Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 265 of 290
Found at i:91661190 original size:21 final size:21
Alignment explanation
Indices: 91661153--91661198 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
91661143 AGAAAAATAG
91661153 TTTAAAAAACATATTTTTATT
1 TTTAAAAAACATATTTTTATT
91661174 ATTTAAAATAA-AT-TTTTTATT
1 -TTTAAAA-AACATATTTTTATT
91661195 TTTA
1 TTTA
91661199 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
22 9 0.39
23 2 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAAAACATATTTTTATT
Found at i:91661198 original size:6 final size:6
Alignment explanation
Indices: 91661187--91661213 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
91661177 TAAAATAAAT
91661187 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
91661214 ATCAAACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:91665917 original size:54 final size:54
Alignment explanation
Indices: 91665835--91665942 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
91665825 AATTAAATTG
91665835 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
1 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
91665889 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
1 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
91665943 GAATTTGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (54 bp):
TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
Found at i:91668343 original size:10 final size:10
Alignment explanation
Indices: 91668315--91668360 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
91668305 AAAGTCTAAA
91668315 TATTTATTTAT
1 TATTTATTT-T
91668326 TCATTTATTTT
1 T-ATTTATTTT
91668337 TATTTA-TTT
1 TATTTATTTT
*
91668346 TAATTATTTT
1 TATTTATTTT
91668356 TATTT
1 TATTT
91668361 TGAAAGAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.26
10 12 0.39
11 3 0.10
12 8 0.26
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTATTTT
Found at i:91668354 original size:19 final size:18
Alignment explanation
Indices: 91668317--91668360 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
91668307 AGTCTAAATA
*
91668317 TTTATTTATTCATTTATT
1 TTTATTTATTCAATTATT
*
91668335 TTTATTTATTTTAATTATT
1 TTTATTTA-TTCAATTATT
91668354 TTTATTT
1 TTTATTT
91668361 TGAAAGAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTATTCAATTATT
Found at i:91671875 original size:55 final size:55
Alignment explanation
Indices: 91671771--91671885 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
91671761 TAAGGATGTA
* *
91671771 CACGGGTAGGCCACACGGGCGTGGGCCATGGCCGTGTTAAAATGGCAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGGGCCATGGCCGTGTTAAAATGGCAGTGTCGCC
** * * *
91671826 CACGGGCAGG-CAGCACGGGCGTGTTCCATGGCCGTGTTGATAA-GTCAGTGTTGCC
1 CACGGGCAGGCCA-CACGGGCGTGGGCCATGGCCGTGTT-AAAATGGCAGTGTCGCC
91671881 CACGG
1 CACGG
91671886 TTGAAGGGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
54 2 0.04
55 46 0.90
56 3 0.06
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.19
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGGGCCATGGCCGTGTTAAAATGGCAGTGTCGCC
Found at i:91675901 original size:17 final size:19
Alignment explanation
Indices: 91675876--91675921 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
91675866 TAGTAAGTGT
*
91675876 ATATTAAAATCCT-GAAGG
1 ATATTAAAATCCTAGAAGC
*
91675894 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATCCTAGAAGC
91675912 ATATTAAAAT
1 ATATTAAAAT
91675922 TATGAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 8 0.33
19 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (19 bp):
ATATTAAAATCCTAGAAGC
Found at i:91676976 original size:22 final size:24
Alignment explanation
Indices: 91676922--91676976 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
91676912 TTTATAATAG
* *
91676922 TTATTCATTATTATTTAATTATAT
1 TTATTTATTATTATTTAAGTATAT
*
91676946 TTAAATTATTATT-TTT-AGTATAT
1 TT-ATTTATTATTATTTAAGTATAT
91676969 TTATTTAT
1 TTATTTAT
91676977 AAATCTCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 5 0.19
25 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTATTATTATTTAAGTATAT
Found at i:91677255 original size:16 final size:16
Alignment explanation
Indices: 91677231--91677262 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
91677221 AAAAATAACC
*
91677231 TTTAGATTGAGTTTTA
1 TTTAAATTGAGTTTTA
91677247 TTTAAATTGAGTTTTA
1 TTTAAATTGAGTTTTA
91677263 ATAACACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
TTTAAATTGAGTTTTA
Found at i:91679295 original size:9 final size:10
Alignment explanation
Indices: 91679283--91679338 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 10
91679273 TTTAAAAAGG
91679283 TAAAAAATT-
1 TAAAAAATTA
91679292 TAAAAAATTATA
1 TAAAAAA-T-TA
91679304 TAAAAATATTTA
1 TAAAAA-A-TTA
91679316 TTAAAAATATTA
1 -TAAAAA-ATTA
91679328 TAAAAAATTA
1 TAAAAAATTA
91679338 T
1 T
91679339 TGATAATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.17
10 6 0.14
11 7 0.17
12 11 0.26
13 11 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:91679320 original size:13 final size:12
Alignment explanation
Indices: 91679291--91679339 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
91679281 GGTAAAAAAT
91679291 TTAAAAA-ATTA
1 TTAAAAATATTA
91679302 TATAAAAATATTTA
1 T-TAAAAATA-TTA
91679316 TTAAAAATATTA
1 TTAAAAATATTA
91679328 -TAAAAA-ATTA
1 TTAAAAATATTA
91679338 TT
1 TT
91679340 GATAATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.12
11 8 0.24
12 9 0.26
13 9 0.26
14 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:91680267 original size:24 final size:24
Alignment explanation
Indices: 91680234--91680279 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
91680224 TCACAAATGA
* * *
91680234 GAAAGGTAAGGCATGTATATATGT
1 GAAAGATAAGGCACGCATATATGT
91680258 GAAAGATAAGGCACGCATATAT
1 GAAAGATAAGGCACGCATATAT
91680280 ACATAAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (24 bp):
GAAAGATAAGGCACGCATATATGT
Found at i:91685238 original size:22 final size:23
Alignment explanation
Indices: 91685212--91685257 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
91685202 CAACCAAACC
91685212 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTATC-AGATA
*
91685234 AATTCATGCATATTTATCAGATA
1 AATTCATACATATTTATCAGATA
91685257 A
1 A
91685258 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 13 0.62
24 2 0.10
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATCAGATA
Found at i:91685263 original size:23 final size:23
Alignment explanation
Indices: 91685219--91685263 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
91685209 ACCAATTCAA
*
91685219 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
91685242 CATATTTATC-AGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
91685264 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:91685718 original size:15 final size:16
Alignment explanation
Indices: 91685698--91685730 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
91685688 ATATATATAT
91685698 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
91685713 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
91685730 T
1 T
91685731 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:91685803 original size:21 final size:22
Alignment explanation
Indices: 91685777--91685835 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
91685767 GTTTTAAGAA
*
91685777 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
91685798 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
91685820 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
91685836 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:91685850 original size:26 final size:24
Alignment explanation
Indices: 91685806--91685855 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
91685796 ATTTGTTTTA
*
91685806 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
91685830 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
91685856 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:91688293 original size:17 final size:18
Alignment explanation
Indices: 91688261--91688294 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91688251 TTTTATTTGT
*
91688261 GATTTTTCTTTTAATTTA
1 GATTTTTCTTTAAATTTA
91688279 GATTTTT-TTTAAATTT
1 GATTTTTCTTTAAATTT
91688295 TTAAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
GATTTTTCTTTAAATTTA
Found at i:91690228 original size:52 final size:51
Alignment explanation
Indices: 91690159--91690276 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 51
91690149 ATGTTCAAAT
* * *
91690159 GAGTTAC-TAATGCATGACTTCATTGAAAGATGCAAACTTTAACTAACAT-AG
1 GAGTTACATAATGCATGACATAATT-AAAGATCCAAAC-TTAACTAACATGAG
* ** *
91690210 GAGTTACATAATGCATGACATAATTTATTATCCAATCTTAACTAACATGAG
1 GAGTTACATAATGCATGACATAATTAAAGATCCAAACTTAACTAACATGAG
91690261 G-GTTACATAATGCATG
1 GAGTTACATAATGCATG
91690277 CTTAACTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 26 0.45
51 17 0.29
52 15 0.26
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (51 bp):
GAGTTACATAATGCATGACATAATTAAAGATCCAAACTTAACTAACATGAG
Found at i:91690281 original size:31 final size:31
Alignment explanation
Indices: 91690246--91690305 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
91690236 ATTATCCAAT
** *
91690246 CTTAACTAACATGAGGGTTACATAATGCATG
1 CTTAACTAACATGAAAGATACATAATGCATG
91690277 CTTAACTAACATGAAAGATACATAATGCA
1 CTTAACTAACATGAAAGATACATAATGCA
91690306 CGACTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (31 bp):
CTTAACTAACATGAAAGATACATAATGCATG
Found at i:91690562 original size:20 final size:19
Alignment explanation
Indices: 91690537--91690593 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
91690527 GGGGTTCAGA
91690537 GTTTGGG-TTCATGATTATAG
