Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 90 of 173
Found at i:28198419 original size:25 final size:25
Alignment explanation
Indices: 28198386--28198433 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
28198376 AAATTATACG
* *
28198386 AAATAAAATTAAAATACAAAAATAA
1 AAATAAAATAAAAACACAAAAATAA
* *
28198411 AAATGAAATAAAAACACTAAAAT
1 AAATAAAATAAAAACACAAAAAT
28198434 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (25 bp):
AAATAAAATAAAAACACAAAAATAA
Found at i:28198488 original size:47 final size:48
Alignment explanation
Indices: 28198419--28198517 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 48
28198409 AAAAATGAAA
** * *
28198419 TAAAAACACTAAAATTTTTAATTTTGTCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
28198467 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
28198514 TAAA
1 TAAA
28198518 CAAAAGTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
Found at i:28200239 original size:14 final size:14
Alignment explanation
Indices: 28200220--28200246 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28200210 TAAAAGGTTT
28200220 TTTAGTTAATCATC
1 TTTAGTTAATCATC
28200234 TTTAGTTAATCAT
1 TTTAGTTAATCAT
28200247 GTTGTTGTTC
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:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:28200783 original size:23 final size:24
Alignment explanation
Indices: 28200754--28200827 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 24
28200744 ATTATTAATG
28200754 TATAACATATA-TTAATATGTATA
1 TATAACATATATTTAATATGTATA
*
28200777 TATAACATATATTTAA-AT-T-TG
1 TATAACATATATTTAATATGTATA
28200798 TATAACATATATTTTTAATATGTATA
1 TATAACATATA--TTTAATATGTATA
28200824 TATA
1 TATA
28200828 TTTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
21 12 0.28
22 1 0.02
23 18 0.42
24 6 0.14
25 1 0.02
26 5 0.12
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
TATAACATATATTTAATATGTATA
Found at i:28200801 original size:21 final size:21
Alignment explanation
Indices: 28200752--28200844 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 21
28200742 ATATTATTAA
28200752 TGTATAACATATA-TTAATATGT
1 TGTATAACATATATTTAA-AT-T
*
28200774 ATATATAACATATATTTAAATT
1 -TGTATAACATATATTTAAATT
* *
28200796 TGTATAACATATATTTTTAATA
1 TGTATAACATATA-TTTAAATT
* *
28200818 TGTATATATATTTATTTAAATT
1 TGTATA-ACATATATTTAAATT
28200840 T-TATA
1 TGTATA
28200845 TATTTTTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.27
22 20 0.34
23 19 0.32
24 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (21 bp):
TGTATAACATATATTTAAATT
Found at i:28200826 original size:19 final size:17
Alignment explanation
Indices: 28200804--28200851 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
28200794 TTTGTATAAC
28200804 ATATATTTTTAATATGTAT
1 ATATATTTTTAA-AT-TAT
*
28200823 ATATATTTATTTAAATTTT
1 ATATA-TT-TTTAAATTAT
28200842 ATATATTTTT
1 ATATATTTTT
28200852 TCAAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.12
18 2 0.08
19 12 0.46
20 4 0.15
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATATTTTTAAATTAT
Found at i:28200834 original size:44 final size:42
Alignment explanation
Indices: 28200752--28200844 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 42
28200742 ATATTATTAA
28200752 TGTATAACATATATTAATATGTATATATAACATATATTTAAATT
1 TGTATAACATATATTAATATGTATATAT-A-ATATATTTAAATT
*
28200796 TGTATAACATATATTTTTAATATGTATATAT-ATTTATTTAAATT
1 TGTATAACATATA---TTAATATGTATATATAATATATTTAAATT
28200840 T-TATA
1 TGTATA
28200845 TATTTTTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
43 4 0.09
44 26 0.58
47 15 0.33
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (42 bp):
TGTATAACATATATTAATATGTATATATAATATATTTAAATT
Found at i:28200845 original size:21 final size:22
Alignment explanation
Indices: 28200786--28200847 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
28200776 ATATAACATA
*
28200786 TATTTAAATTTGTATAACATATAT
1 TATTTAAATTT-TAT-ATATATAT
*
28200810 T-TTT-AATATGTATATATAT-T
1 TATTTAAAT-TTTATATATATAT
28200830 TATTTAAATTTTATATAT
1 TATTTAAATTTTATATAT
28200848 TTTTTCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 9 0.28
23 4 0.12
24 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTTAAATTTTATATATATAT
Found at i:28200862 original size:19 final size:19
Alignment explanation
Indices: 28200822--28200863 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
28200812 TTAATATGTA
**
28200822 TATATATTTATTTAAATTT
1 TATATATTTATTTAAAACT
28200841 TATATATTT-TTTCAAAACT
1 TATATATTTATTT-AAAACT
28200860 TATA
1 TATA
28200864 AATCATATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATATTTATTTAAAACT
Found at i:28200991 original size:12 final size:12
Alignment explanation
Indices: 28200974--28200998 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28200964 TACATAATAC
28200974 ATAACTTACATA
1 ATAACTTACATA
28200986 ATAACTTACATA
1 ATAACTTACATA
28200998 A
1 A
28200999 CTTCTGTAGA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:28201039 original size:9 final size:9
Alignment explanation
Indices: 28201021--28201236 Score: 122
Period size: 9 Copynumber: 25.3 Consensus size: 9
28201011 CTTATATATA
*
28201021 AACTTGCAT
1 AACTTACAT
28201030 AACTTACAT
1 AACTTACAT
*
28201039 AACAATATA-AC
1 AAC--T-TACAT
*
28201050 AACTTAGAT
1 AACTTACAT
28201059 AA--TACAT
1 AACTTACAT
* *
28201066 AGCCTACAT
1 AACTTACAT
*
28201075 AACTTAGAT
1 AACTTACAT
28201084 AACTTACAT
1 AACTTACAT
*
28201093 AA--TACAC
1 AACTTACAT
*
28201100 CACTTACAT
1 AACTTACAT
* *
28201109 AAATAAC-T
1 AACTTACAT
** *
28201117 TGCATA-AT
1 AACTTACAT
28201125 AACTTACAT
1 AACTTACAT
*
28201134 AA--TACAC
1 AACTTACAT
*
28201141 CACTTACAT
1 AACTTACAT
*
28201150 AACTTAAAT
1 AACTTACAT
28201159 AACTTACAT
1 AACTTACAT
28201168 AA--TACAT
1 AACTTACAT
28201175 AACTTACAT
1 AACTTACAT
28201184 AACTTACAT
1 AACTTACAT
28201193 AA--TACAT
1 AACTTACAT
*
28201200 TACTTACAT
1 AACTTACAT
28201209 AACTTAC--
1 AACTTACAT
*
28201216 -ACTATACAC
1 AACT-TACAT
28201225 AACTTACAT
1 AACTTACAT
28201234 AAC
1 AAC
28201237 ATAATTAATA
Statistics
Matches: 155, Mismatches: 32, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
6 3 0.02
7 31 0.20
8 8 0.05
9 103 0.66
10 3 0.02
11 5 0.03
12 2 0.01
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:28201098 original size:25 final size:25
Alignment explanation
Indices: 28201070--28201236 Score: 162
Period size: 25 Copynumber: 6.7 Consensus size: 25
28201060 ATACATAGCC
*
28201070 TACATAACTTAGATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
** * * * *
28201095 TACACCACTTACATAAATAACTTGCA
1 TACATAACTTACATAACTTACAT-AA
* *
28201121 TA-ATAACTTACATAA--TACACCACT
1 TACATAACTTACATAACTTACA-TA-A
*
28201145 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
28201170 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
*
28201195 TACATTACTTACATAACTTACACT-A
1 TACATAACTTACATAACTTACA-TAA
*
28201220 TACACAACTTACATAAC
1 TACATAACTTACATAAC
28201237 ATAATTAATA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.02
24 2 0.02
25 101 0.89
26 5 0.04
27 4 0.04
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:28201106 original size:16 final size:14
Alignment explanation
Indices: 28201084--28201185 Score: 66
Period size: 16 Copynumber: 6.8 Consensus size: 14
28201074 TAACTTAGAT
28201084 AACTTACATAATAC
1 AACTTACATAATAC
*
28201098 ACCACTTACATAA-AT
1 A--ACTTACATAATAC
*
28201113 AACTTGCATAAT--
1 AACTTACATAATAC
28201125 AACTTACATAATAC
1 AACTTACATAATAC
*
28201139 ACCACTTACATAACTTAAAT
1 A--ACTTACATAA--T--AC
28201159 AACTTACATAATAC
1 AACTTACATAATAC
28201173 ATAACTTACATAA
1 --AACTTACATAA
28201186 CTTACATAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
12 11 0.16
13 9 0.13
14 3 0.04
15 2 0.03
16 32 0.46
18 11 0.16
20 2 0.03
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (14 bp):
AACTTACATAATAC
Found at i:28201127 original size:12 final size:12
Alignment explanation
Indices: 28201082--28201216 Score: 75
Period size: 12 Copynumber: 10.8 Consensus size: 12
28201072 CATAACTTAG
28201082 ATAACTTACATA
1 ATAACTTACATA
28201094 ATACACCACTTACATAA
1 AT--A--ACTTACAT-A
*
28201111 ATAACTTGCATA
1 ATAACTTACATA
28201123 ATAACTTACATA
1 ATAACTTACATA
* *
28201135 ATACAC-CACTTA
1 ATA-ACTTACATA
28201147 CATAACTT--A-A
1 -ATAACTTACATA
28201157 ATAACTTACATA
1 ATAACTTACATA
* *
28201169 AT-ACATAACTTA
1 ATAAC-TTACATA
28201181 CATAACTTACATA
1 -ATAACTTACATA
*
28201194 AT-ACATTACTTA
1 ATAAC-TTACATA
28201206 CATAACTTACA
1 -ATAACTTACA
28201217 CTATACACAA
Statistics
Matches: 94, Mismatches: 12, Indels: 33
0.68 0.09 0.24
Matches are distributed among these distances:
9 7 0.07
10 1 0.01
11 5 0.05
12 39 0.41
13 25 0.27
14 5 0.05
15 1 0.01
16 8 0.09
17 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:28201129 original size:41 final size:38
Alignment explanation
Indices: 28201073--28201185 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 38
28201063 CATAGCCTAC
*
28201073 ATAACTTAGATAACTTACATAATACACCACTTACATAA
1 ATAACTTAAATAACTTACATAATACACCACTTACATAA
28201111 ATAACTTGCATAATAACTTACATAATACACCACTTAC----
1 ATAACTT--A-AATAACTTACATAATACACCACTTACATAA
**
28201148 ATAACTTAAATAACTTACATAATACATAACTTACATAA
1 ATAACTTAAATAACTTACATAATACACCACTTACATAA
28201186 CTTACATAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
34 24 0.37
35 1 0.02
37 7 0.11
38 7 0.11
40 1 0.02
41 25 0.38
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (38 bp):
ATAACTTAAATAACTTACATAATACACCACTTACATAA
Found at i:28201136 original size:75 final size:75
Alignment explanation
Indices: 28201045--28201185 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
28201035 ACATAACAAT
* * * *
28201045 ATAACAACTTAGATAATACA-TAGCCTACATAACTTAGATAACTTACATAATACACCACTTACAT
1 ATAACAACTTACATAATACACCA-CCTACATAACTTAAATAACTTACATAATACACAACTTACAT
28201109 AAATAACTTGC
65 AAATAACTTGC
* * *
28201120 ATAATAACTTACATAATACACCACTTACATAACTTAAATAACTTACATAATACATAACTTACATA
1 ATAACAACTTACATAATACACCACCTACATAACTTAAATAACTTACATAATACACAACTTACATA
28201185 A
66 A
