Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 313 of 325
Found at i:94958936 original size:3 final size:3
Alignment explanation
Indices: 94958930--94958985 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
94958920 TGGTGGTGGT
94958930 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
94958978 GGA GGA GG
1 GGA GGA GG
94958986 TGGCGGTGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:94958993 original size:6 final size:6
Alignment explanation
Indices: 94958899--94959000 Score: 60
Period size: 6 Copynumber: 16.5 Consensus size: 6
94958889 GATCTGGATA
* * * * * *
94958899 TGGAAG TGGAGG TGGTAGTG CTGGTGG TGGTGG AGGAGG AGGAGG AGGAGG
1 TGGAGG TGGAGG TGG-AG-G -TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG
* * * * * * *
94958950 AGGAGG AGGAGG AGGAGG AGGAGG AGGAGG AGGAGG TGGCGG TGGAGG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG
94958998 TGG
1 TGG
94959001 TGGCAGTGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
6 78 0.91
7 3 0.03
8 2 0.02
9 3 0.03
ACGTcount: A:0.23, C:0.02, G:0.64, T:0.12
Consensus pattern (6 bp):
TGGAGG
Found at i:94959008 original size:255 final size:255
Alignment explanation
Indices: 94958714--94959210 Score: 870
Period size: 255 Copynumber: 1.9 Consensus size: 255
94958704 TAGTGGTGGT
* *
94958714 GGAGGAGGAGGTGGTGGTGGAGGTGGAGGTGGGGGCAGTGGAAGAGGGTCCGGATACGGAAGTGG
1 GGAGGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGCAGTGGAAGAGGGTCCGGATACGGAAGTGG
* *
94958779 ATCTGGATATGGAAGTGGAGGTGGTAGTGCTAGTAGTGGTGGTGGAGGAGGAGGAGGAGGTGGTG
66 ATCTGGATATGGAAGTGGAGGTGGTAGTGCTAGTAGTGGTGGAGGAGGAGGAGGAGGAGGAGGTG
94958844 GCGGTGGAGGTGGTGGCAGT-AGAGGAGGGTCCGGATACGGAAGTGGATCTGGATATGGAAGTGG
131 GCGGTGGAGGTGGTGGCAGTGA-AGGAGGGTCCGGATACGGAAGTGGATCTGGATATGGAAGTGG
*
94958908 AGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGA
195 AGGTGGTAGTGCTAGTGGTGGTGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGA
* *
94958969 GGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGGAAGAGGGTCCGGATACGGAAGTGG
1 GGAGGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGCAGTGGAAGAGGGTCCGGATACGGAAGTGG
* *
94959034 ATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAGGTG
66 ATCTGGATATGGAAGTGGAGGTGGTAGTGCTAGTAGTGGTGGAGGAGGAGGAGGAGGAGGAGGTG
*
94959099 GCGGTGGAGGTGGTGGCAGTGAAGGAGGGTTCGGATACGGAAGTGGATCTGGATATGGAAGTGGA
131 GCGGTGGAGGTGGTGGCAGTGAAGGAGGGTCCGGATACGGAAGTGGATCTGGATATGGAAGTGGA
* *
94959164 GGTGGTAGTGCTAGTGGTGGTGGTGGTGGAGGAGGAGGAGGAGGAGG
196 GGTGGTAGTGCTAGTGGTGGTGGAGGAGGAGGAGGAGGAGGAGGAGG
94959211 TGGCGGTGGA
Statistics
Matches: 229, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
255 228 1.00
256 1 0.00
ACGTcount: A:0.22, C:0.05, G:0.56, T:0.17
Consensus pattern (255 bp):
GGAGGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGCAGTGGAAGAGGGTCCGGATACGGAAGTGG
ATCTGGATATGGAAGTGGAGGTGGTAGTGCTAGTAGTGGTGGAGGAGGAGGAGGAGGAGGAGGTG
GCGGTGGAGGTGGTGGCAGTGAAGGAGGGTCCGGATACGGAAGTGGATCTGGATATGGAAGTGGA
GGTGGTAGTGCTAGTGGTGGTGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGA
Found at i:94959104 original size:6 final size:6
Alignment explanation
Indices: 94959043--94959111 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
94959033 GATCTGGATA
* ** * * *
94959043 TGGAAG TGGAGG TGGTA-G TGCTGG TGGTGG TGGAGG AGGAGG AGGAGG
1 TGGAGG TGGAGG TGG-AGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG
* *
94959091 AGGAGG TGGCGG TGGAGG TGG
1 TGGAGG TGGAGG TGGAGG TGG
94959112 TGGCAGTGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
6 51 0.98
7 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.62, T:0.17
Consensus pattern (6 bp):
TGGAGG
Found at i:94959107 original size:15 final size:15
Alignment explanation
Indices: 94959065--94959126 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
94959055 TGGTAGTGCT
*
94959065 GGTGGTGGTGGAGGA
1 GGTGGCGGTGGAGGA
* * *
94959080 GGAGGAGGAGGAGGA
1 GGTGGCGGTGGAGGA
*
94959095 GGTGGCGGTGGAGGT
1 GGTGGCGGTGGAGGA
* *
94959110 GGTGGCAGTGAAGGA
1 GGTGGCGGTGGAGGA
94959125 GG
1 GG
94959127 GTTCGGATAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.19, C:0.03, G:0.65, T:0.13
Consensus pattern (15 bp):
GGTGGCGGTGGAGGA
Found at i:94959108 original size:144 final size:144
Alignment explanation
Indices: 94958822--94959096 Score: 523
Period size: 144 Copynumber: 1.9 Consensus size: 144
94958812 TAGTGGTGGT
* *
94958822 GGAGGAGGAGGAGGAGGTGGTGGCGGTGGAGGTGGTGGCAGTAGAGGAGGGTCCGGATACGGAAG
1 GGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTAGAAGAGGGTCCGGATACGGAAG
94958887 TGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAG
66 TGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAG
94958952 GAGGAGGAGGAGGA
131 GAGGAGGAGGAGGA
*
94958966 GGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGGAAGAGGGTCCGGATACGGAAG
1 GGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTAGAAGAGGGTCCGGATACGGAAG
94959031 TGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAG
66 TGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAG
94959096 G
131 G
94959097 TGGCGGTGGA
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 128 1.00
ACGTcount: A:0.23, C:0.05, G:0.57, T:0.15
Consensus pattern (144 bp):
GGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTAGAAGAGGGTCCGGATACGGAAG
TGGATCTGGATATGGAAGTGGAGGTGGTAGTGCTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGAG
GAGGAGGAGGAGGA
Found at i:94959185 original size:117 final size:115
Alignment explanation
Indices: 94958963--94959339 Score: 549
Period size: 111 Copynumber: 3.3 Consensus size: 115
94958953 AGGAGGAGGA
*
94958963 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGGAA-GAGGGTCCGGATACG
1 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGT-GAAGGAGGGTTCGGATACG
94959027 GAAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGC----TGGTGGTGGT
65 GAAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGCGTGGTGGTGGTGGT
94959074 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGAAGGAGGGTTCGGATACGG
1 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGAAGGAGGGTTCGGATACGG
*
94959139 AAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGC-TAGTGGTGGTGGT
66 AAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGCGTGGTGGTGGTGGT
* *
94959188 GGTGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGTGGCAATGAAGGAGGGTTCGGATA
1 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGA---GGTGGTGGCAGTGAAGGAGGGTTCGGATA
* *
94959253 CGGAAGTGAATCTGGATATGGAAGTGGAGGT-G--GTG-GTGGTGGTGGTAGT
63 CGGAAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGCGTGGTGGTGGTGGT
* * * * *
94959302 GGAGGAGGAGGTGGTGGTGGTGGTGGAGGTGGAGGTGG
1 GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGG
94959340 CAATGGAGGA
Statistics
Matches: 246, Mismatches: 12, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
110 3 0.01
111 101 0.41
114 83 0.34
116 1 0.00
117 58 0.24
ACGTcount: A:0.20, C:0.05, G:0.56, T:0.19
Consensus pattern (115 bp):
GGAGGAGGAGGAGGAGGAGGAGGTGGCGGTGGAGGTGGTGGCAGTGAAGGAGGGTTCGGATACGG
AAGTGGATCTGGATATGGAAGTGGAGGTGGTAGTGCGTGGTGGTGGTGGT
Found at i:94959289 original size:3 final size:3
Alignment explanation
Indices: 94959276--94959339 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
94959266 GGATATGGAA
* * * * *
94959276 GTG GAG GTG GTG GTG GTG GTG GTA GTG GAG GAG GAG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
* *
94959324 GTG GAG GTG GAG GTG G
1 GTG GTG GTG GTG GTG G
94959340 CAATGGAGGA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.11, C:0.00, G:0.66, T:0.23
Consensus pattern (3 bp):
GTG
Found at i:94959312 original size:30 final size:30
Alignment explanation
Indices: 94959278--94959336 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
94959268 ATATGGAAGT
94959278 GGAGGTGGTGGTGGTGGTGGTA-GTGGAGGA
1 GGAGGTGGTGGTGGTGGTGG-AGGTGGAGGA
94959308 GGAGGTGGTGGTGGTGGTGGAGGTGGAGG
1 GGAGGTGGTGGTGGTGGTGGAGGTGGAGG
94959337 TGGCAATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.12, C:0.00, G:0.66, T:0.22
Consensus pattern (30 bp):
GGAGGTGGTGGTGGTGGTGGAGGTGGAGGA
Found at i:94959314 original size:24 final size:24
Alignment explanation
Indices: 94959275--94959339 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
94959265 TGGATATGGA
*
94959275 AGTGGAGGTGGTGGTGGTGGTGGT
1 AGTGGAGGTGGAGGTGGTGGTGGT
*
94959299 AGTGGAGGAGGAGGTGGTGGTGGT
1 AGTGGAGGTGGAGGTGGTGGTGGT
*
94959323 GGTGGAGGTGGAGGTGG
1 AGTGGAGGTGGAGGTGG
94959340 CAATGGAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.12, C:0.00, G:0.65, T:0.23
Consensus pattern (24 bp):
AGTGGAGGTGGAGGTGGTGGTGGT
Found at i:94959426 original size:108 final size:106
Alignment explanation
Indices: 94959040--94959447 Score: 344
Period size: 108 Copynumber: 3.7 Consensus size: 106
