 AAA-ATTG-T-AAAA-ATTTT
15396906 AAAATTGTAAAAA
1 AAAATTGTAAAAA
15396919 ATTATAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 2 0.07
20 8 0.28
21 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
AAAATTGTAAAAATTTT
Found at i:15396926 original size:18 final size:19
Alignment explanation
Indices: 15396868--15396927 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
15396858 ACTAGATCAA
15396868 AAAATTGTAAAAATATTA-
1 AAAATTGTAAAAATATTAT
* *
15396886 AATATTGTTAAAAATATTTT
1 AAAATTG-TAAAAATATTAT
15396906 AAAATTGTAAAAA-ATTAT
1 AAAATTGTAAAAATATTAT
15396924 AAAA
1 AAAA
15396928 CATTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 14 0.39
19 16 0.44
20 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAATTGTAAAAATATTAT
Found at i:15396996 original size:22 final size:20
Alignment explanation
Indices: 15396876--15397047 Score: 86
Period size: 21 Copynumber: 8.3 Consensus size: 20
15396866 AAAAAATTGT
*
15396876 AAAAATATTAAAT-ATTGTTA
1 AAAAAT-TTAAATAATTATTA
* *
15396896 AAAATATTTTAA-AATT-GTA
1 AAAA-ATTTAAATAATTATTA
15396915 AAAAATTATAAA-ACATTATTTA
1 AAAAATT-TAAATA-ATTA-TTA
* ** *
15396937 TAATTTTTAAA-AATGATT-
1 AAAAATTTAAATAATTATTA
* * *
15396955 AAAAATTAGAAAAAAATATTA
1 AAAAATT-TAAATAATTATTA
15396976 AAAAACTTTCAAATAATTATTA
1 AAAAA-TTT-AAATAATTATTA
*
15396998 AAAAATTGTAAGTAATTATTA
1 AAAAATT-TAAATAATTATTA
* *
15397019 AAAAATTTTAAAAAATTTATTT
1 AAAAA-TTTAAATAA-TTATTA
15397041 AAAAATT
1 AAAAATT
15397048 GTGAATCGGT
Statistics
Matches: 117, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
18 7 0.06
19 15 0.13
20 22 0.19
21 37 0.32
22 36 0.31
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAATAATTATTA
Found at i:15397013 original size:21 final size:21
Alignment explanation
Indices: 15396971--15397049 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
15396961 TAGAAAAAAA
15396971 TATTAAAAAACTT-TCAAATAAT
1 TATTAAAAAA-TTGT-AAATAAT
*
15396993 TATTAAAAAATTGTAAGTAAT
1 TATTAAAAAATTGTAAATAAT
* *
15397014 TATTAAAAAATTTTAAAAAATT
1 TATTAAAAAATTGTAAATAA-T
*
15397036 TATTTAAAAATTGT
1 TATTAAAAAATTGT
15397050 GAATCGGTGG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 25 0.51
22 24 0.49
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (21 bp):
TATTAAAAAATTGTAAATAAT
Found at i:15397036 original size:10 final size:10
Alignment explanation
Indices: 15396866--15397036 Score: 66
Period size: 10 Copynumber: 16.9 Consensus size: 10
15396856 TGACTAGATC
*
15396866 AAAAAATTGT
1 AAAAAATTTT
*
15396876 -AAAAATATT
1 AAAAAATTTT
*
15396885 -AAATATTGTT
1 AAAAAATT-TT
15396895 AAAAATATTTT
1 AAAAA-ATTTT
*
15396906 --AAAATTGT
1 AAAAAATTTT
*
15396914 AAAAAATTAT
1 AAAAAATTTT
*
15396924 AAAACATTATT
1 AAAAAATT-TT
* *
15396935 -TATAATTTT
1 AAAAAATTTT
* *
15396944 TAAAAATGATT
1 AAAAAAT-TTT
**
15396955 -AAAAATTAGA
1 AAAAAATT-TT
*
15396965 AAAAAATATT
1 AAAAAATTTT
*
15396975 AAAAAACTTTC
1 AAAAAA-TTTT
*
15396986 AAATAATTATT
1 AAAAAATT-TT
*
15396997 AAAAAATTGT
1 AAAAAATTTT
**
15397007 AAGTAATTATT
1 AAAAAATT-TT
15397018 AAAAAATTTT
1 AAAAAATTTT
15397028 AAAAAATTT
1 AAAAAATTT
15397037 ATTTAAAAAT
Statistics
Matches: 116, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
8 4 0.03
9 17 0.15
10 56 0.48
11 36 0.31
12 3 0.03
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:15398064 original size:20 final size:19
Alignment explanation
Indices: 15398039--15398077 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15398029 TCGGCCCGAT
*
15398039 TTTTAATAAACACAAAAATA
1 TTTTAA-AAACAAAAAAATA
*
15398059 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
15398078 AAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:15399322 original size:12 final size:12