28201186 CTTACATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 57 0.98
76 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.29
Consensus pattern (75 bp):
ATAACAACTTACATAATACACCACCTACATAACTTAAATAACTTACATAATACACAACTTACATA
AATAACTTGC
Found at i:28201205 original size:75 final size:75
Alignment explanation
Indices: 28201070--28201210 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
28201060 ATACATAGCC
* * * *
28201070 TACATAACTTAGATAACTTACATAATACACCACTTACATAAATAACTTGCATAATAACTTACATA
1 TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATAATAACTTACATA
28201135 ATACACCACT
66 ATACACCACT
* * * *
28201145 TACATAACTTAAATAACTTACATAATACATAACTTACATAACTTACAT-AATACATTACTTACAT
1 TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATA-ATAACTTACAT
28201209 AA
65 AA
28201211 CTTACACTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 3 0.05
75 54 0.95
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (75 bp):
TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATAATAACTTACATA
ATACACCACT
Found at i:28201215 original size:34 final size:33
Alignment explanation
Indices: 28201050--28201216 Score: 121
Period size: 34 Copynumber: 5.0 Consensus size: 33
28201040 ACAATATAAC
* * *
28201050 AACTTAGATAATACATAGCCTACATAACTTAGAT
1 AACTTACATAATACATA-CTTACATAACTTACAT
*
28201084 AACTTACATAATACACCACTTACAT-A---A-AT
1 AACTTACATAATACA-TACTTACATAACTTACAT
* * **
28201113 AACTTGCATAATAACTTACATAATACACCACTTACAT
1 AACTTACATAAT-ACATAC-T--TACATAACTTACAT
* *
28201150 AACTTAAATAACTTACATA-ATACATAACTTACAT
1 AACTTACATAA--TACATACTTACATAACTTACAT
28201184 AACTTACATAATACATTACTTACATAACTTACA
1 AACTTACATAATACA-TACTTACATAACTTACA
28201217 CTATACACAA
Statistics
Matches: 104, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
29 15 0.14
30 4 0.04
32 8 0.08
33 4 0.04
34 55 0.53
35 1 0.01
36 1 0.01
37 11 0.11
38 4 0.04
39 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (33 bp):
AACTTACATAATACATACTTACATAACTTACAT
Found at i:28201239 original size:30 final size:29
Alignment explanation
Indices: 28201113--28201309 Score: 112
Period size: 30 Copynumber: 6.8 Consensus size: 29
28201103 TTACATAAAT
* *
28201113 AACTTGCATA-ATAACTTACATAATACAC
1 AACTTACATACATAACTTACATTATACAC
* * *
28201141 CACTTACATAACTTAAATAACTTACATAATACAT
1 AACTTACAT-AC----ATAACTTACATTATACAC
*
28201175 AAC-T---TACATAACTTACA-TA-ATAC
1 AACTTACATACATAACTTACATTATACAC
* *
28201198 -A-TTACTTACATAACTTACACTATACAC
1 AACTTACATACATAACTTACATTATACAC
*
28201225 AACTTACATAACATAA-TTAATATTATACAC
1 AACTTACAT-ACATAACTT-ACATTATACAC
*
28201255 AACTTACAGCCTATATAACTTACATTATACAC
1 AACTTACA---TACATAACTTACATTATACAC
*
28201287 AACTTA-ATTACATAATTTA-ATTA
1 AACTTACA-TACATAACTTACATTA
28201310 AAACTTTACA
Statistics
Matches: 133, Mismatches: 16, Indels: 40
0.70 0.08 0.21
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 1 0.01
25 23 0.17
26 2 0.02
27 3 0.02
28 12 0.09
29 19 0.14
30 24 0.18
31 1 0.01
32 21 0.16
33 4 0.03
34 19 0.14
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (29 bp):
AACTTACATACATAACTTACATTATACAC
Found at i:28201339 original size:66 final size:62
Alignment explanation
Indices: 28201204--28201363 Score: 164
Period size: 66 Copynumber: 2.5 Consensus size: 62
28201194 ATACATTACT
* **
28201204 TACATAACTTACACTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGCC
1 TACATAACTTACATTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGAA
* * *
28201266 TATATAACTTACATTATACACAACTTA-ATTACATAATTTAATTAAAACTT-TACATAACTTACA
1 TACATAACTTACATTATACACAACTTACATAACATAA-TTAA-T---A-TTATACACAACTTACA
*
28201329 TAA
60 GAA
*
28201332 TACATAACTTTA-ATAATACACAACTTACATAA
1 TACATAAC-TTACATTATACACAACTTACATAA
28201364 TTACATTATA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
61 8 0.10
62 29 0.36
63 1 0.01
66 34 0.43
67 8 0.10
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (62 bp):
TACATAACTTACATTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGAA
Found at i:28203257 original size:66 final size:66
Alignment explanation
Indices: 28203117--28203263 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
28203107 AGCCAGCATC
*
28203117 GAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAG
1 GAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAA
28203182 T
66 T
* * * *
28203183 GAGAGAAGTTGAGGTTCAAAGGAAG-TATGAAGAACTCCAGCTGCAGCTTAAAGTAGCAT-CAGC
1 GAGAGAAGTTGAGGTTCAAA-AAAGATATGAAGAACTCCAGCTACAACTTAAAGTAG-ATGCACC
28203246 AAT
64 AAT
* *
28203249 GAGGGAAGTAGAGGT
1 GAGAGAAGTTGAGGT
28203264 AGTAGCGAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 67 0.93
67 5 0.07
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (66 bp):
GAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAA
T
Found at i:28203769 original size:150 final size:150
Alignment explanation
Indices: 28203497--28203785 Score: 569
Period size: 150 Copynumber: 1.9 Consensus size: 150
28203487 AGATTTATTG
28203497 CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
1 CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
*
28203562 ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGTTAAAAGTCATGG
66 ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCATGG
28203627 CCTTTAGCGAAAGTCATGGC
131 CCTTTAGCGAAAGTCATGGC
28203647 CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
1 CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
28203712 ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCATGG
66 ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCATGG
28203777 CCTTTAGCG
131 CCTTTAGCG
28203786 GTGTTTTTGG
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.38
Consensus pattern (150 bp):
CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCATGG
CCTTTAGCGAAAGTCATGGC
Found at i:28203811 original size:43 final size:43
Alignment explanation
Indices: 28203754--28204050 Score: 346
Period size: 43 Copynumber: 6.9 Consensus size: 43
28203744 CGTTTTTTAA
* * * * * *
28203754 AAAAGTGCCGCTAAAAGTCATGGCCTTTAGCGGTGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
* * *
28203797 AAAAGCGCCACTAAAGGTCATGGTATATATAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGG--TCTATAGCGGCGTTTGTGGG
*
28203842 AAAAGCGCTGCTAAAGGTCATGGTCTATAGCGGCGATTT-TGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCG-TTTGTGGG
* * ** **
28203885 AAAAGCGCCGCTAAAGATCATGGTATATAGCGGCGTTTCAGTA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
*
28203928 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
*
28203971 AAAAGCACCGCTAAAGGTCATGGTCTATAGCGGCGTTTGT-GG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
* * ** *
28204013 AGAAGCGCCTCTAAAGGTCATGACCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
28204051 ATTTCTAAAA
Statistics
Matches: 220, Mismatches: 30, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
42 36 0.16
43 144 0.65
44 3 0.01
45 37 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
Found at i:28205361 original size:17 final size:17
Alignment explanation
Indices: 28205303--28205363 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
28205293 GCTCTCCTAC
*
28205303 TATATTAAATAATGTTATA
1 TATATT-AATAGT-TTATA
* *
28205322 TCATATCATATAGTATATAA
1 T-ATATTA-ATAGTTTAT-A
28205342 TATATTAATAGTTTATA
1 TATATTAATAGTTTATA
28205359 TATAT
1 TATAT
28205364 GTATCAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 10 0.29
20 10 0.29
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (17 bp):
TATATTAATAGTTTATA
Found at i:28205659 original size:232 final size:233
Alignment explanation
Indices: 28205193--28205666 Score: 635
Period size: 239 Copynumber: 2.0 Consensus size: 233
28205183 AATAGTAAAG
* * * * *
28205193 TAGTATATAATATATTAATTAGTACCATATATTATTGTTTATTATTATATTGGTTGAAATATGTT
1 TAGTACATAATATATTAATTAGTACCATATATTATTATTTATTATTATACTAGTTGAAATATGAT
* * *
28205258 ATAAATCCCTATATTTTTCATATATTTGAAAGTTAGCTCTCCTACTATATTAAATAATGTTATAT
66 ATAAATCCCTATACTTTTCATACATTTGAAAGTTAGCCCTCCTACTATATTAAATAATGTTATAT
* **
28205323 CATATCATATAGTATATAATATATTAATAGTTTATATATATGTATCAATGATTAAACATTATAAT
131 CATATC----A--ATATAATATATTAATAGTTTACATATATACATCAATGATTAAACATTATAAT
* * *
28205388 ATCATGTAATATTATATAATTTATTATAATCTATATTATAATAA
190 ATCATGTAATACTATATAATTTATGATAATATATATTATAATAA
* * * *
28205432 TAGTACATTATATATTACTTATTATCATATATTATTATTTATTATTATACTAGTTGAAATATGAT
1 TAGTACATAATATATTAATTAGTACCATATATTATTATTTATTATTATACTAGTTGAAATATGAT
* * * * * * *
28205497 CTAATTCTCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTATTATATTATATAATGTTGTAT
66 ATAAATCCCTATACTTTTCATACATTTGAAAGTTAGCCCTCCTACTATATTAAATAATGTTATAT
*
28205562 CATATC-ATATAATATATTAATAGTTTACATATATACATCAATGATTAAATATTATAATATCATG
131 CATATCAATATAATATATTAATAGTTTACATATATACATCAATGATTAAACATTATAATATCATG
**
28205626 TAATACTATATCTTTTATGATAATATATATTATAATAA
196 TAATACTATATAATTTATGATAATATATATTATAATAA
28205664 TAG
1 TAG
28205667 GTATATATGT
Statistics
Matches: 207, Mismatches: 28, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
232 90 0.43
239 117 0.57
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (233 bp):
TAGTACATAATATATTAATTAGTACCATATATTATTATTTATTATTATACTAGTTGAAATATGAT
ATAAATCCCTATACTTTTCATACATTTGAAAGTTAGCCCTCCTACTATATTAAATAATGTTATAT
CATATCAATATAATATATTAATAGTTTACATATATACATCAATGATTAAACATTATAATATCATG
TAATACTATATAATTTATGATAATATATATTATAATAA
Found at i:28208416 original size:24 final size:25
Alignment explanation
Indices: 28208363--28208416 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
28208353 TTTCTAATAT
* *
28208363 TATTTTAATATTTTGCTTAATTCTA
1 TATTTTAATATTTTGCTTAAGTATA
28208388 T-TTTTAA-A-TTTGCTTATAGTATA
1 TATTTTAATATTTTGCTTA-AGTATA
28208411 TATTTT
1 TATTTT
28208417 TTAGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 6 0.24
24 10 0.40
25 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (25 bp):
TATTTTAATATTTTGCTTAAGTATA
Found at i:28212989 original size:17 final size:17
Alignment explanation
Indices: 28212964--28213000 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
28212954 AATTTAAAAT
*
28212964 AACTATTATTCAAGAAC
