Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 312 of 328
Found at i:92694357 original size:21 final size:21
Alignment explanation
Indices: 92694327--92694372 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
92694317 TCAACAAATT
92694327 TACTTACCTTGAATAATTT-AA
1 TACTTACCTTG-ATAATTTAAA
* *
92694348 TACTTGCCTTGATACTTTAAA
1 TACTTACCTTGATAATTTAAA
92694369 TACT
1 TACT
92694373 CGTATTACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
TACTTACCTTGATAATTTAAA
Found at i:92698515 original size:15 final size:15
Alignment explanation
Indices: 92698495--92698524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
92698485 TGTTGAAATC
92698495 ATTGTGTGAGATGTG
1 ATTGTGTGAGATGTG
92698510 ATTGTGTGAGATGTG
1 ATTGTGTGAGATGTG
92698525 TTTGGTTAAT
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
ATTGTGTGAGATGTG
Found at i:92702434 original size:15 final size:15
Alignment explanation
Indices: 92702414--92702449 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
92702404 GAATTAAACT
92702414 CACCACCTCC-ACCGC
1 CACCACC-CCAACCGC
92702429 CACCACCCCAACCGC
1 CACCACCCCAACCGC
92702444 CACCAC
1 CACCAC
92702450 TGCCGCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.25, C:0.67, G:0.06, T:0.03
Consensus pattern (15 bp):
CACCACCCCAACCGC
Found at i:92704880 original size:18 final size:19
Alignment explanation
Indices: 92704843--92704879 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
92704833 AAAAAAATAA
*
92704843 AACTGATTTTATATTTTTT
1 AACTGATTTTAGATTTTTT
*
92704862 AACTTATTTTAGATTTTT
1 AACTGATTTTAGATTTTT
92704880 ATGAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
AACTGATTTTAGATTTTTT
Found at i:92705286 original size:36 final size:36
Alignment explanation
Indices: 92705239--92705309 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
92705229 ATCTTTTTCA
92705239 GGCTAAACTAAATGAATAACGATTTTTAAATTTAAG
1 GGCTAAACTAAATGAATAACGATTTTTAAATTTAAG
92705275 GGCTAAACTAAATGAATAACGATTTTTAAATTTAA
1 GGCTAAACTAAATGAATAACGATTTTTAAATTTAA
92705310 AAGTTAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (36 bp):
GGCTAAACTAAATGAATAACGATTTTTAAATTTAAG
Found at i:92705318 original size:31 final size:32
Alignment explanation
Indices: 92705243--92705322 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 32
92705233 TTTTCAGGCT
92705243 AAACTAAATGAATAACGATTTTTAAATTTAAGGG
1 AAACTAAATGAATAACGATTTTTAAATTTAA--G
92705277 CTAAACTAAATGAATAACGATTTTTAAATTTAA-
1 --AAACTAAATGAATAACGATTTTTAAATTTAAG
**
92705310 AAGTTAAATGAAT
1 AAACTAAATGAAT
92705323 TTAAAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 11 0.26
36 31 0.74
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (32 bp):
AAACTAAATGAATAACGATTTTTAAATTTAAG
Found at i:92710545 original size:9 final size:9
Alignment explanation
Indices: 92710469--92710598 Score: 70
Period size: 9 Copynumber: 14.1 Consensus size: 9
92710459 ATGGAAAAAT
92710469 AATTATAAA
1 AATTATAAA
92710478 AA--ATAAA
1 AATTATAAA
*
92710485 AGTTATAAA
1 AATTATAAA
92710494 AATTTATTAAA
1 AA-TTA-TAAA
**
92710505 TTTTAATTAAA
1 AATT-A-TAAA
* *
92710516 AAATATATA
1 AATTATAAA
* *
92710525 AGTTAAAAA
1 AATTATAAA
92710534 AATTATAAA
1 AATTATAAA
92710543 AATCGTA-AAA
1 AAT--TATAAA
*
92710553 AAATA-AAA
1 AATTATAAA
*
92710561 AATTGTAAA
1 AATTATAAA
*
92710570 ATTTATAAA
1 AATTATAAA
*
92710579 AATCATAAA
1 AATTATAAA
92710588 AATTTATAAA
1 AA-TTATAAA
92710598 A
1 A
92710599 TGCATCAAAA
Statistics
Matches: 90, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
7 6 0.07
8 8 0.09
9 45 0.50
10 18 0.20
11 13 0.14
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:92710552 original size:19 final size:19
Alignment explanation
Indices: 92710530--92710598 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
92710520 ATATAAGTTA
92710530 AAAAAATTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
* *
92710549 AAAAAAATA-AAAAATTGT
1 AAAAAATTATAAAAATCGT
* *
92710567 -AAAATTTATAAAAATCAT
1 AAAAAATTATAAAAATCGT
*
92710585 AAAAATTTATAAAA
1 AAAAAATTATAAAA
92710599 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.14
18 15 0.36
19 21 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:92710817 original size:10 final size:10
Alignment explanation
Indices: 92710783--92710954 Score: 69
Period size: 9 Copynumber: 17.7 Consensus size: 10
92710773 GGTATAATAG
92710783 TTTTTATAACT
1 TTTTTATAA-T
*
92710794 TTTTTACGAA-
1 TTTTTA-TAAT
92710804 -TTTTATAAT
1 TTTTTATAAT
92710813 TTTTTAT-AT
1 TTTTTATAAT
92710822 TTTTTATAAT
1 TTTTTATAAT
** *
92710832 TTTCTTACGAC
1 TTT-TTATAAT
* *
92710843 TTTATAAAAT
1 TTTTTATAAT
*
92710853 TTTGTAT--T
1 TTTTTATAAT
92710861 TTTTCTAT-A-
1 TTTT-TATAAT
*
92710870 TTTCTAT-AT
1 TTTTTATAAT
*
92710879 ATTTTATAAT
1 TTTTTATAAT
*
92710889 TTTTTATGA-
1 TTTTTATAAT
*
92710898 TTTTTATAAAA
1 TTTTTAT-AAT
**
92710909 AATTTATAAT
1 TTTTTATAAT
*
92710919 TTTTAATAA-
1 TTTTTATAAT
* *
92710928 ATTTTAAATAT
1 TTTTTATA-AT
92710939 TTTTTAT-AT
1 TTTTTATAAT
92710948 TTTTTAT
1 TTTTTAT
92710955 TAAAATTTAA
Statistics
Matches: 119, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
8 10 0.08
9 46 0.39
10 38 0.32
11 23 0.19
12 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:92710847 original size:38 final size:38
Alignment explanation
Indices: 92710783--92710906 Score: 121
Period size: 38 Copynumber: 3.2 Consensus size: 38
92710773 GGTATAATAG
92710783 TTTTTATAACTTTT-TTACGAATTTTATAATTTTTTATAT
1 TTTTTATAA-TTTTCTTACG-ATTTTATAATTTTTTATAT
* ** *
92710822 TTTTTATAATTTTCTTACGACTTTATAAAATTTTGTAT
1 TTTTTATAATTTTCTTACGATTTTATAATTTTTTATAT
* *
92710860 TTTTTCT-ATATTTCTATA-TATTTTATAATTTTTTATGA-
1 TTTTTATAAT-TTTCT-TACGATTTTATAATTTTTTAT-AT
92710898 TTTTTATAA
1 TTTTTATAA
92710907 AAAATTTATA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 2 0.03
38 49 0.71
39 18 0.26
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (38 bp):
TTTTTATAATTTTCTTACGATTTTATAATTTTTTATAT
Found at i:92710902 original size:19 final size:18
Alignment explanation
Indices: 92710783--92710906 Score: 81
Period size: 19 Copynumber: 6.5 Consensus size: 18
92710773 GGTATAATAG
*
92710783 TTTTTATAACTTTTTTACGA
1 TTTTTATAA-TTTTTTA-TA
*
92710803 ATTTTATAATTTTTTATA
1 TTTTTATAATTTTTTATA
*
92710821 TTTTTTATAATTTTCTTACGA
1 -TTTTTATAATTTT-TTA-TA
* * *
92710842 CTTTATAAAATTTTGTAT-
1 -TTTTTATAATTTTTTATA
* *
92710860 TTTTTCT-ATATTTCTATA
1 TTTTTATAAT-TTTTTATA
92710878 TATTTTATAATTTTTTATGA
1 T-TTTTATAATTTTTTAT-A
92710898 TTTTTATAA
1 TTTTTATAA
92710907 AAAATTTATA
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.02
17 10 0.12
18 2 0.02
19 38 0.47
20 17 0.21
21 12 0.15
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTATAATTTTTTATA
Found at i:92710921 original size:59 final size:55
Alignment explanation
Indices: 92710814--92710954 Score: 138
Period size: 57 Copynumber: 2.5 Consensus size: 55
92710804 TTTTATAATT
* * * * ** *
92710814 TTTTATATTTTTTATAATTTTCTTACGACTTTATAAAATTTTGTATTTTTTCTATA
1 TTTTATATATTTTATAATTTT-TTATGACTTTATAAAAATTTATATTTTTAATAAA
*
92710870 TTTCTATATATTTTATAATTTTTTATGATTTTTATAAAAAATTTATAATTTTTAATAAA
1 TTT-TATATATTTTATAATTTTTTATGA-CTTTAT-AAAAATTTAT-ATTTTTAATAAA
* *
92710929 TTTTAAATATTTTTTATATTTTTTAT
1 TTTTATATATTTTATA-ATTTTTTAT
92710955 TAAAATTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
56 8 0.11
57 22 0.31
58 19 0.27
59 21 0.30
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (55 bp):
TTTTATATATTTTATAATTTTTTATGACTTTATAAAAATTTATATTTTTAATAAA
Found at i:92710945 original size:30 final size:29
Alignment explanation
Indices: 92710911--92710973 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
92710901 TTATAAAAAA
* *
92710911 TTTATAATTTTTAATAAATTTTAAATATTT
1 TTTATAATTTTTAATAAAATTT-AATAATT
* *
92710941 TTTATATTTTTTATTAAAATTTAATAATT
1 TTTATAATTTTTAATAAAATTTAATAATT
92710970 TTTA
1 TTTA
92710974 GACTATGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTATAATTTTTAATAAAATTTAATAATT
Found at i:92710968 original size:50 final size:49
Alignment explanation
Indices: 92710879--92710973 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 49
92710869 ATTTCTATAT
*
92710879 ATTTTATAATTTTTTATGATTTTTATAAAAAATTTATAATTTTTAATAA
1 ATTTTAAAATTTTTTATGATTTTTATAAAAAATTTATAATTTTTAATAA
*
92710928 ATTTTAAATATTTTTTAT-ATTTTT-TATTAAAATTTAATAATTTTTA
1 ATTTTAAA-ATTTTTTATGATTTTTATA-AAAAATTT-ATAATTTTTA
92710974 GACTATGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
48 2 0.05
49 20 0.49
50 19 0.46
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (49 bp):