Alignment explanation
Indices: 15399301--15399347 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
15399291 CCCAGGCTCG
*
15399301 CAAACCAAAAAT
1 CAAACAAAAAAT
15399313 CAAACAAAAAAT
1 CAAACAAAAAAT
*
15399325 -AATACAAAAAAA
1 CAA-ACAAAAAAT
15399337 CAAAACAAAAA
1 C-AAACAAAAA
15399348 CCATAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.07
12 19 0.63
13 7 0.23
14 2 0.07
ACGTcount: A:0.77, C:0.17, G:0.00, T:0.06
Consensus pattern (12 bp):
CAAACAAAAAAT
Found at i:15400624 original size:19 final size:17
Alignment explanation
Indices: 15400600--15400643 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 17
15400590 ATAGTCCTTG
15400600 TTATTATCATTATTTTTA
1 TTATTAT-ATTATTTTTA
15400618 TTTATTAATATTATTTTTA
1 -TTATT-ATATTATTTTTA
15400637 TTATTAT
1 TTATTAT
15400644 TGTCAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 5 0.21
19 15 0.62
20 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTATATTATTTTTA
Found at i:15400839 original size:3 final size:3
Alignment explanation
Indices: 15400831--15400875 Score: 72
Period size: 3 Copynumber: 14.3 Consensus size: 3
15400821 CATTACATTT
15400831 TTA TTA TTA TTTA TGTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15400876 AAATCTGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15406492 original size:25 final size:25
Alignment explanation
Indices: 15406458--15406507 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15406448 TTTTGCTTAT
15406458 CGTTAATGATATAGGCTTATTACAC
1 CGTTAATGATATAGGCTTATTACAC
15406483 CGTTAATGATATAGGCTTATTACAC
1 CGTTAATGATATAGGCTTATTACAC
15406508 GAAACTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (25 bp):
CGTTAATGATATAGGCTTATTACAC
Found at i:15411210 original size:7 final size:7
Alignment explanation
Indices: 15411198--15411225 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15411188 GGCTTAAAAG
15411198 TTGCTAT
1 TTGCTAT
15411205 TTGCTAT
1 TTGCTAT
15411212 TTGCTAT
1 TTGCTAT
15411219 TTGCTAT
1 TTGCTAT
15411226 AAGGTGATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (7 bp):
TTGCTAT
Found at i:15420067 original size:34 final size:34
Alignment explanation
Indices: 15419976--15420073 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
15419966 CATTGAATTT
* * ** **
15419976 TGCTTTTAACAGAACAATACGGTAGCAACCAATA
1 TGCTTATAACAGATCAATATAGTAGCAAATAATA
*
15420010 TGCTTATAACAGCTCAATATAGTAGCAAATAATA
1 TGCTTATAACAGATCAATATAGTAGCAAATAATA
* *
15420044 TGCTTATAGCATATCAACT-TAGTAGCAAAT
1 TGCTTATAACAGATCAA-TATAGTAGCAAAT
15420074 TGTCATGTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 52 0.98
35 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (34 bp):
TGCTTATAACAGATCAATATAGTAGCAAATAATA
Found at i:15420394 original size:25 final size:27
Alignment explanation
Indices: 15420364--15420494 Score: 86
Period size: 28 Copynumber: 4.7 Consensus size: 27
15420354 ACAAAATTGT
15420364 AAAATTTG-AAAATAGGGG-AAAATGA
1 AAAATTTGAAAAATAGGGGTAAAATGA
**
15420389 AAAATTTGAAAAATAGGGGTAAAATTTT
1 AAAATTTGAAAAATAGGGGTAAAA-TGA
* * * *
15420417 AAAATCTAAAAAACTAAGGGTAAAATTTGT
1 AAAATTTGAAAAA-TAGGGGTAAAA--TGA
* * * *
15420447 AAAATTTAAAAAAATATGGGAAAAACTGT
1 AAAATTT-GAAAAATAGGGGTAAAA-TGA
* *
15420476 AAAATCTAAAAAATAGGGG
1 AAAATTTGAAAAATAGGGG
15420495 ACATACAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
25 8 0.09
26 10 0.11
27 4 0.05
28 23 0.26
29 19 0.22
30 18 0.20
31 6 0.07
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (27 bp):
AAAATTTGAAAAATAGGGGTAAAATGA
Found at i:15420401 original size:26 final size:26
Alignment explanation
Indices: 15420364--15420413 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
15420354 ACAAAATTGT