1 AACTATTATCCAAGAAC
*
28212981 AACTGTTATCCAAGAAC
1 AACTATTATCCAAGAAC
28212998 AAC
1 AAC
28213001 CATCGTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (17 bp):
AACTATTATCCAAGAAC
Found at i:28213756 original size:26 final size:27
Alignment explanation
Indices: 28213718--28213774 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
28213708 CTTAGTTTTA
*
28213718 TTTAATTTAGGCTATTCTTTA-TATAAT
1 TTTAATTTAGGCTATTC-ATACTATAAT
*
28213745 TTTAATTT-GGCTTTTCATACTATAAT
1 TTTAATTTAGGCTATTCATACTATAAT
28213771 TTTA
1 TTTA
28213775 GATTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.63
27 8 0.30
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTAATTTAGGCTATTCATACTATAAT
Found at i:28223290 original size:19 final size:20
Alignment explanation
Indices: 28223266--28223313 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
28223256 TTTTAATAAT
28223266 AATAAATAGAAAAGAAAT-A
1 AATAAATAGAAAAGAAATCA
**
28223285 AATAAATA-CCAAGAAATCA
1 AATAAATAGAAAAGAAATCA
28223304 AAT-AATAGAA
1 AATAAATAGAA
28223314 GCTGTCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (20 bp):
AATAAATAGAAAAGAAATCA
Found at i:28246757 original size:20 final size:23
Alignment explanation
Indices: 28246728--28246772 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
28246718 TTGTTTGCAC
28246728 TTAAGTACATTTT-GTT-GCATT
1 TTAAGTACATTTTAGTTAGCATT
28246749 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACATTTTAGTTAGCATT
28246771 TT
1 TT
28246773 TAATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (23 bp):
TTAAGTACATTTTAGTTAGCATT
Found at i:28272853 original size:30 final size:30
Alignment explanation
Indices: 28272819--28272878 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
28272809 TAATGATTTG
28272819 GTACTGAATTTTGACGAATCTCAATTTCCA
1 GTACTGAATTTTGACGAATCTCAATTTCCA
*
28272849 GTACTGAATTTTGACGAATCTCGATTTCCA
1 GTACTGAATTTTGACGAATCTCAATTTCCA
28272879 ACTAAGTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (30 bp):
GTACTGAATTTTGACGAATCTCAATTTCCA
Found at i:28274530 original size:16 final size:16
Alignment explanation
Indices: 28274509--28274539 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28274499 AAACATCATA
*
28274509 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
28274525 AATTAAATAATTTTC
1 AATTAAATAATTTTC
28274540 TTAACCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:28276290 original size:261 final size:261
Alignment explanation
Indices: 28275821--28276347 Score: 1000
Period size: 261 Copynumber: 2.0 Consensus size: 261
28275811 CCAACCCATT
28275821 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
1 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
*
28275886 GGTCGACCATAGAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
66 GGTCGACCATAAAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
28275951 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
131 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
* *
28276016 AGTTCACATTCTCTCATCTCCTTTCCTCTCCTTTTCACACAAAAAGCCATTCATTCTCCCCATTC
196 AGTTCACATTCTCTCATCTCCTTTCCTCTCATTTTCACACAAAAAACCATTCATTCTCCCCATTC
28276081 C
261 C
*
28276082 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTTAACCATACATCCCACAATTCCT
1 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
28276147 GGTCGACCATAAAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
66 GGTCGACCATAAAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
28276212 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
131 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
* *
28276277 AGTTCATATTCTCTCATCTCCTTTCCTCTCATTTTTACACAAAAAACCATTCATTCTCCCCATTC
196 AGTTCACATTCTCTCATCTCCTTTCCTCTCATTTTCACACAAAAAACCATTCATTCTCCCCATTC
28276342 C
261 C
28276343 CCATA
1 CCATA
28276348 GCTAGCAATA
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 260 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (261 bp):
CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
GGTCGACCATAAAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
AGTTCACATTCTCTCATCTCCTTTCCTCTCATTTTCACACAAAAAACCATTCATTCTCCCCATTC
C
Found at i:28284410 original size:36 final size:36
Alignment explanation
Indices: 28284363--28284436 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
28284353 AAGAATTCTC
28284363 TCCTCGGGAAGTCATTTCCCGGCTATTTATAGCCTT
1 TCCTCGGGAAGTCATTTCCCGGCTATTTATAGCCTT
28284399 TCCTCGGGAAGTCATTTCCCGGCTATTTATAGCCTT
1 TCCTCGGGAAGTCATTTCCCGGCTATTTATAGCCTT
28284435 TC
1 TC
28284437 TCTCACGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.36
Consensus pattern (36 bp):
TCCTCGGGAAGTCATTTCCCGGCTATTTATAGCCTT
Found at i:28287731 original size:24 final size:24
Alignment explanation
Indices: 28287704--28287750 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
28287694 AGTCCTTACA
28287704 AACCCTAAACAAAAACCCTTAAAG
1 AACCCTAAACAAAAACCCTTAAAG
* *
28287728 AACCCTAAACCATAACCCTTAAA
1 AACCCTAAACAAAAACCCTTAAA
28287751 AGCCTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (24 bp):
AACCCTAAACAAAAACCCTTAAAG
Found at i:28289778 original size:6 final size:6
Alignment explanation
Indices: 28289769--28289802 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
28289759 GTAAGATAAG
28289769 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
28289803 GTGCTTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:28290456 original size:3 final size:3
Alignment explanation
Indices: 28290448--28290478 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
28290438 TGCCTATGGC
28290448 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
28290479 AGGAAAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:28292341 original size:61 final size:62
Alignment explanation
Indices: 28292229--28292351 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 62
28292219 TTTTTAAAAA
* * * * * ** *
28292229 TTTTAGAATTAGGACTAAATTGATAGATTTTGTGAATGTTGAGGGTCAAATTTATT-AATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGGCTCAAATTTATTGAATTT
*
28292290 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGTGCT-AAATTTGTTGAATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAG-GCTCAAATTTATTGAATTT
28292352 GAATGTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
61 44 0.86
62 7 0.14
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (62 bp):
TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGGCTCAAATTTATTGAATTT
Found at i:28294125 original size:13 final size:13
Alignment explanation
Indices: 28294109--28294138 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28294099 CTTTTACCTT
*
28294109 TTAATTTTCTTAG
1 TTAATTTACTTAG
28294122 TTAATTTACTTAG
1 TTAATTTACTTAG
28294135 TTAA
1 TTAA
28294139 AATCTAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:28302854 original size:24 final size:27
Alignment explanation
Indices: 28302815--28302868 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
28302805 TTCTCCTAAA
28302815 TTTCAAATTTATTTG-ATTATTTAAT-T
1 TTTCAAATTTATTTGAATTA-TTAATAT
28302841 TTTC-AATTTA-TTGAATTATTAATAT
1 TTTCAAATTTATTTGAATTATTAATAT
28302866 TTT
1 TTT
28302869 ATGCAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTCAAATTTATTTGAATTATTAATAT
Found at i:28305163 original size:21 final size:22
Alignment explanation
Indices: 28305119--28305165 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
28305109 AAATTTAGTA
*
28305119 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
28305141 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
28305162 TATT
1 TATT
28305166 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:28312740 original size:88 final size:88
Alignment explanation
Indices: 28312524--28313140 Score: 887
Period size: 88 Copynumber: 7.0 Consensus size: 88
28312514 AACAGATCAG
* * *
28312524 TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
28312588 CCATTGGTTGCAGTGGAGCTA-GT
66 CCCTCGGTTGTAGTGGAGC-AGGT
* *
28312611 TGAAGATAGCAGATCTTGCCTTCCTACATCAACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
28312676 CTCTCGGTCGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
28312699 TGAAGATAGCAGATCTTGCCTTCCTGCACCGATAGCAAAGCAGATCGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
28312764 CCATCGGTTGCAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
28312787 TGAAGATAGCAGATCTTGCCTTCCTGCATCAACAGTGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
28312852 CCCTTGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
28312875 TGAAGATAGCAAATCTTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
28312940 CCCTCGGTTGTAATGGAACAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
28312963 TGAAGATAGTAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCGAAGATACAAGCCTTGCCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
28313028 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
28313051 TGAAGATAACAGATCTTGCTTTCCTGCATCGACAGTGAAGCAGATCGAAGGCACAATCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
28313116 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
28313139 TG
1 TG
28313141 GAAACTACAA
Statistics
Matches: 470, Mismatches: 58, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
87 51 0.11
88 419 0.89
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:28313517 original size:18 final size:17
Alignment explanation
Indices: 28313491--28313524 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
28313481 GCGCCACGCT
28313491 CCTCCCACGCGCGCCTG
1 CCTCCCACGCGCGCCTG
*
28313508 CCTCCTCACGTGCGCCT
1 CCTCC-CACGCGCGCCT
28313525 CCGTACCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.56, G:0.21, T:0.18
Consensus pattern (17 bp):
CCTCCCACGCGCGCCTG
Found at i:28314575 original size:21 final size:22
Alignment explanation
Indices: 28314531--28314577 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
28314521 AAATTTAGTA
*
28314531 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
28314553 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
28314574 TATT
1 TATT