ATTTTAAAATTTTTTATGATTTTTATAAAAAATTTATAATTTTTAATAA
Found at i:92710973 original size:10 final size:10
Alignment explanation
Indices: 92710914--92710973 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
92710904 TAAAAAATTT
92710914 ATAATTTTTA
1 ATAATTTTTA
*
92710924 ATAAATTTTA
1 ATAATTTTTA
*
92710934 A-ATATTTTTT
1 ATA-ATTTTTA
*
92710944 ATATTTTTTA
1 ATAATTTTTA
* **
92710954 TTAAAATTTA
1 ATAATTTTTA
92710964 ATAATTTTTA
1 ATAATTTTTA
92710974 GACTATGACA
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
9 1 0.03
10 34 0.94
11 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:92713316 original size:95 final size:96
Alignment explanation
Indices: 92713186--92713358 Score: 258
Period size: 95 Copynumber: 1.8 Consensus size: 96
92713176 CTTTCTTTTA
* * *
92713186 TTTTTTATTTTGCTACGTAGTATGCTTTTCACCTAAAATCATGATTGTGTTATAAATTGAAATAC
1 TTTTTTATTTTGCTACATAATATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATAC
*
92713251 TAAATGTATTTACGAGCAATCACGCTCAATT
66 TAAATGTAATTACGAGCAATCACGCTCAATT
** * *
92713282 TTTTTTATTTTTTTACATAATATG-TTTTCACCTAAAATCGTGATTTTGCTATAAATTGAAATAC
1 TTTTTTATTTTGCTACATAATATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATAC
*
92713346 TAAGTGTAATTAC
66 TAAATGTAATTAC
92713359 AAATAATCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 48 0.71
96 20 0.29
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (96 bp):
TTTTTTATTTTGCTACATAATATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATAC
TAAATGTAATTACGAGCAATCACGCTCAATT
Found at i:92713385 original size:95 final size:96
Alignment explanation
Indices: 92713206--92713385 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 96
92713196 TGCTACGTAG
* * * *
92713206 TATGCTTTTCACCTAAAATCATGATTGTGTTATAAATTGAAATACTAAATGTATTTACGAGCAAT
1 TATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATACTAAATGTAATTACAAACAAT
* * **
92713271 CACGCTCAATTTTTTTTATTTTTTTACATAA
66 CACACTCAAATTTAATTATTTTTTTACATAA
* * * *
92713302 TATG-TTTTCACCTAAAATCGTGATTTTGCTATAAATTGAAATACTAAGTGTAATTACAAATAAT
1 TATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATACTAAATGTAATTACAAACAAT
*
92713366 CACATTCAAATTTAATTATT
66 CACACTCAAATTTAATTATT
92713386 AAATGGCTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 67 0.94
96 4 0.06
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (96 bp):
TATGCTTTTCACCTAAAATCATGATTGTGCTATAAATTGAAATACTAAATGTAATTACAAACAAT
CACACTCAAATTTAATTATTTTTTTACATAA
Found at i:92713906 original size:108 final size:108
Alignment explanation
Indices: 92713717--92713936 Score: 415
Period size: 108 Copynumber: 2.0 Consensus size: 108
92713707 TTCTTTATAG
92713717 AATTTAATAGTTAGTGTATTTGACCAACATTTTTTGTGTTGATTAATGAAATTTAAAAATAAAAA
1 AATTTAATAGTTAGTGTATTTGACCAACATTTTTTGTGTTGATTAATGAAATTTAAAAATAAAAA
92713782 AAAAATGGTTTCACATAAAACTTATTTAGGATATGATTAAGTA
66 AAAAATGGTTTCACATAAAACTTATTTAGGATATGATTAAGTA
*
92713825 AATTTAATAGTTAGTGTATTTGACCAACGTTTTTTGTGTTGATTAATGAAATTTAAAAA-ATAAA
1 AATTTAATAGTTAGTGTATTTGACCAACATTTTTTGTGTTGATTAATGAAATTTAAAAATA-AAA
92713889 AAAAAATGGTTTCACATAAAACTTATTTAGGATATGATTAAGTA
65 AAAAAATGGTTTCACATAAAACTTATTTAGGATATGATTAAGTA
92713933 AATT
1 AATT
92713937 ATAAGTTGCA
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 1 0.01
108 109 0.99
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (108 bp):
AATTTAATAGTTAGTGTATTTGACCAACATTTTTTGTGTTGATTAATGAAATTTAAAAATAAAAA
AAAAATGGTTTCACATAAAACTTATTTAGGATATGATTAAGTA
Found at i:92718216 original size:34 final size:34
Alignment explanation
Indices: 92718177--92718244 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
92718167 CATCCTCAGT
92718177 ATTTTCGACTGATCTTCATTACTCATCTGCATCG
1 ATTTTCGACTGATCTTCATTACTCATCTGCATCG
92718211 ATTTTCGACTGATCTTCATTACTCATCTGCATCG
1 ATTTTCGACTGATCTTCATTACTCATCTGCATCG
92718245 CCTCATGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (34 bp):
ATTTTCGACTGATCTTCATTACTCATCTGCATCG
Found at i:92719103 original size:29 final size:29
Alignment explanation
Indices: 92719063--92719120 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
92719053 GGAGATGCCG
*
92719063 CTCTCTTAGCTGATGACTCTGGCAGTCCT
1 CTCTCTTAGCTGATGACTCTGACAGTCCT
92719092 CTCTCTTAGCTGATGACTCTGACAGTCCT
1 CTCTCTTAGCTGATGACTCTGACAGTCCT
92719121 ATATTTCTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (29 bp):
CTCTCTTAGCTGATGACTCTGACAGTCCT
Found at i:92720046 original size:9 final size:9
Alignment explanation
Indices: 92720034--92720058 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
92720024 AAAATTTTAA
92720034 AAATTATAT
1 AAATTATAT
92720043 AAATTATAT
1 AAATTATAT
92720052 AAATTAT
1 AAATTAT
92720059 TTCATGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATTATAT
Found at i:92720094 original size:72 final size:72
Alignment explanation
Indices: 92720004--92720147 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
92719994 TAAAGATAAA
92720004 ATATTTTATATGAATGATTTAAAATTTTAAAAATTATATAAATTATATAAATTATTTCATGTTAC
1 ATATTTTATATGAATGATTTAAAATTTTAAAAATTATATAAATTATATAAATTATTTCATGTTAC
92720069 TTTTTTT
66 TTTTTTT
92720076 ATATTTTATATGAATGATTTAAAATTTTAAAAATTATATAAATTATATAAATTATTTCATGTTAC
1 ATATTTTATATGAATGATTTAAAATTTTAAAAATTATATAAATTATATAAATTATTTCATGTTAC
92720141 TTTTTTT
66 TTTTTTT
92720148 TAAAACATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (72 bp):
ATATTTTATATGAATGATTTAAAATTTTAAAAATTATATAAATTATATAAATTATTTCATGTTAC
TTTTTTT
Found at i:92720118 original size:9 final size:9
Alignment explanation
Indices: 92720106--92720130 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
92720096 AAAATTTTAA
92720106 AAATTATAT
1 AAATTATAT
92720115 AAATTATAT
1 AAATTATAT
92720124 AAATTAT
1 AAATTAT
92720131 TTCATGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATTATAT
Found at i:92738552 original size:20 final size:20
Alignment explanation
Indices: 92738502--92738552 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
92738492 TAAAATAATA
*
92738502 TTATATT-AATTATATATGT
1 TTATATTAAATTATATATAT
* *
92738521 TGA-ATAATAATTATATATAT
1 TTATATTA-AATTATATATAT
92738541 TTATATTAAATT
1 TTATATTAAATT
92738553 CTTAATCCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 17 0.71
21 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
TTATATTAAATTATATATAT
Found at i:92738722 original size:41 final size:39
Alignment explanation
Indices: 92738633--92738722 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
92738623 TATATTTATA
* * *
92738633 TTTAATACAACAAAATATTTATTATATTTATTTGTATTT
1 TTTAATATAACAAAACATTTATTATATTTATTAGTATTT
* *
92738672 TTAAATATAATAAAACATTTATTATATTTATGGTAGTATTT
1 TTTAATATAACAAAACATTTATTATATTTAT--TAGTATTT
92738713 TTTAATATAA
1 TTTAATATAA
92738723 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.63
41 16 0.37
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (39 bp):
TTTAATATAACAAAACATTTATTATATTTATTAGTATTT
Found at i:92742353 original size:35 final size:36
Alignment explanation
Indices: 92742294--92742365 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
92742284 CTCATTCTTT
92742294 ACTTATAAAGTTAGAGGGTTCAATCCCTACTCACAA
1 ACTTATAAAGTTAGAGGGTTCAATCCCTACTCACAA
92742330 ACTTATAAAGTT-GAGGGTTCAATCCCTACTCACAA
1 ACTTATAAAGTTAGAGGGTTCAATCCCTACTCACAA
92742365 A
1 A
92742366 AATTGTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.67
36 12 0.33
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (36 bp):
ACTTATAAAGTTAGAGGGTTCAATCCCTACTCACAA
Found at i:92750477 original size:30 final size:30
Alignment explanation
Indices: 92750441--92750519 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
92750431 CCTAAACTAT
*
92750441 CCCACTAACTCCATCACCCCACTAAGCCAC
1 CCCACTAATTCCATCACCCCACTAAGCCAC
* ** *
92750471 CCCACTAATTCTATCACCTTACTAAGCTAC
1 CCCACTAATTCCATCACCCCACTAAGCCAC
*
92750501 CCCACTAATTCCATTACCC
1 CCCACTAATTCCATCACCC
92750520 TACTTGCCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.29, C:0.46, G:0.03, T:0.23
Consensus pattern (30 bp):
CCCACTAATTCCATCACCCCACTAAGCCAC
Found at i:92750885 original size:3 final size:3
Alignment explanation
Indices: 92750877--92751042 Score: 162
Period size: 3 Copynumber: 55.0 Consensus size: 3
92750867 AGGGGGAGAG
92750877 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
92750925 TAT TAT TAT TAT TAT TAT TAT TACT T-T TAC TAT TAT T-T TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * *
92750968 ATATT TAT TAC CAT TATT TATT TATT TAT TAT TAG TAA CA- TAT TGT
1 -TA-T TAT TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT
* *
