Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 267 of 295
Found at i:91571379 original size:125 final size:127
Alignment explanation
Indices: 91571183--91571453 Score: 393
Period size: 125 Copynumber: 2.1 Consensus size: 127
91571173 GCCAAACAGA
* * *
91571183 AACTACTGTAGAAAAAGAGCGTCCATGTGGAAACTTTTTTTTTATCAATTTTGCTAACAATGCAT
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGAAAC-TTTTTTTCATCAATTTTGCTAACAATGCAT
* * * * * *
91571248 CTTGCTTGAAGCTTTTTTGACACTATTTGTT-AGAACCGTTTTCTTAAAATTATTTTTTCAGG
65 CCTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAG
* * * * *
91571310 AACTACTGTAGAAAAAAAGTGTCCACGTGGGAGC-TTTTTTCATCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGAAACTTTTTTTCATCAATTTTGCTAACAATGCATC
91571374 CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAG
66 CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAG
91571436 AACTACTGTAGAAAAAAA
1 AACTACTGTAGAAAAAAA
91571454 AATCCTTATT
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 54 0.42
126 46 0.36
127 29 0.22
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (127 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTGGAAACTTTTTTTCATCAATTTTGCTAACAATGCATC
CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAG
Found at i:91571559 original size:34 final size:32
Alignment explanation
Indices: 91571507--91571601 Score: 127
Period size: 34 Copynumber: 2.9 Consensus size: 32
91571497 ACACAAAGTT
* *
91571507 ATTTTGAAAAAAAACTAAATCCTAATTTAATTA
1 ATTTT-AAAAAACACTAAACCCTAATTTAATTA
* *
91571540 ATTTTCTTAAAAACTCTAAACCCTAATTTAATTA
1 A-TTT-TAAAAAACACTAAACCCTAATTTAATTA
91571574 ATTTTAAAAAACACTAAACCCTAATTTA
1 ATTTTAAAAAACACTAAACCCTAATTTA
91571602 TTTTTTAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 22 0.41
33 4 0.07
34 27 0.50
35 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (32 bp):
ATTTTAAAAAACACTAAACCCTAATTTAATTA
Found at i:91573441 original size:26 final size:26
Alignment explanation
Indices: 91573408--91573469 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
91573398 AGAATAAAGT
91573408 AGAAACAAACTCTAAACGAAGAAGCA
1 AGAAACAAACTCTAAACGAAGAAGCA
91573434 AGAAACAAACTCTAAACGAAGAAGCA
1 AGAAACAAACTCTAAACGAAGAAGCA
91573460 A-AAAGCAAAC
1 AGAAA-CAAAC
91573470 AGAAAAACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 3 0.09
26 32 0.91
ACGTcount: A:0.60, C:0.19, G:0.15, T:0.06
Consensus pattern (26 bp):
AGAAACAAACTCTAAACGAAGAAGCA
Found at i:91573871 original size:13 final size:13
Alignment explanation
Indices: 91573855--91573883 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
91573845 TTTATGATTT
91573855 AAGTTTAGGGTTC
1 AAGTTTAGGGTTC
91573868 AAGTTTAGGGTTC
1 AAGTTTAGGGTTC
91573881 AAG
1 AAG
91573884 CTTCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (13 bp):
AAGTTTAGGGTTC
Found at i:91573894 original size:20 final size:20
Alignment explanation
Indices: 91573865--91573903 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91573855 AAGTTTAGGG
* *
91573865 TTCAAGTTTAGGGTTCAAGC
1 TTCAAATTTAAGGTTCAAGC
91573885 TTCAAATTTAAGGTTCAAG
1 TTCAAATTTAAGGTTCAAG
91573904 GTTTAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TTCAAATTTAAGGTTCAAGC
Found at i:91575802 original size:41 final size:41
Alignment explanation
Indices: 91575756--91575841 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
91575746 AAACCAGAAT
* * * *
91575756 AATTTAGTCCCTATCAATTTTGAAAGTCAGCAACTATAGGC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGAC
91575797 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGAC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGAC
91575838 AATT
1 AATT
91575842 GATCATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (41 bp):
AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGAC
Found at i:91578556 original size:18 final size:18
Alignment explanation
Indices: 91578533--91578608 Score: 84
Period size: 18 Copynumber: 4.2 Consensus size: 18
91578523 TAGGATTTGA
*
91578533 ATCTGTATCTGTATCTGT
1 ATCTGTATCTGTATCTGC
91578551 ATCTGTATCTGTATCTGC
1 ATCTGTATCTGTATCTGC
* *
91578569 ATCTGCATCTGTA--GGC
1 ATCTGTATCTGTATCTGC
*
91578585 AAATCTGAATCTGTATCTGC
1 --ATCTGTATCTGTATCTGC
91578605 ATCT
1 ATCT
91578609 ATAATTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 2 0.04
18 45 0.92
20 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (18 bp):
ATCTGTATCTGTATCTGC
Found at i:91578597 original size:6 final size:6
Alignment explanation
Indices: 91578533--91578581 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
91578523 TAGGATTTGA
* *
91578533 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGC ATCTGC ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
91578581 A
1 A
91578582 GGCAAATCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
ATCTGT
Found at i:91590638 original size:26 final size:27
Alignment explanation
Indices: 91590590--91590641 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
91590580 AAAAACAAAC
*
91590590 CAAAACAGTCAAAATGTCCAAAATTTG
1 CAAAACAGCCAAAATGTCCAAAATTTG
91590617 CAAAACA-CCAAAAT-TCCTAAAATTT
1 CAAAACAGCCAAAATGTCC-AAAATTT
91590642 AAATAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.23
Consensus pattern (27 bp):
CAAAACAGCCAAAATGTCCAAAATTTG
Found at i:91605299 original size:33 final size:33
Alignment explanation
Indices: 91605251--91605328 Score: 138
Period size: 33 Copynumber: 2.3 Consensus size: 33
91605241 ATATGTGAAT
*
91605251 TCAAAAAGGAAATACTCTAGGGCAGCAGAATAAA
1 TCAAAAA-CAAATACTCTAGGGCAGCAGAATAAA
91605285 TCAAAAACAAATACTCTAGGGCAGCAGAATAAA
1 TCAAAAACAAATACTCTAGGGCAGCAGAATAAA
91605318 TCAAAAACAAA
1 TCAAAAACAAA
91605329 CTTTTAATGA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 36 0.84
34 7 0.16
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (33 bp):
TCAAAAACAAATACTCTAGGGCAGCAGAATAAA
Found at i:91605658 original size:20 final size:21
Alignment explanation
Indices: 91605602--91605663 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
91605592 ATGAACCCTA
*
91605602 AACCCCAAACACTAAACCTTG
1 AACCCCAAACTCTAAACCTTG
91605623 AA-CCCAAA-TCCTAAACCTTG
1 AACCCCAAACT-CTAAACCTTG
91605643 AACCCCAAACTC-AAA-CTTG
1 AACCCCAAACTCTAAACCTTG
91605662 AA
1 AA
91605664 TTTTGGATCC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.16
20 21 0.57
21 9 0.24
22 1 0.03
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (21 bp):
AACCCCAAACTCTAAACCTTG
Found at i:91611407 original size:26 final size:27
Alignment explanation
Indices: 91611378--91611438 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
91611368 TTGTTGTTAG
91611378 TTATTATTATTGTTAGT-AAAAAACCC
1 TTATTATTATTGTTAGTAAAAAAACCC
91611404 TTATTATTATTGTTAGTAAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAAACCC
*
91611431 TAATTATT
1 TTATTATT
91611439 TGTAGTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 17 0.52
27 16 0.48
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (27 bp):
TTATTATTATTGTTAGTAAAAAAACCC
Found at i:91611436 original size:27 final size:26
Alignment explanation
Indices: 91611380--91611438 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 26
91611370 GTTGTTAGTT
*
91611380 ATTATTATTGTTAGTAAAAAACCCTT
1 ATTATTATTGTTAGTAAAAAACCCTA
91611406 ATTATTATTGTTAGTAAAAAAACCCTA
1 ATTATTATTGTTAGT-AAAAAACCCTA
91611433 ATTATT
1 ATTATT
91611439 TGTAGTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAACCCTA
Found at i:91612551 original size:16 final size:16
Alignment explanation
Indices: 91612530--91612561 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
91612520 ATTATTTTGA
91612530 GAAAGTTTGTTTATTT
1 GAAAGTTTGTTTATTT
91612546 GAAAGTTTGTTTATTT
1 GAAAGTTTGTTTATTT
91612562 TTTAACAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
GAAAGTTTGTTTATTT
Found at i:91613207 original size:16 final size:16
Alignment explanation
Indices: 91613149--91613207 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
91613139 TGGCACTTTC
*
91613149 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
91613165 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
91613180 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
91613195 TTCGTATTTTATT
1 TTCGTATTTTATT
91613208 TCTTTATATT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:91613368 original size:12 final size:13
Alignment explanation
Indices: 91613336--91613371 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
91613326 TTTTTTAAAA
91613336 TATATTATTTTCT
1 TATATTATTTTCT
*
91613349 TATTTTATTTT-T
1 TATATTATTTTCT
91613361 TATATTATTTT
1 TATATTATTTT
91613372 AGCAAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:91613508 original size:151 final size:148
Alignment explanation
Indices: 91613122--91613844 Score: 908
Period size: 150 Copynumber: 4.7 Consensus size: 148
91613112 TCAAACTATC
* * *
91613122 ATAAATAACCTTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTGGCACTTTATTCGTA-TTTTTTATTTTCGTATATTATTTTTTAAAAT
* *
91613187 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
65 ATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAATAATGTTTCAAATGTATTATTTA
*
91613252 AGTGTTTTTTATAGTAATTTA
129 AGT-TTTTTTATATTAATTTA
* *
91613273 ATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCATATATTATTTTTTAAAATA
1 ATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATA
* *
91613338 TATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAGAATGTTTCAAATGTATTATTTAAA
66 TATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAATAATGTTTCAAATGTATTATTT-AA
*
91613403 TATTTTTTTATATTAATTTA
130 -GTTTTTTTATATTAATTTA
* * * *
91613423 ATAAATAACCCTGATTTTGGCACTTTCTTCTTATTTTTTTATTTTCATATCTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTGGCACTTTATTCGTA-TTTTTTATTTTCGTATATTATTTTTTAAAAT
* * *
91613488 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTA
65 ATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAATAATGTTTCAAATGTATTATTTA
**
91613553 AGTTTTTTTATATTTTTTTTA
129 AGTTTTTTTATA-TTAATTTA
* *
91613574 ATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATA
1 ATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTT--AA-A
*
91613639 TATTATTTTCTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTT
63 -A-TA-----T---AT-TA-T-TTT-CGTATTTTATTTTTTATATTATTTTAGCAAATAATGTTT
* *
91613704 CAAATATATTATTTAAGTTTTTTTGTATTAATTTA
114 CAAATGTATTATTTAAGTTTTTTTATATTAATTTA
* * * *
91613739 ATAAATAACCCTGACTTTGGCACTTTGTTCGTATTTTTTATTTTCGGATTTTATTTTTTAAAATA
1 ATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATA
* * *
91613804 TA-AATTTTTCATATTTTATATTTTTATATTATATTAGCAAA
66 TATTA-TTTTCGTATTTTAT-TTTTTATATTATTTTAGCAAA
91613845 AAACTCGTCA
Statistics
Matches: 503, Mismatches: 46, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
148 9 0.02
149 61 0.12
150 135 0.27
151 119 0.24
152 40 0.08
153 1 0.00
154 1 0.00
155 3 0.01
160 3 0.01
161 1 0.00
162 1 0.00
163 4 0.01
164 2 0.00
165 60 0.12
166 51 0.10
167 12 0.02
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (148 bp):
ATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATA
TATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAATAATGTTTCAAATGTATTATTTAAG
TTTTTTTATATTAATTTA
Found at i:91613640 original size:17 final size:17
Alignment explanation
Indices: 91613620--91613665 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
91613610 TTTATTTTCG
*
91613620 TATATTATTTTTTAAAA
1 TATATTATTTTCTAAAA
91613637 TATATTATTTTCTAAAA