28314578 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:28319805 original size:14 final size:14
Alignment explanation
Indices: 28319777--28319810 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
28319767 ACATGTTTCA
*
28319777 TAATT-ATTTTCTT
1 TAATTAATTTTATT
28319790 TAATTAATTTTATT
1 TAATTAATTTTATT
28319804 TAATTAA
1 TAATTAA
28319811 GAGATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATTAATTTTATT
Found at i:28323691 original size:44 final size:44
Alignment explanation
Indices: 28323625--28323712 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
28323615 AAAGTTCAGG
*
28323625 TAAAAGCATAATAAACAGATTCAGGTGAGTTGTAAGGGTTAAGA
1 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
28323669 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
1 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
28323713 ATATCTCAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (44 bp):
TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
Found at i:28324352 original size:101 final size:101
Alignment explanation
Indices: 28324239--28324441 Score: 370
Period size: 101 Copynumber: 2.0 Consensus size: 101
28324229 AAAATCACCA
*
28324239 AAAATAGTAGAAATGGAATTAAAGAGTGAATGAGATATAAAATTAAATCTTATCGAGTCTATTTT
1 AAAATAGTAGAAATGGAATTAAAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
28324304 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
66 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
* *
28324340 AAAATAGTAGAAATGGGATTAGAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
1 AAAATAGTAGAAATGGAATTAAAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
*
28324405 CACATGAAAGAAACGATGTAGGCAAATGAATTATAT
66 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
28324441 A
1 A
28324442 TTATGAGATA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (101 bp):
AAAATAGTAGAAATGGAATTAAAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
Found at i:28331661 original size:25 final size:25
Alignment explanation
Indices: 28331624--28331671 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
28331614 ATGTGACTCT
*
28331624 GTATGTTTTCTTTGTGGCATATTTA
1 GTATGTTTCCTTTGTGGCATATTTA
28331649 GTATGTTTCCTTTGTGGCATATT
1 GTATGTTTCCTTTGTGGCATATT
28331672 CTATTTAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (25 bp):
GTATGTTTCCTTTGTGGCATATTTA
Found at i:28335144 original size:27 final size:26
Alignment explanation
Indices: 28335127--28335196 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
28335117 ATATTAAGTC
28335127 CGCACACTGAGTGCTATATAATCAACT
1 CGCACACTGAGTGCTATAT-ATCAACT
*
28335154 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTGAGTGCTATAT-ATC-AACT
*
28335182 CGCACACTTAGTGCT
1 CGCACACTGAGTGCT
28335197 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (26 bp):
CGCACACTGAGTGCTATATATCAACT
Found at i:28335219 original size:29 final size:29
Alignment explanation
Indices: 28335154--28335253 Score: 157
Period size: 29 Copynumber: 3.5 Consensus size: 29
28335144 ATAATCAACT
* * * *
28335154 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTGTACAATTTAAACC
28335182 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTGTACAATTTAAACC
28335211 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTGTACAATTTAAACC
28335240 CGCACACTTAGTGC
1 CGCACACTTAGTGC
28335254 CAATCTCATG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 19 0.28
29 48 0.72
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTGTACAATTTAAACC
Found at i:28341931 original size:12 final size:12
Alignment explanation
Indices: 28341903--28341931 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
28341893 TATATCTATA
28341903 TGGTAGAATTTT
1 TGGTAGAATTTT
28341915 T-GTAGAATTTT
1 TGGTAGAATTTT
28341926 TGGTAG
1 TGGTAG
28341932 GGCCAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:28343183 original size:29 final size:27
Alignment explanation
Indices: 28343165--28343234 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
28343155 ATATTAAGTC
28343165 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
28343192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
28343220 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
28343235 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:28343228 original size:28 final size:28
Alignment explanation
Indices: 28343165--28343262 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
28343155 ATATTAAGTC
*
28343165 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
28343192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
28343220 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
28343249 CGCACACTTAGTGC
1 CGCACACTTAGTGC
28343263 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28345963 original size:14 final size:14
Alignment explanation
Indices: 28345944--28345973 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28345934 TTTCATCCAA
*
28345944 ATTCACATATTCAC
1 ATTCACATATGCAC
28345958 ATTCACATATGCAC
1 ATTCACATATGCAC
28345972 AT
1 AT
28345974 AATTCAAAAG
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:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (14 bp):
ATTCACATATGCAC
Found at i:28356638 original size:46 final size:45
Alignment explanation
Indices: 28356567--28356801 Score: 224
Period size: 46 Copynumber: 5.6 Consensus size: 45
28356557 TTTGAGTACT
* * *
28356567 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGATAGC-TTAGCTACACTTA
*
28356613 TCTAATCAAGTGAAAAAGTG---A-T-A-AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGATAGCTTAGCTACACTTA
* *
28356649 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGATAGC-TTAGCTACACTTA
28356695 TCTGATCAAGTGAAAAAGTGATAA--G-T-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGATAGCTTAGCTACACTTA
*
28356731 T-TGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGATAGCTTAGCTACACTTA
* *
28356775 TCTGATC-AGGGACAAA-TGATAAGTGAT
1 TCTGATCAAGTGAAAAAGTGATAAGTGAT
28356802 CATACGTAAG
Statistics
Matches: 158, Mismatches: 11, Indels: 43
0.75 0.05 0.20
Matches are distributed among these distances:
35 21 0.13
36 33 0.21
37 2 0.01
38 2 0.01
39 3 0.02
40 7 0.04
41 1 0.01
42 6 0.04
43 13 0.08
44 15 0.09
45 6 0.04
46 49 0.31
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGATAGCTTAGCTACACTTA
Found at i:28356644 original size:36 final size:36
Alignment explanation
Indices: 28356603--28356756 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
28356593 GGTAGCTTTA
*
28356603 GCTACACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
28356639 GCTACACTTATCTGATCAAGAGATAAAGTGATAAGTGATAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTG---A-T-A-AG---T
28356684 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
28356721 GCTATACTTAT-TGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
28356756 G
1 G
28356757 ATAGCTTAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 21
0.78 0.05 0.16
Matches are distributed among these distances:
35 24 0.24
36 37 0.37
37 1 0.01
39 1 0.01
40 3 0.03
41 2 0.02
42 3 0.03
43 1 0.01
45 1 0.01
46 28 0.28
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:28356704 original size:82 final size:82
Alignment explanation
Indices: 28356567--28356799 Score: 375
Period size: 82 Copynumber: 2.9 Consensus size: 82
28356557 TTTGAGTACT
* *
28356567 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
1 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
28356632 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
28356649 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
28356714 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * *
28356731 T-TGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATC-AGGGACAAA-T
1 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
28356792 GATAAGTG
66 GATAAGTG
28356800 ATCATACGTA
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
78 9 0.06
79 7 0.05
80 20 0.14
81 28 0.19
82 80 0.56
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:28356739 original size:35 final size:36
Alignment explanation
Indices: 28356685--28356756 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
28356675 GATAGCTTTA
28356685 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
28356721 GCTATACTTAT-TGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
28356756 G
1 G
28356757 ATAGCTTAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 24 0.71
36 10 0.29
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:28364228 original size:46 final size:45
Alignment explanation
Indices: 28364161--28364394 Score: 213
Period size: 36 Copynumber: 5.6 Consensus size: 45
28364151 TTTGAGTACT
* *
28364161 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
28364207 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
28364243 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
28364289 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
28364325 TCCGATCAAGTGACAAAA-TGATAAGTGATAGCTTAGCTACACTTA
1 TCTGATCAAGTGA-AAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
28364370 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
28364395 ATCATACATA
Statistics
Matches: 157, Mismatches: 11, Indels: 43
0.74 0.05 0.20
Matches are distributed among these distances:
36 53 0.34
37 6 0.04
38 1 0.01
39 1 0.01
40 6 0.04
41 2 0.01
42 4 0.03
43 15 0.10
44 4 0.03
45 13 0.08
46 52 0.33
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:28364298 original size:82 final size:82
Alignment explanation
Indices: 28364161--28364394 Score: 366
Period size: 82 Copynumber: 2.9 Consensus size: 82
28364151 TTTGAGTACT
*
28364161 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
28364226 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
28364243 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
28364308 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * * * *
28364325 TCCGATCAAGTGACAAAATGATAAGTGATAGC-TTAGCTACACTTATCTGATC-AGGGACAAA-T
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
28364387 GATAAGTG
66 GATAAGTG
