Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 285 of 318
Found at i:91042073 original size:12 final size:12
Alignment explanation
Indices: 91042053--91042088 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
91042043 ATTCATTTGA
*
91042053 CATTTATGCATT
1 CATTCATGCATT
91042065 CATTCATGCATT
1 CATTCATGCATT
*
91042077 CATTCATTCATT
1 CATTCATGCATT
91042089 GCATATCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:91049542 original size:23 final size:24
Alignment explanation
Indices: 91049508--91049558 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
91049498 AATCAAGATG
* *
91049508 AAAACCCGAAAAGGGTATATAAAA
1 AAAACCCAAAAAGGGCATATAAAA
91049532 AAAACCCAAAAAGGGCATATAAAA
1 AAAACCCAAAAAGGGCATATAAAA
91049556 AAA
1 AAA
91049559 GAAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.10
Consensus pattern (24 bp):
AAAACCCAAAAAGGGCATATAAAA
Found at i:91049567 original size:24 final size:24
Alignment explanation
Indices: 91049515--91049567 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
91049505 ATGAAAACCC
* *
91049515 GAAAAGGGTATATAAAAAAAACCCA
1 GAAAAGGGCATATAAAAAAAA-CAA
91049540 -AAAAGGGCATATAAAAAAAGA-AA
1 GAAAAGGGCATATAAAAAAA-ACAA
91049563 GAAAA
1 GAAAA
91049568 AAGGGTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 22 0.92
25 1 0.04
ACGTcount: A:0.66, C:0.08, G:0.17, T:0.09
Consensus pattern (24 bp):
GAAAAGGGCATATAAAAAAAACAA
Found at i:91050540 original size:76 final size:76
Alignment explanation
Indices: 91050410--91050550 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 76
91050400 TGATGTTTTA
* * **
91050410 TTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTGTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACACTGAGGTATTGTCAA
91050475 TTTTTCGTATG
66 TTTTTCGTATG
* * *
91050486 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACGCGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACACTGAGGTATTGTCAA
91050551 AAAAAAAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (76 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACACTGAGGTATTGTCAA
TTTTTCGTATG
Found at i:91050581 original size:63 final size:63
Alignment explanation
Indices: 91050490--91050613 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
91050480 CGTATGTTTC
* * *
91050490 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACGCGCTGAGGTATTTTCAAAA
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAAAA
* **
91050553 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATTTCAA
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
91050614 TTTCTGTTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (63 bp):
AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAAAA
Found at i:91050637 original size:74 final size:75
Alignment explanation
Indices: 91050551--91050693 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
91050541 GTATTTTCAA
* * *
91050551 AAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAAACAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
91050615 TTCTGTTGTC
66 TTCTGTTGTC
* * *
91050625 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAAACAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
91050690 TTTC
65 TTTC
91050694 CATTTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 39 0.64
76 22 0.36
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAAACAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:91050681 original size:139 final size:139
Alignment explanation
Indices: 91050424--91050689 Score: 376
Period size: 139 Copynumber: 1.9 Consensus size: 139
91050414 AAAATTCAAT
* **
91050424 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTGTCAATTTTTCGTATGTTT
1 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTGTCAATTTCTCGTATGTCA
* * * *
91050489 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACGCGCTGAGGTATTTTCAAAAA
66 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAAACACGCCGAGGTATTTTCAAAAA
91050554 AAAAACAAC
131 AAAAACAAC
* *
91050563 TCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATT-TCAATTTCT-GT-TGTC
1 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT-ATTGTCAATTTCTCGTATGTC
* **
91050625 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
65 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCA--AAACACGCCGAGGTATTTTCAA
91050690 TTTCCATTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
137 40 0.36
138 2 0.02
139 67 0.60
140 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (139 bp):
TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTGTCAATTTCTCGTATGTCA
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAAACACGCCGAGGTATTTTCAAAAA
AAAAACAAC
Found at i:91050821 original size:167 final size:167
Alignment explanation
Indices: 91050545--91051354 Score: 1299
Period size: 167 Copynumber: 4.9 Consensus size: 167
91050535 GCTGAGGTAT
* *
91050545 TTTCAAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
91050610 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
* *
91050675 CCGAGGTATTTTCAATTTCCATTTTTCAATTTCTACC
131 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
* * *
91050712 TTTCAAAAAAAAAACAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
91050777 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
91050842 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
131 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
91050879 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
91050944 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
*
91051009 CCGAGGTATTTTAAATTTCCGTTTTTCAATTTCTGCC
131 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
* * *
91051046 GTTC--AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTAATT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
91051109 TTAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
66 TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
*
91051174 CCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCC
131 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
* * *
91051211 TTTC--AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT--TGACTCACGCACTGAGCT
1 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA--CACG--CTGAGGT
* * * * * *
91051272 ATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
62 AATTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGT
* *
91051337 CACACACGGAGGTATTTT
125 CACACGCCGAGGTATTTT
91051355 TTTCAATTTA
Statistics
Matches: 607, Mismatches: 30, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
163 2 0.00
165 201 0.33
167 345 0.57
168 3 0.00
169 56 0.09
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (167 bp):
TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCC
Found at i:91050824 original size:74 final size:75
Alignment explanation
Indices: 91050718--91050860 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
91050708 TACCTTTCAA
* *
91050718 AAAAAAAACAACTCATATTACGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAAACAACTCATATTACGAGAGGCGAGTTGAGCCTCAAGCACACGCCGAGGTAATTTCAAT
91050782 TTCTGTTGTC
66 TTCTGTTGTC
* * * * *
91050792 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAAACAACTCATATTACGAGAGGCGAGTTGAGCCTCAAG-CACACGCCGAGGTAATTTCAA
91050857 TTTC
65 TTTC
91050861 CGTTTTTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 38 0.63
76 22 0.37
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (75 bp):
AAAAAAAACAACTCATATTACGAGAGGCGAGTTGAGCCTCAAGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:91050991 original size:74 final size:75
Alignment explanation
Indices: 91050885--91051191 Score: 246
Period size: 74 Copynumber: 3.9 Consensus size: 75
91050875 TGCCTTTCAA
* * *
91050885 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTAAAT
91050949 TTCTGTTGTC
66 TTCTGTTGTC
* * *
91050959 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTAAA
* *
91051024 TTTCCGTTTTTC
65 TTTCTG-TTGTC
*** * *
91051036 AATTTCTGCCGTTCAAAAA--AA-TCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 AA------------AAAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGCACAC
*
91051097 GCCGAGGTAATTTTAATTTCTGTTGTC
49 GCCGAGGTAATTTAAATTTCTGTTGTC
* * *
91051124 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTAAA
91051189 TTT
65 TTT
91051192 TCGTTTTTCA
Statistics
Matches: 181, Mismatches: 27, Indels: 48
0.71 0.11 0.19
Matches are distributed among these distances:
74 56 0.31
76 54 0.30
77 7 0.04
78 2 0.01
79 2 0.01
86 2 0.01
87 2 0.01
88 7 0.04
89 33 0.18
91 16 0.09
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTAAAT
TTCTGTTGTC
Found at i:91051292 original size:91 final size:90
Alignment explanation
Indices: 91051122--91051293 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 90
91051112 ATTTCTGTTG
* * *
91051122 TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCT-AGGACACACGCCGAGCTATTTTC
*
91051187 AATTTTCGTTTTTCAATTTCTGCCTT
65 AATTTTCGTCTTTCAATTTCTGCCTT
* * * *
91051213 TCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGACTCACGCACTGAGCTATTTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTAGGACACACGC-C-GAGCTATTTT
91051277 CAA-TTTCTGTCTTTCAA
64 CAATTTTC-GTCTTTCAA
91051294 AAAAAATCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
89 7 0.10
90 5 0.07
91 58 0.83
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (90 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTAGGACACACGCCGAGCTATTTTCA
ATTTTCGTCTTTCAATTTCTGCCTT
Found at i:91051318 original size:78 final size:77
Alignment explanation
Indices: 91051196--91051442 Score: 322
Period size: 78 Copynumber: 3.2 Consensus size: 77