15420364 AAAATTTGAAAATAGGGG-AAAATGA
1 AAAATTTGAAAATAGGGGTAAAATGA
15420389 AAAATTTGAAAAATAGGGGTAAAAT
1 AAAATTTG-AAAATAGGGGTAAAAT
15420414 TTTAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 8 0.35
26 10 0.43
27 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (26 bp):
AAAATTTGAAAATAGGGGTAAAATGA
Found at i:15420437 original size:29 final size:28
Alignment explanation
Indices: 15420397--15420490 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 28
15420387 GAAAAATTTG
*
15420397 AAAAATAGGGGTAAAATTTTAAAATCTA
1 AAAAATAAGGGTAAAATTTTAAAATCTA
*
15420425 AAAAACTAAGGGTAAAATTTGTAAAATTTAA
1 AAAAA-TAAGGGTAAAATTT-TAAAATCT-A
* * * *
15420456 AAAAATATGGGAAAAACTGTAAAATCTA
1 AAAAATAAGGGTAAAATTTTAAAATCTA
15420484 AAAAATA
1 AAAAATA
15420491 GGGGACATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 13 0.23
29 20 0.36
30 17 0.30
31 6 0.11
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAAATAAGGGTAAAATTTTAAAATCTA
Found at i:15421831 original size:23 final size:23
Alignment explanation
Indices: 15421805--15421849 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15421795 GCTTATACAT
15421805 TTATTCAA-TTTATTATTATTAAA
1 TTATTCAACTTTA-TATTATTAAA
* *
15421828 TTATTTAACTTTATATTTTTAA
1 TTATTCAACTTTATATTATTAA
15421850 CACATTCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTCAACTTTATATTATTAAA
Found at i:15424427 original size:59 final size:59
Alignment explanation
Indices: 15424323--15424437 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
15424313 TAAAGTATCG
* * *** *
15424323 ATACCTAGATGGTAAAAAATCACAAGTTTTATTGTAATGCCCTTACCCGGCTTGATAAA
1 ATACCCAGATGGTAAAAAATCACAAGTTTTATGGTAACAACCTTACCCGACTTGATAAA
*
15424382 ATACCCAGATGGTAAAAAATCACAAGTTTTATGGTAACAATCTTACCCGACTTGAT
1 ATACCCAGATGGTAAAAAATCACAAGTTTTATGGTAACAACCTTACCCGACTTGAT
15424438 CGCCGAGTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (59 bp):
ATACCCAGATGGTAAAAAATCACAAGTTTTATGGTAACAACCTTACCCGACTTGATAAA
Found at i:15426154 original size:67 final size:66
Alignment explanation
Indices: 15426002--15426433 Score: 356
Period size: 67 Copynumber: 6.5 Consensus size: 66
15425992 CGGGCTCCCC
**** * * * * *
15426002 CATAGTCGAGCTATGGTCTTACACACCACACCCAATGCTTAATGTCCTGGC-AACTTTTTATGTT
1 CATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATGTT
15426066 G
66 G
** * * * * * *
15426067 CCATACCCGAGCTATAGTCTTACACAATATACCCTATGTTTAATGTCCTGACGGACTTTCTATGT
1 -CATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATGT
15426132 TG
65 TG
* * * * * * *
15426134 CAATGGTCAAGCTATCGTCTTACATAATATACCCCATG--T--T-TCCTGACAGACTCTCTATGT
1 C-ATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATGT
15426194 TG
65 TG
* * ** *
15426196 TCATAGTCGAGTTATGGTCTTACACATTTTGCCCCATGCTTAATGTTTTGGA-AGACTCTCTATG
1 -CATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCT-GACGGACTCTCTATG
*
15426260 TTT
64 TTG
* *
15426263 CTATAGTTGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTAACGGACTCTCTATGT
1 C-ATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATGT
15426328 TG
65 TG
* * * * * * * *
15426330 CCATAGTTGAGCTATGATCTTACACATTTTACCCAATGTTTAATGTCTTGACGGGCTTTTTATGT
1 -CATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATG-
*
15426395 TTC
64 TTG
* * *
15426398 CATAGTTGAGCCATGGTCTTACACACTTTACCCCAT
1 CATAGTCGAGCTATGGTCTTACACATTTTACCCCAT
15426434 TATAGGCCAT
Statistics
Matches: 301, Mismatches: 52, Indels: 25
0.80 0.14 0.07
Matches are distributed among these distances:
62 48 0.16
63 2 0.01
64 1 0.00
65 1 0.00
66 46 0.15
67 198 0.66
68 5 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (66 bp):
CATAGTCGAGCTATGGTCTTACACATTTTACCCCATGCTTAATGTCCTGACGGACTCTCTATGTT
G
Found at i:15431700 original size:50 final size:50