28364395 ATCATACATA
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 9 0.06
80 7 0.05
81 20 0.14
82 106 0.75
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:28368441 original size:43 final size:42
Alignment explanation
Indices: 28368294--28368452 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 42
28368284 TATGATTTAT
*
28368294 CATGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-AGA-TTA
* * * *
28368338 CGTGTAACACCAAGTCTGGGACA-TCGGCATCG-TA-TACGATTT
1 CATGTAAGACCACGTCTGGGA-AGT-GGCATCGATATTA-GATTA
*
28368380 CATGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTAGATTA
* *
28368423 CATGTAAGGCCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGAAG-TGGCAT
28368453 TGTAAGAGCT
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
42 29 0.32
43 36 0.39
44 27 0.29
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGAAGTGGCATCGATATTAGATTA
Found at i:28369420 original size:31 final size:31
Alignment explanation
Indices: 28369385--28369445 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
28369375 TATAGGCTAT
*
28369385 TTTTGATATATTGGTTTTAGAATTTGTGTAG
1 TTTTGATATACTGGTTTTAGAATTTGTGTAG
28369416 TTTTGATATACTGGTTTTAGAATTTGTGTA
1 TTTTGATATACTGGTTTTAGAATTTGTGTA
28369446 TATATATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (31 bp):
TTTTGATATACTGGTTTTAGAATTTGTGTAG
Found at i:28370762 original size:21 final size:22
Alignment explanation
Indices: 28370721--28370766 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
28370711 TTTTACACTC
*
28370721 AAACTAATATAAATAAGGCATGA
1 AAACTAATATAAATAAAGCAT-A
28370744 AAACT-ATAT-AATAAAGCATA
1 AAACTAATATAAATAAAGCATA
28370764 AAA
1 AAA
28370767 TCACATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 4 0.18
23 5 0.23
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (22 bp):
AAACTAATATAAATAAAGCATA
Found at i:28371633 original size:12 final size:12
Alignment explanation
Indices: 28371616--28371651 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
28371606 CTCAATCCAC
*
28371616 CATTTCATATTT
1 CATTTCACATTT
28371628 CATTTCACATTT
1 CATTTCACATTT
28371640 CATTTC-CATTT
1 CATTTCACATTT
28371651 C
1 C
28371652 TCATAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (12 bp):
CATTTCACATTT
Found at i:28374327 original size:16 final size:16
Alignment explanation
Indices: 28374306--28374336 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
28374296 TCTAAAAGTT
28374306 AAAAAAAT-ATTTTTA
1 AAAAAAATCATTTTTA
28374321 AAAAAAATCATTTTTA
1 AAAAAAATCATTTTTA
28374337 GCCCTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAAATCATTTTTA
Found at i:28377006 original size:15 final size:16
Alignment explanation
Indices: 28376986--28377015 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
28376976 GGCATCGACC
28376986 TCATATAAA-TATAAA
1 TCATATAAACTATAAA
28377001 TCATATAAACTATAA
1 TCATATAAACTATAA
28377016 TACGCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
TCATATAAACTATAAA
Found at i:28378498 original size:21 final size:20
Alignment explanation
Indices: 28378465--28378508 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
28378455 AAATTTTTAT
*
28378465 AAAATTCTAAAATTTCTAAAA
1 AAAAATCTAAAA-TTCTAAAA
*
28378486 AAAAATCTTAAATTCTAAAA
1 AAAAATCTAAAATTCTAAAA
28378506 AAA
1 AAA
28378509 TGAGCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATCTAAAATTCTAAAA
Found at i:28380285 original size:2 final size:2
Alignment explanation
Indices: 28380278--28380307 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28380268 TATTTAGCAT
28380278 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
28380308 TTTTGCTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28384012 original size:20 final size:20
Alignment explanation
Indices: 28383970--28384013 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
28383960 TTCTGATATT
* *
28383970 ATTTGATTCCAATCAATTTG
1 ATTTGATTCCAATCAAATGG
**
28383990 ATTTGATTTTAATCAAATGG
1 ATTTGATTCCAATCAAATGG
28384010 ATTT
1 ATTT
28384014 AATTGCTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (20 bp):
ATTTGATTCCAATCAAATGG
Found at i:28384759 original size:86 final size:87
Alignment explanation
Indices: 28384620--28385199 Score: 569
Period size: 86 Copynumber: 6.7 Consensus size: 87
28384610 GAAAATAAAA
* * *
28384620 AAATTAAAATTAAATAAAATCTATTTC-AGGAATTTATTCCCACCGTTCAACAGATTTTATTCCA
1 AAATTAAAATTAAATAAAATCTGTTTCGA-G-ATTTATTCCCTCCGTTTAACAGATTTTATTCCA
28384684 TTTTTTATTTTGTTTCCAAACGAG
64 TTTTTTATTTTGTTTCCAAACGAG
* * * * * *
28384708 -TACTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCTGCTCAACAGATTTTATT-CTTT
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCATT
*
28384771 TTTATATTTTATTTCCAAACGAG
66 TTT-TATTTTGTTTCCAAACGAG
* * * *
28384794 -TATTAAAATTAAATAAAATATGTTTCGGGATTTATT-CCTGCCGTTCAACAGATTTTATTCCAT
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCT-CCGTTTAACAGATTTTATTCCAT
*
28384857 TTTTTATTTTGTTGCCAAACGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * *
28384880 AAATTAAAAATTAAATAAAATCTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATTACAT
1 AAATT-AAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCAT
* *
28384945 TTTTTATTTTGTTGCCAAATGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * * *
28384968 AAATTATAATTAAAATTGAATAATCTGTTTCGGGATTTATTCCAGT-CGTTTAACATATTTTATT
1 AAATTAAAATT-AAA-T-AA-AATCTGTTTCGAGATTTATTCC-CTCCGTTTAACAGATTTTATT
* * * **
28385032 CGA-TTTTAAATTTGTTTCCAAAATAG
61 CCATTTTTTATTTTGTTTCCAAACGAG
* * * *
28385058 -AATT-AAATTGAAT-AATTCTGTTTCGAGATTTA-TCCCTGTCGTTTAACAGATTTTATTCGA-
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCT-CCGTTTAACAGATTTTATTCCAT
**
28385118 TTTCGATTTTGTTTCCAAACGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * * * * *
28385141 AAGACTT--AATCAAAT-AATTCTGTTTCGGGATTTATTCCCGCCGCTTAACAAATTTTATT
1 AA-A-TTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATT
28385200 TTCATTTTGT
Statistics
Matches: 419, Mismatches: 55, Indels: 39
0.82 0.11 0.08
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 54 0.13
84 2 0.00
85 50 0.12
86 119 0.28
87 40 0.10
88 85 0.20
89 7 0.02
90 20 0.05
91 38 0.09
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCATT
TTTTATTTTGTTTCCAAACGAG
Found at i:28385084 original size:174 final size:174
Alignment explanation
Indices: 28384620--28385199 Score: 598
Period size: 174 Copynumber: 3.4 Consensus size: 174
28384610 GAAAATAAAA
* * *
28384620 AAATTAAAATT-AAATAA-AATCTATTTCAGGAATTTATTCCCA-CCGTTCAACAGATTTTATTC
1 AAATTATAATTAAAATAATAATCTGTTTC-GGGATTTATT-CCAGCCGTTCAACAGATTTTATTC
* * *
28384682 CATTTTTTATTTTGTTTCCAAACGAGTACTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
64 CATTTTTTATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
* * * * * *
28384747 TCTGCTCAACAGATTTTATTCTTTTTTATATTTTATTTCCAAACGAG
129 ACCGTTTAACAGATTTTATTCATTTTT-TATTTTGTTTCCAAACGAG
* * * *
28384794 -TATTAAAATT-AAATAA-AATATGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTTATTCCA
1 AAATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTCCA
* *
28384856 TTTTTTATTTTGTTGCCAAACGAGAAATTAAAAATTAAATAAAATCTATTTCGAGATTTATTCCC
66 TTTTTTATTTTGTTTCCAAACGAGAAATT--AAATTAAATAAAATCTGTTTCGAGATTTATTCCC
* *
28384921 ACCGTTTAACAGATTTTATTACATTTTTTATTTTGTTGCCAAATGAG
129 ACCGTTTAACAGATTTTATT-CATTTTTTATTTTGTTTCCAAACGAG
* * *
28384968 AAATTATAATTAAAATTGAATAATCTGTTTCGGGATTTATTCCAGTCGTTTAACATATTTTATTC
1 AAATTATAATTAAAA-T-AATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTC
* * * ** * *
28385033 GA-TTTTAAATTTGTTTCCAAAATAG-AATTAAATTGAAT-AATTCTGTTTCGAGATTTA-TCCC
64 CATTTTTTATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
** **
28385094 TGTCGTTTAACAGATTTTATTCGA-TTTCGATTTTGTTTCCAAACGAG
129 -ACCGTTTAACAGATTTTATTC-ATTTTTTATTTTGTTTCCAAACGAG
* * * *
28385141 AAGACT-TAA-TCAAATAAT--TCTGTTTCGGGATTTATTCCCGCCGCTT-AACAAATTTTATT
1 AA-ATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCG-TTCAACAGATTTTATT
28385200 TTCATTTTGT
Statistics
Matches: 348, Mismatches: 45, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
168 35 0.10
169 2 0.01
170 3 0.01
171 3 0.01
172 60 0.17
173 52 0.15
174 103 0.30
175 22 0.06
176 3 0.01
177 5 0.01
178 20 0.06
179 40 0.11
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (174 bp):
AAATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTCCA
TTTTTTATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCCAC
CGTTTAACAGATTTTATTCATTTTTTATTTTGTTTCCAAACGAG
Found at i:28388526 original size:22 final size:22
Alignment explanation
Indices: 28388479--28388527 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
28388469 CTTACTTTTT
*
28388479 TTTAAAATATTAACTTCACTTG
1 TTTAAAATATTAACTTCACTTA
* *
28388501 TTTAAAATTTTGAAGTTCA-TTA
1 TTTAAAATATT-AACTTCACTTA
28388523 TTTAA
1 TTTAA
28388528 TGTTAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTAAAATATTAACTTCACTTA
Found at i:28393600 original size:1 final size:1
Alignment explanation
Indices: 28393594--28393626 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
28393584 ATCATACATT
28393594 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28393627 CAAACCTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:28396223 original size:18 final size:18
Alignment explanation
Indices: 28396200--28396235 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
28396190 CAACCATTAC
28396200 AACCCATTTGGATGCTCA
1 AACCCATTTGGATGCTCA
28396218 AACCCATTTGGATGCTCA
1 AACCCATTTGGATGCTCA
28396236 CAGTGAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
AACCCATTTGGATGCTCA
Found at i:28396909 original size:58 final size:60
Alignment explanation
Indices: 28396816--28396962 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 60
28396806 ATTTAGGGTT
* *
28396816 TTCAAGGACTAATTTGGACAAAGAAAAAAGGTTCAAG-CTCCAAAGTGGGAACAACTGCCAAG
1 TTCAAGGACTAACTTGGA-ACA-AAAAAAGGTTCAAGCCT-CAAAGTGGGAACAACTGCCAAG
* * * *
28396878 TTC-AGGACTAACTTGG-ATAAAAAAAGGTTCAAGCCTCAATGTTGGAACAATTGCCAAG
1 TTCAAGGACTAACTTGGAACAAAAAAAGGTTCAAGCCTCAAAGTGGGAACAACTGCCAAG