94959030 GTGGATCTGG
* * * * *
94959040 ATATGGAAGTGGAGGTGGTAGTGCTGGTGGTG-GTGGAGGAG-GAGGAGGAGGAGGAGGTGGCGG
1 ATATGGAAGTGGAGGTGGTAGTGGTGGTGGTGAGTGGAGGAGAGAGGAGGTGGTGGTGGTGGAGG
* * * *
94959103 TGGAGGTGGTGGCAGTGAAGGAGGGTTCGGATACGGAAGTGGATCTGG
66 TGGA---GGTGGCAATGAAGGAGGGTTCGGAT----AAGTGAATCCGA
* * *
94959151 ATATGGAAGTGGAGGTGGTAGTGCTAGTGGTGGTGGTGGTGGAGGAGGAGGAGGAGGAGGTGGCG
1 ATATGGAAGTGGAGGTGGTAGTG---GTGGTGGT-G-AGTGGAGGA-GA-GAGGAGGTGGTGGTG
* * *
94959216 GTGGAGGTGGTGGTGGCAATGAAGGAGGGTTCGGATACGGAAGTGAATCTGG
59 GTGGAGGTGGAGGTGGCAATGAAGGAGGGTTCGGAT----AAGTGAATCCGA
* *
94959268 ATATGGAAGTGGAGGTGGTGGTGGTGGTGGT-AGTGGAGGAG-GAGGTGGTGGTGGTGGTGGAGG
1 ATATGGAAGTGGAGGTGGTAGTGGTGGTGGTGAGTGGAGGAGAGAGGAGGTGGTGGTGGTGGAGG
* *
94959331 TGGAGGTGGCAATGGAGGAGGG-TCAGGAT-A-TGAGTCCGA
66 TGGAGGTGGCAATGAAGGAGGGTTC-GGATAAGTGAATCCGA
* * *
94959370 ATATGGAAGTGGAGGTGGTAGTGGTGGAGGTGACAGTGGAGGAGAAAAAGGAGGTGGTGGTGGAG
1 ATATGGAAGTGGAGGTGGTAGTGGTGGTGGTG--AGTGGAGGAG--AGAGGAGGTGGTGGTGGTG
**
94959435 GAGGAAGAGGTGG
62 GAGGTGGAGGTGG
94959448 TGGAAGTAGA
Statistics
Matches: 257, Mismatches: 24, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
102 35 0.14
103 1 0.00
105 10 0.04
107 2 0.01
108 69 0.27
110 1 0.00
111 31 0.12
114 15 0.06
115 1 0.00
117 69 0.27
118 1 0.00
120 22 0.09
ACGTcount: A:0.22, C:0.04, G:0.54, T:0.20
Consensus pattern (106 bp):
ATATGGAAGTGGAGGTGGTAGTGGTGGTGGTGAGTGGAGGAGAGAGGAGGTGGTGGTGGTGGAGG
TGGAGGTGGCAATGAAGGAGGGTTCGGATAAGTGAATCCGA
Found at i:94959498 original size:30 final size:30
Alignment explanation
Indices: 94959457--94959513 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
94959447 GTGGAAGTAG
*
94959457 AGGCAATGGCTCAAGTTATGGAAGTGGATC
1 AGGCAATGGCTCAAGGTATGGAAGTGGATC
* * *
94959487 AGGCTATGGCTCAGGGTATGGTAGTGG
1 AGGCAATGGCTCAAGGTATGGAAGTGG
94959514 GGAAGGTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.39, T:0.25
Consensus pattern (30 bp):
AGGCAATGGCTCAAGGTATGGAAGTGGATC
Found at i:94961415 original size:12 final size:11
Alignment explanation
Indices: 94961398--94961431 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
94961388 TTAGTACTTA
94961398 TTTTTTTCTTCT
1 TTTTTTTCTT-T
94961410 TTTTTTTCTTT
1 TTTTTTTCTTT
94961421 TTTTTTT-TTT
1 TTTTTTTCTTT
94961431 T
1 T
94961432 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 8 0.36
12 10 0.45
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:94961418 original size:9 final size:9
Alignment explanation
Indices: 94961399--94961431 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
94961389 TAGTACTTAT
94961399 TTTTTTCTTC
1 TTTTTT-TTC
94961409 TTTTTTTTC
1 TTTTTTTTC
94961418 TTTTTTTT-
1 TTTTTTTTC
94961426 TTTTTT
1 TTTTTT
94961432 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.26
9 11 0.48
10 6 0.26
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:94961427 original size:15 final size:16
Alignment explanation
Indices: 94961409--94961441 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
94961399 TTTTTTCTTC
*
94961409 TTTTTTTT-CTTTTTT
1 TTTTTTTTGATTTTTT
94961424 TTTTTTTTGATTTTTT
1 TTTTTTTTGATTTTTT
94961440 TT
1 TT
94961442 AAATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.91
Consensus pattern (16 bp):
TTTTTTTTGATTTTTT
Found at i:94961719 original size:117 final size:118
Alignment explanation
Indices: 94961564--94961793 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 118
94961554 TATTTCCGGT
94961564 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
94961629 CCTA-CCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
94961681 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
94961746 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
94961794 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 65 0.62
118 39 0.38
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:94962685 original size:16 final size:15
Alignment explanation
Indices: 94962660--94962727 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 15
94962650 AATATTTAAC
94962660 TAAAATAAAATAAAAA
1 TAAAA-AAAATAAAAA
94962676 TAAAAGAAAATAATAAA
1 TAAAA-AAAATAA-AAA
94962693 TAATAAAAGAA-AAAAA
1 TAA-AAAA-AATAAAAA
*
94962709 T-AAATAAATAAAAA
1 TAAAAAAAATAAAAA
94962723 TAAAA
1 TAAAA
94962728 GAAAGATGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
13 2 0.04
14 9 0.20
15 4 0.09
16 16 0.36
17 10 0.22
18 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:94962699 original size:20 final size:20
Alignment explanation
Indices: 94962666--94962721 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
94962656 TAACTAAAAT
94962666 AAAATAAA-AATAAAAGAAA
1 AAAATAAATAATAAAAGAAA
*
94962685 ATAATAAATAATAAAAGAAA
1 AAAATAAATAATAAAAGAAA
94962705 AAAATAAATAAATAAAA
1 AAAATAAAT-AATAAAA
94962722 ATAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.21
20 19 0.58
21 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAATAATAAAAGAAA
Found at i:94971640 original size:29 final size:29
Alignment explanation
Indices: 94971575--94971661 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
94971565 CACCACTGAT
** **
94971575 ACATAGTAACTGATAAATATAACACTAGC
1 ACATAGTGCCTGATAAATATAACACCGGC
94971604 ACATAGTGCCTGATAAATATAACACCGGC
1 ACATAGTGCCTGATAAATATAACACCGGC
* *
94971633 ACATAGTGCCTTATACAACATGAACACCG
1 ACATAGTGCCTGATA-AATAT-AACACCG
94971662 TACAAAGTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 39 0.78
30 4 0.08
31 7 0.14
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (29 bp):
ACATAGTGCCTGATAAATATAACACCGGC
Found at i:94980330 original size:21 final size:21
Alignment explanation
Indices: 94980290--94980330 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94980280 AAAAAGTCAA
*
94980290 TAACATGAATTTGTCTAACCT
1 TAACATGAATTTGTCGAACCT
94980311 TAACATGAA-TTGATCGAACC
1 TAACATGAATTTG-TCGAACC
94980331 CAAGTTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (21 bp):
TAACATGAATTTGTCGAACCT
Found at i:94982329 original size:20 final size:22
Alignment explanation
Indices: 94982304--94982344 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
94982294 TTTTATTTTA
*
94982304 TTAAA-TTAA-AATAATAATAT
1 TTAAATTTAATAAAAATAATAT
94982324 TTAAATTTAATAAAAATAATA
1 TTAAATTTAATAAAAATAATA
94982345 AACAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAATTTAATAAAAATAATAT
Found at i:94983708 original size:30 final size:31
Alignment explanation
Indices: 94983674--94983738 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
94983664 CTCCTAAGGC
94983674 ATTTTTA-TAATTATTTAATTTGTTAGGTTA
1 ATTTTTAGTAATTATTTAATTTGTTAGGTTA
94983704 A-TTTTAGTAATTATTTAATTTGTTAGGTTA
1 ATTTTTAGTAATTATTTAATTTGTTAGGTTA
94983734 ATTTT
1 ATTTT
94983739 GAAAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 5 0.15
30 25 0.76
31 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (31 bp):
ATTTTTAGTAATTATTTAATTTGTTAGGTTA
Found at i:94986143 original size:10 final size:10
Alignment explanation
Indices: 94986128--94986160 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
94986118 ATAACAATCA
94986128 ATCCTAAAAT
1 ATCCTAAAAT
94986138 ATCCTAAAAT
1 ATCCTAAAAT
94986148 ATTCCTAAAAT
1 A-TCCTAAAAT
94986159 AT
1 AT
94986161 AATAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (10 bp):
ATCCTAAAAT
Found at i:94986155 original size:11 final size:11
Alignment explanation
Indices: 94986129--94986160 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
94986119 TAACAATCAA
94986129 TCCTAAAATA-
1 TCCTAAAATAT
94986139 TCCTAAAATAT
1 TCCTAAAATAT
94986150 TCCTAAAATAT
1 TCCTAAAATAT
94986161 AATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
TCCTAAAATAT
Found at i:94988034 original size:3 final size:3
Alignment explanation
Indices: 94988026--94988053 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
94988016 TCAACTAATC
94988026 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
94988054 TTTCAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:94990825 original size:19 final size:19
Alignment explanation
Indices: 94990801--94990858 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
94990791 CTAGGTAGAG
94990801 TGGAAAAAAATTAGAAAGA
1 TGGAAAAAAATTAGAAAGA
94990820 TGG---AAAATT-GAAAGGA
1 TGGAAAAAAATTAGAAA-GA
*
94990836 TAGAAAAAAA-TAGAAAGA
1 TGGAAAAAAATTAGAAAGA
94990854 TGGAA
1 TGGAA
94990859 GATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
15 4 0.12
16 10 0.31
18 7 0.22
19 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (19 bp):
TGGAAAAAAATTAGAAAGA
Found at i:94990826 original size:16 final size:16
Alignment explanation
Indices: 94990807--94990858 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
94990797 AGAGTGGAAA
94990807 AAAATTAGAAAGATGG
1 AAAATTAGAAAGATGG
*
94990823 AAAATT-GAAAGGATAGAA
1 AAAATTAGAAA-GAT-G-G
*
94990841 AAAAATAGAAAGATGG
1 AAAATTAGAAAGATGG
