Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 301 of 325
Found at i:92061230 original size:13 final size:13
Alignment explanation
Indices: 92061209--92061252 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
92061199 CGCCGAGGTA
92061209 TTTTTAATTT-TG
1 TTTTTAATTTCTG
92061221 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
92061235 CTTTTAATTTCTG
1 TTTTTAATTTCTG
92061248 TTTTT
1 TTTTT
92061253 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:92061467 original size:89 final size:88
Alignment explanation
Indices: 92061222--92061503 Score: 322
Period size: 89 Copynumber: 3.1 Consensus size: 88
92061212 TTAATTTTGT
** * **
92061222 TTTTCAA-TTTCTGCTTTTAATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTTCTTTTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
92061285 GAGCCTCAGG-CACGCTGAGGTA
66 GAGCCTCAGGACACGCTGAGGTA
* * * *
92061307 TTTTCAA-TTTCTTTTTTCAATTTTTGCCTTAC-AAATTCTCTTTTCAAATCAACTCATATTGCG
1 TTTTCAATTTTCTTTTTTTAATTTATG--TTTCTAAA---------AAAATCAACTCATATTGCG
92061370 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
55 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
92061404 TTTTCAATTTTCATTTTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGT
1 TTTTCAATTTTC-TTTTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGT
92061469 TGAGCCTCAGGACACGCTGAGGTA
65 TGAGCCTCAGGACACGCTGAGGTA
*
92061493 ATTTCAATTTT
1 TTTTCAATTTT
92061504 TGTTTGTCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
85 22 0.13
87 3 0.02
89 61 0.37
96 39 0.23
97 22 0.13
98 7 0.04
99 13 0.08
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (88 bp):
TTTTCAATTTTCTTTTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGGTA
Found at i:92061631 original size:75 final size:75
Alignment explanation
Indices: 92061419--92062103 Score: 903
Period size: 75 Copynumber: 9.3 Consensus size: 75
92061409 AATTTTCATT
* * * * *
92061419 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
92061483 CGCTGAGGTA
66 CGTTGAGGTA
* * * * *
92061493 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
92061556 CGTTGAGGTA
66 CGTTGAGGTA
* * *
92061566 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
92061631 CGCTGAGGTA
66 CGTTGAGGTA
*
92061641 ATTTCAATTT-T-TTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
92061702 ACGTTGAGGTA
65 ACGTTGAGGTA
* * * *
92061713 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
92061778 CGTTGAGGTA
66 CGTTGAGGTA
* *
92061788 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTC-A-A-A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
92061850 CGCTGAGGTA
66 CGTTGAGGTA
* * *
92061860 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
92061923 CGTTGAGGTA
66 CGTTGAGGTA
* * * *
92061933 TTTTCAATTTCTATCTTTCAAAAAAAATCAGCTAATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
92061998 ACGTTGAGGTA
65 ACGTTGAGGTA
* * * *
92062009 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* *
92062072 ACGCTGAGGTG
65 ACGTTGAGGTA
* *
92062083 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
92062104 TTTCTGTGTT
Statistics
Matches: 542, Mismatches: 55, Indels: 29
0.87 0.09 0.05
Matches are distributed among these distances:
70 36 0.07
71 1 0.00
72 86 0.16
73 98 0.18
74 46 0.08
75 164 0.30
76 111 0.20
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:92061700 original size:147 final size:149
Alignment explanation
Indices: 92061419--92062081 Score: 882
Period size: 147 Copynumber: 4.5 Consensus size: 149
92061409 AATTTTCATT
* * * * *
92061419 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
92061483 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
92061547 CTCAAGACACGTTGAGGTA
131 CTCAAGACACGTTGAGGTA
* * *
92061566 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
92061631 CGCTGAGGTAATTTCAATTT-T-TTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 CGCTGAGGTAATTTCAATTTCTATTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
92061693 CCTCAAGACACGTTGAGGTA
130 CCTCAAGACACGTTGAGGTA
* * * *
92061713 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
92061778 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
66 CGCTGAGGTAATTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
92061843 CCTC-A-A-ACGCTGAGGTA
130 CCTCAAGACACGTTGAGGTA
* * *
92061860 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
92061923 CGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAATCAGCTAATATTGCGAGAGGTGAGTTGA
66 CGCTGAGGTAATTTCAATTTCTATTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
92061988 GCCTCAAGACACGTTGAGGTA
129 GCCTCAAGACACGTTGAGGTA
* * * *
92062009 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
92062072 ACGCTGAGGT
65 ACGCTGAGGT
92062082 GTTTTCCATT
Statistics
Matches: 460, Mismatches: 43, Indels: 23
0.87 0.08 0.04
Matches are distributed among these distances:
145 69 0.15
146 39 0.08
147 171 0.37
148 68 0.15
149 30 0.07
150 45 0.10
152 38 0.08
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (149 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAAGACACGTTGAGGTA
Found at i:92061883 original size:220 final size:220
Alignment explanation
Indices: 92061439--92062081 Score: 1033
Period size: 222 Copynumber: 2.9 Consensus size: 220
92061429 ATGTTTCTAA
* * * * *
92061439 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * *
92061504 TGT-TTGT--CAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* *
92061566 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACA
130 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--ACA
92061631 CGCTGAGGTAATTTCAATTTTTTTTGTC
193 CGCTGAGGTAATTTCAATTTTTTTTGTC
92061659 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
92061724 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
92061789 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAA-ACGC
131 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAACACGC
92061853 TGAGGTAATTTCAATTTTTGTTTGTC
196 TGAGGTAATTTCAATTTTT-TTTGTC
92061879 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
92061944 TATCTTTCAAAAAAAATCAGCTAATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTTT-AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* * * * *
92062009 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
130 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAACAC
92062074 GCTGAGGT
194 GCTGAGGT
92062082 GTTTTCCATT
Statistics
Matches: 397, Mismatches: 19, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
219 23 0.06
220 142 0.36
221 75 0.19
222 147 0.37
223 10 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (220 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAACACGC
TGAGGTAATTTCAATTTTTTTTGTC
Found at i:92062210 original size:15 final size:14
Alignment explanation
Indices: 92062174--92062206 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
92062164 CGCTGAGGTA
92062174 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
92062188 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
92062202 TTTTC
1 TTTTC
92062207 CAAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:92062321 original size:90 final size:87
Alignment explanation
Indices: 92062009--92062603 Score: 462
Period size: 90 Copynumber: 6.7 Consensus size: 87
92061999 CGTTGAGGTA
* * * *
92062009 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
92062072 ACGCTGAGGTGTTTTCCATTTCTGT
63 ACGCTGAGGTATTTTCAATTTCTGT
* * * * * * **
92062097 TCTTCAATTTCTGTGTTTAAAAAAAATCAGCTCATATTGCAAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
*
92062162 CACGCTGAGGTATTTTCAAATTCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* * *
92062188 TTTTCAAATTTTGTTTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
92062253 CGCTGAGATATTTTCAATTTCTTTT
64 CGCTGAGGTATTTTCAATTTC-TGT
*
92062278 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GA
* * * *
92062343 CACACCGAGGTATTTT-AATTGATTTTT
62 CACGCTGAGGTATTTTCAATT--TCTGT
* * * *
92062370 TTTTCAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGTCA
1 TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
** **
92062433 CATACTGAGGTATTTTCAAAATCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* * * *
92062459 TTTACAAATTTTGTTTT---AAAAAT-AACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCA
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
*
92062519 CGTGCTGAGCTATTTTCAATTTCTGT
64 C--GCTGAGGTATTTTCAATTTCTGT
* * * ** *
92062545 TTTT-AATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
92062604 TCACATGCCG
Statistics
Matches: 417, Mismatches: 65, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
84 6 0.01
85 5 0.01
86 54 0.13
87 46 0.11
88 47 0.11
89 39 0.09
90 109 0.26
91 70 0.17
92 37 0.09
93 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:92062330 original size:181 final size:176
Alignment explanation
Indices: 92062009--92062548 Score: 542
Period size: 181 Copynumber: 3.0 Consensus size: 176
92061999 CGTTGAGGTA
* * * *
