Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 341 of 345
Found at i:113380263 original size:8 final size:8
Alignment explanation
Indices: 113380250--113380278 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
113380240 CACTAGAGAC
113380250 CAGTGTTA
1 CAGTGTTA
113380258 CAGTGTTA
1 CAGTGTTA
113380266 CAGTGTTA
1 CAGTGTTA
113380274 CAGTG
1 CAGTG
113380279 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:113380392 original size:23 final size:23
Alignment explanation
Indices: 113380365--113380440 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
113380355 AGTGTTATTG
113380365 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
113380388 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
113380411 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
113380434 ATCAGTG
1 ATCAGTG
113380441 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:113387483 original size:18 final size:17
Alignment explanation
Indices: 113387450--113387488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
113387440 TTGTATAAAT
113387450 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
113387468 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
113387485 TGTG
1 TGTG
113387489 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:113387606 original size:8 final size:8
Alignment explanation
Indices: 113387593--113387621 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
113387583 CACTAGAGAC
113387593 CAGTGTTA
1 CAGTGTTA
113387601 CAGTGTTA
1 CAGTGTTA
113387609 CAGTGTTA
1 CAGTGTTA
113387617 CAGTG
1 CAGTG
113387622 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:113387734 original size:23 final size:23
Alignment explanation
Indices: 113387707--113387782 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
113387697 AGTGTTATTG
113387707 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
113387730 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
113387753 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
113387776 ATCAGTG
1 ATCAGTG
113387783 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:113393762 original size:29 final size:30
Alignment explanation
Indices: 113393697--113393763 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
113393687 TCAAAATTAT
* * *
113393697 ACATGAATTTTGATTTAATGTGCAATTGTAT
1 ACATGAATTTTAATTT-AGGTGCAATTGTAC
*
113393728 ACATGAATTTTAATTT-GGTGTAATTGTAC
1 ACATGAATTTTAATTTAGGTGCAATTGTAC
113393757 ACATGAA
1 ACATGAA
113393764 ACTCTAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.53
31 15 0.47
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (30 bp):
ACATGAATTTTAATTTAGGTGCAATTGTAC
Found at i:113395422 original size:47 final size:47
Alignment explanation
Indices: 113395360--113395485 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
113395350 CTTTACATAA
* * * *
113395360 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
113395407 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
113395454 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
113395486 AAATCACTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:113395501 original size:7 final size:7
Alignment explanation
Indices: 113395489--113395517 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
113395479 TATACAGAAA
113395489 TCACTTG
1 TCACTTG
113395496 TCACTTG
1 TCACTTG
113395503 TCACTTG
1 TCACTTG
113395510 TCACTTG
1 TCACTTG
113395517 T
1 T
113395518 AGTCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:113395560 original size:31 final size:31
Alignment explanation
Indices: 113395523--113395693 Score: 243
Period size: 31 Copynumber: 5.5 Consensus size: 31
113395513 CTTGTAGTCA
* *
113395523 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
** *
113395554 GTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
113395585 GAGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* *
113395616 AAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* *
113395647 AAGCTACCACTTTTCACTGATCAAGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
113395678 AAGCTACCATTTTTCA
1 AAGCTACCACTTTTCA
113395694 GTTGTCATTT
Statistics
Matches: 126, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 126 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:113395772 original size:50 final size:50
Alignment explanation
Indices: 113395711--113395847 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
113395701 TTTGCCATTG
113395711 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* * * *
113395761 ATCAGATAAGTGTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
113395811 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
113395848 GTTTCCATGG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Found at i:113398174 original size:128 final size:127
Alignment explanation
Indices: 113397997--113398242 Score: 384
Period size: 128 Copynumber: 1.9 Consensus size: 127
113397987 CTCGCTTTAG
* * * *
113397997 AAAACACGAGTGAAATTCCGAAGGAATATTTGATTATTTTGAACAAACGGGAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCAG
* * * *
113398062 CACGATAGGGCACTATTTCCCGAATTTCCAAACATTGGATACTGCCTTGTTTTAGCATTTGGA
66 CACGATAGGGCACTATTCCCCAAATTTCCAAACATCGAATACTGCCTT-TTTTAGCATTTGGA
* *
113398125 AAAACACGAGTAAAATTCTAAAAGAATATTCGATTATTTTGGACAAACGGGAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCAG
*
113398190 CACGATAGGGCACTATTCCCCAAATTTCCAAACATCGAATATTGCCTTTTTTA
66 CACGATAGGGCACTATTCCCCAAATTTCCAAACATCGAATACTGCCTTTTTTA
113398243 ATGAATCTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 5 0.05
128 102 0.95
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (127 bp):
AAAACACGAGTAAAATTCCAAAAGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCAG
CACGATAGGGCACTATTCCCCAAATTTCCAAACATCGAATACTGCCTTTTTTAGCATTTGGA
Found at i:113405867 original size:14 final size:14
Alignment explanation
Indices: 113405848--113405877 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
113405838 AATACTATAT
113405848 AATATTTATTAAAA
1 AATATTTATTAAAA
113405862 AATATTTATTAAAA
1 AATATTTATTAAAA
113405876 AA
1 AA
113405878 AAAGAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATTTATTAAAA
Found at i:113410385 original size:14 final size:14
Alignment explanation
Indices: 113410366--113410395 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113410356 AATTTATTTT
113410366 AATTTTAAAATGAA
1 AATTTTAAAATGAA
*
113410380 AATTTTAAAATTAA
1 AATTTTAAAATGAA
113410394 AA
1 AA
113410396 AAATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AATTTTAAAATGAA
Found at i:113420117 original size:30 final size:30
Alignment explanation
Indices: 113420083--113420141 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
113420073 AAAAAATTTG
*
113420083 ATATAATA-ATAAATTTAGTTCTCAATTTTT
1 ATATAATATATAAATTTAGTTAT-AATTTTT
* *
113420113 ATATATTATATTAATTTAGTTATAATTTT
1 ATATAATATATAAATTTAGTTATAATTTT
113420142 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
ATATAATATATAAATTTAGTTATAATTTTT
Found at i:113420199 original size:10 final size:10
Alignment explanation
Indices: 113420186--113420216 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
113420176 AATTGATCCT
113420186 AATTTTAAAA
1 AATTTTAAAA
113420196 AATTTTAAAA
1 AATTTTAAAA
113420206 AATTTATAAAA
1 AATTT-TAAAA
113420217 TAAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:113420220 original size:26 final size:26
Alignment explanation
Indices: 113420191--113420240 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
113420181 ATCCTAATTT
*
113420191 TAAAAAATTTTAAAAAATTTATAAAA
1 TAAAAAATTTTAAAAAATATATAAAA
* * *
113420217 TAAATACTTTTAAAATATATATAA
1 TAAAAAATTTTAAAAAATATATAA
113420241 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAAATTTTAAAAAATATATAAAA
Found at i:113420250 original size:19 final size:20
Alignment explanation
Indices: 113420226--113420286 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
113420216 ATAAATACTT
113420226 TTAAAATATATATAATAA-A
1 TTAAAATATATATAATAATA
* *
113420245 TTAAAAT-TTTATATTAATA
1 TTAAAATATATATAATAATA
* *
113420264 TT-AAATAAATATAATTATA
1 TTAAAATATATATAATAATA
113420283 TTAA
1 TTAA
113420287 TATAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 12 0.36
19 20 0.61
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAATATATATAATAATA
Found at i:113420291 original size:20 final size:19
Alignment explanation
Indices: 113420261--113420300 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
113420251 TTTTATATTA
*
113420261 ATATTAAATAAATATAATT
1 ATATTAAATAAATAAAATT
113420280 ATATTAATATAAATAAAATT
1 ATATTAA-ATAAATAAAATT
113420300 A
1 A
113420301 AAATCCTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATTAAATAAATAAAATT
Found at i:113423009 original size:18 final size:18
Alignment explanation
Indices: 113422982--113423016 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113422972 CTCACCCTCT
*
113422982 TTTTTTATTTTTACTTTA
1 TTTTTAATTTTTACTTTA
113423000 TTTTTAATTTTTACTTT
1 TTTTTAATTTTTACTTT
113423017 TAAAAGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTAATTTTTACTTTA
Found at i:113423960 original size:254 final size:256
Alignment explanation
