Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 91 of 295
Found at i:26816422 original size:19 final size:19
Alignment explanation
Indices: 26816398--26816442 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
26816388 CAACTTTTGG
26816398 AATTTTTATAAATATTTTA
1 AATTTTTATAAATATTTTA
* ** *
26816417 AATTTTAATATTTATTTTG
1 AATTTTTATAAATATTTTA
26816436 AATTTTT
1 AATTTTT
26816443 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTATAAATATTTTA
Found at i:26822091 original size:15 final size:15
Alignment explanation
Indices: 26822056--26822107 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26822046 TTAAGAATTT
*
26822056 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26822070 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26822084 TATTTAATAATAAT-
1 TATTTAATTATAATA
26822098 TATGTTAATT
1 TAT-TTAATT
26822108 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26822141 original size:120 final size:120
Alignment explanation
Indices: 26821994--26822223 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
26821984 TTTGAGTAAA
26821994 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
26822059 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
26822114 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
26822179 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
26822224 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:26822189 original size:61 final size:61
Alignment explanation
Indices: 26822004--26822191 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
26821994 TTATAGTATC
26822004 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
26822065 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
26822124 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
26822185 ATATATT
1 ATATATT
26822192 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:26822206 original size:16 final size:16
Alignment explanation
Indices: 26822185--26822226 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26822175 TTATTAAATT
*
26822185 ATATATTTTAATTATA
1 ATATATTTTAATAATA
26822201 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
26822216 AT-TATGTTTAA
1 ATATAT-TTTAA
26822227 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:26822211 original size:15 final size:15
Alignment explanation
Indices: 26822176--26822217 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26822166 TTAAGAATTT
*
26822176 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26822190 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26822204 TATTTAATAATAAT
1 TATTTAATTATAAT
26822218 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:26822452 original size:45 final size:43
Alignment explanation
Indices: 26822352--26822461 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
26822342 TTTTCCATTA
26822352 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
26822391 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
26822436 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
26822462 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:26822463 original size:16 final size:16
Alignment explanation
Indices: 26822442--26822509 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
26822432 GATTTGCTAT
*
26822442 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
26822458 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
26822474 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
26822490 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
26822506 TACA
1 TACA
26822510 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26822910 original size:18 final size:17
Alignment explanation
Indices: 26822877--26822932 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
26822867 TTGAAAGATC
26822877 ATATATTTAAAATATTTAA
1 ATATATTT--AATATTTAA
*
26822896 ATAT-TTTATATTATTAAAA
1 ATATATTTA-A-TATT-TAA
26822915 ATATATTTAATATTTAA
1 ATATATTTAATATTTAA
26822932 A
1 A
26822933 AAGTAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 11 0.35
19 11 0.35
20 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTTAATATTTAA
Found at i:26822941 original size:21 final size:21
Alignment explanation
Indices: 26822895--26822961 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
26822885 AAAATATTTA
*
26822895 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TTAAAAAT
26822917 -ATATTTAATA-TTTAAAAAGT
1 AATATTTAATATTTTAAAAA-T
*
26822937 AATATTTAAAATTTTAAAAAAT
1 AATATTTAATATTTT-AAAAAT
26822959 AAT
1 AAT
26822962 TTCAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.18
20 2 0.05
21 18 0.46
22 7 0.18
23 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
AATATTTAATATTTTAAAAAT
Found at i:26822968 original size:21 final size:19
Alignment explanation
Indices: 26822911--26822968 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
26822901 TTATATTATT
*
26822911 AAAAATATATTTAATATTTA
1 AAAAATA-ATTTAAAATTTA
*
26822931 AAAAGTAATATTTAAAATTTTA
1 AAAAAT-A-ATTTAAAA-TTTA
26822953 AAAAATAATTTCAAAA
1 AAAAATAATTT-AAAA
26822969 ATATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATAATTTAAAATTTA
Found at i:26822969 original size:35 final size:34
Alignment explanation
Indices: 26822926--26822992 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 34
26822916 TATATTTAAT
26822926 ATTTAAAAAGTA-ATATTTAAAATTTTAAAAAATA
1 ATTTAAAAA-TATATATTTAAAATTTTAAAAAATA
*
26822960 ATTTCAAAAATATATATTTAGAATTTTAAAAAA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAA
26822993 ATATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 6 0.20
35 24 0.80
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:26824293 original size:20 final size:20
Alignment explanation
Indices: 26824249--26824298 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
26824239 TTTTTATGAA
26824249 TATTTTG-AATTTTAAAATT
1 TATTTTGAAATTTTAAAATT
* *
26824268 TTTTTTGAAATTTTGGAAA-T
1 TATTTTGAAATTTT-AAAATT
26824288 TATTTT-AAATT
1 TATTTTGAAATT
26824299 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.42
20 12 0.46
21 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TATTTTGAAATTTTAAAATT
Found at i:26825353 original size:9 final size:9
Alignment explanation
Indices: 26825336--26825372 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26825326 TATAGTTTGA
*
26825336 TATTTGAAT
1 TATTCGAAT
26825345 TATTCGAAT
1 TATTCGAAT
*
26825354 TATTCGAGT
1 TATTCGAAT
26825363 TATTCGAAT
1 TATTCGAAT
26825372 T
1 T
26825373 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26825468 original size:23 final size:18
Alignment explanation
Indices: 26825414--26825455 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
26825404 CGAAAAAAAT
26825414 TCGATTAACTCAAATAAC
1 TCGATTAACTCAAATAAC
26825432 TCGATTAACTCAAATAAC
1 TCGATTAACTCAAATAAC
26825450 TCGATT
1 TCGATT
26825456 CATTTAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (18 bp):
TCGATTAACTCAAATAAC
Found at i:26828452 original size:24 final size:23
Alignment explanation
Indices: 26828424--26828471 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
26828414 TCCACGATAG
26828424 ATTTTTTCCCTTTTTAATAAACT
1 ATTTTTTCCCTTTTTAATAAACT
26828447 ATTTTTTCCCTTTTTAATAAACT
1 ATTTTTTCCCTTTTTAATAAACT
26828470 AT
1 AT
26828472 CCCTCATCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTTTCCCTTTTTAATAAACT
Found at i:26832297 original size:29 final size:30
Alignment explanation
Indices: 26832229--26832298 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
26832219 GGTTTTTGAG
* *
26832229 TTTGAGGATTTAGGGTTTTAGGTTGTCGAA
1 TTTGAGGATTTAGGATTTAAGGTTGTCGAA
*
26832259 TTTG-GAGATTT-TGATTTAAGGTTGTCGAA
1 TTTGAG-GATTTAGGATTTAAGGTTGTCGAA
26832288 TTTGAGGATTT
1 TTTGAGGATTT
26832299 GGGTTAGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (30 bp):
TTTGAGGATTTAGGATTTAAGGTTGTCGAA
Found at i:26832347 original size:29 final size:28
Alignment explanation
Indices: 26832259--26832390 Score: 79
Period size: 29 Copynumber: 4.6 Consensus size: 28
26832249 GGTTGTCGAA
* *
26832259 TTTGGAGATTTTGATTTAAGGTTGTCGAA-
1 TTTGG-GATTTTG-TTTAAGGTTTTTGAAT
* * * * *
26832288 TTTGAGGATTTGGGTTAGGGGTTCT-AAT
1 TTTG-GGATTTTGTTTAAGGTTTTTGAAT
* **
26832316 TTTAGGGATTTTGTTTAGGGTTTTTTTAT
1 TTT-GGGATTTTGTTTAAGGTTTTTGAAT
* * *
26832345 TTTCGAATTTTCGTTCAAGGTTTTTGAAT
1 TTTGGGATTTT-GTTTAAGGTTTTTGAAT
26832374 TTTGGGATTTCTGTTTA
1 TTTGGGATTT-TGTTTA
26832391 TTATTTTCAA
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
27 2 0.03
28 31 0.41
29 41 0.54
30 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.26, T:0.52
Consensus pattern (28 bp):
TTTGGGATTTTGTTTAAGGTTTTTGAAT
Found at i:26833296 original size:22 final size:23
Alignment explanation
Indices: 26833271--26833316 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
26833261 CAACCAAACC
*
26833271 AATTCA-ACATATTTTCAAGATA
1 AATTCATACATATTTACAAGATA
26833293 AATTCATACATATTTACAAGATA
1 AATTCATACATATTTACAAGATA
26833316 A
1 A
26833317 CGTCATCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTACAAGATA
Found at i:26833322 original size:23 final size:24
Alignment explanation
Indices: 26833277--26833328 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
26833267 AACCAATTCA