92062009 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTTATG-CTTTC-CAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGAC
* * * *
92062072 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTAAAAAAAATCAGCTCATATTGC
64 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTT-TGT-TTT-AAAAAAATCAACTCATATTGC
* *
92062137 AAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
126 GAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
* * *
92062188 TTTTCAAATTT-TGTTTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTTC-AATTTATG-CTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGAC
* *
92062252 ACGCTGAGATATTTTCAATTTCTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTG
64 ACGCTGAGGTATTTTCAATTTC-TGTTTTTCAATTT-TGTTT-T-AAAAAAATCAACTCATATTG
* * * *
92062317 CGAGAGGTGAGTTGAGCCTCAGA-TCACACACCGAGGTATTTT-AATTGATT-TTT
125 CGAGAGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAA---ATTCTGT
* * * *
92062370 TTTTCAATTTATGCTTTGC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGGGTCAC
1 TTTTCAATTTATGCTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG--AC
** ** *
92062434 ATACTGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT--AAAAAT-AACTCATATTGCGA
64 ACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTTGTTTTAAAAAAATCAACTCATATTGCGA
* * ** * *
92062496 GAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
128 GAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
92062545 TTTT
1 TTTT
92062549 AATGTTTAGT
Statistics
Matches: 301, Mismatches: 44, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
174 2 0.01
175 7 0.02
176 43 0.14
177 8 0.03
178 37 0.12
179 12 0.04
180 66 0.22
181 88 0.29
182 35 0.12
183 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (176 bp):
TTTTCAATTTATGCTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTGTTTTAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
Found at i:92063263 original size:30 final size:30
Alignment explanation
Indices: 92063227--92063353 Score: 200
Period size: 30 Copynumber: 4.2 Consensus size: 30
92063217 AGCCTTTGCT
92063227 ACCACCAACTCCACTAGCCACACTTGCTCC
1 ACCACCAACTCCACTAGCCACACTTGCTCC
*
92063257 ACCACCAACTCCACTAGCCACACTTGCTCA
1 ACCACCAACTCCACTAGCCACACTTGCTCC
**
92063287 ACCACTTACTCCACTAGCCACACTTGCTCC
1 ACCACCAACTCCACTAGCCACACTTGCTCC
* * *
92063317 ACCACCTATTCCATTAGCCACACTTGCTCC
1 ACCACCAACTCCACTAGCCACACTTGCTCC
92063347 ACCACCA
1 ACCACCA
92063354 CTTGTACCTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.27, C:0.47, G:0.06, T:0.20
Consensus pattern (30 bp):
ACCACCAACTCCACTAGCCACACTTGCTCC
Found at i:92063908 original size:25 final size:24
Alignment explanation
Indices: 92063880--92063956 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
92063870 ATTCTAAATT
92063880 CTATATTACGTATATATATATTATA
1 CTATATTA-GTATATATATATTATA
* *
92063905 CTATTTTATGTATATATCT-TTAATA
1 CTATATTA-GTATATATATATT-ATA
92063930 CTATATTA-TAT-TATATA-TATA
1 CTATATTAGTATATATATATTATA
92063951 -TATATT
1 CTATATT
92063957 TTTTCTACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
20 6 0.13
21 3 0.07
22 5 0.11
23 3 0.07
24 2 0.04
25 26 0.58
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (24 bp):
CTATATTAGTATATATATATTATA
Found at i:92063998 original size:22 final size:23
Alignment explanation
Indices: 92063968--92064034 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
92063958 TTTCTACATG
*
92063968 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
92063990 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
92064015 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
92064035 TTTTCATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:92064168 original size:18 final size:19
Alignment explanation
Indices: 92064119--92064169 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
92064109 TTCAAACACT
*
92064119 ATATATAGTATATTTCTAAC
1 ATATATA-TATATTTATAAC
92064139 A-ATAT-TACTATTTATAA-
1 ATATATATA-TATTTATAAC
92064156 ATATATATATATTT
1 ATATATATATATTT
92064170 TACGTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 6 0.22
20 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATATATATTTATAAC
Found at i:92065779 original size:5 final size:5
Alignment explanation
Indices: 92065771--92065797 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
92065761 CTAATTTAAT
92065771 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
92065798 ATCTAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:92067820 original size:16 final size:16
Alignment explanation
Indices: 92067795--92067827 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
92067785 TTATTTATAT
*
92067795 TTATTCATATAATAAA
1 TTATTAATATAATAAA
92067811 TTATTAATATAATAAA
1 TTATTAATATAATAAA
92067827 T
1 T
92067828 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:92067831 original size:22 final size:22
Alignment explanation
Indices: 92067806--92067849 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92067796 TATTCATATA
92067806 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
92067828 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
92067850 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:92067897 original size:16 final size:16
Alignment explanation
Indices: 92067876--92067909 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
92067866 TTTATTTTAG
92067876 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
92067892 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
92067908 TA
1 TA
92067910 TTATTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:92067962 original size:15 final size:15
Alignment explanation
Indices: 92067942--92067998 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
92067932 ATTCAATATT
92067942 AATATTTTAATAATA
1 AATATTTTAATAATA
*
92067957 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
92067976 AATATATTAATAATA
1 AATATTTTAATAATA
92067991 AATATTTT
1 AATATTTT
92067999 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:92070813 original size:39 final size:39
Alignment explanation
Indices: 92070759--92070837 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
92070749 TACTTTCATA
92070759 AATACGTATATAGCTTGCTTTAGAGAGAGAGAAAGAGAG
1 AATACGTATATAGCTTGCTTTAGAGAGAGAGAAAGAGAG
92070798 AATACGTATATAGCTTGCTTTAGAGAGAGAGAAAGAGAG
1 AATACGTATATAGCTTGCTTTAGAGAGAGAGAAAGAGAG
92070837 A
1 A
92070838 GAGAGAGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.23
Consensus pattern (39 bp):
AATACGTATATAGCTTGCTTTAGAGAGAGAGAAAGAGAG
Found at i:92070824 original size:2 final size:2
Alignment explanation
Indices: 92070819--92070849 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
92070809 AGCTTGCTTT
*
92070819 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
92070850 TTTCTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:92075832 original size:2 final size:2
Alignment explanation
Indices: 92075825--92075856 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92075815 ATTAATTCAT
92075825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92075857 AGTAGCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92076494 original size:16 final size:16
Alignment explanation
Indices: 92076473--92076525 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
92076463 GAGTTCCGAC
92076473 AAATATTAAATTATTT
1 AAATATTAAATTATTT
92076489 AAATA-T-AATGTATTGT
1 AAATATTAAAT-TATT-T
*
92076505 -TATATTAAATTATTT
1 AAATATTAAATTATTT
92076520 AAATAT
1 AAATAT
92076526 CATTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 15 0.50
17 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
AAATATTAAATTATTT
Found at i:92076513 original size:31 final size:31
Alignment explanation
Indices: 92076475--92076541 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
92076465 GTTCCGACAA
*
92076475 ATATTAAATTATTTAAATATAATGTATTGTT
1 ATATTAAATTATTTAAATATAATGTATTATT
* *
92076506 ATATTAAATTATTTAAATATCATTTATTATT
1 ATATTAAATTATTTAAATATAATGTATTATT
92076537 ATATT
1 ATATT
92076542 TTAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (31 bp):
ATATTAAATTATTTAAATATAATGTATTATT
Found at i:92077942 original size:26 final size:26
Alignment explanation
Indices: 92077896--92077948 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
92077886 TCAAAGATGC
*
92077896 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
92077922 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
92077948 A
1 A
92077949 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:92079465 original size:26 final size:26
Alignment explanation
Indices: 92079434--92079541 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
92079424 TGAAATGCCC
*
92079434 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
* * *
92079460 ATCATGGAACATCTACTTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
92079486 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAATCCATT
92079512 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
92079538 ATCA
1 ATCA
92079542 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:92084774 original size:2 final size:2