*
28396936 TTCAAGGCCTAACTTGGAACAAAAAAA
1 TTCAAGGACTAACTTGGAACAAAAAAA
28396963 AACTTTAAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
58 36 0.48
59 16 0.21
60 8 0.11
61 12 0.16
62 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (60 bp):
TTCAAGGACTAACTTGGAACAAAAAAAGGTTCAAGCCTCAAAGTGGGAACAACTGCCAAG
Found at i:28402196 original size:11 final size:12
Alignment explanation
Indices: 28402154--28402202 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
28402144 AATAAATACC
28402154 AAAAATTTATTTT
1 AAAAA-TTATTTT
*
28402167 AAAAATTA---A
1 AAAAATTATTTT
28402176 AAAAATTATTTT
1 AAAAATTATTTT
28402188 AAAAA-TATTTT
1 AAAAATTATTTT
28402199 AAAA
1 AAAA
28402203 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 10 0.32
12 8 0.26
13 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:28402205 original size:22 final size:21
Alignment explanation
Indices: 28402154--28402193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
28402144 AATAAATACC
*
28402154 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
28402175 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
28402194 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:28402208 original size:17 final size:17
Alignment explanation
Indices: 28402186--28402231 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
28402176 AAAAATTATT
*
28402186 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
28402203 TTAAAAA-AATTAAAAA
1 TTAAAAATATTTAAAAA
*
28402219 ATAAAAATATTTA
1 TTAAAAATATTTA
28402232 TTATATTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:28402598 original size:9 final size:9
Alignment explanation
Indices: 28402584--28402614 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
28402574 GTTAAACGAA
28402584 TCGAGTTAT
1 TCGAGTTAT
*
28402593 TCGAGTTAA
1 TCGAGTTAT
28402602 TCGAGTTAT
1 TCGAGTTAT
28402611 TCGA
1 TCGA
28402615 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:28402685 original size:9 final size:9
Alignment explanation
Indices: 28402668--28402704 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
28402658 TGAGTTTTCA
28402668 AATTCGAAT
1 AATTCGAAT
*
28402677 AACTCGAAT
1 AATTCGAAT
28402686 AATTCGAAT
1 AATTCGAAT
28402695 AATTCGAAT
1 AATTCGAAT
28402704 A
1 A
28402705 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:28417575 original size:22 final size:21
Alignment explanation
Indices: 28417550--28417593 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
28417540 TGATAAACTT
28417550 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
28417572 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
28417593 T
1 T
28417594 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:28423652 original size:18 final size:19
Alignment explanation
Indices: 28423616--28423654 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
28423606 TTCTATAAAT
28423616 ATTTTCTACAACAATTAAAAA
1 ATTTTCTACAAC-A-TAAAAA
28423637 ATTTTCTACAAC-TAAAAA
1 ATTTTCTACAACATAAAAA
28423655 TATTCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTTTCTACAACATAAAAA
Found at i:28441439 original size:34 final size:35
Alignment explanation
Indices: 28441384--28441450 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
28441374 TAAACACCAG
*
28441384 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
28441419 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
28441451 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:28442617 original size:20 final size:20
Alignment explanation
Indices: 28442594--28442651 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
28442584 ATTAACAAAC
28442594 TAAATTAAAATATTATTAAA
1 TAAATTAAAATATTATTAAA
*
28442614 TAAAATATAAAATA--AATAAA
1 T-AAAT-TAAAATATTATTAAA
28442634 TAAA-TAATAATATT-TTAA
1 TAAATTAA-AATATTATTAA
28442652 TATTTATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
17 3 0.10
18 4 0.13
19 6 0.19
20 7 0.23
21 4 0.13
22 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATTAAAATATTATTAAA
Found at i:28442931 original size:18 final size:17
Alignment explanation
Indices: 28442896--28442928 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
28442886 TATTTTTGTA
28442896 AAACAATATTTATAAAC
1 AAACAATATTTATAAAC
28442913 AAACATATATTT-TAAA
1 AAACA-ATATTTATAAA
28442929 ACATTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAACAATATTTATAAAC
Found at i:28444642 original size:17 final size:17
Alignment explanation
Indices: 28444606--28444652 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
28444596 AATTTAGAAC
*
28444606 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
*
28444622 AATTTTGTGATTTATTG
1 AATTTTGTGATTTAGTG
28444639 AATTTTGTGATTTA
1 AATTTTGTGATTTA
28444653 AAAAGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:28445582 original size:46 final size:46
Alignment explanation
Indices: 28445512--28445696 Score: 271
Period size: 46 Copynumber: 4.0 Consensus size: 46
28445502 CATGGCAAAG
*
28445512 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * * * * *
28445558 TGTGAAAAGCAGGTATGATGTTTCAGTGAAGAAAATCATATTGAAT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
28445604 TGTGACAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
28445650 TGTGAAAAGTAGGTATGGTATTTCTGTGAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
28445696 T
1 T
28445697 ATAGCAATGT
Statistics
Matches: 121, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:28452017 original size:21 final size:21
Alignment explanation
Indices: 28451993--28452033 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
28451983 ATCATATAAA
28451993 TTATAACTCATAATTATTTTT
1 TTATAACTCATAATTATTTTT
* **
28452014 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
28452034 CCAAAATCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATAACTCATAATTATTTTT
Found at i:28452528 original size:50 final size:50
Alignment explanation
Indices: 28452467--28452708 Score: 225
Period size: 50 Copynumber: 4.8 Consensus size: 50
28452457 TATCATTCGA
* * *
28452467 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
* * * *
28452517 TTCACGTAGTAGCCTGCACATGGTACTACACACGTGACCATTAA-TATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AACTTTCCGG
* * * * * * **
28452568 TACATGTAGTATCCTGCACATAGTATTACACACGTGATCGAAGCTATCTAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACTTTCCGG
* * * * * *** *
28452619 TACGCATAGTAGCCTGCATATAGTACTACACATGCGACCTTTCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
*
28452669 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
28452709 TCACTTTCAC
Statistics
Matches: 148, Mismatches: 40, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
50 75 0.51
51 69 0.47
52 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
Found at i:28452605 original size:101 final size:101
Alignment explanation
Indices: 28452464--28452705 Score: 290
Period size: 101 Copynumber: 2.4 Consensus size: 101
28452454 TATTATCATT
* * * * *
28452464 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACT-TTTCGGTTCACGTAGT
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCT-AGTACACATAGT
* *
28452527 AGCCTGCACATGGTACTACACACGTGACCATTAATATC
65 AGCCTGCACATAGTACTACACACGCGACCATTAAT-TC
* * * * * *
28452565 CGATACATGTAGTATCCTGCACATAGTATTACACACGTGATCGAAGCTATCTAGTACGCATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCTAGTACACATAGTA
* * * *
28452630 GCCTGCATATAGTACTACACATGCGACCTTTCATTC
66 GCCTGCACATAGTACTACACACGCGACCATTAATTC
*
28452666 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
28452706 CCATCACTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
101 75 0.64
102 41 0.35
103 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCTAGTACACATAGTA
GCCTGCACATAGTACTACACACGCGACCATTAATTC
Found at i:28452728 original size:101 final size:98
Alignment explanation
Indices: 28452459--28452743 Score: 277
Period size: 101 Copynumber: 2.8 Consensus size: 98
28452449 TTAACTATTA
* * * *
28452459 TCATT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTCACG
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAAC-TTTCAGTTCACA
* *
28452523 TAGTAGCCTGCACATGGTACTACACACGTGACCAT
64 TAGTAGCCTGCACATAGTACTACACACGCGACCAT
* * * * * * * * *
28452558 TAATATCCGATACATGTAGTATCCTGCACATAGTATTACACACGTGATCGAAGCTATCTAGTACG
1 TCAT-TCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAA-CTTTC-AGTTCA
* * *
28452623 CATAGTAGCCTGCATATAGTACTACACATGCGACCTT
62 CATAGTAGCCTGCACATAGTACTACACACGCGACCAT
* *
28452660 TCATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTCACTTTCAC
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--ACTTTCA-GTTCAC
*
28452725 ATAGT-GACCTACACATAGT
63 ATAGTAG-CCTGCACATAGT
28452744 CCATGTCACA
Statistics
Matches: 149, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
99 3 0.02
100 5 0.03
101 102 0.68
102 39 0.26
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (98 bp):
TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCAACTTTCAGTTCACATA
GTAGCCTGCACATAGTACTACACACGCGACCAT
Found at i:28479513 original size:43 final size:43
Alignment explanation
Indices: 28479446--28479583 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 43
28479436 TGTGATTTTG
* *
28479446 TGTAAGACCATGTATGAGACATTGGCATCGATATGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
* * *
28479489 TGTAAGACCATGTCTGGGATATTGGCACCG-TAT-ATGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTACA
* ** * **
28479530 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATGTGACAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
28479573 TGTAAGACCAT
1 TGTAAGACCAT
28479584 ATCTAGGATA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 27 0.36
42 12 0.16
43 37 0.49
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
Found at i:28487875 original size:30 final size:30
Alignment explanation
Indices: 28487741--28488327 Score: 253
Period size: 31 Copynumber: 19.1 Consensus size: 30
28487731 CAACAATATA
* *
28487741 TATATTCATATACGAATCAAATTCGGA-AACT-
1 TATATTCATATACAAATC-AATT-TGACAA-TG
* * *