94990857 AA
1 AA
94990859 GATATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 2 0.07
18 8 0.28
19 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (16 bp):
AAAATTAGAAAGATGG
Found at i:94996247 original size:132 final size:132
Alignment explanation
Indices: 94996022--94996264 Score: 319
Period size: 132 Copynumber: 1.8 Consensus size: 132
94996012 AACGGAGGCG
* * * * * *
94996022 ATGTTCGATGTTCGGCAATTTGGGGAATCTTGTCCTACTGTGCTGGGTTATAATTTCTCGTTTGC
1 ATGTTCGATGTTCAGCAATTCGGGGAATCTTGCCCTACTGTGCTGGGTTACAATCTCTCATTTGC
* *
94996087 TCAAAATAATCGAATATCTCTTTAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
66 TCAAAATAATCGAATATCACTTCAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
94996152 AA
131 AA
* * *
94996154 ATGTTCGATGTTTAGCAATTCGGGGAATAGTT-CCCTA-TCGTGCTGGGTTGCAATCTCTCATTT
1 ATGTTCGATGTTCAGCAATTCGGGGAAT-CTTGCCCTACT-GTGCTGGGTTACAATCTCTCATTT
* * * *
94996217 GTTCAAAATAATCGAATATCACTTCGGAATTTCATTCGTGTTTTCTAA
64 GCTCAAAATAATCGAATATCACTTCAGAATTCCATTCATGTTTTCTAA
94996265 GGCGAGGCAA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
131 1 0.01
132 91 0.97
133 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (132 bp):
ATGTTCGATGTTCAGCAATTCGGGGAATCTTGCCCTACTGTGCTGGGTTACAATCTCTCATTTGC
TCAAAATAATCGAATATCACTTCAGAATTCCATTCATGTTTTCTAAAAACTTTTTAAAATGAAGG
AA
Found at i:94999077 original size:45 final size:43
Alignment explanation
Indices: 94998909--94999122 Score: 189
Period size: 44 Copynumber: 4.8 Consensus size: 43
94998899 TTTAGAAGCA
* * * **
94998909 ACAATCTTTATCTCTCTGAAGTTGCAGTGGAGTAGATCGAAGCC
1 ACAATC-TTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTT
* ** * * *
94998953 ACAATCCTTATCTCTCTGAAGTTGTAGTAGAGCAGGAT-AAAATT
1 ACAAT-CTTATCTCCCTGAAGTTACAGTGGAGCA-GATCGAAGTT
* *
94998997 ACCCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CTGAAGTT
1 A--CAA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATC-GAAGTT
*
94999043 AGCAAATCTTATCTTCCTGAAGTTACAGTGGAGCAGATCGAAGTT
1 A-C-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTT
*
94999088 ACAATCCTTATCTCCCTGAAGTTACAGTGGGGCAG
1 ACAAT-CTTATCTCCCTGAAGTTACAGTGGAGCAG
94999123 TTGCAGTAGA
Statistics
Matches: 143, Mismatches: 17, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
43 3 0.02
44 60 0.42
45 42 0.29
46 37 0.26
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
ACAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTT
Found at i:95001078 original size:2 final size:2
Alignment explanation
Indices: 95001071--95001101 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95001061 CTTCTAAATC
95001071 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
95001102 GTTTTGTAAA
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:95003901 original size:5 final size:5
Alignment explanation
Indices: 95003891--95003920 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
95003881 GAATTTTTAA
95003891 CCTTT CCTTT CCTTT CCTTT CCTTT GCCTT
1 CCTTT CCTTT CCTTT CCTTT CCTTT -CCTT
95003921 CTTAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.00, C:0.40, G:0.03, T:0.57
Consensus pattern (5 bp):
CCTTT
Found at i:95005471 original size:59 final size:60
Alignment explanation
Indices: 95005380--95005493 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 60
95005370 CCAAATCGAA
* *
95005380 CAAAAAAAGATTATGTACCAAATTAAGGAAAAAGAGTCAAGTTTAGGTACCAAATTGGAC
1 CAAAAAAAGATTAGGTACCAAATTAAGAAAAAAGAGTCAAGTTTAGGTACCAAATTGGAC
* * *
95005440 CAAAAAAAGTTTAGGTACCAAATT-AGAAAAAAGTGTCAAGTTTAGGTATCAAAT
1 CAAAAAAAGATTAGGTACCAAATTAAGAAAAAAGAGTCAAGTTTAGGTACCAAAT
95005494 GTTATATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 27 0.55
60 22 0.45
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.24
Consensus pattern (60 bp):
CAAAAAAAGATTAGGTACCAAATTAAGAAAAAAGAGTCAAGTTTAGGTACCAAATTGGAC
Found at i:95005744 original size:2 final size:2
Alignment explanation
Indices: 95005737--95005763 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95005727 TCTAAAATAC
95005737 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
95005764 TAATATTGAT
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:95011830 original size:24 final size:24
Alignment explanation
Indices: 95011796--95011849 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
95011786 AAAGAAAAAG
95011796 AGAGAGGGAAAAAAGGAATAAGTCT
1 AGAG-GGGAAAAAAGGAATAAGTCT
95011821 AGAGGGGAAAAAAGGAATAAGTCT
1 AGAGGGGAAAAAAGGAATAAGTCT
95011845 AGAGG
1 AGAGG
95011850 TTACTATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.35, T:0.11
Consensus pattern (24 bp):
AGAGGGGAAAAAAGGAATAAGTCT
Found at i:95017454 original size:7 final size:7
Alignment explanation
Indices: 95017403--95017624 Score: 79
Period size: 7 Copynumber: 31.1 Consensus size: 7
95017393 TTTATTTTCT
95017403 TATATTA
1 TATATTA
*
95017410 TATGTTA
1 TATATTA
95017417 TA-ATTA
1 TATATTA
*
95017423 TTTTATTA
1 -TATATTA
*
95017431 TATGTTA
1 TATATTA
*
95017438 TTTATTTTA
1 --TATATTA
95017447 TATATTA
1 TATATTA
95017454 T-TATTA
1 TATATTA
*
95017460 CATATTA
1 TATATTA
*
95017467 TGTATTA
1 TATATTA
* *
95017474 TACATTT
1 TATATTA
95017481 TATA-TA
1 TATATTA
*
95017487 TAT-TTT
1 TATATTA
*
95017493 TATTATTT
1 TA-TATTA
95017501 TATATTA
1 TATATTA
95017508 T-TATT-
1 TATATTA
*
95017513 TATATACA
1 TATAT-TA
95017521 TATATTA
1 TATATTA
*
95017528 TTATCCTTA
1 -TAT-ATTA
95017537 -ACTATTA
1 TA-TATTA
*
95017544 TATTTTA
1 TATATTA
95017551 T-TAATTA
1 TAT-ATTA
95017558 -ATTACTTA
1 TA-TA-TTA
*
95017566 TATACTA
1 TATATTA
*
95017573 TATATTG
1 TATATTA
*
95017580 TA-ATTT
1 TATATTA
95017586 TA-ATCCTA
1 TATAT--TA
*
95017594 TATACTTT
1 TATA-TTA
95017602 TATATTA
1 TATATTA
95017609 TATATTA
1 TATATTA
95017616 TATAATTA
1 TAT-ATTA
95017624 T
1 T
95017625 TTTATTTACT
Statistics
Matches: 160, Mismatches: 30, Indels: 49
0.67 0.13 0.21
Matches are distributed among these distances:
5 1 0.01
6 30 0.19
7 79 0.49
8 38 0.24
9 11 0.07
10 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:95017467 original size:36 final size:35
Alignment explanation
Indices: 95017426--95017530 Score: 97
Period size: 36 Copynumber: 3.0 Consensus size: 35
95017416 ATAATTATTT
*
95017426 TATTATATGTTATTTATTTTATATATTATTATTACA
1 TATTATATATTATTTATTTTATATATTATTATTA-A
* ** * *
95017462 TATTATGTATTATACATTTTATATA-TATTTTTAT
1 TATTATATATTATTTATTTTATATATTATTATTAA
* *
95017496 TATTTTATATTA-TTATTTATATACATATATTATTA
1 TATTATATATTATTTATTT-TATATAT-TATTATTA
95017531 TCCTTAACTA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
33 4 0.07
34 15 0.28
35 7 0.13
36 28 0.52
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (35 bp):
TATTATATATTATTTATTTTATATATTATTATTAA
Found at i:95017527 original size:54 final size:55
Alignment explanation
Indices: 95017422--95017528 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 55
95017412 TGTTATAATT
* * *
95017422 ATTTTATTATATGTTATTTATTTTATATATTATTATTACATATTATGTATTATAC
1 ATTTTATTATATATTATTTATTTTATATATTATTATTACATATCATATATTATAC
* *
95017477 ATTTTA-TATATATT-TTTATTATTTTATATTATTATT-TATATACATATATTAT
1 ATTTTATTATATATTATTTATT-TTATATATTATTATTACATAT-CATATATTAT
95017529 TATCCTTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 10 0.22
54 29 0.64
55 6 0.13
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (55 bp):
ATTTTATTATATATTATTTATTTTATATATTATTATTACATATCATATATTATAC
Found at i:95017629 original size:25 final size:25
Alignment explanation
Indices: 95017599--95017702 Score: 70
Period size: 25 Copynumber: 4.1 Consensus size: 25
95017589 TCCTATATAC
*
95017599 TTTTATATTATATAT-TATATAATTA
1 TTTTATATTATATGTATAT-TAATTA
*
95017624 TTTTAT-TTACTATGTATATTATTTA
1 TTTTATATTA-TATGTATATTAATTA
* * **
95017649 TTTTATA-TATATTTTTAAAATATTA
1 TTTTATATTATATGTATATTA-ATTA
* *
95017674 TATTTGTATTATATGTTTATTATATTA
1 T-TTTATATTATATGTATATTA-ATTA
95017701 TT
1 TT
95017703 AATTACTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
24 10 0.16
25 27 0.44
26 9 0.15
27 16 0.26
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTATATTATATGTATATTAATTA
Found at i:95017658 original size:16 final size:16
Alignment explanation
Indices: 95017372--95017518 Score: 63
Period size: 16 Copynumber: 8.8 Consensus size: 16
95017362 AGCCCTATGT
*
95017372 TTTATTTT-TATAATGA
1 TTTATTTTATAT-ATTA
* *
95017388 TTTATTTTATTTTCTTA
1 TTTATTTTA-TATATTA
95017405 TATTATATGTTATA-ATTA
1 T-TTAT-T-TTATATATTA
* *
95017423 TTT-TATTATATGTTA
1 TTTATTTTATATATTA
95017438 TTTATTTTATATATTA
1 TTTATTTTATATATTA
**
95017454 -TTATTACATATTATGTA
1 TTTATTTTATA-TAT-TA
*
95017471 TTATACATTTTATATATATT
1 TT-T--ATTTTATATAT-TA
*
95017491 TTTATTATTTTATATTA
1 TTTATT-TTATATATTA
95017508 -TTA-TTTATATA
1 TTTATTTTATATA
95017519 CATATATTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 30
0.67 0.12 0.20