Alignment explanation
Indices: 92084769--92084800 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92084759 ATTTTTTTCA
92084769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92084801 GTCTTTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92096944 original size:145 final size:145
Alignment explanation
Indices: 92096681--92096947 Score: 356
Period size: 145 Copynumber: 1.8 Consensus size: 145
92096671 TCCTACTTAA
* *
92096681 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGAATATTTGAATTTAATAAATCAT
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGAATAATTGAATTTAAGAAATCAT
* * * * * *
92096746 GATAAATTGATTTATTTATTTTGATAACTCATAAAAATTAATTGAGCCTGTTAGATTTATGATCA
66 GATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
92096811 ATCACGTGTAAGAAT
131 ATCACGTGTAAGAAT
* * * *
92096826 ATATTTTACTATGAATTTGGAACATCATAAACTTATAAATTGATTAATTGAGTTTAAGAACA-CA
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGAATAATTGAATTTAAGAA-ATCA
* * *** *
92096890 TTATTAATTAATTAATTTAATTTGATAACCCATATTGATTAATTAAACTTGTTAGATT
65 TGATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATT
92096948 AATAATCCTC
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
145 102 0.99
146 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (145 bp):
ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGAATAATTGAATTTAAGAAATCAT
GATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
ATCACGTGTAAGAAT
Found at i:92097344 original size:18 final size:19
Alignment explanation
Indices: 92097301--92097348 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
92097291 ATGCAAGCAA
*
92097301 CAGACAAACAAACAACAAG
1 CAGAAAAACAAACAACAAG
* *
92097320 CAAAAAAACAAA-AAGAAG
1 CAGAAAAACAAACAACAAG
92097338 CAG-AAAACAAA
1 CAGAAAAACAAA
92097349 GAGCAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.71, C:0.19, G:0.10, T:0.00
Consensus pattern (19 bp):
CAGAAAAACAAACAACAAG
Found at i:92102825 original size:19 final size:19
Alignment explanation
Indices: 92102805--92102846 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
92102795 TTGTTTTGCA
*
92102805 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
92102825 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
92102844 TTC
1 TTC
92102847 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:92110880 original size:66 final size:66
Alignment explanation
Indices: 92110774--92110939 Score: 237
Period size: 66 Copynumber: 2.5 Consensus size: 66
92110764 CATTCATACA
* *
92110774 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTGA
*
92110839 T
66 C
* * * *
92110840 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTGA
92110905 C
66 C
* *
92110906 ACATTCAT--CACATCTAGTTAGGAGCATTTGATTC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTC
92110940 GACCATAGCA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 22 0.25
66 66 0.75
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTGA
C
Found at i:92118139 original size:2 final size:2
Alignment explanation
Indices: 92118132--92118179 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
92118122 ATATTAAAAG
* *
92118132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AC AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92118173 AT A- AT AT
1 AT AT AT AT
92118180 TAAAATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:92118808 original size:40 final size:39
Alignment explanation
Indices: 92118697--92118848 Score: 229
Period size: 39 Copynumber: 3.9 Consensus size: 39
92118687 TTTATTCCAC
* * *
92118697 TCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTAC
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
92118736 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
1 TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
*
92118775 TCCCCCATACTATTTTGTTTTTATTATTAATT-AAACCAT
1 TCCCCCATACTATTTTG-TTTTATTATTAATTAAAACTAT
92118814 T--CCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 TCCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
92118849 CATACTTTAT
Statistics
Matches: 107, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
37 29 0.27
38 4 0.04
39 60 0.56
40 14 0.13
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (39 bp):
TCCCCCATACTATTTTGTTTTATTATTAATTAAAACTAT
Found at i:92118861 original size:34 final size:34
Alignment explanation
Indices: 92118740--92118854 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 34
92118730 AACTACTCCC
92118740 CCATACTATTTTG-TTTTATTATTAATTAAAACTATT
1 CCATACTATTTTGTTTTTATTATTAATT-AAAC-A-T
92118776 CCCCCATACTATTTTGTTTTTATTATTAATTAAACCATT
1 ---CCATACTATTTTGTTTTTATTATTAATTAAA-CA-T
92118815 CCCATACTATTTTGTTTTTATTATTAATTAAA-A-
1 -CCATACTATTTTGTTTTTATTATTAATTAAACAT
92118848 CCATACT
1 CCATACT
92118855 TTATTTTCTC
Statistics
Matches: 74, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
32 7 0.09
35 1 0.01
37 32 0.43
39 19 0.26
40 15 0.20
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (34 bp):
CCATACTATTTTGTTTTTATTATTAATTAAACAT
Found at i:92118888 original size:21 final size:21
Alignment explanation
Indices: 92118864--92118904 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92118854 TTTATTTTCT
* *
92118864 CTTTTTTTTCATAAAAAAAAC
1 CTTTTTTTTAAGAAAAAAAAC
92118885 CTTTTTTTTAAGAAAAAAAA
1 CTTTTTTTTAAGAAAAAAAA
92118905 ACAACAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (21 bp):
CTTTTTTTTAAGAAAAAAAAC
Found at i:92119505 original size:23 final size:22
Alignment explanation
Indices: 92119468--92119524 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
92119458 AACCCCCTCT
**
92119468 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCT-TCCCCAA
**
92119491 AATACAATCGATTCTTCTTCAA
1 AATACAATCGATTCTTCCCCAA
*
92119513 AATACCATCGAT
1 AATACAATCGAT
92119525 CTCCCCTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.32
Consensus pattern (22 bp):
AATACAATCGATTCTTCCCCAA
Found at i:92119836 original size:20 final size:20
Alignment explanation
Indices: 92119813--92119851 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92119803 TAATGGGCAT
* *
92119813 TTTGATTTTTTTTTTTTAAA
1 TTTGATTTATTTATTTTAAA
*
92119833 TTTGGTTTATTTATTTTAA
1 TTTGATTTATTTATTTTAA
92119852 GGCCCGGGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTGATTTATTTATTTTAAA
Found at i:92120941 original size:16 final size:17
Alignment explanation
Indices: 92120922--92120964 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
92120912 TTATCCAAAC
92120922 TTATTTTTTAA-ATATT
1 TTATTTTTTAATATATT
*
92120938 TTATTTTTTTAATATCTT
1 TTA-TTTTTTAATATATT
92120956 TTATTTTTT
1 TTATTTTTT
92120965 GAGCAGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 14 0.58
18 7 0.29
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTTTAATATATT
Found at i:92120945 original size:17 final size:18
Alignment explanation
Indices: 92120925--92120964 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
92120915 TCCAAACTTA
92120925 TTTTTTAA-ATATTTTAT
1 TTTTTTAATATATTTTAT
*
92120942 TTTTTTAATATCTTTTAT
1 TTTTTTAATATATTTTAT
92120960 TTTTT
1 TTTTT
92120965 GAGCAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTAATATATTTTAT
Found at i:92121625 original size:14 final size:15
Alignment explanation
Indices: 92121608--92121640 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
92121598 TAGTCCTTAA
*
92121608 TATTTATAT-ATTTT
1 TATTAATATAATTTT
92121622 TATTAATATAATTTT
1 TATTAATATAATTTT
92121637 TATT
1 TATT
92121641 CTTTTCTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTAATATAATTTT
Found at i:92122502 original size:26 final size:28
Alignment explanation
Indices: 92122447--92122505 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
92122437 GAACCGAATT
**
92122447 TTTTTCAAAAAAAACTAACCAAATTGAA
1 TTTTTCAAAAAAAACTAACCAAATCCAA
*
92122475 TTTTT-AAAAAAAATTAACCAAA-CCAA
1 TTTTTCAAAAAAAACTAACCAAATCCAA
92122501 TTTTT
1 TTTTT
92122506 TTTCGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.25
27 16 0.57
28 5 0.18
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTTTCAAAAAAAACTAACCAAATCCAA
Found at i:92122506 original size:28 final size:29
Alignment explanation
Indices: 92122438--92122507 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 29
92122428 CCGTTAACTG
92122438 AACCGAATTTTTTTCAAAAAAAACTAACCA
1 AACC-AATTTTTTTCAAAAAAAACTAACCA
** *
92122468 AATTGAA--TTTTT-AAAAAAAATTAACCA
1 AA-CCAATTTTTTTCAAAAAAAACTAACCA
92122495 AACCAATTTTTTT
1 AACCAATTTTTTT
92122508 TCGATTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
26 2 0.06
27 16 0.50
28 10 0.31
30 4 0.12
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (29 bp):
AACCAATTTTTTTCAAAAAAAACTAACCA
Found at i:92122615 original size:9 final size:9
Alignment explanation
Indices: 92122585--92122617 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
92122575 ATAAGTATAA
92122585 AATTAACCG
1 AATTAACCG
*
92122594 AATCAACCG
1 AATTAACCG
92122603 AATTAACCG
1 AATTAACCG
92122612 AATTAA
