Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold433
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: 558157
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Warning! 7244 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:571 original size:17 final size:17
Alignment explanation
Indices: 535--582 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
525 AAATATAAAA
* *
535 ATAATAAAAATTATTTTT
1 ATAATAATATTTA-TTTT
*
553 ATATTAATATTTATTTT
1 ATAATAATATTTATTTT
*
570 ATAATATTATTTA
1 ATAATAATATTTA
583 AATAAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATAATATTTATTTT
Found at i:1455 original size:29 final size:29
Alignment explanation
Indices: 1389--1455 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
1379 TTTATTTAAT
*
1389 TAAATTTAAATATTAATATAAATAATATT
1 TAAATTTAAATATTAATATAAATAATATA
** * *
1418 TTTATTTAAATTTTATTATAAA-AATATA
1 TAAATTTAAATATTAATATAAATAATATA
1446 TAAATATTAA
1 TAAAT-TTAA
1456 TATAATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TAAATTTAAATATTAATATAAATAATATA
Found at i:2073 original size:11 final size:12
Alignment explanation
Indices: 2045--2077 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2035 TTTCAAATAA
*
2045 AAATATGTAATT
1 AAATATGTAATC
2057 AAATATG-AATC
1 AAATATGTAATC
2068 AAATATGTAA
1 AAATATGTAA
2078 ATAGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (12 bp):
AAATATGTAATC
Found at i:2730 original size:11 final size:11
Alignment explanation
Indices: 2714--2744 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2704 TAAATTAGTG
2714 TTATTATAATA
1 TTATTATAATA
2725 TTATTATAATA
1 TTATTATAATA
2736 TTATATATA
1 TTAT-TATA
2745 TTTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTATTATAATA
Found at i:5017 original size:22 final size:20
Alignment explanation
Indices: 4992--5036 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
4982 CTCATTTTAG
4992 TATATTATTTAAGATTAATTAA
1 TATATTATTT-AGATTAA-TAA
*
5014 TATATTATTTATATTAATAA
1 TATATTATTTAGATTAATAA
5034 TAT
1 TAT
5037 TACAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TATATTATTTAGATTAATAA
Found at i:5457 original size:17 final size:17
Alignment explanation
Indices: 5431--5470 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
5421 TATTGAGTTA
5431 ATATTAAATATAAATAT
1 ATATTAAATATAAATAT
*
5448 ATATTTAATATAAATAT
1 ATATTAAATATAAATAT
5465 AT-TTAA
1 ATATTAA
5471 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTAAATATAAATAT
Found at i:5553 original size:17 final size:17
Alignment explanation
Indices: 5520--5571 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
5510 TATATGTATG
* *
5520 TATAAATATATATTAAA
1 TATAAATATTTAATAAA
5537 TATAAATATTTAATAAA
1 TATAAATATTTAATAAA
* * *
5554 AATAATTTTTTAA-AAA
1 TATAAATATTTAATAAA
5570 TA
1 TA
5572 AAAAAATTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAAATATTTAATAAA
Found at i:5886 original size:21 final size:20
Alignment explanation
Indices: 5837--5902 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
5827 ATTTAGTCAA
*
5837 ATATATTT-TTATTAAATATTT
1 ATATATTTAATATTAAA-A-TT
5858 ATTATATTTAACTATTAAAATT
1 A-TATATTTAA-TATTAAAATT
*
5880 ATATATTTAATATCTAAATTT
1 ATATATTTAATAT-TAAAATT
5901 AT
1 AT
5903 TTTTAATGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 3 0.08
21 18 0.46
22 10 0.26
23 1 0.03
24 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTTAATATTAAAATT
Found at i:9995 original size:2 final size:2
Alignment explanation
Indices: 9988--10021 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9978 ATAAATAAAA
9988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10022 TTATGGCAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16981 original size:6 final size:6
Alignment explanation
Indices: 16970--17014 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
16960 TATAAAACTG
*
16970 CCACTC CCACTC CCACTC CCACTC CCACTC CCAATC CCACTC CCA
1 CCACTC CCACTC CCACTC CCACTC CCACTC CCACTC CCACTC CCA
17015 TACACAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.64, G:0.00, T:0.16
Consensus pattern (6 bp):
CCACTC
Found at i:17825 original size:29 final size:29
Alignment explanation
Indices: 17779--17839 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
17769 CTAAGTATCA
* * *
17779 GATTATTCGTTTGATTATGGTTTGATTTG
1 GATTATTCGTTTGATTATAGTTCGAATTG
*
17808 GATTATTCGTTTGGTTATAGTTCGAATTG
1 GATTATTCGTTTGATTATAGTTCGAATTG
17837 GAT
1 GAT
17840 CGAATTTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.51
Consensus pattern (29 bp):
GATTATTCGTTTGATTATAGTTCGAATTG
Found at i:18002 original size:8 final size:8
Alignment explanation
Indices: 17989--18064 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
17979 ATTGAATAAT
17989 TAAAAAAA
1 TAAAAAAA
17997 TAAAAATAA
1 TAAAAA-AA
* *
18006 TTTAAAAAT
1 -TAAAAAAA
*
18015 TAAAAAAT
1 TAAAAAAA
18023 TAAAAAAAA
1 T-AAAAAAA
*
18032 TAAAAAAT
1 TAAAAAAA
* *
18040 TAAAATAC
1 TAAAAAAA
*
18048 TAAAAATA
1 TAAAAAAA
*
18056 TAAATAAA
1 TAAAAAAA
18064 T
1 T
18065 TCTAAAAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
8 38 0.72
9 10 0.19
10 5 0.09
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAAAA
Found at i:18014 original size:17 final size:16
Alignment explanation
Indices: 17992--18055 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
17982 GAATAATTAA
17992 AAAAATAAAAATAATTT
1 AAAAATAAAAATAA-TT
*
18009 AAAAATTAAAA-AATT
1 AAAAATAAAAATAATT
* *
18024 AAAAAAAATAAAAAATT
1 AAAAATAA-AAATAATT
18041 AAAATACTAAAAATA
1 AAAA-A-TAAAAATA
18056 TAAATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 8 0.21
16 5 0.13
17 18 0.47
18 5 0.13
19 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAAAATAATT
Found at i:18026 original size:26 final size:26
Alignment explanation
Indices: 17986--18055 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
17976 GATATTGAAT
* *
17986 AATTAAAAAAATAAAAATAATTTAAA
1 AATTAAAAAAATAAAAATAAATAAAA
*
18012 AATTAAAAAATTAAAAA-AAATAAAA
1 AATTAAAAAAATAAAAATAAATAAAA
* *
18037 AATTAAAATACTAAAAATA
1 AATTAAAAAAATAAAAATA
18056 TAAATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 21 0.55
26 17 0.45
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (26 bp):
AATTAAAAAAATAAAAATAAATAAAA
Found at i:18027 original size:25 final size:25
Alignment explanation
Indices: 17986--18063 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
17976 GATATTGAAT
* * *
17986 AATTAAAAAAATAAAAATAATTTAAA