92751014 TAT T-T TAT TAT AAT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92751043 AATGGCACTA
Statistics
Matches: 138, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
2 9 0.07
3 111 0.80
4 17 0.12
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:92755083 original size:20 final size:21
Alignment explanation
Indices: 92755042--92755085 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
92755032 GAGGGATCAA
*
92755042 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
92755063 ATGCTGGA-TCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
92755083 ATG
1 ATG
92755086 ATAAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:92763013 original size:135 final size:134
Alignment explanation
Indices: 92762771--92763236 Score: 659
Period size: 135 Copynumber: 3.5 Consensus size: 134
92762761 GATTACAGAT
* * * *
92762771 ATCATCAGCCTTAACTTCACTGAGTA-AGAGTAAAGCAGGTTAAATATAGCAGATCTTATCTTCG
1 ATCATCAGCCTTATCTTCACTGAGCAGA-AGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCG
* * *
92762835 CTGAGCAGGAGTGGAGCAGATCGAATTTTGGTGAATCTTATCTCTACGTACTAGCGATGAAGCAG
65 TTGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTC-ACGTACTGGCGATGAAGCAG
92762900 ATTCCA
129 ATTCCA
*
92762906 ATCATCAGCCTTATCTTCACTGAGCAGAAGTGAAGCAGTCTAAATATAGCAGATCTTATCTTCGT
1 ATCATCAGCCTTATCTTCACTGAGCAGAAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGT
* *
92762971 TGAGCAGGAGCGGAGCAGATTGAATTTTGGTGAATCTTATCTCCACGTACTGGCGATGGAGCAGA
66 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCT-CACGTACTGGCGATGAAGCAGA
92763036 TTCCA
130 TTCCA
* * * *
92763041 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGTAGATATTGTCTTCGT
1 ATCATCAGCCTTATCTTCACTGAGCAGAAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGT
* * * *
92763106 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTCATCTCCCTGT-GTCGGCAAT-AGAGCA
66 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCAC-GTACT-GGCGATGA-AGCA
*
92763169 GATTCAA
128 GATTCCA
* * *
92763176 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAGGCAGGCTAAATATATCAGATCTTATCT
1 ATCATCAGCCTTATCTTCACTGAGCAGAAGTGAAGCAGGCTAAATATAGCAGATCTTATCT
92763237 CCACTGAACA
Statistics
Matches: 299, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
134 3 0.01
135 294 0.98
136 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (134 bp):
ATCATCAGCCTTATCTTCACTGAGCAGAAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGT
TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCACGTACTGGCGATGAAGCAGAT
TCCA
Found at i:92764655 original size:34 final size:33
Alignment explanation
Indices: 92764577--92764661 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
92764567 CATTTTTAAA
* **
92764577 ATTATTTTCTTATTATTTATTATATTTTTTTAC
1 ATTATTTTTTTATTATTTATTATATCATTTTAC
* *
92764610 ACTATTATTTATTA-TACTTATTATATCATTTT-C
1 ATTATT-TTT-TTATTATTTATTATATCATTTTAC
92764643 ATTATTTTTTTATTTATTT
1 ATTATTTTTTTA-TTATTT
92764662 TTGTTTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
31 3 0.07
32 3 0.07
33 15 0.37
34 17 0.41
35 3 0.07
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (33 bp):
ATTATTTTTTTATTATTTATTATATCATTTTAC
Found at i:92764913 original size:14 final size:14
Alignment explanation
Indices: 92764896--92764925 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92764886 TTTATTATAC
*
92764896 TTATTATATTTTAT
1 TTATCATATTTTAT
92764910 TTATCATATTTTAT
1 TTATCATATTTTAT
92764924 TT
1 TT
92764926 TTTTTTTTTA
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATCATATTTTAT
Found at i:92771100 original size:27 final size:27
Alignment explanation
Indices: 92771013--92771108 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
92771003 AATAACTGAT
*
92771013 TTCGCACACTTAGTGCTCAGAAAT-TAA
1 TTCGCACACTTAGTGCTCAG-AATCAAA
* * * *
92771040 TTCACACACATAGTGCTTA-AATCCAA
1 TTCGCACACTTAGTGCTCAGAATCAAA
* *
92771066 CTCGCACACTTAGTGCTCAGTATCAAA
1 TTCGCACACTTAGTGCTCAGAATCAAA
92771093 TTCGCACACTTAGTGC
1 TTCGCACACTTAGTGC
92771109 ATCCCTCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.05
26 17 0.30
27 36 0.64
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
TTCGCACACTTAGTGCTCAGAATCAAA
Found at i:92774886 original size:15 final size:14
Alignment explanation
Indices: 92774863--92774929 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
92774853 ATTTGCAGGT
92774863 AAAAT-ATTTTTCGA
1 AAAATAATTTTT-GA
*
92774877 AAAATAATTTCTGA
1 AAAATAATTTTTGA
92774891 AAAATAATTTTTTGA
1 AAAATAA-TTTTTGA
* *
92774906 AAAATAATTTCTGG
1 AAAATAATTTTTGA
*
92774920 AAAATGATTT
1 AAAATAATTT
92774930 ACTTTTCTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 28 0.61
15 18 0.39
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (14 bp):
AAAATAATTTTTGA
Found at i:92774907 original size:29 final size:28
Alignment explanation
Indices: 92774863--92774929 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
92774853 ATTTGCAGGT
92774863 AAAATATTTTTCGAAAAATAATTTCTGA
1 AAAATATTTTTCGAAAAATAATTTCTGA
* *
92774891 AAAATAATTTTTTGAAAAATAATTTCTGG
1 AAAAT-ATTTTTCGAAAAATAATTTCTGA
92774920 AAAATGATTT
1 AAAAT-ATTT
92774930 ACTTTTCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (28 bp):
AAAATATTTTTCGAAAAATAATTTCTGA
Found at i:92774923 original size:14 final size:14
Alignment explanation
Indices: 92774871--92774929 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
92774861 GTAAAATATT
92774871 TTTC-GAAAAATAA
1 TTTCTGAAAAATAA
92774884 TTTCTGAAAAATAA
1 TTTCTGAAAAATAA
*
92774898 TTTTTTGAAAAATAA
1 -TTTCTGAAAAATAA
* *
92774913 TTTCTGGAAAATGA
1 TTTCTGAAAAATAA
92774927 TTT
1 TTT
92774930 ACTTTTCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
13 4 0.10
14 23 0.57
15 13 0.32
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (14 bp):
TTTCTGAAAAATAA
Found at i:92775083 original size:2 final size:2
Alignment explanation
Indices: 92775076--92775102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92775066 GAGTTTACTT
92775076 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
92775103 TAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92775834 original size:14 final size:14
Alignment explanation
Indices: 92775815--92775841 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92775805 GTAAAACCAG
92775815 GAAAATATTTTCCA
1 GAAAATATTTTCCA
92775829 GAAAATATTTTCC
1 GAAAATATTTTCC
92775842 TGGTTGCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
GAAAATATTTTCCA
Found at i:92776641 original size:12 final size:12
Alignment explanation
Indices: 92776624--92776649 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92776614 TTTGTAAATT
92776624 TTATTTTTATAA
1 TTATTTTTATAA
92776636 TTATTTTTATAA
1 TTATTTTTATAA
92776648 TT
1 TT
92776650 TATATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTTTATAA
Found at i:92776686 original size:19 final size:18
Alignment explanation
Indices: 92776639--92776688 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
92776629 TTTATAATTA
*
92776639 TTTTTATAATTTATATGTT
1 TTTTTAT-ATTTATATCTT
*
92776658 TTTTCTATATTTATTTCTAT
1 TTTT-TATATTTATATCT-T
92776678 TTTTTATATTT
1 TTTTTATATTT
92776689 TTAATGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTATATTTATATCTT
Found at i:92777507 original size:20 final size:20
Alignment explanation
Indices: 92777482--92777521 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
92777472 CTATTAAACA
92777482 TTATTTTAACTTTTTTAATT
1 TTATTTTAACTTTTTTAATT
*
92777502 TTATTTTAATTTTTTTAATT
1 TTATTTTAACTTTTTTAATT
92777522 AGAGCTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTAACTTTTTTAATT
Found at i:92781204 original size:22 final size:23
Alignment explanation
Indices: 92781176--92781218 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
92781166 TCATGAAAAT
92781176 AAATTTA-AATTTTTAAAAATGA
1 AAATTTATAATTTTTAAAAATGA
**
92781198 AAATTTATGTTTTTTAAAAAT
1 AAATTTATAATTTTTAAAAAT
92781219 TATAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AAATTTATAATTTTTAAAAATGA
Found at i:92781229 original size:24 final size:23
Alignment explanation
Indices: 92781185--92781229 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
92781175 TAAATTTAAA
*
92781185 TTTTTAAAAATGAAAATTTATGT
1 TTTTTAAAAATGAAAAATTATGT
*
92781208 TTTTTAAAAATTATAAAATTAT
1 TTTTTAAAAATGA-AAAATTAT
92781230 TTTACAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTTTTAAAAATGAAAAATTATGT
Found at i:92785027 original size:35 final size:35
Alignment explanation
Indices: 92784978--92785044 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