28487772 TATCTTCATATACAAATCAATTTCAATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
28487803 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* **
28487834 TATAATCATATATGAATCAATTTGACAACT-
1 TATATTCATATACAAATCAATTTGACAA-TG
* *
28487864 TATCTTCATATACAAATCAATTTCGATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
28487895 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
** *
28487926 TATAATT-ATATATGAATCAATTTGGCAACT-
1 TAT-ATTCATATACAAATCAATTTGACAA-TG
* * * *
28487956 TATTTTCATATACAAATCAATTTCGATATTA
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
28487987 TATAACCATATACAAATGAATTTCAACAATG
1 TATATTCATATACAAATCAATTT-GACAATG
* * * *
28488018 TTTAATT-ATATACGAATTAATTTGGCAACT-
1 TAT-ATTCATATACAAATCAATTTGACAA-TG
* * * *
28488048 TATCTTTATATACAAATCAATTTCGATAATA
1 TATATTCATATACAAATCAATTT-GACAATG
** * * *
28488079 TATAACCATATACAAATAAATTTCAGTAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* * * *
28488110 TATAATCATATACGAATCAATTCGGCAACT-
1 TATATTCATATACAAATCAATTTGACAA-TG
* * *
28488140 TATCTTCATATACATATCAATTTCGATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * * *
28488171 TATAACCATATAAAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* *
28488202 TATAATT-ATATA-AGAATCAATTCGGCAACT-
1 TAT-ATTCATATACA-AATCAATTTGACAA-TG
* * *
28488232 TATCTTCATATACATATCAATTTCGATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
28488263 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* * * * *
28488294 TACAATT-ATATACGAATTAGTTTGGCAATG
1 TA-TATTCATATACAAATCAATTTGACAATG
28488324 TATA
1 TATA
28488328 AAACAATCAA
Statistics
Matches: 408, Mismatches: 116, Indels: 66
0.69 0.20 0.11
Matches are distributed among these distances:
29 7 0.02
30 123 0.30
31 274 0.67
32 4 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (30 bp):
TATATTCATATACAAATCAATTTGACAATG
Found at i:28487904 original size:92 final size:92
Alignment explanation
Indices: 28487721--28488321 Score: 898
Period size: 92 Copynumber: 6.5 Consensus size: 92
28487711 ATCCAATGCT
* * * * *
28487721 CAAATCAA-TTCAACAATATATATATTCATATACGAATCAAATTCGGAAACTTATCTTCATATAC
1 CAAATAAATTTCAGCAATGTATA-ATT-ATATACGAATC-AATTTGGCAACTTATCTTCATATAC
*
28487785 AAATCAATTTCAATAATGTATAACCATATA
63 AAATCAATTTCGATAATGTATAACCATATA
* * *
28487815 CAAATAAATTTCAGCAATGTATAATCATATATGAATCAATTTGACAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
28487880 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* *
28487907 CAAATAAATTTCAGCAATGTATAATTATATATGAATCAATTTGGCAACTTATTTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
* *
28487972 TCAATTTCGATATTATATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * * * *
28487999 CAAATGAATTTCAACAATGTTTAATTATATACGAATTAATTTGGCAACTTATCTTTATATACAAA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
*
28488064 TCAATTTCGATAATATATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * * *
28488091 CAAATAAATTTCAGTAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACATA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
28488156 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * * *
28488183 AAAATAAATTTCAGCAATGTATAATTATATAAGAATCAATTCGGCAACTTATCTTCATATACATA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
28488248 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
28488275 CAAATAAATTTCAGCAATGTACAATTATATACGAATTAGTTTGGCAA
1 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAA
28488322 TGTATAAAAC
Statistics
Matches: 464, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
92 433 0.93
93 10 0.02
94 9 0.02
95 12 0.03
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (92 bp):
CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCATATACAAA
TCAATTTCGATAATGTATAACCATATA
Found at i:28488431 original size:16 final size:16
Alignment explanation
Indices: 28488409--28488477 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
28488399 TTTGGTTCGT
28488409 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
28488425 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
28488441 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
28488458 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
28488474 TGTA
1 TGTA
28488478 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:28488455 original size:33 final size:32
Alignment explanation
Indices: 28488409--28488477 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
28488399 TTTGGTTCGT
*
28488409 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTAGATTAGAGG
*
28488441 TGTATTGGGATTAGAGGTGTATTAGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTAGATTAGAGG
28488474 TGTA
1 TGTA
28488478 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTAGATTAGAGG
Found at i:28488734 original size:18 final size:17
Alignment explanation
Indices: 28488713--28488747 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28488703 TTATTATTAA
*
28488713 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
28488731 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
28488748 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:28488936 original size:121 final size:120
Alignment explanation
Indices: 28488696--28489079 Score: 716
Period size: 120 Copynumber: 3.2 Consensus size: 120
28488686 ATCATATTTA
28488696 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
28488761 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
28488816 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
28488880 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
28488937 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
28489002 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
28489057 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
28489080 AACTTGAAAA
Statistics
Matches: 256, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 1 0.00
120 138 0.54
121 116 0.45
122 1 0.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:28488975 original size:18 final size:17
Alignment explanation
Indices: 28488954--28488988 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28488944 TTATTATTAA
*
28488954 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
28488972 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
28488989 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:28492153 original size:33 final size:33
Alignment explanation
Indices: 28492104--28492212 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
28492094 ATTATAAAGC
28492104 ATGTATAA-TGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
28492136 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
28492169 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
28492202 ATGTATAATTG
1 ATGTATAATTG
28492213 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
32 17 0.26
33 40 0.62
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:28492219 original size:51 final size:50
Alignment explanation
Indices: 28492159--28492261 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 50
28492149 CTAAAATTAC
28492159 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATG-ATAA
*
28492210 TTGTTGGTTTAATGTTATTTACCCTAAAAAATATTGTTGGTGTATGATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGATAA
28492260 TT
1 TT
28492262 TTTACGTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
50 7 0.14
51 43 0.86
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (50 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGATAA
Found at i:28492435 original size:86 final size:86
Alignment explanation
Indices: 28492328--28492508 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
28492318 TTCTCTCCAC
28492328 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
28492392 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
28492413 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
28492478 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
28492499 ATAATAATTA
1 ATAATAATTA
28492509 CAATTATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:28504320 original size:18 final size:17
Alignment explanation
Indices: 28504276--28504320 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 17
28504266 TATTTCATGT
28504276 TAATTAATATGTTAAAAA
1 TAATTAATAT-TTAAAAA
28504294 T-A-TAATATTTAAAAA
1 TAATTAATATTTAAAAA
28504309 TAATTAAATATT
1 TAATT-AATATT
28504321 AAATACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 2 0.08
18 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATTAATATTTAAAAA
Found at i:28505609 original size:194 final size:194
Alignment explanation
Indices: 28505280--28505669 Score: 640
Period size: 194 Copynumber: 2.0 Consensus size: 194
28505270 ATTTGATACT
*
28505280 AATATTTTTACCAAGTAACCAATTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
1 AATATTTTTACCAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
*
28505345 CCCAAGTAAGCATCTATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
66 CCCAAGTAAGCATCCATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
* * *
28505410 CCATTTGGTTTAGGTACCAAATTGAACATTGAAATCAAACTCAGGTAGCAAATTAGGATGAATG
131 CCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAATG
* * *
28505474 AATATTTTTCCCAAGTACCCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTTTGGT
1 AATATTTTTACCAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
* *
28505539 CCC-AGTTAAGTATCCAT-ATTCTTTTTACTAGATTAGACATCAAATACTCGTTGGACCACATGA
66 CCCAAG-TAAGCATCCATAATT-TTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGA
* *
28505602 TGCCATTTGGTTTAGGTACCAAAGTGAGCATTGAAGCCAAACTCAGGTAGCAAATTAGGACGAAT
129 TGCCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAAT
28505667 G
194 G
28505668 AA
1 AA
28505670 AACTTAGGTA
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
193 5 0.03
194 177 0.97
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (194 bp):
AATATTTTTACCAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
CCCAAGTAAGCATCCATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
CCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAATG
Found at i:28505941 original size:3 final size:3
Alignment explanation
Indices: 28505892--28505922 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
28505882 AATATTCTCT
28505892 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
28505923 CATCATTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:28506541 original size:39 final size:38
Alignment explanation
Indices: 28506479--28506555 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
28506469 ATAAATTAAT
* * *
28506479 TGTTATAATACATGATTTATCTCAGTTACATCCATATA
1 TGTTATAATACATAATATATCTCAATTACATCCATATA
* *
28506517 TGTTATATATTCATAATATATCTCAATTACATCGATATA
1 TGTTATA-ATACATAATATATCTCAATTACATCCATATA
28506556 AATATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.43
Consensus pattern (38 bp):
TGTTATAATACATAATATATCTCAATTACATCCATATA
Found at i:28510455 original size:16 final size:16
Alignment explanation
Indices: 28510431--28510482 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
28510421 TGGTTCACTC
28510431 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
* *
28510447 TAATAGAATAAAGTTG
1 TAATGGAATAGAGTTG
*
28510463 TAATGGAATAGAGCTG
1 TAATGGAATAGAGTTG
28510479 TAAT
1 TAAT
28510483 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:28516256 original size:27 final size:27
Alignment explanation
Indices: 28516225--28516528 Score: 264
Period size: 27 Copynumber: 11.3 Consensus size: 27
28516215 ATTGGGCCTC
28516225 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTAAAATACCCTCGATGGG
* * *
28516252 TAAAATGACTAAAATACCCTTGTTGGG
1 TAAAATTACTAAAATACCCTCGATGGG
* * **
28516279 TACAATAACCGAAATACCCTCGATGGG
1 TAAAATTACTAAAATACCCTCGATGGG
* *
28516306 TAAAATTA-TCGAAATACCC-CTGATAGG
1 TAAAATTACT-AAAATACCCTC-GATGGG
* *
28516333 TAAAATTATTAAAATACCCTCAATGGG
1 TAAAATTACTAAAATACCCTCGATGGG
* ** *
28516360 TAAAATAACCGAAATACTCTCGATGGG
1 TAAAATTACTAAAATACCCTCGATGGG
*
28516387 TAAAATTACCAAAATACCCTCGATGGG
1 TAAAATTACTAAAATACCCTCGATGGG
* *
28516414 TAAAATTA-TAGAAATA-CCTTGATGGA
1 TAAAATTACTA-AAATACCCTCGATGGG
*
28516440 TAAAATTA-TCAAAATA-CCTCCGAAGGG
1 TAAAATTACT-AAAATACCCT-CGATGGG
* * *
28516467 TAAAATTACTGAAATACCC-CTAAAGGG
1 TAAAATTACTAAAATACCCTC-GATGGG
* * *
28516494 TAAAATTA-TCGAAATACCCCCGAAGGG
1 TAAAATTACT-AAAATACCCTCGATGGG
28516521 TAAAATTA
1 TAAAATTA
28516529 TCGAAATACC
Statistics
Matches: 231, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
26 29 0.13
27 196 0.85
28 6 0.03
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAAATTACTAAAATACCCTCGATGGG
Found at i:28516302 original size:54 final size:54
Alignment explanation
Indices: 28516225--28516538 Score: 325
Period size: 54 Copynumber: 5.8 Consensus size: 54
28516215 ATTGGGCCTC
* * *
28516225 TAAAATTA-CTAAAATACCCTCGATGGGTAAAATGACTAAAATACCCTTGTTGGG
1 TAAAATTATC-AAAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGG
* * * * * *
28516279 TACAATAACCGAAATACCCTCGATGGGTAAAATTA-TCGAAATACCCCTGATAGG
1 TAAAATTATCAAAATACCCTCGATGGGTAAAATTACT-GAAATACCCTTGATGGG
* * * * * *
28516333 TAAAATTATTAAAATACCCTCAATGGGTAAAATAACCGAAATACTCTCGATGGG
1 TAAAATTATCAAAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGG
* *
28516387 TAAAATTACCAAAATACCCTCGATGGGTAAAATTA-TAGAAATA-CCTTGATGGA
1 TAAAATTATCAAAATACCCTCGATGGGTAAAATTACT-GAAATACCCTTGATGGG
* * * *
28516440 TAAAATTATCAAAATA-CCTCCGAAGGGTAAAATTACTGAAATACCCCTAAAGGG
1 TAAAATTATCAAAATACCCT-CGATGGGTAAAATTACTGAAATACCCTTGATGGG
* * *
28516494 TAAAATTATCGAAATACCCCCGAAGGGTAAAATTA-TCGAAATACC
1 TAAAATTATCAAAATACCCTCGATGGGTAAAATTACT-GAAATACC
28516539 TTCAGGTTAA
Statistics
Matches: 215, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
52 3 0.01
53 44 0.20
54 165 0.77
55 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (54 bp):
TAAAATTATCAAAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGG
Found at i:28522257 original size:22 final size:24
Alignment explanation
Indices: 28522231--28522274 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
28522221 TAAAAATATT
28522231 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
28522253 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
28522275 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:28522420 original size:68 final size:67
Alignment explanation
Indices: 28522341--28522541 Score: 296
Period size: 59 Copynumber: 3.1 Consensus size: 67
28522331 TCAAGTTTGT
*
28522341 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAAATAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAC-AATAATAATTTGAT
28522406 AAA
65 AAA
28522409 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAC----AAT----TAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
28522466 AA
66 AA
28522468 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAA-TAATAATTTGAT
*
28522531 AAT
65 AAA
28522534 TTTACTAA
1 TTTACTAA
28522542 CAATTAATTT
Statistics
Matches: 122, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
59 56 0.46
62 1 0.01
64 3 0.02
66 22 0.18
68 40 0.33
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
AA
Found at i:28522551 original size:16 final size:16
Alignment explanation
Indices: 28522530--28522571 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
28522520 AATAATTTGA
*
28522530 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
28522546 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
28522562 TAGTTTTAAT
1 TAATTTTAAT
28522572 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:28522555 original size:22 final size:23
Alignment explanation
Indices: 28522545--28522600 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
28522535 TTACTAACAA
* * *
28522545 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
28522567 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
28522590 TTAATTTTAAT
1 TTAATTTTAAT
28522601 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:28524394 original size:29 final size:29
Alignment explanation
Indices: 28524352--28524407 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
28524342 CTATTATCAC
*
28524352 AATACAATGTTATAGCTTTTTTCATACAT
1 AATACAATGTTATAACTTTTTTCATACAT
28524381 AATACAATGTTATAACTTTTTTCATAC
1 AATACAATGTTATAACTTTTTTCATAC
28524408 CAGGAATGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (29 bp):
AATACAATGTTATAACTTTTTTCATACAT
Found at i:28529760 original size:13 final size:15
Alignment explanation
Indices: 28529742--28529774 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
28529732 AATCTTAATT
28529742 TTAATT-AATTTTA-
1 TTAATTAAATTTTAC
28529755 TTAATTAAATTTTAC
1 TTAATTAAATTTTAC
28529770 TTAAT
1 TTAAT
28529775 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTAAATTTTAC
Found at i:28532209 original size:29 final size:28
Alignment explanation
Indices: 28532170--28532239 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
28532160 ATATAAAAGA
* *
28532170 AAAACCTTTGTGGAAAATCTCTGTATAG
1 AAAACCTTTGTGGAAAACCTCTGTAGAG
* *
28532198 AAAAGCCTTTGTGGCAAACCTCTTTAGAG
1 AAAA-CCTTTGTGGAAAACCTCTGTAGAG
28532227 AAAACCTTTGTGG
1 AAAACCTTTGTGG
28532240 TGACTTCTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 13 0.35
29 24 0.65
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (28 bp):
AAAACCTTTGTGGAAAACCTCTGTAGAG
Found at i:28532213 original size:55 final size:57
Alignment explanation
Indices: 28532104--28532213 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
28532094 GGCAAACCTC
* *
28532104 TATAAAAGGAAGAGCCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
1 TATAAAAGGAAAAACCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
* * *
28532161 TATAAAA-GAAAAACCTTTGTG-GAAAATCTCTGTATA-GAAAAGCCTTTGTGGCA
1 TATAAAAGGAAAAACCTTTGTGAG-AAATCTCTATAAAGGAAAAACCTTTGTGGCA
28532214 AACCTCTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 17 0.36
56 23 0.49
57 7 0.15
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (57 bp):
TATAAAAGGAAAAACCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
Found at i:28537843 original size:16 final size:16
Alignment explanation
Indices: 28537824--28537879 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
28537814 ATCTAACCAA
*
28537824 TATGTCATTGCGCATT
1 TATGTCATTACGCATT
*
28537840 TATGTCATTACGCAAT
1 TATGTCATTACGCATT
* * *
28537856 AATATCATTATGCATT
1 TATGTCATTACGCATT
28537872 TATGTCAT
1 TATGTCAT
28537880 CTAACCAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (16 bp):
TATGTCATTACGCATT
Found at i:28537896 original size:32 final size:32
Alignment explanation
Indices: 28537812--28537896 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
28537802 TCAACCCATT
*
28537812 TCATCTAACCAATATGTCATTGCGCATTTATG
1 TCATCTAACCAATATGTCATTACGCATTTATG
* *
28537844 TCAT-T-ACGCAATAATATCATTATGCATTTATG
1 TCATCTAAC-CAAT-ATGTCATTACGCATTTATG
28537876 TCATCTAACCAATATGTCATT
1 TCATCTAACCAATATGTCATT
28537897 CAAAGACACC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 2 0.04
31 5 0.11
32 31 0.69
33 5 0.11
34 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (32 bp):
TCATCTAACCAATATGTCATTACGCATTTATG
Found at i:28538535 original size:39 final size:38
Alignment explanation
Indices: 28538419--28538637 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 38
28538409 TAATACAATC
* * *
28538419 AGGGGCACATATGTTCATTCAAAGGTACCGAAGTACAAAT
1 AGGGGCACATATGTGCATTC-AGGGTA-CAAAGTACAAAT
**
28538459 AGGGGCATGTATGTGCATTCAGGGGTACTAAAGTACAAAT
1 AGGGGCACATATGTGCATTCA-GGGTAC-AAAGTACAAAT
*
28538499 AGGGACACATATGTGCATTCAGGGTATCAAAGTACAAAT
1 AGGGGCACATATGTGCATTCAGGGTA-CAAAGTACAAAT
* * *
28538538 AGCGGCACGTATGTGAATTCAGGAGTATCAAAGTACAAAT
1 AGGGGCACATATGTGCATTCAGG-GTA-CAAAGTACAAAT
* * *
28538578 ACGGGCA-AGTATGTGCATTTAGGGGTACCAAGTACAAAT
1 AGGGGCACA-TATGTGCATTCA-GGGTACAAAGTACAAAT
*
28538617 AGGGGCACGTATGTGCATTCA
1 AGGGGCACATATGTGCATTCA
28538638 CTCAATAATT
Statistics
Matches: 151, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 65 0.43
40 84 0.56
41 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (38 bp):
AGGGGCACATATGTGCATTCAGGGTACAAAGTACAAAT
Done.