1 AATT-AAAAAATAAAAAAAAATAAAA
*
18012 AATTAAAAAATTAAAAAAAATAAAA
1 AATTAAAAAATAAAAAAAAATAAAA
*
18037 AATTAAAATACTAAAAATATAAATAAA
1 AATTAAAA-AATAAAAA-A-AAATAAA
18064 TTCTAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 25 0.58
26 10 0.23
27 1 0.02
28 7 0.16
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (25 bp):
AATTAAAAAATAAAAAAAAATAAAA
Found at i:19152 original size:15 final size:15
Alignment explanation
Indices: 19132--19184 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
19122 ATTTCTATTA
19132 AATATTTATTTTTTT
1 AATATTTATTTTTTT
*
19147 AATATTTATTTATATT
1 AATATTTATTT-TTTT
* * *
19163 AA-AATTATATATTT
1 AATATTTATTTTTTT
19177 AATATTTA
1 AATATTTA
19185 AAATTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTATTTTTTT
Found at i:19163 original size:32 final size:30
Alignment explanation
Indices: 19121--19184 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
19111 TATCATTTTA
* * *
19121 TATTTCTATTAAATATTTATTTTTTTAATATT
1 TATTTATATTAAA-A-TTATATATTTAATATT
19153 TATTTATATTAAAATTATATATTTAATATT
1 TATTTATATTAAAATTATATATTTAATATT
19183 TA
1 TA
19185 AAATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.55
31 1 0.03
32 12 0.41
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
TATTTATATTAAAATTATATATTTAATATT
Found at i:23291 original size:10 final size:10
Alignment explanation
Indices: 23276--23309 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
23266 TGATATTTAT
23276 AAAATTAAAA
1 AAAATTAAAA
23286 AAAATTAAAA
1 AAAATTAAAA
23296 AAAATTAAAA
1 AAAATTAAAA
23306 AAAA
1 AAAA
23310 AACAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:23672 original size:31 final size:31
Alignment explanation
Indices: 23615--23675 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
23605 CCAATCCAAG
*
23615 TATTAATCCGTTAAAAGTATTTAAATAAAAT
1 TATTAATCCGTTAAAAGTATTCAAATAAAAT
* *
23646 TATTAATTCGTTAAATG-AGTTCAAATAAAA
1 TATTAATCCGTTAAAAGTA-TTCAAATAAAA
23676 AAATTAGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (31 bp):
TATTAATCCGTTAAAAGTATTCAAATAAAAT
Found at i:23833 original size:23 final size:24
Alignment explanation
Indices: 23805--23853 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
23795 CAAGCAATTT
* *
23805 TTATTATATGAATATATAT-AATA
1 TTATTATATAAATATAAATAAATA
23828 TTATTATATAAATATAAATAAATA
1 TTATTATATAAATATAAATAAATA
23852 TT
1 TT
23854 TTAAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATTATATAAATATAAATAAATA
Found at i:24017 original size:6 final size:5
Alignment explanation
Indices: 23988--24050 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
23978 AACTTAAAAT
23988 TTAAA TTAAA TTAAA TTTAAA -TAAA TATAAA -TAATA TTAATA TTATAA
1 TTAAA TTAAA TTAAA -TTAAA TTAAA T-TAAA TTAA-A TTAA-A TTA-AA
*
24036 TTAAA TTTAA TTAAA
1 TTAAA TTAAA TTAAA
24051 ATCTAATTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 7 0.14
5 21 0.42
6 21 0.42
7 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:24214 original size:19 final size:19
Alignment explanation
Indices: 24190--24232 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24180 TTTTTTATTT
24190 TAAAAATTTTAAATCATTG
1 TAAAAATTTTAAATCATTG
* *
24209 TAAAAATTTTAAATTATTT
1 TAAAAATTTTAAATCATTG
24228 TAAAA
1 TAAAA
24233 TTTATCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAAATTTTAAATCATTG
Found at i:24227 original size:10 final size:10
Alignment explanation
Indices: 24186--24231 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
24176 TAAATTTTTT
24186 ATTTTAAA-A
1 ATTTTAAATA
*
24195 ATTTTAAATC
1 ATTTTAAATA
*
24205 ATTGTAAA-A
1 ATTTTAAATA
*
24214 ATTTTAAATT
1 ATTTTAAATA
24224 ATTTTAAA
1 ATTTTAAA
24232 ATTTATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:24296 original size:17 final size:19
Alignment explanation
Indices: 24274--24310 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
24264 AAATAATTAG
24274 TTAAATAAT-TAAA-ATAT
1 TTAAATAATATAAATATAT
24291 TTAAATAATATAAATATAT
1 TTAAATAATATAAATATAT
24310 T
1 T
24311 ATAATAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAATAATATAAATATAT
Found at i:26408 original size:26 final size:26
Alignment explanation
Indices: 26357--26409 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
26347 TAGATCACCC
* *
26357 AATTCGTGTATTTGATATTGATAATA
1 AATTCGTGTATTTGATATGGACAATA
*
26383 AATTTGTGTATTT-AGTATGGACAATA
1 AATTCGTGTATTTGA-TATGGACAATA
26409 A
1 A
26410 TTTTAAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (26 bp):
AATTCGTGTATTTGATATGGACAATA
Found at i:26662 original size:24 final size:25
Alignment explanation
Indices: 26646--26694 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
26636 TTATGTATTT
*
26646 ATATTTTA-TTTGTTTTATATTTTC
1 ATATCTTATTTTGTTTTATATTTTC
*
26670 ATATCTTATTTTGTTTCATACTTTT
1 ATATCTTATTTTGTTTTATA-TTTT
26695 TTTTCGCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.67
Consensus pattern (25 bp):
ATATCTTATTTTGTTTTATATTTTC
Found at i:26937 original size:15 final size:13
Alignment explanation
Indices: 26908--26932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26898 AATTATAATA
26908 AAATTAAAAAATT
1 AAATTAAAAAATT
26921 AAATTAAAAAAT
1 AAATTAAAAAAT
26933 ATTAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAAAAAATT
Found at i:27232 original size:24 final size:25
Alignment explanation
Indices: 27204--27253 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27194 AGTATTTTTA
27204 TATTTAATT-TTTTTAAACATA-ATT
1 TATTTAATTATTTTTAAA-ATATATT
*
27228 TATTTATTTATTTTTAAAATATATT
1 TATTTAATTATTTTTAAAATATATT
27253 T
1 T
27254 TCATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTAATTATTTTTAAAATATATT
Found at i:28163 original size:24 final size:22
Alignment explanation
Indices: 28131--28174 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
28121 TACAAAACTT
*
28131 ATCATATGATATATATATATATAA
1 ATCAAATGAT-TATA-ATATATAA
28155 ATCAAATGATTATAATATAT
1 ATCAAATGATTATAATATAT
28175 GGTTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (22 bp):
ATCAAATGATTATAATATATAA
Found at i:35262 original size:26 final size:28
Alignment explanation
Indices: 35197--35263 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 28
35187 ATTATTACTT
*
35197 AATAATAAAAATATATTTATTTAAATTTA
1 AATAAT-AAAATATATTTAATTAAATTTA
* *
35226 ATTAA-ATAAATAT-TTTAATT-ATTTTA
1 AATAATA-AAATATATTTAATTAAATTTA
35252 AATAATAAAATA
1 AATAATAAAATA
35264 AACTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