91051186 CAATTTTCGT
* *
91051196 TTTTCAATTTCTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA
91051261 CGCACTGAGCTA
66 CGCACTGAGCTA
91051273 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA-
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GAC
* * *
91051336 TCACACACGGAGGTA
63 TCACGCACTGAGCTA
* * * *
91051351 TTTTTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 ---TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAC
*
91051414 TCACGCGCTGAGCTA
63 TCACGCACTGAGCTA
91051429 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
91051443 TTTTAATGTC
Statistics
Matches: 147, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
75 12 0.08
77 22 0.15
78 92 0.63
79 5 0.03
81 16 0.11
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCA
CGCACTGAGCTA
Found at i:91052124 original size:19 final size:19
Alignment explanation
Indices: 91052100--91052136 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
91052090 TAAGCCCCCC
91052100 CCAAAAAAAACCTAACCCT
1 CCAAAAAAAACCTAACCCT
91052119 CCAAAAAAAACCTAACCC
1 CCAAAAAAAACCTAACCC
91052137 CCCCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (19 bp):
CCAAAAAAAACCTAACCCT
Found at i:91052145 original size:19 final size:19
Alignment explanation
Indices: 91052094--91052147 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
91052084 GCCCATTAAG
91052094 CCCCCCCCAAAAAAAACCTAA
1 CCCCCCCC--AAAAAACCTAA
* **
91052115 CCCTCCAAAAAAAACCTAA
1 CCCCCCCCAAAAAACCTAA
91052134 CCCCCCCCAAAAAA
1 CCCCCCCCAAAAAA
91052148 AAAACCAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 22 0.81
21 5 0.19
ACGTcount: A:0.48, C:0.46, G:0.00, T:0.06
Consensus pattern (19 bp):
CCCCCCCCAAAAAACCTAA
Found at i:91053089 original size:12 final size:12
Alignment explanation
Indices: 91053072--91053096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91053062 ATTTTGTAAA
91053072 TATCATTATTAT
1 TATCATTATTAT
91053084 TATCATTATTAT
1 TATCATTATTAT
91053096 T
1 T
91053097 GTTATTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATCATTATTAT
Found at i:91058156 original size:180 final size:180
Alignment explanation
Indices: 91057849--91058212 Score: 604
Period size: 180 Copynumber: 2.0 Consensus size: 180
91057839 TGGAACTTAG
* *
91057849 ATTTTGGTAATAGAGTGGCTTGTACATAGATTTAGAACCATATGAATTTTTGTTGTAAAGTAGCT
1 ATTTAGGTAATAGAATGGCTTGTACATAGATTTAGAACCATATGAATTTTTGTTGTAAAGTAGCT
* * *
91057914 AAGTGGTTCCAAAACTATGTCATGCATGTTTAATATCATTTTGTACCTTGAGATAATCTTTCTTA
66 AAATGGTTCCAAAACTATATCATGCATATTTAATATCATTTTGTACCTTGAGATAATCTTTCTTA
* *
91057979 GATGGATATGCTCATGCATTATATG-AGTTTTTTGAATGGTAATCTAACAT
131 GATGGATATACTCATGCATTATATGAAG-TTTTTGAATGATAATCTAACAT
* *
91058029 ATTTAGGTAATAGAATGGCTTGTACATAGATTTAGAATCATATGGATTTTTGTTGTAAAGTAGCT
1 ATTTAGGTAATAGAATGGCTTGTACATAGATTTAGAACCATATGAATTTTTGTTGTAAAGTAGCT
* *
91058094 AAATGGTTCCGAAACTATATCATGCATATTTAATATCATTTTGTACCTTGAGATGATCTTTCTTA
66 AAATGGTTCCAAAACTATATCATGCATATTTAATATCATTTTGTACCTTGAGATAATCTTTCTTA
*
91058159 GATGGATATACTCGTGCATTATATGAAGTTTTTGAATGATAATCTAACAT
131 GATGGATATACTCATGCATTATATGAAGTTTTTGAATGATAATCTAACAT
91058209 ATTT
1 ATTT
91058213 TGAGTCCTAA
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
180 169 0.99
181 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (180 bp):
ATTTAGGTAATAGAATGGCTTGTACATAGATTTAGAACCATATGAATTTTTGTTGTAAAGTAGCT
AAATGGTTCCAAAACTATATCATGCATATTTAATATCATTTTGTACCTTGAGATAATCTTTCTTA
GATGGATATACTCATGCATTATATGAAGTTTTTGAATGATAATCTAACAT
Found at i:91060833 original size:4 final size:4
Alignment explanation
Indices: 91060824--91060850 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
91060814 TGATTATCTC
91060824 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
91060851 TTGGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:91066550 original size:15 final size:15
Alignment explanation
Indices: 91066530--91066560 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91066520 TTAGAATTTG
91066530 ATTGATGGGTGACCT
1 ATTGATGGGTGACCT
91066545 ATTGATGGGTGACCT
1 ATTGATGGGTGACCT
91066560 A
1 A
91066561 GCTTTGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (15 bp):
ATTGATGGGTGACCT
Found at i:91069509 original size:14 final size:13
Alignment explanation
Indices: 91069486--91069524 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
91069476 GACCTGCCCG
91069486 TATTAATTTTTTTA
1 TATT-ATTTTTTTA
91069500 TATTA-TTTTTTA
1 TATTATTTTTTTA
*
91069512 TATAATTTTTTTA
1 TATTATTTTTTTA
91069525 AAAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 8 0.35
14 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:91073400 original size:29 final size:31
Alignment explanation
Indices: 91073356--91073413 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
91073346 TTATATTAAA
91073356 TAAAAAATTAAAATAA-TTATCAAACACATT
1 TAAAAAATTAAAATAATTTATCAAACACATT
* *
91073386 TAAAATATT-AAATAATTTATTAAACACA
1 TAAAAAATTAAAATAATTTATCAAACACA
91073414 CCCTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (31 bp):
TAAAAAATTAAAATAATTTATCAAACACATT
Found at i:91074509 original size:18 final size:19
Alignment explanation
Indices: 91074475--91074513 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
91074465 AATTTTACTT
*
91074475 TACATAATAAATTATATAA
1 TACATAATAAATAATATAA
91074494 TACATAA-AAATAATATAA
1 TACATAATAAATAATATAA
91074512 TA
1 TA
91074514 TAATCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TACATAATAAATAATATAA
Found at i:91079179 original size:20 final size:20
Alignment explanation
Indices: 91079154--91079192 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
91079144 ACCAAACAAA
*
91079154 AAAGAAAAAGGGTAAAAATT
1 AAAGAAAAAGGCTAAAAATT
91079174 AAAGAAAAAGGCTAAAAAT
1 AAAGAAAAAGGCTAAAAAT
91079193 GAATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAGAAAAAGGCTAAAAATT
Found at i:91081660 original size:7 final size:7
Alignment explanation
Indices: 91081642--91081674 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
91081632 TGGACCACCC
91081642 TCTTTTT
1 TCTTTTT
91081649 T-TTTTT
1 TCTTTTT
91081655 TCTTTTT
1 TCTTTTT
91081662 TCTTTTT
1 TCTTTTT
91081669 T-TTTTT
1 TCTTTTT
91081675 AAAATTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.44
7 14 0.56
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TCTTTTT
Found at i:91084921 original size:42 final size:41
Alignment explanation
Indices: 91084875--91084979 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
91084865 GGAAAGATAC
*
91084875 TGGCACAAATAGTGCATCATCGG-GCAAGCTAAAACAATTATA-
1 TGGCACAAA-AGTGCATCATCGGAG-AA-CCAAAACAATTATAT
* *
91084917 TGGCACACAAGGTGCATCATCGGATGAACCAAAGCAATTATAT
1 TGGCACA-AAAGTGCATCATCGGA-GAACCAAAACAATTATAT
*
91084960 TGGCACATAAGTGCATCATC
1 TGGCACAAAAGTGCATCATC
91084980 AGATATACTG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 42 0.78
43 11 0.20
44 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (41 bp):
TGGCACAAAAGTGCATCATCGGAGAACCAAAACAATTATAT
Found at i:91085001 original size:42 final size:42
Alignment explanation
Indices: 91084955--91085689 Score: 667
Period size: 42 Copynumber: 17.6 Consensus size: 42
91084945 CCAAAGCAAT
* * * *
91084955 TATATTGGCACATAAGTGCATCATCAGATATACTGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * **
91084997 TATATTAGCACGTAAGTGTATCATTGGACATACCGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * ***
91085039 TATACTGACACATAAGTGCATCATCGGACATATAAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* *
91085081 TATAATGGCACGTAAGTGCATCATCAGACATACTGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* ** *
91085123 TATACTGGCACGTAAATGCATCATTGGACATACCTAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* *
91085165 TATACTGGCAAGTAAGTGCATAATCAGACATACCGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * * *
91085207 TATACTGACATGTAAGTACATCATC-GAATATATCGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAG-ACATACCGAAGTAAA
* ** * *
91085249 TATACTGGCACGTAAGTACATCATTGGACGTACCAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * * *
91085291 TATACTAGCACGCAAGTGCATCATC-GAATATATCGAAGAAAA
1 TATACTGGCACGTAAGTGCATCATCAG-ACATACCGAAGTAAA
* * * * * * *
91085333 TATACTAGTAAGTAAGAGCATGATCAGATATACCAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * * *
91085375 TATACT-ACATGTAAGTGCATCATCGGATATACTGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * *
91085416 TATACTGGCATGTAAGTGCGTCATTAGACATACCG-A--AAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * ** * *
91085455 TATACTAGTATATAAATGCATTATC-GA-ATATTCCGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATA--CCGAAGTAAA
* ** * * *
91085497 TATACTAGCAAATAAGTGCATAATTAGACATACCAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* ** * *
91085539 TATACTAGCAAATAAGTGCATAATTAGACATACCGAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * * *
91085581 TATACTGACACGTAAGTGCATCATCAGATACACCAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* * *
91085623 TATACTGGCACGTAAGAGCATCATCAGATATACCAAAGTAAA
1 TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
* *
91085665 TATACTAGCGCGTAAGTGCATCATC
1 TATACTGGCACGTAAGTGCATCATC
91085690 GAATATACTA
Statistics
Matches: 573, Mismatches: 108, Indels: 24
0.81 0.15 0.03
Matches are distributed among these distances:
37 3 0.01
38 2 0.00
39 24 0.04
40 1 0.00
41 36 0.06
42 500 0.87
43 4 0.01
44 3 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (42 bp):
TATACTGGCACGTAAGTGCATCATCAGACATACCGAAGTAAA
Found at i:91086937 original size:70 final size:70
Alignment explanation
Indices: 91086849--91086993 Score: 265
Period size: 70 Copynumber: 2.1 Consensus size: 70