Indices: 113423611--113424136 Score: 659
Period size: 254 Copynumber: 2.0 Consensus size: 256
113423601 AAAAAAAGAG
* ** *
113423611 AAAAACATAATTAAAGAAGAAAAAAAGGAAGTAATAAAATGAAAATGAAAAATCTTACTTAAACT
1 AAAAACATAATTAAAGAAAAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAACT
* * *
113423676 CGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAATATAAACCTTAAACAAATGCATTT
66 CGAATATATCTCAGCCATACTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATACATTT
* * ** * * *
113423741 GATAC-C-TTC-CAAGCATAAATTGCTGAATATCAAGCTAAGTACTAATTTTCTTAAATAACTTA
131 -AAACACGTTCTCAAGCATAAAGTGCTGAATATCAAGCTAAGTACTAAACTACTCAAATAACTAA
* *
113423803 TATTTTAGGGG-AAAAA-TAATTCAGCAATTAGATTCCAAAATCAAAGAAATCTATCAAACA
195 CATTTTAGGGGAAAAAATTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
*
113423863 CAAAAACATAATTAAAGGAAAAAAAAAAACAAGTAATAAATTGAAAAAGAAAAATCTTA-TATAA
1 -AAAAACATAATTAAA-GAAAAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACT-TAA
* * * * * *
113423927 ACTCGGATATATGTTAGCCATACTTTCTTAGCAACCAAACAGACGATAAACCTTAACCAAATATA
63 ACTCGAATATATCTCAGCCATACTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATACA
*
113423992 TTTAAACAAAATCTGGTAGTTCTCAAGCATAAAGTGGTGAATATCAAGCTAAGTACTAAACTACT
128 TTTAAAC---A-C-----GTTCTCAAGCATAAAGTGCTGAATATCAAGCTAAGTACTAAACTACT
*
113424057 CAAGTAACTAACATTTTAGGGGACAAAAATTAATTCAGCAATTAGATTACAAAATCAAAGAAATC
184 CAAATAACTAACATTTTAGGGGA-AAAAATTAATTCAGCAATTAGATTACAAAATCAAAGAAATC
113424122 TATCAAACA
248 TATCAAACA
113424131 AAAAAC
1 AAAAAC
113424137 CAAGAAGTAA
Statistics
Matches: 231, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
253 19 0.08
254 99 0.43
258 1 0.00
264 3 0.01
265 55 0.24
267 11 0.05
268 43 0.19
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (256 bp):
AAAAACATAATTAAAGAAAAAAAAAAACAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAACT
CGAATATATCTCAGCCATACTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATACATTT
AAACACGTTCTCAAGCATAAAGTGCTGAATATCAAGCTAAGTACTAAACTACTCAAATAACTAAC
ATTTTAGGGGAAAAAATTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
Found at i:113441068 original size:19 final size:18
Alignment explanation
Indices: 113441044--113441079 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
113441034 GTTCAATTAA
*
113441044 ATAAAACATTAAAAAAATC
1 ATAAAA-ATAAAAAAAATC
113441063 ATAAAAATAAAAAAAAT
1 ATAAAAATAAAAAAAAT
113441080 ATATATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAAATAAAAAAAATC
Found at i:113442607 original size:29 final size:31
Alignment explanation
Indices: 113442544--113442607 Score: 96
Period size: 29 Copynumber: 2.1 Consensus size: 31
113442534 GCTACAAAAT
* *
113442544 AGTTATTGAACTATTTGAAAGTTTTTATTTA
1 AGTTATTGAACTATTTCAAAGTTTTAATTTA
113442575 AGTTATTGAACTA-TTCAAA-TTTTAATTTA
1 AGTTATTGAACTATTTCAAAGTTTTAATTTA
113442604 AGTT
1 AGTT
113442608 TTTGGGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 13 0.42
30 5 0.16
31 13 0.42
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (31 bp):
AGTTATTGAACTATTTCAAAGTTTTAATTTA
Found at i:113449484 original size:31 final size:32
Alignment explanation
Indices: 113449443--113449503 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
113449433 CAATAATAAA
* * *
113449443 AGGGTCAAAGTGAGAA-TTTCATTATAGTACT
1 AGGGTAAAAGTGAAAATTTTCACTATAGTACT
113449474 AGGGTAAAAGTGAAAATTTTCACTATAGTA
1 AGGGTAAAAGTGAAAATTTTCACTATAGTA
113449504 TATATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.31
Consensus pattern (32 bp):
AGGGTAAAAGTGAAAATTTTCACTATAGTACT
Found at i:113451294 original size:16 final size:16
Alignment explanation
Indices: 113451275--113451342 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
113451265 TGGTTCACAG
* *
113451275 TAATGGAATAGGGCTA
1 TAATTGAATAGAGCTA
*
113451291 TAATTGAATAGAGCTG
1 TAATTGAATAGAGCTA
* *
113451307 TAATTGAATAGAGTTG
1 TAATTGAATAGAGCTA
*
113451323 TAA-TGAGATAGAGCTC
1 TAATTGA-ATAGAGCTA
113451339 TAAT
1 TAAT
113451343 AAGTAATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
15 3 0.07
16 41 0.93
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATTGAATAGAGCTA
Found at i:113452053 original size:18 final size:18
Alignment explanation
Indices: 113452030--113452064 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
113452020 ACGTGGCAGT
113452030 CCAACTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
113452048 CCAACTAGATTTTAAGT
1 CCAACTAGATTTTAAGT
113452065 ATATCTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:113453656 original size:2 final size:2
Alignment explanation
Indices: 113453649--113453675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
113453639 TGTATTTTTC
113453649 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
113453676 AAGGTAGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113459742 original size:2 final size:2
Alignment explanation
Indices: 113459735--113459765 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113459725 ATAAATTTAG
113459735 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
113459766 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:113460540 original size:19 final size:19
Alignment explanation
Indices: 113460495--113460540 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
113460485 GGGTCGGCCC
113460495 AAAAAAATAGAAATTTTGA
1 AAAAAAATAGAAATTTTGA
* *
113460514 ATAAAAATATAAA-TTTGA
1 AAAAAAATAGAAATTTTGA
113460532 AAAATAAAT
1 AAAA-AAAT
113460541 TTAGGTCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAAAAAATAGAAATTTTGA
Found at i:113465984 original size:18 final size:19
Alignment explanation
Indices: 113465963--113465998 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
113465953 ATAAAAACAA
113465963 ATTTAAAA-AATAAAATAC
1 ATTTAAAATAATAAAATAC
*
113465981 ATTTAAAATATTAAAATA
1 ATTTAAAATAATAAAATA
113465999 AATATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTTAAAATAATAAAATAC
Found at i:113470337 original size:34 final size:35
Alignment explanation
Indices: 113470282--113470348 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
113470272 CAAACACCAG
*
113470282 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
113470317 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
113470349 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:113473710 original size:65 final size:65
Alignment explanation
Indices: 113473634--113473763 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
113473624 AAGCCGAATT
*
113473634 CGAGTTTGATCAACTCAACCCATCAATAAAATCGAATTCAAATTTCGTAATACTCAATTCAAACA
1 CGAGTTTGATCAACTCAACCCATCAATAAAACCGAATTCAAATTTCGTAATACTCAATTCAAACA
* * *
113473699 CGAGTTTGATCAACTCAACCCATCAATAAAACCGAATTCCATTTTTGTAATACTCAATTCAAACA
1 CGAGTTTGATCAACTCAACCCATCAATAAAACCGAATTCAAATTTCGTAATACTCAATTCAAACA
113473764 GCTAATCAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (65 bp):
CGAGTTTGATCAACTCAACCCATCAATAAAACCGAATTCAAATTTCGTAATACTCAATTCAAACA
Found at i:113474896 original size:16 final size:16
Alignment explanation
Indices: 113474857--113474898 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
113474847 CCGGCAACAC
*
113474857 CATACCAGTTAACAAT
1 CATACAAGTTAACAAT
*
113474873 CATTCAAGTTAACAAT
1 CATACAAGTTAACAAT
113474889 C-TAACAAGTT
1 CAT-ACAAGTT
113474899 TTAACAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (16 bp):
CATACAAGTTAACAAT
Found at i:113475814 original size:19 final size:19
Alignment explanation
Indices: 113475790--113475828 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
113475780 CATCCAACGA
113475790 TGCTTATATAATTTCCATT
1 TGCTTATATAATTTCCATT
113475809 TGCTTATATAATTTCCATT
1 TGCTTATATAATTTCCATT
113475828 T
1 T
113475829 CTCTTTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TGCTTATATAATTTCCATT
Found at i:113485713 original size:195 final size:192
Alignment explanation
Indices: 113485301--113485732 Score: 451
Period size: 195 Copynumber: 2.2 Consensus size: 192
113485291 ATTTACCAAT
* * *
113485301 TCATTATCCAACTAAAACTATAAACTTTTCAAAGTATAGAGTCATAAATAGTTGGAAAAAAAAAA
1 TCATTATCCAACTAAAAAT-TAAAC-TTTCAAAATATAAAGTCATAAATAGTT-G-AAAAAAAAA
* * * **
113485366 GTAATTAATTGCTTAATTTTCCTGCAGTTTCTTTTCTCAGTAAACACACACAAATTGAATCAAAC
62 GTAATTAATTGATTAATTTTCCTGCAGTTTCCTTTCTCAGTAAACAAACACAAAAAGAATCAAAC
* *
113485431 AAATTTAAGAACAAGAAACCATCCTTTCCATACCAATTACTAGAAAGCCAAATTATGCATTAACA
127 AAATTTAAGAACAAGAAACCATCCTTACCA-ACCAATAACTAGAAAGCCAAATTATGCATTAACA
*
113485496 TT
191 TC
* * ** *
113485498 TCATTATCCAACCAAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCAGTT-AAAACTAATG
1 TCATTATCCAA-CTAAAAATT-AAACTTTCAAAATATAAAGTCATAAAT-AGTTGAAAAAAAAAG
* * * *
113485562 TAATTAATTGATTAATTTTCCTGGAG-TTCCTTTCTCAGTGACCAAACACAAAAAGAATCTAACA
63 TAATTAATTGATTAATTTTCCTGCAGTTTCCTTTCTCAGTAAACAAACACAAAAAGAATCAAACA
* * * *
113485626 AATTTGAGAAACAA-AAAGCCATTCTTACC-ACCACGATAACTAGCAAA-CTAAATTCTGCATAT
128 AATTTAAG-AACAAGAAA-CCATCCTTACCAACCA--ATAACTAG-AAAGCCAAATTATGCAT-T
**
113485688 AGTATC
187 AACATC
*
113485694 TCATTATCCAACTAAAAATTTTAACTTTCAAAATATAAA
1 TCATTATCCAACTAAAAA-TTAAACTTTCAAAATATAAA
113485733 ACAAATAAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
193 4 0.02
194 41 0.21
195 86 0.44
196 20 0.10
197 33 0.17
198 13 0.07