* *
26833277 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTACAAGATAAAGTCATC
*
26833300 ACATATTTACAAGATAACGTCATC
1 ACATATTTACAAGATAAAGTCATC
26833324 ACATA
1 ACATA
26833329 CCCAAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (24 bp):
ACATATTTACAAGATAAAGTCATC
Found at i:26836871 original size:24 final size:24
Alignment explanation
Indices: 26836839--26836885 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
26836829 TAAGGGAGAT
26836839 ACAAAGAAAGCTAGCTTCAGAAAC
1 ACAAAGAAAGCTAGCTTCAGAAAC
26836863 ACAAAGAAAGCTAGCTTCAGAAA
1 ACAAAGAAAGCTAGCTTCAGAAA
26836886 TGCATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.13
Consensus pattern (24 bp):
ACAAAGAAAGCTAGCTTCAGAAAC
Found at i:26843778 original size:158 final size:158
Alignment explanation
Indices: 26843472--26843784 Score: 389
Period size: 158 Copynumber: 2.0 Consensus size: 158
26843462 GGTGAGAGTC
* * * *
26843472 ACAATAGAAGATCATGCATTCAACCTAACAGAAATAGATCATAGATATATCATTAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* ** * **
26843537 ACTATCAAGTTCTTAAATATTTAAGTCTAATTTGGGGTTTTACATTTTTTTCTTAGTCTAGTGCC
66 ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
*
26843602 ATTACAAGAACTAAAAGCCAAAAAAAGA
131 AGTACAAGAACTAAAAGCCAAAAAAAGA
* * * * * *
26843630 ACAACAGAAGATCATGCAATCAACCTACCACAACTGGA-CATAGGTATATCGTAAACACTTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* *
26843694 ACTGTCAAGTT-TTAAAATATTTAAATCTAATAGGGGGTTGTGA-TTTTTTTGTCTTAGTCTAGA
66 ACTATCAAGTTCTT-AAATATTTAAATCTAATAGGGGGTT-TGACATTTTTT-TCTTAGTCTAGA
* *
26843757 ACGAGTACAAGAACTAGAAGCCAAAAAA
128 ACCAGTACAAGAACTAAAAGCCAAAAAA
26843785 GGATGGTATA
Statistics
Matches: 131, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
156 2 0.02
157 60 0.46
158 69 0.53
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (158 bp):
ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
AGTACAAGAACTAAAAGCCAAAAAAAGA
Found at i:26846720 original size:29 final size:30
Alignment explanation
Indices: 26846664--26846721 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
26846654 TTAGCCTTAT
* * *
26846664 TTGATCCTTTTTAATAATACATGAACTAAA
1 TTGATCCTATTTAATAACAAATGAACTAAA
*
26846694 TTGATCC-ATTTAATAACAAATGGACTAA
1 TTGATCCTATTTAATAACAAATGAACTAA
26846722 TTTAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (30 bp):
TTGATCCTATTTAATAACAAATGAACTAAA
Found at i:26856796 original size:29 final size:28
Alignment explanation
Indices: 26856753--26856813 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
26856743 TTTAATGATG
* *
26856753 AATTTAAATTATTAACTTT-TAGTATAGA
1 AATTTAAAATATTAAATTTATAGTATA-A
*
26856781 AATTTATAAATATTAAATTTATATTATAA
1 AATTTA-AAATATTAAATTTATAGTATAA
26856810 AATT
1 AATT
26856814 GTTTGGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 16 0.57
30 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
AATTTAAAATATTAAATTTATAGTATAA
Found at i:26857230 original size:31 final size:31
Alignment explanation
Indices: 26857195--26857253 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
26857185 ATGTGTATGA
*
26857195 TTAAATCAAAATTAAAGTTTCAAGTATACAT
1 TTAAACCAAAATTAAAGTTTCAAGTATACAT
* * *
26857226 TTAAACCACAATTAGAGTTTCACGTATA
1 TTAAACCAAAATTAAAGTTTCAAGTATA
26857254 TAATTGTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAAACCAAAATTAAAGTTTCAAGTATACAT
Found at i:26864466 original size:35 final size:36
Alignment explanation
Indices: 26864426--26864501 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
26864416 ACACATTTAT
*
26864426 ATTACACCATACAACCGAATTCAAGCCTTAATCAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
* *
26864462 -TTACACCATACAACCAAATTCGAGCCTTAATGAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
26864497 ATTAC
1 ATTAC
26864502 GAAAGCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (36 bp):
ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
Found at i:26869452 original size:15 final size:14
Alignment explanation
Indices: 26869425--26869459 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
26869415 TATATTTTTT
*
26869425 AAAAAAATTATATA
1 AAAAAAATAATATA
26869439 AAAAATAATAATATA
1 AAAAA-AATAATATA
26869454 AAAAAA
1 AAAAAA
26869460 GTCATACGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAATAATATA
Found at i:26875063 original size:25 final size:25
Alignment explanation
Indices: 26875034--26875090 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
26875024 TTTGGGCTGA
*
26875034 ATTGAATAGAATGTATACTAAATGG
1 ATTGAATAGAATATATACTAAATGG
* *
26875059 ATTGAAATTGATTATATACTAAATGG
1 ATTG-AATAGAATATATACTAAATGG
26875085 ATTGAA
1 ATTGAA
26875091 ATTGATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (25 bp):
ATTGAATAGAATATATACTAAATGG
Found at i:26875078 original size:26 final size:26
Alignment explanation
Indices: 26875047--26875099 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26875037 GAATAGAATG
26875047 TATACTAAATGGATTGAAATTGATTA
1 TATACTAAATGGATTGAAATTGATTA
26875073 TATACTAAATGGATTGAAATTGATTA
1 TATACTAAATGGATTGAAATTGATTA
26875099 T
1 T
26875100 TTAGACCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (26 bp):
TATACTAAATGGATTGAAATTGATTA
Found at i:26880826 original size:20 final size:20
Alignment explanation
Indices: 26880788--26880835 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
26880778 TAAATTCTAA
* **
26880788 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
26880808 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
26880828 AAA-ATAAA
1 AAAGATAAA
26880836 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:26880860 original size:27 final size:26
Alignment explanation
Indices: 26880830--26880892 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
26880820 AGATAATTAA
26880830 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * *
26880857 AATAATAATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
26880884 AATATAAAT
1 AATA-AAAT
26880893 AAAATGGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:26881652 original size:96 final size:96
Alignment explanation
Indices: 26881528--26881781 Score: 404
Period size: 96 Copynumber: 2.6 Consensus size: 96
26881518 CTTAGGAAAA
* *
26881528 ATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCGGTTACTCAGCCCAA
1 ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCTACCCCGGTTACTCAGCCCAA
* *
26881593 CACATTCCTAATTTTTATTTTTCGTAAGAAC
66 AACATTCCTAATTTTTATTTTTCCTAAGAAC
*
26881624 ATATCGAATCTTTTGACGCGAAGAGAGATGACAACCAAGCA-CCTCACCCCGGTTACTCAGCCCA
1 ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCT-ACCCCGGTTACTCAGCCCA
26881688 AAACATTCCTAATTTTTATTTTTCCTAAGAAC
65 AAACATTCCTAATTTTTATTTTTCCTAAGAAC
* *
26881720 ATATCGAACCTTTTGACGCGAA-ATAGGATGACAACCCAAGCACCTTACCCCGGTTACTCAGC
1 ATATCGAACCTTTTGACGCGAAGAGA-GATGACAA-CCAAGCACCCTACCCCGGTTACTCAGC
26881782 TAGTCACGTC
Statistics
Matches: 146, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
95 5 0.03
96 116 0.79
97 23 0.16
98 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (96 bp):
ATATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCTACCCCGGTTACTCAGCCCAA
AACATTCCTAATTTTTATTTTTCCTAAGAAC
Found at i:26882764 original size:26 final size:26
Alignment explanation
Indices: 26882735--26882842 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
26882725 TGGTACAAAT
*
26882735 TGATAATGGGGTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
26882761 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26882787 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26882813 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26882839 TGAT
1 TGAT
26882843 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:26885530 original size:5 final size:5
Alignment explanation
Indices: 26885520--26885581 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
26885510 TTAATATCTG
* *
26885520 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAAA AATAA AATGA AATGAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AAT-AA
26885569 AATAAA AATAA AA
1 AAT-AA AATAA AA
26885582 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.06
4 4 0.09
5 27 0.57
6 13 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:26891972 original size:20 final size:20
Alignment explanation
Indices: 26891934--26891976 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26891924 TAAATTCTAA
* **
26891934 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
26891954 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
26891974 AAA
1 AAA
26891977 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:26903084 original size:20 final size:20
Alignment explanation
Indices: 26903059--26903098 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26903049 GATATCCGAG
26903059 GTTAGTTTATAAGCAATAAA
1 GTTAGTTTATAAGCAATAAA
26903079 GTTAGTTTATAAGCAATAAA
1 GTTAGTTTATAAGCAATAAA
26903099 CGTTGTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (20 bp):
GTTAGTTTATAAGCAATAAA
Found at i:26903285 original size:39 final size:42
Alignment explanation
Indices: 26903242--26903365 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 42
26903232 ATAAGATTAA
26903242 CTTTG-TAACAGTG-AT-ATATCAGGCATATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