1 GTTTGGGTTTCA-GATTA-AG
*
91690557 GTTTGGTGTTTGAGATTAAG
1 GTTTGG-GTTTCAGATTAAG
*
91690577 GTTTGGGGTTTGAGATT
1 GTTT-GGGTTTCAGATT
91690594 TAGGATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 22 0.67
21 8 0.24
22 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.46
Consensus pattern (19 bp):
GTTTGGGTTTCAGATTAAG
Found at i:91691239 original size:33 final size:33
Alignment explanation
Indices: 91691202--91691265 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
91691192 GTGGTTCAAG
*
91691202 GTTTGG-GTTCAAAATTTAAGATTTAAGGTTCGA
1 GTTTGGAGTTCAAAATTCAAG-TTTAAGGTTCGA
* *
91691235 GTTTGGAGTTCAAAGTTCAAGTTTAGGGTTC
1 GTTTGGAGTTCAAAATTCAAGTTTAAGGTTC
91691266 AACGGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.39
Consensus pattern (33 bp):
GTTTGGAGTTCAAAATTCAAGTTTAAGGTTCGA
Found at i:91691257 original size:20 final size:20
Alignment explanation
Indices: 91691229--91691267 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
91691219 AAGATTTAAG
*
91691229 GTTCGAGTTT-GGAGTTCAAA
1 GTTCAAGTTTAGG-GTTCAAA
91691249 GTTCAAGTTTAGGGTTCAA
1 GTTCAAGTTTAGGGTTCAA
91691268 CGGTTTAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (20 bp):
GTTCAAGTTTAGGGTTCAAA
Found at i:91691353 original size:42 final size:42
Alignment explanation
Indices: 91691306--91691390 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
91691296 AGGTTCAGAG
91691306 TTTGGGTTCATGGTTACGAGTTTGGTATTTGATATTTGAGTT
1 TTTGGGTTCATGGTTACGAGTTTGGTATTTGATATTTGAGTT
91691348 TTTGGGTTCATGGTTACGAGTTTGGTATTTGATATTTGAGTT
1 TTTGGGTTCATGGTTACGAGTTTGGTATTTGATATTTGAGTT
91691390 T
1 T
91691391 AGGATTTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (42 bp):
TTTGGGTTCATGGTTACGAGTTTGGTATTTGATATTTGAGTT
Found at i:91693985 original size:20 final size:20
Alignment explanation
Indices: 91693960--91694009 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
91693950 TTTTTGTGAG
*
91693960 ATTTTTGG-CTCTTCAAAAAT
1 ATTTTTGGCCT-TTCAAAAAC
* *
91693980 ATTTTTGACCTTTTAAAAAC
1 ATTTTTGGCCTTTCAAAAAC
91694000 ATTTTTGGCC
1 ATTTTTGGCC
91694010 AAAGAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTTTTGGCCTTTCAAAAAC
Found at i:91700746 original size:15 final size:15
Alignment explanation
Indices: 91700726--91700754 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91700716 TCACAAAGAT
91700726 AACTTAAAAATAGGC
1 AACTTAAAAATAGGC
91700741 AACTTAAAAATAGG
1 AACTTAAAAATAGG
91700755 TGGGATGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (15 bp):
AACTTAAAAATAGGC
Found at i:91706577 original size:24 final size:24
Alignment explanation
Indices: 91706545--91706592 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
91706535 CACTCCATAG
*
91706545 TTGTCACACTCTGTTCTATCACCT
1 TTGTCACACTCTGCTCTATCACCT
91706569 TTGTCACACTCTGCTCTATCACCT
1 TTGTCACACTCTGCTCTATCACCT
91706593 GCCTTACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.35, G:0.08, T:0.40
Consensus pattern (24 bp):
TTGTCACACTCTGCTCTATCACCT
Found at i:91708237 original size:21 final size:21
Alignment explanation
Indices: 91708211--91708251 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91708201 TAATGGGACC
91708211 GCTAATGTGGCAAGTTAACTA
1 GCTAATGTGGCAAGTTAACTA
**
91708232 GCTAATGTGGCCGGTTAACT
1 GCTAATGTGGCAAGTTAACT
91708252 TGCCATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTAATGTGGCAAGTTAACTA
Found at i:91711271 original size:39 final size:39
Alignment explanation
Indices: 91711220--91711414 Score: 277
Period size: 39 Copynumber: 5.0 Consensus size: 39
91711210 TGAGGTCCGC
91711220 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
91711258 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * * *
91711297 AGGCATTTGTGTTAGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
91711336 AGGCATTTATGCTGGTATTATATTCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
91711376 AGGC-TTTATGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGGC-T-AAGTCCCG
91711415 CATGCTTTCT
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
38 4 0.03
39 117 0.82
40 22 0.15
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:91711570 original size:18 final size:18
Alignment explanation
Indices: 91711547--91711582 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
91711537 AAGTTGGTCA
91711547 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
91711565 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
91711583 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:91713483 original size:15 final size:15
Alignment explanation
Indices: 91713473--91713502 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91713463 TGTCTGGTTT
91713473 TGATGTGTCTGATAG
1 TGATGTGTCTGATAG
*
91713488 TGATGTGTCTAATAG
1 TGATGTGTCTGATAG
91713503 GATTAGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (15 bp):
TGATGTGTCTGATAG
Found at i:91714526 original size:32 final size:32
Alignment explanation
Indices: 91714490--91714553 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
91714480 TTGATTCTTG
*
91714490 AATATTCTAGGAGCTTCTCAATTGCATGAATT
1 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
91714522 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
1 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
91714554 TGAAACTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (32 bp):
AATATTCTAGGAGCTTCTCAAGTGCATGAATT
Found at i:91718435 original size:20 final size:20
Alignment explanation
Indices: 91718386--91718436 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
91718376 CTTAGAGCAA
*
91718386 ATTTGACTTGTTTGAAAATC
1 ATTTGACTTGGTTGAAAATC
*
91718406 ATTTTAACTTGGTT-AAAATC
1 A-TTTGACTTGGTTGAAAATC
91718426 ATTTGCACTTG
1 ATTTG-ACTTG
91718437 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTTGACTTGGTTGAAAATC
Found at i:91728061 original size:21 final size:21
Alignment explanation
Indices: 91728031--91728088 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
91728021 AACGATGTAG
*
91728031 TTTTGCATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
91728052 TTTTGAATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
91728073 TTTTGAATTTTAACTT
1 TTTTGAATTTTAACTT
91728089 TTAAAAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTGAATTTTAACTTAATTA
Found at i:91728207 original size:31 final size:31
Alignment explanation
Indices: 91728172--91728230 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
91728162 GTGTAATTCA
91728172 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
91728203 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
91728231 AACTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:91728836 original size:21 final size:21
Alignment explanation
Indices: 91728807--91728875 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
91728797 TGGTTGTTCA
* *
91728807 AACTTAGCAACAGGCTACCCC
1 AACTCAGCAACAGACTACCCC
* * *
91728828 AACTCAGCAAGAGACTGCCCT
1 AACTCAGCAACAGACTACCCC
* * * *
91728849 AACTCATCAACAAACTGCCTC
1 AACTCAGCAACAGACTACCCC
91728870 AACTCA
1 AACTCA
91728876 CCAATAAGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (21 bp):
AACTCAGCAACAGACTACCCC
Found at i:91730421 original size:46 final size:47
Alignment explanation
Indices: 91730337--91730499 Score: 194
Period size: 46 Copynumber: 3.5 Consensus size: 47
91730327 TGATACCATG
* * *
91730337 TCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
* *
91730382 TCCCAAACAT-GTCTTACACTGGCTTACATCTCGAAGCCGATACATA
1 TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
* *
91730428 TCCCAGACAT-GTCTTACACTAGCTCT-CATCTC-AATGTCGATGCCATA
1 TCCCAGACATGGTCTTACACTGGCT-TACATCTCGAA-GCCGATG-CATA
91730475 TCCCAGACATGGTCTTACACTGGCT
1 TCCCAGACATGGTCTTACACTGGCT
91730500 CCCATAATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
44 12 0.12
45 11 0.11
46 51 0.50
47 15 0.15
48 13 0.13
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
Found at i:91730517 original size:48 final size:47
Alignment explanation
Indices: 91730332--91730517 Score: 122
Period size: 46 Copynumber: 4.0 Consensus size: 47
91730322 CGTTCTGATA
* * *
91730332 CCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCCGATG
1 CCATATCCCAGACATGGTCTTACACTGGCTCACATAAT-GT-GCCGATG
* * * * *
91730378 -CATGTCCCAAACAT-GTCTTACACTGGCTTACAT-CTCGAAGCCGAT-
1 CCATATCCCAGACATGGTCTTACACTGGCTCACATAAT-G-TGCCGATG
* * *
91730423 ACATATCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGT--CGATG
1 CCATATCCCAGACATGGTCTTACACTGGCTCACA--T-AATGTGCCGATG
*
91730470 CCATATCCCAGACATGGTCTTACACTGGCTCCCATAATGTGGCCGATG
1 CCATATCCCAGACATGGTCTTACACTGGCTCACATAATGT-GCCGATG
91730518 GATGTCCGAG
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
44 10 0.09
45 19 0.17
46 46 0.41
47 14 0.12
48 22 0.19
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
CCATATCCCAGACATGGTCTTACACTGGCTCACATAATGTGCCGATG
Found at i:91732509 original size:21 final size:21
Alignment explanation
Indices: 91732479--91732536 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
91732469 AACGATGTAG
*
91732479 TTTTGCATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
91732500 TTTTGAATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
91732521 TTTTGAATTTTAACTT
1 TTTTGAATTTTAACTT
91732537 TTAAAAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTGAATTTTAACTTAATTA
Found at i:91732655 original size:31 final size:31
Alignment explanation
Indices: 91732620--91732678 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
91732610 GTGTAATTCA
91732620 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
91732651 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
91732679 AACTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:91733284 original size:21 final size:21