26 14 0.44
27 8 0.25
28 6 0.19
29 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AATAATAAAATATATTTAATTAAATTTA
Found at i:35401 original size:2 final size:2
Alignment explanation
Indices: 35396--35424 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35386 GTGTGTGTGG
35396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35425 ATTTTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35842 original size:2 final size:2
Alignment explanation
Indices: 35835--35859 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35825 AAATAACAGA
35835 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35860 ATAAAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38220 original size:8 final size:8
Alignment explanation
Indices: 38207--38237 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
38197 AATATGATTT
38207 TATTTTAA
1 TATTTTAA
38215 TATTTTAA
1 TATTTTAA
38223 TATTTTAA
1 TATTTTAA
38231 TATTTTA
1 TATTTTA
38238 TGTAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:39233 original size:22 final size:23
Alignment explanation
Indices: 39195--39252 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
39185 TAAAAATTTT
*
39195 AATTTAATTT-AATTATT-ATAA
1 AATTAAATTTAAATTATTAATAA
*
39216 AATTAAATTTAAATTATTAATCA
1 AATTAAATTTAAATTATTAATAA
*
39239 AATAAAATTTAAAT
1 AATTAAATTTAAAT
39253 ATTTAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 9 0.28
22 7 0.22
23 16 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTAAATTTAAATTATTAATAA
Found at i:39325 original size:22 final size:22
Alignment explanation
Indices: 39285--39352 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
39275 ATATAATAAA
* * *
39285 ATTTTTTATTTTTAATAAATAT
1 ATTTTTAATTTATATTAAATAT
*
39307 ATTTTTAATTTATATTAAAAAT
1 ATTTTTAATTTATATTAAATAT
* * * *
39329 AATTTAAATTAAAATTAAAATAT
1 ATTTTTAATTTATATT-AAATAT
39352 A
1 A
39353 AATAAAATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 30 0.83
23 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTAATTTATATTAAATAT
Found at i:39331 original size:16 final size:16
Alignment explanation
Indices: 39312--39342 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39302 AATATATTTT
*
39312 TAATTTATATTAAAAA
1 TAATTTAAATTAAAAA
39328 TAATTTAAATTAAAA
1 TAATTTAAATTAAAA
39343 TTAAAATATA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTTAAATTAAAAA
Found at i:39343 original size:6 final size:6
Alignment explanation
Indices: 39329--39386 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
39319 TATTAAAAAT
* * *
39329 AATTTA AATTAA AATTAA AA-TATA AA-TAA AA-TAA ATTTAA AATCAA
1 AATTAA AATTAA AATTAA AATTA-A AATTAA AATTAA AATTAA AATTAA
39375 AATT-A AATTAA A
1 AATTAA AATTAA A
39387 TTTATTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 14 0.32
6 30 0.68
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:39358 original size:22 final size:21
Alignment explanation
Indices: 39320--39408 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 21
39310 TTTAATTTAT
*
39320 ATTAAAAATAATTTAAATTAAA
1 ATTAAAAATAA-ATAAATTAAA
*
39342 ATTAAAATATAAATAAAAT-AA
1 ATTAAAA-ATAAATAAATTAAA
*
39363 ATTTAAAATCAAAATTAAATTAAA
1 ATTAAAAAT--AAA-TAAATTAAA
39387 TTTATTTAAAAATAAATAAATT
1 ---A-TTAAAAATAAATAAATT
39409 TAATCAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
20 2 0.04
21 8 0.15
22 15 0.28
23 9 0.17
24 2 0.04
25 6 0.11
26 3 0.06
27 1 0.02
28 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAATAAATAAATTAAA
Found at i:39393 original size:27 final size:28
Alignment explanation
Indices: 39333--39397 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
39323 AAAAATAATT
*
39333 TAAA-TTAAAATTAAAATATAAATAAAA
1 TAAATTTAAAATCAAAATATAAATAAAA
*
39360 TAAATTTAAAATCAAAAT-TAAATTAAA
1 TAAATTTAAAATCAAAATATAAATAAAA
**
39387 TTTATTTAAAA
1 TAAATTTAAAA
39398 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAATTTAAAATCAAAATATAAATAAAA
Found at i:39945 original size:34 final size:34
Alignment explanation
Indices: 39866--39946 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
39856 TATTTTTTTA
39866 TAAATTTAAATTAAACTGTTGAATTAGTTGAAGAT
1 TAAA-TTAAATTAAACTGTTGAATTAGTTGAAGAT
** * *
39901 TCTATT-AATTAGACATGTTGAATTAGTT-TAGAT
1 TAAATTAAATTAAAC-TGTTGAATTAGTTGAAGAT
39934 TAAATTAAATTAA
1 TAAATTAAATTAA
39947 TTTAGTGTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
33 15 0.41
34 20 0.54
35 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (34 bp):
TAAATTAAATTAAACTGTTGAATTAGTTGAAGAT
Found at i:39996 original size:32 final size:32
Alignment explanation
Indices: 39958--40049 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
39948 TTAGTGTTCA
39958 TTTAAATT-TTTAAATTTTTGAAA-TATTTTGAG
1 TTTAAATTATTTAAA-TTTT-AAATTATTTTGAG
**
39990 TTTAAATTATTTTTATTTTAAATTATTTTGAG
1 TTTAAATTATTTAAATTTTAAATTATTTTGAG
* * *
40022 TTCATATTATTTTAAA-TTCAAATTATTT
1 TTTAAATTA-TTTAAATTTTAAATTATTT
40050 AGATTTTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 3 0.06
32 39 0.78
33 8 0.16
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (32 bp):
TTTAAATTATTTAAATTTTAAATTATTTTGAG
Found at i:40002 original size:16 final size:16
Alignment explanation
Indices: 39981--40049 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
39971 ATTTTTGAAA
*
39981 TATTTTGAGTTTAAAT
1 TATTTTGAGTTCAAAT
* * *
39997 TATTTTTATTTTAAAT
1 TATTTTGAGTTCAAAT
*
40013 TATTTTGAGTTCATAT
1 TATTTTGAGTTCAAAT
* *
40029 TATTTTAAATTCAAAT
1 TATTTTGAGTTCAAAT
40045 TATTT
1 TATTT
40050 AGATTTTATG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (16 bp):
TATTTTGAGTTCAAAT
Found at i:40064 original size:32 final size:32
Alignment explanation
Indices: 39995--40087 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
39985 TTGAGTTTAA
* * * * *
39995 ATTATTTTTATTTTAAATTATTTTGAGTTCAT
1 ATTATTTTAAATTCAAATTATTTAGATTTCAT
*
40027 ATTATTTTAAATTCAAATTATTTAGATTTTAT
1 ATTATTTTAAATTCAAATTATTTAGATTTCAT
* * * *
40059 GTTATTTTAAGTTCATATTAATTAGATTT
1 ATTATTTTAAATTCAAATTATTTAGATTT
40088 AACATTCGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (32 bp):
ATTATTTTAAATTCAAATTATTTAGATTTCAT
Found at i:40128 original size:15 final size:15
Alignment explanation
Indices: 40108--40140 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
40098 TTAATCGAGC
40108 TTCAAA-CATTCTAAA
1 TTCAAATCATT-TAAA
40123 TTCAAATCATTTAAA
1 TTCAAATCATTTAAA
40138 TTC
1 TTC
40141 GGACCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (15 bp):