** * *
26903281 CTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
** * ** *
26903323 CTTT-ATGCCGGTGTATTGA-ATCAGGTTTATTACCTAGCAGG
1 CTTTGATAACAGTGTA-TGATATCAGGCATATTGCCTAGCAGG
26903364 CT
1 CT
26903366 CTGTGCCGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
39 5 0.07
40 5 0.07
41 35 0.47
42 30 0.40
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
CTTTGATAACAGTGTATGATATCAGGCATATTGCCTAGCAGG
Found at i:26903304 original size:42 final size:43
Alignment explanation
Indices: 26903257--26903377 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 43
26903247 TAACAGTGAT
*
26903257 ATATCAGGCATATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
26903299 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
* * *
26903341 A-ATCAGGTTTATTACCTAGCAGGCTCTG-TGCCGGTGT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGT
26903378 TTTATACAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
41 43 0.59
42 30 0.41
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
Found at i:26915237 original size:44 final size:44
Alignment explanation
Indices: 26915105--26915242 Score: 136
Period size: 44 Copynumber: 3.1 Consensus size: 44
26915095 AGGGTAGCAA
* *
26915105 GGAAGCAGACTGAAGATTGAAGACCTTATTTCCCTGAAGTTGCAGT
1 GGAA-CAGACTGAAGATAG-AGATCTTATTTCCCTGAAGTTGCAGT
* ** * * *
26915151 GGAGCAGGTTGAAG-TAGTGAGTCTTATCTCCAT-AATGTTGCAGT
1 GGAACAGACTGAAGATAGAGA-TCTTATTTCCCTGAA-GTTGCAGT
* *
26915195 GGAACAGACTGAAGATAGCGATCTTATTTCCCTGAAGATGCAGT
1 GGAACAGACTGAAGATAGAGATCTTATTTCCCTGAAGTTGCAGT
26915239 GGAA
1 GGAA
26915243 TGGATTGAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
43 4 0.05
44 51 0.70
45 15 0.21
46 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
GGAACAGACTGAAGATAGAGATCTTATTTCCCTGAAGTTGCAGT
Found at i:26915369 original size:44 final size:45
Alignment explanation
Indices: 26915310--26915428 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
26915300 CATAACAAAC
* * *
26915310 CTTATCCCCCTGAAGTTGCAGTAGG-GCA-AGTTGAAGTTA-CA-AGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGA-CTGAAGATAGCAGA-T
26915354 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
* * *
26915399 CTTATCTCCTTGAAGTTGCAATGAAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
26915429 TCAAGCTACA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 2 0.03
44 31 0.48
45 31 0.48
46 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
Found at i:26915587 original size:45 final size:46
Alignment explanation
Indices: 26915533--26915626 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
26915523 AGGGCAGCAA
*
26915533 GGAAGCAGACTGAAGATTGA-AGGCCTTATCTCCCTAAAGTTACAGT
1 GGAAGCAGACTGAAGA-TGACAGACCTTATCTCCCTAAAGTTACAGT
* *
26915579 GGAA-CAGACTGAAGATGACAGATCTTATCTCCCTAAAGTTGCAGT
1 GGAAGCAGACTGAAGATGACAGACCTTATCTCCCTAAAGTTACAGT
26915624 GGA
1 GGA
26915627 GTAGATCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 3 0.07
45 37 0.84
46 4 0.09
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (46 bp):
GGAAGCAGACTGAAGATGACAGACCTTATCTCCCTAAAGTTACAGT
Found at i:26915703 original size:44 final size:44
Alignment explanation
Indices: 26915557--26915850 Score: 158
Period size: 44 Copynumber: 6.6 Consensus size: 44
26915547 GATTGAAGGC
* * * *
26915557 CTTATCTCCCTAAAGTTACAGTGGAAC-AGACTGAAGATGAC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGAT-ACAAG-T
* * ** *
26915602 CTTATCTCCCTAAAGTTGCAGTGGAG-TAGATCAAAGCCATA-AA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAG--ATACAAGT
* * *
26915646 CTTGTCCCCCTGAAGTTGCAGTGG-GACAAGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAG-CAAGTTGAAGATACAAGT
* * * *
26915690 CTTATCTCTCTGAAGTTGTAGTGGAGC-AGACTAAAGATACCAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAGT
* * *
26915734 CTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAA-ACTACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGA-TACAAGT
* * * * *
26915778 TTTATCTCCCTGAAGTTGCAGTAGAG-TAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAGT
** * *
26915823 CTTATCTCTTTGAAATTGCAGTAGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
26915851 GATCAAAGCT
Statistics
Matches: 190, Mismatches: 41, Indels: 35
0.71 0.15 0.13
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 112 0.59
45 63 0.33
46 2 0.01
47 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGT
Found at i:26915745 original size:88 final size:89
Alignment explanation
Indices: 26915601--26915850 Score: 238
Period size: 88 Copynumber: 2.8 Consensus size: 89
26915591 AGATGACAGA
* * * ** * * * * *
26915601 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TCAAAGCCA-TAAACCTTGTCCCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAAGATAGCAAATCTTATCTCCCTGAAATTG
**
26915664 CAGTGG-GACAAGTTGAAGTTACAAG
65 CAGTGGAG-CAAGTTGAAACTACAAG
* * * *
26915689 TCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTAAAGATA-CCAATCTTATCTCCCTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAATTGC
* *
26915753 AGTGGAGCAGGTTGAAACTACGAG
66 AGTGGAGCAAGTTGAAACTACAAG
* * * **
26915777 TTTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGATAGCAAATCTTATCTCTTTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAATTGC
*
26915842 AGTAGAGCA
66 AGTGGAGCA
26915851 GATCAAAGCT
Statistics
Matches: 133, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
88 102 0.77
89 31 0.23
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAATTGC
AGTGGAGCAAGTTGAAACTACAAG
Found at i:26916039 original size:44 final size:44
Alignment explanation
Indices: 26915917--26916040 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 44
26915907 CATGGTGAAT
* * ** *
26915917 CTTATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGTCACAAAC
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAAC
* **
26915961 CTTATCCCCCTGAAGTTGCAGTAGG-GCAGGTTGAAGTTGCAAAC
1 CTTATCCCCCTGAAGTTGCAGT-GGAGCAGATTGAAGTCACAAAC
* *
26916005 CTTA-CCTCTCTGAAGTTGCAGTGGAGCACATTGAAG
1 CTTATCC-CCCTGAAGTTGCAGTGGAGCAGATTGAAG
26916041 ATACTTGAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 4 0.06
44 60 0.91
45 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAAC
Found at i:26921859 original size:15 final size:15
Alignment explanation
Indices: 26921839--26921868 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26921829 TTCACTGTTA
26921839 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26921854 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26921869 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:26924839 original size:37 final size:35
Alignment explanation
Indices: 26924788--26924895 Score: 100
Period size: 37 Copynumber: 3.1 Consensus size: 35
26924778 ATTTTAAAAA
*
26924788 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATA-TTTAATATTAAATTTAATT
*
26924824 TAATACTTATATTAATA-TT-AT-TT-TA-TTAATT
1 TAATA-TTATATTAATATTTAATATTAAATTTAATT
* * *
26924855 TAATATTAAAGTGATTATCTTAATATTAAATTTAATT
1 TAATATTATA-TTAATAT-TTAATATTAAATTTAATT
26924892 TAAT
1 TAAT
26924896 GTTTATCTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
30 4 0.07
31 15 0.26
32 1 0.02
33 4 0.07
34 4 0.07
35 4 0.07
36 6 0.10
37 20 0.34
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATATTAATATTTAATATTAAATTTAATT
Found at i:26926031 original size:22 final size:22
Alignment explanation
Indices: 26925999--26926040 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26925989 GGTTAGGGTT
26925999 TTTTAAAGTTT-GTGGTTTTAAG
1 TTTTAAAGTTTAG-GGTTTTAAG
*
26926021 TTTTAATGTTTAGGGTTTTA
1 TTTTAAAGTTTAGGGTTTTA
26926041 GGGATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (22 bp):
TTTTAAAGTTTAGGGTTTTAAG
Found at i:26927537 original size:42 final size:43
Alignment explanation
Indices: 26927478--26927638 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 43
26927468 CGTTTTCTCA
**
26927478 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAATCG
* *
26927520 ATGCCGTAGCCCAACTATGGTCTTACACATATT--CATACATCG
1 ATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA-ATCG
*
26927562 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-ATCG
1 ATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATAATCG
*
26927611 ATGCCATAGCCCAGCTATGGTCTTACAC
1 ATGCCATAGCCCAACTATGGTCTTACAC
26927639 GAATCACATA
Statistics
Matches: 101, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
40 4 0.04
41 2 0.02
42 56 0.55
45 2 0.02
48 1 0.01
49 33 0.33
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAATCG
Found at i:26927618 original size:49 final size:48
Alignment explanation
Indices: 26927558--26927728 Score: 206
Period size: 47 Copynumber: 3.6 Consensus size: 48
26927548 ATATTCATAC
*
26927558 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
26927606 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
26927654 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
26927700 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
26927729 TACGGAAATC
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 26 0.24
47 37 0.34
48 13 0.12
49 33 0.30
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:26927629 original size:91 final size:94
Alignment explanation
Indices: 26927510--26927728 Score: 231