1 AATTAA
92122618 ATTATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:92126989 original size:20 final size:20
Alignment explanation
Indices: 92126960--92127004 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
92126950 TGTTACTATG
*
92126960 TTTTAGTTTTAGACTTTTAC
1 TTTTACTTTTAGACTTTTAC
* *
92126980 TTTTACTTTTAGATTTTTAT
1 TTTTACTTTTAGACTTTTAC
92127000 TTTTA
1 TTTTA
92127005 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTACTTTTAGACTTTTAC
Found at i:92140691 original size:13 final size:14
Alignment explanation
Indices: 92140667--92140695 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92140657 GTAATGTGAT
92140667 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
92140681 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
92140694 TT
1 TT
92140696 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:92143820 original size:32 final size:32
Alignment explanation
Indices: 92143779--92143842 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
92143769 AAGTTTTAAT
92143779 CACAACCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
*
92143811 CACAGCCAAATCATGTTACACAATCAATTCTA
1 CACAACCAAATCATGTTACACAATCAATTCTA
92143843 AGTCTTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (32 bp):
CACAACCAAATCATGTTACACAATCAATTCTA
Found at i:92151173 original size:17 final size:17
Alignment explanation
Indices: 92151148--92151181 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92151138 TCGTAAATCG
92151148 CAGTCTCACTACAGTTT
1 CAGTCTCACTACAGTTT
* *
92151165 CAGTTTCACTACCGTTT
1 CAGTCTCACTACAGTTT
92151182 TTAGTTTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (17 bp):
CAGTCTCACTACAGTTT
Found at i:92154189 original size:25 final size:25
Alignment explanation
Indices: 92154160--92154237 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
92154150 AGACACCTTA
92154160 TAACTAATCCATTTAGCAATCATTC
1 TAACTAATCCATTTAGCAATCATTC
** * *
92154185 TAACTAA-CCA-CAAG-ACA-CCTTA
1 TAACTAATCCATTTAGCA-ATCATTC
92154207 TAACTAATCCATTTAGCAATCATTC
1 TAACTAATCCATTTAGCAATCATTC
92154232 TAACTA
1 TAACTA
92154238 TCCTTTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.31
Consensus pattern (25 bp):
TAACTAATCCATTTAGCAATCATTC
Found at i:92154197 original size:47 final size:47
Alignment explanation
Indices: 92154144--92154237 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
92154134 ACTAAGACGT
92154144 ACCACAAGACACCTTATAACTAATCCATTTAGCAATCATTCTAACTA
1 ACCACAAGACACCTTATAACTAATCCATTTAGCAATCATTCTAACTA
92154191 ACCACAAGACACCTTATAACTAATCCATTTAGCAATCATTCTAACTA
1 ACCACAAGACACCTTATAACTAATCCATTTAGCAATCATTCTAACTA
92154238 TCCTTTGGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (47 bp):
ACCACAAGACACCTTATAACTAATCCATTTAGCAATCATTCTAACTA
Found at i:92155568 original size:23 final size:23
Alignment explanation
Indices: 92155519--92155568 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
92155509 GGAACTTATG
**
92155519 ATTTAATTAACTTAATTAACCTT
1 ATTTAATTAACTTAATTAACCAA
*
92155542 ATTTACTTAA-TTAATTAAACCAA
1 ATTTAATTAACTTAATT-AACCAA
92155565 ATTT
1 ATTT
92155569 TAAGCTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTAACTTAATTAACCAA
Found at i:92160108 original size:20 final size:19
Alignment explanation
Indices: 92160082--92160126 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
92160072 TTTTTAATTA
* *
92160082 TTAAAATCTTTTAATATTT
1 TTAAAATATATTAATATTT
*
92160101 TATAAAATATATTATTATTT
1 T-TAAAATATATTAATATTT
92160121 TTAAAA
1 TTAAAA
92160127 ATTGAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATATATTAATATTT
Found at i:92170877 original size:11 final size:10
Alignment explanation
Indices: 92170835--92170877 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
92170825 AACATAGAGA
*
92170835 AAATAAAAAA
1 AAATAAAAAC
*
92170845 AAATTAAAAC
1 AAATAAAAAC
92170855 AAATTAAAAAC
1 AAA-TAAAAAC
92170866 AAATAAATAAC
1 AAATAAA-AAC
92170877 A
1 A
92170878 GTAATGTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (10 bp):
AAATAAAAAC
Found at i:92171185 original size:14 final size:15
Alignment explanation
Indices: 92171161--92171189 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92171151 TTTGTGACTC
92171161 GACTAATATAGGTTA
1 GACTAATATAGGTTA
92171176 GACT-ATATAGGTTA
1 GACTAATATAGGTTA
92171190 AAACTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
GACTAATATAGGTTA
Found at i:92171880 original size:60 final size:60
Alignment explanation
Indices: 92171787--92171908 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
92171777 GGTTCTTAAA
* *
92171787 TCAAAAAGATAAAACCTATGTGGCAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGGCAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
92171847 TCAAAAAGAAAAAAACTATGT-GCAAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
1 TCAAAAAGAAAAAAACTATGTGGC-AAGATCAAATATGAAAGACTATCTAACCTTTATTAC
92171907 TC
1 TC
92171909 CTATGGTAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 2 0.03
60 57 0.97
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (60 bp):
TCAAAAAGAAAAAAACTATGTGGCAAGATCAAATATGAAAGACTATCTAACCTTTATTAC
Found at i:92172914 original size:74 final size:74
Alignment explanation
Indices: 92172793--92172933 Score: 185
Period size: 74 Copynumber: 1.9 Consensus size: 74
92172783 GGTAACCTAA
* * * * * *
92172793 TGTCGTTTTAAAGGTTTAGCTTGGACAAGTAACCTAACATGTATATATATTAAGCTT-GAACAAG
1 TGTCGTTATAAAAGTTTAGCCTAGACAAGTAACCTAACACGAATATATATTAAG-TTCGAACAAG
92172857 CAATCGATAG
65 CAATCGATAG
* * *
92172867 TGTCGTTATAAAAGTTTAGCCTAGACTAGTAACCTGACACGAATATATATTTAGTTCGAACAAGC
1 TGTCGTTATAAAAGTTTAGCCTAGACAAGTAACCTAACACGAATATATATTAAGTTCGAACAAGC
92172932 AA
66 AA
92172934 CTAGTGTCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 2 0.04
74 55 0.96
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (74 bp):
TGTCGTTATAAAAGTTTAGCCTAGACAAGTAACCTAACACGAATATATATTAAGTTCGAACAAGC
AATCGATAG
Found at i:92173123 original size:19 final size:20
Alignment explanation
Indices: 92173096--92173154 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
92173086 TCTTTGAAGA
*
92173096 TATGCAATCTTAGATATG-G
1 TATGTAATCTTAGATATGAG
*
92173115 TATGTAATCTTAAAAGATATGAT
1 TATGTAATCTT---AGATATGAG
*
92173138 TTTGTAATCTTAGATAT
1 TATGTAATCTTAGATAT
92173155 TTAATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
22 7 0.21
23 10 0.30
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (20 bp):
TATGTAATCTTAGATATGAG
Found at i:92173135 original size:22 final size:23
Alignment explanation
Indices: 92173107--92173149 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
92173097 ATGCAATCTT
92173107 AGATATG-GTATGTAATCTTAAA
1 AGATATGAGTATGTAATCTTAAA
* *
92173129 AGATATGATTTTGTAATCTTA
1 AGATATGAGTATGTAATCTTA
92173150 GATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAGTATGTAATCTTAAA
Found at i:92178268 original size:17 final size:17
Alignment explanation
Indices: 92178218--92178268 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
92178208 TGGAAACATG
*
92178218 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
92178235 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
92178254 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
92178269 ATTTTGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:92179331 original size:21 final size:21
Alignment explanation
Indices: 92179307--92179370 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
92179297 GAAGTTGAAA
92179307 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
* * **
92179328 CATGTAAGTTA-GTAAG---AA
1 CATG-AATTTACTTAAGCTTGC
92179346 CATGAATTTACTTAAGCTTGC
1 CATGAATTTACTTAAGCTTGC
92179367 CATG
1 CATG
92179371 TAAGTTAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (21 bp):
CATGAATTTACTTAAGCTTGC
Found at i:92179348 original size:39 final size:39
Alignment explanation
Indices: 92179305--92179383 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
92179295 GGGAAGTTGA
92179305 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
92179344 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
1 AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
92179383 A
1 A
92179384 TGAAGTAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
AACATGAATTTACTTAAGCTTGCCATGTAAGTTAGTAAG
Found at i:92179382 original size:21 final size:21
Alignment explanation
Indices: 92179319--92179382 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
92179309 TGAATTTACT
92179319 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
** * *
92179340 TAAG---AACATG-AATTTACT
1 TAAGCTTGCCATGTAAGTTA-G
92179358 TAAGCTTGCCATGTAAGTTAG
1 TAAGCTTGCCATGTAAGTTAG
92179379 TAAG
1 TAAG
92179383 ATGAAGTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
21 12 0.40
22 5 0.17
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TAAGCTTGCCATGTAAGTTAG
Found at i:92184469 original size:214 final size:217
Alignment explanation
Indices: 92184079--92184509 Score: 604
Period size: 214 Copynumber: 2.0 Consensus size: 217
92184069 AATTGTTAAT