TTCAAATCATTTAAA
Found at i:45013 original size:2 final size:2
Alignment explanation
Indices: 45008--45036 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44998 TTTTTTTTCA
45008 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
45037 AAGGATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45475 original size:11 final size:11
Alignment explanation
Indices: 45459--45496 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
45449 TATTTATATC
45459 ATGTTTTAATT
1 ATGTTTTAATT
45470 ATGTTTTAATT
1 ATGTTTTAATT
* *
45481 ATTTTTTATTT
1 ATGTTTTAATT
45492 ATGTT
1 ATGTT
45497 ATGTTCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
ATGTTTTAATT
Found at i:45833 original size:14 final size:15
Alignment explanation
Indices: 45801--45833 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
45791 TTGGTAAGCT
45801 GAAAAGAAAAAGAAA
1 GAAAAGAAAAAGAAA
45816 -AAAAGAAAAA-AAA
1 GAAAAGAAAAAGAAA
45829 GAAAA
1 GAAAA
45834 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAAAGAAA
Found at i:45979 original size:17 final size:17
Alignment explanation
Indices: 45929--45979 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
45919 TTATTTCATG
45929 TATATTTTTATATGTACA
1 TATATTTTT-TATGTACA
45947 TATATTTATTTCATGTACA
1 TATATTT-TTT-ATGTACA
45966 TATCA-TTTTTATGT
1 TAT-ATTTTTTATGT
45980 TATCTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.13
18 11 0.37
19 14 0.47
20 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (17 bp):
TATATTTTTTATGTACA
Found at i:46251 original size:15 final size:16
Alignment explanation
Indices: 46218--46291 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 16
46208 AATAGTTATA
*
46218 AAAATTTTAATTAAAT
1 AAAATTATAATTAAAT
46234 AAAATTATAATT-AAT
1 AAAATTATAATTAAAT
*
46249 AAAATT-TATTTAAA-
1 AAAATTATAATTAAAT
* *
46263 AATATT-TAA-CAAAT
1 AAAATTATAATTAAAT
* *
46277 AAATTTAAAATTAAA
1 AAAATTATAATTAAA
46292 ATTTAATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
13 3 0.07
14 15 0.33
15 13 0.29
16 14 0.31
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATTATAATTAAAT
Found at i:46257 original size:16 final size:17
Alignment explanation
Indices: 46218--46257 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
46208 AATAGTTATA
46218 AAAATTT-TAATTAAAT
1 AAAATTTATAATTAAAT
46234 AAAA-TTATAATT-AAT
1 AAAATTTATAATTAAAT
46249 AAAATTTAT
1 AAAATTTAT
46258 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTATAATTAAAT
Found at i:53949 original size:24 final size:23
Alignment explanation
Indices: 53908--53962 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
53898 TAATTCATAT
53908 TTTTTTA-TATTTACTATCTAAA
1 TTTTTTATTATTTACTATCTAAA
*
53930 TTTATTTATTATTTATTATCTAAA
1 TTT-TTTATTATTTACTATCTAAA
53954 TATTTTTAT
1 T-TTTTTAT
53963 CAAAATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.10
23 4 0.14
24 20 0.69
25 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTATTATTTACTATCTAAA
Found at i:59571 original size:16 final size:16
Alignment explanation
Indices: 59550--59580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59540 TTCAAATTCC
*
59550 TATTTTTCAATTAAAA
1 TATTTTTCAAATAAAA
59566 TATTTTTCAAATAAA
1 TATTTTTCAAATAAA
59581 GAAAAATAGA
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTTTCAAATAAAA
Found at i:60394 original size:39 final size:41
Alignment explanation
Indices: 60309--60398 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 41
60299 AAACAATTTG
* * *
60309 TAATTCGATTTGACTAACCGTTTAAAAATATATATTTTCAGT
1 TAATTCGA-TTGACTAACCGATTAAAAATAAATATTTTCAAT
*
60351 TAATTCGATTGACTAACC-ATTAAAAA-AAATATTTTTAAT
1 TAATTCGATTGACTAACCGATTAAAAATAAATATTTTCAAT
60390 TAATTCGAT
1 TAATTCGAT
60399 AAATAATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 19 0.43
40 7 0.16
41 10 0.23
42 8 0.18
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (41 bp):
TAATTCGATTGACTAACCGATTAAAAATAAATATTTTCAAT
Found at i:60588 original size:18 final size:18
Alignment explanation
Indices: 60565--60601 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60555 GTTAAGAACG
60565 AGCAAGCTAAAATCAAGC
1 AGCAAGCTAAAATCAAGC
60583 AGCAAGCTAAAATCAAGC
1 AGCAAGCTAAAATCAAGC
60601 A
1 A
60602 TCTTAATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.11
Consensus pattern (18 bp):
AGCAAGCTAAAATCAAGC
Found at i:64930 original size:4 final size:5
Alignment explanation
Indices: 64876--64934 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
64866 TATTATTTGA
* * **
64876 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TTATT TATTT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
*
64926 TAATT TAAA
1 TAAAT TAAA
64935 ATAATAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
TAAAT
Found at i:64972 original size:21 final size:20
Alignment explanation
Indices: 64925--64984 Score: 77
Period size: 19 Copynumber: 2.9 Consensus size: 20
64915 TTAAATTAAA
64925 TTAATTTAAAATAATA-ATT
1 TTAATTTAAAATAATATATT
*
64944 TTATTTTAAAATAATATATTT
1 TTAATTTAAAATAATATA-TT
64965 TTAATTTAAATTATAATATA
1 TTAATTTAAA--ATAATATA
64985 AAATATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
20 1 0.03
21 11 0.31
23 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATTTAAAATAATATATT
Found at i:69838 original size:2 final size:2
Alignment explanation
Indices: 69831--69856 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69821 TCTTAGACAC
69831 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
69857 TGTGTCGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71217 original size:21 final size:21
Alignment explanation
Indices: 71165--71218 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
71155 TTTAATTACA
71165 GAATT-TATA-TTTTATAATG
1 GAATTATATATTTTTATAATG
*
71184 GAATTTTATATTTTTATAATAG
1 GAATTATATATTTTTATAAT-G
*
71206 TAATTATA-ATTTT
1 GAATTATATATTTT
71219 ATCTTGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 14 0.47
22 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
GAATTATATATTTTTATAATG
Found at i:71989 original size:42 final size:42
Alignment explanation
Indices: 71902--71990 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
71892 GAGATTTTTT
* * * * *
71902 ATTTTAGTGAGAAATCATTCGTATTTGATTTTATGATCAGAG
1 ATTTTAGTAAGAAATCATTCGAATTTGAGTTTAAGATAAGAG
* *
71944 ATTTTAGTAAGAAATTATTCGAATTTGGGTTTAAGATTAAG-G
1 ATTTTAGTAAGAAATCATTCGAATTTGAGTTTAAGA-TAAGAG
71986 ATTTT
1 ATTTT
71991 CGATTTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (42 bp):