Period size: 95 Copynumber: 2.4 Consensus size: 94
26927500 TTACACATCT
* * *
26927510 TCACATAAT-GATGCCGTAGCCCAACTATGGTCTTACAC-ATAT-TCATA-C-A-TCGATGCCAT
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCTACT-GATGCCAT
* *
26927569 AGCCCAGCTATGGTCTTACAC-GTAATCACATA
63 AGCCCAGATATGGTCTTACACAGT-AGCACATA
*
26927601 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCT-ACTGATGCCATAG
* *
26927666 CCCAGATATGGTCTTATACAGTAGCATATA
65 CCCAGATATGGTCTTACACAGTAGCACATA
* * *
26927696 TCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTA
26927729 TACGGAAATC
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
90 2 0.02
91 35 0.32
92 5 0.05
93 27 0.25
95 37 0.34
96 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (94 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTACTGATGCCATAGC
CCAGATATGGTCTTACACAGTAGCACATA
Found at i:26927792 original size:31 final size:31
Alignment explanation
Indices: 26927757--26927936 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
26927747 CTTGTCACTT
* *
26927757 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * *
26927788 GTAGCCGGTGCTATCA-TTCTTCACTAATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
*
26927819 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26927850 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26927881 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26927912 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
26927937 TGTCATTTGC
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 133 0.98
32 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:26928014 original size:50 final size:51
Alignment explanation
Indices: 26927912--26928040 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
26927902 CACTGATCAG
* * *
26927912 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
*
26927963 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTG-CCATTGATCAGATAAGT
*
26928013 GTAGCCAAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
26928041 TTTCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 45 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
Found at i:26935197 original size:35 final size:35
Alignment explanation
Indices: 26935147--26935338 Score: 240
Period size: 35 Copynumber: 5.5 Consensus size: 35
26935137 ACAGTGTTAC
* *
26935147 CTGGTGTGCTAGATGGTACTGACTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26935182 CTGGTGTGTTGGATGGTACTGGCTTTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * * *
26935217 CTAGTGTACTGAATGGTACTGGCTCTTATGAGTAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26935252 ATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
*
26935287 CTAGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
* * *
26935322 ATGCTGTGTTGGATGGT
1 CTGGTGTGCTGGATGGT
26935339 TAACCGTGTA
Statistics
Matches: 130, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 130 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.36
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTACTGGCTCTTATGAGCAT
Found at i:26935272 original size:70 final size:70
Alignment explanation
Indices: 26935159--26935338 Score: 297
Period size: 70 Copynumber: 2.6 Consensus size: 70
26935149 GGTGTGCTAG
* * *
26935159 ATGGTACTGACTCTTATGAGCATCTGGTGTGTTGGATGGTACTGGCTTTTAGGAGCATCTAGTGT
1 ATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCATCTAGTGT
26935224 ACTGA
66 ACTGA
*
26935229 ATGGTACTGGCTCTTATGAGTATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCATCTAGTGT
1 ATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCATCTAGTGT
* *
26935294 GCTGG
66 ACTGA
*
26935299 ATGGTACTGGCTCTTATGAGCATATGCTGTGTTGGATGGT
1 ATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGT
26935339 TAACCGTGTA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.36
Consensus pattern (70 bp):
ATGGTACTGGCTCTTATGAGCATATGGTGTGTTGGATGGTACTGGCTCTTAGGAGCATCTAGTGT
ACTGA
Found at i:26939959 original size:17 final size:17
Alignment explanation
Indices: 26939901--26940029 Score: 60
Period size: 17 Copynumber: 6.9 Consensus size: 17
26939891 ACTTAAATTT
* * *
26939901 TTTTTAATATGTTCAAA
1 TTTTAAATATATTAAAA
*
26939918 TTTTTAATATATTTAAATA
1 TTTTAAATATA-TTAAA-A
*
26939937 TATTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
26939954 TTTTAAATTTGGTTATACTTAATAT
1 TTTTAAA------TATA-TTAA-AA
* *
26939979 TTTTTAATATATTTAAATT
1 TTTTAAATATA-TTAAA-A
* *
26939998 TTTTAAATTTTTTAAAA
1 TTTTAAATATATTAAAA
26940015 TTTTAAATATATTAA
1 TTTTAAATATATTAA
26940030 GAAAATATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
17 30 0.34
18 15 0.17
19 27 0.31
23 4 0.05
24 4 0.05
25 7 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:26940021 original size:78 final size:79
Alignment explanation
Indices: 26939856--26940029 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 79
26939846 ATTTAAAAAT
* *
26939856 TATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAAATTTTTTTTAATATGTTCAAATTT
1 TATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAAATATTTTTTAATATATTCAAATTT
26939921 TTAATATATTTAAA
66 TTAATATATTTAAA
* * *
26939935 TATATTAAATATATTAAAATTTTAAATTTGGTTATACTT-AATATTTTTTAATATATTTAAATTT
1 TATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAAATATTTTTTAATATATTCAAA-TT
*
26939999 TTTAA-ATTTTTTAAA
65 TTTAATA-TATTTAAA
*
26940014 -ATTTTAAATATATTAA
1 TATATTAAATATATTAA
26940030 GAAAATATTT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 35 0.41
79 51 0.59
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (79 bp):
TATATTAAATATATTAAAATTTTAAAATTAGTTATACTTAAATATTTTTTAATATATTCAAATTT
TTAATATATTTAAA
Found at i:26940029 original size:9 final size:9
Alignment explanation
Indices: 26939917--26940029 Score: 60
Period size: 9 Copynumber: 12.8 Consensus size: 9
26939907 ATATGTTCAA
*
26939917 ATTTTTAAT
1 ATTTTAAAT
26939926 ATATTTAAAT
1 AT-TTTAAAT
*
26939936 ATATTAAAT
1 ATTTTAAAT
*
26939945 ATATTAAA-
1 ATTTTAAAT
26939953 ATTTTAAAT
1 ATTTTAAAT
26939962 -TTGGTT--AT
1 ATT--TTAAAT
*
26939970 A-CTT-AAT
1 ATTTTAAAT
*
26939977 ATTTTTTAAT
1 A-TTTTAAAT
26939987 ATATTTAAAT
1 AT-TTTAAAT
*
26939997 TTTTTAAAT
1 ATTTTAAAT
*
26940006 TTTTTAAA-
1 ATTTTAAAT
26940014 ATTTTAAAT
1 ATTTTAAAT
*
26940023 ATATTAA
1 ATTTTAA
26940030 GAAAATATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.02
7 3 0.04
8 18 0.21
9 40 0.48
10 21 0.25
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:26940857 original size:14 final size:14
Alignment explanation
Indices: 26940830--26940886 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
26940820 GATTTTATAG
26940830 TAATATATAATATTA
1 TAATATA-AATATTA
26940845 TAATATAAATATTAA
1 TAATATAAATATT-A
* *
26940860 AAAAATTAAATTATTA
1 TAATA-TAAA-TATTA
26940876 -AATATAAATAT
1 TAATATAAATAT
26940887 AGTAGGAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.08
14 10 0.28
15 14 0.39
16 5 0.14
17 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATAAATATTA
Found at i:26944705 original size:18 final size:20
Alignment explanation
Indices: 26944682--26944721 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26944672 TAGGTTTTGC
*
26944682 TTCTTT-TTT-TTTTTCTTT
1 TTCTTTCTTTATTTCTCTTT
26944700 TTCTTTCTTTATTTCTCTTT
1 TTCTTTCTTTATTTCTCTTT
26944720 TT
1 TT
26944722 TTACTTCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTCTTTATTTCTCTTT
Found at i:26946377 original size:29 final size:27
Alignment explanation
Indices: 26946311--26946377 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
26946301 AAGTTTCATG
26946311 TGTATAATTGCACCAAAGTAAAGTTCA
1 TGTATAATTGCACCAAAGTAAAGTTCA
* * *
26946338 TATATCAAATTGCACATTAAATTAAAGTTCA
1 TGTAT--AATTGCAC--CAAAGTAAAGTTCA
26946369 TGTATAATT
1 TGTATAATT
26946378 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.12
29 12 0.38
31 16 0.50
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAAGTAAAGTTCA
Found at i:26953325 original size:22 final size:21
Alignment explanation
Indices: 26953296--26953341 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
26953286 CATAACAGTG
*
26953296 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAGTAAT-AGAAAA-AAC
26953319 AAAAAAAGTAATAGAAAAAAC
1 AAAAAAAGTAATAGAAAAAAC
26953340 AA
1 AA
26953342 CAAGAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAAAAGTAATAGAAAAAAC
Found at i:26953343 original size:24 final size:23
Alignment explanation
Indices: 26953296--26953353 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
26953286 CATAACAGTG
* *
26953296 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAATAATAAAAAAACAAC
*
26953319 AAAAAAAGTAATAGAAAAAACAAC
1 AAAAAAAATAATA-AAAAAACAAC
* *
26953343 AAGAACAATAA
1 AAAAAAAATAA
26953354 AAATAGTAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (23 bp):
AAAAAAAATAATAAAAAAACAAC
Found at i:26953786 original size:21 final size:22
Alignment explanation
Indices: 26953762--26953812 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
26953752 CCGTATACAG
*
26953762 GTCAAAATGGGAT-AAATATGA
1 GTCAAAATGGGATAAAATAGGA
* *
26953783 GTCAAAATGGGTTAAAATAGGG
1 GTCAAAATGGGATAAAATAGGA
26953805 GTCAAAAT
1 GTCAAAAT
26953813 ACGAAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (22 bp):
GTCAAAATGGGATAAAATAGGA