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (192 bp):
TCATTATCCAACTAAAAATTAAACTTTCAAAATATAAAGTCATAAATAGTTGAAAAAAAAAGTAA
TTAATTGATTAATTTTCCTGCAGTTTCCTTTCTCAGTAAACAAACACAAAAAGAATCAAACAAAT
TTAAGAACAAGAAACCATCCTTACCAACCAATAACTAGAAAGCCAAATTATGCATTAACATC
Found at i:113489056 original size:80 final size:78
Alignment explanation
Indices: 113488919--113489076 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 78
113488909 GGCTTACATT
*
113488919 TTCACTTTTATTATTATTGTTTTTTGAAATAATGTGTTTGGTTGCTGAGAAACTGAAGTGAACAG
1 TTCACTTTTATTATTATTGTTTTTTGAAATAATGTGTTTGGTTGCTGAGAAACTGAAGTAAACAG
113488984 TTTAAAAGAGAAA
66 TTTAAAAGAGAAA
* *
113488997 TTCACGTTTTATTTTTATT-TTTATTTGGAAATACTGTGTTTGGTTGCAT-AGAAACTGAAGTAA
1 TTCAC-TTTTATTATTATTGTTT-TTT-GAAATAATGTGTTTGGTTGC-TGAGAAACTGAAGTAA
*
113489060 ATAGTTTAAAAGAGAAA
62 ACAGTTTAAAAGAGAAA
113489077 ATGAATACTG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
78 8 0.11
79 15 0.21
80 48 0.67
81 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (78 bp):
TTCACTTTTATTATTATTGTTTTTTGAAATAATGTGTTTGGTTGCTGAGAAACTGAAGTAAACAG
TTTAAAAGAGAAA
Found at i:113496858 original size:11 final size:11
Alignment explanation
Indices: 113496842--113496898 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
113496832 TAAAAAATTA
113496842 TAAAATTTATT
1 TAAAATTTATT
113496853 TAAAATTTATT
1 TAAAATTTATT
*
113496864 TAAAA-ATATT
1 TAAAATTTATT
**
113496874 TTTAATTT-TT
1 TAAAATTTATT
*
113496884 TAAAAATTTAAT
1 T-AAAATTTATT
113496896 TAA
1 TAA
113496899 TTATTAACGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
10 10 0.28
11 24 0.67
12 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAAAATTTATT
Found at i:113496873 original size:21 final size:20
Alignment explanation
Indices: 113496849--113496890 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
113496839 TTATAAAATT
113496849 TATTTAAAATTTATTTAAAAA
1 TATTTAAAATTT-TTTAAAAA
**
113496870 TATTTTTAATTTTTTAAAAA
1 TATTTAAAATTTTTTAAAAA
113496890 T
1 T
113496891 TTAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTAAAATTTTTTAAAAA
Found at i:113496898 original size:20 final size:21
Alignment explanation
Indices: 113496856--113496900 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
113496846 ATTTATTTAA
*
113496856 AATTTATTTAAAAATATTTTT
1 AATTTATTTAAAAATATTATT
113496877 AATTT-TTTAAAAAT-TTAATT
1 AATTTATTTAAAAATATT-ATT
113496897 AATT
1 AATT
113496901 ATTAACGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTATTTAAAAATATTATT
Found at i:113497026 original size:17 final size:17
Alignment explanation
Indices: 113497001--113497041 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
113496991 TAAGTTTAAG
* **
113497001 AATTGAAAGAGATGAAT
1 AATTAAAAGAGACAAAT
113497018 AATTAAAAGAGACAAAT
1 AATTAAAAGAGACAAAT
113497035 AATTAAA
1 AATTAAA
113497042 TGTAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.15, T:0.22
Consensus pattern (17 bp):
AATTAAAAGAGACAAAT
Found at i:113497370 original size:17 final size:19
Alignment explanation
Indices: 113497348--113497382 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113497338 TCCTTTTTTT
113497348 TATA-TTAAA-AAAATATA
1 TATATTTAAATAAAATATA
113497365 TATATTTAAATAAAATAT
1 TATATTTAAATAAAATAT
113497383 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATATTTAAATAAAATATA
Found at i:113498381 original size:18 final size:20
Alignment explanation
Indices: 113498350--113498395 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
113498340 TTTAATAAAA
113498350 ATAAAAAATAATATTTT-AT
1 ATAAAAAATAATATTTTAAT
*
113498369 TTAAAAAAT-ATATTTTAAT
1 ATAAAAAATAATATTTTAAT
113498388 ATAAAAAA
1 ATAAAAAA
113498396 CTCGCGCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAATAATATTTTAAT
Found at i:113501136 original size:31 final size:31
Alignment explanation
Indices: 113501092--113501180 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
113501082 TGCACTTGTT
* *
113501092 AACTTTTCTTACATTGGGGCCTGAACT-GG-
1 AACTATTCCTACATTGGGGCCTGAACTAGGC
* * *
113501121 ATGATTGTTCCTACATTGGGGCTTGAACTAGGC
1 A--ACTATTCCTACATTGGGGCCTGAACTAGGC
*
113501154 AACTATTCCTACATTGGGGCGTGAACT
1 AACTATTCCTACATTGGGGCCTGAACT
113501181 TTTTTTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 1 0.02
31 45 0.92
32 2 0.04
33 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (31 bp):
AACTATTCCTACATTGGGGCCTGAACTAGGC
Found at i:113504446 original size:23 final size:23
Alignment explanation
Indices: 113504414--113504459 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
113504404 TTAGAAAGCA
*
113504414 GTTTAGTTCTTCTGTTAAAAATT
1 GTTTAGTTCTACTGTTAAAAATT
*
113504437 GTTTATTTCTACTGTTAAAAATT
1 GTTTAGTTCTACTGTTAAAAATT
113504460 AGTCTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (23 bp):
GTTTAGTTCTACTGTTAAAAATT
Found at i:113512347 original size:108 final size:108
Alignment explanation
Indices: 113512148--113512352 Score: 284
Period size: 108 Copynumber: 1.9 Consensus size: 108
113512138 ACTCTACTAT
* *
113512148 GCCACATGCCAACGATTGCACCTACGACAGGACTCTACTATTGTGTAATTCTAAGCCAAGAGCCA
1 GCCACAAGCCAACGATTGCACCTACGACACGACTCTACTATTGTGTAATTCTAAGCCAAGAGCCA
** *
113512213 ACGGTTGCACCTACAACATGATTCTACTATTGCGTAGTTCCGG
66 ACGGTTGCACCTACAACACAACTCTACTATTGCGTAGTTCCGG
* * * ** * *
113512256 GCCACAAGCCAATGATTGCACCTACGACACTACTCTACTATTGTGTAATTTTGGGCTAAGAGCCG
1 GCCACAAGCCAACGATTGCACCTACGACACGACTCTACTATTGTGTAATTCTAAGCCAAGAGCCA
* *
113512321 CCGGTTGCACCTACGACACAACTCTACTATTG
66 ACGGTTGCACCTACAACACAACTCTACTATTG
113512353 TGTAATTTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 83 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (108 bp):
GCCACAAGCCAACGATTGCACCTACGACACGACTCTACTATTGTGTAATTCTAAGCCAAGAGCCA
ACGGTTGCACCTACAACACAACTCTACTATTGCGTAGTTCCGG
Found at i:113512360 original size:54 final size:54
Alignment explanation
Indices: 113512155--113512359 Score: 232
Period size: 54 Copynumber: 3.8 Consensus size: 54
113512145 TATGCCACAT
* * **
113512155 GCCAACGATTGCACCTACGACAGGACTCTACTATTGTGTAATTCTAAGCCAAGA
1 GCCAACGGTTGCACCTACGACACGACTCTACTATTGTGTAATTCTGGGCCAAGA
* * * * * *
113512209 GCCAACGGTTGCACCTACAACATGATTCTACTATTGCGTAGTTCCGGGCCACA-A
1 GCCAACGGTTGCACCTACGACACGACTCTACTATTGTGTAATTCTGGGCCA-AGA
* * * * *
113512263 GCCAATGATTGCACCTACGACACTACTCTACTATTGTGTAATTTTGGGCTAAGA
1 GCCAACGGTTGCACCTACGACACGACTCTACTATTGTGTAATTCTGGGCCAAGA
** *
113512317 GCCGCCGGTTGCACCTACGACACAACTCTACTATTGTGTAATT
1 GCCAACGGTTGCACCTACGACACGACTCTACTATTGTGTAATT
113512360 TCTGTTTATG
Statistics
Matches: 124, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (54 bp):
GCCAACGGTTGCACCTACGACACGACTCTACTATTGTGTAATTCTGGGCCAAGA
Found at i:113513583 original size:25 final size:25
Alignment explanation
Indices: 113513554--113513604 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
113513544 TTAATTTTTA
113513554 GGGTTTTTTCTAATAATTATGATTT
1 GGGTTTTTTCTAATAATTATGATTT
113513579 GGGTTTTTTCTAATAATTATGATTT
1 GGGTTTTTTCTAATAATTATGATTT
113513604 G
1 G
113513605 ACTAAGAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.55
Consensus pattern (25 bp):
GGGTTTTTTCTAATAATTATGATTT
Found at i:113513667 original size:24 final size:24
Alignment explanation
Indices: 113513635--113513682 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
113513625 AGCGGTGCGT
113513635 TTACCTAGCGCGGTTTAAAAAGTA
1 TTACCTAGCGCGGTTTAAAAAGTA
113513659 TTACCTAGCGCGGTTTAAAAAGTA
1 TTACCTAGCGCGGTTTAAAAAGTA
113513683 AGTTAAACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
TTACCTAGCGCGGTTTAAAAAGTA
Found at i:113515443 original size:15 final size:15
Alignment explanation
Indices: 113515420--113515450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113515410 CGTGATTTTA
*
113515420 AGGGTGGAGACTCTG
1 AGGGAGGAGACTCTG
113515435 AGGGAGGAGACTCTG
1 AGGGAGGAGACTCTG
113515450 A
1 A
113515451 AAGTGGGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.45, T:0.16
Consensus pattern (15 bp):
AGGGAGGAGACTCTG
Found at i:113518543 original size:25 final size:25
Alignment explanation
Indices: 113518514--113518565 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
113518504 AAACATAAAA
113518514 TATATGAGTTTTTGAAACACATTTT
1 TATATGAGTTTTTGAAACACATTTT
*
113518539 TATATGAGTTTTTGAAACATATTTT
1 TATATGAGTTTTTGAAACACATTTT
113518564 TA
1 TA
113518566 CATTTTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (25 bp):
TATATGAGTTTTTGAAACACATTTT
Found at i:113533090 original size:29 final size:27
Alignment explanation
Indices: 113533046--113533102 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
113533036 AATTTAAAAT
*
113533046 ATTAATTTTAATTTTATAAAATTTTTA
1 ATTAATTTGAATTTTATAAAATTTTTA
* *
113533073 ATTATATTTGAATATTTATATATTTTTTA
1 ATTA-ATTTGAAT-TTTATAAAATTTTTA
113533102 A
1 A
113533103 AAAACTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTAATTTGAATTTTATAAAATTTTTA
Found at i:113536396 original size:21 final size:21
Alignment explanation
Indices: 113536372--113536420 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
113536362 TTTTAGGTAA
*
113536372 ATTAAATCATATTTATTA-AT
1 ATTAAATCAAATTTATTAGAT
* *
113536392 GATTAACTTAAATTTATTAGAT
1 -ATTAAATCAAATTTATTAGAT
113536414 ATTAAAT
1 ATTAAAT