* * * *
92184079 TTGTTAAACTGAAAAGGTGAAGAATCCATCCAAAAGAAACCGTTGAGTTTAAACATATATATACG
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * * *
92184144 ATATATGTAAGTCATGCAAAAATTTAAAGCACATGGAACTAGGCATGCACAAAATGACAGACTAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
* * *
92184209 CAAAGAAGCAATAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTTGCAAT-AG
131 CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
92184273 ACCTTGTTTCAGTGGCAAGGAG
196 ACCTTGTTTCAGTGGCAAGGAG
* * *
92184295 TTGTTACATTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATA-T
1 TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
* * **
92184359 A-ATATGTAAGTCATACAAAAATTTAAATCACATAGAACTAGGTATGCA-AAAAAG-TTGACCAG
66 ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
** *
92184421 CAAAGAAGCAAAAGATTATTA-GAACCATCATTTGAACTTCATGAGCATATTCAATATTCGCAAT
131 CAAAGAAGCAAAAGA-TA--AGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAAT
92184485 GAAACCTTGTTTCAGTGGCAAGGAG
193 GAAACCTTGTTTCAGTGGCAAGGAG
92184510 GAGGCTTTGG
Statistics
Matches: 190, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
212 19 0.10
213 7 0.04
214 82 0.43
215 25 0.13
216 57 0.30
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (217 bp):
TTGTTAAACTGAAAAAGTGAAGAATCCATCCAAAAGAAACCATTAAGTATAAACATATATATACG
ATATATGTAAGTCATACAAAAATTTAAAGCACATAGAACTAGGCATGCACAAAAAGACAGACCAG
CAAAGAAGCAAAAGATAAGGAACCATCATTTGAACACCACGAGCATATTCAATATTCGCAATGAA
ACCTTGTTTCAGTGGCAAGGAG
Found at i:92187308 original size:18 final size:17
Alignment explanation
Indices: 92187285--92187343 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
92187275 ATAAGTATAA
*
92187285 AATTAACTGAATTAATCG
1 AATTAACTAAATTAA-CG
*
92187303 AATTAACTAAATTACACA
1 AATTAACTAAATTA-ACG
*
92187321 AATTAACCAAATTAACCG
1 AATTAACTAAATTAA-CG
92187339 AATTA
1 AATTA
92187344 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.03
18 33 0.94
19 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (17 bp):
AATTAACTAAATTAACG
Found at i:92187337 original size:9 final size:9
Alignment explanation
Indices: 92187284--92187343 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
92187274 AATAAGTATA
*
92187284 AAATTAACT
1 AAATTAACC
* *
92187293 GAATTAATC
1 AAATTAACC
* *
92187302 GAATTAACT
1 AAATTAACC
92187311 AAATT-ACAC
1 AAATTAAC-C
92187320 AAATTAACC
1 AAATTAACC
92187329 AAATTAACC
1 AAATTAACC
*
92187338 GAATTA
1 AAATTA
92187344 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 2 0.05
9 37 0.90
10 2 0.05
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.28
Consensus pattern (9 bp):
AAATTAACC
Found at i:92187380 original size:7 final size:6
Alignment explanation
Indices: 92187364--92187411 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
92187354 ATTATATGTT
* *
92187364 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA -TTTTTA TTT
92187412 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 21 0.60
7 13 0.37
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:92188691 original size:18 final size:18
Alignment explanation
Indices: 92188664--92188699 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92188654 TTTTATCAAT
92188664 ATTTAGTAAATATATATA
1 ATTTAGTAAATATATATA
* *
92188682 ATTTATTAAATATCTATA
1 ATTTAGTAAATATATATA
92188700 CATAGAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTAGTAAATATATATA
Found at i:92192398 original size:42 final size:42
Alignment explanation
Indices: 92192351--92192435 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
92192341 TAGTTGAACA
92192351 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
92192393 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
1 TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
92192435 T
1 T
92192436 ATGAAAAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (42 bp):
TTAGATAACCAGTGAGCTAATATTTGCTTTCATTTTTCTTTG
Found at i:92199283 original size:23 final size:23
Alignment explanation
Indices: 92199253--92199303 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
92199243 AATCAATAAT
*
92199253 TTGCACCAAAGTGCCACTATCAC
1 TTGCACCAAAGTGCCACAATCAC
*
92199276 TTGCACCAAAGTGTCACAATCAC
1 TTGCACCAAAGTGCCACAATCAC
92199299 TTGCA
1 TTGCA
92199304 TGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACAATCAC
Found at i:92207226 original size:2 final size:2
Alignment explanation
Indices: 92207219--92207258 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
92207209 CTATCTTTTA
92207219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
92207259 AAAGTTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:92210436 original size:26 final size:26
Alignment explanation
Indices: 92210403--92210512 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
92210393 TGATACAAAT
92210403 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
92210429 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92210455 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92210481 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92210507 TGATAA
1 TGATAA
92210513 GAATTTCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:92218633 original size:132 final size:130
Alignment explanation
Indices: 92218131--92218637 Score: 373
Period size: 131 Copynumber: 3.9 Consensus size: 130
92218121 ATTAGGAATT
* ** *** * * * *
92218131 CTTTAAAACGAAAGCGATATTCGACACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACGAAGGAAATATTCGATGTTTGGCAATTCG-GGAATAGTGCCCTATCGTGCTGGGTT
* *** * ** * ** * *
92218196 GCAATTTCTCATTTACCCAAAGTAATCGAAGGT-CCCTTTAGAATTTCACTCATGTCTTCCAAAA
65 GCAATTTCTCGTTTGTTCAAAATAATCGAATATATCCTTCGGAATTTCATTCATGT-TTCTAAAA
92218260 ATC
129 A-C
* * * **
92218263 CTTTAAAACGAAGGTAATACTCGGTGTTTGATAATTCGGGAATCA-TGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAGGAAATATTCGATGTTTGGCAATTCGGGAAT-AGTGCCCTATCGTGCTGGGTT
** * * * *
92218327 GTGATTTCTCGTTTGTTCAAAATAATCGAATGT-TCCTTCAGG-TTTTTATTCATGTTTATTAAA
65 GCAATTTCTCGTTTGTTCAAAATAATCGAATATATCCTTC-GGAATTTCATTCATGTTT-CTAAA
92218390 AAC
128 AAC
** ** * * * * * * *
92218393 CTTCCGAAACGAAGGCGATTTTAGATGTTTAGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTT
1 CTT-TAAAACGAAGGAAATATTCGATGTTTGGCAATTCGGGAATAGTGCCCTATCGTGCTGGGTT
* * * * *
92218458 GCGTATTT-TCGTTTGTTCAAAACAAT-TAA-AGACTCCTTAGGAATTTCATTCATGCTTTCTAA
65 GC-AATTTCTCGTTTGTTCAAAATAATCGAATATA-TCCTTCGGAATTTCATTCATG-TTTCTAA
92218520 AAACC
127 AAA-C
* * *
92218525 CTTTAAAACAAAAGAAATGTTCGATGTTTGGCAATTCGGTGAATAGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAGGAAATATTCGATGTTTGGCAATTCGG-GAATAGTGCCCTATCGTGCTGGGTT
*
92218590 GCAATTTCCCGTTTGTTCAAAATAATCGAATATAT-CTTCGGAATTTCA
65 GCAATTTCTCGTTTGTTCAAAATAATCGAATATATCCTTCGGAATTTCA
92218638 CTCGTATTTT
Statistics
Matches: 288, Mismatches: 72, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
130 10 0.03
131 178 0.62
132 95 0.33
133 3 0.01
134 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (130 bp):
CTTTAAAACGAAGGAAATATTCGATGTTTGGCAATTCGGGAATAGTGCCCTATCGTGCTGGGTTG
CAATTTCTCGTTTGTTCAAAATAATCGAATATATCCTTCGGAATTTCATTCATGTTTCTAAAAAC
Found at i:92221234 original size:18 final size:18
Alignment explanation
Indices: 92221211--92221251 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
92221201 CTGAAAGTGA
*
92221211 TTTTATATATTT-CAATAT
1 TTTTATAGATTTACAA-AT
92221229 TTTTATAGATTTACAAAT
1 TTTTATAGATTTACAAAT
92221247 TTTTA
1 TTTTA
92221252 GTTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTATAGATTTACAAAT
Found at i:92246856 original size:28 final size:29
Alignment explanation
Indices: 92246820--92246876 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
92246810 TTATTTGGGG
*
92246820 TTTCTGGTTGTAATTTTGGAC-TTTGAACT
1 TTTCTGGTTGTAATTTCGG-CTTTTGAACT
*
92246849 TTTC-GGTTTTAATTTCGGCTTTTGAACT
1 TTTCTGGTTGTAATTTCGGCTTTTGAACT
92246877 GTGGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.04
28 20 0.80
29 4 0.16
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (29 bp):
TTTCTGGTTGTAATTTCGGCTTTTGAACT
Found at i:92258419 original size:22 final size:22
Alignment explanation
Indices: 92258349--92258420 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
92258339 TGCACCAGTA
* *
92258349 TATGAGAGCCCTTTAAGGGACG
1 TATGAGAGCCCTTTATGAGACG
* * *
92258371 TTTGAGAGCCCCTTGTGTAGGACG
1 TATGAGAGCCCTTTATG-A-GACG
*
92258395 TATGAAAGCCCTTTATGAGACG
1 TATGAGAGCCCTTTATGAGACG
92258417 TATG
1 TATG
92258421 GAAGACCATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 21 0.54
23 1 0.03
24 17 0.44
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:92258483 original size:28 final size:28
Alignment explanation
Indices: 92258452--92258537 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
92258442 ATATTATATA
*
92258452 TGGGAAGTCCATCAGGACTATTTAAATG
1 TGGGAAGTCCATCAAGACTATTTAAATG
* * * * *
92258480 TGGGGAGCCCTTCAAGACTGTCTAAATG
1 TGGGAAGTCCATCAAGACTATTTAAATG
* * * *
92258508 TAGGCAGTCCGTCAAGACGATCTTAAATG
1 TGGGAAGTCCATCAAGACTAT-TTAAATG
92258537 T
1 T
92258538 AGAAGTTGTC