Alignment explanation
Indices: 91733255--91733323 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
91733245 TGGTTGTTCA
* *
91733255 AACTTAGCAACAGGCTACCCC
1 AACTCAGCAACAGACTACCCC
* * *
91733276 AACTCAGCAAGAGACTGCCCT
1 AACTCAGCAACAGACTACCCC
* * * *
91733297 AACTCATCAACAAACTGCCTC
1 AACTCAGCAACAGACTACCCC
91733318 AACTCA
1 AACTCA
91733324 CCAATAAGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (21 bp):
AACTCAGCAACAGACTACCCC
Found at i:91734869 original size:46 final size:46
Alignment explanation
Indices: 91734781--91734987 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 46
91734771 GTTCTGATAC
* *
91734781 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAAGCCGATG
* *
91734826 CATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAAGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
* * *
91734872 CATATCCCAGACATGTCTTACACTAGCTCT-CATCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCCGATG
* ** * **
91734918 CCATATCCCAGACATGGTCTTACACTGGCTCCCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGAAGCCGATG
*
91734966 CATGTCCTAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
91734988 TTAGCACACA
Statistics
Matches: 136, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 59 0.43
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
Found at i:91744689 original size:49 final size:50
Alignment explanation
Indices: 91744617--91744790 Score: 171
Period size: 48 Copynumber: 3.5 Consensus size: 50
91744607 TAATGCTGAT
*
91744617 GCCATGTCCCAGACATGGTCTTACA-TTGACTATCA-AAATCGAG-GCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTATCACAAATC-AGTGCCGAC
* * * *
91744666 GCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATCAGTGCCGAC
* * **** *
91744716 GCCATGCCCCAGACATGGTCTTACACTGGC-A-CTTTTAT-ACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATCA-GTGCCGAC
91744764 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
91744791 GACACATCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.01
48 38 0.35
49 31 0.29
50 38 0.35
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATCAGTGCCGAC
Found at i:91744731 original size:50 final size:49
Alignment explanation
Indices: 91744614--91744841 Score: 206
Period size: 50 Copynumber: 4.8 Consensus size: 49
91744604 GTATAATGCT
* * *
91744614 GATGCCATGTCCCAGACATGGTCTTACA-TTGACTATCAAAATCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCAATATC-AGTGCC
* *
91744663 GACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-ATATCAGTGCC
* * * **
91744713 GATGCCATGCCCCAGACATGGTCTTACACTGGCACT-TTTAT-ACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCA-GTGCC
* * *
91744761 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACAC-ATCTC-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCAGT-GCC
* *
91744807 AATG-CATGTCCCAGACAT-CTCTTACACTAGCTCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
91744842 GTTTCAATGC
Statistics
Matches: 150, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.06
45 17 0.11
46 12 0.08
47 2 0.01
48 37 0.25
49 33 0.22
50 40 0.27
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAATATCAGTGCC
Found at i:91745270 original size:48 final size:48
Alignment explanation
Indices: 91745109--91745427 Score: 259
Period size: 48 Copynumber: 6.7 Consensus size: 48
91745099 GTATAATGCT
* * *
91745109 GATGCCATGTCCCAGACATGGTCTTACA-TTG-AC-TATCAAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTAT--ATA-CG-TGCC
* * * * *
91745158 GACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATATA-C-GTGCC
* * *
91745208 GATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTTATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATATACGTGCC
*
91745256 GATGCCATGTCCCAGACATGGTCTTACACT-GACAC--ATCT-CGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACTTATATACGT-GCC
* * * ** * *
91745302 AATG-CATGTCCCAGACAT-CTCTTACACTAGCTCTCGT-TTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATATAC-GTGCC
* * *
91745348 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATATACGT-GCC
91745396 GATG-CATGTCCCAGACAT-GTCTTACACTAGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCA
91745428 TACAATAACC
Statistics
Matches: 224, Mismatches: 31, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.05
45 19 0.08
46 29 0.13
47 31 0.14
48 61 0.27
49 27 0.12
50 43 0.19
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATATACGTGCC
Found at i:91745292 original size:495 final size:495
Alignment explanation
Indices: 91744362--91745351 Score: 1980
Period size: 495 Copynumber: 2.0 Consensus size: 495
91744352 GCAAATAAAT
91744362 ATAACAACAACTTTACCATTCATCATCATGTTCATAATACAAAAGTAGGCATAAGTTCAACTTAC
1 ATAACAACAACTTTACCATTCATCATCATGTTCATAATACAAAAGTAGGCATAAGTTCAACTTAC
91744427 TCATCACTATCCATTACAATTCACATAGCATATATTGAGCTCACATCTCATTCATTTCAAATGGG
66 TCATCACTATCCATTACAATTCACATAGCATATATTGAGCTCACATCTCATTCATTTCAAATGGG
91744492 TACCTGTACCACTCACAACATGGCTATACTTTTCTCGTTTAACTCAAACTGTAACTCTCACCATT
131 TACCTGTACCACTCACAACATGGCTATACTTTTCTCGTTTAACTCAAACTGTAACTCTCACCATT
91744557 GAATCATTTGGAATACTATTGAATATTCACTAAGCTTCAAACATAGGGTATAATGCTGATGCCAT
196 GAATCATTTGGAATACTATTGAATATTCACTAAGCTTCAAACATAGGGTATAATGCTGATGCCAT
91744622 GTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGATCT
261 GTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGATCT
91744687 TACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTT
326 TACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTT
91744752 ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTC
391 ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTC
91744817 CCAGACATCTCTTACACTAGCTCTCGTTTCAATGCCGATG
456 CCAGACATCTCTTACACTAGCTCTCGTTTCAATGCCGATG
91744857 ATAACAACAACTTTACCATTCATCATCATGTTCATAATACAAAAGTAGGCATAAGTTCAACTTAC
1 ATAACAACAACTTTACCATTCATCATCATGTTCATAATACAAAAGTAGGCATAAGTTCAACTTAC
91744922 TCATCACTATCCATTACAATTCACATAGCATATATTGAGCTCACATCTCATTCATTTCAAATGGG
66 TCATCACTATCCATTACAATTCACATAGCATATATTGAGCTCACATCTCATTCATTTCAAATGGG
91744987 TACCTGTACCACTCACAACATGGCTATACTTTTCTCGTTTAACTCAAACTGTAACTCTCACCATT
131 TACCTGTACCACTCACAACATGGCTATACTTTTCTCGTTTAACTCAAACTGTAACTCTCACCATT
91745052 GAATCATTTGGAATACTATTGAATATTCACTAAGCTTCAAACATAGGGTATAATGCTGATGCCAT
196 GAATCATTTGGAATACTATTGAATATTCACTAAGCTTCAAACATAGGGTATAATGCTGATGCCAT
91745117 GTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGATCT
261 GTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGATCT
91745182 TACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTT
326 TACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTT
91745247 ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTC
391 ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTC
91745312 CCAGACATCTCTTACACTAGCTCTCGTTTCAATGCCGATG
456 CCAGACATCTCTTACACTAGCTCTCGTTTCAATGCCGATG
91745352 CCATGTCCCA
Statistics
Matches: 495, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
495 495 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (495 bp):
ATAACAACAACTTTACCATTCATCATCATGTTCATAATACAAAAGTAGGCATAAGTTCAACTTAC
TCATCACTATCCATTACAATTCACATAGCATATATTGAGCTCACATCTCATTCATTTCAAATGGG
TACCTGTACCACTCACAACATGGCTATACTTTTCTCGTTTAACTCAAACTGTAACTCTCACCATT
GAATCATTTGGAATACTATTGAATATTCACTAAGCTTCAAACATAGGGTATAATGCTGATGCCAT
GTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGATCT
TACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTTTT
ATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTC
CCAGACATCTCTTACACTAGCTCTCGTTTCAATGCCGATG
Found at i:91745360 original size:92 final size:94
Alignment explanation
Indices: 91745155--91745426 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 94
91745145 CAAAATCGAG
* * * * *
91745155 GCCGACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACAT-ATCAGT-GCCGATGCCATGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CACACATAAT--GTAGCCAATG-CATGT
* * *
91745218 CCCAGACATGGTCTTACACTGGCACT--TTT-ATACGT
61 CCCAGACAT-CTCTTACACTAGCTCTCGTTTCA-A--T
*
91745253 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCCAATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAAT-GTAGCCAATGCATGTCCCA
91745315 GACATCTCTTACACTAGCTCTCGTTTCAAT
65 GACATCTCTTACACTAGCTCTCGTTTCAAT
* * *
91745345 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATGTAGCCAATGCATGTCCCAG
*
91745410 ACATGTCTTACACTAGC
66 ACATCTCTTACACTAGC
91745427 ATACAATAAC
Statistics
Matches: 152, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
92 47 0.31
93 16 0.11
94 55 0.36
95 2 0.01
97 1 0.01
98 31 0.20
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATGTAGCCAATGCATGTCCCAG
ACATCTCTTACACTAGCTCTCGTTTCAAT
Found at i:91745372 original size:140 final size:146
Alignment explanation
Indices: 91745109--91745423 Score: 398
Period size: 140 Copynumber: 2.2 Consensus size: 146
91745099 GTATAATGCT
* *
91745109 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCAACGCCATGTCCCAGA
* *
91745174 CATGATCTTACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTG
66 CATGATCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTA
**
91745239 GCACTTTTATACGT-GCC
130 GCACTCATA-ACGTAGCC
** *
91745256 GATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCAATG-CATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG-AGGCCAACGCCATGTCCCAG
* * * *
91745316 ACAT-CTCTTACACTAGCTCT-CGTTTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
65 ACATGATCTTACACTAGCTCTACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTA
* *
91745379 GCTCTCATAATGTAGCC
130 GCACTCATAACGTAGCC
91745396 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
91745424 AGCATACAAT
Statistics
Matches: 151, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
138 10 0.07
139 17 0.11
140 51 0.34
142 15 0.10
143 14 0.09
144 9 0.06