113536421 ATTTTTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTAAATCAAATTTATTAGAT
Found at i:113537903 original size:238 final size:239
Alignment explanation
Indices: 113537447--113538147 Score: 981
Period size: 238 Copynumber: 2.9 Consensus size: 239
113537437 GTCACTTGAA
* * *
113537447 ATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTTCTCAGAATTTCTGCATTTCCTCGTCTGGGT
1 ATTTTCTCTG-TTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGT-TGGGT
* ** *
113537512 CATCTCCAATTTTTGATAGCTTTTATGTTTTGT-TTTTCATT--CATAATGAGTTCT-CTTCTAC
64 CATCTCCAATATTTGATATATTTTATGTTTT-TCTTTTCATTGGC-T-AT-A-TTCTGCTCCT--
** * * *
113537573 TCCTTTGTTTTGTTT-AATCATTAATTTCGATATGTTGTTTAAGATAATTG-ATTTTCTAATTAA
122 TTGTTT-TTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAA
* *
113537636 ACTGGCTACACTGCATTTGATAATTTACTCTGATTTACTTGTTTATTATTACTG
186 ACTGGCTACATTGCATTTGATAATTTACTCTGATTTACTTGTTTATGATTACTG
*
113537690 ATTTTCTCTGTTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGTATTTTCTCGTTGGGTCA
1 ATTTTCTCTGTTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGTCA
113537755 TCTCCAATATTTGATATATTTTATGTTTTTCTTTTCATTGGCT-TATTCTGCTCCTTTGTTTTTT
66 TCTCCAATATTTGATATATTTTATGTTTTTCTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
* *
113537819 TTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTACTGAATTTTCTAATTAAATTGGCTACA
131 TTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAACTGGCTACA
*
113537884 TTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACTG
196 TTGCATTTGATAATTTACTCTGATTTACTTGTTTATGATTACTG
113537928 ATTTTCTCTGTTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGTCA
1 ATTTTCTCTGTTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGTCA
* * *
113537993 TCTCCAATATTTGATATA--TT-TGATATTGTTTTCATTGGCTATATTCTGCTCCTTTGGTTTTT
66 TCTCCAATATTTGATATATTTTATGTTTTTCTTTTCATTGGCTATATTCTGCTCCTTT-GTTTTT
* * *
113538055 TTTTTTAAATCATTAATTTGGACATGTTGTTTAAGATTATTGAATTTTCTAATTAAACTAGCTAT
130 TTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAACTGGCTAC
* * * *
113538120 ATTGCGTGTGATAATTTGCCCTGATTTA
195 ATTGCATTTGATAATTTACTCTGATTTA
113538148 TAAGTTTATG
Statistics
Matches: 419, Mismatches: 31, Indels: 22
0.89 0.07 0.05
Matches are distributed among these distances:
235 17 0.04
236 23 0.05
237 126 0.30
238 149 0.36
239 5 0.01
240 2 0.00
241 41 0.10
242 45 0.11
243 11 0.03
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.53
Consensus pattern (239 bp):
ATTTTCTCTGTTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGTCA
TCTCCAATATTTGATATATTTTATGTTTTTCTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
TTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAACTGGCTACA
TTGCATTTGATAATTTACTCTGATTTACTTGTTTATGATTACTG
Found at i:113541838 original size:3 final size:3
Alignment explanation
Indices: 113541830--113541866 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
113541820 TTCCTTTAAA
113541830 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
113541867 TCTTCTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:113544270 original size:104 final size:104
Alignment explanation
Indices: 113543919--113544503 Score: 554
Period size: 104 Copynumber: 5.6 Consensus size: 104
113543909 GTAGTGTCTA
* * * * *
113543919 TATAGTAGCTGATTATTTCATTTGAACTATAGTTTGATTCGTAAAAGCTGAA-CAATGTATACAC
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACAT
113543983 GAATTATTAAATTTTGGCAT-TCTGAAATTCATAGTATTGG
65 GAATTATTAAATTTTGGCATAT-TGAAATTCATAGTATTGG
* **
113544023 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTCG-ATCATGGATATTT
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCT-GAATCATGGATA-CA
* ** * ** * *
113544087 TG-CTTGGTAACTTTTCCTCCTATTAACGCAAACTACA-A-TATTGG
64 TGAATTATTAAATTTT-GGCATATT---G-AAA-TTCATAGTATTGG
* * ** * * *
113544131 TTTAGTAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACACG
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
* *
113544196 AATCATTAAATTTTGGCATGTTGAAATTCATAGTATTGG
66 AATTATTAAATTTTGGCATATTGAAATTCATAGTATTGG
* * * ** *
113544235 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTGAAACCTCAATCATGGATATTTT
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
** * * * ** * *
113544300 TCTCAATAACTTTTCCTCCTATTACGCAAATT-ACAGTATTGG
66 AATTATTAAATTTT-GGCATATT--G-AAATTCATAGTATTGG
* ** *
113544342 TTTAGTAGTTGATGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATG
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
* * *
113544407 AATTATTAAATTTTGGCATGTTGAAATTTATAGCATTGG
66 AATTATTAAATTTTGGCATATTGAAATTCATAGTATTGG
* *
113544446 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAATCTGAATCATGG
1 TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGG
113544504 TTATTTTGCT
Statistics
Matches: 377, Mismatches: 85, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
102 3 0.01
103 9 0.02
104 191 0.51
105 10 0.03
106 5 0.01
107 80 0.21
108 72 0.19
109 4 0.01
110 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (104 bp):
TATAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACATG
AATTATTAAATTTTGGCATATTGAAATTCATAGTATTGG
Found at i:113544366 original size:107 final size:107
Alignment explanation
Indices: 113544015--113544660 Score: 607
Period size: 104 Copynumber: 6.1 Consensus size: 107
113544005 TGAAATTCAT
113544015 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTCG-ATCAT
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCT-GAATCAT
* ** *
113544079 GGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGCAAACTAC
65 GGATATTTTACTCAGTAACTTTT-CTCCTATTAACGCAAATTAC
* * * ** * * *
113544123 AATATTGGTTTAGTAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATG
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATG
**** * * * ** * * *
113544188 GATACACGAATCATTAAATTTTGGCATGTT---G-AAATTCAT
66 GATATTTTACTCAGTAACTTTTCTCCTATTAACGCAAATT-AC
* *
113544227 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTGAAACCTCAATCATG
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATG
* *
113544292 GATATTTTTCTCAATAACTTTTCCTCCTATT-ACGCAAATTAC
66 GATATTTTACTCAGTAACTTTT-CTCCTATTAACGCAAATTAC
* ** * *
113544334 AGTATTGGTTTAGTAGTTGATGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATG
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATG
** * * * * * ** * * *
113544399 GATACATGAATTATTAAATTTTGGCATGTT---G-AAATTTAT
66 GATATTTTACTCAGTAACTTTTCTCCTATTAACGCAAA-TTAC
* *
113544438 AGCATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAATCTGAATCATG
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATG
* * ** *
113544503 GTTATTTTGCTTGGTAACTTTTCTCCTATTAACTCAAATTAC
66 GATATTTTACTCAGTAACTTTTCTCCTATTAACGCAAATTAC
* * * *
113544545 AGTATAGGGATAGTAGTTGATGATTTCGTTTG--CTTATAGTTTGGTTCATAAAACCTGAATCAT
1 AGTATTGGTATAGTAGTTGATGATTTCATTTGAAC-TATAGTTTGGTTCGTAAAACCTGAATCAT
* *
113544608 GGA-ATAGTTACTCAGTAACATTTCCTCCTATTAACGCAAATTAC
65 GGATAT-TTTACTCAGTAAC-TTTTCTCCTATTAACGCAAATTAC
113544652 AGTATTGGT
1 AGTATTGGT
113544661 TGAACTCTAG
Statistics
Matches: 420, Mismatches: 104, Indels: 29
0.76 0.19 0.05
Matches are distributed among these distances:
103 7 0.02
104 150 0.36
105 7 0.02
106 42 0.10
107 139 0.33
108 75 0.18
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (107 bp):
AGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTGGTTCGTAAAACCTGAATCATG
GATATTTTACTCAGTAACTTTTCTCCTATTAACGCAAATTAC
Found at i:113544447 original size:211 final size:212
Alignment explanation
Indices: 113543921--113544610 Score: 1023
Period size: 211 Copynumber: 3.3 Consensus size: 212
113543911 AGTGTCTATA
* * * * *
113543921 TAGTAGCTGATTATTTCATTTGAACTATAGTTTGATTCGTAAAAGCTGAA-CAATGTATACACGA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACACGA
113543985 ATTATTAAATTTTGGCAT-TCTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
65 ATTATTAAATTTTGGCATGT-TGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
*
113544049 CTATAGTTTGGTTCGTAAAACCTCGATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAC
129 CTATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAC
* *
113544114 GCAAACTACAATATTGGTT
194 GCAAATTACAGTATTGGTT
* * * *
113544133 TAGTAGTAGATGATTTGGTTTCAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
*
113544198 TCATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * ***
113544263 ATAGTTTGGTTCGTGAAACCTCAATCATGGATATTTTTCTCAATAACTTTTCCTCCTATT-ACGC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
113544327 AAATTACAGTATTGGTT
196 AAATTACAGTATTGGTT
* * *
113544344 TAGTAGTTGATGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* *
113544409 TTATTAAATTTTGGCATGTTGAAATTTATAGCATTGGTATAGTAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * * *
113544474 ATAGTTTGGTTCGTAAAATCTGAATCATGGTTATTTTGCTTGGTAACTTTT-CTCCTATTAACTC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
* **
113544538 AAATTACAGTATAGGGA
196 AAATTACAGTATTGGTT
* *
113544555 TAGTAGTTGATGATTTCGTTTG--CTTATAGTTTGGTTCATAAAACCTGAATCATGGA
1 TAGTAGTTGATGATTTCGTTTGAAC-TATAGTTTGATTCGTAAAACCTGAATCATGGA
113544611 ATAGTTACTC
Statistics
Matches: 434, Mismatches: 40, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
209 1 0.00
210 37 0.09
211 224 0.52
212 170 0.39