ATTTTAGTAAGAAATCATTCGAATTTGAGTTTAAGATAAGAG
Found at i:72845 original size:22 final size:21
Alignment explanation
Indices: 72799--72845 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
72789 CCGTTATAGA
* *
72799 TATTTCATTCTATAACAGTTT
1 TATTTCATTCTATAACAATTC
72820 TATTTCATTCTTATAA-AATATC
1 TATTTCATTC-TATAACAAT-TC
72842 TATT
1 TATT
72846 CTGTTATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTCATTCTATAACAATTC
Found at i:74022 original size:21 final size:20
Alignment explanation
Indices: 73998--74058 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
73988 AAAATAAAAA
* *
73998 TTATATTAATATTTATATATT
1 TTATATTAAT-TTTAAATAAT
74019 TTATAATTAATTTTAAATAAT
1 TTAT-ATTAATTTTAAATAAT
*
74040 TTATTTTAATTATTAAATA
1 TTATATTAATT-TTAAATA
74059 TTAATTCCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.17
21 23 0.66
22 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATTAATTTTAAATAAT
Found at i:74521 original size:68 final size:67
Alignment explanation
Indices: 74395--74529 Score: 164
Period size: 68 Copynumber: 2.0 Consensus size: 67
74385 CGAGCTACTT
** ** *
74395 TATATAATTATTAGTTTTTGTGACACACGGCCTAGAATGTGAACTTTTATTTCTAAAATTTAAAA
1 TATATAATTATTAGTTTTTGTGACACACGAACTAGAATGCAAAATTTTATTTCTAAAA-TTAAAA
74460 ATA
65 ATA
* * * *
74463 TATATAATTATTAGTTTTTGTGACCCAC-AACTTGAGTGCAAAATTTTATTTTTAAAAATTAAAA
1 TATATAATTATTAGTTTTTGTGACACACGAACTAGAATGCAAAATTTTATTTCT-AAAATTAAAA
74527 ATA
65 ATA
74530 AATAAATAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
67 26 0.46
68 31 0.54
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (67 bp):
TATATAATTATTAGTTTTTGTGACACACGAACTAGAATGCAAAATTTTATTTCTAAAATTAAAAA
TA
Found at i:74595 original size:23 final size:22
Alignment explanation
Indices: 74559--74601 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
74549 ATAATGATGG
* *
74559 ATAATTATAAATTAATAACATC
1 ATAATCATAAATTAAAAACATC
74581 ATAATCATAGAATTAAAAACA
1 ATAATCATA-AATTAAAAACA
74602 ATTTACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAATCATAAATTAAAAACATC
Found at i:78261 original size:22 final size:23
Alignment explanation
Indices: 78236--78304 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
78226 ATTAAAATAT
*
78236 TATTTTATATTAATT-ATTTATA
1 TATTTTATATTAATTAATTTAAA
78258 TATTTT-TA-TAATTAAATTTAAA
1 TATTTTATATTAATT-AATTTAAA
*
78280 TA-TTTAAATTAATTTAATTTAAA
1 TATTTTATATTAA-TTAATTTAAA
78303 TA
1 TA
78305 ATTAAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 5 0.12
21 5 0.12
22 15 0.38
23 13 0.32
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTTATATTAATTAATTTAAA
Found at i:78286 original size:14 final size:14
Alignment explanation
Indices: 78269--78328 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 14
78259 ATTTTTATAA
78269 TTAAATTTAAATAT
1 TTAAATTTAAATAT
78283 TTAAA-TT--A-AT
1 TTAAATTTAAATAT
*
78293 TT-AATTTAAATAA
1 TTAAATTTAAATAT
*
78306 TTAAATTT-TATAT
1 TTAAATTTAAATAT
*
78319 TTAATTTTAA
1 TTAAATTTAA
78329 TTTAATACTG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
9 2 0.06
10 6 0.17
11 1 0.03
12 1 0.03
13 15 0.43
14 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATTTAAATAT
Found at i:78298 original size:23 final size:23
Alignment explanation
Indices: 78266--78312 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
78256 TATATTTTTA
*
78266 TAATTAAATTTAAATATTTAAAT
1 TAATTAAATTTAAATAATTAAAT
*
78289 TAATTTAATTTAAATAATTAAAT
1 TAATTAAATTTAAATAATTAAAT
78312 T
1 T
78313 TTATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTAAATTTAAATAATTAAAT
Found at i:79176 original size:22 final size:23
Alignment explanation
Indices: 79150--79195 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
79140 TATTTCAAAT
79150 ATATTAAAAAATTTTTA-AATTA
1 ATATTAAAAAATTTTTATAATTA
* * *
79172 ATATTTATATATTTTTATAATTA
1 ATATTAAAAAATTTTTATAATTA
79195 A
1 A
79196 ATTTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTAAAAAATTTTTATAATTA
Found at i:79381 original size:2 final size:2
Alignment explanation
Indices: 79374--79409 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
79364 AGTAGAAGAC
79374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79410 GATTGAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81555 original size:16 final size:16
Alignment explanation
Indices: 81534--81580 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
81524 TTCGATTGAG
81534 TTTAAATTTTGAATAA
1 TTTAAATTTTGAATAA
81550 TTTAAATTATT-AAGTAA
1 TTTAAATT-TTGAA-TAA
*
81567 ATTAAA-TTTGAATA
1 TTTAAATTTTGAATA
81581 TTATTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 4 0.15
16 13 0.48
17 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTAAATTTTGAATAA
Found at i:82861 original size:3 final size:3
Alignment explanation
Indices: 82853--82879 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
82843 AAGTAAAGGT
82853 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
82880 AAGGCAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:84671 original size:23 final size:21
Alignment explanation
Indices: 84633--84678 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
84623 TAGATATCAA
* *
84633 TTTTTTAAGAATTATTAGTTT
1 TTTTTTAAAAATTATTACTTT
84654 TTTTTTAAAAAATCTATTACTTT
1 TTTTTT-AAAAAT-TATTACTTT
84677 TT
1 TT
84679 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 5 0.24
23 10 0.48
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAAATTATTACTTT
Found at i:84967 original size:33 final size:33
Alignment explanation
Indices: 84925--84999 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
84915 CTAAAACCAT
*
84925 ATTATTTTTAAACATATCAATTAAGTATATAAG
1 ATTAATTTTAAACATATCAATTAAGTATATAAG
* * *
84958 ATTAATTTTAAACATGTCAATTAAGTATGTCAG
1 ATTAATTTTAAACATATCAATTAAGTATATAAG
84991 ATTAATTTT
1 ATTAATTTT
85000 TAGTTAGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (33 bp):
ATTAATTTTAAACATATCAATTAAGTATATAAG
Found at i:85049 original size:25 final size:26
Alignment explanation
Indices: 85021--85075 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
85011 TTTTGCCTTG
*
85021 AATTACTTTAAATTTTTAAT-TTTCA
1 AATTACTTTAAATTTATAATATTTCA
*
85046 AATTACTTTAAATTTATATTATTTCA
1 AATTACTTTAAATTTATAATATTTCA
85072 AATT
1 AATT
85076 TAAGTCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTACTTTAAATTTATAATATTTCA
Found at i:91065 original size:30 final size:30
Alignment explanation