92784968 CCAGATTAGG
*
92784978 AAAAAGGGTTAAGTTCAGGTACCAAATTAGACCAA
1 AAAAAGGGTCAAGTTCAGGTACCAAATTAGACCAA
* *
92785013 AAAAAGTGTCAAGTTTAGGTACCAAATTAGAC
1 AAAAAGGGTCAAGTTCAGGTACCAAATTAGAC
92785045 AGAAAAGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (35 bp):
AAAAAGGGTCAAGTTCAGGTACCAAATTAGACCAA
Found at i:92785118 original size:33 final size:32
Alignment explanation
Indices: 92785071--92785152 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
92785061 TCAACTTAAG
* * * *
92785071 AAAAAATGTCAAATTTAGATGCTAAATTAAAA
1 AAAAAATATCAAATTTAAATACGAAATTAAAA
*
92785103 AAAAATATATCAAATTTAAATACGAAATTAAGA
1 AAAAA-ATATCAAATTTAAATACGAAATTAAAA
* * *
92785136 AAATAATGTCAAGTTTA
1 AAAAAATATCAAATTTA
92785153 GGAAAAACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 15 0.37
33 26 0.63
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (32 bp):
AAAAAATATCAAATTTAAATACGAAATTAAAA
Found at i:92790267 original size:19 final size:20
Alignment explanation
Indices: 92790240--92790283 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
92790230 AAAAGTGAAA
* *
92790240 ATTTGGAATTTTTATAAA-T
1 ATTTAGAATTTTTAAAAATT
92790259 ATTTAGAATTTTTAAAAATT
1 ATTTAGAATTTTTAAAAATT
92790279 ATTTA
1 ATTTA
92790284 TGTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTAGAATTTTTAAAAATT
Found at i:92790640 original size:2 final size:2
Alignment explanation
Indices: 92790633--92790663 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
92790623 ACTTCAAAAC
92790633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92790664 TGCCATTAGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92793208 original size:10 final size:10
Alignment explanation
Indices: 92793193--92793242 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
92793183 TAATTCTAGG
92793193 ATTTAT-TTT
1 ATTTATCTTT
92793202 CATTTATCTTT
1 -ATTTATCTTT
*
92793213 AATTATCTTT
1 ATTTATCTTT
92793223 ATTTAT-TTGT
1 ATTTATCTT-T
92793233 ATTTATCTTT
1 ATTTATCTTT
92793243 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:92800537 original size:10 final size:10
Alignment explanation
Indices: 92800524--92800561 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
92800514 AAATAGAATT
92800524 AAAAAAAGAG
1 AAAAAAAGAG
*
92800534 AAAAAAAAAG
1 AAAAAAAGAG
92800544 AAAAAAAGA-
1 AAAAAAAGAG
*
92800553 AAAAGAAGA
1 AAAAAAAGA
92800562 AGGAGGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:92801176 original size:10 final size:10
Alignment explanation
Indices: 92801163--92801222 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
92801153 TATTTCTAGG
92801163 ATTTAT-TTT
1 ATTTATCTTT
92801172 CATTTATCTTT
1 -ATTTATCTTT
92801183 ATTTATCTTT
1 ATTTATCTTT
* *
92801193 AATTATATTT
1 ATTTATCTTT
92801203 ATTTAT-TTGT
1 ATTTATCTT-T
92801213 ATTTATCTTT
1 ATTTATCTTT
92801223 TAGAATTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:92801216 original size:30 final size:30
Alignment explanation
Indices: 92801165--92801222 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
92801155 TTTCTAGGAT
92801165 TTATTTTCATTTATCTTTATTTATCTTTAA
1 TTATTTTCATTTATCTTTATTTATCTTTAA
92801195 TTATATTT-ATTTAT-TTGTATTTATCTTT
1 TTAT-TTTCATTTATCTT-TATTTATCTTT
92801223 TAGAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (30 bp):
TTATTTTCATTTATCTTTATTTATCTTTAA
Found at i:92814271 original size:68 final size:68
Alignment explanation
Indices: 92814189--92814334 Score: 258
Period size: 68 Copynumber: 2.2 Consensus size: 68
92814179 ATTAGCAAAA
* *
92814189 ATAT-AAAATATAAGTAGATTGGAAAGATTTGTTCTAAAATATAATTTGCAAAATACCATTAAAA
1 ATATAAAAATGTAAGTAGATTGGAAAGATTTGTTATAAAATATAATTTGCAAAATACCATTAAAA
92814253 ATT
66 ATT
*
92814256 ATATAAAAATGTAAGTAGATTGGAAAGATTTGTTATAAAATATAATTTGCAAAATATCATTAAAA
1 ATATAAAAATGTAAGTAGATTGGAAAGATTTGTTATAAAATATAATTTGCAAAATACCATTAAAA
92814321 ATT
66 ATT
92814324 ATATAAAAATG
1 ATATAAAAATG
92814335 ACGAGAGCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
67 4 0.05
68 71 0.95
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (68 bp):
ATATAAAAATGTAAGTAGATTGGAAAGATTTGTTATAAAATATAATTTGCAAAATACCATTAAAA
ATT
Found at i:92814452 original size:2 final size:2
Alignment explanation
Indices: 92814445--92814470 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92814435 TTTTGTAATA
92814445 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
92814471 GATGTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92821755 original size:15 final size:15
Alignment explanation
Indices: 92821735--92821784 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
92821725 CCCCTGTACA
92821735 AACCCTAGGTGTGCG
1 AACCCTAGGTGTGCG
92821750 AACCCTAGGTGTGCG
1 AACCCTAGGTGTGCG
***
92821765 -ACCCTTTTTGTGCG
1 AACCCTAGGTGTGCG
92821779 AACCCT
1 AACCCT
92821785 TGTACGAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.26
Consensus pattern (15 bp):
AACCCTAGGTGTGCG
Found at i:92823754 original size:104 final size:104
Alignment explanation
Indices: 92823627--92823828 Score: 377
Period size: 104 Copynumber: 1.9 Consensus size: 104
92823617 AATATTACGT
* *
92823627 GTATGTAGTATGTCATACTCATAACCAGTCATATGAACGTCATTCACACATCAAAACTTATCACT
1 GTATGTAGTATGTCATACTCATAACCAGTCATATGAACGTCATTCACACATCAAAACCTACCACT
92823692 AGCGTTATAAAGGTCTTTTCATCAGTTAGGGGTAAAACA
66 AGCGTTATAAAGGTCTTTTCATCAGTTAGGGGTAAAACA
*
92823731 GTATGTAGTATGTCATACTCATAACCAGTCATATGAATGTCATTCACACATCAAAACCTACCACT
1 GTATGTAGTATGTCATACTCATAACCAGTCATATGAACGTCATTCACACATCAAAACCTACCACT
92823796 AGCGTTATAAAGGTCTTTTCATCAGTTAGGGGT
66 AGCGTTATAAAGGTCTTTTCATCAGTTAGGGGT
92823829 TCGGTCATTT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 95 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (104 bp):
GTATGTAGTATGTCATACTCATAACCAGTCATATGAACGTCATTCACACATCAAAACCTACCACT
AGCGTTATAAAGGTCTTTTCATCAGTTAGGGGTAAAACA
Found at i:92828444 original size:18 final size:18
Alignment explanation
Indices: 92828417--92828452 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92828407 CTTCAAAAAG
*
92828417 AATGGTTTCACAAGATCA
1 AATGGCTTCACAAGATCA
92828435 AATGGCTTCACAAGATCA
1 AATGGCTTCACAAGATCA
92828453 CATCGGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (18 bp):
AATGGCTTCACAAGATCA
Found at i:92835924 original size:22 final size:22
Alignment explanation
Indices: 92835894--92835939 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
92835884 TGAGCTGATA
* *
92835894 AACGGTAAGCTCCGAAGAGTTG
1 AACGATAAGCTCCGAAGAGCTG
*
92835916 AACGATAAGCTCCGTAGAGCTG
1 AACGATAAGCTCCGAAGAGCTG
92835938 AA
1 AA
92835940 ACAGAAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (22 bp):
AACGATAAGCTCCGAAGAGCTG
Found at i:92836712 original size:47 final size:47
Alignment explanation
Indices: 92836643--92836736 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
92836633 ATATTCAACA
92836643 ATGGCATATCTCAAAATCTTTAACGGTTTTAAAAACGAAGGTACGGG
1 ATGGCATATCTCAAAATCTTTAACGGTTTTAAAAACGAAGGTACGGG
92836690 ATGGCATATCTCAAAATCTTTAACGGTTTTAAAAACGAAGGTACGGG
1 ATGGCATATCTCAAAATCTTTAACGGTTTTAAAAACGAAGGTACGGG
92836737 TCAGCTAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (47 bp):
ATGGCATATCTCAAAATCTTTAACGGTTTTAAAAACGAAGGTACGGG
Found at i:92842089 original size:47 final size:47
Alignment explanation
Indices: 92842036--92842125 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
92842026 AATTGCTAAC
*
92842036 TGTATAACAGCATGTCATTTATTGTATGTTGCATTGTATCGGGTAAA
1 TGTATAACAACATGTCATTTATTGTATGTTGCATTGTATCGGGTAAA
92842083 TGTATAACAACATGTCATTTATTGTATGTTGCATTGTATCGGG
1 TGTATAACAACATGTCATTTATTGTATGTTGCATTGTATCGGG
92842126 GTGGGTTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (47 bp):
TGTATAACAACATGTCATTTATTGTATGTTGCATTGTATCGGGTAAA
Found at i:92844294 original size:2 final size:2
Alignment explanation
Indices: 92844287--92844312 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92844277 TTTTAATTTA
92844287 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
92844313 CATGATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92846399 original size:227 final size:227
Alignment explanation
Indices: 92846004--92846458 Score: 901
Period size: 227 Copynumber: 2.0 Consensus size: 227
92845994 ATAATTAAGG
92846004 ATGTCTAATATTTTAAATAGATTAGTTGAAACAAAATGCCGTCAAAGTGACCTCTTTTGTGTAGA
1 ATGTCTAATATTTTAAATAGATTAGTTGAAACAAAATGCCGTCAAAGTGACCTCTTTTGTGTAGA
*
92846069 TAAGCTTATTTAAATTATTAAGATGATTATATGTTTTTGTGATTCATGTGTTTATTAATTGACTT
66 TAAGCTTATTTAAATTATTAAGATGATTATATGTTTTTGTGATACATGTGTTTATTAATTGACTT
92846134 AAAGGTAAGTTAATATTTGGTAGAATTTCAACGACATCTGTGGTGATAAATGTGTGACAATTATA