Alignment explanation
Indices: 15431572--15431868 Score: 256
Period size: 50 Copynumber: 5.8 Consensus size: 50
15431562 ATTTGGGTAA
* * * * *
15431572 AGAGATCCCATGTAGGACAATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
*
15431628 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
15431678 AGAGGTCCCATGTAAGATCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
15431728 AGAGGTCCCCCGTAAGACCATGTCTGTGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * * *
15431778 AGAACTCCTATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
15431827 AAACATCCCATGTAAGACCATGTCTGGTATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15431869 TGTTATTATC
Statistics
Matches: 203, Mismatches: 37, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
48 1 0.00
49 37 0.18
50 124 0.61
53 3 0.01
55 1 0.00
56 37 0.18
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:15439154 original size:24 final size:24
Alignment explanation
Indices: 15439127--15439213 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
15439117 CATTATTGGG
*
15439127 AAAGGATGAATTGATGGAAAATGT
1 AAAGGATGAATTGACGGAAAATGT
* * *
15439151 AAAGGAGGAACTGACAGAAAATGT
1 AAAGGATGAATTGACGGAAAATGT
*
15439175 AAAGGATGAATTGACGG-TAATGT
1 AAAGGATGAATTGACGGAAAATGT
15439198 AAAGGATGAATTGACG
1 AAAGGATGAATTGACG
15439214 ACAAATTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 21 0.38
24 34 0.62
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.21
Consensus pattern (24 bp):
AAAGGATGAATTGACGGAAAATGT
Found at i:15442391 original size:24 final size:24
Alignment explanation
Indices: 15442363--15442415 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
15442353 CGGTGCTTTT
*
15442363 CGTTAATTGCTCTTCGGAGCTACC
1 CGTTAATTACTCTTCGGAGCTACC
*
15442387 CGTTAATTACTCTTTGGAGCTACC
1 CGTTAATTACTCTTCGGAGCTACC
15442411 CGTTA
1 CGTTA
15442416 TAGGCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (24 bp):
CGTTAATTACTCTTCGGAGCTACC
Found at i:15442423 original size:24 final size:23
Alignment explanation
Indices: 15442371--15442442 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
15442361 TTCGTTAATT
*
15442371 GCTCTTCGGAGCTACCCGTTAATTA
1 GCTCTTTGGAGCTACCCGTT-A-TA
15442396 -CTCTTTGGAGCTACCCGTTATA
1 GCTCTTTGGAGCTACCCGTTATA
* *
15442418 GGCTCTTTGTGAGCTTCCCGATATA
1 -GCTCTTTG-GAGCTACCCGTTATA
15442443 TTACCTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 25 0.61
25 13 0.32
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (23 bp):
GCTCTTTGGAGCTACCCGTTATA
Found at i:15450732 original size:33 final size:34
Alignment explanation
Indices: 15450692--15450768 Score: 113
Period size: 33 Copynumber: 2.3 Consensus size: 34
15450682 TGAAATCATT
*
15450692 TGAAAATGAATGTTGGTTTC-C-AAAAATGGAAA
1 TGAAAATGAATGTGGGTTTCTCAAAAAATGGAAA
15450724 TGAAAAATGAATGTGGGTTTCTCAAAAAATGGAAA
1 TG-AAAATGAATGTGGGTTTCTCAAAAAATGGAAA
*
15450759 TGGAAATGAA
1 TGAAAATGAA
15450769 AATAAGAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 2 0.05
33 17 0.43
34 8 0.20
35 13 0.32
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.26
Consensus pattern (34 bp):
TGAAAATGAATGTGGGTTTCTCAAAAAATGGAAA
Found at i:15451996 original size:25 final size:25
Alignment explanation
Indices: 15451934--15452000 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
15451924 TAGCATTATT
15451934 GGGTTGCTAACACTAGCTTCGAATTA
1 GGGTTGCTAACACTAGCTTC-AATTA
* *
15451960 GGGTTGCTAACACTAGCTT-AGTTC
1 GGGTTGCTAACACTAGCTTCAATTA
*
15451984 GATGTTGCTAACACTAG
1 G-GGTTGCTAACACTAG
15452001 TTAAGATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.11
25 14 0.38
26 19 0.51
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAACACTAGCTTCAATTA
Found at i:15453525 original size:25 final size:26
Alignment explanation
Indices: 15453497--15453555 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
15453487 ACATGTACAT
* *
15453497 AAAAAATATATAT-ATGTATAGATTA
1 AAAAAATATATATAATATATACATTA
* *
15453522 AAAATAT-TATATAATATCTACATTA
1 AAAAAATATATATAATATATACATTA
15453547 AAAAAATAT
1 AAAAAATAT
15453556 GTGTATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 5 0.19
25 21 0.78
26 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
AAAAAATATATATAATATATACATTA
Found at i:15457438 original size:21 final size:21
Alignment explanation
Indices: 15457414--15457465 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
15457404 CCACTGTTTT
*
15457414 TAATCTCACTACTACAGTATC
1 TAATCTCACTACTACAGTAAC
**
15457435 TAATCTCACCGCTACAGTAAC
1 TAATCTCACTACTACAGTAAC
15457456 TAATCTCACT
1 TAATCTCACT
15457466 GCCATTGCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31
Consensus pattern (21 bp):
TAATCTCACTACTACAGTAAC
Found at i:15461501 original size:15 final size:15
Alignment explanation
Indices: 15461481--15461536 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
15461471 CTTTTGCTCA
15461481 ATCTTTTCTTTATTT
1 ATCTTTTCTTTATTT
15461496 ATCTTTTTCTTTATTT
1 ATC-TTTTCTTTATTT
* *
15461512 -TATTTTCTTTGTTTT
1 ATCTTTTCTTT-ATTT
15461527 AT-TTTTCTTT
1 ATCTTTTCTTT
15461537 TAATATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 8 0.22
15 15 0.42
16 13 0.36
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (15 bp):
ATCTTTTCTTTATTT
Found at i:15461506 original size:21 final size:20
Alignment explanation
Indices: 15461489--15461531 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
15461479 CAATCTTTTC
15461489 TTTATTTATCTTTTTCTTTAT
1 TTTATTT-TCTTTTTCTTTAT
*
15461510 TTTATTTTCTTTGT-TTTAT
1 TTTATTTTCTTTTTCTTTAT
15461529 TTT
1 TTT
15461532 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 6 0.29
21 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTATTTTCTTTTTCTTTAT
Found at i:15462862 original size:38 final size:42
Alignment explanation
Indices: 15462785--15462862 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
15462775 TCAGACTTAG
* * *
15462785 GATTTATTTAAATTTTGGTTAATGTCATATTTTCTTAAATAT
1 GATTTATTTAAATTTTGGTTAATGTCAGAGTTTCGTAAATAT
15462827 GATTTATTTAAATTTTGG-T-AT-TC-GAGTTTCGTAAAT
1 GATTTATTTAAATTTTGGTTAATGTCAGAGTTTCGTAAAT
15462863 TTTGAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 10 0.30
39 2 0.06
40 2 0.06
41 1 0.03
42 18 0.55
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (42 bp):
GATTTATTTAAATTTTGGTTAATGTCAGAGTTTCGTAAATAT
Found at i:15465651 original size:6 final size:6
Alignment explanation
Indices: 15465640--15465665 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15465630 TTGAACAAGC
15465640 ATGTAT ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT
15465666 ATAATGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:15466335 original size:41 final size:41
Alignment explanation
Indices: 15466286--15466394 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
15466276 GACTTTAAGT
*
15466286 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
15466327 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
15466368 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
15466395 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:15469349 original size:41 final size:41
Alignment explanation
Indices: 15469292--15469375 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
15469282 TTCGCATTGA
*
15469292 ATTAATAAATTTTTAATTAAATTATAAAGTAAATTTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
15469333 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
15469374 AT