Matches are distributed among these distances:
14 11 0.11
15 15 0.15
16 25 0.25
17 11 0.11
18 18 0.18
19 4 0.04
20 9 0.09
21 6 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATTTTATATATTA
Found at i:95017686 original size:27 final size:27
Alignment explanation
Indices: 95017643--95017701 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
95017633 CTATGTATAT
*
95017643 TATT-TATTTTATATATATTTTTAAAA
1 TATTATATTTTATATATATGTTTAAAA
**
95017669 TATTATATTTGTAT-TATATGTTTATTA
1 TATTATATTT-TATATATATGTTTAAAA
95017696 TATTAT
1 TATTAT
95017702 TAATTACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
28 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
TATTATATTTTATATATATGTTTAAAA
Found at i:95017687 original size:16 final size:16
Alignment explanation
Indices: 95017601--95017687 Score: 50
Period size: 16 Copynumber: 5.1 Consensus size: 16
95017591 CTATATACTT
*
95017601 TTATATTATATATTATA
1 TTATATT-TTTATTATA
*
95017618 TAAT-TATTTTATTTACTA
1 TTATAT-TTTTA-TTA-TA
*
95017636 TGTATATTATTTATTTTA
1 T-TATATT-TTTATTATA
**
95017654 TATATATTTTTAAAATA
1 T-TATATTTTTATTATA
*
95017671 TTATATTTGTATTATA
1 TTATATTTTTATTATA
95017687 T
1 T
95017688 GTTTATTATA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
16 17 0.32
17 14 0.26
18 12 0.23
19 5 0.09
20 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATATTTTTATTATA
Found at i:95017768 original size:28 final size:30
Alignment explanation
Indices: 95017722--95017777 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
95017712 TTTTTTATGC
* *
95017722 ATTATTTTATTCTAAATT-ATT-TTTTAAA
1 ATTACTTTATTATAAATTAATTCTTTTAAA
*
95017750 ATTACTTTATTATATATTAATTCTTTTA
1 ATTACTTTATTATAAATTAATTCTTTTA
95017778 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 3 0.13
30 5 0.22
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTACTTTATTATAAATTAATTCTTTTAAA
Found at i:95019041 original size:26 final size:26
Alignment explanation
Indices: 95018967--95019078 Score: 134
Period size: 26 Copynumber: 4.2 Consensus size: 26
95018957 AAGAAAGCCT
* * *
95018967 AAAGAAAAGCATTTGCGGCTTAATAAG
1 AAAG-AAAGCCTTTGCGGCGTAATATG
* * *
95018994 AAAGAAAAGTCATTGCGACGTAATATG
1 AAAG-AAAGCCTTTGCGGCGTAATATG
*
95019021 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGCGGCGTAATATG
*
95019047 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGCGGCGTAATATG
95019073 AAAGAA
1 AAAGAA
95019079 TGTCATTGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 50 0.67
27 25 0.33
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (26 bp):
AAAGAAAGCCTTTGCGGCGTAATATG
Found at i:95019087 original size:26 final size:26
Alignment explanation
Indices: 95018987--95019090 Score: 127
Period size: 26 Copynumber: 4.0 Consensus size: 26
95018977 ATTTGCGGCT
* * * *
95018987 TAATAAGAAAGAAAAGTCATTGCGACG
1 TAATATGAAAG-AAAGCCATTGTGGCG
*
95019014 TAATATGAAAGAAAGCCTTTGTGGCG
1 TAATATGAAAGAAAGCCATTGTGGCG
*
95019040 TAATATGAAAGAAAGCCTTTGTGGCG
1 TAATATGAAAGAAAGCCATTGTGGCG
* *
95019066 TAATATGAAAGAATGTCATTGTGGC
1 TAATATGAAAGAAAGCCATTGTGGC
95019091 AAACTTCGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 59 0.86
27 10 0.14
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (26 bp):
TAATATGAAAGAAAGCCATTGTGGCG
Found at i:95028845 original size:16 final size:17
Alignment explanation
Indices: 95028810--95029002 Score: 85
Period size: 19 Copynumber: 11.1 Consensus size: 17
95028800 TTTTATTTTC
95028810 AAATATATAAAATATAA
1 AAATATATAAAATATAA
*
95028827 AAATATATACAAT-TAA
1 AAATATATAAAATATAA
*
95028843 AAATATATAGAAA-ACAA
1 AAATATATA-AAATATAA
*
95028860 ATAATATTTTAAAAATATAA
1 A-AATA-TAT-AAAATATAA
**
95028880 AAA-AT-TACGATAT-A
1 AAATATATAAAATATAA
*
95028894 TAATATATATAAATA-AA
1 AAATATATA-AAATATAA
* * * *
95028911 AAATCTA-AAATTTTAT
1 AAATATATAAAATATAA
* * *
95028927 AAATCTATAAAAATGTAT
1 AAATATAT-AAAATATAA
* *
95028945 AAATCTATAAAAGAACTAA
1 AAATATATAAAA-TA-TAA
* *
95028964 AAATTTATAAATTTATAAA
1 AAATATATAAA-ATAT-AA
95028983 AAATATATAAATATATAA
1 AAATATATAAA-ATATAA
95029001 AA
1 AA
95029003 TAACTAAAAA
Statistics
Matches: 134, Mismatches: 25, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
14 3 0.02
15 10 0.07
16 24 0.18
17 31 0.23
18 25 0.19
19 36 0.27
20 5 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (17 bp):
AAATATATAAAATATAA
Found at i:95028948 original size:27 final size:27
Alignment explanation
Indices: 95028909--95028983 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
95028899 TATATAAATA
* *
95028909 AAAAATCTA-AAATTTTATAAATCTA-T
1 AAAAATCTATAAA-TTTATAAAACAACT
* * *
95028935 AAAAATGTATAAATCTATAAAAGAACT
1 AAAAATCTATAAATTTATAAAACAACT
*
95028962 AAAAATTTATAAATTTATAAAA
1 AAAAATCTATAAATTTATAAAA
95028984 AATATATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 16 0.40
27 24 0.60
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAATCTATAAATTTATAAAACAACT
Found at i:95028986 original size:46 final size:44
Alignment explanation
Indices: 95028896--95029012 Score: 144
Period size: 46 Copynumber: 2.6 Consensus size: 44
95028886 ACGATATATA
* * *
95028896 ATATATATAAATAAAAAATCTAAAATTTTATAAATCTATAAAAAT
1 ATATAAATATATAAAAAA-CTAAAAATTTATAAATCTATAAAAAT
* * *
95028941 GTATAAATCTATAAAAGAACTAAAAATTTATAAATTTATAAAAAAT
1 ATATAAATATATAAAA-AACTAAAAATTTATAAATCTAT-AAAAAT
95028987 ATATAAATATATAAAATAACTAAAAA
1 ATATAAATATATAAAA-AACTAAAAA
95029013 ATACATCTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 30 0.49
46 31 0.51
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (44 bp):
ATATAAATATATAAAAAACTAAAAATTTATAAATCTATAAAAAT
Found at i:95028994 original size:27 final size:26
Alignment explanation
Indices: 95028936--95029015 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
95028926 TAAATCTATA
* *
95028936 AAAATGTATAAATCTATAAAAGAACTA-
1 AAAATATATAAATTTATAAAA-AA-TAT
*
95028963 AAAATTTATAAATTTATAAAAAATAT
1 AAAATATATAAATTTATAAAAAATAT
* *
95028989 ATAAATATATAAAATAACTAAAAAATA
1 A-AAATATATAAATTTA-TAAAAAATA
95029016 CATCTATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 31 0.69
28 9 0.20
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (26 bp):
AAAATATATAAATTTATAAAAAATAT
Found at i:95030528 original size:50 final size:50
Alignment explanation
Indices: 95030453--95030555 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
95030443 ATGATATTAG
95030453 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
*
95030503 GTTGTGTTTGTTCTGGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
95030553 GTT
1 GTT
95030556 TAAAGAGTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.45
Consensus pattern (50 bp):
GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
Found at i:95032515 original size:30 final size:31
Alignment explanation
Indices: 95032481--95032541 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
95032471 TAAACCCACT
95032481 TTCCAGTGCTTCATT-AT-TTCATGGGTCAAA
1 TTCCA-TGCTTCATTAATGTTCATGGGTCAAA
** *
95032511 TTCCATTTTTCATTAATGTTTATGGGTCAAA
1 TTCCATGCTTCATTAATGTTCATGGGTCAAA
95032542 ATCTCGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 7 0.27
30 7 0.27
31 12 0.46
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (31 bp):
TTCCATGCTTCATTAATGTTCATGGGTCAAA
Found at i:95046396 original size:3 final size:3
Alignment explanation
Indices: 95046388--95046433 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
95046378 ATAGCATGAC
95046388 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95046434 CTAGAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95047441 original size:21 final size:21
Alignment explanation
Indices: 95047417--95047460 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
95047407 TCAATTGATT
95047417 CAACCCTTTTATTCATGCTAA
1 CAACCCTTTTATTCATGCTAA
95047438 CAACCCTTTTATTCATGCTAA
1 CAACCCTTTTATTCATGCTAA
95047459 CA
1 CA
95047461 TACCAATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.36
Consensus pattern (21 bp):
CAACCCTTTTATTCATGCTAA
Found at i:95057262 original size:30 final size:31
Alignment explanation
Indices: 95057228--95057296 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
95057218 TTCAATCTTC
* *
95057228 AATCTTTC-AATATTCTC-TCAATTTCTCTCA
1 AATCTTTCAAAT-TTCTCTTAAATTCCTCTCA
*
95057258 AATCTCTCAAATTTCTCTTAAATTCCTCTCA
1 AATCTTTCAAATTTCTCTTAAATTCCTCTCA
*
95057289 AAACTTTC
1 AATCTTTC
95057297 GTTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.43
Consensus pattern (31 bp):
AATCTTTCAAATTTCTCTTAAATTCCTCTCA
Found at i:95057265 original size:11 final size:10
Alignment explanation
Indices: 95057234--95057290 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
95057224 CTTCAATCTT
95057234 TCAATATTCTC
1 TCAA-ATTCTC
*
95057245 TCAATTTCTC
1 TCAAATTCTC
95057255 TCAAA-TCTC
1 TCAAATTCTC
95057264 TCAAATTTCTC
1 TCAAA-TTCTC
*
95057275 TTAAATTCCTC