91086839 AACTTAATGG
91086849 GTAAACATTTATTCAAACGACATAGTTTTACCTTTTAACTTAATTATTTTGAATTTTAACTTTTA
1 GTAAACATTTATTCAAACGACATAGTTTTACCTTTTAACTTAATTATTTTGAATTTTAACTTTTA
91086914 AAAAA
66 AAAAA
*
91086919 GTAAACATTTA-TCAAAACGACGTAGTTTTACCTTTTAACTTAATTATTTTGAATTTTAACTTTT
1 GTAAACATTTATTC-AAACGACATAGTTTTACCTTTTAACTTAATTATTTTGAATTTTAACTTTT
91086983 AAAAAA
65 AAAAAA
91086989 GTAAA
1 GTAAA
91086994 TGTAGTGACG
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 2 0.03
70 71 0.97
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (70 bp):
GTAAACATTTATTCAAACGACATAGTTTTACCTTTTAACTTAATTATTTTGAATTTTAACTTTTA
AAAAA
Found at i:91088127 original size:22 final size:21
Alignment explanation
Indices: 91088102--91088150 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
91088092 GTATATATAT
* *
91088102 ATATAAAATAATGGTGTTAGAA
1 ATATAAAAT-ATAGTATTAGAA
*
91088124 ATATACAATATAGTATTAGAA
1 ATATAAAATATAGTATTAGAA
91088145 ATATAA
1 ATATAA
91088151 GTACAATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
ATATAAAATATAGTATTAGAA
Found at i:91088206 original size:22 final size:23
Alignment explanation
Indices: 91088155--91088217 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
91088145 ATATAAGTAC
* *
91088155 AATAGTATAAAAGATATATAACT
1 AATAATATTAAAGATATATAACT
*
91088178 AACAATATTAAAG-TATAT-ACGT
1 AATAATATTAAAGATATATAAC-T
*
91088200 AATAATATATAAAAATAT
1 AATAATAT-TAAAGATAT
91088218 GATATTGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 13 0.41
23 14 0.44
24 3 0.09
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (23 bp):
AATAATATTAAAGATATATAACT
Found at i:91090345 original size:74 final size:75
Alignment explanation
Indices: 91090224--91090376 Score: 204
Period size: 74 Copynumber: 2.1 Consensus size: 75
91090214 ACAGACATCA
* *
91090224 AAAACAGAAATTGAAAATAACTCAGCGCATGACCCAAGGCTCAACTCACCTATCGCGATATGAGT
1 AAAACAGAAATTGAAAATAACTCAGCGCATGACCCAAGACTCAACTCACCTATCGCAATATGAGT
91090289 TGATTTTTG-
66 TGATTTTTGC
* * * * *
91090298 AAAACAGAATTTGAAAATACCTC-G-GCATGTGACCCGAGACTCAACTCACCTCTTGCAATATGA
1 AAAACAGAAATTGAAAATAACTCAGCGCA--TGACCCAAGACTCAACTCACCTATCGCAATATGA
91090361 GTTGATTTTTGC
64 GTTGATTTTTGC
91090373 AAAA
1 AAAA
91090377 TATAAAAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
72 3 0.04
73 1 0.01
74 61 0.88
75 4 0.06
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (75 bp):
AAAACAGAAATTGAAAATAACTCAGCGCATGACCCAAGACTCAACTCACCTATCGCAATATGAGT
TGATTTTTGC
Found at i:91090400 original size:14 final size:14
Alignment explanation
Indices: 91090381--91090417 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
91090371 GCAAAATATA
91090381 AAAACAGAATTTGG
1 AAAACAGAATTTGG
91090395 AAAACAGAATTTGG
1 AAAACAGAATTTGG
91090409 AAAACAGAA
1 AAAACAGAA
91090418 ACGAAGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.19, T:0.16
Consensus pattern (14 bp):
AAAACAGAATTTGG
Found at i:91090541 original size:76 final size:75
Alignment explanation
Indices: 91090434--91090631 Score: 258
Period size: 76 Copynumber: 2.6 Consensus size: 75
91090424 ACTGCCTGAA
* * *
91090434 CATGTCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCA-AACAGAAGTTGAA
1 CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAACAGAAATT-AA
91090498 AA-TACCTCAG
65 AATTACCTCAG
* *
91090508 CATG-CGAGCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAATAGAAA
1 CATGTC---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAGAACAGAAA
*
91090572 TTAAAATTATCTCAG
61 TTAAAATTACCTCAG
*
91090587 CATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
91090632 GACAAACAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 15
0.82 0.06 0.11
Matches are distributed among these distances:
73 1 0.01
74 4 0.04
75 4 0.04
76 33 0.31
77 33 0.31
78 13 0.12
79 19 0.18
80 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (75 bp):
CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAACAGAAATTAAA
ATTACCTCAG
Found at i:91090617 original size:77 final size:76
Alignment explanation
Indices: 91090434--91090631 Score: 260
Period size: 77 Copynumber: 2.6 Consensus size: 76
91090424 ACTGCCTGAA
* * *
91090434 CATGTCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGCAAACAGAAGTTGA
1 CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGA
91090497 AAATACCTCAG
66 AAATACCTCAG
* *
91090508 CATG-CGAGCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAATAGAAA
1 CATGTC---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAA-AACAGAAA
*
91090572 TT-AAAATTATCTCAG
62 TTGAAAA-TACCTCAG
*
91090587 CATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
91090632 GACAAACAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
73 1 0.01
74 4 0.04
76 33 0.31
77 37 0.34
78 13 0.12
79 19 0.18
80 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (76 bp):
CATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGA
AAATACCTCAG
Found at i:91090745 original size:14 final size:14
Alignment explanation
Indices: 91090722--91090751 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91090712 TTGATTTTTG
*
91090722 AAACATAAATTGAA
1 AAACAGAAATTGAA
91090736 AAACAGAAATTGAA
1 AAACAGAAATTGAA
91090750 AA
1 AA
91090752 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:91090766 original size:87 final size:87
Alignment explanation
Indices: 91090558--91090999 Score: 683
Period size: 87 Copynumber: 5.1 Consensus size: 87
91090548 TGATTTTTTT
* * *
91090558 TTGAAGAATAGAAATTAAAATTATCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
91090621 GAGTTGA-TTTTGACAAACAGAAA
66 GAGTTGATTTTTG--AAACATAAA
* * *
91090644 TTGAAAAACAGAAACTAAAAATACCTCAGCATGTGACCTGAGGTTCAACTCACCTCTCGCAATAT
1 TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
91090709 GAGTTGATTTTTGAAACATAAA
66 GAGTTGATTTTTGAAACATAAA
* * * *
91090731 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
91090796 GAGTTGATTTTTGAAGCATAAA
66 GAGTTGATTTTTGAAACATAAA
* *
91090818 TTGAAAAATAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
91090883 GAGTTGATTTTTGAAACATAAA
66 GAGTTGATTTTTGAAACATAAA
* *
91090905 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATA
1 TTGAAAAATAGAAA-TTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
*
91090970 TCAGTTGATTTTTGAAACATAAA
65 TGAGTTGATTTTTGAAACATAAA
91090993 TTGAAAA
1 TTGAAAA
91091000 TACCTCAGCG
Statistics
Matches: 329, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
86 29 0.09
87 185 0.56
88 110 0.33
89 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAATAGAAATTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAACATAAA
Found at i:91090931 original size:175 final size:174
Alignment explanation
Indices: 91090484--91090999 Score: 725
Period size: 175 Copynumber: 3.0 Consensus size: 174
91090474 ATTTTTTTGC
* * * *
91090484 AAACAGAAGTTGAAAATACCTCAGCATGCGAGCC-GATGCTCAACTCACCTCTCGCAATATGAGT
1 AAACAGAAATTGAAAATACCTCAGCATGTGA-CCTGAGGCTTAACTCACCTCTCGCAATATGAGT
* * * * *
91090548 TGATTTTT------T--TTTGAAGAATAGAAATTAAAATTATCTCAGCATGT--CCTGAGGCTCA
65 TGATTTTTGAAACATAAATTGAAAAATAGAAATTAAAAATACCTCAGCGTGTGACCTGAGGCTCA
*
91090603 ACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATTGAA
130 ACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATTGAA
* *
91090649 AAACAGAAACTAAAAATACCTCAGCATGTGACCTGAGG-TTCAACTCACCTCTCGCAATATGAGT
1 AAACAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTT-AACTCACCTCTCGCAATATGAGT
* *
91090713 TGATTTTTGAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCA
65 TGATTTTTGAAACATAAATTGAAAAATAGAAATTAAAAATACCTCAGCGTGTGACCTGAGGCTCA
* *
91090778 ACTCACCTCTCACAATATGAGTTGATTTTTGAAGCATAAATTGAA
130 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAA
*
91090823 AAATAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
*
91090888 GATTTTTGAAACATAAATTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTGACCTGAAGCTCA
66 GATTTTTGAAACATAAATTGAAAAATAGAAA-TTAAAAATACCTCAGCGTGTGACCTGAGGCTCA
*
91090953 ACTCACCTCTCGCAATATCAGTTGATTTTTGAAACATAAATTGAA
130 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAA
91090998 AA
1 AA
91091000 TACCTCAGCG
Statistics
Matches: 311, Mismatches: 25, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
164 3 0.01
165 61 0.20
171 1 0.00
173 28 0.09
174 101 0.32
175 112 0.36
176 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (174 bp):
AAACAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAACATAAATTGAAAAATAGAAATTAAAAATACCTCAGCGTGTGACCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAA
Found at i:91091071 original size:71 final size:72
Alignment explanation
Indices: 91090909--91091072 Score: 224
Period size: 71 Copynumber: 2.3 Consensus size: 72
91090899 CATAAATTGA
*
91090909 AAAATAGAAATTTAAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATCAG
1 AAAACAGAAA-TTAAAAATACCTCAGCG-GTGACCTGAAGCTCAACTCACCTCTCGCAATATCAG
91090974 TTGATTTTT
64 TTGATTTTT
* * * * * *
91090983 GAAACATAAATTGAAAATACCTCAGC-GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTAAAAATACCTCAGCGGTGACCTGAAGCTCAACTCACCTCTCGCAATATCAGTT
91091047 GATTTTT
66 GATTTTT
91091054 AATAACAGAAA-TAAAAATA
1 AA-AACAGAAATTAAAAATA
91091073 TCAGAATACC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 50 0.63
72 7 0.09
73 15 0.19
74 7 0.09
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (72 bp):
AAAACAGAAATTAAAAATACCTCAGCGGTGACCTGAAGCTCAACTCACCTCTCGCAATATCAGTT
GATTTTT
Found at i:91102856 original size:20 final size:21
Alignment explanation
Indices: 91102833--91102874 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
91102823 TATATACAAT
* *
91102833 ACATCAGAAATAAA-AAAAAA
1 ACATAAGAAAGAAAGAAAAAA