213 2 0.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (212 bp):
TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
TTATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
AAATTACAGTATTGGTT
Found at i:113547679 original size:4 final size:4
Alignment explanation
Indices: 113547670--113547709 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
113547660 AACGTACCTT
113547670 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
113547710 ACACAATTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:113547754 original size:4 final size:4
Alignment explanation
Indices: 113547745--113547779 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
113547735 GACATATACC
113547745 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
113547780 ATTAATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:113549174 original size:15 final size:15
Alignment explanation
Indices: 113549154--113549183 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113549144 CTGAACCCTA
113549154 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
*
113549169 AAAAAATAAAGAAAT
1 AAAAAATAAAAAAAT
113549184 GTTTTATAAC
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:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:113551679 original size:19 final size:19
Alignment explanation
Indices: 113551655--113551692 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
113551645 ATAACTTAAG
113551655 ATATCATCCATACCAACTT
1 ATATCATCCATACCAACTT
113551674 ATATCATCCATACCAACTT
1 ATATCATCCATACCAACTT
113551693 GTATATAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (19 bp):
ATATCATCCATACCAACTT
Found at i:113555100 original size:11 final size:11
Alignment explanation
Indices: 113555084--113555109 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
113555074 TTTTCATGTA
113555084 TTTGGAAGATT
1 TTTGGAAGATT
113555095 TTTGGAAGATT
1 TTTGGAAGATT
113555106 TTTG
1 TTTG
113555110 AAAGTCATAT
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:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTGGAAGATT
Found at i:113563069 original size:30 final size:30
Alignment explanation
Indices: 113563035--113563096 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
113563025 ACTTATTTTA
* *
113563035 TTGTTGATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
113563065 TTGTTAATTTTGTTATCATTTTAAAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
113563095 TT
1 TT
113563097 ACATTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATCATTTTAAAGACAT
Found at i:113564648 original size:15 final size:16
Alignment explanation
Indices: 113564628--113564661 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
113564618 CCGTATTAAA
*
113564628 ACTTTTA-GTTTCGAT
1 ACTTTTAGGTATCGAT
113564643 ACTTTTAGGTATCGAT
1 ACTTTTAGGTATCGAT
113564659 ACT
1 ACT
113564662 CAAGCAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (16 bp):
ACTTTTAGGTATCGAT
Found at i:113571926 original size:6 final size:6
Alignment explanation
Indices: 113571915--113571961 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
113571905 CCAATCTTTC
113571915 TTTTTA TTTTTA TTATTTA TTATTT- TCTTTTA TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TT-TTTA TT-TTTA T-TTTTA TTTTTA TTTTTA TTTT
113571962 AGTTAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.14
6 20 0.54
7 12 0.32
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:113571961 original size:16 final size:15
Alignment explanation
Indices: 113571915--113571962 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
113571905 CCAATCTTTC
*
113571915 TTTTTATTTTTATTA
1 TTTTTATTTTTTTTA
113571930 TTTATTATTTTCTTTTA
1 TTT-TTATTTT-TTTTA
113571947 TTTTTATTTTATTTTA
1 TTTTTATTTT-TTTTA
113571963 GTTAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 3 0.10
16 19 0.66
17 7 0.24
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:113572153 original size:43 final size:42
Alignment explanation
Indices: 113572068--113572160 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
113572058 TATCCATTCT
* * * *
113572068 GCCAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
*
113572110 GCCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCA
113572153 GCCAAACA
1 GCCAAACA
113572161 CCCTTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 21 0.48
43 18 0.41
44 5 0.11
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.19
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
Found at i:113573131 original size:118 final size:118
Alignment explanation
Indices: 113572923--113573153 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 118
113572913 TGTTTTCCAT
* *
113572923 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
113572988 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGAGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
** *
113573041 GGTTATGAGTATGGCTCAAATCGTGATTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
113573106 CTACTTCGAGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGAGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
113573154 ACCGGAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 103 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGAGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:113582612 original size:38 final size:37
Alignment explanation
Indices: 113582562--113582745 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
113582552 ATAGTATTAT
*
113582562 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
113582599 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
113582639 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
113582681 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
113582719 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
113582746 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:113582630 original size:18 final size:18
Alignment explanation
Indices: 113582609--113582762 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
113582599 ATATTAAGAA
113582609 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
113582627 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
113582642 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
113582657 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
113582676 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
113582691 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
113582710 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
113582729 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
113582747 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
113582763 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:113582632 original size:56 final size:55
Alignment explanation
Indices: 113582571--113582762 Score: 208
Period size: 56 Copynumber: 3.3 Consensus size: 55
113582561 TATATTATGA
113582571 TTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
113582627 TTTTATTAAATTATATTTAATAATAATT-ATTTTAA-ATTATATTATATAGTATTATATATTAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATTAAGA--ATTTTAT-TA--AAT-TATA-TAT
113582689 GATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 --TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
113582747 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
113582763 TTAATAATAA
Statistics
Matches: 112, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
55 8 0.07
56 30 0.27
57 15 0.13
58 5 0.04
59 4 0.04
60 4 0.04
61 4 0.04
62 5 0.04
63 15 0.13
64 18 0.16
65 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (55 bp):
TTTTATTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:113582683 original size:120 final size:120
Alignment explanation
Indices: 113582544--113582845 Score: 568
Period size: 120 Copynumber: 2.5 Consensus size: 120
113582534 ATTATTAATC
113582544 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
113582609 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
113582664 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
113582729 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* **
113582784 TATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAA
113582846 TTTTTTTCTA
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 178 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:113583120 original size:16 final size:16
Alignment explanation
Indices: 113583099--113583140 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
113583089 TTATTAAATT
*
113583099 ATATATTTTAATTATA
1 ATATATTTTAATAATA
113583115 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
113583130 AT-TATGTTTAA
1 ATATAT-TTTAA
113583141 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:113583125 original size:15 final size:15
Alignment explanation
Indices: 113583090--113583131 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
113583080 TTAAGAATTT
*
113583090 TATTAAATTAT-ATA
1 TATTTAATTATAATA
113583104 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
113583118 TATTTAATAATAAT
1 TATTTAATTATAAT
113583132 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:113583277 original size:16 final size:16
Alignment explanation