1 TCAAATT-CTC
95057286 TCAAA
1 TCAAA
95057291 ACTTTCGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.23
10 11 0.28
11 19 0.49
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:95057272 original size:20 final size:21
Alignment explanation
Indices: 95057234--95057290 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
95057224 CTTCAATCTT
95057234 TCAATATTCTCTC-AATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
95057255 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
95057275 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
95057291 ACTTTCGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 5 0.16
22 8 0.25
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:95057346 original size:16 final size:15
Alignment explanation
Indices: 95057317--95057347 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95057307 TCAAAAAAGC
*
95057317 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
95057332 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
95057347 T
1 T
95057348 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:95058464 original size:7 final size:7
Alignment explanation
Indices: 95058452--95058478 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
95058442 TAGTGGATTC
95058452 GTATTTA
1 GTATTTA
95058459 GTATTTA
1 GTATTTA
95058466 GTATTTA
1 GTATTTA
95058473 GTATTT
1 GTATTT
95058479 TTTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:95061016 original size:126 final size:126
Alignment explanation
Indices: 95060471--95061008 Score: 758
Period size: 126 Copynumber: 4.3 Consensus size: 126
95060461 GCCCAAGTTA
* * *
95060471 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT-TTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* * *
95060535 TACATCCTGCTTGAAGCGTTTTTGATACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * *
95060596 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* *
95060661 TGCATCCTACTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * * * * *
95060722 TTTTAAAGACTACTGTAGCAAAATAGTGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* * * * *
95060787 TGCATCCTGCTTGAAGCCTTTTTTACACTATTTGCACAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* ** *
95060848 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTGGTAATTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* * *
95060913 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
95060974 TATT-AGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 T-TTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
95061009 AGAAGCTTTT
Statistics
Matches: 366, Mismatches: 43, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
125 42 0.11
126 321 0.88
127 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:95061112 original size:15 final size:15
Alignment explanation
Indices: 95061092--95061121 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95061082 TTTCTTAAAT
95061092 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
95061107 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
95061122 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:95061313 original size:16 final size:17
Alignment explanation
Indices: 95061291--95061333 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
95061281 ATTTTTTCCT
*
95061291 TAAAACCCTAAAATTTA
1 TAAAACCCTAAAATTCA
95061308 -AAAACCC-AAAATTCA
1 TAAAACCCTAAAATTCA
95061323 TAAAACCCTAA
1 TAAAACCCTAA
95061334 CTCTAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 14 0.61
17 2 0.09
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAACCCTAAAATTCA
Found at i:95061976 original size:37 final size:37
Alignment explanation
Indices: 95061935--95062006 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
95061925 CTAACTCCAT
95061935 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
95061972 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
95062007 TACTAACTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:95062026 original size:17 final size:18
Alignment explanation
Indices: 95061990--95062027 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
95061980 TAAACCATCC
*
95061990 ACTACCTCCATCACCCCT
1 ACTAACTCCATCACCCCT
95062008 ACTAACTCCATCA-CCCT
1 ACTAACTCCATCACCCCT
95062025 ACT
1 ACT
95062028 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAACTCCATCACCCCT
Found at i:95062425 original size:63 final size:62
Alignment explanation
Indices: 95062298--95062435 Score: 160
Period size: 62 Copynumber: 2.3 Consensus size: 62
95062288 TGACCCCTTT
* *
95062298 TTTA-TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATA
* * * *
95062360 TTTGTTTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATA
95062420 -TTATTTATTTATTATT
1 TTTATTT-TTTATTATT
95062436 ATATATTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 5 0.08
60 22 0.33
61 4 0.06
62 23 0.35
63 12 0.18
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (62 bp):
TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATA
Found at i:95062434 original size:19 final size:18
Alignment explanation
Indices: 95062410--95062446 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
95062400 TTATGTTTCA
95062410 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
95062429 TATTATTATATATTTATT
1 TATTATTATATATTTATT
95062447 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:95062445 original size:11 final size:12
Alignment explanation
Indices: 95062410--95062468 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
95062400 TTATGTTTCA
95062410 TATTAT-TATAT
1 TATTATATATAT
*
95062421 TATT-TATTTAT
1 TATTATATATAT
95062432 TATTATATAT-T
1 TATTATATATAT
* *
95062443 TATTATGTAAAT
1 TATTATATATAT
95062455 ATATATATATATAT
1 -TAT-TATATATAT
95062469 ATTTTAAGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
10 1 0.03
11 21 0.57
12 5 0.14
13 3 0.08
14 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATATATAT
Found at i:95062456 original size:17 final size:14
Alignment explanation
Indices: 95062418--95062472 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
95062408 CATATTATTA
*
95062418 TATTATTTATTTAT
1 TATTATATATTTAT
95062432 TATTATATATTTAT
1 TATTATATATTTAT
* *
95062446 TATGTAAATATATA-
1 TAT-TATATATTTAT
95062460 TATATATATATTT
1 TAT-TATATATTT
95062473 TAAGCGAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 26 0.76
15 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:95063737 original size:10 final size:11
Alignment explanation
Indices: 95063718--95063750 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
95063708 TTGATATGTT
95063718 AATGAAGAGAA
1 AATGAAGAGAA
95063729 AAT-AAGAGAA
1 AATGAAGAGAA
*
95063739 AGTGAAGAGAA
1 AATGAAGAGAA
95063750 A
1 A
95063751 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:95065512 original size:46 final size:46
Alignment explanation
Indices: 95065465--95065738 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
95065455 GCTCTCTGAT
** * *
95065465 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
95065511 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
95065557 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
95065603 GGGAAATGAATAAGACCATGGTTAAAAGATAACATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
95065649 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
95065695 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
95065739 TCAAAGATAA
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:95066896 original size:126 final size:126
Alignment explanation
Indices: 95066671--95066914 Score: 407
Period size: 126 Copynumber: 1.9 Consensus size: 126
95066661 CATTGATCTT
* * *
95066671 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAAAATCGTACCCTA
* *
95066736 ATGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
95066797 CTCTCAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAAAATCGTACCCTA
1 CTCTCAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAAAATCGTACCCTA
* * * *
95066862 ACGTACTGGGTTTCGCTTTCTTTATTTGTTTTGAATATTTGAATGTCCTCTTA
66 ACGTACTGGGTTTCACTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTA
95066915 AGGATAAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAAAATCGTACCCTA
ACGTACTGGGTTTCACTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:95068482 original size:21 final size:21
Alignment explanation
Indices: 95068438--95068482 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95068428 AAGGGATAAG
* *
95068438 ATGCTGGAATCCCAGAGAAGC
1 ATGCTAGAATCCCAGAGAAAC
95068459 ATGCTAGAATCCCAGA-ACAAC
1 ATGCTAGAATCCCAGAGA-AAC
95068480 ATG
1 ATG
95068483 ATAAGTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTAGAATCCCAGAGAAAC
Found at i:95071093 original size:24 final size:24
Alignment explanation