91102853 ACATAAGAAAGAAAGAAAAAA
1 ACATAAGAAAGAAAGAAAAAA
91102874 A
1 A
91102875 ATACATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.07
Consensus pattern (21 bp):
ACATAAGAAAGAAAGAAAAAA
Found at i:91103180 original size:22 final size:23
Alignment explanation
Indices: 91103119--91103191 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
91103109 AGTATTAGAA
* *
91103119 ATATACGTACAATAGTATAAAAGAT
1 ATATACGT--AATAATATTAAAGAT
*
91103144 ATATAAC-TAACAATATTAAAG-T
1 ATAT-ACGTAATAATATTAAAGAT
*
91103166 ATATACGTAATAATATATAAAAAT
1 ATATACGTAATAATAT-TAAAGAT
91103190 AT
1 AT
91103192 GATATTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.05
22 13 0.33
23 14 0.36
24 3 0.08
25 5 0.13
26 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (23 bp):
ATATACGTAATAATATTAAAGAT
Found at i:91110195 original size:48 final size:48
Alignment explanation
Indices: 91110056--91110283 Score: 183
Period size: 48 Copynumber: 4.7 Consensus size: 48
91110046 TATGTGTGCT
* * * * *
91110056 AGTGTAAGACCATGTTTGGAACATGGCATCGGAATTGAGACGA-GAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCATCGACA-TATGAGCC
* **
91110104 AGTGTAAGACCATGTTTGAAACATGGCATTGGCATCGACATATGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCATCGACATATGAGCC
* * ** * *
91110152 AGTGTAAGACCATGTTTGGAACATGACATCAGCGTCGTTATATGTGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCATCGACATATGAGCC
* * * **
91110200 AGTATAAGACCATGTCTGGGACATGGCATC--CATACTGATGTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCAT-C-GACATAT--GAGCC
* ** *
91110250 AGTGTAAGACCATGTCTGGGTCATGGCATTAGCA
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCA
91110284 GTTTACCCTC
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 110 0.75
50 30 0.21
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAGCATCGACATATGAGCC
Found at i:91116999 original size:15 final size:15
Alignment explanation
Indices: 91116979--91117007 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91116969 TCCAACTATG
91116979 AAGGAAGTGGTAAAT
1 AAGGAAGTGGTAAAT
91116994 AAGGAAGTGGTAAA
1 AAGGAAGTGGTAAA
91117008 CCCTAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.34, T:0.17
Consensus pattern (15 bp):
AAGGAAGTGGTAAAT
Found at i:91117016 original size:7 final size:7
Alignment explanation
Indices: 91117004--91117028 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91116994 AAGGAAGTGG
91117004 TAAACCC
1 TAAACCC
91117011 TAAACCC
1 TAAACCC
91117018 TAAACCC
1 TAAACCC
91117025 TAAA
1 TAAA
91117029 TTTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:91118374 original size:67 final size:66
Alignment explanation
Indices: 91118302--91118647 Score: 239
Period size: 67 Copynumber: 5.3 Consensus size: 66
91118292 TTTTATTTGA
* * * *
91118302 GTTAGCTGATTTAATATTGCAACTCCGAAGAACTCGATAATTTAATATCATAGCTGATATTATTA
1 GTTAGCTGATTTAAGATTGCAACTCCGAAG-ACTCGATGATTTAAGATCATAGCTAATATTATTA
91118367 AG
65 AG
* * * * * * * * *
91118369 GTTAGCTAATTTAACATCGTAA--CCTAAG-TTC-ATTTGATTTAGGATCATGAAC-AATTTTAT
1 GTTAGCTGATTTAAGATTGCAACTCCGAAGACTCGA--TGATTTAAGATCAT-AGCTAATATTAT
*
91118429 T-TG
63 TAAG
* * * * * *
91118432 AGTTAGCTGATTTAATATCGCAACTCTGAACATCTCGTTGATTTAAGATCACAGCTAATATTATT
1 -GTTAGCTGATTTAAGATTGCAACTCCGAAGA-CTCGATGATTTAAGATCATAGCTAATATTATT
91118497 AAG
64 AAG
* * * *
91118500 GTTAGCTGATTTAAGATTGCAA--CCTAAG-TTC-ATTTGATTTAAGATCAT-GAATAATTTTAT
1 GTTAGCTGATTTAAGATTGCAACTCCGAAGACTCGA--TGATTTAAGATCATAG-CTAATATTAT
*
91118560 T-TG
63 TAAG
* * * *
91118563 AGTTAGCTGATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCACAGCTAATATTATT
1 -GTTAGCTGATTTAAGATTGCAACTCCGAA-GACTCGATGATTTAAGATCATAGCTAATATTATT
91118628 AAG
64 AAG
*
91118631 GTTAGATGATTTAAGAT
1 GTTAGCTGATTTAAGAT
91118648 CGTAACCTAT
Statistics
Matches: 210, Mismatches: 47, Indels: 44
0.70 0.16 0.15
Matches are distributed among these distances:
62 1 0.00
63 7 0.03
64 81 0.39
65 10 0.05
66 9 0.04
67 95 0.45
68 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (66 bp):
GTTAGCTGATTTAAGATTGCAACTCCGAAGACTCGATGATTTAAGATCATAGCTAATATTATTAA
G
Found at i:91118393 original size:131 final size:131
Alignment explanation
Indices: 91118158--91119079 Score: 1092
Period size: 131 Copynumber: 7.0 Consensus size: 131
91118148 CTATTATGGT
* * * * * ***
91118158 CAATTTTGTTTGAGTTAGCTGATTTAAGATTACATCTTCGAACAACTC-ATTGATTTAATATTGT
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGA-TGATTTAATATCAC
* * * * * *
91118222 AGTTGATATTATGAAGGTTAGCTTATTTAAGATCACAACCTAAGTTCTTTTGATTTAAGATCGTG
65 AGCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATG
91118287 AA
130 AA
* * *
91118289 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAAGAACTCGATAATTTAATATCATA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
* * * *
91118354 GCTGATATTATTAAGGTTAGCTAATTTAACATCGTAACCTAAGTTCATTTGATTTAGGATCATGA
66 GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
91118419 A
131 A
* * * * *
91118420 CAATTTTATTTGAGTTAGCTGATTTAATATCGCAACTCTGAACATCTCGTTGATTTAAGATCACA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
* *
91118485 GCTAATATTATTAAGGTTAGCTGATTTAAGATTGCAACCTAAGTTCATTTGATTTAAGATCATGA
66 GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
91118550 A
131 A
* * *
91118551 TAATTTTATTTGAGTTAGCTGATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCACA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
* * * * * *
91118616 GCTAATATTATTAAGGTTAGATGATTTAAGATCGTAACCTATGTTCATTTGATTTAAGATAATTA
66 GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
91118681 A
131 A
* * * * * * * * *
91118682 CAATTTTCTTTGAGTTAGCTGATTTAATATCGCAACTTCGAGCAGCTTGCTGATTTAAGATCGCA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
* ** *
91118747 GCTGATATTATTAAAGTTAGCTTCTTTAATATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
66 GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
91118812 A
131 A
* * * * * *** *
91118813 AAATTTTATTTGAGTTAGTTGATTTAAGATTGCATCTTCGAATTGCTCGTTGATTTAATATCACA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
* * *
91118878 ACTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCATGA
66 GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
91118943 A
131 A
* * ** ** * * *
91118944 CAGTTTTATTTGAGTTAGCTAATTTAATATCACAACTCCGAGTAGCTCGCTGATTTAATATCGCA
1 CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
** * * * * * * *
91119009 ATTAATATTATTAAGGTTCA-TTGATTCAAGATCACAACCTATGTTCACTTGATCTAAGATCATG
66 GCTGATATTATTAAGGTT-AGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATG
91119073 AA
130 AA
91119075 CAATT
1 CAATT
91119080 CCACTTGTAT
Statistics
Matches: 680, Mismatches: 109, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
131 678 1.00
132 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (131 bp):
CAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAACAACTCGATGATTTAATATCACA
GCTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGA
A
Found at i:91118891 original size:393 final size:393
Alignment explanation
Indices: 91118158--91119079 Score: 1222
Period size: 393 Copynumber: 2.3 Consensus size: 393
91118148 CTATTATGGT
* * * ** * *
91118158 CAATTTTGTTTGAGTTAGCTGATTTAAGATTACATCTTCGAACAACTCATTGATTTAATATTGTA
1 CAATTTTATTTGAGTTAGCTGATTTAAGATTACAACTCCGAACAACTCGCTGATTTAATATCGCA
* * * * * * *
91118223 GTTGATATTATGAAGGTTAGCTTATTTAAGATCACAACCTAAGTTCTTTTGATTTAAGATCGTGA
66 GTTAATATTATTAAGGTTAGATGATTTAAGATCACAACCTATGTTCATTTGATTTAAGATCATGA
* * *
91118288 ACAATTTTATTTGAGTTAGCTGATTTAATATTGCAACTCCGAAGAACTCGATAATTTAATATCAT
131 ACAATTTTATTTGAGTTAGCTGATTTAATATCGCAACTCCGAAGAACTCGATAATTTAAGATCAC
* * *
91118353 AGCTGATATTATTAAGGTTAGCTAATTTAACATCGTAACCTAAGTTCATTTGATTTAGGATCATG
196 AGCTGATATTATTAAAGTTAGCTAATTTAACATCGCAACCTAAGTTCATTTGATTTAAGATCATG
* *
91118418 AACAATTTTATTTGAGTTAGCTGATTTAATATCGCAACTCTGAACATCTCGTTGATTTAAGATCA
261 AAAAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACATCTCGTTGATTTAAGATCA
* * * *
91118483 CAGCTAATATTATTAAGGTTAGCTGATTTAAGATTGCAACCTAAGTTCATTTGATTTAAGATCAT
326 CAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCAT
91118548 GAA
391 GAA
* * *
91118551 TAATTTTATTTGAGTTAGCTGATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCACA
1 CAATTTTATTTGAGTTAGCTGATTTAAGATTACAACTCCGAACAACTCGCTGATTTAATATCGCA
* ** * *
91118616 GCTAATATTATTAAGGTTAGATGATTTAAGATCGTAACCTATGTTCATTTGATTTAAGATAATTA
66 GTTAATATTATTAAGGTTAGATGATTTAAGATCACAACCTATGTTCATTTGATTTAAGATCATGA
* * * * * * *
91118681 ACAATTTTCTTTGAGTTAGCTGATTTAATATCGCAACTTCG-AGCAGCTTGCTGATTTAAGATCG
131 ACAATTTTATTTGAGTTAGCTGATTTAATATCGCAACTCCGAAG-AACTCGATAATTTAAGATCA
** *
91118745 CAGCTGATATTATTAAAGTTAGCTTCTTTAATATCGCAACCTAAGTTCATTTGATTTAAGATCAT
195 CAGCTGATATTATTAAAGTTAGCTAATTTAACATCGCAACCTAAGTTCATTTGATTTAAGATCAT
* * * * *
91118810 GAAAAATTTTATTTGAGTTAGTTGATTTAAGATTGCATCT-TCGAA-TTGCTCGTTGATTTAATA
260 GAAAAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCT-GAACAT-CTCGTTGATTTAAGA
*
91118873 TCACAACTGATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAATTCATTCGATTTAAGAT
323 TCACAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAATTCATTCGATTTAAGAT
91118938 CATGAA
388 CATGAA
* * * * ** *
91118944 CAGTTTTATTTGAGTTAGCTAATTTAATATCACAACTCCGAGTAGCTCGCTGATTTAATATCGCA
1 CAATTTTATTTGAGTTAGCTGATTTAAGATTACAACTCCGAACAACTCGCTGATTTAATATCGCA
* * * * *
91119009 ATTAATATTATTAAGGTTCA-TTGATTCAAGATCACAACCTATGTTCACTTGATCTAAGATCATG
66 GTTAATATTATTAAGGTT-AGATGATTTAAGATCACAACCTATGTTCATTTGATTTAAGATCATG
91119073 AACAATT
130 AACAATT
91119080 CCACTTGTAT
Statistics
Matches: 455, Mismatches: 70, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
392 4 0.01