Indices: 91031--91090 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
91021 GTGCCAATGG
91031 AGGTATGATAATTCATTTCTACAATTACCT
1 AGGTATGATAATTCATTTCTACAATTACCT
91061 AGGTATGATAATTCATTTCTACAATTACCT
1 AGGTATGATAATTCATTTCTACAATTACCT
91091 CTGATCGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (30 bp):
AGGTATGATAATTCATTTCTACAATTACCT
Found at i:92783 original size:21 final size:19
Alignment explanation
Indices: 92736--92783 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
92726 AATTTGATTT
*
92736 ATTTAAAATTATTTTTTAA
1 ATTTAAAAATATTTTTTAA
92755 ATAATTAAAAATATTTTATTTAA
1 AT--TTAAAAATA-TTT-TTTAA
92778 ATTTAA
1 ATTTAA
92784 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
21 12 0.50
22 3 0.12
23 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTAAAAATATTTTTTAA
Found at i:92801 original size:37 final size:36
Alignment explanation
Indices: 92733--92834 Score: 106
Period size: 35 Copynumber: 2.9 Consensus size: 36
92723 TTTAATTTGA
* *
92733 TTTATTTAAAATTATTTTTTAAATAATTAAAAATAT
1 TTTATTTAAAATTATATTTTAAATAAATAAAAATAT
*
92769 TTTATTTAAATTTA-ATTTTAAATATTAATAAAAATA-
1 TTTATTTAAAATTATATTTTAAATA--AATAAAAATAT
*
92805 -ATA-TTAAAA-TATTATTTTAAATAAATAAAA
1 TTTATTTAAAATTA-TATTTTAAATAAATAAAA
92835 TAATTGTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
33 9 0.16
34 5 0.09
35 21 0.37
36 13 0.23
37 9 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
TTTATTTAAAATTATATTTTAAATAAATAAAAATAT
Found at i:92826 original size:23 final size:22
Alignment explanation
Indices: 92736--92836 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
92726 AATTTGATTT
92736 ATTTAAAATTATT-TTTTAAATA
1 ATTTAAAA-TATTATTTTAAATA
* *
92758 ATTAAAAATATTTTATTTAAATTTA
1 ATTTAAAATATTAT-TTTAAA--TA
* * **
92783 ATTTTAAATATTAATAAAAATA
1 ATTTAAAATATTATTTTAAATA
92805 ATATTAAAATATTATTTTAAATA
1 AT-TTAAAATATTATTTTAAATA
*
92828 A-ATAAAATA
1 ATTTAAAATA
92837 ATTGTTTAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
21 11 0.18
22 12 0.19
23 23 0.37
24 4 0.06
25 12 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAAATATTATTTTAAATA
Found at i:93057 original size:9 final size:9
Alignment explanation
Indices: 93031--93068 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
93021 GTTAGATTAA
93031 TTTTAAAAT
1 TTTTAAAAT
*
93040 TTTT-TAAT
1 TTTTAAAAT
93048 TTTTAAAAT
1 TTTTAAAAT
*
93057 TTTTAATAT
1 TTTTAAAAT
93066 TTT
1 TTT
93069 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:93075 original size:16 final size:17
Alignment explanation
Indices: 93030--93069 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
93020 AGTTAGATTA
93030 ATTTTAAAATTTTTTAAT
1 ATTTTAAAA-TTTTTAAT
93048 -TTTTAAAATTTTTAAT
1 ATTTTAAAATTTTTAAT
93064 ATTTTA
1 ATTTTA
93070 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAAAATTTTTAAT
Found at i:94030 original size:75 final size:74
Alignment explanation
Indices: 93822--94146 Score: 237
Period size: 75 Copynumber: 4.4 Consensus size: 74
93812 ATAGCCAACC
* * * *
93822 CTGGTAGCCAACACTCACTCTGATTGGCAGA-TCTATGCTCATCATATAAATCCTGATCGCTAGA
1 CTGGTAGCCAACACTCACTCTGACTGTCAGACT-TATGCTCATCACATAAATCCTGGTCGC-AGA
* *
93886 ATGATAGAA-T
64 AAGATGGAATT
* * * * * * *
93896 CTTAGTAGCCAACACTCACTCTAACTATCAGACCTGTGCTCGTCACATAAATCCTGGTCGTCAAA
1 C-TGGTAGCCAACACTCACTCTGACTGTCAGACTTATGCTCATCACATAAATCCTGGTCG-CAGA
93961 AAGATGGAATT
64 AAGATGGAATT
* ** *
93972 CTGGTAGCCAACACTCACTCTGACTGTCAAACTTATGCTTTTCACATAAATCCCGGTCGCCAGAA
1 CTGGTAGCCAACACTCACTCTGACTGTCAGACTTATGCTCATCACATAAATCCTGGTCG-CAGAA
* * *
94037 GGACGGAATC
65 AGATGGAATT
* * * * * * * * *
94047 CTGGTAGCCAATATTTACTAT-AGCTGCCAGACTTGTACTC-GCTACATAAATCCTGGTTGTCA-
1 CTGGTAGCCAACACTCACTCTGA-CTGTCAGACTTATGCTCATC-ACATAAATCCTGGTCG-CAG
* *
94109 AAAGATAGAATC
63 AAAGATGGAATT
* **
94121 CTGATAGATAACACTCACTCTGACTG
1 CTGGTAGCCAACACTCACTCTGACTG
94147 CAAAATTTGT
Statistics
Matches: 194, Mismatches: 50, Indels: 14
0.75 0.19 0.05
Matches are distributed among these distances:
74 29 0.15
75 162 0.84
76 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (74 bp):
CTGGTAGCCAACACTCACTCTGACTGTCAGACTTATGCTCATCACATAAATCCTGGTCGCAGAAA
GATGGAATT
Found at i:95532 original size:26 final size:26
Alignment explanation
Indices: 95503--95623 Score: 93
Period size: 26 Copynumber: 4.7 Consensus size: 26
95493 AAGACACTCT
*
95503 GATCCTGCTCGCCACCATGGCACCAC
1 GATCCTGATCGCCACCATGGCACCAC
* *
95529 GATCTTGATCGCCACCATGGCATCAC
1 GATCCTGATCGCCACCATGGCACCAC
* ** * * *
95555 TATTGTTAAT-GACATCATGGCACTC-C
1 GA-TCCTGATCGCCACCATGGCAC-CAC
* * *
95581 GATCCTGCTAGCCACCATGGCACTAC
1 GATCCTGATCGCCACCATGGCACCAC
*
95607 GATCTTGATCGCCACCA
1 GATCCTGATCGCCACCA
95624 CGACATCAAT
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
25 3 0.04
26 62 0.87
27 6 0.08
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (26 bp):
GATCCTGATCGCCACCATGGCACCAC
Found at i:95792 original size:157 final size:156
Alignment explanation
Indices: 95491--96017 Score: 601
Period size: 157 Copynumber: 3.4 Consensus size: 156
95481 GGTCTCGATT
* * * * * * *
95491 CCAAGACACTCTGATCCTGCTCGCCACCATGGCACCACGATCTTGATCGCCACCATGGCATCACT
1 CCAAGTCACTCCGATCCTGCTAGCCACCATGTCACCACGATCCTGATCGCCACCACGGCATCAAT
* * * *
95556 ATTGTTAATGACATCATGGCACTCCGATCCTGCTAGCCACCATGGCACTACGATCTTGATCGCCA
66 ACTATTAATGACACCATGGCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCA
95621 CCACGACATCAATACTGTCAGTGGCA
131 CCACGACATCAATACTGTCAGTGGCA
* * *
95647 CCAAGTCACTCCGATCCCTGCTAGCCACCATGTCACTATGATCCTGATCGCCACCACGGCATCAG
1 CCAAGTCACTCCGAT-CCTGCTAGCCACCATGTCACCACGATCCTGATCGCCACCACGGCATCAA
* * * * * ** *
95712 TACTATTAGTGATACCAAGTCAATCTAATCCTGCTCA-CCACCATGGCA-TCCCGATCCTGATCG
65 TACTATTAATGACACCATGGCACTCCGATCCTGCT-AGCCACCATGGCACT-ACGATCCTGATCG
* * * *
95775 TCACCATGGCATCAATACTGTCAGTGACA
128 CCACCACGACATCAATACTGTCAGTGGCA
* * * ** * * * * *
95804 CCATGGCACTCCTGATCCTGCTAGCCATCATGTCATTATGACCCCGATCGCTACCATGGCATCAA
1 CCAAGTCACTCC-GATCCTGCTAGCCACCATGTCACCACGATCCTGATCGCCACCACGGCATCAA
* * *
95869 TACTATCAATGACACCATGGCACTCCGATCCTGCTAGCAACCATGGCACTACAATCCTGATCGCC
65 TACTATTAATGACACCATGGCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCC
*
95934 ACCACAACATCAATACTGTCAGTGGCA
130 ACCACGACATCAATACTGTCAGTGGCA
* * *
95961 CCAAGTCACTCCGATCCTGCTCGCCACCATAG-CACCACGATCCTAATTGCCACCACG
1 CCAAGTCACTCCGATCCTGCTAGCCACCAT-GTCACCACGATCCTGATCGCCACCACG
96018 ATATTAATAT
Statistics
Matches: 301, Mismatches: 63, Indels: 14
0.80 0.17 0.04
Matches are distributed among these distances:
156 47 0.16
157 249 0.83
158 5 0.02
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.22
Consensus pattern (156 bp):
CCAAGTCACTCCGATCCTGCTAGCCACCATGTCACCACGATCCTGATCGCCACCACGGCATCAAT
ACTATTAATGACACCATGGCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCA
CCACGACATCAATACTGTCAGTGGCA
Found at i:95937 original size:26 final size:26
Alignment explanation
Indices: 95881--95937 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
95871 CTATCAATGA
* * *
95881 CACCATGGCACTCCGATCCTGCTAGC
1 CACCATGGCACTACAATCCTGATAGC
* *
95907 AACCATGGCACTACAATCCTGATCGC
1 CACCATGGCACTACAATCCTGATAGC
95933 CACCA
1 CACCA
95938 CAACATCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (26 bp):
CACCATGGCACTACAATCCTGATAGC
Found at i:96034 original size:78 final size:78
Alignment explanation
Indices: 95491--96065 Score: 542
Period size: 78 Copynumber: 7.3 Consensus size: 78
95481 GGTCTCGATT
* * * * * * *
95491 CCAAGACACTCTGATCCTGCTCGCCACCATGGCACCACGATCTTGATCGCCACCATGGCATCACT
1 CCAAGTCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAAT
* * *
95556 ATTGTTAATGACA
66 ACTGTCAGTGACA
* * * * *
95569 TCATGGCACTCCGATCCTGCTAGCCACCATGGCACTACGATCTTGATCGCCACCACGACATCAAT
1 CCAAGTCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAAT
*
95634 ACTGTCAGTGGCA
66 ACTGTCAGTGACA
* * *
95647 CCAAGTCACTCCGATCCCTGCTAGCCACCATGTCACTATGATCCTGATCGCCACCACGGCATCAG
1 CCAAGTCACTCCGAT-CCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAA
* * *
95712 TACTATTAGTGATA
65 TACTGTCAGTGACA
* ** * * *
95726 CCAAGTCAATCTAATCCTGCTCA-CCACCATGGCA-TCCCGATCCTGATCGTCACCATGGCATCA
1 CCAAGTCACTCCGATCCTGCT-AGCCACCATGGCACT-ACGATCCTGATCGCCACCACGGCATCA
95789 ATACTGTCAGTGACA
64 ATACTGTCAGTGACA
* * * * * * * * * *
95804 CCATGGCACTCCTGATCCTGCTAGCCATCATGTCATTATGACCCCGATCGCTACCATGGCATCAA
1 CCAAGTCACTCC-GATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAA
* *
95869 TACTATCAATGACA
65 TACTGTCAGTGACA
* * * * **
95883 CCATGGCACTCCGATCCTGCTAGCAACCATGGCACTACAATCCTGATCGCCACCACAACATCAAT
1 CCAAGTCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAAT
*
95948 ACTGTCAGTGGCA
66 ACTGTCAGTGACA
* * * * * ** *
95961 CCAAGTCACTCCGATCCTGCTCGCCACCATAGCACCACGATCCTAATTGCCACCACGATATTAAT
1 CCAAGTCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAAT
* * *
96026 ATTATCAGTAACA
66 ACTGTCAGTGACA
* * * *
96039 CTAAGTCACTCCAATTCTGCTCGCCAC
1 CCAAGTCACTCCGATCCTGCTAGCCAC
96066 GTTGGCAATA
Statistics
Matches: 405, Mismatches: 86, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
77 1 0.00
78 273 0.67
79 130 0.32
80 1 0.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.23
Consensus pattern (78 bp):
CCAAGTCACTCCGATCCTGCTAGCCACCATGGCACTACGATCCTGATCGCCACCACGGCATCAAT
ACTGTCAGTGACA
Found at i:96641 original size:74 final size:74
Alignment explanation
Indices: 96520--96802 Score: 309
Period size: 76 Copynumber: 3.8 Consensus size: 74
96510 TAGCCAACCT
* *
96520 TGGTAGCCAACACTCACT-TTAGCTGCCAGACCTGTACTCGCCACATAAATCCTGATCGCTAAAA
1 TGGTAGCCAACACTCACTCTGA-CTGCCAGACCTGTGCTCGCCACATAAATCCTGATCGCTAAAA
*
96584 GGATGGAATC
65 GGACGGAATC
* * * * * * *
96594 TGGTAGCCAACACTCACTTTGACTGCTAAACCTGTGCTCACCACATAAATCCTGGTCACGAAAAG
1 TGGTAGCCAACACTCACTCTGACTGCCAGACCTGTGCTCGCCACATAAATCCTGATCGCTAAAAG
96659 GACGGAATTC
66 GACGGAA-TC
* * *
96669 TAGGTAGCCAACACTCACTCTGACTACCAGACCTGTGCTCGCCACATAAATCTTGATCG-TCAGA
1 T-GGTAGCCAACACTCACTCTGACTGCCAGACCTGTGCTCGCCACATAAATCCTGATCGCT-AAA
*
96733 AGGACAGAATC
64 AGGACGGAATC
* * * * * * *
96744 TTGATAGCCAATATTCACTCTAAGCTGCCAGACTTGTACTCGCTACATAAATCCTGATC
1 -TGGTAGCCAACACTCACTCTGA-CTGCCAGACCTGTGCTCGCCACATAAATCCTGATC
96803 AGTCAAAAAG
Statistics
Matches: 174, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
74 60 0.34
75 24 0.14
76 90 0.52
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (74 bp):
TGGTAGCCAACACTCACTCTGACTGCCAGACCTGTGCTCGCCACATAAATCCTGATCGCTAAAAG
GACGGAATC
Found at i:96855 original size:76 final size:72
Alignment explanation
Indices: 96522--96886 Score: 266
Period size: 76 Copynumber: 4.9 Consensus size: 72
96512 GCCAACCTTG
* * *
96522 GTAGCCAACACTCACT-TTAGCTGCCAGACCTGTACTCGCCACATAAATCCTGATCGCTAAAAGG
1 GTAGCCAACACTCACTCTGA-CTGCCAAACCTGTACTCGCCACATAAATCCTGATCGCAAAAAGG
*
96586 ATGGAATCTG
65 A--GAATCTA
* * * * * * *
96596 GTAGCCAACACTCACTTTGACTGCTAAACCTGTGCTCACCACATAAATCCTGGTCACGAAAAGGA
1 GTAGCCAACACTCACTCTGACTGCCAAACCTGTACTCGCCACATAAATCCTGATCGCAAAAAGGA
96661 CGGAATTCTA
66 --GAA-TCTA
* * * * *
96671 GGTAGCCAACACTCACTCTGACTACCAGACCTGTGCTCGCCACATAAATCTTGATCGTC-AGAAG
1 -GTAGCCAACACTCACTCTGACTGCCAAACCTGTACTCGCCACATAAATCCTGATCG-CAAAAAG
*
96735 GACAGAATCTT
64 G--AGAATCTA
* * * * * *
96746 GATAGCCAATATTCACTCTAAGCTGCCAGACTTGTACTCGCTACATAAATCCTGATCAGTCAAAA
1 G-TAGCCAACACTCACTCTGA-CTGCCAAACCTGTACTCGCCACATAAATCCTGATC-G-CAAAA
* *
96811 AGTTATAATCCTA
62 AG-GAGAAT-CTA
* * * * * * * *
96824 GTAGACAACACTCACTCTGACTGCTAAACTTGTGCTTGTCACTTAAATCCTTATCGCCAAAAA
1 GTAGCCAACACTCACTCTGACTGCCAAACCTGTACTCGCCACATAAATCCTGATCG-CAAAAA
96887 AATAAATCTC
Statistics
Matches: 234, Mismatches: 45, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
74 59 0.25
75 31 0.13
76 113 0.48
77 23 0.10
78 8 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (72 bp):
GTAGCCAACACTCACTCTGACTGCCAAACCTGTACTCGCCACATAAATCCTGATCGCAAAAAGGA
GAATCTA
Found at i:97325 original size:27 final size:25
Alignment explanation
Indices: 97266--97344 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 25
97256 AATCATTATT
97266 TATTAATT-AAAATAAATTTTTATTTAA
1 TATTAATTAAAAATAAATTTTTA---AA
* *
97293 -ATTTAATTATAAAT--ATTTATAAA
1 TA-TTAATTAAAAATAAATTTTTAAA
97316 TATTAATTAAAAATAAATTTTTAAA
1 TATTAATTAAAAATAAATTTTTAAA
97341 TATT
1 TATT
97345 TTATAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
23 13 0.30
24 1 0.02
25 12 0.28
26 7 0.16
27 6 0.14
28 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTAATTAAAAATAAATTTTTAAA
Found at i:97756 original size:14 final size:14
Alignment explanation
Indices: 97737--97775 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
97727 TTGTCAATTT
97737 TAAATATAATTATA
1 TAAATATAATTATA
*
97751 TAAATATAATAATA
1 TAAATATAATTATA
*
97765 -AAAAATAATTA
1 TAAATATAATTA
97776 AAATATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:97864 original size:20 final size:22
Alignment explanation
Indices: 97815--97865 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
97805 TCTCAAAACT
*