1 AT
15469376 GAATGGGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (41 bp):
ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
Found at i:15470840 original size:23 final size:22
Alignment explanation
Indices: 15470814--15470868 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
15470804 TCAAGCCATC
15470814 AAATATAATTGACCAATCTTTTT
1 AAATATAATTGACCAAT-TTTTT
*
15470837 AAATATATTGTTGACCAATTTTTT
1 AAATATA--ATTGACCAATTTTTT
15470861 AAATATAA
1 AAATATAA
15470869 ATAAGTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 12 0.43
25 9 0.32
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (22 bp):
AAATATAATTGACCAATTTTTT
Found at i:15470844 original size:25 final size:24
Alignment explanation
Indices: 15470816--15470867 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
15470806 AAGCCATCAA
15470816 ATATAATTGACCAATCTTTTTAAAT
1 ATATAATTGACCAAT-TTTTTAAAT
**
15470841 ATATTGTTGACCAATTTTTTAAAT
1 ATATAATTGACCAATTTTTTAAAT
15470865 ATA
1 ATA
15470868 AATAAGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (24 bp):
ATATAATTGACCAATTTTTTAAAT
Found at i:15471703 original size:7 final size:7
Alignment explanation
Indices: 15471687--15471716 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15471677 GTCAAATTTG
15471687 AATA-TA
1 AATATTA
15471693 AATATTA
1 AATATTA
15471700 AATATTA
1 AATATTA
15471707 AATATTA
1 AATATTA
15471714 AAT
1 AAT
15471717 GTGAGCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATTA
Found at i:15479965 original size:37 final size:38
Alignment explanation
Indices: 15479912--15480016 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
15479902 TATTCCAAAA
*
15479912 AAATATTATTTTAATAGTTTAATATTAATTTTAAT-TT
1 AAATATTATCTTAATAGTTTAATATTAATTTTAATATT
*
15479949 -AATACTTATCTTAATAGTATT-TTATTAA-TTTAATATT
1 AAATA-TTATCTTAATAGT-TTAATATTAATTTTAATATT
*
15479986 AAAATGATTATCTTAATA--TTAAAATTAATTT
1 -AAAT-ATTATCTTAATAGTTTAATATTAATTT
15480017 AATGTTTATC
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
36 12 0.21
37 25 0.45
38 4 0.07
39 14 0.25
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (38 bp):
AAATATTATCTTAATAGTTTAATATTAATTTTAATATT
Found at i:15479987 original size:11 final size:11
Alignment explanation
Indices: 15479913--15479987 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
15479903 ATTCCAAAAA
*
15479913 AATATTATTTT
1 AATATTAATTT
15479924 AATAGTTTAATATT
1 AATA--TTAAT-TT
*
15479938 AATTTTAATTT
1 AATATTAATTT
15479949 AATACTT-ATCTT
1 AATA-TTAAT-TT
*
15479961 AATAGT-ATTT
1 AATATTAATTT
15479971 --TATTAATTT
1 AATATTAATTT
15479980 AATATTAA
1 AATATTAA
15479988 AATGATTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 20 0.39
12 13 0.25
13 4 0.08
14 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (11 bp):
AATATTAATTT
Found at i:15480069 original size:62 final size:59
Alignment explanation
Indices: 15479998--15480114 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
15479988 AATGATTATC
* * * *
15479998 TTAATATTAAAATTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAAATTAATTTAATATTTA--TT-AAGATAAATATTATATTAATTTAATAAGAT
*
15480060 TTAATATTAAATTTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
1 TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
15480115 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
60 2 0.04
62 25 0.50
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATAAGAT
Found at i:15487501 original size:21 final size:21
Alignment explanation
Indices: 15487450--15487495 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
15487440 AGATTTAATA
15487450 TTAAATTTAATCTAATTAAAT
1 TTAAATTTAATCTAATTAAAT
15487471 TTAAATTTAATCTAATTAAAT
1 TTAAATTTAATCTAATTAAAT