Found at i:26954083 original size:3 final size:3
Alignment explanation
Indices: 26954077--26954108 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26954067 AGTTTAAAAA
26954077 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
26954109 AGCAATAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26956673 original size:22 final size:24
Alignment explanation
Indices: 26956649--26956702 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
26956639 TCATTATATT
26956649 AATATAATATAAT-TTTTAAT-AT
1 AATATAATATAATATTTTAATGAT
26956671 AATAT-A-ATAATATTTTAATGAT
1 AATATAATATAATATTTTAATGAT
*
26956693 AAAATAATAT
1 AATATAATAT
26956703 TTATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 11 0.41
23 1 0.04
24 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATAATATTTTAATGAT
Found at i:26957281 original size:14 final size:13
Alignment explanation
Indices: 26957259--26957315 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
26957249 AACTGTTTAG
*
26957259 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
26957273 TATTATTGTATTA
1 TATTATTGTAATA
*
26957286 CATTTATTGTAATA
1 TA-TTATTGTAATA
*
26957300 T-TTATTGTATTA
1 TATTATTGTAATA
26957312 TATT
1 TATT
26957316 TATGTGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 11 0.31
13 4 0.11
14 20 0.57
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:26957307 original size:26 final size:28
Alignment explanation
Indices: 26957260--26957318 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
26957250 ACTGTTTAGT
26957260 ATTT-TTGTAATGATATTATTGTATTAC
1 ATTTATTGTAATGATATTATTGTATTAC
*
26957287 ATTTATTGTAAT-AT-TTATTGTATTAT
1 ATTTATTGTAATGATATTATTGTATTAC
26957313 ATTTAT
1 ATTTAT
26957319 GTGTTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 17 0.57
27 6 0.20
28 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (28 bp):
ATTTATTGTAATGATATTATTGTATTAC
Found at i:26957316 original size:14 final size:14
Alignment explanation
Indices: 26957275--26957318 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
26957265 TGTAATGATA
*
26957275 TTATTGTATTACAT
1 TTATTGTATTATAT
26957289 TTATTGTA--ATAT
1 TTATTGTATTATAT
26957301 TTATTGTATTATAT
1 TTATTGTATTATAT
26957315 TTAT
1 TTAT
26957319 GTGTTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (14 bp):
TTATTGTATTATAT
Found at i:26959682 original size:44 final size:44
Alignment explanation
Indices: 26959629--26959740 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
26959619 ATCCATGCAA
* *
26959629 AAATTAGATGCATTGGAAAAAATTTGGAACAAACTTTATAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
* ** *
26959673 AAATAAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
*
26959717 AAATTAGATACATTG-AAACAAACT
1 AAATTAGATGCATTGCAAA-AAACT
26959741 CTGTAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (44 bp):
AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
Found at i:26960467 original size:429 final size:429
Alignment explanation
Indices: 26959667--26960522 Score: 1216
Period size: 429 Copynumber: 2.0 Consensus size: 429
26959657 ACAAACTTTA
*
26959667 TAATTTAAATAAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
1 TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
* * * *
26959732 AAACAAACTCTGTAAAATACATATCCATATTTAACATGGAGTACATTAGCATAATTCCCACCCGA
66 AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
* *
26959797 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCTGATTATACCCAGCTAATC
131 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGACTATACCCAGCTAATC
* ** * * *
26959862 TGCACACGCCACAAAGCTTTTCGTCGGTTTTCTCCCTAATGTCTATTTCATTATGGATTCTGGCC
196 TGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
* * *
26959927 ACTTGCGAATGACCTTTCGGATTCCTCAACAACCCTTTTTCCAAGACAAGTTCGAAAGTCATCGG
261 ACTTGCGAATGACCTTTCAGATTCCTCAACAACCCTTTGTCCAAGACAACTTCGAAAGTCATCGG
* * * * * * * *
26959992 AGACACCTCCCATATAGATAAATCACGTAGGACGGGGAACTCA-TTTTCCTAGACACGCAATGTT
326 AGACACATCCAATATAGACAAATCACGCAGGACAGGGAACTCATTTTTCC-AGACACACAATATG
* *
26960056 CGCTTGAGAGTGTACACTTAAGCAATAAACTATTCAGCTG
390 CACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGCTG
* * * *
26960096 TAATTTAAATGAGATGCATTGCACTAAACTTGAAACAAATTTTGTAATTTAAATTAGATGCATTG
1 TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
* * *
26960161 GAACAAAATCTGTAAAATACATATCCAAATTCCACATGGAGTACATTAGCACAATTCTCACCCGA
66 AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
* * *
26960226 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGTATTTACTCCGACTATGCCTAGCTAATC
131 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGACTATACCCAGCTAATC
* **
26960291 TGCACAAGCCACAAAGCTTCCCGTTGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGTT
196 TGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
* * * *
26960356 ACTTGCGGATGACCTTTCAGATTCCT-ACGCAA-CCTTTAGTCCAGGACAAACTT-GAAAGTTAT
261 ACTTGCGAATGACCTTTCAGATTCCTCA-ACAACCCTTT-GTCCAAGAC-AACTTCGAAAGTCAT
* * * * *
26960418 CGGAGACACATCTAATGTAGGCAGATCACGCAGGACAGGGAATTCATTTTTCCAGACACACAATA
323 CGGAGACACATCCAATATAGACAAATCACGCAGGACAGGGAACTCATTTTTCCAGACACACAATA
26960483 TGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGC
388 TGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGC
26960523 ATTGATCGAG
Statistics
Matches: 375, Mismatches: 48, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
428 6 0.02
429 359 0.96
430 10 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (429 bp):
TAATTTAAATAAGATGCATTGCACCAAACTTGAAACAAACTTTGTAATTTAAATTAGATACATTG
AAACAAAATCTGTAAAATACATATCCAAATTCAACATGGAGTACATTAGCACAATTCCCACCCGA
TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGACTATACCCAGCTAATC
TGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
ACTTGCGAATGACCTTTCAGATTCCTCAACAACCCTTTGTCCAAGACAACTTCGAAAGTCATCGG
AGACACATCCAATATAGACAAATCACGCAGGACAGGGAACTCATTTTTCCAGACACACAATATGC
ACTTGAAAGTGTACACTTAAGCAATAAACTATTCAGCTG
Found at i:26962405 original size:13 final size:13
Alignment explanation
Indices: 26962387--26962426 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
26962377 CTGGACTTCC
26962387 TCACACGGGCGTG
1 TCACACGGGCGTG
26962400 TCACACGGGCGTG
1 TCACACGGGCGTG
*
26962413 TCACACGGTCGTG
1 TCACACGGGCGTG
26962426 T
1 T
26962427 TCATTTGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:26963064 original size:18 final size:18
Alignment explanation
Indices: 26963030--26963078 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
26963020 GGGTGTGCAC
26963030 AATTCGGTTAAAACCGAAAA
1 AATTCGGTT--AACCGAAAA
***
26963050 AATTCGGTTAACCGACCC
1 AATTCGGTTAACCGAAAA
26963068 AATTCGGTTAA
1 AATTCGGTTAA
26963079 TTGGTTGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:26963488 original size:19 final size:19
Alignment explanation
Indices: 26963464--26963504 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
26963454 TACAATTTTC
*
26963464 AAATCTCTCAAAACCTTCA
1 AAATCTCCCAAAACCTTCA
26963483 AAATCTCCCAAAACCTTCA
1 AAATCTCCCAAAACCTTCA
26963502 AAA
1 AAA
26963505 GTATCATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATCTCCCAAAACCTTCA
Found at i:26967519 original size:17 final size:17
Alignment explanation
Indices: 26967499--26967559 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
26967489 ATTTCAAGAC
26967499 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * **
26967516 TTATTTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
26967535 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
26967553 TTATGTA
1 TTATGTA
26967560 GTAATTCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 15 0.45
18 5 0.15
19 5 0.15
20 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:26967535 original size:37 final size:37
Alignment explanation
Indices: 26967489--26967599 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
26967479 TTATGTGTTA
* *
26967489 ATTTCAAGACTTATGTAATGTTTTTAATTATTTAGTG
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
*
26967526 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTA
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* *
26967563 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
26967600 TAGTGATTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
Found at i:26967593 original size:17 final size:17
Alignment explanation
Indices: 26967499--26967596 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
26967489 ATTTCAAGAC
*
26967499 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* * **
26967516 TTATTTAGTGATTTAAAGA
1 TTATGTAAT-ATTTTTA-A
*
26967535 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
* ***
26967553 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
26967572 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
26967590 TTATGTA
1 TTATGTA
26967597 GTGTAGTGAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 10 0.18
20 15 0.27
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:26967653 original size:9 final size:9
Alignment explanation
Indices: 26967609--26967693 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
26967599 GTAGTGATTC
*
26967609 AATTCGGTC
1 AATTCGGTT
*
26967618 AATTCGGTC
1 AATTCGGTT
26967627 AATTCGGTT
1 AATTCGGTT
26967636 AATTCGGTT
1 AATTCGGTT
26967645 AATTCGGTT
1 AATTCGGTT
* *