145 2 0.01
146 1 0.01
147 32 0.21
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (146 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCAACGCCATGTCCCAGA
CATGATCTTACACTAGCTCTACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTAG
CACTCATAACGTAGCC
Found at i:91759886 original size:20 final size:20
Alignment explanation
Indices: 91759861--91759902 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
91759851 TTATTATAAA
91759861 TTTTCTATAATTTATATTTT
1 TTTTCTATAATTTATATTTT
** *
91759881 TTTTCTATTTTTTGTATTTT
1 TTTTCTATAATTTATATTTT
91759901 TT
1 TT
91759903 AAATGTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTATAATTTATATTTT
Found at i:91768949 original size:125 final size:125
Alignment explanation
Indices: 91768557--91768950 Score: 578
Period size: 126 Copynumber: 3.1 Consensus size: 125
91768547 GGGTTTATGA
*
91768557 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTT-TACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * * * * *
91768622 ACGCTTCAAGCAGAATGCAATGTCAGTAAAATTTCTTAAAAAAGCTCCCACGTGAATGTTC
65 ACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
* *
91768683 TTTTCCTT-TAGTAGTTCTTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAA
1 TTTT--TTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAA
* *
91768747 AACGCTTCAAGCAGGATGCAATATCAGCAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
* *
91768809 TGTTTTTACAATAGTTCCTG-AAAAATAATTTTGAGAAGACGTTTCTGAATC-AATAGTGTCAAA
1 T-TTTTTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAA-CAAATAGTGTCAAA
91768872 AACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
*
91768934 TTTTTGGACAGTAGTTC
1 TTTTT-TACAGTAGTTC
91768951 ATGCTTGGCC
Statistics
Matches: 245, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
124 4 0.02
125 112 0.46
126 124 0.51
127 4 0.02
128 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTTTTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
Found at i:91772482 original size:18 final size:18
Alignment explanation
Indices: 91772456--91772498 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
91772446 GATTGGGAAA
* * *
91772456 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
91772474 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
91772492 AGGATAC
1 AGGATAC
91772499 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:91772590 original size:30 final size:30
Alignment explanation
Indices: 91772551--91772611 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
91772541 GTTGAGGCGT
*
91772551 TGGGTCCGGTAATTGTGTGGGCACTATTAA
1 TGGGCCCGGTAATTGTGTGGGCACTATTAA
* * *
91772581 TGGGCCCGGTGATTGTGTGGGCGCTGTTAA
1 TGGGCCCGGTAATTGTGTGGGCACTATTAA
91772611 T
1 T
91772612 AGGTTTGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.33
Consensus pattern (30 bp):
TGGGCCCGGTAATTGTGTGGGCACTATTAA
Found at i:91773104 original size:7 final size:7
Alignment explanation
Indices: 91773091--91773136 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
91773081 CATAATACAT
91773091 AATACTA
1 AATACTA
*
91773098 AACACTA
1 AATACTA
91773105 AATACTA
1 AATACTA
91773112 AATACTA
1 AATACTA
91773119 AATACTA
1 AATACTA
91773126 AATACTA
1 AATACTA
91773133 AATA
1 AATA
91773137 TGAAACGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:91773901 original size:21 final size:21
Alignment explanation
Indices: 91773868--91773917 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
91773858 TAAAAAGAGC
* *
91773868 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
* *
91773889 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
*
91773910 TTTTAGAG
1 TTTGAGAG
91773918 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (21 bp):
TTTGAGAGATTTAAGGAGAAA
Found at i:91776465 original size:28 final size:28
Alignment explanation
Indices: 91776397--91776830 Score: 728
Period size: 28 Copynumber: 15.5 Consensus size: 28
91776387 CATGAGATTG
* * *
91776397 GCACTAAGTGTGCGGGTTTAAAT-TGCTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
91776426 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
91776454 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
91776482 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
91776510 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
91776538 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776566 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776594 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776622 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776650 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776678 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776706 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776734 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
91776762 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776790 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
91776817 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
91776831 GACTTAATAT
Statistics
Matches: 397, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.06
28 351 0.88
29 21 0.05
30 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:91785104 original size:27 final size:28
Alignment explanation
Indices: 91785020--91785117 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
91785010 CATGAGATTG
* * * *
91785020 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
91785049 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
91785077 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
91785104 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
91785118 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:91785128 original size:27 final size:27
Alignment explanation
Indices: 91785048--91785130 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
91785038 TAAATTGTAC
* *
91785048 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
91785076 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
91785103 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
91785130 A
1 A
91785131 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:91787545 original size:34 final size:34
Alignment explanation
Indices: 91787507--91787572 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
91787497 AACAAAATCT
*
91787507 TTTCTATTCAACTTTCCAATAACCTAACATCTCA
1 TTTCTATTCAACTTTCCAATAACATAACATCTCA
* *
91787541 TTTCTATTCAATTTTCCAATAACATGACATCT
1 TTTCTATTCAACTTTCCAATAACATAACATCT
91787573 TAATGGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.41
Consensus pattern (34 bp):
TTTCTATTCAACTTTCCAATAACATAACATCTCA
Found at i:91789865 original size:22 final size:20
Alignment explanation
Indices: 91789840--91789880 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
91789830 TAAATGAAAT
91789840 AAAAGAAACAAAAGCATAAAAC
1 AAAAGAAAC-AAAGC-TAAAAC
91789862 AAAAGAAACAAAGCTAAAA
1 AAAAGAAACAAAGCTAAAA
91789881 AGAATCGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAGAAACAAAGCTAAAAC
Found at i:91790666 original size:12 final size:12
Alignment explanation
Indices: 91790641--91790677 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
91790631 TTTGTGATCA
91790641 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
91790653 AAAGTGAAATTG
1 AAATTGAAAGTG
91790665 AAATTGAAAGTG
1 AAATTGAAAGTG
91790677 A
1 A
91790678 TATGAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:91790690 original size:18 final size:18
Alignment explanation
Indices: 91790641--91790677 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
91790631 TTTGTGATCA
*
91790641 AAATTGAAAGTGAAAGTG
1 AAATTGAAATTGAAAGTG
91790659 AAATTGAAATTGAAAGTG
1 AAATTGAAATTGAAAGTG
91790677 A
1 A
91790678 TATGAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAATTGAAAGTG
Found at i:91801625 original size:6 final size:6
Alignment explanation
Indices: 91801614--91801642 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
91801604 GTTGAGATTT
91801614 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
91801643 GATAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:91805832 original size:19 final size:19
Alignment explanation
Indices: 91805808--91805847 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
91805798 AGAAATTGAG
91805808 ATAAAAAAAAGGGAAAATA
1 ATAAAAAAAAGGGAAAATA
* *
91805827 ATAAAATAATGGGAAAATA
1 ATAAAAAAAAGGGAAAATA
91805846 AT
1 AT
91805848 TTAAAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (19 bp):
ATAAAAAAAAGGGAAAATA
Found at i:91806465 original size:15 final size:14
Alignment explanation
Indices: 91806449--91806499 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
91806439 GCAGCTAGAT
91806449 TTTAAGTTTTAAAA
1 TTTAAGTTTTAAAA
*
91806463 TTTAA-TTATTTAAA
1 TTTAAGTT-TTAAAA
*
91806477 TTAATAGTTTTAAAA
1 TTTA-AGTTTTAAAA
91806492 TTTTAAGT
1 -TTTAAGT
91806500 ATTGTATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.07
14 13 0.45
15 9 0.31
16 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTAAGTTTTAAAA
Found at i:91808281 original size:21 final size:21
Alignment explanation
Indices: 91808238--91808277 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
91808228 TATTTGATTT
91808238 TTTTTGAAATTATAAAAAATA
1 TTTTTGAAATTATAAAAAATA
*
91808259 TTTTT-AAATTTTAAAAAAT
1 TTTTTGAAATTATAAAAAAT
91808278 TATTAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTTGAAATTATAAAAAATA
Found at i:91810189 original size:19 final size:20
Alignment explanation
Indices: 91810143--91810194 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
91810133 TGTAAATTTT
*
91810143 ATTTTTATA-ATTTTTTATA
1 ATTTTTATATATTTTTAATA
*
91810162 ATTTATATATATTTTTAAT-
1 ATTTTTATATATTTTTAATA
*
91810181 TTTTTTATATATTT
1 ATTTTTATATATTT