15487492 TTAA
1 TTAA
15487496 TATTAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATTTAATCTAATTAAAT
Found at i:15488483 original size:15 final size:16
Alignment explanation
Indices: 15488455--15488498 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 16
15488445 TTTTCTTTAA
*
15488455 ATTTAGTTTGTTTTTT
1 ATTTAGTTTATTTTTT
15488471 ATTT-GTTTA-TTTTT
1 ATTTAGTTTATTTTTT
15488485 ATTTAGTTTATTTT
1 ATTTAGTTTATTTT
15488499 AATTCCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 9 0.36
16 7 0.28
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (16 bp):
ATTTAGTTTATTTTTT
Found at i:15488485 original size:14 final size:15
Alignment explanation
Indices: 15488455--15488498 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15488445 TTTTCTTTAA
*
15488455 ATTTAGTTTGTTTTTT
1 ATTTAGTTT-ATTTTT
15488471 ATTT-GTTTATTTTT
1 ATTTAGTTTATTTTT
15488485 ATTTAGTTTATTTT
1 ATTTAGTTTATTTT
15488499 AATTCCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 13 0.50
16 4 0.15
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (15 bp):
ATTTAGTTTATTTTT
Found at i:15489246 original size:9 final size:9
Alignment explanation
Indices: 15489232--15489259 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15489222 TTACCCAACT
15489232 AACCTTTCA
1 AACCTTTCA
15489241 AACCTTTCA
1 AACCTTTCA
15489250 AACCTTTCA
1 AACCTTTCA
15489259 A
1 A
15489260 GACAAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (9 bp):
AACCTTTCA
Found at i:15494487 original size:29 final size:29
Alignment explanation
Indices: 15494454--15494513 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
15494444 TAGGAATAGG
*
15494454 AAATTCCATTAGGATT-TCTTAGGTTAGTT
1 AAATTCCACTAGG-TTATCTTAGGTTAGTT
*
15494483 AAATTCCACTAGGTTATTTTAGGTTAGTT
1 AAATTCCACTAGGTTATCTTAGGTTAGTT
15494512 AA
1 AA
15494514 TTTAATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (29 bp):
AAATTCCACTAGGTTATCTTAGGTTAGTT
Found at i:15496431 original size:20 final size:20
Alignment explanation
Indices: 15496402--15496449 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
15496392 CGATTAACCG
* *
15496402 AATTAACCGAATTACCCGAA
1 AATTACCCGAATTACCCAAA
15496422 AATTACCCGAATTACCCAAA
1 AATTACCCGAATTACCCAAA
15496442 AATTACCC
1 AATTACCC
15496450 AAAAAGTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (20 bp):
AATTACCCGAATTACCCAAA
Found at i:15496436 original size:9 final size:9
Alignment explanation
Indices: 15496390--15496438 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
15496380 TAAAAATATC
15496390 CCCG-ATTA
1 CCCGAATTA
*
15496398 ACCGAATTA
1 CCCGAATTA
*
15496407 ACCGAATTA
1 CCCGAATTA
15496416 CCCGAAAATTA
1 CCCG--AATTA
15496427 CCCGAATTA
1 CCCGAATTA
15496436 CCC
1 CCC
15496439 AAAAATTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 3 0.08
9 24 0.67
11 9 0.25
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (9 bp):
CCCGAATTA
Found at i:15496454 original size:11 final size:11
Alignment explanation
Indices: 15496411--15496454 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
15496401 GAATTAACCG
*
15496411 AATTACCCGAA
1 AATTACCCAAA
*
15496422 AATTACCC--G
1 AATTACCCAAA
15496431 AATTACCCAAA
1 AATTACCCAAA
15496442 AATTACCCAAA
1 AATTACCCAAA
15496453 AA
1 AA
15496455 GTTCGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
11 21 0.72
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:15510254 original size:22 final size:22
Alignment explanation
Indices: 15510229--15510290 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
15510219 TAATTAAAAT
*
15510229 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAATTATTTGTTAA
* * *
15510251 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAATTATTTGTTAA
15510273 TAAAATTATCAAATTATT
1 TAAAATTA--AAATTATT
15510291 AGTAAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 26 0.81
24 6 0.19
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAAATTAAAATTATTTGTTAA
Found at i:15510291 original size:17 final size:17
Alignment explanation
Indices: 15510269--15510312 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
15510259 AAACTAATTG
15510269 TTATTAAAATTATCAAA
1 TTATTAAAATTATCAAA
15510286 TTATTAGTAAAATTATCAAA
1 TTA-T--TAAAATTATCAAA
15510306 TTATTAA
1 TTATTAA
15510313 TTGTTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 1 0.04
20 16 0.67
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
TTATTAAAATTATCAAA
Found at i:15510296 original size:20 final size:20
Alignment explanation
Indices: 15510273--15510311 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15510263 TAATTGTTAT
15510273 TAAAATTATCAAATTATTAG
1 TAAAATTATCAAATTATTAG
15510293 TAAAATTATCAAATTATTA
1 TAAAATTATCAAATTATTA
15510312 ATTGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAATTATCAAATTATTAG
Found at i:15510358 original size:66 final size:59
Alignment explanation
Indices: 15510303--15510422 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
15510293 TAAAATTATC
* * *
15510303 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
15510361 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
15510420 AAA
1 AAA
15510423 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:15510528 original size:22 final size:24
Alignment explanation
Indices: 15510488--15510531 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15510478 AAATAAACTT
*
15510488 AAAATGAAAAACTATTATATTTTA
1 AAAATGAAAAAATATTATATTTTA
15510512 AAAAT-AAAAAATA-TATATTT
1 AAAATGAAAAAATATTATATTT
15510532 AATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATGAAAAAATATTATATTTTA
Found at i:15512647 original size:18 final size:18
Alignment explanation
Indices: 15512605--15512647 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15512595 TACCAGGTGC
* *
15512605 GTATCCTAACTCTTATGT
1 GTATCCTAACCCTTATAT
15512623 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
15512641 GTTTCCT
1 GTATCCT
15512648 TTATTCACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:15513110 original size:59 final size:59
Alignment explanation
Indices: 15513021--15513141 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
15513011 ATTGATTTAT
*
15513021 TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATA-GAAGTTA
1 TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATG-AGTTA
* ** * *
15513080 TTTTGAATATGTTTGTTCAATTTATTTTTATATTGTTTTATTTAATAAATTATGAGTTA
1 TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATGAGTTA
15513139 TTT
1 TTT
15513142 CGATGTGGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (59 bp):
TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATGAGTTA
Found at i:15514318 original size:30 final size:30
Alignment explanation
Indices: 15514275--15514335 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15514265 CAAATTTTAG
*
15514275 GAGCCACACGGGCTGGGCACACGCCCATGT
1 GAGCCACACGGGCTGAGCACACGCCCATGT
* * *
15514305 GAGCCTCATGGGCTGAGCACATGCCCATGT
1 GAGCCACACGGGCTGAGCACACGCCCATGT
15514335 G
1 G
15514336 CCAACCCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (30 bp):
GAGCCACACGGGCTGAGCACACGCCCATGT
Found at i:15520664 original size:9 final size:9
Alignment explanation
Indices: 15520650--15520674 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15520640 ATTGTTCAGA
15520650 AAAAAAATC
1 AAAAAAATC
15520659 AAAAAAATC
1 AAAAAAATC
15520668 AAAAAAA
1 AAAAAAA
15520675 ATATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Done.