26967654 AATCCGGGT
1 AATTCGGTT
* *
26967663 AATCCGGAT
1 AATTCGGTT
* *
26967672 AATCCGGGT
1 AATTCGGTT
26967681 AATTCGGTT
1 AATTCGGTT
26967690 AATT
1 AATT
26967694 TTTAACCAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (9 bp):
AATTCGGTT
Found at i:26971899 original size:17 final size:18
Alignment explanation
Indices: 26971877--26971910 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26971867 TTGATTTAGG
26971877 TGTT-AAATTTTAAAAAC
1 TGTTAAAATTTTAAAAAC
26971894 TGTTAAAATTTTAAAAA
1 TGTTAAAATTTTAAAAA
26971911 TATATTCGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (18 bp):
TGTTAAAATTTTAAAAAC
Found at i:26973782 original size:2 final size:2
Alignment explanation
Indices: 26973777--26973812 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26973767 CAACAGGTTA
26973777 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26973813 TTTCCCCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:26977833 original size:16 final size:16
Alignment explanation
Indices: 26977788--26977837 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
26977778 CCATTTTGAT
* *
26977788 TTATTAATTTACTATA
1 TTATTAAATTAATATA
* *
26977804 -T-TTAAGTTATTATA
1 TTATTAAATTAATATA
26977818 TTATTAAATTAATATA
1 TTATTAAATTAATATA
26977834 TTAT
1 TTAT
26977838 ATCACTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TTATTAAATTAATATA
Found at i:26977918 original size:23 final size:24
Alignment explanation
Indices: 26977871--26977918 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
26977861 ATTAAATTTA
* *
26977871 AATTTTGTATATTTGAATAATTATT
1 AATTTTGTATATAT-AATAACTATT
26977896 AATTTTGTATATAT-ATAACTATT
1 AATTTTGTATATATAATAACTATT
26977919 GTATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
AATTTTGTATATATAATAACTATT
Found at i:26978460 original size:22 final size:23
Alignment explanation
Indices: 26978397--26978462 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
26978387 ATTTAAATTA
* *
26978397 TAAAATTATTTGATATAT-TACT
1 TAAAATTATTTGATAGATATAAT
* *
26978419 TAAAATTAATT-ACAGAATATAAT
1 TAAAATTATTTGATAG-ATATAAT
26978442 T-AAATTATTTGATAGATATAA
1 TAAAATTATTTGATAGATATAA
26978463 ACTATAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 26 0.74
23 7 0.20
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAAATTATTTGATAGATATAAT
Found at i:26985958 original size:16 final size:16
Alignment explanation
Indices: 26985937--26985968 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26985927 CAATGTCACT
26985937 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
26985953 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
26985969 CTTTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
ATAAACTGACGTGGCA
Found at i:26990482 original size:14 final size:15
Alignment explanation
Indices: 26990463--26990507 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
26990453 TAATAAAAAA
26990463 TAATTTATT-TACTT
1 TAATTTATTATACTT
*
26990477 TAATTTATTCA-AATT
1 TAATTTATT-ATACTT
26990492 TAATTT-TTATACTT
1 TAATTTATTATACTT
26990506 TA
1 TA
26990508 TGAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 1 0.04
14 16 0.62
15 9 0.35
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTTATTATACTT
Found at i:26991237 original size:13 final size:13
Alignment explanation
Indices: 26991215--26991248 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26991205 ATCAAATTTT
26991215 AAAA-AATTCTTA
1 AAAATAATTCTTA
26991227 AAAATAATTCTTA
1 AAAATAATTCTTA
*
26991240 AAAGTAATT
1 AAAATAATT
26991249 TTTACAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATAATTCTTA
Found at i:26994867 original size:30 final size:28
Alignment explanation
Indices: 26994823--26994886 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
26994813 ACTAAATAAA
* *
26994823 ATAATAAAATAATAATAAATATCTTATT
1 ATAATAAAATAATAACAAATATCTAATT
*
26994851 ATAATATAAATAAATAACAATTATCTAATT
1 ATAATA-AAAT-AATAACAAATATCTAATT
26994881 A-AATAA
1 ATAATAA
26994887 CTATAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 8 0.26
30 16 0.52
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATAAAATAATAACAAATATCTAATT
Found at i:27000344 original size:185 final size:180
Alignment explanation
Indices: 26999987--27000452 Score: 808
Period size: 180 Copynumber: 2.5 Consensus size: 180
26999977 TCATCTGACA
* *
26999987 TTGTATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCT
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGT-T-ATGTTCGGGATTCAAATGCCTTTCT
27000052 TCTTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAA
64 TCTTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAA
27000117 AGTAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCCCCCCAATATGATG
129 AGTAGAGAGCCGTGACATCTAAAAATTAGTGGTGT-----CCCCCCCCAATATGATG
27000174 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
27000239 TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTTCTAGTGGAAAA
66 TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTG-TTTTTTTCTAGTGGAAAA
*
27000304 GTAGAGAGCCGTGACATCTAAAAATTAGTGGTGT-CCCCCCCAGTATGATG
130 GTAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCAATATGATG
* *
27000354 TTGCATAACTAAAAGCAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
27000419 TTTGAATATGTATCAGAATTTGTCATTTCGTTCT
66 TTTGAATATGTATCAGAATTTGTCATTTCGTTCT
27000453 CTGCTCCTCG
Statistics
Matches: 273, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
180 112 0.41
185 73 0.27
186 53 0.19
187 35 0.13
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.39
Consensus pattern (180 bp):
TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAAAG
TAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCAATATGATG
Found at i:27006969 original size:44 final size:44
Alignment explanation
Indices: 27006919--27007141 Score: 220
Period size: 44 Copynumber: 5.0 Consensus size: 44
27006909 TTTTTTTTCC
* *
27006919 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
* * * *
27006963 TTCTAATTTA-ATTTTAGGATTCAAAAAAGATAGAATTTTATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAG-A----ATTTTATTT
* * *
27007011 TTCTAATTTAGATCTTAGGATTTAGATATGTTAGAATTTTAATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTT-ATTT
* * * *
27007056 TT-TCATTTAGAACTTAGGATTCAATTAGGTTA-AAATTTA-TT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
** *
27007097 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
27007141 T
1 T
27007142 ATTTTAATAA
Statistics
Matches: 143, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
41 4 0.03
42 25 0.17
43 28 0.20
44 43 0.30
45 6 0.04
48 20 0.14
49 17 0.12
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (44 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
Found at i:27007031 original size:92 final size:85
Alignment explanation
Indices: 27006919--27007141 Score: 223
Period size: 92 Copynumber: 2.5 Consensus size: 85
27006909 TTTTTTTTCC
* * **
27006919 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTTTTCTAATTTA-ATTTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTT-TAATTTAGAACTTAGGAT
27006983 TCAAAAAAGATAGAATTTTATTTTATTT
65 TCAAAAAAGATA-AA----A-TTTA-TT
* * * *
27007011 TTCTAATTTAGATCTTAGGATTTAGATATGTTAGAATTTTAATTTTTTCATTTAGAACTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTT-ATTTTTTAATTTAGAACTTAGGAT
** * *
27007076 TCAATTAGGTTAAAATTTATT
65 TCAAAAAAGATAAAATTTATT
** *
27007097 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTT
27007142 ATTTTAATAA
Statistics
Matches: 111, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
85 5 0.05
86 36 0.32
87 4 0.04
88 1 0.01
92 43 0.39
93 22 0.20
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (85 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTTTAATTTAGAACTTAGGATT
CAAAAAAGATAAAATTTATT
Found at i:27007048 original size:49 final size:49
Alignment explanation
Indices: 27006953--27007056 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
27006943 AATAGGTTGG
*
27006953 AATTTTATTTTTCTAATTTAATTTTAGGATTCAAAAAAGATAGAATTTT
1 AATTTTATTTTTCTAATTTAATCTTAGGATTCAAAAAAGATAGAATTTT
* * * * *
27007002 -ATTTTATTTTTCTAATTTAGATCTTAGGATTTAGATATGTTAGAATTTT
1 AATTTTATTTTTCTAATTTA-ATCTTAGGATTCAAAAAAGATAGAATTTT
27007051 AATTTT
1 AATTTT
27007057 TTCATTTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 19 0.40
49 23 0.49
50 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.53
Consensus pattern (49 bp):
AATTTTATTTTTCTAATTTAATCTTAGGATTCAAAAAAGATAGAATTTT
Found at i:27017612 original size:18 final size:19
Alignment explanation
Indices: 27017574--27017612 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27017564 TGGTTCAAGC
*
27017574 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
27017593 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
27017611 TT
1 TT
27017613 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:27017845 original size:23 final size:22
Alignment explanation
Indices: 27017786--27017852 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
27017776 ACTTAATCAG
27017786 TATACGACACATAAGTGCCTGA
1 TATACGACACATAAGTGCCTGA
*
27017808 -A-ACGACACACGAAGTGCCTGA
1 TATACGACACA-TAAGTGCCTGA
*
27017829 TATATGACACATAAAGTGCCTGA
1 TATACGACACAT-AAGTGCCTGA
27017852 T
1 T