131 AAAGGTAAGTTAATATTTGGTAGAATTTCAACGACATCTGTGGTGATAAATGTGTGACAATTATA
92846199 AGGTACTTTATGTGAGCAATAAGTTAGTCCAA
196 AGGTACTTTATGTGAGCAATAAGTTAGTCCAA
92846231 ATGTCTAATATTTTAAATAGATTAGTTGAAACAAAATGCCGTCAAAGTGACCTCTTTTGTGTAGA
1 ATGTCTAATATTTTAAATAGATTAGTTGAAACAAAATGCCGTCAAAGTGACCTCTTTTGTGTAGA
92846296 TAAGCTTATTTAAATTATTAAGATGATTATATGTTTTTGTGATACATGTGTTTATTAATTGACTT
66 TAAGCTTATTTAAATTATTAAGATGATTATATGTTTTTGTGATACATGTGTTTATTAATTGACTT
92846361 AAAGGTAAGTTAATATTTGGTAGAATTTCAACGACATCTGTGGTGATAAATGTGTGACAATTATA
131 AAAGGTAAGTTAATATTTGGTAGAATTTCAACGACATCTGTGGTGATAAATGTGTGACAATTATA
92846426 AGGTACTTTATGTGAGCAATAAGTTAGTCCAA
196 AGGTACTTTATGTGAGCAATAAGTTAGTCCAA
92846458 A
1 A
92846459 GATTGATTCA
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (227 bp):
ATGTCTAATATTTTAAATAGATTAGTTGAAACAAAATGCCGTCAAAGTGACCTCTTTTGTGTAGA
TAAGCTTATTTAAATTATTAAGATGATTATATGTTTTTGTGATACATGTGTTTATTAATTGACTT
AAAGGTAAGTTAATATTTGGTAGAATTTCAACGACATCTGTGGTGATAAATGTGTGACAATTATA
AGGTACTTTATGTGAGCAATAAGTTAGTCCAA
Found at i:92851233 original size:7 final size:7
Alignment explanation
Indices: 92851221--92851311 Score: 101
Period size: 7 Copynumber: 12.9 Consensus size: 7
92851211 AAATCTAGGG
92851221 AGGGTTT
1 AGGGTTT
92851228 AGGGTTT
1 AGGGTTT
*
92851235 ATGGTTT
1 AGGGTTT
*
92851242 ATGGTTT
1 AGGGTTT
*
92851249 ATGGTTT
1 AGGGTTT
*
92851256 ATGGTTTT
1 A-GGGTTT
*
92851264 AGGGCTT
1 AGGGTTT
*
92851271 AGTGTTT
1 AGGGTTT
*
92851278 AGGGCTT
1 AGGGTTT
*
92851285 AAGGTTT
1 AGGGTTT
92851292 AGGGTTT
1 AGGGTTT
92851299 AGGGTTT
1 AGGGTTT
92851306 AGGGTT
1 AGGGTT
92851312 GATTTGTTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
7 66 0.93
8 5 0.07
ACGTcount: A:0.15, C:0.02, G:0.36, T:0.46
Consensus pattern (7 bp):
AGGGTTT
Found at i:92851781 original size:61 final size:60
Alignment explanation
Indices: 92851653--92851782 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 60
92851643 GACCACACGC
* * * *
92851653 CCGTGTCTATTTAGTAGATTTTAACACGACCTAAGCCACCTCACACGGGCGTGGAAAATG
1 CCGTGTCTATTTAGCAGACTTTAACACGACCTAAGCCACATCACACGGGCATGGAAAATG
* * * * *
92851713 CCTGTGTCTATTTAGCAGACTTTAGCACGGCTTAAGCCACATCACACGGGCATGGCACATGG
1 CC-GTGTCTATTTAGCAGACTTTAACACGACCTAAGCCACATCACACGGGCATGGAAAAT-G
92851775 CCGTGTCT
1 CCGTGTCT
92851783 CTATCGAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 2 0.03
61 54 0.92
62 3 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (60 bp):
CCGTGTCTATTTAGCAGACTTTAACACGACCTAAGCCACATCACACGGGCATGGAAAATG
Found at i:92856631 original size:44 final size:44
Alignment explanation
Indices: 92856568--92856696 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
92856558 AGCGTTCGAT
* * *
92856568 ACGCCCGTGCACACCACCCGTGGTTGAAACTATCAAAATAACAC
1 ACGCCCGTGCCCACCACCCGTGGTCGAAACTGTCAAAATAACAC
* * *
92856612 ACGCCCGTGCCCACCACCCGTGGTCAAAATTGTCAAAAT--GAC
1 ACGCCCGTGCCCACCACCCGTGGTCGAAACTGTCAAAATAACAC
*
92856654 A-GCCCGTGCCCACCA-TCGTGGTCGAAACTGTCAAAATAACAC
1 ACGCCCGTGCCCACCACCCGTGGTCGAAACTGTCAAAATAACAC
92856696 A
1 A
92856697 GGGGTGGGAG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
40 19 0.26
41 14 0.19
42 6 0.08
44 34 0.47
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (44 bp):
ACGCCCGTGCCCACCACCCGTGGTCGAAACTGTCAAAATAACAC
Found at i:92858768 original size:29 final size:29
Alignment explanation
Indices: 92858736--92858811 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
92858726 ATTTTTGAAG
* *
92858736 ACTTTTATTTATTATTTTTATTTTT-ATTT
1 ACTTTTATTT-TTATTTATATTTTTAAATT
* *
92858765 ACTTTTATCTTTATTTATCTTTTTAAATT
1 ACTTTTATTTTTATTTATATTTTTAAATT
92858794 ACTTTT-TATTTTATTTAT
1 ACTTTTAT-TTTTATTTAT
92858812 CTTTAATACT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 13 0.32
29 27 0.68
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (29 bp):
ACTTTTATTTTTATTTATATTTTTAAATT
Found at i:92858772 original size:16 final size:17
Alignment explanation
Indices: 92858743--92858787 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
92858733 AAGACTTTTA
*
92858743 TTTA-TTAT-TTTTATT
1 TTTATTTATCTTTTATC
92858758 TTTATTTA-CTTTTATC
1 TTTATTTATCTTTTATC
92858774 TTTATTTATCTTTT
1 TTTATTTATCTTTT
92858788 TAAATTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTATCTTTTATC
Found at i:92865695 original size:29 final size:29
Alignment explanation
Indices: 92865662--92865718 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
92865652 GGTCCAACAC
*
92865662 ATGACCTTTCACATGGCCATGTGTCACAA
1 ATGACCTATCACATGGCCATGTGTCACAA
* *
92865691 ATGACCTATCACATGGTCTTGTGTCACA
1 ATGACCTATCACATGGCCATGTGTCACA
92865719 TACGGCCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (29 bp):
ATGACCTATCACATGGCCATGTGTCACAA
Found at i:92865727 original size:29 final size:29
Alignment explanation
Indices: 92865664--92865732 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
92865654 TCCAACACAT
* *
92865664 GACCTTTCACATGGCCATGTGTCACAAAT
1 GACCTATCACATGGCCATGTGTCACAAAC
* * *
92865693 GACCTATCACATGGTCTTGTGTCACATAC
1 GACCTATCACATGGCCATGTGTCACAAAC
* *
92865722 GGCCTACCACA
1 GACCTATCACA
92865733 CAGTTTGGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
GACCTATCACATGGCCATGTGTCACAAAC
Found at i:92868368 original size:13 final size:14
Alignment explanation
Indices: 92868347--92868375 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92868337 CACCAAAACC
92868347 AAAACCAAAAAAAT
1 AAAACCAAAAAAAT
92868361 AAAA-CAAAAAAAT
1 AAAACCAAAAAAAT
92868374 AA
1 AA
92868376 TAATAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACCAAAAAAAT
Found at i:92869598 original size:3 final size:3
Alignment explanation
Indices: 92869590--92869637 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
92869580 TACTTATGTA
92869590 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
92869638 TAAAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:92870100 original size:2 final size:2
Alignment explanation
Indices: 92870093--92870127 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92870083 TATATTTTGT
92870093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92870128 TGATATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92870133 original size:10 final size:9
Alignment explanation
Indices: 92870092--92870133 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 9
92870082 CTATATTTTG
92870092 TTATATATA
1 TTATATATA
92870101 -TATATATA
1 TTATATATA
92870109 -TATATATA
1 TTATATATA
92870117 TATATATATA
1 T-TATATATA
92870127 TTGATAT
1 TT-ATAT
92870134 TTGAAGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.53
9 1 0.03
10 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
TTATATATA
Found at i:92872880 original size:25 final size:24
Alignment explanation
Indices: 92872843--92872907 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
92872833 GTCTAATGAG
*
92872843 AATAGTTTATTAAATAAAAATAAAAT
1 AATAATTT-TTAAAT-AAAATAAAAT
* *
92872869 AATACTTTTTAAAGTAGAATAAAAT
1 AATAATTTTTAAA-TAAAATAAAAT
*
92872894 AATAATTTTAAAAT
1 AATAATTTTTAAAT
92872908 TTCTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 25 0.74
26 8 0.24
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (24 bp):
AATAATTTTTAAATAAAATAAAAT
Found at i:92875935 original size:15 final size:14
Alignment explanation
Indices: 92875909--92875958 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
92875899 TAATCAAAAT
92875909 TAGATAAAATTATCA
1 TAGA-AAAATTATCA
* *
92875924 TAGAAACCATTATAA
1 TAGAAA-AATTATCA
92875939 TAGATAAAATTATCA
1 TAGA-AAAATTATCA
92875954 TAGAA
1 TAGAA
92875959 GCCTCTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.10
15 24 0.83
16 2 0.07
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (14 bp):
TAGAAAAATTATCA
Found at i:92879565 original size:12 final size:12
Alignment explanation
Indices: 92879535--92879586 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
92879525 ATTAAAAAAC
* *
92879535 AATAATAAATAA
1 AATAGTAAATAT
*
92879547 AAAAGTAAATAT
1 AATAGTAAATAT
* *
92879559 ACTAGTAAAAAT
1 AATAGTAAATAT
*
92879571 AATACTAAATAT
1 AATAGTAAATAT
92879583 AATA
1 AATA
92879587 TAATAATTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (12 bp):
AATAGTAAATAT
Found at i:92880217 original size:22 final size:22
Alignment explanation
Indices: 92880172--92880218 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
92880162 TGTGATTTCT
* *
92880172 TATTTTTTTATTTTTTGTATTA
1 TATTTTTTTATTGTTTGTAATA
92880194 TATTTTTTTATATGTTT-TAATA
1 TATTTTTTTAT-TGTTTGTAATA
92880216 TAT
1 TAT