1 TATATTATTTTCTAAAA
91613654 TATATTATTTTC
1 TATATTATTTTC
91613666 GTATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATTTTCTAAAA
Found at i:91613673 original size:301 final size:300
Alignment explanation
Indices: 91613122--91613840 Score: 989
Period size: 301 Copynumber: 2.3 Consensus size: 300
91613112 TCAAACTATC
*
91613122 ATAAATAACCTTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
91613187 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
66 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
91613252 AGTGTTTTTTATAGTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTT
131 AGTGTTTTTTATAGTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTT
* * * * *
91613317 CATATATTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATA-TTATTTTAGCAAAGAA
196 CATATATTATTTTTTAAAATATATTATTTTCTAAATATATTATTTATAGTTATTTTAGCAAAAAA
*
91613381 TGTTTCAAATGTATTATTTAAATATTTTTTTATATTAATTTA
261 TGTTTCAAATATATTATTT-AA-ATTTTTTTATATTAATTTA
* *
91613423 ATAAATAACCCTGATTTTGGCACTTTCTTCTTATTTTTTTATTTTCATATCTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
*
91613488 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTA
66 ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
* ** *
91613553 AGT-TTTTTTATATTTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTTATTT
131 AGTGTTTTTTATA-GTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTT
*
91613617 TCGTATATTATTTTTTAAAATATATTATTTTCTAAAATATATTATTTTCGTATTTTATTTTTTAT
195 TCATATATTATTTTTTAAAATATATTATTTTCT--AA-ATA-TA---T--TA-TTTA-----TA-
* * *
91613682 ATTATTTTAGCAAAAAATGTTTCAAATATATTATTTAAGTTTTTTTGTATTAATTTA
244 GTTATTTTAGCAAAAAATGTTTCAAATATATTATTTAAATTTTTTTATATTAATTTA
* * * *
91613739 ATAAATAACCCTGACTTTGGCACTTTGTTCGTA-TTTTTTATTTTCGGATTTTATTTTTTAAAAT
1 ATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
* * *
91613803 ATA-AATTTTTCATATTTTATATT-TTTATATTATATTAG
66 ATATTA-TTTTCGTATTTTAT-TTCTTTATATTATTTTAG
91613841 CAAAAAACTC
Statistics
Matches: 372, Mismatches: 26, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
300 9 0.02
301 208 0.56
303 1 0.00
304 1 0.00
305 2 0.01
308 1 0.00
310 1 0.00
311 4 0.01
314 1 0.00
315 58 0.16
316 51 0.14
317 2 0.01
318 33 0.09
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.57
Consensus pattern (300 bp):
ATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAAT
ATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA
AGTGTTTTTTATAGTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTT
CATATATTATTTTTTAAAATATATTATTTTCTAAATATATTATTTATAGTTATTTTAGCAAAAAA
TGTTTCAAATATATTATTTAAATTTTTTTATATTAATTTA
Found at i:91613784 original size:165 final size:167
Alignment explanation
Indices: 91613469--91613805 Score: 516
Period size: 165 Copynumber: 2.0 Consensus size: 167
91613459 TTTTATTTTC
* * * * *
91613469 ATATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAAT
1 ATATATTATTTTCTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAAT
* * ** * *
91613534 GTTTTAAATGTATTATTTAAGTTTTTTTATATTTTTTTTAATAAATAACCTTGATTTTAGCACTT
66 GTTTCAAATATATTATTTAAGTTTTTTTATATTTAATTTAATAAATAACCCTGACTTTAGCACTT
*
91613599 TATTCGTATTTTTTATTTTCGTATATTATTTTTTAAA
131 TATTCGTATTTTTTATTTTCGGATATTATTTTTTAAA
91613636 ATATATTATTTTCTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAAT
1 ATATATTATTTTCTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAAT
* *
91613700 GTTTCAAATATATTATTTAAGTTTTTTTGTA-TTAATTTAATAAATAACCCTGACTTTGGCACTT
66 GTTTCAAATATATTATTTAAGTTTTTTTATATTTAATTTAATAAATAACCCTGACTTTAGCACTT
* *
91613764 TGTTCGTATTTTTTATTTTCGGATTTTATTTTTTAAA
131 TATTCGTATTTTTTATTTTCGGATATTATTTTTTAAA
91613801 ATATA
1 ATATA
91613806 AATTTTTCAT
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
165 67 0.44
166 48 0.31
167 39 0.25
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (167 bp):
ATATATTATTTTCTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAAT
GTTTCAAATATATTATTTAAGTTTTTTTATATTTAATTTAATAAATAACCCTGACTTTAGCACTT
TATTCGTATTTTTTATTTTCGGATATTATTTTTTAAA
Found at i:91614421 original size:3 final size:3
Alignment explanation
Indices: 91614413--91614438 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91614403 CGCCGACCGG
91614413 CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CT
91614439 TCTTCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:91614443 original size:3 final size:3
Alignment explanation
Indices: 91614437--91614499 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
91614427 CCTCCTCCTC
* * * *
91614437 CTT CTT CTT CTT CTT C-T GTT CTT -TC CTT CGT CTC CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
91614482 TTT CTT CTT CTC CTT CTT
1 CTT CTT CTT CTT CTT CTT
91614500 TGTTCCCGAA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:91614669 original size:19 final size:19
Alignment explanation
Indices: 91614645--91614687 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
91614635 ATTTTTTTAG
91614645 TTTTTTTCGTTTTCAGC-T
1 TTTTTTTCGTTTTCAGCAT
*
91614663 TTTTTTTCGTTTTTAGCAT
1 TTTTTTTCGTTTTCAGCAT
91614682 TTTTTT
1 TTTTTT
91614688 ACTGTTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (19 bp):
TTTTTTTCGTTTTCAGCAT
Found at i:91616367 original size:42 final size:42
Alignment explanation
Indices: 91616316--91616402 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
91616306 AGCATCATAA
** *
91616316 TTATAAAATTAATGGATGTTCACACTATT-TTACAATAATGAT
1 TTATAAAATTAATAAATGTTCACACT-TTCCTACAATAATGAT
* *
91616358 TTATAAAATTAATAAATTTTCACTCTTTCCTACAATAATGAT
1 TTATAAAATTAATAAATGTTCACACTTTCCTACAATAATGAT
91616400 TTA
1 TTA
91616403 CTATAATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (42 bp):
TTATAAAATTAATAAATGTTCACACTTTCCTACAATAATGAT
Found at i:91620116 original size:30 final size:31
Alignment explanation
Indices: 91620058--91620120 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
91620048 CTTAACAAGT
91620058 AAATGCCTCTAAAATAATAATAAAAATTAAC
1 AAATGCCTCTAAAATAATAATAAAAATTAAC
* *
91620089 AAATGCCTTTAAAATAATAA-CAAAATTAAC
1 AAATGCCTCTAAAATAATAATAAAAATTAAC
91620119 AA
1 AA
91620121 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (31 bp):
AAATGCCTCTAAAATAATAATAAAAATTAAC
Found at i:91621384 original size:29 final size:31
Alignment explanation
Indices: 91621333--91621394 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
91621323 AGTCTATATC
* *
91621333 TTTATAATTTTTAAAGGATTAAATTG-AATT
1 TTTATAATTTTTAAAGGACTAAAGTGTAATT
* *
91621363 TTTATAA-TTTTAAGGGGCTAAAGTGTAATT
1 TTTATAATTTTTAAAGGACTAAAGTGTAATT
91621393 TT
1 TT
91621395 ACCTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGACTAAAGTGTAATT
Found at i:91622201 original size:17 final size:17
Alignment explanation
Indices: 91622179--91622213 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
91622169 TAAAACTTAA
91622179 AACCTTGTGAAAAA-CAT
1 AACCTTGT-AAAAAGCAT
91622196 AACCTTGTAAAAAGCAT
1 AACCTTGTAAAAAGCAT
91622213 A
1 A
91622214 TGCTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (17 bp):
AACCTTGTAAAAAGCAT
Found at i:91622779 original size:54 final size:57
Alignment explanation
Indices: 91622676--91622784 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 57
91622666 ATCTTCTAAT
91622676 CATAGTTTCAACCCCCATCAAAAATAAAAAAAACACTTCTTTAACTTCTCAATTTTAC
1 CATAGTTTCAACCCCCATC-AAAATAAAAAAAACACTTCTTTAACTTCTCAATTTTAC
* * *
91622734 CATAGTTTCAACCCCCA-C-CAA-AAAAAAAACATTTCTTTAATTTCTCAATTT
1 CATAGTTTCAACCCCCATCAAAATAAAAAAAACACTTCTTTAACTTCTCAATTT
91622785 CACAACTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
54 28 0.58
55 2 0.04
57 1 0.02
58 17 0.35
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (57 bp):
CATAGTTTCAACCCCCATCAAAATAAAAAAAACACTTCTTTAACTTCTCAATTTTAC
Found at i:91622805 original size:66 final size:65
Alignment explanation
Indices: 91622735--91623698 Score: 307
Period size: 64 Copynumber: 15.2 Consensus size: 65
91622725 CAATTTTACC
* * * *
91622735 ATAGTTTCAACCCCCACCAAAAAAAAAACATTTCTTTAATTTCTCAATTTCACAACTCTTTTAAT
1 ATAGTTTCAACCCCC-CCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAAC
91622800 A
65 A
* * * * *
91622801 ATAGTTTCAA--CCCCCAAATAAGAAAGAGTTCTTTAGCTTCTCAATTTCACAAATCTTTTAACC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
* * * * *
91622864 ATAGTTTCAA---CCCCTAAAAAAATAC--TTATTTAACTTCTCAATTTCACAAATCTTCTAACC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
* * * *
91622924 ATAATTTC-A-----CC--AAAAAAAA-ATTTCTTTAGCTTCTCAATTTCACAACA-CTTTTAGC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAA-ATCTTTTAAC
*
91622979 C
65 A
** * * * * * * * *
91622980 ATAACTTCAACCTTCCCCCCTAAAAAAACACACTTCTTTAGCTTCTTACTTTCAATAAATCTTCT
1 ATAGTTTCAA-C--CCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTC-ACAAATCTTTT
91623045 AACA
62 AACA
* * * * * *
91623049 ATAGTTTCAA-------AAAAAAAAGAAAACTTTTTTAGCTTCTCAATTTCATAACTCTTTTAAC
1 ATAGTTTCAACCCCCCCAAAAAAAA-AACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAAC
*
91623107 C
65 A
* *** * * * * * *
91623108 ATATTTTCAACCTTCCTTATTAAAAAAAAAACACTTTTTTAGCTTCTTAATTTCACAAATATTCT
1 ATAGTTTCAACC--CC--CCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTT
91623173 AACA
62 AACA
** * * ** * *
91623177 ATAGTTTCAACCCCAACAAAAAAAAAGCAATTCTTTTGCTTCTCAATTTCATAACTCTTTTAACA
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
** ** * ** * * * *** * * *
91623242 ATA-AATCCCCCCCCCCCAAATCAACACTGTTGTTTTTGTTATCAATTTCACAACTCTTTTAACC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
* * * * *
91623306 ATAGTTTTAACCCTCCCC--AAAAAAGAC-GCTT-TTTAAGCTTCTAAATTTCATAAATCTTCTA
1 ATAGTTTCAACCC-CCCCAAAAAAAAAACAG-TTCTTTAA-CTTCTCAATTTCACAAATCTTTTA
91623367 ATC-
63 A-CA
* * * * * * * * *
91623370 ATAATTTC-A--CCTCC---AAAAATAC--TTATTTAGCTTCTTAATTTTATAAATCTTCTAACA
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
* * ** * * * *
91623427 ATAGTTTC-ACCCCCAC-AAAAAAAAACA-TTTTTTAGTTTCTCAATTTTACAATTTTTTTAACC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
* * * * * * * *
91623489 ATAGTTTCAA----CCC--TAAAATAACACTTATCTAGA-TTCTCAATTTTACAAATATTCTAAC
1 ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTA-ACTTCTCAATTTCACAAATCTTTTAAC
*
91623547 C
65 A
** * * *
91623548 ATAGTTTCAACTCTCACCAAAAAAGAAAAAAACAGTTCTTTAATTTCTTAATTTTACAAATCTTT
1 ATAGTTTCAAC-C-C-CC-CCAAA-AAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTT
*
91623613 TAACC
61 TAACA
* ** * * * * * * *
91623618 ACAGTTTC-ACCCTACTCCTCTGAAGAAAAACACTACTTTAGCTTCTTAATTTCAAAAATCTTCT
1 ATAGTTTCAACCC--C-CC-CAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTT
91623682 AACA
62 AACA
91623686 ATAGTTTCAACCC
1 ATAGTTTCAACCC
91623699 AAATATATAT
Statistics
Matches: 687, Mismatches: 151, Indels: 117
0.72 0.16 0.12
Matches are distributed among these distances:
55 7 0.01
56 37 0.05
57 37 0.05
58 12 0.02
59 79 0.11
60 62 0.09
61 8 0.01
62 45 0.07
63 57 0.08
64 81 0.12
65 50 0.07
66 15 0.02
67 10 0.01
68 66 0.10
69 70 0.10
70 51 0.07
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (65 bp):
ATAGTTTCAACCCCCCCAAAAAAAAAACAGTTCTTTAACTTCTCAATTTCACAAATCTTTTAACA
Found at i:91622842 original size:63 final size:59
Alignment explanation
Indices: 91622728--91623811 Score: 360
Period size: 60 Copynumber: 17.3 Consensus size: 59
91622718 AACTTCTCAA
* *
91622728 TTTT-ACCATAGTTTCAACCCCCACCAAAAAAAAAACATTTCTTTAATTTCTCAATTTCACAACT
1 TTTTAACCATAGTTTCAA---CC-CC-AAAAAAAAAC--TTCTTTAACTTCTCAATTTCACAAAT
91622792 C
59 C