27017853 TGGCAAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 11 0.29
22 1 0.03
23 18 0.47
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (22 bp):
TATACGACACATAAGTGCCTGA
Found at i:27019588 original size:25 final size:25
Alignment explanation
Indices: 27019540--27019589 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27019530 TTTAGTTTGA
**
27019540 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
27019565 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
27019590 TAAATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:27023249 original size:40 final size:40
Alignment explanation
Indices: 27023155--27023261 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 40
27023145 CAATATCACA
* *
27023155 CACACTAAGTGCCTTAAATAGCTGAAGCTATCTCAATCTTG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATC-TG
* *
27023196 CACACTAAGTGCCATATATAGCCGAAGCTATCTTGAATC-G
1 CACACTAAGTGCCATAAATAGCCGAAGCTATC-TCAATCTG
* *
27023236 CACACTAAGTGCCATACATAACCGAA
1 CACACTAAGTGCCATAAATAGCCGAA
27023262 TTGTTGTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 25 0.42
41 29 0.49
42 5 0.08
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATCTG
Found at i:27027714 original size:40 final size:40
Alignment explanation
Indices: 27027609--27027933 Score: 457
Period size: 40 Copynumber: 8.2 Consensus size: 40
27027599 GGATTGATAA
* *
27027609 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27027649 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
27027688 CCGGGCTAAGTCCCGAAGACATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27027728 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27027768 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27027807 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
27027847 CCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTAC-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27027886 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
27027926 CC-GGCTAA
1 CCGGGCTAA
27027934 ACTCCGAAGG
Statistics
Matches: 258, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 109 0.42
40 147 0.57
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27027782 original size:79 final size:80
Alignment explanation
Indices: 27027609--27027933 Score: 457
Period size: 79 Copynumber: 4.1 Consensus size: 80
27027599 GGATTGATAA
* * *
27027609 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
27027672 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
* *
27027688 CCGGGCTAAGTCCCGAAGACATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
27027753 TGCTAGTGACTA-ATT
66 TGCGAGTTACTATA-T
*
27027768 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
27027832 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
* *
27027847 CCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTAC-ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
27027911 AGCTAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
27027926 CC-GGCTAA
1 CCGGGCTAA
27027934 ACTCCGAAGG
Statistics
Matches: 221, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
78 8 0.04
79 153 0.69
80 60 0.27
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:27027816 original size:119 final size:119
Alignment explanation
Indices: 27027605--27027933 Score: 531
Period size: 119 Copynumber: 2.8 Consensus size: 119
27027595 ATTCGGATTG
27027605 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
*
27027670 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATTTGTGTGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACT
27027724 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
*
27027789 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACT
* * * *
27027843 ATAACCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTACATAA--CCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-TAATTCCGGGCTAAG-CCCGAAGGC
* *
27027906 ATTTGAGCTAG-TAGCTATATCC-GGCTAA
64 ATTTGTGCGAGTTA-CTATATCCGGGCTAA
27027934 ACTCCGAAGG
Statistics
Matches: 199, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
118 18 0.09
119 178 0.89
120 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACT
Found at i:27028209 original size:22 final size:21
Alignment explanation
Indices: 27028168--27028211 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27028158 GAATGTGCAT
27028168 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
27028190 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
27028212 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:27030753 original size:291 final size:291
Alignment explanation
Indices: 27030206--27030783 Score: 865
Period size: 291 Copynumber: 2.0 Consensus size: 291
27030196 AAGTCTAATT
* * * * * *
27030206 GAGGAGATAATTTTTCTTGAGTATCGAAGCGGATGACTCCCAGAAGATAGACATAGATGTGGCTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
* * * *
27030271 ACTTGACCGATAGTACATCGAACAAGACCCAAGTAGAATATATCCTGAATGTGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* * *
27030336 TTTACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAGATGATGAATTATGAATGTGT
131 TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
* * * * *
27030401 GACTCGTATACTTTGATATAAGTAAAAGCTTGAGTTTAAATAAATATAGAACTACAAGTTGGTGC
196 GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATAGAACGACAAGTTGGTGC
*
27030466 GTTGGGTATACGACTTCTGCAATATGTGACA
261 GTCGGGTATACGACTTCTGCAATATGTGACA
* *
27030497 GAGGAAATGATTTGTCTTGAGTATCAAAGTGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
* *
27030562 ACTTGACTGGCAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* *
27030627 TTCACTTGTGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGAT-AGACTATGTATGTG
131 TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGA-ACTATGAATGTG
*
27030691 TGACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAGATA-AGGAACCGA-AAGTTGG
195 TGACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATA-GAA-CGACAAGTTGG
*
27030754 TGCGTCGGGTATACGACTTCTGTAATATGT
258 TGCGTCGGGTATACGACTTCTGCAATATGT
27030784 AGCATCATTC
Statistics
Matches: 257, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
290 2 0.01
291 253 0.98
292 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (291 bp):
GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATAGAACGACAAGTTGGTGC
GTCGGGTATACGACTTCTGCAATATGTGACA
Found at i:27035281 original size:28 final size:28
Alignment explanation
Indices: 27035249--27035305 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
27035239 ATCCTTTCCC
*
27035249 TACAAGTCTAACTTTATGTGTTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
27035277 TACAAGTCTAACTTTATGTATTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
27035305 T
1 T
27035306 TCCCTTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
TACAAGTCTAACTTTATGTATTTTCACT
Found at i:27038260 original size:26 final size:25
Alignment explanation
Indices: 27038231--27038292 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
27038221 TATGCCCAAC
*
27038231 AAAATTTTGATAATTTTACCCCTGTT
1 AAAATTTTGATAATTTTACCCC-GAT
* * *
27038257 AAAATTTTTGATGATTTTGCCTCGAT
1 AAAA-TTTTGATAATTTTACCCCGAT
27038283 AAAATTTTGA
1 AAAATTTTGA
27038293 GAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 6 0.19
26 10 0.32
27 15 0.48
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (25 bp):
AAAATTTTGATAATTTTACCCCGAT
Found at i:27038473 original size:18 final size:18
Alignment explanation
Indices: 27038437--27038473 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27038427 TGCAAATGAA
* *
27038437 TCATTTCCATTTTCTTTT
1 TCATTTCCATTTCCATTT
27038455 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
27038473 T
1 T
27038474 TGGAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:27044568 original size:15 final size:15
Alignment explanation
Indices: 27044539--27044567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27044529 AGACTCTCTA
27044539 AACTGTTTGATTTTT
1 AACTGTTTGATTTTT
27044554 AACTG-TTGATTTTT
1 AACTGTTTGATTTTT
27044568 TGTTTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (15 bp):
AACTGTTTGATTTTT
Found at i:27049854 original size:20 final size:19
Alignment explanation
Indices: 27049827--27049921 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
27049817 CATTAAATTA
27049827 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
27049846 AACTTTAATATTAA-ATTAAT
1 AA-TTTAATATTAAGA-TAAT
** *
27049866 AAAATACTATTAAGATAAT
1 AATTTAATATTAAGATAAT
* *
27049885 -ATTAAATA-TAATATAAT
1 AATTTAATATTAAGATAAT
* *
27049902 -ATTAAACTATTAAAATAAT
1 AATTTAA-TATTAAGATAAT
27049921 A
1 A
27049922 TTATTTTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
17 14 0.23
18 6 0.10
19 23 0.38
20 18 0.30
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:27049864 original size:11 final size:11
Alignment explanation
Indices: 27049850--27049924 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
27049840 GATAATAACT
27049850 TTAATATTAAA
1 TTAATATTAAA
27049861 TTAATA--AAA
1 TTAATATTAAA
*
27049870 -TACTATTAAGA
1 TTAATATTAA-A
27049881 -TAATATTAAA
1 TTAATATTAAA
27049891 TATAATA-TAATA
1 T-TAATATTAA-A
27049903 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
27049916 ATAATATTA
1 TTAATATTA