91810195 ACTTCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATATATTTTTAATA
Found at i:91810203 original size:29 final size:29
Alignment explanation
Indices: 91810142--91810214 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
91810132 TTGTAAATTT
*
91810142 TATTTTTATAATTTTTTATAATTTATATA
1 TATTTTTATATTTTTTTATAATTTATATA
*
91810171 TATTTTTA-ATTTTTTTATATATTTACT-TC
1 TATTTTTATATTTTTTTATA-ATTTA-TATA
*
91810200 TATTTTCATATTTTT
1 TATTTTTATATTTTT
91810215 AATGTCTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 10 0.26
29 21 0.55
30 7 0.18
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTTTATATTTTTTTATAATTTATATA
Found at i:91813496 original size:43 final size:43
Alignment explanation
Indices: 91813449--91813533 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
91813439 TTTATTTGAA
91813449 AAAAATGCCAC-AAAAGATCACGAATTTTAGCGGCGTTTGTGGG
1 AAAAATGCCACTAAAAG-TCACGAATTTTAGCGGCGTTTGTGGG
* * **
91813492 AAAAATGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGG
1 AAAAATGCCACTAAAAGTCACGAATTTTAGCGGCGTTTGTGG
91813534 AGGAAGCGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 32 0.86
44 5 0.14
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (43 bp):
AAAAATGCCACTAAAAGTCACGAATTTTAGCGGCGTTTGTGGG
Found at i:91813545 original size:43 final size:42
Alignment explanation
Indices: 91813473--91813610 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 42
91813463 AGATCACGAA
* **
91813473 TTTTAGCGGCGTTTGTGGGAAAAATGCCGCTAAAAGTCATGGC
1 TTTTAGCGGCGTTTGTGGG-GAAGCGCCGCTAAAAGTCATGGC
* *
91813516 TTTTAGCGGCGTTTGTGGAGGAAGCGCCGCTACAAGTGATGGC
1 TTTTAGCGGCGTTTGTGG-GGAAGCGCCGCTAAAAGTCATGGC
* ** * *
91813559 TTTTAGCAGCGTTTGTGGGGGAAGCATCGCTAAAAGTTATGAC
1 TTTTAGCGGCGTTTGT-GGGGAAGCGCCGCTAAAAGTCATGGC
91813602 TTTTAGCGG
1 TTTTAGCGG
91813611 AGCTTTTGTC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (42 bp):
TTTTAGCGGCGTTTGTGGGGAAGCGCCGCTAAAAGTCATGGC
Found at i:91814474 original size:13 final size:14
Alignment explanation
Indices: 91814448--91814476 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
91814438 ATTAATGACG
91814448 AATTAAACCATTAT
1 AATTAAACCATTAT
91814462 AATTAAA-CATTAT
1 AATTAAACCATTAT
91814475 AA
1 AA
91814477 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:91818765 original size:26 final size:26
Alignment explanation
Indices: 91818736--91818790 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
91818726 GATCACGTGT
*
91818736 GTAGTACTAAGTGTAGGCTACTATGC
1 GTAGTACTAAGTGCAGGCTACTATGC
91818762 GTAGTACTAAGTGCAGGCTACTATGC
1 GTAGTACTAAGTGCAGGCTACTATGC
91818788 GTA
1 GTA
91818791 CCCGATAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
GTAGTACTAAGTGCAGGCTACTATGC
Found at i:91818781 original size:77 final size:77
Alignment explanation
Indices: 91818654--91818835 Score: 280
Period size: 77 Copynumber: 2.4 Consensus size: 77
91818644 TATTGTGAGG
* * *
91818654 TCACGTGTGTTGTACTAAGTGCAGG--GC-ATGTGTAGTACTAAGTGCAGGCTACTATACGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAGTACTAAGTGCAGGCTACTATACGTACC
91818716 CGATAACTTCGA
66 CGATAACTTCGA
* *
91818728 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAGTACTAAGTGCAGGCTACTATACGTACC
91818793 CGATAACTTCGA
66 CGATAACTTCGA
* *
91818805 TCATGTATGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
91818836 CGTGTATCAG
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
74 23 0.24
76 1 0.01
77 73 0.75
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (77 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAGTACTAAGTGCAGGCTACTATACGTACC
CGATAACTTCGA
Found at i:91818933 original size:49 final size:50
Alignment explanation
Indices: 91818762--91818934 Score: 145
Period size: 50 Copynumber: 3.5 Consensus size: 50
91818752 GCTACTATGC
* * * * * * * ** *
91818762 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTAT
1 GTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAA-TTAGGTCACATGT
* ** *
91818813 GTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGT
1 GTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATTAGGTCACATGT
* *
91818863 GTAGTACTAAGTGC-AGACTACTACGTGTA-CTGGATAATT-GGTCGCATGT
1 GTAGTACTAAGTGCAAG-CTACTACGTGTATC-AGATAATTAGGTCACATGT
*
91818912 GTAGTAGTAAGTGCAAGCTACTA
1 GTAGTACTAAGTGCAAGCTACTA
91818935 TGCATACCAG
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
49 29 0.28
50 42 0.41
51 31 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
GTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATTAGGTCACATGT
Found at i:91821830 original size:9 final size:9
Alignment explanation
Indices: 91821812--91821952 Score: 87
Period size: 9 Copynumber: 15.6 Consensus size: 9
91821802 TATTTATGTA
91821812 TTATGTAAG
1 TTATGTAAG
*
91821821 TTAAGTAAG
1 TTATGTAAG
*
91821830 TTTTGTAAG
1 TTATGTAAG
91821839 TTATGTAAG
1 TTATGTAAG
*
91821848 TTATGCAAG
1 TTATGTAAG
91821857 TTAT-TATA-
1 TTATGTA-AG
* * *
91821865 TGATATATAT
1 TTATGTA-AG
91821875 TTATGTATTATG
1 TTATGTA--A-G
91821887 TTATGTAAG
1 TTATGTAAG
*
91821896 TTACGTAAG
1 TTATGTAAG
91821905 TTAT-TATA-
1 TTATGTA-AG
* * *
91821913 TGATATATAT
1 TTATGTA-AG
91821923 TTATGT-A-
1 TTATGTAAG
91821930 TTATGTAAG
1 TTATGTAAG
91821939 TTATGTAAG
1 TTATGTAAG
91821948 TTATG
1 TTATG
91821953 ATATCATGTA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.06
8 11 0.10
9 71 0.66
10 10 0.09
11 2 0.02
12 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:91821887 original size:43 final size:45
Alignment explanation
Indices: 91821837--91821956 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 45
91821827 AAGTTTTGTA
*
91821837 AGTTATGTAAGTTATGCAAGTTATTATATGATATATATTTATGTATT
1 AGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATG--TT
*
91821884 ATGTTATGTAAGTTACGTAAGTTATTATATGATATATATTTATG-T
1 A-GTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTT
*
91821929 A-TTATGTAAGTTATGTAAGTTATGATAT
1 AGTTATGTAAGTTATGTAAGTTATTATAT
91821957 CATGTATTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 25 0.37
45 2 0.03
47 1 0.01
48 40 0.59
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (45 bp):
AGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTT
Found at i:91821890 original size:48 final size:48
Alignment explanation
Indices: 91821838--91821935 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
91821828 AGTTTTGTAA
*
91821838 GTTATGTAAGTTATGCAAGTTATTATATGATATATATTTATGTATTAT
1 GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
*
91821886 GTTATGTAAGTTACGTAAGTTATTATATGATATATATTTATGTATTAT
1 GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
91821934 GT
1 GT
91821936 AAGTTATGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (48 bp):
GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
Found at i:91824459 original size:74 final size:74
Alignment explanation
Indices: 91824215--91824443 Score: 271
Period size: 74 Copynumber: 3.1 Consensus size: 74
91824205 CGTAAACAAC
* * * ** *
91824215 TAATACACATCTGCGGCGTTTTTGTTGAAAACGCCGGTAAAAACAATGATAAAAACGACGACGCT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
91824280 TTGCTCTCT
66 TTGCTCTCT
* * * *
91824289 TAATACATATTTGCGACGTTTATGTCGAAAACGCCACTAAAAACAATGAAAAAAACGACGTCGTT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
* *
91824354 TTTCTCTCA
66 TTGCTCTCT
* * * * * *
91824363 CAATACATATTTGCAGCGTTTTTGTCGAAAATGCCACTAAAAAAAAGGATAAAAATG-CGGACGT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGAC-GACGT
*
91824427 TTTGCACTCT
65 TTTGCTCTCT
91824437 TAATACA
1 TAATACA
91824444 ACTTAGCGGC
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
73 1 0.01
74 127 0.99
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (74 bp):
TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
TTGCTCTCT
Found at i:91824721 original size:115 final size:115
Alignment explanation
Indices: 91824509--91824721 Score: 282
Period size: 115 Copynumber: 1.9 Consensus size: 115
91824499 TGTGGAAAAG
* * *
91824509 CCACTAAAAACAAGGATAAAAAACAACAACGTTTTGTACTCTTAATGCATTTTTGTGGCGTTTTT
1 CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
** * *
91824574 GTTGTGAACGCCGGTAAAGAACAACATTTTGCGGCGTTTCTGAGAAAACA
66 GTTGAAAACACCGGTAAAGAACAACATGTTGCGGCGTTTCTGAGAAAACA
* ** * * *
91824624 CCACTATAAACAAGCATGGAAAACGACGACGTTTTGCACTTTTAATGCATTTTTGCGGCGTTTTT
1 CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
** *
91824689 GTTGAAAACATTGGTAAAGAACAACCTGTTGCG
66 GTTGAAAACACCGGTAAAGAACAACATGTTGCG
91824722 ATGTTTTTGA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
115 82 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (115 bp):
CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
GTTGAAAACACCGGTAAAGAACAACATGTTGCGGCGTTTCTGAGAAAACA
Found at i:91825156 original size:8 final size:7
Alignment explanation
Indices: 91825119--91825293 Score: 70
Period size: 7 Copynumber: 24.4 Consensus size: 7
91825109 CTCTATCCTT
*
91825119 TAAACCC
1 TAAACCA
*
91825126 TAAATCA
1 TAAACCA
*
91825133 T-AATCA
1 TAAACCA
91825139 TAAACCA
1 TAAACCA
91825146 TAAACCCA
1 TAAA-CCA
91825154 T-AACCA
1 TAAACCA
* * *
91825160 CTGACCCC
1 -TAAACCA
91825168 TAAATCC-
1 TAAA-CCA
*
91825175 TAAACCT
1 TAAACCA
*
91825182 TAAACCC
1 TAAACCA
91825189 TAAACCA
1 TAAACCA
*
91825196 TAATCATCA
1 TAA--ACCA
91825205 CTAAACCCA
1 -TAAA-CCA
*
91825214 TAATCCA
1 TAAACCA
*
91825221 AAAACCA
1 TAAACCA
91825228 TAAACCA
1 TAAACCA
* *
91825235 TATACCC
1 TAAACCA
91825242 TAAA-CA
1 TAAACCA
*
91825248 TTAAACCC
1 -TAAACCA
*
91825256 TAAATCA
1 TAAACCA
* *
91825263 TATACCC
1 TAAACCA
*
91825270 TAAACTA
1 TAAACCA
*
91825277 TAAACCC
1 TAAACCA
*
91825284 TAAACTA
1 TAAACCA
91825291 TAA
1 TAA
91825294 TGATAAATAA
Statistics
Matches: 124, Mismatches: 32, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