** * *
91622793 TTTTAATAATAGTTTCAACCCCCAAATAAGAAAGAGTTCTTTAGCTTCTCAATTTCACAAATC
1 TTTTAACCATAGTTTCAA-CCCCAAA-AA-AAA-ACTTCTTTAACTTCTCAATTTCACAAATC
* *
91622856 TTTTAACCATAGTTTCAACCCCTAAAAAAATACTTATTTAACTTCTCAATTTCACAAATC
1 TTTTAACCATAGTTTCAACCCC-AAAAAAAAACTTCTTTAACTTCTCAATTTCACAAATC
* * * *
91622916 TTCTAACCATAATTTC-A--CCAAAAAAAAATTTCTTTAGCTTCTCAATTTCACAACA-C
1 TTTTAACCATAGTTTCAACCCCAAAAAAAAACTTCTTTAACTTCTCAATTTCACAA-ATC
* ** * * * *
91622972 TTTTAGCCATAACTTCAACCTTCCCCCCTAAAAAAACACACTTCTTTAGCTTCTTACTTTCAATA
1 TTTTAACCATAGTTTCAA------CCCC-AAAAAAA-A-ACTTCTTTAACTTCTCAATTTC-ACA
91623037 AATC
56 AATC
* * *** * * * *
91623041 TTCTAACAATAGTTTCAA-AAAAAAAAGAAAACTTTTTTAGCTTCTCAATTTCATAACTC
1 TTTTAACCATAGTTTCAACCCCAAAAA-AAAACTTCTTTAACTTCTCAATTTCACAAATC
* * * *
91623100 TTTTAACCATATTTTCAACCTTCCTTATTAAAAAAAAAACACTTTTTTAGCTTCTTAATTTCACA
1 TTTTAACCATAGTTTCAACC--CC-------AAAAAAAA-ACTTCTTTAACTTCTCAATTTCACA
*
91623165 AATA
56 AATC
* * ** * *
91623169 TTCTAACAATAGTTTCAACCCCAACAAAAAAAAAGCAATTCTTTTGCTTCTCAATTTCATAACTC
1 TTTTAACCATAGTTTCAA-CCC--CAAAAAAAAA-C--TTCTTTAACTTCTCAATTTCACAAATC
* * ** ** ** * * *** * *
91623234 TTTTAACAATAAATCCCCCCCCCCCAAATCAACACTGTTGTTTTTGTTATCAATTTCACAACTC
1 TTTTAACCAT-AGT--TTCAACCCCAAAAAAAAAC--TTCTTTAACTTCTCAATTTCACAAATC
* ** * *
91623298 TTTTAACCATAGTTTTAACCCTCCCCAAAAAAGACGCTT-TTTAAGCTTCTAAATTTCATAAATC
1 TTTTAACCATAGTTTCAA----CCCCAAAAAA-AAACTTCTTTAA-CTTCTCAATTTCACAAATC
* * * * * * * * *
91623362 TTCTAATCATAATTTC-ACCTCC--AAAAATACTTATTTAGCTTCTTAATTTTATAAATC
1 TTTTAACCATAGTTTCAACC-CCAAAAAAAAACTTCTTTAACTTCTCAATTTCACAAATC
* * * * ** * * *
91623419 TTCTAACAATAGTTTCACCCCCACAAAAAAAAACATTTTTTAGTTTCTCAATTTTACAATTT
1 TTTTAACCATAGTTTCA-ACCC-CAAAAAAAAAC-TTCTTTAACTTCTCAATTTCACAAATC
* * * * * * *
91623481 TTTTAACCATAGTTTCAACCCTAAAATAACACTTATCTAGA-TTCTCAATTTTACAAATA
1 TTTTAACCATAGTTTCAACCCCAAAAAAAAACTTCTTTA-ACTTCTCAATTTCACAAATC
* * * *
91623540 TTCTAACCATAGTTTCAACTCTCACCAAAAAAGAAAAAAACAGTTCTTTAATTTCTTAATTTTAC
1 TTTTAACCATAGTTTCAA--C-C-CC----AA-AAAAAAAC--TTCTTTAACTTCTCAATTTCAC
91623605 AAATC
55 AAATC
* * * * * *
91623610 TTTTAACCACAGTTTCACCCTACTCCTCTGAAGAAAAACACTACTTTAGCTTCTTAATTTCAAAA
1 TTTTAACCATAGTTTCA----AC-CC-C--AA-AAAAAAACTTCTTTAACTTCTCAATTTCACAA
91623675 ATC
57 ATC
* * * * * * * *
91623678 TTCTAACAATAGTTTCAA-CCCAAATATATATAGTTCTTTCA-TCTCTCAACTTCACAATTC
1 TTTTAACCATAGTTTCAACCCCAAA-A-AAAAACTTCTTTAACT-TCTCAATTTCACAAATC
* * * * * **
91623738 TTTTAACCATAATTTCAACTCCCAAAAAACACCTT-TTTATCTTCTTAATTAAACAAATC
1 TTTTAACCATAGTTTCAAC-CCCAAAAAAAAACTTCTTTAACTTCTCAATTTCACAAATC
*
91623797 TTCTAACCATAGTTT
1 TTTTAACCATAGTTT
91623812 TATAACTATT
Statistics
Matches: 772, Mismatches: 168, Indels: 164
0.70 0.15 0.15
Matches are distributed among these distances:
56 44 0.06
57 38 0.05
58 10 0.01
59 97 0.13
60 109 0.14
61 21 0.03
62 57 0.07
63 63 0.08
64 67 0.09
65 52 0.07
66 23 0.03
67 6 0.01
68 67 0.09
69 63 0.08
70 49 0.06
71 1 0.00
72 4 0.01
74 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (59 bp):
TTTTAACCATAGTTTCAACCCCAAAAAAAAACTTCTTTAACTTCTCAATTTCACAAATC
Found at i:91623066 original size:59 final size:59
Alignment explanation
Indices: 91623011--91623244 Score: 148
Period size: 69 Copynumber: 3.7 Consensus size: 59
91623001 AAAAAAACAC
* *
91623011 ACTTCTTTAGCTTCTTACTTTCAATAAATCTTCTAACAATAGTTTCAAAAAAAAAAGAAA
1 ACTTCTTTAGCTTCTCAATTTC-ATAAATCTTCTAACAATAGTTTCAAAAAAAAAAGAAA
* * * * *
91623071 ACTTTTTTAGCTTCTCAATTTCATAACTCTTTTAACCATATTTTCAACCTTCCTTATTAAAAAAA
1 ACTTCTTTAGCTTCTCAATTTCATAAATCTTCTAACAATAGTTTCAA--------A--AAAAAAA
91623136 -AAA
56 GAAA
* * * *
91623139 CACTTTTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAACCCCAACAAAAAA-AAA
1 -ACTTCTTTAGCTTCTCAATTTCATAAATCTTCTAACAATAGTTTCAA----AA-AAAAAAGAAA
* * * *
91623203 GCAATTCTTTTGCTTCTCAATTTCATAACTCTTTTAACAATA
1 --ACTTCTTTAGCTTCTCAATTTCATAAATCTTCTAACAATA
91623245 AATCCCCCCC
Statistics
Matches: 137, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
59 21 0.15
60 19 0.14
63 1 0.01
64 9 0.07
65 36 0.26
67 1 0.01
68 3 0.02
69 47 0.34
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.38
Consensus pattern (59 bp):
ACTTCTTTAGCTTCTCAATTTCATAAATCTTCTAACAATAGTTTCAAAAAAAAAAGAAA
Found at i:91623104 original size:128 final size:128
Alignment explanation
Indices: 91622879--91623245 Score: 381
Period size: 128 Copynumber: 2.8 Consensus size: 128
91622869 TTCAACCCCT
* * * * * * *
91622879 AAAAAAATACTTATTTAACTTCTCAATTTCACAAATCTTCTAACCATAATTTC-AC--C-AAAAA
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAACAACAAAAAA
* * * *
91622940 AAAATTTCTTTAGCTTCTCAATTTCACAACACTTTTAGCCATAACTTCAACCTTCCCCCCT-AA
66 AAAATTT-TTTAGCTTCTCAATTTCATAACTCTTTTAACCATAACTTCAACCTTCCCCACTAAA
* * * *
91623003 AAAAACACACTTCTTTAGCTTCTTACTTTCAATAAATCTTCTAACAATAGTTTCAA-AA-AAAAA
1 AAAAAAACACTTCTTTAGCTTCTTAATTTC-ACAAATATTCTAACAATAGTTTCAACAACAAAAA
** ** *
91623066 AGAAAACTTTTTTAGCTTCTCAATTTCATAACTCTTTTAACCATATTTTCAACCTTCCTTATTAA
65 A-AAAA-TTTTTTAGCTTCTCAATTTCATAACTCTTTTAACCATAACTTCAACCTTCCCCACTAA
91623131 A
128 A
*
91623132 AAAAAAACACTTTTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAACCCCAACAAA
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAA---CAAC-AA
*
91623197 AAAAAAGCAATTCTTTT-GCTTCTCAATTTCATAACTCTTTTAACAATAA
62 AAAAAA--AATT-TTTTAGCTTCTCAATTTCATAACTCTTTTAACCATAA
91623246 ATCCCCCCCC
Statistics
Matches: 201, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
124 24 0.12
125 20 0.10
126 1 0.00
127 5 0.02
128 71 0.35
129 32 0.16
132 2 0.01
133 2 0.01
134 38 0.19
135 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (128 bp):
AAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAACAACAAAAAA
AAAATTTTTTAGCTTCTCAATTTCATAACTCTTTTAACCATAACTTCAACCTTCCCCACTAAA
Found at i:91623241 original size:65 final size:67
Alignment explanation
Indices: 91623058--91623244 Score: 200
Period size: 65 Copynumber: 2.8 Consensus size: 67
91623048 AATAGTTTCA
* * *
91623058 AAAAAAAAAGAAAACTTTTTTAGCTTCTCAATTTCATAACTCTTTTAACCATATTTTCAACCTTC
1 AAAAAAAAAG-CAA-TTTTTTAGCTTCTCAATTTCATAACTCTTTTAACAATAGTTTCAACC-TC
**
91623123 CTTATT
63 C-TAAC
* * * * * * *
91623129 AAAAAAAAAACACTTTTTTAGCTTCTTAATTTCACAAATATTCTAACAATAGTTTCAACC-CC-A
1 AAAAAAAAAGCAATTTTTTAGCTTCTCAATTTCATAACTCTTTTAACAATAGTTTCAACCTCCTA
91623192 AC
66 AC
91623194 AAAAAAAAAGCAATTCTTTT-GCTTCTCAATTTCATAACTCTTTTAACAATA
1 AAAAAAAAAGCAATT-TTTTAGCTTCTCAATTTCATAACTCTTTTAACAATA
91623245 AATCCCCCCC
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
65 40 0.42
66 4 0.04
67 2 0.02
69 40 0.42
70 1 0.01
71 9 0.09
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (67 bp):
AAAAAAAAAGCAATTTTTTAGCTTCTCAATTTCATAACTCTTTTAACAATAGTTTCAACCTCCTA
AC
Found at i:91623928 original size:64 final size:64
Alignment explanation
Indices: 91623858--91623978 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
91623848 TAAAAAATAA
91623858 AAACACTTTTTTAGTTTTTGAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCAAAAAAC
1 AAACACTTTTTTAGTTTTTGAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCAAAAAAC
*
91623922 AAACACTTTTTTAGTTTTTGAATTTCACAAATCTTCTAACTATAGTTTCAACCCCCC
1 AAACACTTTTTTAGTTTTTGAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCC
91623979 TTCCAAAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (64 bp):
AAACACTTTTTTAGTTTTTGAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCAAAAAAC
Found at i:91624491 original size:6 final size:7
Alignment explanation
Indices: 91624475--91624504 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91624465 TTCTCATACA
91624475 TTTTTCT
1 TTTTTCT
91624482 TTTTTCT
1 TTTTTCT
91624489 TTTTTCT
1 TTTTTCT
*
91624496 TTTTGCT
1 TTTTTCT
91624503 TT
1 TT
91624505 CTGATCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:91628307 original size:21 final size:21
Alignment explanation
Indices: 91628283--91628352 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
91628273 GTAAAAAGAT
91628283 GAAAGAAAGGAAAAATAAAAA
1 GAAAGAAAGGAAAAATAAAAA
*
91628304 GAAAGAAAAGAAAAAATAAAAA
1 GAAAG-AAAGGAAAAATAAAAA
* * *
91628326 GAAAGAAAAGAAAAAGAAGAA
1 GAAAGAAAGGAAAAATAAAAA
91628347 GAAAGA
1 GAAAGA
91628353 GTACAGAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 23 0.53
22 20 0.47
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (21 bp):
GAAAGAAAGGAAAAATAAAAA
Found at i:91628318 original size:22 final size:22
Alignment explanation
Indices: 91628283--91628340 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
91628273 GTAAAAAGAT
*
91628283 GAAAG-AAAGGAAAAATAAAAA
1 GAAAGAAAAGAAAAAATAAAAA
91628304 GAAAGAAAAGAAAAAATAAAAA
1 GAAAGAAAAGAAAAAATAAAAA
91628326 GAAAGAAAAGAAAAA
1 GAAAGAAAAGAAAAA
91628341 GAAGAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (22 bp):
GAAAGAAAAGAAAAAATAAAAA
Found at i:91635550 original size:51 final size:50
Alignment explanation
Indices: 91635479--91635603 Score: 124
Period size: 51 Copynumber: 2.5 Consensus size: 50
91635469 GTATAATAAT
* * ** * *
91635479 AAATTTAGCCCTCAAAATTTACATGTTCTATCAATTTGGTCTTGATTTAAC
1 AAATTTAGCCCACAACATTTACAT-TTCTATCAATTTAATCCTAATTTAAC
* * * * * *
91635530 AAATTTATCCTATAACATTTATAATTTTTGTCAATTTAATCCTAATTTAAC
1 AAATTTAGCCCACAACATTTA-CATTTCTATCAATTTAATCCTAATTTAAC
91635581 AAATTTAGCCCACAACATTTACA
1 AAATTTAGCCCACAACATTTACA
91635604 CAAAATAATT
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
50 1 0.02
51 54 0.95
52 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.41
Consensus pattern (50 bp):
AAATTTAGCCCACAACATTTACATTTCTATCAATTTAATCCTAATTTAAC
Found at i:91640387 original size:49 final size:50
Alignment explanation
Indices: 91640226--91640473 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
91640216 GATAATAACA
* ** *
91640226 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
91640277 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
91640327 TGCCAACGCCATGTCCCAGACATGGT-TTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
91640376 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
91640431 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
91640474 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 45 0.27
50 46 0.27
51 33 0.20
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:91640392 original size:99 final size:104
Alignment explanation
Indices: 91640225--91640473 Score: 348
Period size: 99 Copynumber: 2.4 Consensus size: 104
91640215 TGATAATAAC
**
91640225 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
91640290 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
91640327 -TGCCAACGCCATGTCCCAGACATGGT-TTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
91640389 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
91640431 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
91640474 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 50 0.38
100 10 0.08
101 25 0.19
102 3 0.02
103 1 0.01
104 2 0.02
105 25 0.19
106 14 0.11
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:91640589 original size:13 final size:13
Alignment explanation
Indices: 91640568--91640599 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
91640558 GCTTGGATCA
*
91640568 TCATCAAATAAAT
1 TCATAAAATAAAT
91640581 TCATAAAATAAAT
1 TCATAAAATAAAT
91640594 TCATAA
1 TCATAA
91640600 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:91640847 original size:30 final size:29
Alignment explanation