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 37 0.84
29 7 0.16
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (28 bp):
TGGGAAGTCCATCAAGACTATTTAAATG
Found at i:92258537 original size:29 final size:30
Alignment explanation
Indices: 92258502--92258572 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 30
92258492 CAAGACTGTC
* *
92258502 TAAATGTAGGCAGTCCGT-CAAGACGATCT
1 TAAATGTAGGAAGTCCGTCCAAGACAATCT
*
92258531 TAAATGTA-GAAGT-TGTCCAAGACAATCT
1 TAAATGTAGGAAGTCCGTCCAAGACAATCT
92258559 TAAATG-AGGAAGTC
1 TAAATGTAGGAAGTC
92258573 TGTCTGAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 25 0.69
29 8 0.22
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (30 bp):
TAAATGTAGGAAGTCCGTCCAAGACAATCT
Found at i:92266074 original size:35 final size:35
Alignment explanation
Indices: 92266047--92266212 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
92266037 CATGGCAAAG
*
92266047 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92266082 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92266117 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
92266157 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
92266192 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
92266213 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:92266166 original size:75 final size:75
Alignment explanation
Indices: 92266047--92266217 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
92266037 CATGGCAAAG
** *
92266047 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
92266106 CCATACTGAGC
65 CCATACCGAGC
92266117 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
92266182 CATACCGAGT
66 CATACCGAGC
**
92266192 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
92266218 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:92273571 original size:35 final size:35
Alignment explanation
Indices: 92273544--92273709 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
92273534 CATGGCAAAG
*
92273544 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92273579 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92273614 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
92273654 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
92273689 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
92273710 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:92273663 original size:75 final size:75
Alignment explanation
Indices: 92273544--92273714 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
92273534 CATGGCAAAG
** *
92273544 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
92273603 CCATACTGAGC
65 CCATACCGAGC
92273614 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
92273679 CATACCGAGT
66 CATACCGAGC
**
92273689 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
92273715 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:92283951 original size:55 final size:56
Alignment explanation
Indices: 92283886--92284000 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
92283876 AGCATGGTTG
*
92283886 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATA-TGTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAGT-TTGTGGCA-TAGCCA
* * *
92283942 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAGTTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAGTTTGTGGCATAGCCA
92283997 CCAG
1 CCAG
92284001 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 28 0.54
56 23 0.44
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAGTTTGTGGCATAGCCA
Found at i:92283963 original size:27 final size:27
Alignment explanation
Indices: 92283911--92284000 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
92283901 GTGACAGAGT
92283911 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATAT-TTGTGGCAGTGC
* *
92283940 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
92283967 CACCAGAACAGATAGTTTGTGGCA-TAGC
1 CACCAGAACAGATA-TTTGTGGCAGT-GC
92283995 CACCAG
1 CACCAG
92284001 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:92284153 original size:28 final size:28
Alignment explanation
Indices: 92284106--92284197 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
92284096 AAATTAACCC
*
92284106 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
92284134 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
92284162 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
92284190 TAGAGGTA
1 TAGGGGTA
92284198 CTCTAGTACA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:92288268 original size:16 final size:17
Alignment explanation
Indices: 92288236--92288272 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
92288226 TATTCTTATT
92288236 TTTATTTCTCGTTGCTTA
1 TTTATTTCTC-TTGCTTA
92288254 TTTATTTCT-TTGCTTA
1 TTTATTTCTCTTGCTTA
92288270 TTT
1 TTT
92288273 TTACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTATTTCTCTTGCTTA
Found at i:92288275 original size:18 final size:19
Alignment explanation
Indices: 92288230--92288275 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
92288220 CGTCATTATT
92288230 CTTATTTTTATTTCTCGTTG
1 CTTATTTTTATTTCTC-TTG
92288250 CTTA--TTTATTTCT-TTG
1 CTTATTTTTATTTCTCTTG
92288266 CTTATTTTTA
1 CTTATTTTTA
92288276 CACTTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.29
18 13 0.54
20 4 0.17
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (19 bp):
CTTATTTTTATTTCTCTTG
Found at i:92289213 original size:26 final size:26
Alignment explanation
Indices: 92289177--92289232 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
92289167 TTAAAAGTAC
92289177 TATAACTTGGAAATTGGAATTTTTTT
1 TATAACTTGGAAATTGGAATTTTTTT
92289203 TATAACTTGGAAATTGGAATTTTTTT
1 TATAACTTGGAAATTGGAATTTTTTT
92289229 TATA
1 TATA
92289233 CTCTACAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (26 bp):
TATAACTTGGAAATTGGAATTTTTTT
Found at i:92290011 original size:87 final size:87
Alignment explanation
Indices: 92289865--92290065 Score: 348
Period size: 87 Copynumber: 2.3 Consensus size: 87
92289855 TGAATTCAAT
92289865 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
92289930 CATATCCCAGAGTTTGGATGGA
66 CATATCCCAGAGTTTGGATGGA
92289952 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
1 CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
* * *
92290017 CATATCCTAGAGTTTGGGTGGT
66 CATATCCCAGAGTTTGGATGGA
* * *
92290039 CCTATTGAGACGAACTTGATGAATTCA
1 CCTATTCAGATGGACTTGATGAATTCA
92290066 CCGAATTTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 108 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (87 bp):
CCTATTCAGATGGACTTGATGAATTCATTGATATGTGAGGTTGAGTTTCTTACTCTTAATGAGTT
CATATCCCAGAGTTTGGATGGA
Found at i:92293903 original size:3 final size:3
Alignment explanation
Indices: 92293897--92293921 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
92293887 TCATCAAACC
92293897 CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG C
92293922 TTCAAGTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:92297097 original size:82 final size:82
Alignment explanation
Indices: 92296997--92297161 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
92296987 TCGACTCACT
*
92296997 TCTTTCAAACTGTTTCTTATTATTAAAAAAGGGTAACGAAGATAAAATACTAGCTTTTATATGTG
1 TCTTTCAAACTGTTTCTTATTATTAAAAAAAGGTAACGAAGATAAAATACTAGCTTTTATATGTG
92297062 ATTATATTGTTAAATTA
66 ATTATATTGTTAAATTA
92297079 TCTTTCAAACTGTTTCTTATTATTAAAAAAAGGTAACGAAGATAAAATACTAGCTTTTATATGTG
1 TCTTTCAAACTGTTTCTTATTATTAAAAAAAGGTAACGAAGATAAAATACTAGCTTTTATATGTG
92297144 ATTATATTGTTAAATTA
66 ATTATATTGTTAAATTA
92297161 T
1 T
92297162 TTGGTTAGTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (82 bp):
TCTTTCAAACTGTTTCTTATTATTAAAAAAAGGTAACGAAGATAAAATACTAGCTTTTATATGTG
ATTATATTGTTAAATTA
Found at i:92299842 original size:28 final size:28
Alignment explanation
Indices: 92299794--92299847 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
92299784 TTTTGTGCTG
*
92299794 AAATTAAATTATATATTTTTACTAGTAA
1 AAATTAAATTATATATTTTTAATAGTAA
92299822 AAATATAAATT-TATCA-TTTTAATAGT
1 AAAT-TAAATTATAT-ATTTTTAATAGT
92299848 TTATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
AAATTAAATTATATATTTTTAATAGTAA
Found at i:92302374 original size:18 final size:19
Alignment explanation
Indices: 92302334--92302378 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
92302324 CAGTCGGTAA
92302334 CAATCAATTATTCAATAAT
1 CAATCAATTATTCAATAAT
* *
92302353 -AATCAGTTATTCAGT-AT
1 CAATCAATTATTCAATAAT
92302370 CAATCAATT
1 CAATCAATT
92302379 GATCGGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (19 bp):
CAATCAATTATTCAATAAT
Found at i:92302388 original size:26 final size:26
Alignment explanation
Indices: 92302358--92302430 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
92302348 ATAATAATCA
*
92302358 GTTATTCAGTATCAATCAATTGATCG
1 GTTATTCAGTAACAATCAATTGATCG
92302384 GTTA-TCTAGTAACAATCAATTGATCG
1 GTTATTC-AGTAACAATCAATTGATCG
* * *
92302410 GTTATCCAGTAGCAGTCAATT
1 GTTATTCAGTAACAATCAATT
92302431 ATTCAGTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.05