Indices: 113583256--113583297 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
113583246 TTATTAAATT
*
113583256 ATATATTTTAATTATA
1 ATATATTTTAATAATA
113583272 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
113583287 AT-TATGTTTAA
1 ATATAT-TTTAA
113583298 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:113583282 original size:15 final size:15
Alignment explanation
Indices: 113583247--113583288 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
113583237 TTAAGAATTT
*
113583247 TATTAAATTAT-ATA
1 TATTTAATTATAATA
113583261 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
113583275 TATTTAATAATAAT
1 TATTTAATTATAAT
113583289 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:113583311 original size:75 final size:75
Alignment explanation
Indices: 113583232--113583470 Score: 180
Period size: 75 Copynumber: 3.1 Consensus size: 75
113583222 AATTTCTGCT
113583232 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
113583297 AATATGATTA
66 AATATGATTA
* ** * * * ** ** * * *
113583307 AATTATTTATTATTGATATT-AATAATCTTATTAAAATT-TAA-ATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTATAATATATTTAATAATAATTAT-GT
* ** *
113583368 TTACCAAAACAAATTTCTGCT
63 TTA--AATA-TGA--T-T--A
*
113583389 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
113583454 AATATGATTA
66 AATATGATTA
*
113583464 AAATATT
1 AATTATT
113583471 TATTATTGAT
Statistics
Matches: 113, Mismatches: 36, Indels: 30
0.63 0.20 0.17
Matches are distributed among these distances:
73 10 0.09
74 7 0.06
75 25 0.22
76 15 0.13
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 15 0.13
82 18 0.16
83 7 0.06
84 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:113583362 original size:157 final size:157
Alignment explanation
Indices: 113583076--113583547 Score: 890
Period size: 157 Copynumber: 3.0 Consensus size: 157
113583066 AAGAATATTG
113583076 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
113583141 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
113583206 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
113583233 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
113583298 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
113583363 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
*
113583390 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
* *
113583455 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
* * *
113583520 ATCATTTACTAAAACAAATTTATGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
113583547 A
1 A
113583548 GGGTATTCTA
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 309 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGCTA
Found at i:113583428 original size:18 final size:17
Alignment explanation
Indices: 113583400--113583434 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
113583390 ATTATTAAGA
*
113583400 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
113583417 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
113583435 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:113583678 original size:45 final size:44
Alignment explanation
Indices: 113583599--113583689 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
113583589 ACCTCTATTC
* * *
113583599 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
***
113583643 CATTCAACCAAACAGTTGATTTACTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
113583688 CA
1 CA
113583690 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:113583691 original size:16 final size:16
Alignment explanation
Indices: 113583670--113583721 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
113583660 GATTTACTAT
113583670 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113583686 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
113583702 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
113583718 TACA
1 TACA
113583722 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:113585674 original size:3 final size:3
Alignment explanation
Indices: 113585666--113586253 Score: 122
Period size: 3 Copynumber: 194.3 Consensus size: 3
113585656 AATAGAAGGT
* * * *
113585666 TAA TAA TAA TAA -AA TAA TAA TAA TAGT TAA GCAGG GAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TA-A TAA TAA TAA TAA
* * * * * *
113585713 TGA TAA TGA TAA TAA -AA AAA TAG TAA TAA TAG TAGGT TGAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A T-AA TAA TAA
* * * *
113585760 TAA TAA TAA -AA TAG TAG TAA TAA TAA TTA TAGA -AA TGA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA
* * * ** * *
113585805 -CA TAA -AA TGA TAA TAA TAC TAA TGT TAA TAG TAA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** *
113585850 GAA TAGA -AA TAA TAA TAA TAA TAA TAG TGG TAA TGA TAA TAA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
113585894 AAA TAG TGA TAG TAA -AA TAA TGA TAT TAG TACA TAA -ATA TAAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A T-AA TA-A
* * * * * **
113585941 GATA TAA TAC T-T TAA -AA T-A TAA TAA TAA TAA AAA T-A TAG GCA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
113585983 -AA TAA -ATA TAGA TGAA -AA T-A TAC TAA TAG CAA TAA TACCA TAG
1 TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TA--A TAA
* * ** * * *
113586026 TAA TAA TGA TAA TAA TAA TTA TAGCA TGT TAAA TAA TAG TAG GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA--A TAA T-AA TAA TAA TAA TAA TAA
** * * * * *
113586074 TAA TCG TAA TAA TTA TAA GAA TGA TAA TGA TAA TAGA -GA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA
* * ** * ** *
113586120 TAA TAG TAC TAA TGT TAA TAA TAA TAA -AA TAA AAA TTG TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
113586167 TAA TAA TAA TAA TAT TGA TAA TAGA TAA TAA TAA TACA -AA GGAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA -TAA TAA
* * * *
113586214 TAA TAA TAG TAA TAA TAA AAA CAA TAA TAA TGA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
113586254 CAATTAATTA
Statistics
Matches: 407, Mismatches: 131, Indels: 94
0.64 0.21 0.15
Matches are distributed among these distances:
2 35 0.09
3 332 0.82
4 31 0.08
5 8 0.02
6 1 0.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:113585801 original size:38 final size:38
Alignment explanation
Indices: 113585702--113585827 Score: 89
Period size: 38 Copynumber: 3.2 Consensus size: 38
113585692 TTAAGCAGGG
*
113585702 AATAATAATAAT-GATAATGATAATAAAAAAATAGTAAT
1 AATAATAATTATAGA-AATGATAATAAAAAAATAGTAAT
* * * * * *
113585740 AATAGTAGGTTGA-A-TAATAATAATAATAAAATAGTAGT
1 AATAATA-ATT-ATAGAAATGATAATAAAAAAATAGTAAT
113585778 AATAATAATTATAGAAATGATAATGAACATAAAAT-GATAAT
1 AATAATAATTATAGAAATGATAAT-AA-A-AAAATAG-TAAT
*
113585819 AATACTAAT
1 AATAATAAT
113585828 GTTAATAGTA
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
36 1 0.02
37 3 0.05
38 40 0.62
39 3 0.05
40 2 0.03
41 16 0.25
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (38 bp):
AATAATAATTATAGAAATGATAATAAAAAAATAGTAAT
Found at i:113585801 original size:41 final size:40
Alignment explanation
Indices: 113585711--113585801 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 40
113585701 GAATAATAAT
* *
113585711 AATGATAATGATAATAAAAAAATAGTAATAATAGTAGGTTG
1 AATGATAATAATAATAAAAAAATAGTAATAATAGTA-GTAG
* * * *
113585752 AATAATAATAATAATAAAATAGTAGTAATAATAATTA-TAG
1 AATGATAATAATAATAAAAAAATAGTAATAAT-AGTAGTAG
113585792 AAATGATAAT
1 -AATGATAAT
113585802 GAACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.05
41 36 0.88
42 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (40 bp):
AATGATAATAATAATAAAAAAATAGTAATAATAGTAGTAG
Found at i:113587900 original size:74 final size:72
Alignment explanation
Indices: 113587822--113588010 Score: 236
Period size: 74 Copynumber: 2.5 Consensus size: 72
113587812 AAGTTGCATC
*
113587822 TATTTTAGTGTTATTTAAGTATATATATATTTTTTAAAATTTATTTTTAATTAATTGGAAAATAT
1 TATTTTAGTATT-TTTAAGTAT-TATATATTTTTTAAAATTTATTTTTAATTAATTGGAAAATAT
113587887 TTATTTTGA
64 TTATTTTGA
* * * ** *
113587896 TATTTTTGATATTTTTCATGAATTATATATTTTTTAAAATTTATTTTTAATTTGTTGGGAAATAT
1 TATTTTAG-TATTTTT-AAGTATTATATATTTTTTAAAATTTATTTTTAATTAATTGGAAAATAT
113587961 TTATTTTGA
64 TTATTTTGA
*
113587970 -AGTTTTTAGTAATTTTGAAGTATTATATATTTTTTAAAATT
1 TA--TTTTAGT-ATTTTTAAGTATTATATATTTTTTAAAATT
113588011 ATACAAAAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
73 1 0.01
74 81 0.82
75 17 0.17
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.58
Consensus pattern (72 bp):
TATTTTAGTATTTTTAAGTATTATATATTTTTTAAAATTTATTTTTAATTAATTGGAAAATATTT
ATTTTGA
Found at i:113589011 original size:22 final size:21
Alignment explanation
Indices: 113588953--113589028 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
113588943 TAAAAAGTTT
*
113588953 AAAAATA-TAATA-AAATAAA
1 AAAAATATTAAAACAAATAAA
* * *
113588972 ATATAT-TTAAAA-ACATAAA
1 AAAAATATTAAAACAAATAAA
113588991 AACAAATATTAAAACAAATAAA
1 AA-AAATATTAAAACAAATAAA
* *
113589013 AATAATACTAAAACAA
1 AAAAATATTAAAACAA
113589029 TTCTTAAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.34
20 3 0.07
21 18 0.41
22 8 0.18
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATATTAAAACAAATAAA
Found at i:113589019 original size:21 final size:21
Alignment explanation