Indices: 91640807--91640866 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
91640797 TAGCCCTCGA
*
91640807 CTCTAACTTTTTCAAAATTACAATTTTGC
1 CTCTAACTTTTACAAAATTACAATTTTGC
* *
91640836 CTCTAAACTTTTACATAATTACATTTTTGC
1 CTCT-AACTTTTACAAAATTACAATTTTGC
91640866 C
1 C
91640867 CCAAGGCTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.45
Consensus pattern (29 bp):
CTCTAACTTTTACAAAATTACAATTTTGC
Found at i:91641451 original size:5 final size:5
Alignment explanation
Indices: 91641430--91641466 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
91641420 TTTCTTTTGT
91641430 TATATA TATATA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TATAA
91641467 AATATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:91642023 original size:30 final size:30
Alignment explanation
Indices: 91641987--91642130 Score: 236
Period size: 30 Copynumber: 4.8 Consensus size: 30
91641977 ACTTTTCTCA
*
91641987 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
91642017 ACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
91642047 ACTAG-CACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
91642076 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
91642106 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
91642131 CTTGTACCTA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 27 0.25
30 79 0.75
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:91642062 original size:59 final size:60
Alignment explanation
Indices: 91641987--91642130 Score: 245
Period size: 59 Copynumber: 2.4 Consensus size: 60
91641977 ACTTTTCTCA
91641987 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
* *
91642047 ACTAG-CACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
* *
91642106 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
91642131 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 57 0.73
60 21 0.27
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACATTTTCCACCACCAACTCC
Found at i:91642743 original size:25 final size:26
Alignment explanation
Indices: 91642704--91642774 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
91642694 ATTTTAAATT
* *
91642704 TATATTACGTATATATATATTTTATAC
1 TATATTA-TTATATATATATTTAATAC
* * *
91642731 TATTTTATT-TATATATCTTTAATAT
1 TATATTATTATATATATATTTAATAC
91642756 TATATTATTATATATATAT
1 TATATTATTATATATATAT
91642775 ATTTTTTCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 21 0.58
26 9 0.25
27 6 0.17
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATTATTATATATATATTTAATAC
Found at i:91642842 original size:25 final size:25
Alignment explanation
Indices: 91642794--91642879 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
91642784 ACATGTTATC
*
91642794 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
91642816 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
91642841 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
91642864 TCATGTATTTATTTTT
1 TTATGTATATATTTTT
91642880 TATATATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.19
23 18 0.34
24 2 0.04
25 23 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:91642876 original size:23 final size:24
Alignment explanation
Indices: 91642796--91642886 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
91642786 ATGTTATCTT
*
91642796 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
91642818 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
91642843 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
91642866 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
91642887 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:91643030 original size:16 final size:15
Alignment explanation
Indices: 91643006--91643053 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
91642996 TAATTATTAT
*
91643006 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
91643022 TATTTTAATATTTTA
1 TATTTTAATATTTTA
91643037 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
91643053 T
1 T
91643054 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:91643041 original size:7 final size:8
Alignment explanation
Indices: 91643006--91643057 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
91642996 TAATTATTAT
*
91643006 TATTCTAA
1 TATTTTAA
*
91643014 TATTTTGA
1 TATTTTAA
91643022 TATTTTAA
1 TATTTTAA
91643030 TATTTT-A
1 TATTTTAA
91643037 TATTTTATA
1 TATTTTA-A
*
91643046 TATTTTAT
1 TATTTTAA
91643054 TATT
1 TATT
91643058 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:91651435 original size:69 final size:70
Alignment explanation
Indices: 91651355--91651528 Score: 194
Period size: 69 Copynumber: 2.5 Consensus size: 70
91651345 CTTTCCAAGG
** *
91651355 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGAATTTTTAATTTAT
91651419 -TTTT
66 GTTTT
* ** * *
91651423 CAAAATCAACTCATATTGCGAGA-AGTGAGTTGTGCCTCGGGGCACGCCGAGGAATTTTTAGTTT
1 -AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGAATTTTTAATTT
91651487 ATGTTTT
64 ATGTTTT
** * *
91651494 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
91651529 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
68 1 0.01
69 82 0.93
70 1 0.01
71 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGAATTTTTAATTTAT
GTTTT
Found at i:91651782 original size:73 final size:73
Alignment explanation
Indices: 91651532--91651836 Score: 350
Period size: 73 Copynumber: 4.1 Consensus size: 73
91651522 TAAGCCTTTT
* * * * *
91651532 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGTGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
91651596 GTAATTTC
66 GTAATTTC
* * * *
91651604 AATTTCTG-TTGTTAAAAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTC--AAGACG
1 AATTTCTGTTTG-T---CAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
91651666 CTGAGGTAATTTC
61 CTGAGGTAATTTC
* * *
91651679 AATTTTTGCTTT-TTAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
1 AATTTCTG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
91651743 GGTAATTTC
65 GGTAATTTC
* * *
91651752 AATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTG
1 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTG
**
91651817 AGGTCTTTTC
64 AGGTAATTTC
91651827 AATTTCTGTT
1 AATTTCTGTT
91651837 CTTCAATTTC
Statistics
Matches: 198, Mismatches: 22, Indels: 23
0.81 0.09 0.09
Matches are distributed among these distances:
71 34 0.17
72 15 0.08
73 63 0.32
75 50 0.25
76 4 0.02
77 32 0.16
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (73 bp):
AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
GTAATTTC
Found at i:91651843 original size:14 final size:14
Alignment explanation
Indices: 91651824--91651851 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91651814 CTGAGGTCTT
91651824 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
91651838 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
91651852 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:91651967 original size:76 final size:75
Alignment explanation
Indices: 91651841--91652007 Score: 235
Period size: 76 Copynumber: 2.2 Consensus size: 75
91651831 TCTGTTCTTC
** * * *
91651841 AATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTA
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACGCTA
*
91651906 AGGTATTTTTA
66 AGGTA-ATTTA
* *
91651917 AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACGCTA
*
91651982 AGGTAATTTC
66 AGGTAATTTA
*
91651992 AATTTCTGCTTTTCAA
1 AATTTCTGTTTTTCAA
91652008 TTTCTGTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
75 18 0.22
76 63 0.78
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACGCTA
AGGTAATTTA
Found at i:91652018 original size:14 final size:14
Alignment explanation
Indices: 91651988--91652037 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
91651978 GCTGAGGTAA
*
91651988 TTTCAATTTCTGCT
1 TTTCAATTTCTGTT
91652002 TTTCAATTTCTGTTTT
1 TTTCAATTTCTG--TT
* *
91652018 TTTCAATTTATATT
1 TTTCAATTTCTGTT
91652032 TTTCAA
1 TTTCAA
91652038 AAATCAACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 20 0.65
16 11 0.35
ACGTcount: A:0.20, C:0.14, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTCAATTTCTGTT
Found at i:91652033 original size:16 final size:16
Alignment explanation
Indices: 91652001--91652034 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
91651991 CAATTTCTGC
* *
91652001 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
91652017 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
91652033 TT
1 TT
91652035 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:91652207 original size:77 final size:76
Alignment explanation
Indices: 91652109--91652360 Score: 373
Period size: 77 Copynumber: 3.3 Consensus size: 76
91652099 AAATCTACTT
*
91652109 TTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAG
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTCAAAA-
91652174 AATCAACTCATA
65 AATCAACTCATA
*
91652186 TTGTGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAA
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTC-AAAA
91652251 AATCAACTCATA
65 AATCAACTCATA
** * ** * *
91652263 TTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC-GTTTTCAATTTCTGTTTTTC-AAA
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGA-GCTATTTTCAATTTCTGCTTTTCAAAA
91652326 AATCAACTCATA
65 AATCAACTCATA
*
91652338 TTGCGAGATGTGAGTTGAGCCTT
1 TTGCGAGAGGTGAGTTGAGCCTT
91652361 GGGTTCACAT
Statistics
Matches: 161, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
75 36 0.22
77 119 0.74
78 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAA
ATCAACTCATA
Found at i:91652491 original size:134 final size:135
Alignment explanation
Indices: 91652249--91652493 Score: 402
Period size: 134 Copynumber: 1.8 Consensus size: 135
91652239 GCTTTTCAAA
* **
91652249 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCGTTTTCAATTT
1 AAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACACGCTGAGGCAATTTCAATTT
* *
91652314 CTGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGTTCACATGTCGAGGT
65 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCACATGTCGAGGT
91652379 ATTTTC
130 ATTTTC
* *
91652385 AAAATCGACTAATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCTGAGGCAATTTCAATTTC
*
91652449 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
91652494 CAGCTCACAT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
134 63 0.62
136 38 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (135 bp):
AAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACGCTGAGGCAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCACATGTCGAGGTA
TTTTC
Found at i:91652654 original size:76 final size:74
Alignment explanation
Indices: 91652546--91652773 Score: 307
Period size: 76 Copynumber: 3.0 Consensus size: 74
91652536 TCTATTCGTA
91652546 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AAT
91652611 TTCTGTTTTTC
64 TTCTGTTTTTC
* * *
91652622 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATT
*
91652687 TCTGTTTGTC
65 TCTGTTTTTC
* * * *
91652697 --AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAA
*
91652760 TTTCTGCTTTTC
63 TTTCTGTTTTTC
91652772 AA
1 AA
91652774 TTTCTATTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
72 2 0.02
73 35 0.26
75 39 0.29
76 57 0.43
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTT
CTGTTTTTC
Found at i:91652784 original size:14 final size:14
Alignment explanation
Indices: 91652753--91652802 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