27049925 TTTTTTGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 24 0.46
12 11 0.21
13 4 0.08
14 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:27049916 original size:47 final size:50
Alignment explanation
Indices: 27049831--27049924 Score: 131
Period size: 47 Copynumber: 1.9 Consensus size: 50
27049821 AAATTAAATT
* * *
27049831 TAATATTAAGATAATAACTTTAATATTAAATTAATAAAATACTATTAAGA
1 TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTAAGA
*
27049881 TAATATTAA-AT-ATAA-TATAATATTAAACTATTAAAATAATATTA
1 TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTA
27049925 TTTTTTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 25 0.62
48 4 0.10
49 2 0.05
50 9 0.22
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (50 bp):
TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTAAGA
Found at i:27069688 original size:58 final size:58
Alignment explanation
Indices: 27069621--27069740 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
27069611 ATCATCAGAC
27069621 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
1 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
27069679 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
1 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
27069737 TTAG
1 TTAG
27069741 GGAAATTTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (58 bp):
TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
Found at i:27073112 original size:2 final size:2
Alignment explanation
Indices: 27073105--27073129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27073095 TGTTCTAGGG
27073105 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
27073130 AGGTCTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:27073663 original size:16 final size:18
Alignment explanation
Indices: 27073627--27073663 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
27073617 TTAATTGTTT
*
27073627 GGGATTATTCGATTCATG
1 GGGATTATTCGATTAATG
27073645 GGGATT-TTC-ATTAATG
1 GGGATTATTCGATTAATG
27073661 GGG
1 GGG
27073664 TAATCTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 3 0.17
18 6 0.33
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (18 bp):
GGGATTATTCGATTAATG
Found at i:27084711 original size:17 final size:18
Alignment explanation
Indices: 27084689--27084722 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27084679 AGTTGAATTG
27084689 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
27084706 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
27084723 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:27085473 original size:10 final size:10
Alignment explanation
Indices: 27085446--27085493 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
27085436 TTAAAATTTA
27085446 AAAGATAAAT
1 AAAGATAAAT
*
27085456 -ACGAATAAAT
1 AAAG-ATAAAT
*
27085466 AAAGATAATT
1 AAAGATAAAT
27085476 AAAGATAAAT
1 AAAGATAAAT
27085486 AAAGATAA
1 AAAGATAA
27085494 GTGAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27085503 original size:20 final size:19
Alignment explanation
Indices: 27085459--27085505 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
27085449 GATAAATACG
*
27085459 AATAAATAAAGATAATTAA
1 AATAAATAAAGATAATGAA
27085478 AGATAAATAAAGATAAGTGAA
1 A-ATAAATAAAGATAA-TGAA
27085499 AATAAAT
1 AATAAAT
27085506 CCTAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.80
21 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (19 bp):
AATAAATAAAGATAATGAA
Found at i:27086147 original size:8 final size:9
Alignment explanation
Indices: 27086124--27086151 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27086114 TATTAATATG
27086124 TCTTTTTTC
1 TCTTTTTTC
27086133 TCTTTTTTC
1 TCTTTTTTC
27086142 TCTTTTTTC
1 TCTTTTTTC
27086151 T
1 T
27086152 AATTTTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:27086363 original size:96 final size:98
Alignment explanation
Indices: 27086184--27086372 Score: 292
Period size: 96 Copynumber: 1.9 Consensus size: 98
27086174 ATTTAATTTA
* * * **
27086184 AATTATTTATTTTTACTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCA
1 AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
*
27086249 CCTCACCCCGGTTACTCAGCCTAACATACTCCT
66 CCTCACCCCGGTTACTCAGCCCAACATACTCCT
*
27086282 AATT-TTTATTTTT-CTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGATAGCCAAGCA
1 AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
*
27086345 CCTCACCCTGGTTACTCAGCCCAACATA
66 CCTCACCCCGGTTACTCAGCCCAACATA
27086373 TTCTTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 70 0.84
97 9 0.11
98 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (98 bp):
AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
CCTCACCCCGGTTACTCAGCCCAACATACTCCT
Found at i:27087458 original size:25 final size:24
Alignment explanation
Indices: 27087426--27087517 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 24
27087416 TTTAATATCC
*
27087426 AAATAAAGTAATAAATAATAAAATA
1 AAATAAAATAATAAATAA-AAAATA
* *
27087451 AAATAAAGTAATAAATAAAAAAGAA
1 AAATAAAATAATAAATAAAAAA-TA
*
27087476 AACAAAAAATAATAAATAAATAAATAA
1 AA-ATAAAATAATAAATAAA-AAAT-A
27087503 AAATAAAATAA-AAAT
1 AAATAAAATAATAAAT
27087518 TGGGTTGCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.07
25 25 0.43
26 23 0.40
27 6 0.10
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (24 bp):
AAATAAAATAATAAATAAAAAATA
Found at i:27087469 original size:4 final size:4
Alignment explanation
Indices: 27087426--27087503 Score: 51
Period size: 4 Copynumber: 19.8 Consensus size: 4
27087416 TTTAATATCC
27087426 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAGT -AAT AAAT AAA-
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAA-T AAAT AAAT AAAT
* *
27087470 AAAG AAA- ACAAA AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAA
27087504 AATAAAATAA
Statistics
Matches: 63, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
3 12 0.19
4 40 0.63
5 11 0.17
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:27091232 original size:10 final size:10
Alignment explanation
Indices: 27091213--27091262 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
27091203 TCAAATTTTA
27091213 AAAGATAAAT
1 AAAGATAAAT
27091223 ACAA-ATAAAT
1 A-AAGATAAAT
27091233 AAAGATAAAT
1 AAAGATAAAT
27091243 AAAGATAAAT
1 AAAGATAAAT
27091253 GAAA-ATAAAT
1 -AAAGATAAAT
27091263 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27091850 original size:48 final size:48
Alignment explanation
Indices: 27091731--27091956 Score: 267
Period size: 48 Copynumber: 4.7 Consensus size: 48
27091721 ATGAGCTCCC
* * * *
27091731 GTGTAAGACCATGTCTAGGACATGGCATCGACATTCGAGATGAGAACCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATT-GATATGTGAGCCA
* * * *
27091780 GTGTAAGACCATGT-TTGAGACATGGCGTCGTCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTAG-GACATGGCATCGGCATTGATATGTGAGCCA
27091828 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGAGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGAGCCA
* * * * *
27091876 GTGTAAGATCATGTCT-GACACATGGCATCGGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTAG-GACATGGCATCGGCATTGATATGTGAGCCA
* * *
27091924 GTGTAAGACCATGTCTGGGAGATGGCAACGGCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCA
27091957 CTGACATGAG
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 120 0.79
49 31 0.20
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGAGCCA
Found at i:27091913 original size:96 final size:97
Alignment explanation
Indices: 27091731--27091956 Score: 319
Period size: 96 Copynumber: 2.3 Consensus size: 97
27091721 ATGAGCTCCC
* *
27091731 GTGTAAGACCATGTCTAGGACATGGCATCGACATTCGAGATGAGAACCAGTGTAAGACCATGTTT
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGAGATGAGAACCAGTGTAAGACCATGTCT
* * *
27091796 GAGACATGGCGTCGTCGTTGATATGTGAGCCA
66 GACACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
27091828 GTGTAAGACCATGTCTAGGACATGGCATCGGCATT-GATATGTGAGCCAGTGTAAGATCATGTCT
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGAGATGAGAACCAGTGTAAGACCATGTCT
* *
27091892 GACACATGGCATCGGCGTTGATATGTGTGCTA
66 GACACATGGCATCGGCGTTGATATGTGAGCCA
* * *
27091924 GTGTAAGACCATGTCTGGGAGATGGCAACGGCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCA
27091957 CTGACATGAG
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 81 0.70
97 34 0.30
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (97 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGAGATGAGAACCAGTGTAAGACCATGTCT
GACACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:27097511 original size:48 final size:48
Alignment explanation
Indices: 27097440--27097610 Score: 236
Period size: 48 Copynumber: 3.6 Consensus size: 48
27097430 TAAGATGCTC
*
27097440 ATGCCATG-TCCTAAACATGGTCTTACACTAGCTCTCGTAATAAAGCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAATAAAGCCG
* * * * *
27097488 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAATAAAGCCG
* * * *
27097536 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAATAAAGCCG
27097584 ATGCCATGTTCCAAACATGGTCTTACA
1 ATGCCATGTTCCAAACATGGTCTTACA
27097611 TTGGCTCACA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 103 0.97
49 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAATAAAGCCG
Done.