393 450 0.99
394 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (393 bp):
CAATTTTATTTGAGTTAGCTGATTTAAGATTACAACTCCGAACAACTCGCTGATTTAATATCGCA
GTTAATATTATTAAGGTTAGATGATTTAAGATCACAACCTATGTTCATTTGATTTAAGATCATGA
ACAATTTTATTTGAGTTAGCTGATTTAATATCGCAACTCCGAAGAACTCGATAATTTAAGATCAC
AGCTGATATTATTAAAGTTAGCTAATTTAACATCGCAACCTAAGTTCATTTGATTTAAGATCATG
AAAAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACATCTCGTTGATTTAAGATCA
CAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCAT
GAA
Found at i:91123436 original size:6 final size:6
Alignment explanation
Indices: 91123425--91123472 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
91123415 CATTTATTAT
91123425 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
91123473 TTTTATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:91134327 original size:45 final size:45
Alignment explanation
Indices: 91134277--91134366 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
91134267 GATACAACTA
*
91134277 AAAGAATAAAGGACTTATTTGGGTGCCATTTAAAGGTTAAGGGCT
1 AAAGAATAAAGGACTTATTTGAGTGCCATTTAAAGGTTAAGGGCT
91134322 AAAGAATAAAGGACTTATTTGAGTGCCATTTAAAGGTTAAGGGCT
1 AAAGAATAAAGGACTTATTTGAGTGCCATTTAAAGGTTAAGGGCT
91134367 TATTCGAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (45 bp):
AAAGAATAAAGGACTTATTTGAGTGCCATTTAAAGGTTAAGGGCT
Found at i:91135886 original size:32 final size:32
Alignment explanation
Indices: 91135805--91135886 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 32
91135795 ATACATGTAA
*
91135805 TATTTTAAAATT-ATA-AAAATAATAAAAAAT
1 TATTTTAAAATTAATATAATATAATAAAAAAT
* * * *
91135835 TATTTTTAAA-TAATTTAATATAATGATAAAT
1 TATTTTAAAATTAATATAATATAATAAAAAAT
91135866 T-TATTTAAAATTAATATAATA
1 TAT-TTTAAAATTAATATAATA
91135887 GATACATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 1 0.02
30 12 0.29
31 19 0.46
32 9 0.22
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
TATTTTAAAATTAATATAATATAATAAAAAAT
Found at i:91136110 original size:38 final size:38
Alignment explanation
Indices: 91136059--91136133 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
91136049 AGGGCCTAAG
*
91136059 TTGATTCATCTCAAAATTTTTAGTAGGTAGAAACTATA
1 TTGATTCATCTCAAAATTTTTACTAGGTAGAAACTATA
*
91136097 TTGATTCATCTCAACATTTTTACTAGGTAGAAACTAT
1 TTGATTCATCTCAAAATTTTTACTAGGTAGAAACTAT
91136134 CATTTCCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (38 bp):
TTGATTCATCTCAAAATTTTTACTAGGTAGAAACTATA
Found at i:91138689 original size:13 final size:13
Alignment explanation
Indices: 91138673--91138697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91138663 TAATTTTTTA
91138673 TTTTAATTAATAT
1 TTTTAATTAATAT
91138686 TTTTAATTAATA
1 TTTTAATTAATA
91138698 AATATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:91138695 original size:17 final size:18
Alignment explanation
Indices: 91138662--91138702 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
91138652 TCATGTTGTT
*
91138662 TTAAT-TTTTTATTTTAA
1 TTAATATTTTTATATTAA
91138679 TTAATATTTTTA-ATTAA
1 TTAATATTTTTATATTAA
*
91138696 TAAATAT
1 TTAATAT
91138703 ATTATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATATTTTTATATTAA
Found at i:91138795 original size:23 final size:22
Alignment explanation
Indices: 91138769--91138813 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
91138759 AACAACTCCT
*
91138769 TTATTTAATAAATAAATTAATAA
1 TTATATAATAAATAAA-TAATAA
*
91138792 TTATATAATAAATATATAATAA
1 TTATATAATAAATAAATAATAA
91138814 AATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATATAATAAATAAATAATAA
Found at i:91138802 original size:11 final size:11
Alignment explanation
Indices: 91138774--91138819 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
91138764 CTCCTTTATT
*
91138774 TAATAAATAAA
1 TAATAAATATA
*
91138785 TTAATAATTATA
1 -TAATAAATATA
91138797 TAATAAATATA
1 TAATAAATATA
91138808 TAATAAA-ATA
1 TAATAAATATA
91138818 TA
1 TA
91138820 TTTTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 5 0.16
11 17 0.55
12 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAATAAATATA
Found at i:91138810 original size:19 final size:19
Alignment explanation
Indices: 91138731--91138811 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
91138721 AAAATTTTTA
*
91138731 ATAATTATATAATAAAAAT
1 ATAATTATATAATAAATAT
* * *
91138750 AT-ATTATATAACAACTCCT
1 ATAATTATATAATAAAT-AT
* *
91138769 TTATTTA-ATAAATAAAT-T
1 ATAATTATAT-AATAAATAT
91138787 AATAATTATATAATAAATAT
1 -ATAATTATATAATAAATAT
91138807 ATAAT
1 ATAAT
91138812 AAAATATATT
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
18 12 0.26
19 23 0.50
20 11 0.24
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTATATAATAAATAT
Found at i:91138819 original size:23 final size:23
Alignment explanation
Indices: 91138774--91138820 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
91138764 CTCCTTTATT
*
91138774 TAATAAATAAATTAATAATTATA
1 TAATAAATAAATTAATAAATATA
*
91138797 TAATAAATATA-TAATAAAATATA
1 TAATAAATAAATTAAT-AAATATA
91138820 T
1 T
91138821 TTTTTATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAAATAAATTAATAAATATA
Found at i:91139874 original size:20 final size:20
Alignment explanation
Indices: 91139849--91139886 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
91139839 TCAAATATCA
91139849 TTTAATTATAAAAATATAAT
1 TTTAATTATAAAAATATAAT
* *
91139869 TTTAATTTTTAAAATATA
1 TTTAATTATAAAAATATA
91139887 GCATGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAATTATAAAAATATAAT
Found at i:91152608 original size:28 final size:28
Alignment explanation
Indices: 91152572--91152649 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
91152562 GAATCATTTG
* * *
91152572 ATATTTCGCACATTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTAA
*
91152600 ATATCTCGCACACTAAGTGCCATTCTAA
1 ATATTTCGCACACTAAGTGCCATTCTAA
*
91152628 ATATTTCGCACACTAAGGGCCA
1 ATATTTCGCACACTAAGTGCCA
91152650 AATTTGATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTAA
Found at i:91156164 original size:3 final size:3
Alignment explanation
Indices: 91156149--91156571 Score: 159
Period size: 3 Copynumber: 139.0 Consensus size: 3
91156139 AGGTGAAAAT
* * * * *
91156149 ATA ATA GTA ATA ATA ATA A-G ATA GTA ATA ATG ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * **
91156196 AT- ATG TTAA ATA AAA AGTT ATA GTG ACG ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
91156242 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * *
91156290 ATA GTA ACA ATA GCA ATA ATA AT- ATT ATA TTGA CA-A ATAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA AT-A ATA ATA
* * * * * * *
91156335 AGGA A-A AAA ATA ATA GTA ATA AAA ATA TTA ACA ATA GTA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
91156380 ATA ACG ATA AT- ATAA ATA CTA ATA TATA CATA A-A GAGTA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA ATA -A-TA ATA ATA
* * * *
91156425 ATA ATA ATA CATTA ATA TATA TTA AT- ATCA ATA ATG TTA GTA AGTA
1 ATA ATA ATA -A-TA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA A-TA
* * * * * *
91156471 A-A AAA AGGGA ATA ATA ATA GT- ATA GTA AAA ATA ATA ATA A-A ATG
1 ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * * *
91156515 TTA ATA AGG ATA ATA GTA ATA GTA ATA ATA ACA ATA GTA AGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
91156563 ATG ATA ATA
1 ATA ATA ATA
91156572 TAACGCATAT
Statistics
Matches: 302, Mismatches: 89, Indels: 58
0.67 0.20 0.13
Matches are distributed among these distances:
2 20 0.07
3 250 0.83
4 27 0.09
5 5 0.02
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:91161449 original size:18 final size:18
Alignment explanation
Indices: 91161401--91161450 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
91161391 TCAGTCAATC
*
91161401 ATTTATTCAGTAACAGTCA
1 ATTT-TTCAGTACCAGTCA
* * *
91161420 AATATTCGGTACCAGTCA
1 ATTTTTCAGTACCAGTCA
91161438 ATTTTTCAGTACC
1 ATTTTTCAGTACC
91161451 TTTATTTGTC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (18 bp):
ATTTTTCAGTACCAGTCA
Found at i:91162598 original size:11 final size:12
Alignment explanation
Indices: 91162581--91162610 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
91162571 ACCTTTAATT
91162581 TTTCCTTTCTTC
1 TTTCCTTTCTTC
91162593 -TTCCTTTCTTC
1 TTTCCTTTCTTC
91162604 TTTCCTT
1 TTTCCTT
91162611 CCCCCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCCTTTCTTC
Found at i:91162662 original size:21 final size:20
Alignment explanation
Indices: 91162631--91162672 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
91162621 CGTTTAAACA
91162631 TTCTGTTTCTTTCATTCTCTTT
1 TTCTGTTTCTTT-ATT-TCTTT
91162653 TTCT-TTTCTTTATTTCTTT
1 TTCTGTTTCTTTATTTCTTT
91162672 T
1 T
91162673 GTTTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 7 0.35
22 4 0.20
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (20 bp):
TTCTGTTTCTTTATTTCTTT
Found at i:91166723 original size:21 final size:21
Alignment explanation
Indices: 91166673--91166723 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
91166663 GCATCAAAAT
*
91166673 AACCAACGAAGGACAATTGAG
1 AACCAACGAAGGACAACTGAG
*
91166694 AACCCAACGAAGGATAACTGAG
1 AA-CCAACGAAGGACAACTGAG
91166716 AACCAACG
1 AACCAACG
91166724 GTGAAGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.47, C:0.24, G:0.22, T:0.08
Consensus pattern (21 bp):
AACCAACGAAGGACAACTGAG
Found at i:91168682 original size:40 final size:41
Alignment explanation
Indices: 91168588--91168808 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
91168578 TATTCGAATG
*
91168588 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
91168629 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