92880219 ATGTGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TATTTTTTTATTGTTTGTAATA
Found at i:92881800 original size:12 final size:12
Alignment explanation
Indices: 92881785--92881809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92881775 AATAAAGAGG
92881785 AAAATAAAAAAT
1 AAAATAAAAAAT
92881797 AAAATAAAAAAT
1 AAAATAAAAAAT
92881809 A
1 A
92881810 CACCTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:92886888 original size:9 final size:9
Alignment explanation
Indices: 92886874--92886915 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
92886864 AACGCTTTTT
92886874 TTGCATTCA
1 TTGCATTCA
92886883 TTGCATTCA
1 TTGCATTCA
92886892 TTGCATTCA
1 TTGCATTCA
*
92886901 -TGCATAGCA
1 TTGCAT-TCA
92886910 TTGCAT
1 TTGCAT
92886916 CACACACACT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 5 0.17
9 20 0.67
10 5 0.17
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (9 bp):
TTGCATTCA
Found at i:92895060 original size:44 final size:43
Alignment explanation
Indices: 92895006--92895113 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
92894996 TTCGCAGATC
* *
92895006 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG-A-GCT
1 TTAACCCCCTAAGCAGTAGGGAAACA-AGC-AAAAT-ATGCAGGCT
* *
92895050 TTAACCCCCTAAGCAGTAGGGTAACAAGCAAAATTTGCAGGCT
1 TTAACCCCCTAAGCAGTAGGGAAACAAGCAAAATATGCAGGCT
*
92895093 TTAACCCCCTAAGCAATAGGG
1 TTAACCCCCTAAGCAGTAGGG
92895114 TAATAGGCTG
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 2 0.04
42 5 0.09
43 25 0.44
44 25 0.44
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGAAACAAGCAAAATATGCAGGCT
Found at i:92895361 original size:43 final size:43
Alignment explanation
Indices: 92895263--92895380 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 43
92895253 GACTAAATGT
* * * **
92895263 ACAGACCTTAAACCCCTAAGCAGTATGGTAACAGGTTGAATTC
1 ACAGACCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTC
* * * *
92895306 AAAGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTT
1 ACA-GACCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTC
*
92895350 GCAGACCTTAACCCCCTAAGCAGTAGGGTAA
1 ACAGACCTTAACCCCCTAAGCAGTAGGGTAA
92895381 TAGGCTAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 28 0.46
44 33 0.54
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (43 bp):
ACAGACCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTC
Found at i:92896522 original size:12 final size:12
Alignment explanation
Indices: 92896507--92896531 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92896497 AATAAAGAGG
92896507 AAAATAAAAAAT
1 AAAATAAAAAAT
92896519 AAAATAAAAAAT
1 AAAATAAAAAAT
92896531 A
1 A
92896532 CACCTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:92897621 original size:13 final size:14
Alignment explanation
Indices: 92897584--92897622 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
92897574 TTTATATCTC
* *
92897584 ATATATATTTATAT
1 ATATATATGTATGT
92897598 ATATATATGTATGT
1 ATATATATGTATGT
92897612 ATAT-TATGTAT
1 ATATATATGTAT
92897623 ATTTTCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (14 bp):
ATATATATGTATGT
Found at i:92898938 original size:10 final size:10
Alignment explanation
Indices: 92898923--92898961 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
92898913 TTTTGGGAAG
92898923 ATACTACAAT
1 ATACTACAAT
*
92898933 ATACTATCATAG
1 ATACTA-CA-AT
92898945 ATACTACAAT
1 ATACTACAAT
92898955 ATACTAC
1 ATACTAC
92898962 CATAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 14 0.56
11 4 0.16
12 7 0.28
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (10 bp):
ATACTACAAT
Found at i:92898946 original size:22 final size:22
Alignment explanation
Indices: 92898921--92898965 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
92898911 TCTTTTGGGA
*
92898921 AGATACTACAATATACTATCAT
1 AGATACTACAATATACTACCAT
92898943 AGATACTACAATATACTACCAT
1 AGATACTACAATATACTACCAT
92898965 A
1 A
92898966 AATAAATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
AGATACTACAATATACTACCAT
Found at i:92900433 original size:70 final size:70
Alignment explanation
Indices: 92900315--92900449 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
92900305 GGTATGGGTT
* *
92900315 AATAATCAAGTGTTAGTATTTTTACCCAATAATGTTATAAAGGGTGTAGGTTCAAACCCCACCAA
1 AATAATCAAGTGGTAGTATTTTTACCCAAGAATGTTATAAAGGGTGTAGGTTCAAACCCCACCAA
92900380 AATCA
66 AATCA
* * *
92900385 AATAGTCAAGTGGTAGTATTTTTACCCAGGAATGTTATAAAGGGTGTAGGTTCAAACCTCACCAA
1 AATAATCAAGTGGTAGTATTTTTACCCAAGAATGTTATAAAGGGTGTAGGTTCAAACCCCACCAA
92900450 GCTAAATGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (70 bp):
AATAATCAAGTGGTAGTATTTTTACCCAAGAATGTTATAAAGGGTGTAGGTTCAAACCCCACCAA
AATCA
Found at i:92906940 original size:21 final size:21
Alignment explanation
Indices: 92906916--92906971 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
92906906 TTAGCTTGTC
*
92906916 TTATTTTTATTTTTGCCTTTA
1 TTATTTTTATTTTTGCCCTTA
* *
92906937 TTATTGTTATTTTATTCCCTTA
1 TTATTTTTATTTT-TGCCCTTA
*
92906959 TT-TGTTTATTTTT
1 TTATTTTTATTTTT
92906972 TTTATGTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 20 0.69
22 8 0.28
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATTTTTATTTTTGCCCTTA
Found at i:92908881 original size:18 final size:18
Alignment explanation
Indices: 92908858--92908900 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
92908848 GTTCAAGGTG
92908858 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
92908876 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
92908894 TAATTAA
1 TAATTAA
92908901 AAAACTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:92913181 original size:19 final size:22
Alignment explanation
Indices: 92913142--92913181 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
92913132 AGAAACCCAA
92913142 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
92913164 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
92913182 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:92913280 original size:27 final size:28
Alignment explanation
Indices: 92913243--92913382 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
92913233 AGCATGGCTG
* *
92913243 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
92913269 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
92913297 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
92913324 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
92913351 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
92913378 CCAGA
1 CCAGA
92913383 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:92915135 original size:78 final size:78
Alignment explanation
Indices: 92915002--92915163 Score: 270
Period size: 78 Copynumber: 2.1 Consensus size: 78
92914992 CATGAAATTC
* *
92915002 TTATCATGAAACATTTTCCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
92915067 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
92915080 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTGCCTAACCTATTATCAAGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
*
92915145 TTTACCTTACCTA
66 TTTACCTAACCTA
92915158 TTATCA
1 TTATCA
92915164 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
TTTACCTAACCTA
Found at i:92915164 original size:26 final size:26
Alignment explanation
Indices: 92915002--92915163 Score: 234
Period size: 26 Copynumber: 6.2 Consensus size: 26
92914992 CATGAAATTC
*
92915002 TTATCATGAAACATTTTCCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
92915028 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
92915054 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
92915080 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
92915106 TTATCATGGAACATTTGCCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
92915132 TTATCAAGGAACATTTACCTTACCTA
1 TTATCATGAAACATTTACCTAACCCA
92915158 TTATCA
1 TTATCA
92915164 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:92917268 original size:137 final size:137
Alignment explanation
Indices: 92917022--92917294 Score: 503
Period size: 137 Copynumber: 2.0 Consensus size: 137
92917012 TTGGCGTATA
92917022 TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
1 TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
*
92917087 TGGAAATCAACAGTAAACATTCAAAGGTAACTTGGATTGAAATTCACTAAGTCCGTTGAACTTAT
66 TGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTAT
92917152 TAGTGTT
131 TAGTGTT
*
92917159 TGTAAGTGCCTATATTAGAA-AAGTATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTT
1 TGTAAGTGCCTATATTA-AATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTT
*
92917223 GTGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTTCGTTGAACTTA
65 GTGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTA
92917288 TTAGTGT
130 TTAGTGT
92917295 CTGTTGTTAG
Statistics
Matches: 132, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
137 130 0.98
138 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (137 bp):
TGTAAGTGCCTATATTAAATAAGCATCTGTCAAAGACTGAAAACAAATTCAGAATCTTTAAGTTG
TGGAAATCAACAGTAAACATTCAAAGGTAACTTAGATTGAAATTCACTAAGTCCGTTGAACTTAT
TAGTGTT
Found at i:92925389 original size:5 final size:5
Alignment explanation
Indices: 92925379--92925409 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
92925369 TCACTAGTTA
92925379 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG G
1 GGTTG GGTTG GGTTG GGTTG GGTTG GGTTG G
92925410 TGAGTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GGTTG
Found at i:92925689 original size:10 final size:10
Alignment explanation
Indices: 92925674--92925724 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
92925664 TTTTTTTATA
92925674 TTAAAAATAT
1 TTAAAAATAT
92925684 TTAAAAATAT
1 TTAAAAATAT
*
92925694 CCTATAAAATA-
1 -TTA-AAAATAT
*
92925705 TAATAAAATAT
1 TTA-AAAATAT
92925716 TTAAAAATA
1 TTAAAAATA
92925725 AATATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 24 0.71
11 4 0.12
12 6 0.18
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:92928506 original size:9 final size:9
Alignment explanation
Indices: 92928494--92928530 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
92928484 AAAAAAGTAC
92928494 AAAAAAAAT
1 AAAAAAAAT
92928503 AAAAAAAA-
1 AAAAAAAAT
92928511 ATAAAAAAAT
1 A-AAAAAAAT
92928521 AAAAAAAAT
1 AAAAAAAAT
92928530 A
1 A
92928531 TTCTGTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:92928507 original size:10 final size:10
Alignment explanation
Indices: 92928484--92928528 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
92928474 AAATAAGTAT
*
92928484 AAAAAAGTACA
1 AAAAAAATA-A
92928495 AAAAAAATAA
1 AAAAAAATAA
92928505 AAAAAAAT--
1 AAAAAAATAA
92928513 AAAAAAATAA
1 AAAAAAATAA
92928523 AAAAAA
1 AAAAAA
92928529 TATTCTGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.87, C:0.02, G:0.02, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:92931572 original size:19 final size:19
Alignment explanation
Indices: 92931525--92931584 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
92931515 AATCTTTAAG
92931525 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92931544 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92931561 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
92931582 GAT
1 GAT
92931585 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
21 9 0.24
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92937574 original size:2 final size:2
Alignment explanation
Indices: 92937569--92937599 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
92937559 TTTGTGTGTG
*
92937569 TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92937600 TTGTGTAGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:92939242 original size:31 final size:31
Alignment explanation
Indices: 92939184--92939242 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
92939174 GGTGCAATTA
* *
92939184 TATAAATGAAACTTTTATTGTGGTTCAAATG
1 TATAAATGAAACTTTCATTGTGATTCAAATG
* *
92939215 TATACATGAAACTTTCATTTTGATTCAA
1 TATAAATGAAACTTTCATTGTGATTCAA
92939243 TCATACACAT
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:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (31 bp):
TATAAATGAAACTTTCATTGTGATTCAAATG
Found at i:92940511 original size:24 final size:24
Alignment explanation
Indices: 92940496--92940547 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
92940486 AATCAATGTC
*
92940496 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
92940520 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
92940544 AAAT
1 AAAT
92940548 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:92943636 original size:17 final size:17
Alignment explanation
Indices: 92943616--92943651 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
92943606 TTTTGGTAGG
92943616 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
92943633 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
92943650 TT
1 TT
92943652 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:92943646 original size:12 final size:11
Alignment explanation
Indices: 92943616--92943649 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
92943606 TTTTGGTAGG
92943616 TTTTTCTTTTTC
1 TTTTT-TTTTTC
92943628 TTTTTTTTTTC
1 TTTTTTTTTTC
92943639 TTTGTTTTTTT
1 TTT-TTTTTTT
92943650 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:92944404 original size:88 final size:83
Alignment explanation
Indices: 92944297--92944874 Score: 290
Period size: 88 Copynumber: 7.0 Consensus size: 83
92944287 AACAGACATT
** * *
92944297 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
92944362 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
92944385 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
92944449 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
92944468 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
92944529 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
92944551 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
92944616 TTGA-TTTTTGAAAACAGATTTTG
65 TTGATTTTTTG-AAA-A-A--CTG
* * * * * *
92944639 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
92944704 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * * *
92944722 --ATA-A-ATTGAAAAAATACCTCAGTGTGTAATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
92944782 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
92944799 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
92944860 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
92944875 CAGAAATTGA
Statistics
Matches: 384, Mismatches: 69, Indels: 84
0.72 0.13 0.16
Matches are distributed among these distances:
76 9 0.02
77 46 0.12
78 2 0.01
79 65 0.17
80 3 0.01
81 13 0.03
82 38 0.10
83 14 0.04
84 39 0.10
85 9 0.02
86 4 0.01
87 19 0.05
88 114 0.30
89 3 0.01
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:92944501 original size:30 final size:30
Alignment explanation
Indices: 92944465--92944526 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
92944455 TTTTGAAAAA
92944465 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
92944495 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
92944525 CA
1 CA
92944527 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:92944639 original size:13 final size:13
Alignment explanation
Indices: 92944621--92944656 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
92944611 ATGAGTTGAT
92944621 TTTTGAAAACAGA
1 TTTTGAAAACAGA
92944634 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
92944648 TTTTGAAAA
1 TTTTGAAAA
92944657 TACCTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:92944846 original size:77 final size:75
Alignment explanation
Indices: 92944676--92945015 Score: 361
Period size: 72 Copynumber: 4.5 Consensus size: 75
92944666 ATGTAACCCG
* * * *
92944676 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
92944741 CAGTGTGTAATCTGA
63 CAGCGTG--ATCTCA
* *
92944756 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
92944820 GCGCATGAGC-CA
65 GCG--TGATCTCA
* * * *
92944832 AGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACATCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
**
92944896 CGTG-TCTTG
66 CGTGATCTCA
** * * *
92944905 AGGCTCAACTCATTTCTCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
92944968 CGTG-TCCCG
66 CGTGATCTCA
92944977 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
92945016 TTTTTTTGAA
Statistics
Matches: 222, Mismatches: 31, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
72 64 0.29
73 29 0.13
74 4 0.02
75 20 0.09
76 12 0.05
77 42 0.19
78 3 0.01
79 47 0.21
80 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGATCTCA
Found at i:92944957 original size:72 final size:72
Alignment explanation
Indices: 92944634--92945013 Score: 321
Period size: 72 Copynumber: 5.1 Consensus size: 72
92944624 TGAAAACAGA
** * * * *
92944634 TTTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAAT
1 TTTTG-AAAACAGAAATTGAAAATACATCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCAAT
*
92944699 GTGAGTTGATTT
63 ATGAGTTGA--T
* * * ** * * *