91652743 TGCTGAGGTC
*
91652753 TTTTT-AATTTCTG
1 TTTTTCAATTTCTA
*
91652766 CTTTTCAATTTCTA
1 TTTTTCAATTTCTA
*
91652780 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTA
91652795 TTTTTCAA
1 TTTTTCAA
91652803 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTA
Found at i:91652787 original size:15 final size:15
Alignment explanation
Indices: 91652767--91652799 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
91652757 TAATTTCTGC
*
91652767 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
91652782 TTTTCAATTTATATT
1 TTTTCAATTTATATT
91652797 TTT
1 TTT
91652800 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:91653584 original size:30 final size:30
Alignment explanation
Indices: 91653548--91653751 Score: 329
Period size: 30 Copynumber: 6.8 Consensus size: 30
91653538 ACTTTTCTCA
*
91653548 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
* *
91653578 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
91653608 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
91653638 ACTAG-CACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
* *
91653667 GCTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
91653697 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
* * *
91653727 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCA
91653752 CTTGTACCTA
Statistics
Matches: 163, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 28 0.17
30 135 0.83
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.24
Consensus pattern (30 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCC
Found at i:91653705 original size:89 final size:90
Alignment explanation
Indices: 91653548--91653751 Score: 356
Period size: 89 Copynumber: 2.3 Consensus size: 90
91653538 ACTTTTCTCA
91653548 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
91653613 CCACTCTTTTTCCACCACCAACTCC
66 CCACTCTTTTTCCACCACCAACTCC
* * *
91653638 ACTAG-CACTCTTTTTCCACCACCAACTCCGCTAGCCACACTTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
91653702 CCACTCTTTTTCCACCACCAACTCC
66 CCACTCTTTTTCCACCACCAACTCC
* *
91653727 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
91653752 CTTGTACCTA
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 86 0.80
90 21 0.20
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.24
Consensus pattern (90 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
CCACTCTTTTTCCACCACCAACTCC
Found at i:91654362 original size:25 final size:25
Alignment explanation
Indices: 91654334--91654395 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
91654324 ATATTACGTA
*
91654334 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
91654359 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
91654384 TATATATATTTT
1 TATATATATTTT
91654396 TTTTCTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:91654460 original size:25 final size:25
Alignment explanation
Indices: 91654412--91654497 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
91654402 ACATGTTATC
*
91654412 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
91654434 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
91654459 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
91654482 TCATGTATTTATTTTT
1 TTATGTATATATTTTT
91654498 TATATATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.19
23 18 0.34
24 2 0.04
25 23 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:91654494 original size:23 final size:24
Alignment explanation
Indices: 91654414--91654504 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
91654404 ATGTTATCTT
*
91654414 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
91654436 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
91654461 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
91654484 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
91654505 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:91654662 original size:7 final size:8
Alignment explanation
Indices: 91654627--91654678 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
91654617 TAATTATTAT
*
91654627 TATTCTAA
1 TATTTTAA
91654635 TATTTTAA
1 TATTTTAA
91654643 TATTTTAA
1 TATTTTAA
91654651 TATTTT-A
1 TATTTTAA
91654658 TATTTTATA
1 TATTTTA-A
*
91654667 TATTTTAT
1 TATTTTAA
91654675 TATT
1 TATT
91654679 CACATCATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 7 0.17
8 25 0.62
9 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:91664120 original size:56 final size:56
Alignment explanation
Indices: 91664059--91664269 Score: 296
Period size: 56 Copynumber: 3.8 Consensus size: 56
91664049 CCCCAGACAG
* * *
91664059 GGTCTTACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
* * *
91664115 CGTCTTACTCGCACAGATATATCAGAGTCACATTTCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
* * *
91664171 GGTCTTACTCGCACATATATATCGGAGTCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
* * * * *
91664227 GGACTTATTCGTAAACATATATTAGAGTCACATATCGATGCCA
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCA
91664270 CATATAATTC
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 137 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:91667795 original size:30 final size:30
Alignment explanation
Indices: 91667764--91667863 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
91667754 CTTAGCCTTT
*
91667764 TCCACCACCAACTCCACTAGCCACACATT-T
1 TCCACCACCAACTCCACTAGCCACAC-TTGC
*
91667794 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
91667824 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
91667854 TCCACCACCA
1 TCCACCACCA
91667864 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 57 0.97
ACGTcount: A:0.29, C:0.47, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:91668456 original size:23 final size:23
Alignment explanation
Indices: 91668436--91668478 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
91668426 TCTATATTAC
91668436 GTATATATAT-TTT-ATACTATT
1 GTATATATATCTTTAATACTATT
*
91668457 TTATATATATCTTTAATACTAT
1 GTATATATATCTTTAATACTAT
91668479 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
GTATATATATCTTTAATACTATT
Found at i:91668483 original size:23 final size:23
Alignment explanation
Indices: 91668383--91668489 Score: 85
Period size: 23 Copynumber: 4.6 Consensus size: 23
91668373 TTTCTTAAAT
*
91668383 TATATTATATATATCCTTT--TAA
1 TATATTATATATAT-CTTTAATAC
** *
91668405 TATATTAGGTATAT-TTTAAATTC
1 TATATTATATATATCTTT-AATAC
* *
91668428 TATATTACGTATATATATTTTATAC
1 TATATTA--TATATATCTTTAATAC
*
91668453 TATTTTATATATATCTTTAATAC
1 TATATTATATATATCTTTAATAC
*
91668476 TATATTATTTATAT
1 TATATTATATATAT
91668490 ACATATATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
20 3 0.05
22 12 0.18
23 34 0.52
25 14 0.21
26 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (23 bp):
TATATTATATATATCTTTAATAC
Found at i:91668488 original size:25 final size:24
Alignment explanation
Indices: 91668414--91668490 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
91668404 ATATATTAGG
*
91668414 TATATTTTAAATTCTATATTACGTATA
1 TATATTTT-AATACTATATTA--TATA
91668441 TATATTTT-ATACTAT-TT-TATA
1 TATATTTTAATACTATATTATATA
*
91668462 TATATCTTTAATACTATATTATTTA
1 TATAT-TTTAATACTATATTATATA
91668487 TATA
1 TATA
91668491 CATATATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 9 0.20
22 3 0.07
23 7 0.16
24 4 0.09
25 13 0.30
27 8 0.18
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.56
Consensus pattern (24 bp):
TATATTTTAATACTATATTATATA
Found at i:91668495 original size:15 final size:16
Alignment explanation
Indices: 91668460--91668501 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
91668450 TACTATTTTA
*
91668460 TATATATCTTTAATAC
1 TATATATATTTAATAC
91668476 TATAT-TATTTATATAC
1 TATATATATTTA-ATAC
91668492 -ATATATATTT
1 TATATATATTT
91668502 TTTCTACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATATTTAATAC
Found at i:91668560 original size:25 final size:25
Alignment explanation
Indices: 91668532--91668579 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
91668522 TATATATTTT
*
91668532 CTATATTATGCATGTATTTTTAACA
1 CTATATTATGCATATATTTTTAACA
*
91668557 CTATATTATGTATATATTTTTAA
1 CTATATTATGCATATATTTTTAA
91668580 TATTATCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
CTATATTATGCATATATTTTTAACA
Found at i:91668584 original size:20 final size:20
Alignment explanation
Indices: 91668517--91668585 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
91668507 ACATGTTATC
91668517 TTATGTATATATTTTCT-ATA
1 TTATGTATATATTTT-TAATA
* *
91668537 TTATGCATGTATTTTTAACACTATA
1 TTATGTATATATTTTT---A--ATA
91668562 TTATGTATATATTTTTAATA
1 TTATGTATATATTTTTAATA
91668582 TTAT
1 TTAT
91668586 CACGTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
22 1 0.03
25 17 0.44
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (20 bp):
TTATGTATATATTTTTAATA
Found at i:91668751 original size:16 final size:15
Alignment explanation
Indices: 91668727--91668774 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
91668717 TATTAATTAT
*
91668727 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
91668743 TATTTTAATATTTTA
1 TATTTTAATATTTTA
91668758 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
91668774 T
1 T
91668775 TATTCACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:91668762 original size:7 final size:8
Alignment explanation
Indices: 91668727--91668778 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
91668717 TATTAATTAT
*
91668727 TATTCTAA
1 TATTTTAA
*
91668735 TATTTTGA
1 TATTTTAA
91668743 TATTTTAA
1 TATTTTAA
91668751 TATTTT-A
1 TATTTTAA
91668758 TATTTTATA
1 TATTTTA-A
*
91668767 TATTTTAT
1 TATTTTAA
91668775 TATT
1 TATT
91668779 CACATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:91676010 original size:75 final size:75
Alignment explanation
Indices: 91675743--91676154 Score: 519
Period size: 75 Copynumber: 5.5 Consensus size: 75
91675733 TCTGTTTCAT
* *
91675743 AATTCAATTCATACTGCAAGAAGTGAGTTGAGTCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
*
91675808 TCTTTCAAAAG
66 T-TTTCAAAAA
91675819 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTCT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTTCT
91675884 GTCTTTCAAAAA
65 GT-TTTCAAAAA
91675896 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
91675961 TTTTCAAAAA
66 TTTTCAAAAA
* * * * * * *
91675971 AATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTA
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
91676036 TTTTCAAAAA
66 TTTTCAAAAA
* * * * ** * * *
91676046 AA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCC-T--CAAGACACGTTGAGGTATTTTCAATTT
*
91676109 CTATTTTTC--AAA
63 CT-GTTTTCAAAAA
* * *
91676121 AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCT
91676155 TTTAATTTCT
Statistics
Matches: 308, Mismatches: 23, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
74 28 0.09
75 115 0.37
76 84 0.27
77 81 0.26
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (75 bp):
AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
TTTTCAAAAA
Found at i:91676117 original size:152 final size:152
Alignment explanation
Indices: 91675743--91676154 Score: 514
Period size: 152 Copynumber: 2.7 Consensus size: 152
91675733 TCTGTTTCAT
* * * *
91675743 AATTCAATTCATACTGCAAGAAGTGAGTTGAGTCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTCAATTTCT-