6 12 0.10
7 90 0.73
8 14 0.11
9 5 0.04
10 3 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:91825245 original size:14 final size:14
Alignment explanation
Indices: 91825119--91825293 Score: 97
Period size: 14 Copynumber: 12.2 Consensus size: 14
91825109 CTCTATCCTT
*
91825119 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* *
91825133 T-AATCATAAACCA
1 TAAACCCTAAACCA
91825146 TAAACCC-ATAACCA
1 TAAACCCTA-AACCA
* *
91825160 CTGACCCCTAAATCC-
1 -TAAACCCTAAA-CCA
* *
91825175 TAAACCTTAAACCC
1 TAAACCCTAAACCA
* *
91825189 TAAACCATAATCATCA
1 TAAACCCTAA--ACCA
*
91825205 CTAAACCCATAATCCA
1 -TAAACCC-TAAACCA
* *
91825221 AAAACCATAAACCA
1 TAAACCCTAAACCA
*
91825235 TATACCCTAAA-CA
1 TAAACCCTAAACCA
*
91825248 TTAAACCCTAAATCA
1 -TAAACCCTAAACCA
* *
91825263 TATACCCTAAACTA
1 TAAACCCTAAACCA
*
91825277 TAAACCCTAAACTA
1 TAAACCCTAAACCA
91825291 TAA
1 TAA
91825294 TGATAAATAA
Statistics
Matches: 122, Mismatches: 27, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
13 15 0.12
14 77 0.63
15 14 0.11
16 7 0.06
17 6 0.05
18 3 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:91825792 original size:40 final size:39
Alignment explanation
Indices: 91825705--91825854 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 39
91825695 TAATTTTTTG
* * * *
91825705 CGGCGTTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAG
1 CGGCG-TTTTT-AAAAAGCGCCGCTAAT-GCTCGATCTATAA
91825747 C-GCGTTTTTAAAAAAGCGCCGCTAATGCTCGATAC-ATAA
1 CGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGAT-CTATAA
* * * * *
91825786 TGGCGTTTTTCTACAAGCGCCACTAATGCTCGATCTATAG
1 CGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGATCTATAA
*
91825826 CGGCATTTTCTAAAAAGCGCCGCTAATGC
1 CGGCGTTTT-TAAAAAGCGCCGCTAATGC
91825855 CACTAAAGTT
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
39 9 0.10
40 74 0.84
41 4 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (39 bp):
CGGCGTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAA
Found at i:91826022 original size:195 final size:195
Alignment explanation
Indices: 91825628--91826029 Score: 490
Period size: 195 Copynumber: 2.1 Consensus size: 195
91825618 AAAAGCGCCT
* * * *
91825628 TAGCGGCGTTTTCCAAAAAGCGCCGCTAGTGCAACTAAAGCTCAACATAAAACGATGGTGTTGTG
1 TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
* *
91825693 CTTAATTTTTTGCGGCGTTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
66 CCTAATTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
* * ** *
91825758 AAAAGCGCCGCTAATGCTCGATACATAATGGCGTTTTTCTACAAGCGCCACTAATGCTCGATCTA
131 AAAAGCGCCACTAATGCTCGATACATAACGGCAATTTTATACAAGCGCCACTAATGCTCGATCTA
* * * *
91825823 TAGCGGCATTTTCTAAAAAGCGCCGCTAATGCCACTAAAGTTCAACATAAAACGACGATATTGTG
1 TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
* * * *
91825888 CCTAATTTTTTTGCGGCATTTTTTGAACAAGCGCTGCTAAT-GGTCGACCTATAGCGGTGTTTTT
66 CCTAA-TTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGC-GCGTTTTT
* * * * * * *
91825952 TAAAATGGGCTACTAATGCTCGAT-C-TAGAGCGGCAATTTTATAGAAGCGTCGCTAATTGC-CG
129 AAAAAAGCGCCACTAATGCTCGATACATA-A-CGGCAATTTTATACAAGCGCCACTAA-TGCTCG
91826014 AT-TA
191 ATCTA
91826018 TAGCGGCGTTTT
1 TAGCGGCGTTTT
91826030 TTGTTCAAAC
Statistics
Matches: 175, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
194 2 0.01
195 90 0.51
196 80 0.46
197 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (195 bp):
TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
CCTAATTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
AAAAGCGCCACTAATGCTCGATACATAACGGCAATTTTATACAAGCGCCACTAATGCTCGATCTA
Found at i:91826545 original size:9 final size:9
Alignment explanation
Indices: 91826527--91826667 Score: 87
Period size: 9 Copynumber: 15.6 Consensus size: 9
91826517 TATTTATGTA
91826527 TTATGTAAG
1 TTATGTAAG
*
91826536 TTAAGTAAG
1 TTATGTAAG
*
91826545 TTTTGTAAG
1 TTATGTAAG
91826554 TTATGTAAG
1 TTATGTAAG
*
91826563 TTATGCAAG
1 TTATGTAAG
91826572 TTAT-TATA-
1 TTATGTA-AG
* * *
91826580 TGATATATAT
1 TTATGTA-AG
91826590 TTATGTATTATG
1 TTATGTA--A-G
91826602 TTATGTAAG
1 TTATGTAAG
*
91826611 TTACGTAAG
1 TTATGTAAG
91826620 TTAT-TATA-
1 TTATGTA-AG
* * *
91826628 TGATATATAT
1 TTATGTA-AG
91826638 TTATGT-A-
1 TTATGTAAG
91826645 TTATGTAAG
1 TTATGTAAG
91826654 TTATGTAAG
1 TTATGTAAG
91826663 TTATG
1 TTATG
91826668 ATATCATGTA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.06
8 11 0.10
9 71 0.66
10 10 0.09
11 2 0.02
12 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:91826602 original size:43 final size:45
Alignment explanation
Indices: 91826552--91826671 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 45
91826542 AAGTTTTGTA
*
91826552 AGTTATGTAAGTTATGCAAGTTATTATATGATATATATTTATGTATT
1 AGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATG--TT
*
91826599 ATGTTATGTAAGTTACGTAAGTTATTATATGATATATATTTATG-T
1 A-GTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTT
*
91826644 A-TTATGTAAGTTATGTAAGTTATGATAT
1 AGTTATGTAAGTTATGTAAGTTATTATAT
91826672 CATGTATTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 25 0.37
45 2 0.03
47 1 0.01
48 40 0.59
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (45 bp):
AGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTT
Found at i:91826605 original size:48 final size:48
Alignment explanation
Indices: 91826553--91826650 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
91826543 AGTTTTGTAA
*
91826553 GTTATGTAAGTTATGCAAGTTATTATATGATATATATTTATGTATTAT
1 GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
*
91826601 GTTATGTAAGTTACGTAAGTTATTATATGATATATATTTATGTATTAT
1 GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
91826649 GT
1 GT
91826651 AAGTTATGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (48 bp):
GTTATGTAAGTTACGCAAGTTATTATATGATATATATTTATGTATTAT
Found at i:91829174 original size:74 final size:74
Alignment explanation
Indices: 91828930--91829158 Score: 271
Period size: 74 Copynumber: 3.1 Consensus size: 74
91828920 CGTAAACAAC
* * * ** *
91828930 TAATACACATCTGCGGCGTTTTTGTTGAAAACGCCGGTAAAAACAATGATAAAAACGACGACGCT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
91828995 TTGCTCTCT
66 TTGCTCTCT
* * * *
91829004 TAATACATATTTGCGACGTTTATGTCGAAAACGCCACTAAAAACAATGAAAAAAACGACGTCGTT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
* *
91829069 TTTCTCTCA
66 TTGCTCTCT
* * * * * *
91829078 CAATACATATTTGCAGCGTTTTTGTCGAAAATGCCACTAAAAAAAAGGATAAAAATG-CGGACGT
1 TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGAC-GACGT
*
91829142 TTTGCACTCT
65 TTTGCTCTCT
91829152 TAATACA
1 TAATACA
91829159 ACTTAGCGGC
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
73 1 0.01
74 127 0.99
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (74 bp):
TAATACATATTTGCGGCGTTTTTGTCGAAAACGCCACTAAAAACAATGATAAAAACGACGACGTT
TTGCTCTCT
Found at i:91829436 original size:115 final size:115
Alignment explanation
Indices: 91829224--91829436 Score: 282
Period size: 115 Copynumber: 1.9 Consensus size: 115
91829214 TGTGGAAAAG
* * *
91829224 CCACTAAAAACAAGGATAAAAAACAACAACGTTTTGTACTCTTAATGCATTTTTGTGGCGTTTTT
1 CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
** * *
91829289 GTTGTGAACGCCGGTAAAGAACAACATTTTGCGGCGTTTCTGAGAAAACA
66 GTTGAAAACACCGGTAAAGAACAACATGTTGCGGCGTTTCTGAGAAAACA
* ** * * *
91829339 CCACTATAAACAAGCATGGAAAACGACGACGTTTTGCACTTTTAATGCATTTTTGCGGCGTTTTT
1 CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
** *
91829404 GTTGAAAACATTGGTAAAGAACAACCTGTTGCG
66 GTTGAAAACACCGGTAAAGAACAACATGTTGCG
91829437 ATGTTTTTGA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
115 82 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (115 bp):
CCACTAAAAACAAGCATAAAAAACAACAACGTTTTGCACTCTTAATGCATTTTTGCGGCGTTTTT
GTTGAAAACACCGGTAAAGAACAACATGTTGCGGCGTTTCTGAGAAAACA
Found at i:91829871 original size:8 final size:7
Alignment explanation
Indices: 91829834--91830008 Score: 70
Period size: 7 Copynumber: 24.4 Consensus size: 7
91829824 CTCTATCCTT
*
91829834 TAAACCC
1 TAAACCA
*
91829841 TAAATCA
1 TAAACCA
*
91829848 T-AATCA
1 TAAACCA
91829854 TAAACCA
1 TAAACCA
91829861 TAAACCCA
1 TAAA-CCA
91829869 T-AACCA
1 TAAACCA
* * *
91829875 CTGACCCC
1 -TAAACCA
91829883 TAAATCC-
1 TAAA-CCA
*
91829890 TAAACCT
1 TAAACCA
*
91829897 TAAACCC
1 TAAACCA
91829904 TAAACCA
1 TAAACCA
*
91829911 TAATCATCA
1 TAA--ACCA
91829920 CTAAACCCA
1 -TAAA-CCA
*
91829929 TAATCCA
1 TAAACCA
*
91829936 AAAACCA
1 TAAACCA
91829943 TAAACCA
1 TAAACCA
* *
91829950 TATACCC
1 TAAACCA
91829957 TAAA-CA
1 TAAACCA
*
91829963 TTAAACCC
1 -TAAACCA
*
91829971 TAAATCA
1 TAAACCA
* *
91829978 TATACCC
1 TAAACCA
*
91829985 TAAACTA
1 TAAACCA
*
91829992 TAAACCC
1 TAAACCA
*
91829999 TAAACTA
1 TAAACCA
91830006 TAA
1 TAA
91830009 TGATAAATAA
Statistics
Matches: 124, Mismatches: 32, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
6 12 0.10
7 90 0.73
8 14 0.11
9 5 0.04
10 3 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:91829960 original size:14 final size:14
Alignment explanation
Indices: 91829834--91830008 Score: 97
Period size: 14 Copynumber: 12.2 Consensus size: 14
91829824 CTCTATCCTT
*
91829834 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* *
91829848 T-AATCATAAACCA
1 TAAACCCTAAACCA
91829861 TAAACCC-ATAACCA
1 TAAACCCTA-AACCA
* *
91829875 CTGACCCCTAAATCC-
1 -TAAACCCTAAA-CCA
* *
91829890 TAAACCTTAAACCC
1 TAAACCCTAAACCA
* *
91829904 TAAACCATAATCATCA
1 TAAACCCTAA--ACCA
*
91829920 CTAAACCCATAATCCA
1 -TAAACCC-TAAACCA
* *
91829936 AAAACCATAAACCA
1 TAAACCCTAAACCA
*
91829950 TATACCCTAAA-CA
1 TAAACCCTAAACCA
*
91829963 TTAAACCCTAAATCA
1 -TAAACCCTAAACCA
* *
91829978 TATACCCTAAACTA
1 TAAACCCTAAACCA
*
91829992 TAAACCCTAAACTA
1 TAAACCCTAAACCA
91830006 TAA
1 TAA
91830009 TGATAAATAA