91168669 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
91168709 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
91168749 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
91168788 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
91168809 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 94 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:91171210 original size:27 final size:27
Alignment explanation
Indices: 91171156--91171211 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
91171146 CTGTCGCGCG
* * *
91171156 AACAGGTGACTGGTAGATTGCTTGGCA
1 AACAGGTGACTGATAGATTGCCTAGCA
91171183 AACAGGTGACTGATAGATTGCCTAGCA
1 AACAGGTGACTGATAGATTGCCTAGCA
91171210 AA
1 AA
91171212 TAAGTGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (27 bp):
AACAGGTGACTGATAGATTGCCTAGCA
Found at i:91171218 original size:27 final size:27
Alignment explanation
Indices: 91171156--91171218 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
91171146 CTGTCGCGCG
* * * *
91171156 AACAGGTGACTGGTAGATTGCTTGGCA
1 AACAAGTGACTGATAGATTGCCTAGCA
*
91171183 AACAGGTGACTGATAGATTGCCTAGCA
1 AACAAGTGACTGATAGATTGCCTAGCA
*
91171210 AATAAGTGA
1 AACAAGTGA
91171219 TTGGCGGGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (27 bp):
AACAAGTGACTGATAGATTGCCTAGCA
Found at i:91171343 original size:27 final size:25
Alignment explanation
Indices: 91171265--91171356 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 25
91171255 TATCTTACAG
*
91171265 ACAGGTGACTGGAAAGCTGTCTGGCA
1 ACAGGTGACTGGAGA-CTGTCTGGCA
* *
91171291 GACAGGTGACTGGCGAAT-TGCTTGGCGA
1 -ACAGGTGACTGGAGACTGT-C-TGGC-A
91171319 ACAGGTGACTGGTAGACTGTCTGGCAA
1 ACAGGTGACTGG-AGACTGTCTGGC-A
*
91171346 ACATGTGACTG
1 ACAGGTGACTG
91171357 ATGAGTTGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 44 0.83
28 5 0.09
29 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (25 bp):
ACAGGTGACTGGAGACTGTCTGGCA
Found at i:91171384 original size:54 final size:54
Alignment explanation
Indices: 91171281--91171390 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
91171271 GACTGGAAAG
* * * * * *
91171281 CTGTCTGGCAGACAGGTGACTGGCGAATTGCTTGGCGAACAGGTGACTGGTAGA
1 CTGTCTGGCAAACAGGTGACTGACGAATTGCCTGGCAAACAGGTAACTGGCAGA
* * * *
91171335 CTGTCTGGCAAACATGTGACTGATGAGTTGCCTGGCAAATAGGTAACTGGCAGA
1 CTGTCTGGCAAACAGGTGACTGACGAATTGCCTGGCAAACAGGTAACTGGCAGA
91171389 CT
1 CT
91171391 ATCTCACGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (54 bp):
CTGTCTGGCAAACAGGTGACTGACGAATTGCCTGGCAAACAGGTAACTGGCAGA
Found at i:91172474 original size:27 final size:27
Alignment explanation
Indices: 91172426--91172477 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
91172416 AAGAACTGCG
*
91172426 AAACAGATGACTGGCGAGCTGCCTGAC
1 AAACAGATGACTGGAGAGCTGCCTGAC
91172453 AAACAGATGACTGGTAGA-CTGCCTG
1 AAACAGATGACTGG-AGAGCTGCCTG
91172478 GCGGACATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (27 bp):
AAACAGATGACTGGAGAGCTGCCTGAC
Found at i:91176223 original size:21 final size:20
Alignment explanation
Indices: 91176190--91176228 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
91176180 AATATACGTT
91176190 TGTTTGTCAGAACATTTTGTC
1 TGTTTGTCAGAAC-TTTTGTC
**
91176211 TGTTTGTGTGAACTTTTG
1 TGTTTGTCAGAACTTTTG
91176229 GTTATTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.51
Consensus pattern (20 bp):
TGTTTGTCAGAACTTTTGTC
Found at i:91177234 original size:25 final size:25
Alignment explanation
Indices: 91177206--91177276 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 25
91177196 GAATAACAAC
91177206 CTAAATCAACTACCTCAATAACTTA
1 CTAAATCAACTACCTCAATAACTTA
* *
91177231 CT-AA-CAAC-A-AT-AACAAC---
1 CTAAATCAACTACCTCAATAACTTA
*
91177248 CTAAATCATCTACCTCAATAACTTA
1 CTAAATCAACTACCTCAATAACTTA
91177273 CTAA
1 CTAA
91177277 CAACCTAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 16
0.61 0.09 0.30
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 3 0.09
20 6 0.18
21 2 0.06
22 6 0.18
23 4 0.12
24 2 0.06
25 6 0.18
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.25
Consensus pattern (25 bp):
CTAAATCAACTACCTCAATAACTTA
Found at i:91177244 original size:42 final size:42
Alignment explanation
Indices: 91177197--91177280 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
91177187 ACAAGAAAAG
91177197 AATAACAACCTAAATCAACTACCTCAATAACTTACTAACAAC
1 AATAACAACCTAAATCAACTACCTCAATAACTTACTAACAAC
*
91177239 AATAACAACCTAAATCATCTACCTCAATAACTTACTAACAAC
1 AATAACAACCTAAATCAACTACCTCAATAACTTACTAACAAC
91177281 CTAACTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (42 bp):
AATAACAACCTAAATCAACTACCTCAATAACTTACTAACAAC
Found at i:91178341 original size:16 final size:16
Alignment explanation
Indices: 91178320--91178371 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
91178310 TTTGGTTTGC
91178320 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
91178336 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
91178352 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
91178368 TGTA
1 TGTA
91178372 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:91178418 original size:45 final size:44
Alignment explanation
Indices: 91178352--91178446 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
91178342 GGATTAGAGG
* *
91178352 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
91178397 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
91178441 TGTAAT
1 TGTAAT
91178447 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:91178629 original size:18 final size:17
Alignment explanation
Indices: 91178608--91178642 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91178598 TTATTATTTA
*
91178608 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
91178626 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
91178643 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:91178636 original size:28 final size:27
Alignment explanation
Indices: 91178566--91178638 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
91178556 TTTATTATCA
*
91178566 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
91178594 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
91178621 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
91178639 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:91178776 original size:18 final size:17
Alignment explanation
Indices: 91178755--91178789 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91178745 TTATTATTAA
*
91178755 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
91178773 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
91178790 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:91178801 original size:147 final size:149
Alignment explanation
Indices: 91178527--91178801 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
91178517 ATGATTAGTG
*
91178527 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
91178592 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
91178657 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
91178676 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
91178739 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
91178802 ATATTCTTGT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:91178898 original size:18 final size:17
Alignment explanation
Indices: 91178875--91178909 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
91178865 TTATTATTAA
91178875 ATATAATATAAATAAAAT
1 ATATAAT-TAAATAAAAT
*
91178893 ATATAATTTAATAAAAT
1 ATATAATTAAATAAAAT
91178910 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAATTAAATAAAAT
Found at i:91179024 original size:18 final size:17
Alignment explanation
Indices: 91178985--91179016 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
91178975 TTTTAAATAA
91178985 TTAATATTAAATATATT
1 TTAATATTAAATATATT
91179002 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
91179017 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:91179041 original size:120 final size:120
Alignment explanation
Indices: 91178738--91179030 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 120
91178728 ATCATATTTA
91178738 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
91178803 TATTCTTGTATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTCTAAAATATAAAAT
* * *
91178858 AACATAATTATTATTAAATATAATATAAATAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
91178923 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTCTAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTCTAAAATATAAA--AT
* * *
91178979 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
91179031 TAAAATAATT
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 3 0.02
120 152 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTCTAAAATATAAAAT
Found at i:91179141 original size:91 final size:90
Alignment explanation
Indices: 91179046--91179253 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 90
91179036 TAATTATAAC
* * *
91179046 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTAT-TTTTATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
91179110 TAATATAAAATTTCATAAAATTCTTGA
64 TAATATAAAATTTCATAAAATTCTTAA
*
91179137 TAATAAATT-TTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAG
1 TAATAAATTATT-TT-TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAA
* * * *
91179201 TGATATATAATTTCATGAAATTGTTAA
64 TAATATAAAATTTCATAAAATTCTTAA
*
91179228 TAATAAAATATTCTTATATGAATTTA
1 TAATAAATTATT-TT-TATGAATTTA
91179254 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
89 1 0.01
90 3 0.03
91 80 0.78
92 19 0.18