* * * * * *
91675808 TCTTTCAAAAGAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
65 TTTTTCAAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAAT
*
91675873 TTCAATTTTCTGTCTTTCAAAAA
130 TTCAATTTTCTATCTTTCAAAAA
* * *
91675896 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTCAATTTCTT
* *
91675961 TTTTCAAAAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATT
66 TTTTCAAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATT
91676026 TCAA-TTTCTAT-TTTCAAAAA
131 TCAATTTTCTATCTTTCAAAAA
* * * * * * *
91676046 AA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTT
1 AATTCAACTCATACTGCAAGAAGTGAGTTGAGCC-T--CAACACACGCTGAGGTATTTTCAATTT
*
91676109 CTATTTTTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 CT-TTTTTCAAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCT
91676155 TTTAATTTCT
Statistics
Matches: 230, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
149 56 0.24
150 17 0.07
151 28 0.12
152 67 0.29
153 62 0.27
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (152 bp):
AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTCAATTTCTT
TTTTCAAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACATTGAGGTAATT
TCAATTTTCTATCTTTCAAAAA
Found at i:91676178 original size:55 final size:55
Alignment explanation
Indices: 91676099--91676209 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
91676089 CGCTGAGCTA
91676099 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * *
91676154 TTTT-AATTTCTGTTTTTTCAAAAATTAATTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCT-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
91676209 T
1 T
91676210 CGGGTCACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 7 0.14
55 44 0.86
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (55 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:91676378 original size:86 final size:85
Alignment explanation
Indices: 91676262--91677071 Score: 526
Period size: 86 Copynumber: 9.9 Consensus size: 85
91676252 TAAGTTTCAA
* * * * *
91676262 AAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTAAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
91676327 TCTGTTTTTAATGTCTTTTTT
66 TCTGTTTTT-ATGTCTTTTTT
* * * *** * *
91676348 AAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCATGTGTTGA-GTCACTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGT-ATTTTCAAT
* *
91676412 TTCTATTTTTATATCTGCTTTTT
65 TTCTGTTTTTATGTCT--TTTTT
** * *
91676435 --AAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGG--GGCACGCAGAGGTATTTTCAAA
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAT
***
91676496 TTC------TA---CTTTCAA
65 TTCTGTTTTTATGTCTTTTTT
* ** * *
91676508 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-GTCACTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGT-ATTTTCAAT
91676572 TTCTGTTTTTATGTCTGTTTTT
65 TTCTGTTTTTATGTCT-TTTTT
** * * *
91676594 -TTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ATGACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
91676656 TCTG---TT-TGTC------
66 TCTGTTTTTATGTCTTTTTT
* ** *
91676666 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* *
91676731 TCTGTTTTTCAATTTCTTTTCGT
66 TCTGTTTTT--ATGTCTTTT-TT
* * * *
91676754 CAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* ****
91676817 TCTATTTTTA--TC--AAAA
66 TCTGTTTTTATGTCTTTTTT
* * * *
91676833 AAAAATCAACTCACATTGTGAGAGGTGAGTTGAGCCTCGG--GACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
91676896 TCTGCTTTTCAATTTCTACTTTTCA
66 TCTG-TTTT-TATGTCT--TTTT-T
* * * * **
91676921 AAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCACACACTGAGGCGTTTTCAAT
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAAT
*
91676986 TTC------TA---C-TTTTC
65 TTCTGTTTTTATGTCTTTTTT
* * * * * *
91676997 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGGC-CACAAGCCGAGGTCTTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
*
91677061 TTCTGTCTTTA
65 TTCTGTTTTTA
91677072 ATTTCTGTTT
Statistics
Matches: 563, Mismatches: 105, Indels: 117
0.72 0.13 0.15
Matches are distributed among these distances:
73 36 0.06
74 25 0.04
75 89 0.16
76 19 0.03
77 4 0.01
78 4 0.01
79 64 0.11
80 7 0.01
81 6 0.01
82 4 0.01
83 23 0.04
84 16 0.03
85 55 0.10
86 112 0.20
87 5 0.01
88 41 0.07
89 33 0.06
91 20 0.04
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TCTGTTTTTATGTCTTTTTT
Found at i:91676670 original size:160 final size:157
Alignment explanation
Indices: 91676343--91677036 Score: 734
Period size: 160 Copynumber: 4.3 Consensus size: 157
91676333 TTTAATGTCT
* * * * *
91676343 TTTTTAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCATGTGTTGA-GTCACTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGT-ACTT
* *
91676407 TCAATTTCTATTTTTATATCTGCTTTTT-AAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCT
65 TCAATTTCTGTTTTTATTTCTG-TTTTTAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCT
* * *
91676471 CGGGGCACGCAGAGGTATTTTCAAATTCTA
128 CGGGACACGCTGAGGTATTTTCAATTTCTA
* *
91676501 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-GTCAC
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGT-AC
* **
91676565 TTTCAATTTCTGTTTTTATGTCTGTTTTTTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 TTTCAATTTCTGTTTTTATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** * *
91676630 CATGACACGCTGAGGTAATTTCAATTTCTG
128 CGGGACACGCTGAGGTATTTTCAATTTCTA
* * *
91676660 TTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTT
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTACTT
* * *
91676725 TTAATTTCTGTTTTTCAATTTCT-TTTCGTCAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGC
65 TCAATTTCTGTTTTT--ATTTCTGTTT--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
91676789 CTCGGGACACGCTGAGGTATTTTCAAATTCTA
126 CTCGGGACACGCTGAGGTATTTTCAATTTCTA
* * **
91676821 TTTTTATCAAAAAAAAATCAACTCACATTGTGAGAGGTGAGTTGAGCCTCGGGACAC--GTTGAG
1 --TTT-TC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAG
* * * * *
91676884 GTATTTTCAATTTCTGCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTG
59 GTACTTTCAATTTCTG-TTTT-TATTTCT-GTTTT--TAA-AATCAACTCATATTGCGAGAGGTG
* * **
91676949 AGTTAAGCCTCGGGTCACACACTGAGGCGTTTTCAATTTCTA
118 AGTTGAGCCTCGGG--ACACGCTGAGGTATTTTCAATTTCTA
* *
91676991 CTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGG
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
91677037 GCCACAAGCC
Statistics
Matches: 459, Mismatches: 53, Indels: 42
0.83 0.10 0.08
Matches are distributed among these distances:
158 69 0.15
159 58 0.13
160 94 0.20
161 59 0.13
163 5 0.01
164 36 0.08
165 27 0.06
166 4 0.01
167 45 0.10
168 37 0.08
169 3 0.01
170 22 0.05
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (157 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTACTTT
CAATTTCTGTTTTTATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
GACACGCTGAGGTATTTTCAATTTCTA
Found at i:91676906 original size:14 final size:14
Alignment explanation
Indices: 91676887--91676921 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
91676877 CGTTGAGGTA
*
91676887 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
91676901 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
91676915 TTTTCAA
1 TTTTCAA
91676922 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:91676997 original size:91 final size:89
Alignment explanation
Indices: 91676831--91676998 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 89
91676821 TTTTTATCAA
** * ** *
91676831 AAAAAAATCAACTCACATTGTGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGGACACACTGAGGCATTTTCAATT
*
91676896 TCTGCTTTTCAATTTCTACTTTTC
66 TCTACTTTTCAATTTCTACTTTTC
* * *
91676920 AAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCACACACTGAGGCGTTTTCAA
1 AAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGG--ACACACTGAGGCATTTTCAA
91676985 TTTCTACTTTTCAA
64 TTTCTACTTTTCAA
91676999 AAATCAACTC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
89 38 0.57
91 29 0.43
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (89 bp):
AAAAAAATCAACTCACATTGCAAGAGGTGAGTTAAGCCTCGGGACACACTGAGGCATTTTCAATT
TCTACTTTTCAATTTCTACTTTTC
Found at i:91677026 original size:75 final size:77
Alignment explanation
Indices: 91676901--91677042 Score: 225
Period size: 75 Copynumber: 1.9 Consensus size: 77
91676891 CAATTTCTGC
*
91676901 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGTCA
1 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCCA
91676966 CACACTGAGGCG
66 CACACTGAGGCG
* * * *
91676978 TTTTCAATTTCTACTTTTC-AAA-AATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGGCCA
1 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCCA
91677041 CA
66 CA
91677043 AGCCGAGGTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 38 0.63
76 3 0.05
77 19 0.32
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (77 bp):
TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGCCA
CACACTGAGGCG
Found at i:91677057 original size:75 final size:76
Alignment explanation
Indices: 91676899--91677064 Score: 221
Period size: 75 Copynumber: 2.2 Consensus size: 76
91676889 TTCAATTTCT
*
91676899 GCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGT
1 GCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGC
*
91676964 CACACACTGAG
66 CACACACCGAG
* * * *
91676975 GCGTTTTCAATTTCTACTTTTC-AAA-AATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGG
1 GC-TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGG
91677038 CCACA-AGCCGAG
65 CCACACA-CCGAG
*
91677050 GTCTTTTCAAATTCT
1 G-CTTTTCAATTTCT
91677065 GTCTTTAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
74 1 0.01
75 54 0.68
76 6 0.08
77 19 0.24
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (76 bp):
GCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCGGGC
CACACACCGAG
Found at i:91677192 original size:179 final size:179
Alignment explanation
Indices: 91676916--91677510 Score: 791
Period size: 179 Copynumber: 3.2 Consensus size: 179
91676906 AATTTCTACT
* ** **
91676916 TTTCAAAAGAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTC-GGGTCACACACTGAGGCGTT
1 TTTCAAAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG---CACGTTGAGGTATT
* * * * * *
91676980 TTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGGCCACAAG
62 TTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG
91677045 CCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
127 CCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
*
91677098 TTTCAAAAAATCAACTCATATTGCAAGAGTTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
* *
91677163 ATTTATGCTTTTTAATAATCAACTCATATTACGAGAGGTGAGTTGAGTCTCGGGCCACACGTCGA
66 ATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCCGA
*
91677228 GGTCTTTTAAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
131 GGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
* *
91677277 TTTCAAAAAAATCAACTCATATTGCAAGAGTTGAGTTGAGCCTCAGGGGACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGG-------
*
91677342 AATTTATGCTTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCT
58 ----TA---TTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT
* * *
91677407 CGGGCCACACGCCAAGGTCTTTTCAAATTCTGTTTTTAAATTCTGTTTTTTTTTAATTTCTGTG
116 CGGGCCACACGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
* *
91677471 TTTTAAAAAA--AACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
91677511 TGGCTCACGT
Statistics