Indices: 95071066--95071144 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
95071056 CACTTTCAAA
95071066 AAAAAAAAGAGAAAAAGGAAAGAG
1 AAAAAAAAGAGAAAAAGGAAAGAG
*
95071090 -AAAAAAAG-G-AAAAGGAAAAAG
1 AAAAAAAAGAGAAAAAGGAAAGAG
*
95071111 AAGAGAAAAACA-AAAAAGAGAAAGA-
1 AA-A-AAAAAGAGAAAAAG-GAAAGAG
*
95071136 AAAGAAAAG
1 AAAAAAAAG
95071145 CAAATGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
21 11 0.25
22 2 0.05
23 13 0.30
24 6 0.14
25 7 0.16
26 5 0.11
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (24 bp):
AAAAAAAAGAGAAAAAGGAAAGAG
Found at i:95071095 original size:15 final size:15
Alignment explanation
Indices: 95071077--95071144 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
95071067 AAAAAAAGAG
95071077 AAAAAGGAAAGAGAA
1 AAAAAGGAAAGAGAA
*
95071092 AAAAAGGAAA-AG-G
1 AAAAAGGAAAGAGAA
95071105 AAAAA-G-AAGAGAA
1 AAAAAGGAAAGAGAA
*
95071118 AAACAA-AAAAGAGAA
1 AAA-AAGGAAAGAGAA
*
95071133 AGAAAAGAAAAG
1 A-AAAAGGAAAG
95071145 CAAATGAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
11 2 0.05
12 3 0.07
13 8 0.18
14 4 0.09
15 20 0.45
16 7 0.16
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAGGAAAGAGAA
Found at i:95072791 original size:29 final size:29
Alignment explanation
Indices: 95072753--95072816 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
95072743 CCAAATTAAA
95072753 CACCCCACTAAACCAACCACTAACTCCAT
1 CACCCCACTAAACCAACCACTAACTCCAT
* * * *
95072782 CACCCTACTAAACCATCCACTACCTTCAT
1 CACCCCACTAAACCAACCACTAACTCCAT
95072811 CACCCC
1 CACCCC
95072817 CACACCCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCAACCACTAACTCCAT
Found at i:95072829 original size:37 final size:37
Alignment explanation
Indices: 95072782--95072856 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
95072772 CTAACTCCAT
*
95072782 CACCCTACTAAACCATCCACTACCTTCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
95072819 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
95072856 C
1 C
95072857 TAACTCCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:95072858 original size:18 final size:18
Alignment explanation
Indices: 95072835--95072870 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95072825 ACTAAACCAT
*
95072835 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
95072853 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
95072871 TACTTGTTAT
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:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:95073271 original size:61 final size:61
Alignment explanation
Indices: 95073150--95073267 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 61
95073140 CTTTTTTTTA
*
95073150 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTG
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTG
* * *
95073212 TTTTT-TTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATT
95073268 ATTTATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
58 15 0.29
59 4 0.08
60 20 0.39
61 7 0.14
62 5 0.10
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (61 bp):
TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTG
Found at i:95073280 original size:19 final size:18
Alignment explanation
Indices: 95073256--95073292 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
95073246 TTATGTTTCA
95073256 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
95073275 TATTATTATATATTTATT
1 TATTATTATATATTTATT
95073293 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:95073304 original size:17 final size:14
Alignment explanation
Indices: 95073264--95073294 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95073254 CATATTATTA
*
95073264 TATTATTTATTTAT
1 TATTATATATTTAT
95073278 TATTATATATTTAT
1 TATTATATATTTAT
95073292 TAT
1 TAT
95073295 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:95073987 original size:126 final size:126
Alignment explanation
Indices: 95073752--95073995 Score: 418
Period size: 126 Copynumber: 1.9 Consensus size: 126
95073742 CGTTGATCTT
* *
95073752 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
*
95073817 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
*
95073878 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTTGAAG-ATTCGTGCCCT
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATT-GTGCCCT
* *
95073942 AACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAAAATTCGAATATCCTCTTA
65 AACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTA
95073996 AGGCTAAAAC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
125 3 0.03
126 108 0.97
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
Found at i:95075863 original size:19 final size:19
Alignment explanation
Indices: 95075838--95075961 Score: 161
Period size: 19 Copynumber: 6.8 Consensus size: 19
95075828 ATAATCTTCA
95075838 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95075857 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95075876 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95075893 ATGAT-TGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
95075911 AT-A-ATACAATCCTAGAT
1 ATGATATGCAATCTTAGAT
95075928 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95075946 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
95075962 AAAGATATGA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
17 29 0.32
18 29 0.32
19 32 0.36
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:95075906 original size:18 final size:18
Alignment explanation
Indices: 95075838--95075961 Score: 144
Period size: 18 Copynumber: 6.8 Consensus size: 18
95075828 ATAATCTTCA
95075838 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
95075857 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
95075876 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
95075893 ATGATTGTAATCTTAGAT
1 ATGATTGCAATCTTAGAT
* * *
95075911 AT-AATACAATCCTAGAT
1 ATGATTGCAATCTTAGAT
95075928 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
95075946 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
95075962 AAAGATATGA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
17 29 0.33
18 30 0.34
19 30 0.34
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:95075911 original size:35 final size:35
Alignment explanation
Indices: 95075846--95075961 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 35
95075836 CAATGATATG
*
95075846 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
* *
95075882 CAATCTTAGATATGATTGTAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
95075917 CAATCCTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
95075954 CAATCTTA
1 CAATCTTA
95075962 AAAGATATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
35 46 0.65
36 15 0.21
37 10 0.14
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:95076300 original size:24 final size:25
Alignment explanation
Indices: 95076254--95076300 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
95076244 TATCTCCTTG
*
95076254 ATTTTTTAATTCACTTTTATATTTT
1 ATTTTTTAATTCAATTTTATATTTT
95076279 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTA-TATT
95076301 ATATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTCAATTTTATATTTT
Found at i:95078535 original size:14 final size:16
Alignment explanation
Indices: 95078516--95078552 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
95078506 TCGATATCCT
95078516 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
95078530 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
95078546 TTT-CATC
1 TTTGCATC
95078553 ACATCATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:95078552 original size:15 final size:15
Alignment explanation
Indices: 95078516--95078565 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
95078506 TCGATATCCT
95078516 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
95078530 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
95078546 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
*
95078559 TATGCAT
1 TTTGCAT
95078566 TCGAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:95082403 original size:46 final size:44
Alignment explanation
Indices: 95082299--95082406 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
95082289 TATCTTTGAC
** * * *
95082299 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
95082343 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
95082389 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
95082407 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:95083971 original size:22 final size:21
Alignment explanation
Indices: 95083934--95084007 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 21
95083924 CTTCTATTTC
95083934 AAAA-AAAAAG-GCAAAAAAAT
1 AAAAGAAAAAGAG-AAAAAAAT
95083954 AAAAGAAAAAGAGAAAAAAAT
1 AAAAGAAAAAGAGAAAAAAAT
95083975 AAAAAGAAAAAAGAGAAAAAAGA-