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTATTTTTATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATAAAATTTCATAAAATTCTTAA
Found at i:91179782 original size:12 final size:12
Alignment explanation
Indices: 91179767--91179796 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
91179757 AATACAAACA
91179767 ACAGAAGCTGCT
1 ACAGAAGCTGCT
91179779 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
91179791 AAAGAA
1 ACAGAA
91179797 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:91180079 original size:14 final size:14
Alignment explanation
Indices: 91180060--91180086 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91180050 TATTAACAAC
91180060 AAATAGTTCCCAAA
1 AAATAGTTCCCAAA
91180074 AAATAGTTCCCAA
1 AAATAGTTCCCAA
91180087 TTGCCAAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGTTCCCAAA
Found at i:91185698 original size:19 final size:19
Alignment explanation
Indices: 91185674--91185741 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
91185664 ATTTGAACTT
91185674 TGTTTAAATTAATATTAAA
1 TGTTTAAATTAATATTAAA
* * *
91185693 TGTTT-ATTTAAGATTTGAACTT
1 TGTTTAAATTAATA-TT-AA--A
91185715 TGTTTAAATTAATATTAAA
1 TGTTTAAATTAATATTAAA
91185734 TGTTTAAA
1 TGTTTAAA
91185742 ACTTAAGGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
20 2 0.05
21 2 0.05
22 7 0.18
23 6 0.16
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (19 bp):
TGTTTAAATTAATATTAAA
Found at i:91185702 original size:41 final size:41
Alignment explanation
Indices: 91185655--91185739 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
91185645 GTATAAAATA
91185655 TTATTTAAGATTTGAACTTTGTTTAAATTAATATTAAATGT
1 TTATTTAAGATTTGAACTTTGTTTAAATTAATATTAAATGT
91185696 TTATTTAAGATTTGAACTTTGTTTAAATTAATATTAAATGT
1 TTATTTAAGATTTGAACTTTGTTTAAATTAATATTAAATGT
91185737 TTA
1 TTA
91185740 AAACTTAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (41 bp):
TTATTTAAGATTTGAACTTTGTTTAAATTAATATTAAATGT
Found at i:91190087 original size:58 final size:58
Alignment explanation
Indices: 91189992--91190108 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
91189982 GGTAAATCAT
* * *
91189992 ATACTTCGATGCTCACACAGAGCTACGGTAGTCCACAACTTATATAGAATTACTACCA
1 ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATACAGAATTACTACCA
* * * *
91190050 ATACATCGATGCTCATACAGAGCTATGGTAGCCCACAACTTATGCAGAATTGCTACCA
1 ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATACAGAATTACTACCA
91190108 A
1 A
91190109 ACACTATATC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (58 bp):
ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATACAGAATTACTACCA
Found at i:91191040 original size:15 final size:15
Alignment explanation
Indices: 91191018--91191049 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
91191008 ATTTCTCCTT
91191018 TTTCTTTTTC-TTTG
1 TTTCTTTTTCATTTG
91191032 TTTCTTTTTCATTTG
1 TTTCTTTTTCATTTG
91191047 TTT
1 TTT
91191050 TACATCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTCATTTG
Found at i:91191069 original size:3 final size:3
Alignment explanation
Indices: 91191061--91191131 Score: 59
Period size: 3 Copynumber: 26.0 Consensus size: 3
91191051 ACATCTATAT
*
91191061 ATA ATA AT- ATA AT- ATA TATA AT- GTA ATA AT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
91191102 ATA AT- ATA ATA AT- ATA ATA A-C ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91191132 TAAATTAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
2 14 0.25
3 38 0.69
4 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:91191074 original size:5 final size:5
Alignment explanation
Indices: 91191064--91191143 Score: 53
Period size: 5 Copynumber: 15.6 Consensus size: 5
91191054 TCTATATATA
*
91191064 ATAAT ATAAT AT-AT ATAAT GTAAT A-ATAT AATAAT ATAAT A-ATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATAAT ATA-AT
91191109 AATAAT ATAAT A-ACAT AATAAT ATAA- ATTAAT ATA
1 -ATAAT ATAAT ATA-AT -ATAAT ATAAT A-TAAT ATA
91191144 TTACTTATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 24
0.70 0.02 0.28
Matches are distributed among these distances:
4 8 0.13
5 40 0.66
6 10 0.16
7 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:91191146 original size:8 final size:8
Alignment explanation
Indices: 91191059--91191134 Score: 120
Period size: 8 Copynumber: 9.8 Consensus size: 8
91191049 TTACATCTAT
91191059 ATATAATA
1 ATATAATA
91191067 ATATAAT-
1 ATATAATA
91191074 ATAT-ATA
1 ATATAATA
*
91191081 ATGTAATA
1 ATATAATA
91191089 ATATAATA
1 ATATAATA
91191097 ATATAATA
1 ATATAATA
91191105 ATATAATA
1 ATATAATA
91191113 ATATAATA
1 ATATAATA
*
91191121 ACATAATA
1 ATATAATA
91191129 ATATAA
1 ATATAA
91191135 ATTAATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
6 2 0.03
7 7 0.11
8 53 0.85
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:91192787 original size:21 final size:21
Alignment explanation
Indices: 91192719--91192787 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
91192709 AAGCCTGAAG
*
91192719 GCTGAACAGAAGCTCATGAGA
1 GCTGAACAGAAGCTCATAAGA
* * * *
91192740 GCTAAACAAAAAC-CAATAAGG
1 GCTGAACAGAAGCTC-ATAAGA
* *
91192761 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAGCTCATAAGA
91192782 GCTGAA
1 GCTGAA
91192788 TGGAAACAGA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAGCTCATAAGA
Found at i:91197363 original size:21 final size:20
Alignment explanation
Indices: 91197310--91197351 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
91197300 TAGGCATAAA
91197310 TGTGTTCAGAAAGTAGATTT
1 TGTGTTCAGAAAGTAGATTT
91197330 TGTGTTCAGAAAGTAGATTT
1 TGTGTTCAGAAAGTAGATTT
91197350 TG
1 TG
91197352 GATTCAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (20 bp):
TGTGTTCAGAAAGTAGATTT
Found at i:91198441 original size:24 final size:24
Alignment explanation
Indices: 91198389--91198441 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
91198379 GATGTAGATG
* *
91198389 TAGATGCAGATACCAACACAGATA
1 TAGATGCAGATACAAACACAAATA
* * *
91198413 CAGATGCAGATACAAATACAAATT
1 TAGATGCAGATACAAACACAAATA
91198437 TAGAT
1 TAGAT
91198442 CCTACCCTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
TAGATGCAGATACAAACACAAATA
Found at i:91201013 original size:30 final size:31
Alignment explanation
Indices: 91200950--91201016 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
91200940 TACAATTTGA
**
91200950 TCACTAAGCTATTCAAAAATTTTTATTTAAG
1 TCACTAAGCTATTCAAAAATAATTATTTAAG
*
91200981 TCACTGAA-CTATTCAAAAA-AATTATTTTAG
1 TCACT-AAGCTATTCAAAAATAATTATTTAAG
91201011 TCACTA
1 TCACTA
91201017 GATGGTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.41
31 16 0.50
32 2 0.06
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (31 bp):
TCACTAAGCTATTCAAAAATAATTATTTAAG
Found at i:91204510 original size:16 final size:16
Alignment explanation
Indices: 91204489--91204522 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
91204479 AGCGACGATG
91204489 AACAATGAGAGTTTGT
1 AACAATGAGAGTTTGT
91204505 AACAATGAGAGTTTGT
1 AACAATGAGAGTTTGT
91204521 AA
1 AA
91204523 TTGTAGGGTG
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:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (16 bp):
AACAATGAGAGTTTGT
Found at i:91204708 original size:27 final size:26
Alignment explanation
Indices: 91204678--91204730 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
91204668 GAAGCAGAAG
*
91204678 AGAATGGAAAA-AAAAAAGAAAGTTAAA
1 AGAATAGAAAAGAAAAAA-AAA-TTAAA
*
91204705 AGAATATAAAAGAAAAAAAAATTAAA
1 AGAATAGAAAAGAAAAAAAAATTAAA
91204731 TTACTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 12 0.52
28 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (26 bp):
AGAATAGAAAAGAAAAAAAAATTAAA
Found at i:91205478 original size:31 final size:31
Alignment explanation
Indices: 91205443--91205509 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
91205433 ACTTAATTAA
*
91205443 AAAAATTTACAATTTGA-TCACTAAACTATTC
1 AAAAATTTAC-ATTTAAGTCACTAAACTATTC
* *
91205474 AAAAATTTTCATTTAAGTCACTGAACTATTC
1 AAAAATTTACATTTAAGTCACTAAACTATTC
91205505 AAAAA
1 AAAAA
91205510 AAATTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.34
Consensus pattern (31 bp):
AAAAATTTACATTTAAGTCACTAAACTATTC
Found at i:91209582 original size:29 final size:30
Alignment explanation
Indices: 91209550--91209609 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
91209540 ACTTAAGAAG
91209550 CAAATG-CTTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTT-TAAAATAATAAGAAAATTAA
91209579 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
91209609 C
1 C
91209610 TATAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:91220006 original size:33 final size:33
Alignment explanation
Indices: 91219969--91220036 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
91219959 CCATTTCTCC
*
91219969 ATGATATTATCTTACATCACTTGTATTTTTTTA
1 ATGATATCATCTTACATCACTTGTATTTTTTTA
* *
91220002 ATGATATCATCTTAGATCATTTGTATTTTTTTA
1 ATGATATCATCTTACATCACTTGTATTTTTTTA
91220035 AT
1 AT
91220037 TCACAGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.54
Consensus pattern (33 bp):
ATGATATCATCTTACATCACTTGTATTTTTTTA
Found at i:91222732 original size:22 final size:22
Alignment explanation
Indices: 91222701--91222742 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
91222691 CTCTTGTGGC
91222701 AGAGGCACACGCCCGTGTGAAG
1 AGAGGCACACGCCCGTGTGAAG
* * *
91222723 AGAGGTACACGGCTGTGTGA
1 AGAGGCACACGCCCGTGTGA
91222743 CTAAAGCACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.38, T:0.14
Consensus pattern (22 bp):
AGAGGCACACGCCCGTGTGAAG
Found at i:91225137 original size:11 final size:11
Alignment explanation