92944711 TTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTAATCTGAAGCTCAACTCACCTCTCGCA
1 TTTTG-AAAACAGAAATTG--AAAATACATCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCA
92944776 ATATGAGTTGATTT
61 ATATGAGTTGA--T
* * ** * *
92944790 TTTTGAAAGATAGAAATTGAAAATAGC-TCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATA-CATCAACG--TGTCCCGAGGCTCAACTCACCTCTCGCAA
*
92944854 TATAAGTTGATT
62 TATGAGTTGA-T
** ** *
92944866 TTTTGAAAACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATG
1 TTTTGAAAACAGAAATTGAAAATACATCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
92944931 AGTTGAA
66 AGTTGAT
* * *
92944938 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACATCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
92945003 AGTTGAT
66 AGTTGAT
92945010 TTTT
1 TTTT
92945014 TTTTTTTTTG
Statistics
Matches: 252, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
72 67 0.27
73 29 0.12
74 1 0.00
75 20 0.08
76 10 0.04
77 56 0.22
78 4 0.02
79 65 0.26
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAAATACATCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAT
Found at i:92945159 original size:172 final size:168
Alignment explanation
Indices: 92944871--92945349 Score: 693
Period size: 165 Copynumber: 2.9 Consensus size: 168
92944861 TGATTTTTTG
* * * * ** * *
92944871 AAAACAGAAATTGAAAATACATCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
92944934 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
92944998 ATATGAGTTGATTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA---TTTTTTTTTTTGAAAGGCAAAAATTGA
*
92945039 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
92945104 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
92945169 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
92945204 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
92945269 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
92945334 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
92945350 GAAAAAGTAG
Statistics
Matches: 281, Mismatches: 22, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
165 156 0.56
168 26 0.09
169 1 0.00
170 30 0.11
172 68 0.24
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:92945168 original size:74 final size:75
Alignment explanation
Indices: 92945045--92945189 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
92945035 TTGAAAAATG
*
92945045 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
92945110 TTTTGACAATA
65 TTTTGACAATA
* * *
92945121 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
92945184 TTTTGA
65 TTTTGA
92945190 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:92945335 original size:74 final size:75
Alignment explanation
Indices: 92945210--92945349 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
92945200 TTGAAAAACG
* *
92945210 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
92945275 TTTTGACAACA
65 TTTTGACAACA
* * *
92945286 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
92945350 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:92945548 original size:72 final size:71
Alignment explanation
Indices: 92945414--92945579 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
92945404 TGAACAACGT
* * * *
92945414 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
92945479 GAGTTG
66 GAGTTG
*
92945485 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
92945550 TGAGTTG
65 TGAGTTG
**
92945557 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
92945580 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:92945674 original size:122 final size:124
Alignment explanation
Indices: 92945454--92945700 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
92945444 GCGTGACCTG
* *
92945454 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
92945519 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * * *
92945579 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-AGATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
92945641 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
92945700 A
1 A
92945701 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 15 0.13
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:92945726 original size:71 final size:70
Alignment explanation
Indices: 92945579--92945754 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 70
92945569 AAAAATTAAA
* * * * * *
92945579 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAAGATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
92945643 CCCCG
66 CCCCG
*
92945648 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACA-ACAATTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACATA-AACTAAAAATACCTCAACG
* **
92945712 TGTCTTG
64 TGCCCCG
92945719 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
92945755 CCTTGAAAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
69 26 0.28
70 7 0.08
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:92948457 original size:195 final size:195
Alignment explanation
Indices: 92948125--92948514 Score: 753
Period size: 195 Copynumber: 2.0 Consensus size: 195
92948115 TTAATCAATT
*
92948125 TTAAGTCCCTCACTTCTCATTCTCCATGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
92948190 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
92948255 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
*
92948320 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAGTCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
92948385 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
*
92948450 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCTGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
92948515 CCAGGATTGC
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 192 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (195 bp):
TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
Found at i:92951136 original size:12 final size:12
Alignment explanation
Indices: 92951101--92951136 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
92951091 TGGGATATGC
* *
92951101 AATGTATGAATA
1 AATGCATGAATG
92951113 AATGCATGAATG
1 AATGCATGAATG
92951125 AATGCATGAATG
1 AATGCATGAATG
92951137 TCAAATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:92954223 original size:17 final size:17
Alignment explanation
Indices: 92954203--92954238 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
92954193 TTTTGGTAGG
92954203 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
92954220 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
92954237 TT
1 TT
92954239 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:92954233 original size:12 final size:11
Alignment explanation
Indices: 92954203--92954236 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
92954193 TTTTGGTAGG
92954203 TTTTTCTTTTTC
1 TTTTT-TTTTTC
92954215 TTTTTTTTTTC
1 TTTTTTTTTTC
92954226 TTTGTTTTTTT
1 TTT-TTTTTTT
92954237 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:92955918 original size:6 final size:6
Alignment explanation
Indices: 92955888--92955994 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
92955878 AAGAAACATT
* * *
92955888 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
92955937 ATTAGA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
92955987 ACCAGA AT
1 ATCAGA AT
92955995 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
5 5 0.07
6 59 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:92955938 original size:19 final size:19
Alignment explanation
Indices: 92955914--92955966 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
92955904 AAATGAGAAT
92955914 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
* *
92955933 CAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGGTGA
92955952 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
92955967 TATCAGGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:92955943 original size:25 final size:25
Alignment explanation
Indices: 92955909--92955994 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
92955899 AATCAAAATG
92955909 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
92955934 AGAAT-----T-AGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
92955953 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
92955978 AGAATCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
92955995 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
19 17 0.35
20 1 0.02
24 1 0.02
25 30 0.61
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Done.