1 -AAAAG-AAAAAGAGAAAAAA-AT
95083998 AAAAGAAAAA
1 AAAAGAAAAA
95084008 ATGGAGAGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.08
21 19 0.39
22 11 0.22
23 14 0.29
24 1 0.02
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAGAGAAAAAAAT
Found at i:95083973 original size:16 final size:16
Alignment explanation
Indices: 95083954--95084001 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
95083944 GCAAAAAAAT
95083954 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
95083970 AAAATAAAAAGA-AAA
1 AAAAGAAAAAGAGAAA
*
95083985 AAGAGAAAAA-AGAAA
1 AAAAGAAAAAGAGAAA
95084000 AA
1 AA
95084002 GAAAAAATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 1 0.04
15 16 0.57
16 11 0.39
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:95084007 original size:7 final size:7
Alignment explanation
Indices: 95083954--95084008 Score: 60
Period size: 7 Copynumber: 7.6 Consensus size: 7
95083944 GCAAAAAAAT
95083954 AAAAGAA
1 AAAAGAA
95083961 AAAGAGAA
1 AAA-AGAA
95083969 AAAA-ATA
1 AAAAGA-A
95083976 AAAAGAA
1 AAAAGAA
95083983 AAAAGAGA
1 AAAAGA-A
95083991 AAAA-AGA
1 AAAAGA-A
95083998 AAAAGAA
1 AAAAGAA
95084005 AAAA
1 AAAA
95084009 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 1 0.02
7 28 0.65
8 14 0.33
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:95084008 original size:22 final size:22
Alignment explanation
Indices: 95083937--95084008 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
95083927 CTATTTCAAA
*
95083937 AAAAAAG-GCAAAAAAATAAAAG
1 AAAAAAGAG-AAAAAAAAAAAAG
95083959 -AAAAAGAGAAAAAAATAAAAAG
1 AAAAAAGAGAAAAAAA-AAAAAG
*
95083981 AAAAAAGAGAAAAAAGAAAAAG
1 AAAAAAGAGAAAAAAAAAAAAG
95084003 AAAAAA
1 AAAAAA
95084009 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 13 0.29
22 18 0.40
23 14 0.31
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAAAAAAAG
Found at i:95085184 original size:87 final size:84
Alignment explanation
Indices: 95084957--95085323 Score: 390
Period size: 87 Copynumber: 4.4 Consensus size: 84
95084947 CAAAATTCAG
* *
95084957 CGCCTTAATCCCCTAAGCAGTAGGGTAAC-AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGG-TAAAATTACAGATCTTATCTCCCTAAGCAGT
*
95085021 AGTGGAGCAGATCGAAGACT
65 AGCGGAGCAGATCGAAGACT
* * * *
95085041 CGCATTAATCCCCGAAGCAATAGGGTAAC-AGGT----TCACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTA
* *
95085101 GCGGAGCAAATTGACGACGACT
66 GCGGAGCAGA-T--CGAAGACT
* *
95085123 CGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTA
** *
95085188 GCGGAATAGATCAACGACGACT
66 GCGGAGCAGAT---CGAAGACT
* * * *
95085210 CGCCTTAATCCCTTAAGTAGTAGGGTAAC-AGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGGT-AAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
95085274 AGTGGAGTAGATCAAAGA-T
65 AGCGGAGCAGATCGAAGACT
* *
95085293 GCGCCTTAACCCCCTAAGTAGTAGGGTAACA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACA
95085324 GGTTAAAGTA
Statistics
Matches: 241, Mismatches: 30, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
79 33 0.14
80 1 0.00
82 32 0.13
83 5 0.02
84 60 0.25
86 4 0.02
87 106 0.44
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTA
GCGGAGCAGATCGAAGACT
Found at i:95085814 original size:207 final size:207
Alignment explanation
Indices: 95085459--95086375 Score: 1505
Period size: 207 Copynumber: 4.4 Consensus size: 207
95085449 GAGTAGATCA
* * * * * *
95085459 AAGACATAGCTGATTTGGCTTTTATGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
*
95085524 TGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
95085589 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
95085654 AGGAGTAAATCG
196 AGGAGCAAATCG
*
95085666 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
95085731 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
95085796 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
95085861 AGGAACAAATCG
196 AGGAGCAAATCG
*
95085873 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATATC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
95085938 TGTATTGTCAGAGAATAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
95086003 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
95086068 AGGAACAAATCG
196 AGGAGCAAATCG
*
95086080 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * * * *
95086145 TGTATTTTCAGAGAACAAATTGAAGTGTGGCGTCTCCATATTCGACGGAGGACATACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* ** * * * *
95086210 AATCTAACTTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
95086274 AGGAGCAAATCG
196 AGGAGCAAATCG
* *
95086286 AAGACATAGCTGATTTGGCTTTCGCGTGTTTAC-TCTGAAGCAAATCTAAGATGATTTGGCATCT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGT-TGAAGCAAGTCTAAGATGATTTGGCATCT
* *
95086350 CTGTATTGTCAGGGAACAAATTGAAG
65 CTGTATTGTCAGAGAACAAATCGAAG
95086376 AAGCAGATTT
Statistics
Matches: 670, Mismatches: 39, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
205 1 0.00
206 127 0.19
207 542 0.81
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAGCAAATCG
Found at i:95086798 original size:19 final size:19
Alignment explanation
Indices: 95086773--95086861 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
95086763 ATAATCTTCA
95086773 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95086792 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95086811 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95086829 ATGATA--CAATCCTAGAT
1 ATGATATGCAATCTTAGAT
*
95086846 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
95086862 AAAGATATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
17 16 0.25
18 18 0.29
19 29 0.46
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:95086821 original size:37 final size:36
Alignment explanation
Indices: 95086773--95086861 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 36
95086763 ATAATCTTCA
* *
95086773 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCCTAGAT
95086811 ATGAT-TGCAATCTTAGATATGATACAATCCTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCCTAGAT
*
95086846 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
95086862 AAAGATATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
35 15 0.32
36 9 0.19
37 18 0.38
38 5 0.11
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCCTAGAT
Found at i:95088718 original size:8 final size:8
Alignment explanation
Indices: 95088705--95088733 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
95088695 TTATGTTTAG
95088705 TATATTAT
1 TATATTAT
95088713 TATATTAT
1 TATATTAT
95088721 TATATTAT
1 TATATTAT
95088729 TATAT
1 TATAT
95088734 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:95088766 original size:5 final size:5
Alignment explanation
Indices: 95088756--95088791 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
95088746 TTATGTTTTA
*
95088756 ATTAT ATTAT ATTAT ATTAC ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
95088792 AAACTAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:95090078 original size:15 final size:15
Alignment explanation
Indices: 95090058--95090114 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
95090048 CGATGAATTT
*
95090058 ATTGAATTTGTATTG
1 ATTGAATTTATATTG
* *
95090073 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
95090088 ATTGAATTTATATTG
1 ATTGAATTTATATTG
95090103 ATTGAA-TTATAT
1 ATTGAATTTATAT
95090115 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:95090556 original size:21 final size:21
Alignment explanation
Indices: 95090498--95090558 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
95090488 AGGCACTTTA
95090498 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* * *
95090521 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTTTTAGGCACCTCG
95090542 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
95090559 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
22 1 0.03
23 7 0.22
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:95090566 original size:21 final size:21
Alignment explanation
Indices: 95090488--95090570 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
95090478 TTTATCGATC
* *
95090488 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
* * * *
95090510 CAGGCACCTCGTGTGTCATATC
1 -AGGCACCTCATGTGTCGTTTT
*
95090532 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
95090553 AGGCACTTTATGTGTCGT
1 AGGCACCTCATGTGTCGT
95090571 ATACTGATCA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:95094424 original size:31 final size:31
Alignment explanation
Indices: 95094386--95094448 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
95094376 ATACGTTCGG
95094386 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
95094417 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
95094448 T
1 T
95094449 TGGGGTTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (31 bp):