Indices: 91225121--91225145 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91225111 CTGTGTGTTC
91225121 TTTATTTTATT
1 TTTATTTTATT
91225132 TTTATTTTATT
1 TTTATTTTATT
91225143 TTT
1 TTT
91225146 TCACAATTGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:91246910 original size:11 final size:11
Alignment explanation
Indices: 91246894--91246918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91246884 AATTTGTGAA
91246894 AAAAATAAAAT
1 AAAAATAAAAT
91246905 AAAAATAAAAT
1 AAAAATAAAAT
91246916 AAA
1 AAA
91246919 GAACACACAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:91249426 original size:22 final size:22
Alignment explanation
Indices: 91249392--91249433 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
91249382 TGTGCTTTAG
91249392 TCACACAGCCGTGTACCTCTCT
1 TCACACAGCCGTGTACCTCTCT
* * *
91249414 TCACACGGGCGTGTGCCTCT
1 TCACACAGCCGTGTACCTCT
91249434 GCCACAAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.38, G:0.21, T:0.26
Consensus pattern (22 bp):
TCACACAGCCGTGTACCTCTCT
Found at i:91250601 original size:21 final size:21
Alignment explanation
Indices: 91250560--91250601 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
91250550 CAAATTCCGA
*
91250560 TTTAAGTTTTATTCATTTTAT
1 TTTAAGTTTTATTCATCTTAT
91250581 TTTAAGTTTTATTTC-TCTTAT
1 TTTAAGTTTTA-TTCATCTTAT
91250602 ATATATACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTAAGTTTTATTCATCTTAT
Found at i:91252149 original size:33 final size:33
Alignment explanation
Indices: 91252107--91252174 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
91252097 ATATCTGTGA
*
91252107 ATTAAAAAAATACAAATGATCTAAGATGATATC
1 ATTAAAAAAATACAAATGATCTAAGATAATATC
* *
91252140 ATTAAAAAAATACAAGTGATGTAAGATAATATC
1 ATTAAAAAAATACAAATGATCTAAGATAATATC
91252173 AT
1 AT
91252175 GGAGAAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.28
Consensus pattern (33 bp):
ATTAAAAAAATACAAATGATCTAAGATAATATC
Found at i:91262529 original size:29 final size:29
Alignment explanation
Indices: 91262481--91262539 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
91262471 TTATTTTATA
91262481 GTTAATTTTCTTATTATTTA-AAGGCATTT
1 GTTAATTTTCTTATTATTTAGAA-GCATTT
91262510 GTTAATTTT-TTATTATTTTAGAAGCATTT
1 GTTAATTTTCTTATTA-TTTAGAAGCATTT
91262539 G
1 G
91262540 CTTCTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 6 0.21
29 20 0.71
30 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (29 bp):
GTTAATTTTCTTATTATTTAGAAGCATTT
Found at i:91281135 original size:12 final size:12
Alignment explanation
Indices: 91281115--91281150 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
91281105 TGGGATATGC
*
91281115 AATGTATGAATG
1 AATGCATGAATG
91281127 AATGCATGAATG
1 AATGCATGAATG
91281139 AATGCATGAATG
1 AATGCATGAATG
91281151 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:91282833 original size:19 final size:19
Alignment explanation
Indices: 91282809--91282854 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
91282799 ATAAAGAAAG
91282809 AAAAAAACAACACAAAAAA
1 AAAAAAACAACACAAAAAA
91282828 AAAAAAACAACACAAAAAA
1 AAAAAAACAACACAAAAAA
91282847 AGAAAAAA
1 A-AAAAAA
91282855 AGATTCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAACAACACAAAAAA
Found at i:91283120 original size:8 final size:8
Alignment explanation
Indices: 91283109--91283133 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91283099 AAGTGGGAAA
91283109 GTGGCTAG
1 GTGGCTAG
91283117 GTGGCTAG
1 GTGGCTAG
91283125 GTGGCTAG
1 GTGGCTAG
91283133 G
1 G
91283134 GTTCTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.24
Consensus pattern (8 bp):
GTGGCTAG
Found at i:91283201 original size:17 final size:16
Alignment explanation
Indices: 91283181--91283235 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
91283171 CTTTTTTCTC
*
91283181 TTTTTTTAGGGTTAGG
1 TTTTTTTTGGGTTAGG
91283197 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
91283213 TTTTTTTTTGGGTTAGG
1 -TTTTTTTTGGGTTAGG
91283230 TTTTTT
1 TTTTTT
91283236 GAGGGGGCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
16 21 0.57
17 16 0.43
ACGTcount: A:0.07, C:0.00, G:0.27, T:0.65
Consensus pattern (16 bp):
TTTTTTTTGGGTTAGG
Found at i:91283456 original size:23 final size:23
Alignment explanation
Indices: 91283412--91283458 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
91283402 ATATTATTAG
*
91283412 AAAATAATTACAAATATGTATAAT
1 AAAATAA-TACAAATATATATAAT
91283436 AAAATAA-ACAATATATATATAAT
1 AAAATAATACAA-ATATATATAAT
91283459 TTTCAGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATACAAATATATATAAT
Found at i:91285407 original size:43 final size:43
Alignment explanation
Indices: 91285359--91285441 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
91285349 TTAAAAAAAC
* *
91285359 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAGAGGTCAA
1 GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGGTCAA
91285402 GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGGT
1 GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGGT
91285442 AATGAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGGTCAA
Found at i:91286649 original size:137 final size:138
Alignment explanation
Indices: 91286484--91286754 Score: 465
Period size: 137 Copynumber: 2.0 Consensus size: 138
91286474 TTTTAAAATT
91286484 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
91286549 TTAATGCCAA-TTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
91286612 ATCCAAACG
130 ATCCAAACG
*
91286621 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
91286686 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
91286751 TCCA
131 TCCA
91286755 TACATTATTA
Statistics
Matches: 126, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
137 75 0.60
138 51 0.40
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAAACG
Found at i:91289042 original size:15 final size:15
Alignment explanation
Indices: 91289009--91289051 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
91288999 TTATCTCTTA
*
91289009 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
91289022 CATAATCCCTAAACC
1 CATAATCCATAAACC
91289037 CATAATCCATAAACC
1 CATAATCCATAAACC
91289052 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:91289056 original size:22 final size:22
Alignment explanation
Indices: 91289014--91289100 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
91289004 TCTTACATAA
*
91289014 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
91289036 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
91289058 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
91289080 CC-TAAACCTTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
91289101 TATAATGATA
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:91289093 original size:14 final size:14
Alignment explanation
Indices: 91289074--91289100 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91289064 CTCATACACT
91289074 TTAAACCCTAAACC
1 TTAAACCCTAAACC
91289088 TTAAACCCTAAAC
1 TTAAACCCTAAAC
91289101 TATAATGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:91289220 original size:15 final size:15
Alignment explanation
Indices: 91289196--91289237 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
91289186 CACTAACTAA
91289196 TCTAAACCCTAAACT
1 TCTAAACCCTAAACT
* *
91289211 TCTAATCCCTAAACC
1 TCTAAACCCTAAACT
*
91289226 T-TAAACCTTAAA
1 TCTAAACCCTAAA
91289238 ACATAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTAAACCCTAAACT
Found at i:91289587 original size:41 final size:41
Alignment explanation
Indices: 91289494--91289579 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
91289484 CAAATACATT
* * *
91289494 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAT
1 TAAAATAATTATTAAAACAAGAAACAAATAAAAAATGATAA
* * **
91289535 TAAAATAATTATTAAAACAATAGACAAATTGAAAAT-ATAA
1 TAAAATAATTATTAAAACAAGAAACAAATAAAAAATGATAA
91289575 TAAAA
1 TAAAA
91289580 GTGATTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (41 bp):
TAAAATAATTATTAAAACAAGAAACAAATAAAAAATGATAA
Found at i:91289868 original size:41 final size:41
Alignment explanation
Indices: 91289804--91290010 Score: 258
Period size: 41 Copynumber: 5.1 Consensus size: 41
91289794 ATTATATGAC
* *
91289804 TTTTAGCGGCGTTTTA-TCGAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCGGCGTTTTACT-AAAAGCGCCGCTAATGCTCTGGT
91289845 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
* * * *
91289886 TTTTAGCTGCGTTTTACCAAAAGCACCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
* ** * * *
91289927 TTTTAGCGGTGTTTTTGGTAAAA-CGCTGCTAATGCTCTAGC
1 TTTTAGCGGCG-TTTTACTAAAAGCGCCGCTAATGCTCTGGT
*
91289968 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
91290008 TTT
1 TTT
91290011 CTATTGCTCT
Statistics
Matches: 141, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
40 12 0.09
41 120 0.85
42 9 0.06
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
Found at i:91290106 original size:12 final size:12
Alignment explanation
Indices: 91290091--91290116 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91290081 GTTTTTTGAT
91290091 AAAACGCCGCTA
1 AAAACGCCGCTA
91290103 AAAACGCCGCTA
1 AAAACGCCGCTA
91290115 AA
1 AA
91290117 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:91293706 original size:25 final size:26
Alignment explanation
Indices: 91293660--91293708 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
91293650 ATTTATATTT
** *
91293660 TATTATTTTTCAAATTTATTATTACA
1 TATTATTTTAAAAATATATTATTACA
91293686 TATTATTTTAAAAATAT-TTATTA
1 TATTATTTTAAAAATATATTATTA
91293709 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTATTTTAAAAATATATTATTACA
Done.