26 38 0.93
27 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (26 bp):
GTTATTCAGTAACAATCAATTGATCG
Found at i:92302437 original size:18 final size:18
Alignment explanation
Indices: 92302411--92302462 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
92302401 AATTGATCGG
* *
92302411 TTATCCAGTAGCAGTCAA
1 TTATTCAGTAACAGTCAA
* *
92302429 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAGTCAA
*
92302447 ATATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
92302463 GATCTTTCCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:92302607 original size:6 final size:6
Alignment explanation
Indices: 92302596--92302635 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
92302586 ACAAATCCGG
92302596 AACAGT AACAGT AACAGT AACAGT AAC-GTT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACAG-T AACAGT AACA
92302636 ATATCCGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.03
6 30 0.94
7 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (6 bp):
AACAGT
Found at i:92302678 original size:12 final size:12
Alignment explanation
Indices: 92302661--92302685 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92302651 AGTGCCGAAT
92302661 CGGTAACAGTAA
1 CGGTAACAGTAA
92302673 CGGTAACAGTAA
1 CGGTAACAGTAA
92302685 C
1 C
92302686 AGTAGTTGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:92303091 original size:2 final size:2
Alignment explanation
Indices: 92303084--92303137 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
92303074 TCAAAACACC
92303084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92303126 TA TA TA TA TA TA
1 TA TA TA TA TA TA
92303138 AGTAATAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92304683 original size:36 final size:35
Alignment explanation
Indices: 92304618--92304686 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
92304608 AAAATAATAG
*
92304618 CAAAAATAACAATAAAACAAGAGTCATATAATATC
1 CAAAAATAACAATAAAACAAGAGTAATATAATATC
*
92304653 CAAACAATAACAATAAAA-TAGTAGTAATATAATA
1 CAAA-AATAACAATAAAACAAG-AGTAATATAATA
92304687 ATGAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.22
Consensus pattern (35 bp):
CAAAAATAACAATAAAACAAGAGTAATATAATATC
Found at i:92307858 original size:4 final size:4
Alignment explanation
Indices: 92307849--92307878 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
92307839 AAAACTAATC
92307849 TATT TATT TATT TATT TATT TATT TCATT T
1 TATT TATT TATT TATT TATT TATT T-ATT T
92307879 TATGTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:92310194 original size:25 final size:24
Alignment explanation
Indices: 92310128--92310181 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
92310118 TTAATTTTAA
*
92310128 TATTATTC-A-TACTATTATATTT
1 TATTATTCTATTATTATTATATTT
92310150 TATTATTGCTATTATTATTATATTTT
1 TATTATT-CTATTATTATTATA-TTT
92310176 TATTAT
1 TATTAT
92310182 ATTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 1 0.04
24 1 0.04
25 9 0.33
26 9 0.33
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTATTCTATTATTATTATATTT
Found at i:92310375 original size:22 final size:21
Alignment explanation
Indices: 92310350--92310453 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 21
92310340 ATTACGCATA
*
92310350 TATATATTAATATTATATTATG
1 TATATATT-TTATTATATTATG
* *
92310372 TATATTATTTTTTTAAATATTATA
1 TATA-TATTTTATT--ATATTATG
*
92310396 TATATGTATTTTTTATATATTATG
1 TATA--TATTTTAT-TATATTATG
*
92310420 TATATATTTTTAATATATTATG
1 TATATA-TTTTATTATATTATG
*
92310442 TATATATATTAT
1 TATATATTTTAT
92310454 GTACATACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
21 4 0.06
22 24 0.36
23 8 0.12
24 22 0.33
25 8 0.12
26 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TATATATTTTATTATATTATG
Found at i:92310391 original size:24 final size:24
Alignment explanation
Indices: 92310364--92310451 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
92310354 TATTAATATT
92310364 ATATTATGTATAT-TATTTTTTTAA
1 ATATTATGTATATATA-TTTTTTAA
* * *
92310388 ATATTATATATATGTATTTTTTAT
1 ATATTATGTATATATATTTTTTAA
92310412 ATATTATG--TATATA-TTTTTAA
1 ATATTATGTATATATATTTTTTAA
92310433 TATATTATGTATATATATT
1 -ATATTATGTATATATATT
92310452 ATGTACATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
21 6 0.11
22 13 0.24
24 32 0.59
25 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (24 bp):
ATATTATGTATATATATTTTTTAA
Found at i:92310427 original size:35 final size:35
Alignment explanation
Indices: 92310391--92310474 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
92310381 TTTTTAAATA
* * * *
92310391 TTATATATATGTATTTTTTATATATTATGTATATAT
1 TTATATATAT-TATTGTATATATATTATGTACATAC
*
92310427 TTTTAATATATTA-TGTATATATATTATGTACATAC
1 TTAT-ATATATTATTGTATATATATTATGTACATAC
92310462 TTATA-ATATTATT
1 TTATATATATTATT
92310475 ATGTATTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
33 6 0.15
34 2 0.05
35 21 0.52
36 5 0.12
37 6 0.15
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (35 bp):
TTATATATATTATTGTATATATATTATGTACATAC
Found at i:92310594 original size:25 final size:25
Alignment explanation
Indices: 92310560--92310654 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
92310550 CTAATATGTA
*
92310560 TATATTATGTAAATATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
*
92310585 TATATTATGTATATATTTTT-ACA-
1 TATATTATGTATATATTTTTAATAC
* * *
92310608 TGTATTATGTACATATTTTCAATAAC
1 TATATTATGTATATATTTTTAAT-AC
92310634 TATATCATATGTATATATTTT
1 TATAT--TATGTATATATTTT
92310655 ATGTACATAC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
23 17 0.30
24 3 0.05
25 20 0.35
26 4 0.07
28 13 0.23
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:92310617 original size:59 final size:56
Alignment explanation
Indices: 92310402--92310624 Score: 168
Period size: 59 Copynumber: 3.9 Consensus size: 56
92310392 TATATATATG
* *
92310402 TATTTTTTATA-TATTATGTATATATTTTTAATATATTATGTATATATATTATGTACA
1 TATTTTTAATATTATTATGTATATATTTTTAATATATTATG--TATATATTATGTAAA
* * * * * *
92310459 TACTTATAATATTATTATGTATTTGTTCTTAATATA-TATGTATATATTTATGT-AG
1 TATTTTTAATATTATTATGTATATATTTTTAATATATTATGTATATA-TTATGTAAA
* * * * * *
92310514 TATTATTAATAGTTGCTT-T-TAATATTATTATTATTTCTAATATGTATATATTATGTAAA
1 TATTTTTAATA-TT-ATTATGT-ATA-TATTTTTA-ATATATTATGTATATATTATGTAAA
* *
92310573 TATTTTTAATACTATATTATGTATATATTTTTACATGTATTATGTACATATT
1 TATTTTTAATA-T-TATTATGTATATATTTTTA-ATATATTATGTATATATT
92310625 TTCAATAACT
Statistics
Matches: 127, Mismatches: 27, Indels: 22
0.72 0.15 0.12
Matches are distributed among these distances:
55 15 0.12
56 11 0.09
57 20 0.16
58 30 0.24
59 45 0.35
60 5 0.04
61 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.56
Consensus pattern (56 bp):
TATTTTTAATATTATTATGTATATATTTTTAATATATTATGTATATATTATGTAAA
Found at i:92310673 original size:22 final size:21
Alignment explanation
Indices: 92310559--92310711 Score: 69
Period size: 22 Copynumber: 6.9 Consensus size: 21
92310549 TCTAATATGT
* *
92310559 ATATATTATGTAAATATTTTTA
1 ATATTTTATGTACATA-TTTTA
*
92310581 ATACTATATTATGTATATATTTTTA
1 ATA-T-T-TTATGTACATA-TTTTA
* *
92310606 CATGTATTATGTACATATTTTCA
1 -ATATTTTATGTACATATTTT-A
** * *
92310629 ATA-ACTATAT-CATA-TGTA
1 ATATTTTATGTACATATTTTA
92310647 TATATTTTATGTACATACTTTTA
1 -ATATTTTATGTACATA-TTTTA
**
92310670 ATATTATTATGTATTTATTTTA
1 ATATT-TTATGTACATATTTTA
* *
92310692 ATATATATATGTATATATTT
1 ATAT-TTTATGTACATATTT
92310712 ATATTATTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 5 0.05
20 8 0.08
21 9 0.09
22 35 0.34
23 25 0.25
25 17 0.17
26 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
ATATTTTATGTACATATTTTA
Found at i:92310674 original size:203 final size:198
Alignment explanation
Indices: 92310438--92310803 Score: 506
Period size: 203 Copynumber: 1.8 Consensus size: 198
92310428 TTTAATATAT
*
92310438 TATGTATATATATTATGTACATACTTATAATATTATTATGTATTTGTTCTTAATATATATGTATA
1 TATGTATATATATTATGTACATACTTATAATATTATTATGTATTTATT-TTAATATATA--TATA
* * *
92310503 TATTTATGTAGTATTATTAATAGTT-GCTTTTAATATTATTATTATTTCTAATATGTATATAT-T
63 TATATATGTA-TATTATTAATAGTTAGCTTTTAACATTATTATCATTTCTAATA--TATATATGT
* *
92310566 AT-GTAAATATTTTTA-ATACTATATTATGTATATATTTTTACATGTATTATGTACATATTTTCA
125 ATCGT--ATATGTTTATATA-TATATTATGTATATATCTTTACATGTATTATGTACATATTTTCA
92310629 ATAACTATATCA
187 ATAACTATATCA
* * *
92310641 TATGTATATATTTTATGTACATACTTTTAATATTATTATGTATTTATTTTAATATATATATGTAT
1 TATGTATATATATTATGTACATACTTATAATATTATTATGTATTTATTTTAATATATATATATAT
* ** *
92310706 ATATTTATATTATTAATAGTTATTTTTTAACATTATTATCATTTCTAATATATATGTGTATCGTA
66 ATATGTATATTATTAATAGTTAGCTTTTAACATTATTATCATTTCTAATATATATATGTATCGTA
92310771 TATGTTTATATATATATTATGTATATATCTTTA
131 TATGTTTATATATATATTATGTATATATCTTTA
92310804 GTATTATTAG
Statistics
Matches: 146, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
198 34 0.23
199 20 0.14
200 37 0.25
202 10 0.07
203 45 0.31
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (198 bp):
TATGTATATATATTATGTACATACTTATAATATTATTATGTATTTATTTTAATATATATATATAT