TAATGCCTCGTAACCTTGTTTCGGCGACTGT
Found at i:95095443 original size:17 final size:18
Alignment explanation
Indices: 95095406--95095458 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
95095396 AATCATATCT
95095406 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
95095424 TCTAAGATTG-TATTATA
1 TCTAAGATTGCAATCATA
95095441 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
95095459 TAAAGATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 15 0.52
18 10 0.34
19 4 0.14
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:95097215 original size:12 final size:12
Alignment explanation
Indices: 95097200--95097224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95097190 ATTTTCATTT
95097200 TCAAAATCCAAG
1 TCAAAATCCAAG
95097212 TCAAAATCCAAG
1 TCAAAATCCAAG
95097224 T
1 T
95097225 AGACCGTCGT
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:0.48, C:0.24, G:0.08, T:0.20
Consensus pattern (12 bp):
TCAAAATCCAAG
Found at i:95098841 original size:26 final size:24
Alignment explanation
Indices: 95098801--95098860 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
95098791 TTATTTTATT
* * **
95098801 AAATAAAAAAATTTAAAATTATAA
1 AAATAAATATATTTAAAAACATAA
95098825 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
95098851 AAATAAATAT
1 AAATAAATAT
95098861 TAAAACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 16 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:95098872 original size:22 final size:22
Alignment explanation
Indices: 95098831--95098889 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
95098821 ATAATAAATC
* *
95098831 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
95098851 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
95098873 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
95098890 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:95102392 original size:27 final size:27
Alignment explanation
Indices: 95102354--95102409 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
95102344 ACCTTCACCC
95102354 TTATTTTTCCCCTCTCTTAAAACTGCA
1 TTATTTTTCCCCTCTCTTAAAACTGCA
95102381 TTATTTTTCCCCTCTCTTAAAACTGCA
1 TTATTTTTCCCCTCTCTTAAAACTGCA
95102408 TT
1 TT
95102410 TCAGATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.04, T:0.46
Consensus pattern (27 bp):
TTATTTTTCCCCTCTCTTAAAACTGCA
Found at i:95108427 original size:19 final size:19
Alignment explanation
Indices: 95108403--95108441 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
95108393 AGCTTAAGAT
95108403 TCCATTTCAAGTTTGACAA
1 TCCATTTCAAGTTTGACAA
95108422 TCCATTTCAAGTTTGACAA
1 TCCATTTCAAGTTTGACAA
95108441 T
1 T
95108442 TTTAATCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
TCCATTTCAAGTTTGACAA
Found at i:95111859 original size:22 final size:22
Alignment explanation
Indices: 95111820--95111861 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95111810 AAATTTTCAC
* **
95111820 TGTTGTTTTGTTGTCATTTTAA
1 TGTTGTTTTGCTACCATTTTAA
95111842 TGTTGTTTTGCTACCATTTT
1 TGTTGTTTTGCTACCATTTT
95111862 GCTATTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.62
Consensus pattern (22 bp):
TGTTGTTTTGCTACCATTTTAA
Found at i:95112329 original size:26 final size:24
Alignment explanation
Indices: 95112299--95112348 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
95112289 AAATAAAAAA
*
95112299 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
95112325 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
95112349 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:95112368 original size:21 final size:21
Alignment explanation
Indices: 95112319--95112377 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
95112309 ATAATAAATC
*
95112319 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
95112339 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
95112361 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
95112378 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:95114959 original size:22 final size:22
Alignment explanation
Indices: 95114920--95114961 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95114910 ATTTTTTCAC
* **
95114920 TGTTGTTTTGTTGTCATTTTAA
1 TGTTGTTTTGCTACCATTTTAA
95114942 TGTTGTTTTGCTACCATTTT
1 TGTTGTTTTGCTACCATTTT
95114962 GCTATTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.62
Consensus pattern (22 bp):
TGTTGTTTTGCTACCATTTTAA
Found at i:95115417 original size:26 final size:27
Alignment explanation
Indices: 95115360--95115417 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
95115350 AAATTTTAAC
* *
95115360 ATATTATTTTGTTTTACTTTTAAAAAA
1 ATATTATTTTATTTTACATTTAAAAAA
*
95115387 ATATTATTTTATTTT-CATTTAATAAA
1 ATATTATTTTATTTTACATTTAAAAAA
*
95115413 CTATT
1 ATATT
95115418 CTCATCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (27 bp):
ATATTATTTTATTTTACATTTAAAAAA
Found at i:95117186 original size:24 final size:25
Alignment explanation
Indices: 95117130--95117202 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 25
95117120 TGGAACAAAG
* * *
95117130 GAAGGTAATTACCGATAATGGTATA
1 GAAGGTGATTACCGATGATGGTAAA
95117155 GAAGGTGATTACCGATGATGG-AAA
1 GAAGGTGATTACCGATGATGGTAAA
*
95117179 GAAGGTGATTACCGGTGATGGTAA
1 GAAGGTGATTACCGATGATGGTAA
95117203 GTGATGTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.51
25 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.25
Consensus pattern (25 bp):
GAAGGTGATTACCGATGATGGTAAA
Found at i:95117208 original size:34 final size:34
Alignment explanation
Indices: 95117170--95117239 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
95117160 TGATTACCGA
95117170 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
1 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
*** *
95117204 TGATGTTGAGATGGTGATTACCGGTGATGGTAAG
1 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
95117238 TG
1 TG
95117240 GTGTTGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.29
Consensus pattern (34 bp):
TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
Found at i:95117245 original size:34 final size:34
Alignment explanation
Indices: 95117182--95117248 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
95117172 ATGGAAAGAA
95117182 GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
1 GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
*
95117216 GGTGATTACCGGTGATGGTAAGTGGTGTTGAGA
1 GGTGATTACCGGTGATGGTAAGTGATGTTGAGA
95117249 ACAAGCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.40, T:0.31
Consensus pattern (34 bp):
GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
Found at i:95123414 original size:21 final size:17
Alignment explanation
Indices: 95123372--95123406 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95123362 CTTCCATAAG
95123372 TTGTTTCAGCCAAGTAC
1 TTGTTTCAGCCAAGTAC
95123389 TTGTTTCAGCCAAGTAC
1 TTGTTTCAGCCAAGTAC
95123406 T
1 T
95123407 CTCTTGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (17 bp):
TTGTTTCAGCCAAGTAC
Found at i:95135431 original size:17 final size:17
Alignment explanation
Indices: 95135409--95135444 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
95135399 ACTCAATTTT
95135409 CTTAATTAATTTACAAC
1 CTTAATTAATTTACAAC
95135426 CTTAATTAATTTACAAC
1 CTTAATTAATTTACAAC
95135443 CT
1 CT
95135445 GTCTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (17 bp):
CTTAATTAATTTACAAC
Found at i:95136004 original size:17 final size:17
Alignment explanation
Indices: 95135984--95136017 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95135974 AAATAGATTT
95135984 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
95136001 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
95136018 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:95149770 original size:2 final size:2
Alignment explanation
Indices: 95149765--95149801 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
95149755 ACACACACAC
95149765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95149802 ACACAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95152085 original size:29 final size:27
Alignment explanation
Indices: 95152052--95152105 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 27
95152042 TTTAGGTTAT
95152052 TTTATTAA-AATGAACTAAAAATTTAAATA
1 TTTA-TAAGAATG-ACT-AAAATTTAAATA
*
95152081 TTTATAAGAATGACTCAAATTTAAA
1 TTTATAAGAATGACTAAAATTTAAA
95152106 AATATTAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (27 bp):
TTTATAAGAATGACTAAAATTTAAATA
Found at i:95153021 original size:2 final size:2
Alignment explanation
Indices: 95153014--95153048 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
95153004 AAATACATTA
95153014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95153049 CAAAAAAAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.