Matches: 371, Mismatches: 26, Indels: 23
0.88 0.06 0.05
Matches are distributed among these distances:
179 123 0.33
180 52 0.14
181 33 0.09
182 11 0.03
191 30 0.08
193 6 0.02
194 116 0.31
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (179 bp):
TTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCA
ATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCCGA
GGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTG
Found at i:91677356 original size:14 final size:14
Alignment explanation
Indices: 91677337--91677368 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
91677327 CGTTGAGGTA
91677337 TTTTCAATTTATGC
1 TTTTCAATTTATGC
91677351 TTTTCAATTTATGC
1 TTTTCAATTTATGC
91677365 TTTT
1 TTTT
91677369 TAATAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:91677457 original size:14 final size:13
Alignment explanation
Indices: 91677426--91677456 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
91677416 CGCCAAGGTC
*
91677426 TTTTCAAATTCTG
1 TTTTTAAATTCTG
91677439 TTTTTAAATTCTG
1 TTTTTAAATTCTG
91677452 TTTTT
1 TTTTT
91677457 TTTTAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTTTAAATTCTG
Found at i:91677461 original size:17 final size:18
Alignment explanation
Indices: 91677439--91677474 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
91677429 TCAAATTCTG
91677439 TTTTTAAATTCTGT-TTT
1 TTTTTAAATTCTGTGTTT
*
91677456 TTTTTAATTTCTGTGTTT
1 TTTTTAAATTCTGTGTTT
91677474 T
1 T
91677475 AAAAAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTAAATTCTGTGTTT
Found at i:91677461 original size:194 final size:191
Alignment explanation
Indices: 91676977--91677594 Score: 716
Period size: 179 Copynumber: 3.3 Consensus size: 191
91676967 ACACTGAGGC
* * * * * *
91676977 GTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGGCCAC
1 GTTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGCCAC
* * * *
91677042 AAGCCGAGGTCTTTTCAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTGTTTCAAAAA
66 ACGCCAAGGTCTTTTAAAATTCTGTCTTTAAATTCTGTTTTTTTTTAATTTCTGTGTTT-AAAAA
* * *
91677107 ATCAACTCATATTGCAAGAGTTGAGTTGAGCCTCAGG-GCACGT-TGAG-----------GTA-
130 A-AAACTCATATTGCAAGAGGTGAGTTGAGCCT-AGGCGCACGTCTGAGCTATTTTCAATTTAT
* *
91677157 -TTTTCAATTTATGCTTTTTAATAATCAACTCATATTACGAGAGGTGAGTTGAGTCTCGGGCCAC
1 GTTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGCCAC
* * *
91677221 ACGTCGAGGTCTTTTAAAATTCTGTCTTTAATTTCTGTTTTTTTTTAATTTCTGTGTTTCAAAAA
66 ACGCCAAGGTCTTTTAAAATTCTGTCTTTAAATTCTGTTTTTTTTTAATTTCTGTGTTT-AAAAA
* * *
91677286 AATCAACTCATATTGCAAGAGTTGAGTTGAGCCTCAGG-GGACGT-TGAGGTATTTTCAATTTAT
130 AA--AACTCATATTGCAAGAGGTGAGTTGAGCCT-AGGCGCACGTCTGAGCTATTTTCAATTTAT
91677349 GCTTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGCCA
1 G-TTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGCCA
* * *
91677414 CACGCCAAGGTCTTTTCAAATTCTGTTTTTAAATTCTGTTTTTTTTTAATTTCTGTGTTTTAAAA
65 CACGCCAAGGTCTTTTAAAATTCTGTCTTTAAATTCTGTTTTTTTTTAATTTCTGTGTTTAAAAA
* * * * *
91677479 AAAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAATTTCT
130 AAAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGCGCACGT-CTGAGCTATTTTCAATTTAT
* * *
91677542 GTTTT-AATGTCTAT-TTTTTTAAGAGTCAACTCATATTGCGAGAGGTGAGTTGA
1 GTTTTCAAT-T-TATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGA
91677595 GCCTTGGCTC
Statistics
Matches: 386, Mismatches: 31, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
179 121 0.31
180 43 0.11
190 2 0.01
191 37 0.10
192 41 0.11
193 26 0.07
194 116 0.30
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (191 bp):
GTTTTCAATTTATGCTTTTTAATAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGCCAC
ACGCCAAGGTCTTTTAAAATTCTGTCTTTAAATTCTGTTTTTTTTTAATTTCTGTGTTTAAAAAA
AAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGCGCACGTCTGAGCTATTTTCAATTTAT
Found at i:91677591 original size:88 final size:85
Alignment explanation
Indices: 91677481--91677684 Score: 275
Period size: 88 Copynumber: 2.4 Consensus size: 85
91677471 TTTTAAAAAA
* * *
91677481 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAG-CTATTTTTAATTTCTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGTC-ACTTTCAATTTCTATT
* **
91677545 TTAATGTCTATTTTTTTAAGAGTC
65 TTAATATCT-GCTTTTTAA-A-TC
*
91677569 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGTCACTTTCAATTTCTATTT
*
91677634 TTATATCTGCTTTTTAAATC
66 TAATATCTGCTTTTTAAATC
*
91677654 AACTCATAATTGTGAGAGGTGAGTTGAGCCT
1 AACTCAT-ATTGCGAGAGGTGAGTTGAGCCT
91677685 CGGGGCACGC
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
85 9 0.09
86 23 0.22
87 7 0.07
88 65 0.62
89 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (85 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGTCACTTTCAATTTCTATTT
TAATATCTGCTTTTTAAATC
Found at i:91677808 original size:13 final size:14
Alignment explanation
Indices: 91677775--91677805 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91677765 TGCTGAGGTA
*
91677775 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
91677789 TTTTCAATTTATGT
1 TTTTCAATTTATGT
91677803 TTT
1 TTT
91677806 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:91678803 original size:30 final size:30
Alignment explanation
Indices: 91678769--91678903 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
91678759 TAAATCTTAG
91678769 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
91678799 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
91678829 CATTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
91678859 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
91678889 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
91678904 CCTGTACCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 2 0.02
30 90 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:91679521 original size:27 final size:26
Alignment explanation
Indices: 91679447--91679528 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
91679437 ATATATTAGG
* **
91679447 TATATTTTAAATTCTATATTACGTATA
1 TATATTTT-AATACTATATTATATATA
* *
91679474 TATATTTTTATACTATTTTATATATA
1 TATATTTTAATACTATATTATATATA
*
91679500 TATATCTTTAATACTATATTATTTATA
1 TATAT-TTTAATACTATATTATATATA
91679527 TA
1 TA
91679529 CATATATATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.39
27 28 0.61
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (26 bp):
TATATTTTAATACTATATTATATATA
Found at i:91679538 original size:16 final size:16
Alignment explanation
Indices: 91679471--91679539 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
91679461 TATATTACGT
*
91679471 ATATATATTTTTATAC
1 ATATATATTTATATAC
*
91679487 ---TAT-TTTATATAT
1 ATATATATTTATATAC
*
91679499 ATATATCTTTA-ATAC
1 ATATATATTTATATAC
91679514 -TATATTATTTATATAC
1 ATATA-TATTTATATAC
91679530 ATATATATTT
1 ATATATATTT
91679540 TTTTCTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
12 7 0.17
13 3 0.07
14 4 0.10
15 11 0.26
16 13 0.31
17 4 0.10
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATATTTATATAC
Found at i:91679604 original size:25 final size:25
Alignment explanation
Indices: 91679573--91679620 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
91679563 TATATTTTAT
*
91679573 CTATATTATGCATGTATTTTTAACA
1 CTATATTATGCATATATTTTTAACA
*
91679598 CTATATTATGTATATATTTTTAA
1 CTATATTATGCATATATTTTTAA
91679621 TATTATCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
CTATATTATGCATATATTTTTAACA
Found at i:91679795 original size:16 final size:15
Alignment explanation
Indices: 91679771--91679818 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
91679761 TATTAATTAT
*
91679771 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
91679787 TATTTTAATATTTTA
1 TATTTTAATATTTTA
91679802 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
91679818 T
1 T
91679819 TATTCACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:91679806 original size:7 final size:8
Alignment explanation
Indices: 91679771--91679822 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
91679761 TATTAATTAT
*
91679771 TATTCTAA
1 TATTTTAA
*
91679779 TATTTTGA
1 TATTTTAA
91679787 TATTTTAA
1 TATTTTAA
91679795 TATTTT-A
1 TATTTTAA
91679802 TATTTTATA
1 TATTTTA-A
*
91679811 TATTTTAT
1 TATTTTAA
91679819 TATT
1 TATT
91679823 CACATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:91686512 original size:44 final size:44
Alignment explanation
Indices: 91686433--91686814 Score: 220
Period size: 44 Copynumber: 8.5 Consensus size: 44
91686423 AGCTATAAAC
* * *
91686433 CTTATCTCCTTGAAGTTGCAGTAGG-GCAGG-GTGAAGTTACGAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGC-GGATTGAAGTTACGAAT
* * * *
91686477 CTTGTCTCTCTGAAGTTGCAGTGGAGCGGATTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTA-CGAAT
** * * ** * * *
91686522 CTTATCTTTCTGAAGTTACAGTAGAGTAGATTAAAGCTATC-AAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTA-CGAAT
* * *
91686566 CTTATCCCCCTGAAGTTGCAGTGG-GACAGG-GTGAAGTTACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAG-C-GGATTGAAGTTACGAAT
* * * * * *
91686610 CCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-TTACGAAT
* * * * * *
91686655 CTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-------TTACGAAT
* *
91686706 CTTATCTCCCTGAAGTTGCAGTGGAGTAGG-TTGAAGTTACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAG-CGGATTGAAGTTACGAAT
** * *
91686750 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC-AAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACGAA-T
* *
91686794 TTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
91686815 CGAAGTGGAT
Statistics
Matches: 257, Mismatches: 63, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
43 8 0.03
44 142 0.55
45 72 0.28
51 34 0.13
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACGAAT
Found at i:91686756 original size:140 final size:133
Alignment explanation
Indices: 91686421--91686777 Score: 441
Period size: 133 Copynumber: 2.6 Consensus size: 133
91686411 ACGGATCAAA
* *
91686421 AAAGCTAT-AAACCTTATCTCCTTGAAGTTGCAGTAGGGCAGGGTGAAGTTACGAGTCTTGTCTC
1 AAAGCTATCAAACCTTATCTCCCTGAAGTTGCAGT-GGGCAGGGTGAAGTTACGAGTCTTATCTC
* * * * * *
91686485 TCTGAAGTTGCAGTGGAGCGGATTGAAGATAGCAAATCTTATCTTTCTGAAGTTACAGTAGAGTA
65 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATCTTTCTAAAGTTACAGTAGAGCA
91686550 GATT
130 GATT
* *
91686554 AAAGCTATC-AACCTTATCCCCCTGAAGTTGCAGTGGGACAGGGTGAAGTTACGAGTCCTATCTC
1 AAAGCTATCAAACCTTATCTCCCTGAAGTTGCAGTGGG-CAGGGTGAAGTTACGAGTCTTATCTC
* ** * *
91686618 CCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCATCTTAT-TTTCCTAAAGTTGCAGTGGAGC
65 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATCTTT-CTAAAGTTACAGTAGAGC
91686682 AGATT
129 AGATT
* * *
91686687 GAAGCTACAAATTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACGAGTCT
1 AAAGCT----A-T-CAAACCTTATCTCCCTGAAGTTGCAGTGG-GCAGGGTGAAGTTACGAGTCT
91686752 TATCTCCCTGAAGTTGCAGTGGAGCA
59 TATCTCCCTGAAGTTGCAGTGGAGCA
91686778 AATTAAAGCT
Statistics
Matches: 192, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
132 6 0.03
133 114 0.59
137 1 0.01
138 1 0.01
139 1 0.01
140 68 0.35
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (133 bp):
AAAGCTATCAAACCTTATCTCCCTGAAGTTGCAGTGGGCAGGGTGAAGTTACGAGTCTTATCTCC
CTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATCTTTCTAAAGTTACAGTAGAGCAG
ATT
Found at i:91686787 original size:95 final size:96
Alignment explanation
Indices: 91686612--91686791 Score: 247