Indices: 113588965--113589028 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
113588955 AAATATAATA
113588965 AAAT-AAAAT-ATATTTAAAA-
1 AAATAAAAATAATA-TTAAAAC
* *
113588984 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-TAATATTAAAAC
*
113589006 AAATAAAAATAATACTAAAAC
1 AAATAAAAATAATATTAAAAC
113589027 AA
1 AA
113589029 TTCTTAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 18 0.50
22 11 0.31
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAAATAATATTAAAAC
Found at i:113593346 original size:21 final size:22
Alignment explanation
Indices: 113593320--113593366 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
113593310 CTCTGCTCAA
*
113593320 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
113593341 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
113593363 ACTC
1 ACTC
113593367 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:113601533 original size:26 final size:26
Alignment explanation
Indices: 113601495--113601546 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
113601485 AGAAGGTCCC
*
113601495 TATATTATAATTTTT-TTTATATATTT
1 TATAATATAATTTTTATTT-TATATTT
*
113601521 TATAATATTATTTTTATTTTATATTT
1 TATAATATAATTTTTATTTTATATTT
113601547 GTGTTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATAATATAATTTTTATTTTATATTT
Found at i:113603078 original size:20 final size:20
Alignment explanation
Indices: 113603042--113603080 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113603032 TTTGATTTTA
*
113603042 ATTATAATATATATATATTT
1 ATTATAATAAATATATATTT
113603062 ATTAGTAATAAAT-TATATT
1 ATTA-TAATAAATATATATT
113603081 AAATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTATAATAAATATATATTT
Found at i:113603089 original size:14 final size:15
Alignment explanation
Indices: 113603039--113603107 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 15
113603029 TACTTTGATT
*
113603039 TTAATTATAATAT-A
1 TTAATTATATTATAA
113603053 TATATATT-TATTAGTAA
1 T-TA-ATTATATTA-TAA
*
113603070 TAAATTATATTA-AA
1 TTAATTATATTATAA
113603084 TTAATT-TATTATAA
1 TTAATTATATTATAA
113603098 TTATATTATA
1 TTA-ATTATA
113603108 AGATATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
13 5 0.11
14 13 0.30
15 12 0.27
16 12 0.27
17 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (15 bp):
TTAATTATATTATAA
Found at i:113603246 original size:20 final size:21
Alignment explanation
Indices: 113603196--113603254 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
113603186 ATACATTTGT
*
113603196 AATATATGTATTTAATTATTAA
1 AATATATTTA-TTAATTATTAA
* *
113603218 TAGATATTTATTAATTA-TAA
1 AATATATTTATTAATTATTAA
*
113603238 AATATATTTATAAATTA
1 AATATATTTATTAATTA
113603255 AATAATTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 7 0.23
22 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AATATATTTATTAATTATTAA
Found at i:113603287 original size:30 final size:33
Alignment explanation
Indices: 113603227--113603294 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
113603217 ATAGATATTT
113603227 ATTAATTATAAAATATATTTATAAATTAAAT-A
1 ATTAATTATAAAATATATTTATAAATTAAATAA
* *
113603259 ATTAATTATAAGAT-T-TTTATGTAA-TAAATAA
1 ATTAATTATAAAATATATTTAT-AAATTAAATAA
113603290 ATTAA
1 ATTAA
113603295 AACATGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 10 0.31
31 9 0.28
32 13 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
ATTAATTATAAAATATATTTATAAATTAAATAA
Found at i:113603288 original size:161 final size:163
Alignment explanation
Indices: 113603094--113603411 Score: 389
Period size: 161 Copynumber: 2.0 Consensus size: 163
113603084 TTAATTTATT
* *
113603094 ATAATTATATTATAAGATATTTATATGATAAATAAATTAAATA-AAGACAAATGTGTGGAT-ATG
1 ATAATTATATTATAAGATATTTATATAATAAATAAATTAAA-ACAAGACAAATGTAT-GATGATG
* * * *
113603157 ATTTGATACAAGTGTATAA-A-TAAAAATATATACATTTGTAATATATGTATTTAATTATT-AAT
64 ATATGATACAAGTGTA-AATATTAAAAATAT-TACAATTGTAATAAATATA-TTAATTATTAAAT
* *
113603219 AGATATTTATTAA-TTATAAAATATATTTATAAATTAA
126 AGATATTTAATAAGTTATAAAATATATATATAAATTAA
* * *
113603256 ATAATTA-ATTATAAGATTTTTATGTAATAAATAAATTAAAACATGACAAATGTATGATGATGAT
1 ATAATTATATTATAAGATATTTATATAATAAATAAATTAAAACAAGACAAATGTATGATGATGAT
* * * *
113603320 ATGTTACATGTGTAAATATTAATAATATTACAATTGTAATAAATATATTGATTATTAAATAGATA
66 ATGATACAAGTGTAAATATTAAAAATATTACAATTGTAATAAATATATTAATTATTAAATAGATA
* *
113603385 TTTAATAAGTTATTATATATATATATA
131 TTTAATAAGTTATAAAATATATATATA
113603412 TAGTAAATGA
Statistics
Matches: 133, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
160 14 0.11
161 89 0.67
162 30 0.23
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (163 bp):
ATAATTATATTATAAGATATTTATATAATAAATAAATTAAAACAAGACAAATGTATGATGATGAT
ATGATACAAGTGTAAATATTAAAAATATTACAATTGTAATAAATATATTAATTATTAAATAGATA
TTTAATAAGTTATAAAATATATATATAAATTAA
Found at i:113604237 original size:15 final size:16
Alignment explanation
Indices: 113604204--113604247 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
113604194 TTAAATTAAT
113604204 ATTGAATTATATATTG
1 ATTGAATTATATATTG
*
113604220 ATTGAATT-TATTTTG
1 ATTGAATTATATATTG
113604235 ATTGAATTATATA
1 ATTGAATTATATA
113604248 ATAAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTGAATTATATATTG
Found at i:113607252 original size:61 final size:65
Alignment explanation
Indices: 113607175--113607334 Score: 172
Period size: 66 Copynumber: 2.5 Consensus size: 65
113607165 TGGAAGGCTC
* * *
113607175 AAAATGGGTTTGGATTAACTATTTACAAATATAG-GC-A-TA-TTCGAGGTAT-AATTTT-AGAC
1 AAAATGGATTTAGATTAACTATTTACAAATATAGAGCAACAACTT-GAGGTATAAATTTTAAG-C
113607234 TT
64 TT
*
113607236 AAAATGGATTTAGATTAACCATTTACAAATAT-GAGCAAACAAGCTTGAGGTATAAATTTTAAGC
1 AAAATGGATTTAGATTAACTATTTACAAATATAGAGC-AACAA-CTTGAGGTATAAATTTTAAGC
113607300 TT
64 TT
* * *
113607302 AAAATAGACTTAGATTAACTTTTTACAAATATA
1 AAAATGGATTTAGATTAACTATTTACAAATATA
113607335 AATAAACTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
60 1 0.01
61 31 0.38
63 1 0.01
64 1 0.01
65 7 0.09
66 39 0.48
67 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.35
Consensus pattern (65 bp):
AAAATGGATTTAGATTAACTATTTACAAATATAGAGCAACAACTTGAGGTATAAATTTTAAGCTT
Found at i:113611814 original size:18 final size:18
Alignment explanation
Indices: 113611791--113611825 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113611781 TGTTAATATA
113611791 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
113611809 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
113611826 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:113615620 original size:11 final size:11
Alignment explanation
Indices: 113615570--113615631 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
113615560 TAACTCTTTT
113615570 TAAAAAATTAA
1 TAAAAAATTAA
**
113615581 TACTTAAATATAA
1 TA-AAAAAT-TAA
*
113615594 CTAAAAAAGTAA
1 -TAAAAAATTAA
113615606 -AAAAAATTAA
1 TAAAAAATTAA
113615616 TAAAAAATTAA
1 TAAAAAATTAA
113615627 TAAAA
1 TAAAA
113615632 GTTATAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 9 0.22
11 17 0.41
12 7 0.17
13 6 0.15
14 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAAAATTAA
Found at i:113615621 original size:21 final size:21
Alignment explanation
Indices: 113615586--113615639 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
113615576 ATTAATACTT
113615586 AAATATAACTAAAAAAGTAAAAA
1 AAAT-TAA-TAAAAAAGTAAAAA
* *
113615609 AAATTAATAAAAAATTAATAA
1 AAATTAATAAAAAAGTAAAAA
*
113615630 AAGTT-ATAAA
1 AAATTAATAAA
113615640 TATTAAAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 16 0.57
22 3 0.11
23 4 0.14
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATTAATAAAAAAGTAAAAA
Found at i:113618486 original size:3 final size:3
Alignment explanation
Indices: 113618478--113618521 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
113618468 ATTTTAGAAC
113618478 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
113618522 ATTGTGCGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:113621312 original size:22 final size:22
Alignment explanation
Indices: 113621265--113621306 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
113621255 TAATCTACTT
*
113621265 TCGACCAAAGTAAATTCAATTA
1 TCGACCAAAGTAAATTAAATTA
113621287 TCGACCAAA-TAAA-TAAATTA
1 TCGACCAAAGTAAATTAAATTA
113621307 AATCGATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (22 bp):
TCGACCAAAGTAAATTAAATTA
Found at i:113630271 original size:17 final size:17
Alignment explanation
Indices: 113630249--113630282 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
113630239 TTGGTATAGT
113630249 TGGAATATAT-AACACAA
1 TGGAATAT-TCAACACAA
113630266 TGGAATATTCAACACAA
1 TGGAATATTCAACACAA
113630283 ACAGCTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TGGAATATTCAACACAA
Found at i:113658727 original size:34 final size:34
Alignment explanation
Indices: 113658689--113658759 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
113658679 AACACATGTT
113658689 CAATCACAGTATTAATCATATAGTGAAATAGAAA
1 CAATCACAGTATTAATCATATAGTGAAATAGAAA
113658723 CAATCACAGTATTAATCATATAGTGAAATAGAAA
1 CAATCACAGTATTAATCATATAGTGAAATAGAAA
113658757 CAA
1 CAA
113658760 AAAATAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (34 bp):