Statistics
Matches: 122, Mismatches: 27, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
13 15 0.12
14 77 0.63
15 14 0.11
16 7 0.06
17 6 0.05
18 3 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:91830507 original size:40 final size:39
Alignment explanation
Indices: 91830420--91830569 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 39
91830410 TAATTTTTTG
* * * *
91830420 CGGCGTTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAG
1 CGGCG-TTTTT-AAAAAGCGCCGCTAAT-GCTCGATCTATAA
91830462 C-GCGTTTTTAAAAAAGCGCCGCTAATGCTCGATAC-ATAA
1 CGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGAT-CTATAA
* * * * *
91830501 TGGCGTTTTTCTACAAGCGCCACTAATGCTCGATCTATAG
1 CGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGATCTATAA
*
91830541 CGGCATTTTCTAAAAAGCGCCGCTAATGC
1 CGGCGTTTT-TAAAAAGCGCCGCTAATGC
91830570 CACTAAAGTT
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
39 9 0.10
40 74 0.84
41 4 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (39 bp):
CGGCGTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAA
Found at i:91830737 original size:195 final size:195
Alignment explanation
Indices: 91830343--91830744 Score: 490
Period size: 195 Copynumber: 2.1 Consensus size: 195
91830333 AAAAGCGCCT
* * * *
91830343 TAGCGGCGTTTTCCAAAAAGCGCCGCTAGTGCAACTAAAGCTCAACATAAAACGATGGTGTTGTG
1 TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
* *
91830408 CTTAATTTTTTGCGGCGTTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
66 CCTAATTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
* * ** *
91830473 AAAAGCGCCGCTAATGCTCGATACATAATGGCGTTTTTCTACAAGCGCCACTAATGCTCGATCTA
131 AAAAGCGCCACTAATGCTCGATACATAACGGCAATTTTATACAAGCGCCACTAATGCTCGATCTA
* * * *
91830538 TAGCGGCATTTTCTAAAAAGCGCCGCTAATGCCACTAAAGTTCAACATAAAACGACGATATTGTG
1 TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
* * * *
91830603 CCTAATTTTTTTGCGGCATTTTTTGAACAAGCGCTGCTAAT-GGTCGACCTATAGCGGTGTTTTT
66 CCTAA-TTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGC-GCGTTTTT
* * * * * * *
91830667 TAAAATGGGCTACTAATGCTCGAT-C-TAGAGCGGCAATTTTATAGAAGCGTCGCTAATTGC-CG
129 AAAAAAGCGCCACTAATGCTCGATACATA-A-CGGCAATTTTATACAAGCGCCACTAA-TGCTCG
91830729 AT-TA
191 ATCTA
91830733 TAGCGGCGTTTT
1 TAGCGGCGTTTT
91830745 TTGTTCAAAC
Statistics
Matches: 175, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
194 2 0.01
195 90 0.51
196 80 0.46
197 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (195 bp):
TAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAACATAAAACGACGATATTGTG
CCTAATTTTTTGCGGCATTTTTTGAAAAAGAGCCGCTAATGGGTCGACCTATAGCGCGTTTTTAA
AAAAGCGCCACTAATGCTCGATACATAACGGCAATTTTATACAAGCGCCACTAATGCTCGATCTA
Found at i:91831034 original size:17 final size:17
Alignment explanation
Indices: 91831014--91831046 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91831004 TTTCATACAT
91831014 ATTTTATATG-TTATTAC
1 ATTTTAT-TGTTTATTAC
91831031 ATTTTATTGTTTATTA
1 ATTTTATTGTTTATTA
91831047 TAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTTTATTGTTTATTAC
Found at i:91833889 original size:16 final size:15
Alignment explanation
Indices: 91833865--91833899 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
91833855 CTTGCAAAGG
*
91833865 AAAATTTAGTAAAATA
1 AAAACTTAGTAAAA-A
91833881 AAAACTTAGTAAAAA
1 AAAACTTAGTAAAAA
91833896 AAAA
1 AAAA
91833900 GTAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAACTTAGTAAAAA
Found at i:91838858 original size:25 final size:27
Alignment explanation
Indices: 91838827--91838879 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
91838817 TGTCAGCTAG
* * *
91838827 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAATTTTTAAGTGTCCGAATGCATGC
91838853 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAATTTTTAAGTGTCCGAATGCATGC
91838880 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAATTTTTAAGTGTCCGAATGCATGC
Found at i:91840293 original size:45 final size:45
Alignment explanation
Indices: 91840241--91840442 Score: 270
Period size: 45 Copynumber: 4.6 Consensus size: 45
91840231 CGGGCTTCGG
*
91840241 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
91840286 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
91840331 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCAGG-CTTTCGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTT-GA
* *
91840376 GCCTAGCAGGCTATAATACCGGTGAAATGA-TA-TCGGGCC-TCGA
1 GCCTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCCTTTGA
*
91840419 GCCTAGCAGGCGA-AATGCCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
91840443 TTAGAGAAAA
Statistics
Matches: 143, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
42 10 0.07
43 14 0.10
44 9 0.06
45 109 0.76
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (45 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:91842895 original size:20 final size:20
Alignment explanation
Indices: 91842870--91842913 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
91842860 AGTAAATTAA
91842870 AATAAAGAAAAATATATG-GT
1 AATAAA-AAAAATATATGTGT
*
91842890 AAT-AAAAATATATATGTGT
1 AATAAAAAAAATATATGTGT
91842909 AATAA
1 AATAA
91842914 TTATATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
20 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (20 bp):
AATAAAAAAAATATATGTGT
Found at i:91842919 original size:19 final size:18
Alignment explanation
Indices: 91842877--91842913 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
91842867 TAAAATAAAG
91842877 AAAA-ATATATGGTAATA
1 AAAATATATATGGTAATA
91842894 AAAATATATATGTGTAATA
1 AAAATATATATG-GTAATA
91842913 A
1 A
91842914 TTATATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAATATATATGGTAATA
Found at i:91843176 original size:17 final size:18
Alignment explanation
Indices: 91843141--91843184 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
91843131 ATTAATAAAG
*
91843141 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
*
91843159 TAAAGAAAC-TAAAGGAA
1 TAAAGAAACATAAAAGAA
91843176 TAAAAGAAA
1 T-AAAGAAA
91843185 GAAATGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:91845002 original size:46 final size:46
Alignment explanation
Indices: 91844935--91845370 Score: 709
Period size: 46 Copynumber: 9.6 Consensus size: 46
91844925 TTGATGATAN
91844935 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
*
91844981 TCAGGTTGTCATGGTATCTTTCAACCATGGTCTT--ACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
91845025 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
*
91845071 TCAGGTTGTCATGGTATCTTTCAACCATGGTCTT--ACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
91845115 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
**
91845161 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
* * ** *
91845207 TCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
* * * **
91845253 TCATGTTGCCATAGTATCTTTCAATCATGGTCTTATTCATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
91845299 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
*
91845345 TCAGGTTGTCATGGTATCTTTCAACC
1 TCAGGTTGCCATGGTATCTTTCAACC
91845371 NNNNNNNNNN
Statistics
Matches: 366, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
44 86 0.23
46 280 0.77
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:91845088 original size:90 final size:91
Alignment explanation
Indices: 91844935--91845370 Score: 750
Period size: 90 Copynumber: 4.8 Consensus size: 91
91844925 TTGATGATAN
91844935 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
91845000 TTCAACCATGGTCTTA-CATTTCATA
66 TTCAACCATGGTCTTATCATTTCATA
91845025 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
91845090 TTCAACCATGGTCTTA-CATTTCATA
66 TTCAACCATGGTCTTATCATTTCATA
*
91845115 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
91845180 TTCAACCATGGTCTTATTCATTTCATA
66 TTCAACCATGGTCTTA-TCATTTCATA
* * ** * * * *
91845207 TCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATAGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
*
91845272 TTCAATCATGGTCTTATTCATTTCATA
66 TTCAACCATGGTCTTA-TCATTTCATA
91845299 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
91845364 TTCAACC
66 TTCAACC
91845371 NNNNNNNNNN
Statistics
Matches: 326, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
90 170 0.52
92 156 0.48
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (91 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCT
TTCAACCATGGTCTTATCATTTCATA
Found at i:91852035 original size:21 final size:20
Alignment explanation
Indices: 91851971--91852035 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
91851961 TAGCCTTCGG
* *
91851971 GCTTTCGTTTAGCACCTATGT
1 GCTTCCGTTTAGCA-CTTTGT
* * *
91851992 GCTTCAG-TTAGC-CTTCGG
1 GCTTCCGTTTAGCACTTTGT
91852010 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
91852031 GCTTC
1 GCTTC
91852036 AGTTAGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 6 0.18
21 13 0.39
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:91852049 original size:39 final size:39
Alignment explanation
Indices: 91851953--91852041 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
91851943 GCTCTGATGA
*
91851953 GCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACCTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACCTATGT
* *
91851992 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACCTATGT
91852031 GCTTCAGTTAG
1 GCTTCAGTTAG
91852042 ATTTCGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACCTATGT
Found at i:91859368 original size:91 final size:91
Alignment explanation
Indices: 91859213--91859395 Score: 348
Period size: 91 Copynumber: 2.0 Consensus size: 91
91859203 TGTTCCGGGA
91859213 AAGTTCGTACAGTTAAATTATTAAATTTCAATGTTATTTTATGAATGGTGATTAATATTTATGTA