Period size: 95 Copynumber: 1.9 Consensus size: 96
91686602 TTACGAGTCC
* *
91686612 TATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCATCTTATTTTCCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCATCTTATCTCCCTAAAGTTGCAGT
* *
91686677 GGAGCAGATTGAAGCTACAAATTACAAACCT
66 GGAGCAAATTAAAGCTACAAATTACAAACCT
* * ** * *
91686708 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAG-TTACG-AGTCTTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCA-TCTTATCTCCCTAAAGTTGCAG
91686771 TGGAGCAAATTAAAGCTACAA
65 TGGAGCAAATTAAAGCTACAA
91686792 GTTTTATCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
94 1 0.01
95 42 0.58
96 30 0.41
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (96 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAACGCATCTTATCTCCCTAAAGTTGCAGT
GGAGCAAATTAAAGCTACAAATTACAAACCT
Found at i:91693463 original size:29 final size:30
Alignment explanation
Indices: 91693417--91693476 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
91693407 CCAAGAATAT
*
91693417 TATGTTATAAAAATATTATAT-TAATTATA
1 TATGTTATAAAAAAATTATATATAATTATA
*
91693446 TATGTTA-AATAAAAATTATATATATTTATA
1 TATGTTATAA-AAAAATTATATATAATTATA
91693476 T
1 T
91693477 TAAATCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 17 0.63
30 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATGTTATAAAAAAATTATATATAATTATA
Found at i:91693669 original size:38 final size:35
Alignment explanation
Indices: 91693594--91693669 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
91693584 TAATACAGTA
*
91693594 AAAAAAATATTATATTTATTTATGTATTTTAATAT
1 AAAAAAATATTATATTTATGTATGTATTTTAATAT
* *
91693629 AAAAAATTATTATATTTATAGTAGTGTTTTTTTAATAT
1 AAAAAAATATTATATTTAT-GTA-TG-TATTTTAATAT
91693667 AAA
1 AAA
91693670 TACTTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 18 0.51
36 2 0.06
37 2 0.06
38 13 0.37
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
AAAAAAATATTATATTTATGTATGTATTTTAATAT
Found at i:91702654 original size:27 final size:27
Alignment explanation
Indices: 91702540--91702654 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
91702530 AGACTGATGA
*
91702540 TCCAAAGCC-CAGGTTGGAGAATGAGGG
1 TCCAAAGCCTGAGG-TGGAGAATGAGGG
*
91702567 TCCAAAGCCTGAGTTGGAGAATGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * *
91702594 TTCAAAGCCCGAGGTGGAGAGTGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * * *
91702621 TCTAAAGCCTGAGGGGGAGAATGATGA
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
91702648 TCCAAAG
1 TCCAAAG
91702655 GGCCAGCTGC
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 71 0.97
28 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.37, T:0.17
Consensus pattern (27 bp):
TCCAAAGCCTGAGGTGGAGAATGAGGG
Found at i:91702654 original size:54 final size:54
Alignment explanation
Indices: 91702534--91702654 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
91702524 AGTTCAAGAC
**
91702534 TGATGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGTTGGAGAA
1 TGATGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGGAGAA
* * * * *
91702588 TGAGGGTTCAAAGCCCGAGG-TGGAGAGTGAGGGTCTAAAGCCTGAGGGGGAGAA
1 TGATGATCCAAAGCCC-AGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGGAGAA
91702642 TGATGATCCAAAG
1 TGATGATCCAAAG
91702655 GGCCAGCTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 53 0.95
55 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.37, T:0.17
Consensus pattern (54 bp):
TGATGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGGAGAA
Found at i:91706482 original size:9 final size:9
Alignment explanation
Indices: 91706468--91706497 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
91706458 ATTAAATGTC
91706468 ATTTTAAAT
1 ATTTTAAAT
*
91706477 ATTTTACAT
1 ATTTTAAAT
91706486 ATTTTAAAT
1 ATTTTAAAT
91706495 ATT
1 ATT
91706498 GATAATGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:91711779 original size:28 final size:28
Alignment explanation
Indices: 91711739--91711799 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
91711729 TTACTCTCAC
91711739 TTTTAACTTTAACATACAATTCTAAAGA
1 TTTTAACTTTAACATACAATTCTAAAGA
91711767 TTTTAACTTTAACATACAATTCTAAAGA
1 TTTTAACTTTAACATACAATTCTAAAGA
*
91711795 ATTTA
1 TTTTA
91711800 TTTCATTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTTAACTTTAACATACAATTCTAAAGA
Found at i:91712184 original size:25 final size:25
Alignment explanation
Indices: 91712153--91712218 Score: 116
Period size: 24 Copynumber: 2.6 Consensus size: 25
91712143 AAATATATAA
91712153 AAAATTTTAAAAATATTTTTTTTAT
1 AAAATTTTAAAAATATTTTTTTTAT
91712178 AAAATTTTAAAAATA-TTTTTTTAT
1 AAAATTTTAAAAATATTTTTTTTAT
91712202 AAAATTTTAAAATATAT
1 AAAATTTTAAAA-ATAT
91712219 AATTTAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 21 0.54
25 18 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AAAATTTTAAAAATATTTTTTTTAT
Found at i:91713519 original size:14 final size:14
Alignment explanation
Indices: 91713493--91713521 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91713483 AGATTGCCCC
91713493 TGCCGGATTGCATT
1 TGCCGGATTGCATT
91713507 TGCCGGATTGCATT
1 TGCCGGATTGCATT
91713521 T
1 T
91713522 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.38
Consensus pattern (14 bp):
TGCCGGATTGCATT
Found at i:91713901 original size:10 final size:10
Alignment explanation
Indices: 91713883--91713941 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
91713873 AAGATAAACC
*
91713883 TATACAAAAT
1 TATAAAAAAT
91713893 TATAAAAAA-
1 TATAAAAAAT
91713902 TAT-AAAAAT
1 TATAAAAAAT
*
91713911 TAT-TAAAAT
1 TATAAAAAAT
91713920 TATTAAAAAAT
1 TA-TAAAAAAT
*
91713931 ATATTAAAAAT
1 -TATAAAAAAT
91713942 AACATTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 5 0.12
9 13 0.32
10 9 0.22
11 12 0.29
12 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:91713905 original size:9 final size:9
Alignment explanation
Indices: 91713883--91713933 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
91713873 AAGATAAACC
91713883 TATACAAAAT
1 TATA-AAAAT
*
91713893 TATAAAAAA
1 TATAAAAAT
91713902 TATAAAAAT
1 TATAAAAAT
*
91713911 TATTAAAAT
1 TATAAAAAT
*
91713920 TATTAAAAAA
1 TA-TAAAAAT
91713930 TATA
1 TATA
91713934 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 24 0.69
10 11 0.31
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:91713935 original size:12 final size:11
Alignment explanation
Indices: 91713888--91713940 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 11
91713878 AAACCTATAC
91713888 AAAATTA-TAA
1 AAAATTATTAA
91713898 AAAA-TA-T-A
1 AAAATTATTAA
91713906 AAAATTATT--
1 AAAATTATTAA
91713915 AAAATTATTAA
1 AAAATTATTAA
91713926 AAAATATATTAA
1 AAAAT-TATTAA
91713938 AAA
1 AAA
91713941 TAACATTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.13
9 14 0.37
10 5 0.13
11 5 0.13
12 9 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:91715132 original size:62 final size:62
Alignment explanation
Indices: 91715035--91715151 Score: 234
Period size: 62 Copynumber: 1.9 Consensus size: 62
91715025 AGAGAGGTAA
91715035 CTGAGTAGAGTGACTACTTTGTAACAAAACGATAATGTAAATGATTAAAACGTAACATACTT
1 CTGAGTAGAGTGACTACTTTGTAACAAAACGATAATGTAAATGATTAAAACGTAACATACTT
91715097 CTGAGTAGAGTGACTACTTTGTAACAAAACGATAATGTAAATGATTAAAACGTAA
1 CTGAGTAGAGTGACTACTTTGTAACAAAACGATAATGTAAATGATTAAAACGTAA
91715152 TATTTTAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (62 bp):
CTGAGTAGAGTGACTACTTTGTAACAAAACGATAATGTAAATGATTAAAACGTAACATACTT
Found at i:91721803 original size:14 final size:15
Alignment explanation
Indices: 91721784--91721813 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
91721774 AAATAATCAA
91721784 ATTCATAACA-TATC
1 ATTCATAACACTATC
91721798 ATTCATAACACTATC
1 ATTCATAACACTATC
91721813 A
1 A
91721814 ATTCTTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTCATAACACTATC
Found at i:91723065 original size:40 final size:40
Alignment explanation
Indices: 91723019--91723202 Score: 235
Period size: 40 Copynumber: 4.5 Consensus size: 40
91723009 ACGAAAATTC
*
91723019 GGCTATGTATGGCACTTAATGTACGATTCGAGATAGCTTT
1 GGCTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTT
* * *
91723059 GACTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTC
1 GGCTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTT
* * *
91723099 GGCTAGGTATGGCACTTAGTGTGCGATTTGAGATAGCTTT
1 GGCTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTT
* * * *
91723139 GGCTATGTATGGCACTTAGTGTATGAGATT-AAAATAGCTTC
1 GGCTATGTATGGCACTTAGTGTA--CGATTCGAGATAGCTTT
91723180 GGCTATGTATTGGCACTTAGTGT
1 GGCTATGTA-TGGCACTTAGTGT
91723203 GTGAGAATTC
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
40 93 0.73
41 17 0.13
42 17 0.13
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
GGCTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTT
Found at i:91723149 original size:80 final size:80
Alignment explanation
Indices: 91723016--91723203 Score: 270
Period size: 80 Copynumber: 2.3 Consensus size: 80
91723006 TTGACGAAAA
* *
91723016 TTCGGCTATGTATGGCACTTAATGTACGATTCGAGATAGCTTTGACTATGTATGGCACTTAGTG-
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGACTATGTATGGCACTTAGTGA
* * *
91723080 TGCGATTCGAGATAGC
66 TGAGATT-AAAATAGC
* * *
91723096 TTCGGCTAGGTATGGCACTTAGTGTGCGATTTGAGATAGCTTTGGCTATGTATGGCACTTAGTGT
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGACTATGTATGGCACTTAGTG-
91723161 ATGAGATTAAAATAGC
65 ATGAGATTAAAATAGC
91723177 TTCGGCTATGTATTGGCACTTAGTGTG
1 TTCGGCTATGTA-TGGCACTTAGTGTG
91723204 TGAGAATTCG
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 59 0.61
81 17 0.18
82 20 0.21
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (80 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGACTATGTATGGCACTTAGTGA
TGAGATTAAAATAGC
Found at i:91727989 original size:24 final size:25
Alignment explanation
Indices: 91727950--91728014 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
91727940 GCTCTTCATG
91727950 AGCTGATAAACAGTAAGCTATATTA
1 AGCTGATAAACAGTAAGCTATATTA
* * *
91727975 AGCTGA-AAACGGTAAGCTCTATTG
1 AGCTGATAAACAGTAAGCTATATTA
91727999 AGCT--T-AACAGTAAGCT
1 AGCTGATAAACAGTAAGCT
91728015 CTTTCGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.29
24 19 0.54
25 6 0.17
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (25 bp):
AGCTGATAAACAGTAAGCTATATTA
Found at i:91728014 original size:22 final size:23
Alignment explanation
Indices: 91727948--91728024 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
91727938 AAGCTCTTCA
*
91727948 TGAGCTGATAAACAGTAAGCTATAT
1 TGAGCT-A-AAACAGTAAGCTCTAT
* *
91727973 TAAGCTGAAAACGGTAAGCTCTAT
1 TGAGCT-AAAACAGTAAGCTCTAT
*
91727997 TGAGCT-TAACAGTAAGCTCT-T
1 TGAGCTAAAACAGTAAGCTCTAT
91728018 TCGAGCT
1 T-GAGCT
91728025 GAATCGATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.04
22 17 0.38
24 19 0.42
25 7 0.16
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (23 bp):
TGAGCTAAAACAGTAAGCTCTAT
Found at i:91729007 original size:26 final size:26
Alignment explanation
Indices: 91728956--91729007 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
91728946 TATTAAATTA
*
91728956 AACTTTATTAATCAAATTACCAATAT
1 AACTTTATTAATCAAATCACCAATAT
91728982 AACTTTA-TAAT-AAATCATCCATATAT
1 AACTTTATTAATCAAATCA-CCA-ATAT
91729008 CATGCAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 7 0.30
26 11 0.48
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (26 bp):
AACTTTATTAATCAAATCACCAATAT
Done.