CAATCACAGTATTAATCATATAGTGAAATAGAAA
Found at i:113667123 original size:29 final size:29
Alignment explanation
Indices: 113667068--113667123 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
113667058 AGTAAAAACC
**
113667068 ATAAGTTAAGGGCTTATTTAACTATAAAA
1 ATAAGTTAAGGGCTTATTTAAAAATAAAA
*
113667097 ATAAGTTAAGGGCTTGTTTAAAAATAA
1 ATAAGTTAAGGGCTTATTTAAAAATAA
113667124 TATAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (29 bp):
ATAAGTTAAGGGCTTATTTAAAAATAAAA
Found at i:113671978 original size:14 final size:14
Alignment explanation
Indices: 113671948--113671986 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
113671938 GTACCACCTC
113671948 TTATAACAAATAAAT
1 TTATAA-AAATAAAT
* *
113671963 TTATATAAATATAT
1 TTATAAAAATAAAT
113671977 TTATAAAAAT
1 TTATAAAAAT
113671987 TCGAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTATAAAAATAAAT
Found at i:113682368 original size:23 final size:24
Alignment explanation
Indices: 113682320--113682364 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
113682310 TATTAATATT
113682320 AATAAATTTTTATAGTTAAATTTA
1 AATAAATTTTTATAGTTAAATTTA
113682344 AATAAATTTTT-TA-TTAAATTT
1 AATAAATTTTTATAGTTAAATTT
113682365 TAAACAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AATAAATTTTTATAGTTAAATTTA
Found at i:113689785 original size:20 final size:18
Alignment explanation
Indices: 113689750--113689790 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
113689740 CAAACTTTAA
113689750 TTTTCCCTTTTTTCTTTC
1 TTTTCCCTTTTTTCTTTC
113689768 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTT-TTTCTTTC
113689788 TTT
1 TTT
113689791 CCTTGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCCCTTTTTTCTTTC
Found at i:113690034 original size:20 final size:20
Alignment explanation
Indices: 113690011--113690048 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
113690001 TAATTATTTC
113690011 ATTAATAAATATCTTTTATA
1 ATTAATAAATATCTTTTATA
113690031 ATTAATAAATATCTTTTA
1 ATTAATAAATATCTTTTA
113690049 ATACTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATAAATATCTTTTATA
Found at i:113691805 original size:24 final size:24
Alignment explanation
Indices: 113691756--113691801 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
113691746 TAATAATATT
*
113691756 AATATATTTTTATAGTTAAATTTA
1 AATAAATTTTTATAGTTAAATTTA
*
113691780 AATAAATTTTTTTA-TTAAATTT
1 AATAAATTTTTATAGTTAAATTT
113691802 TAAACAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AATAAATTTTTATAGTTAAATTTA
Found at i:113693271 original size:93 final size:93
Alignment explanation
Indices: 113693159--113693329 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
113693149 GCCCATAAGT
* *
113693159 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113693224 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
113693252 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113693317 CGAGTTCGGATGC
66 CGAGCTCGGATGC
113693330 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:113693326 original size:46 final size:46
Alignment explanation
Indices: 113693151--113693326 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
113693141 TGTAACCCGC
* *
113693151 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113693197 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
113693243 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113693290 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
113693327 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:113695754 original size:15 final size:15
Alignment explanation
Indices: 113695707--113695755 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
113695697 CAAAGATAAC
113695707 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
113695720 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
113695735 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
113695750 AAGAAA
1 AAGAAA
113695756 CCCAATATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 6 0.20
14 3 0.10
15 20 0.67
16 1 0.03
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:113698812 original size:93 final size:93
Alignment explanation
Indices: 113698700--113698870 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
113698690 GCCCATAAGT
* *
113698700 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113698765 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
113698793 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113698858 CGAGTTCGGATGC
66 CGAGCTCGGATGC
113698871 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:113698867 original size:46 final size:46
Alignment explanation
Indices: 113698692--113698867 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
113698682 TGTAACCCGC
* *
113698692 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113698738 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
113698784 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113698831 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
113698868 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:113700687 original size:41 final size:41
Alignment explanation
Indices: 113700566--113700690 Score: 189
Period size: 41 Copynumber: 3.0 Consensus size: 41
113700556 TTGTAAAACA
* *
113700566 CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTTG-TAAAACGCCGCTAAAAGT
* *
113700607 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
*
113700648 CGGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
113700689 CA
1 CA
113700691 TATAACCCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
40 15 0.20
41 60 0.80
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
Found at i:113700928 original size:7 final size:7
Alignment explanation
Indices: 113700916--113700979 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
113700906 TTTATTTTTT
*
113700916 GGTTTAC
1 GGTTTAA
113700923 GGTTTAA
1 GGTTTAA
**
113700930 TATTTAA
1 GGTTTAA
113700937 GGTTTAA
1 GGTTTAA
*
113700944 GGTTTAT
1 GGTTTAA
*
113700951 GGTTTAG
1 GGTTTAA
*
113700958 GGTTTTAT
1 GG-TTTAA
113700966 GGTTTAA
1 GGTTTAA
113700973 GGTTTAA
1 GGTTTAA
113700980 TGGCCATGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:113700966 original size:15 final size:15
Alignment explanation
Indices: 113700932--113700982 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
113700922 CGGTTTAATA
*
113700932 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
*
113700946 TTTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
113700961 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
113700976 TTAATGG
1 TTTATGG
113700983 CCATGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:113701513 original size:8 final size:8
Alignment explanation
Indices: 113701502--113701572 Score: 96
Period size: 8 Copynumber: 9.4 Consensus size: 8
113701492 TCAAAAAAAA
113701502 TAAAAATT
1 TAAAAATT
113701510 TAAAAATT
1 TAAAAATT
113701518 T-AAAATT
1 TAAAAATT
113701525 TAAAAA-T
1 TAAAAATT
*
113701532 AAAAAATT
1 TAAAAATT
113701540 TAAAAA--
1 TAAAAATT
*
113701546 TAAAAACT
1 TAAAAATT
113701554 TAAAAATT
1 TAAAAATT
113701562 TAAAAATT
1 TAAAAATT
113701570 TAA
1 TAA
113701573 TATTTAATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
6 6 0.11
7 13 0.23
8 37 0.66
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (8 bp):
TAAAAATT
Found at i:113701514 original size:15 final size:15
Alignment explanation
Indices: 113701496--113701572 Score: 86
Period size: 15 Copynumber: 5.1 Consensus size: 15
113701486 ATAAACTCAA
113701496 AAAAAATAAAAATTT
1 AAAAAATAAAAATTT
* *
113701511 AAAAATTTAAAATTT
1 AAAAAATAAAAATTT
113701526 -AAAAATAAAAAATTT
1 AAAAAAT-AAAAATTT
*
113701541 -AAAAATAAAAACTT
1 AAAAAATAAAAATTT
*
113701555 AAAAATTTAAAAATTT
1 AAAAA-ATAAAAATTT
113701571 AA
1 AA
113701573 TATTTAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.23
15 30 0.58
16 10 0.19
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:113701522 original size:22 final size:21
Alignment explanation
Indices: 113701497--113701568 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 21
113701487 TAAACTCAAA
113701497 AAAAATAAAAATTTAAAAATTT
1 AAAAATAAAAA-TTAAAAATTT
* *
113701519 AAAATTTAAAAATAAAAAATTT
1 AAAA-ATAAAAATTAAAAATTT
113701541 AAAAATAAAAACTTAAAAATTT
1 AAAAATAAAAA-TTAAAAATTT
113701563 AAAAAT
1 AAAAAT
113701569 TTAATATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.14
22 32 0.73
23 6 0.14
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATAAAAATTAAAAATTT
Found at i:113701566 original size:7 final size:7
Alignment explanation
Indices: 113701504--113701584 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
113701494 AAAAAAAATA
113701504 AAAATTT
1 AAAATTT
113701511 AAAAATTT
1 -AAAATTT
113701519 AAAATTT
1 AAAATTT
**
113701526 AAAAATAA
1 -AAAATTT
113701534 AAAATTT
1 AAAATTT
* *
113701541 AAAAATA
1 AAAATTT
*
113701548 AAAACTTA
1 AAAA-TTT
113701556 AAAATTT
1 AAAATTT
113701563 AAAAATTT
1 -AAAATTT
*
113701571 AATATTT
1 AAAATTT
*
113701578 AATATTT
1 AAAATTT
113701585 TAGTCCATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
7 36 0.59
8 25 0.41
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (7 bp):
AAAATTT
Done.