ATATGTATATTATTAATAGTTAGCTTTTAACATTATTATCATTTCTAATATATATATGTATCGTA
TATGTTTATATATATATTATGTATATATCTTTACATGTATTATGTACATATTTTCAATAACTATA
TCA
Found at i:92310680 original size:87 final size:86
Alignment explanation
Indices: 92310553--92310711 Score: 216
Period size: 87 Copynumber: 1.8 Consensus size: 86
92310543 ATTATTTCTA
* *
92310553 ATATGTATATATTATGTAAATATTTTTAATACTATATTATGTATATATTTTTACATGTAT-TATG
1 ATATGTATATATTATGTAAATACTTTTAATACTATATTATGTATATA-TTTTA-ATATATATATG
92310617 TACATATTTTCAATAACTATATC
64 TACATATTTTCAATAACTATATC
* *
92310640 ATATGTATATATTTTATGTACATACTTTTAATA-T-TATTATGTATTTATTTTAATATATATATG
1 ATATGTATATA--TTATGTAAATACTTTTAATACTATATTATGTATATATTTTAATATATATATG
*
92310703 TATATATTT
64 TACATATTT
92310712 ATATTATTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 5 0.08
86 17 0.27
87 23 0.36
88 1 0.02
89 18 0.28
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (86 bp):
ATATGTATATATTATGTAAATACTTTTAATACTATATTATGTATATATTTTAATATATATATGTA
CATATTTTCAATAACTATATC
Found at i:92311028 original size:24 final size:24
Alignment explanation
Indices: 92310985--92311047 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
92310975 TTCTAATATG
*
92310985 TATATACTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
92311008 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
92311033 TATATATTACGTATA
1 TATATATTATGTATA
92311048 TATATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 8 0.24
26 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:92311273 original size:22 final size:23
Alignment explanation
Indices: 92311245--92311288 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92311235 CCTAGTATAT
92311245 ATACTAT-GTATACATTTTTTAA
1 ATACTATAGTATACATTTTTTAA
* *
92311267 ATACTATATTATATATTTTTTA
1 ATACTATAGTATACATTTTTTA
92311289 TACCGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (23 bp):
ATACTATAGTATACATTTTTTAA
Found at i:92311408 original size:18 final size:17
Alignment explanation
Indices: 92311372--92311443 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 17
92311362 ATTATTCGTG
92311372 TATATATA-TATACTTTT
1 TATATATATTATA-TTTT
*
92311389 TATATATAGTATTATTTT
1 TATATATATTA-TATTTT
92311407 TATATATCATTATATTTAT
1 TATATAT-ATTATATTT-T
92311426 TAT-TATACTTATTATTTT
1 TATATATA-TTA-TATTTT
92311444 CACTATTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 9 0.19
18 25 0.52
19 14 0.29
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (17 bp):
TATATATATTATATTTT
Found at i:92311413 original size:37 final size:37
Alignment explanation
Indices: 92311372--92311443 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
92311362 ATTATTCGTG
92311372 TATATAT-A-TATACTTT-TTATATATA-GTATTATTTT
1 TATATATCATTATA-TTTATTAT-TATACGTATTATTTT
*
92311407 TATATATCATTATATTTATTATTATACTTATTATTTT
1 TATATATCATTATATTTATTATTATACGTATTATTTT
92311444 CACTATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 7 0.22
36 8 0.25
37 17 0.53
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (37 bp):
TATATATCATTATATTTATTATTATACGTATTATTTT
Found at i:92313104 original size:2 final size:2
Alignment explanation
Indices: 92313097--92313123 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92313087 CTAATAGTGC
92313097 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
92313124 TAAAGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92313449 original size:21 final size:21
Alignment explanation
Indices: 92313402--92313453 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
92313392 TACGTATAAT
* * *
92313402 AAAATATATATACTAATATTA
1 AAAATAAATATACTAAGAATA
* *
92313423 ATAATAAATATACTAGGAATA
1 AAAATAAATATACTAAGAATA
92313444 AAAATAAATA
1 AAAATAAATA
92313454 AAATAATAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATAAATATACTAAGAATA
Found at i:92314150 original size:26 final size:26
Alignment explanation
Indices: 92314113--92314248 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
92314103 TGATACAAAT
* *
92314113 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92314139 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
92314165 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92314191 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92314217 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
92314243 TGATAA
1 TGATAA
92314249 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:92316271 original size:136 final size:136
Alignment explanation
Indices: 92316027--92316311 Score: 536
Period size: 136 Copynumber: 2.1 Consensus size: 136
92316017 GAGTAGTCTC
92316027 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
92316092 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAA-GGCTCTGGCCCAGTACC
92316156 ACTGTTA
130 ACTGTTA
92316163 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
92316228 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCCAGTACCA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCCAGTACCA
92316293 CTGTTA
131 CTGTTA
**
92316299 CCTGAATGGGCTT
1 CCCAAATGGGCTT
92316312 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 6 0.04
136 140 0.96
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:92319966 original size:26 final size:26
Alignment explanation
Indices: 92319930--92320039 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
92319920 TGATACAAAT
92319930 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92319956 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92319982 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92320008 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92320034 TGATAA
1 TGATAA
92320040 GAATTCATGT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:92323144 original size:26 final size:26
Alignment explanation
Indices: 92323107--92323241 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
92323097 TGATACAAAT
*
92323107 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92323133 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92323159 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92323185 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
92323211 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
92323236 TGATAA
1 TGATAA
92323242 GAATTCATGT
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 24 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:92323164 original size:52 final size:52
Alignment explanation
Indices: 92323107--92323241 Score: 254
Period size: 52 Copynumber: 2.6 Consensus size: 52
92323097 TGATACAAAT
92323107 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
92323159 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
*
92323211 TGATAAT-GGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
92323242 GAATTCATGT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 23 0.28
52 59 0.72
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:92325290 original size:137 final size:137
Alignment explanation
Indices: 92325008--92325283 Score: 552
Period size: 137 Copynumber: 2.0 Consensus size: 137
92324998 GAGTAGTCTC
92325008 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
92325073 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
92325138 ACTGTTA
131 ACTGTTA
92325145 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
92325210 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
92325275 ACTGTTA
131 ACTGTTA
92325282 CC
1 CC
92325284 TGAATGGCTT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:92326201 original size:39 final size:40
Alignment explanation
Indices: 92326127--92326202 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
92326117 TAGTATAAAA
* *
92326127 AATATATAACTAATAATATTAAAATATATACGTACATGAT
1 AATATATAACAAATAATATTAAAATACATACGTACATGAT
* *
92326167 AATATATAA-AAATGATATTAGAAA-ACATATGTACAT
1 AATATATAACAAATAATATTA-AAATACATACGTACAT
92326203 AATATAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 19 0.61
40 12 0.39
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (40 bp):
AATATATAACAAATAATATTAAAATACATACGTACATGAT
Found at i:92326320 original size:11 final size:11
Alignment explanation
Indices: 92326306--92326347 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
92326296 TTAAAGATAT
92326306 ATATATACATA
1 ATATATACATA
* *
92326317 ATATATATAAA
1 ATATATACATA
92326328 ATATATAC--A
1 ATATATACATA
92326337 ATATATACATA
1 ATATATACATA
92326348 TATTGGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 9 0.35
11 17 0.65
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATATACATA
Found at i:92326463 original size:21 final size:21
Alignment explanation
Indices: 92326429--92326468 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
92326419 ATATGTAATA
* *
92326429 ATAGTGTTAGAAATATACAAT
1 ATAGTATTAAAAATATACAAT
92326450 ATAGTATTAAAAATATACA
1 ATAGTATTAAAAATATACA
92326469 TACAATAGTA
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:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
ATAGTATTAAAAATATACAAT
Done.