1 AAGTTCGTACAGTTAAATTATTAAATTTCAATGTTATTTTATGAATGGTGATTAATATTTATGTA
*
91859278 TGTTAGTTGTTGAAAATAATTAAATC
66 TGTTAATTGTTGAAAATAATTAAATC
*
91859304 AAGTTCGTACGGTTAAATTATTAAATTTCAATGTTATTTTATGAATGGTGATTAATATTTATGTA
1 AAGTTCGTACAGTTAAATTATTAAATTTCAATGTTATTTTATGAATGGTGATTAATATTTATGTA
91859369 TGTTAATTGTTGAAAATAATTAAATC
66 TGTTAATTGTTGAAAATAATTAAATC
91859395 A
1 A
91859396 TGTACAAAAG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (91 bp):
AAGTTCGTACAGTTAAATTATTAAATTTCAATGTTATTTTATGAATGGTGATTAATATTTATGTA
TGTTAATTGTTGAAAATAATTAAATC
Found at i:91859670 original size:39 final size:39
Alignment explanation
Indices: 91859624--91859712 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
91859614 GCTCTGTTGA
91859624 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATT-T
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTT-TTGT
*
91859663 GCTTCAGTTAGTCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
91859702 GCTTCAGTTAG
1 GCTTCAGTTAG
91859713 ATTTCGGGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
Found at i:91859705 original size:21 final size:21
Alignment explanation
Indices: 91859642--91859706 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
91859632 TAGCCTTCGG
91859642 GCTTCCGTTTAGCACTTATT-T
1 GCTTCCGTTTAGCACTT-TTGT
* * * *
91859663 GCTTCAG-TTAG-TC-TTCGG
1 GCTTCCGTTTAGCACTTTTGT
91859681 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCACTTTTGT
91859702 GCTTC
1 GCTTC
91859707 AGTTAGATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 1 0.03
18 7 0.22
19 5 0.16
20 5 0.16
21 14 0.44
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.45
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTTTGT
Found at i:91864263 original size:17 final size:18
Alignment explanation
Indices: 91864241--91864274 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
91864231 TAAATAAGCA
91864241 TAAAAGAAT-AAAGAAAC
1 TAAAAGAATAAAAGAAAC
91864258 TAAAAGAATAAAAGAAA
1 TAAAAGAATAAAAGAAA
91864275 GGAATGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (18 bp):
TAAAAGAATAAAAGAAAC
Found at i:91864702 original size:17 final size:18
Alignment explanation
Indices: 91864680--91864715 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
91864670 TAAATGAGTT
91864680 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
91864697 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
91864715 A
1 A
91864716 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:91865226 original size:22 final size:22
Alignment explanation
Indices: 91865168--91865228 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
91865158 ATGTGAATTG
*
91865168 AAAATT-TGATTGAAAAGTGGA
1 AAAATTGTAATTGAAAAGTGGA
91865189 AAATGATTG-AATTGAAAA-TGTGA
1 AAA--ATTGTAATTGAAAAGTG-GA
91865212 AAAATTGTAATTGAAAA
1 AAAATTGTAATTGAAAA
91865229 ATAGTGTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 7 0.21
22 11 0.32
23 16 0.47
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.30
Consensus pattern (22 bp):
AAAATTGTAATTGAAAAGTGGA
Found at i:91868453 original size:38 final size:38
Alignment explanation
Indices: 91868411--91868487 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
91868401 ACTGAGTACC
*
91868411 ACTTTACTTC-AGCTAGGCCAATGAGACACTGGGTGTCA
1 ACTTTACTTCGAACTA-GCCAATGAGACACTGGGTGTCA
* * * *
91868449 ACTTTGCTTCGAACTATCCGATGAGGCACTGGGTGTCA
1 ACTTTACTTCGAACTAGCCAATGAGACACTGGGTGTCA
91868487 A
1 A
91868488 ACTGGTGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 29 0.88
39 4 0.12
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (38 bp):
ACTTTACTTCGAACTAGCCAATGAGACACTGGGTGTCA
Found at i:91879295 original size:23 final size:23
Alignment explanation
Indices: 91879269--91879318 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
91879259 AAAACATAAA
91879269 ATTTCTATTTTATCAAATTTTTT
1 ATTTCTATTTTATCAAATTTTTT
* * * * *
91879292 ATTTTTCTTTTTTCTATTTTTTT
1 ATTTCTATTTTATCAAATTTTTT
91879315 ATTT
1 ATTT
91879319 TTTCTTAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTCTATTTTATCAAATTTTTT
Found at i:91879489 original size:12 final size:15
Alignment explanation
Indices: 91879457--91879486 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
91879447 TATATATTGT
91879457 ATAATTTCAAAAATA
1 ATAATTTCAAAAATA
91879472 ATAATTT-AAAAATA
1 ATAATTTCAAAAATA
91879486 A
1 A
91879487 ATTCCATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATTTCAAAAATA
Found at i:91879744 original size:20 final size:22
Alignment explanation
Indices: 91879704--91879745 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
91879694 TTTAGTCCTA
*
91879704 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
91879726 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
91879746 CAATTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:91879769 original size:13 final size:13
Alignment explanation
Indices: 91879753--91879777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91879743 TTTCAATTTC
91879753 ATTTTAATAATAA
1 ATTTTAATAATAA
91879766 ATTTTAATAATA
1 ATTTTAATAATA
91879778 TTATTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTAATAATAA
Found at i:91879790 original size:16 final size:15
Alignment explanation
Indices: 91879754--91879798 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
91879744 TTCAATTTCA
*
91879754 TTTTAATAATA--AA
1 TTTTAATAATATTAT
91879767 TTTTAATAATATTAT
1 TTTTAATAATATTAT
91879782 TTTTAAATAATATTAT
1 TTTT-AATAATATTAT
91879798 T
1 T
91879799 CACATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
15 5 0.18
16 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTAATAATATTAT
Found at i:91880718 original size:11 final size:11
Alignment explanation
Indices: 91880702--91880727 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
91880692 AACAGGGATA
91880702 CCAAATGCAAT
1 CCAAATGCAAT
91880713 CCAAATGCAAT
1 CCAAATGCAAT
91880724 CCAA
1 CCAA
91880728 CAGGGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (11 bp):
CCAAATGCAAT
Found at i:91880944 original size:48 final size:48
Alignment explanation
Indices: 91880811--91880985 Score: 122
Period size: 48 Copynumber: 3.6 Consensus size: 48
91880801 TGGAAGCTAT
* * ** *
91880811 CACACCTATGGGCAGACTGTTC-AATGCCATGGCCAAATAGGAACCCTC
1 CACACCTATGGGCAGACTG-CCAAATGCCATGGTCAAACCGGAACCCAC
* * * * * * * * *
91880859 TACGCCTATGGGCAGATTGTTC-AATGTCGTAGCCAAACGGGAACCCAC
1 CACACCTATGGGCAGACTG-CCAAATGCCATGGTCAAACCGGAACCCAC
* **
91880907 CACA-ATCATGGGCAGACTGCCAAATGCCATGGTCAAACCGGAAGTCAC
1 CACACCT-ATGGGCAGACTGCCAAATGCCATGGTCAAACCGGAACCCAC
* * *
91880955 CACACCTATGGGCAGATTGCCCAATGTCATG
1 CACACCTATGGGCAGACTGCCAAATGCCATG
91880986 CCAAACCCTA
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
47 2 0.02
48 96 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (48 bp):
CACACCTATGGGCAGACTGCCAAATGCCATGGTCAAACCGGAACCCAC
Found at i:91884050 original size:20 final size:20
Alignment explanation
Indices: 91884021--91884070 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
91884011 AATTCAAATG
*
91884021 GTTGCCCTACTAATGATTTT
1 GTTGCTCTACTAATGATTTT
91884041 GTTGCTCTACTAATGATTTT
1 GTTGCTCTACTAATGATTTT
91884061 GTTGCTCTAC
1 GTTGCTCTAC
91884071 AACAACTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (20 bp):
GTTGCTCTACTAATGATTTT
Found at i:91891712 original size:46 final size:46
Alignment explanation
Indices: 91891613--91891745 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 46
91891603 GGAAANTGAT
* * *
91891613 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAT-GTAAC
1 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGC-ATCCTAAC
*
91891659 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCATCCTAAT
1 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCATCCTAAC
** * * *
91891705 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATC
1 ATG-AAATGAACAAGACCATGGTTGAAAGATACCATGGCATC
91891746 ATGTCAAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
45 3 0.04
46 73 0.96
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCATCCTAAC
Found at i:91892050 original size:16 final size:17
Alignment explanation
Indices: 91892029--91892061 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91892019 ATGATGGAGC
91892029 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
91892045 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
91892062 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:91899979 original size:69 final size:69
Alignment explanation
Indices: 91899800--91900084 Score: 230
Period size: 69 Copynumber: 4.1 Consensus size: 69
91899790 ATGAACAAGG
** * ** * * * **
91899800 AGGTGATATTGAGCACAAGGGTCGGGAAGAATCACA-TGTTGAAACCGGAGGAAAGACCAATGGT
1 AGGTGATAACGAGCAAAAGGGTAAGGAAGAATCGCAGT-TTGAAGCCGGAGGAAAGGCGGATGGT
*
91899864 GGAGA
65 GGAAA
* * * * * * * *
91899869 AGGTGATAATGTGCAAAAGGCTTAGCAAGAATCACATTTTGATGCCGGAGGAAAGGCGGATGGTG
1 AGGTGATAACGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG
91899934 GAAA
66 GAAA
* * * * * * * *** *
91899938 AGGTGATAATGAGCACAAGGGTAAGGACGAATTGCGGTTTGAAGCCGGAGGAAAAGTGGACAATA
1 AGGTGATAACGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG
*
91900003 CAAA
66 GAAA
* * * *
91900007 AGGTGATAACGAGTAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCAGAGGACAGGCAGATGGTG
1 AGGTGATAACGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG
91900072 GAAA
66 GAAA
*
91900076 AGGCGATAA
1 AGGTGATAA
91900085 GGAGGGTCAG
Statistics
Matches: 167, Mismatches: 48, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
69 166 0.99
70 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.34, T:0.16
Consensus pattern (69 bp):
AGGTGATAACGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG
GAAA
Done.