97815 TAAATAATTTGATATTAATATA
1 TAAATAATTTGATATAAATATA
*
97837 TCAA-AATTT-ATATAAATATA
1 TAAATAATTTGATATAAATATA
97857 -AAATAATTT
1 TAAATAATTT
97866 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 5 0.20
22 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAATAATTTGATATAAATATA
Found at i:98075 original size:27 final size:27
Alignment explanation
Indices: 98036--98089 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
98026 ATATTAAGTT
*
98036 TTTTGAATAATTAATAGTTATATTTTA
1 TTTTGAATAATTAATAGCTATATTTTA
*
98063 TTTTGAATGATTAATAGCTATATTTTA
1 TTTTGAATAATTAATAGCTATATTTTA
98090 CGAGGGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTGAATAATTAATAGCTATATTTTA
Found at i:98153 original size:27 final size:27
Alignment explanation
Indices: 98123--98176 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
98113 TTATTATATT
98123 TTTTAAGT-AGTCAATAATTATATTTTA
1 TTTTAAGTGA-TCAATAATTATATTTTA
* *
98150 TTTTGAGTGATTAATAATTATATTTTA
1 TTTTAAGTGATCAATAATTATATTTTA
98177 CGAGGTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTAAGTGATCAATAATTATATTTTA
Found at i:98378 original size:30 final size:30
Alignment explanation
Indices: 98342--98398 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
98332 TGCTTATTTA
*
98342 TTTATTTATTTATTGTTAAATGTTTTTGTG
1 TTTATTTATTTATTATTAAATGTTTTTGTG
*
98372 TTTATTTATTTATTATTGAATGTTTTT
1 TTTATTTATTTATTATTAAATGTTTTT
98399 TTTGGATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (30 bp):
TTTATTTATTTATTATTAAATGTTTTTGTG
Found at i:99375 original size:8 final size:8
Alignment explanation
Indices: 99348--99387 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
99338 TTATTGTTTG
*
99348 AAATAATA
1 AAATTATA
*
99356 AAAATATA
1 AAATTATA
99364 AAATTATA
1 AAATTATA
99372 AAATTAATA
1 AAATT-ATA
99381 AAATTAT
1 AAATTAT
99388 TTTATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTATA
Found at i:99680 original size:22 final size:22
Alignment explanation
Indices: 99655--99708 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
99645 ACTTTTAAAA
99655 ATATTAAAATAAA-ATTATTTTT
1 ATATTAAAATAAATA-TATTTTT
**
99677 ATATTAAAATTTATATATTTTT
1 ATATTAAAATAAATATATTTTT
*
99699 ATAATAAAAT
1 ATATTAAAAT
99709 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAAAATAAATATATTTTT
Found at i:99709 original size:22 final size:22
Alignment explanation
Indices: 99670--99711 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
99660 AAAATAAAAT
*
99670 TATTTTTATATTAAAATTTATA
1 TATTTTTATAATAAAATTTATA
99692 TATTTTTATAATAAAATTTA
1 TATTTTTATAATAAAATTTA
99712 AATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTATAATAAAATTTATA
Found at i:100780 original size:75 final size:74
Alignment explanation
Indices: 100583--100790 Score: 238
Period size: 75 Copynumber: 2.8 Consensus size: 74
100573 AAACCTCAGT
* ** * * *
100583 TTCCGACAAGAAAACAGTACCCAAATCATTGAAATCAAC-AACTACTGCTCCCAATCCCCCAACC
1 TTCCGACAAGAAAACAGAACCCAAATCATCAAAATCATCAAAC-ATTGCTCCCAATCCCACAACC
100647 AAACCTTCGA
65 AAACCTTCGA
** * * * *
100657 TTTTGAAAAAGAAAACAGAACCCAAATCGTCAAAATCATCAAATATTGCTCCCAATCCCACAGCC
1 TTCCG-ACAAGAAAACAGAACCCAAATCATCAAAATCATCAAACATTGCTCCCAATCCCACAACC
**
100722 AGGCCTTCGA
65 AAACCTTCGA
* *
100732 TCTCCGACAAGAAAACAGAACCCAAATCATCAAAATCATCAAACATTGCTTCCAGTCCC
1 T-TCCGACAAGAAAACAGAACCCAAATCATCAAAATCATCAAACATTGCTCCCAATCCC
100791 CCACCCGAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
74 3 0.03
75 103 0.94
76 4 0.04
ACGTcount: A:0.40, C:0.32, G:0.10, T:0.19
Consensus pattern (74 bp):
TTCCGACAAGAAAACAGAACCCAAATCATCAAAATCATCAAACATTGCTCCCAATCCCACAACCA
AACCTTCGA
Found at i:101295 original size:25 final size:27
Alignment explanation
Indices: 101233--101306 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 27
101223 TTATAATGAA
*
101233 TATAAATATAATAAATATAATTACAATC
1 TATAAA-ATAATAAATATAATTAAAATC
* *
101261 AATTATAATAATAAATA-AATTAAAAT-
1 TA-TAAAATAATAAATATAATTAAAATC
* *
101287 TATAAAATAATGATTATAAT
1 TATAAAATAATAAATATAAT
101307 ATCTTATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
25 11 0.30
26 4 0.11
27 8 0.22
28 11 0.30
29 3 0.08
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
TATAAAATAATAAATATAATTAAAATC
Found at i:103950 original size:12 final size:13
Alignment explanation
Indices: 103933--103966 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
103923 AAGATATAGT
103933 AAAAATAAAAT-A
1 AAAAATAAAATAA
*
103945 AAAAATAGAATAA
1 AAAAATAAAATAA
103958 AAAAATAAA
1 AAAAATAAA
103967 GCATGTGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:104122 original size:19 final size:19
Alignment explanation
Indices: 104094--104135 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104084 GTTTAATTTG
*
104094 AATTATTATTTATTAATTA
1 AATTAATATTTATTAATTA
* *
104113 AATTAATATTTTTTATTTA
1 AATTAATATTTATTAATTA
104132 AATT
1 AATT
104136 TAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTAATATTTATTAATTA
Found at i:104392 original size:17 final size:17
Alignment explanation
Indices: 104370--104407 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
104360 TAACTATACC
104370 AAAAGAAACCAAGAACA
1 AAAAGAAACCAAGAACA
104387 AAAAGAAACCAAGAACA
1 AAAAGAAACCAAGAACA
104404 AAAA
1 AAAA
104408 ACAAAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.74, C:0.16, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAGAAACCAAGAACA
Found at i:104633 original size:16 final size:16
Alignment explanation
Indices: 104612--104665 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
104602 ACGTTATAAA
*
104612 TATATATTTTAAAATT
1 TATATATATTAAAATT
* * *
104628 TATATAAAATAAATTAT
1 TATATATATTAAAAT-T
104645 TA-ATATATTAAAATT
1 TATATATATTAAAATT
104660 TATATA
1 TATATA
104666 AATATAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATATATTAAAATT
Found at i:104943 original size:8 final size:8
Alignment explanation
Indices: 104898--104945 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
104888 ATAAAAAAAT
104898 ATAA-ATA
1 ATAATATA
104905 ATAATATA
1 ATAATATA
104913 A-AA-ATA
1 ATAATATA
* *
104919 ATATTTTA
1 ATAATATA
104927 ATAAT-TA
1 ATAATATA
104934 ATAATATA
1 ATAATATA
104942 ATAA
1 ATAA
104946 ATAGTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
6 4 0.12
7 14 0.41
8 16 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:105155 original size:24 final size:26
Alignment explanation
Indices: 105127--105178 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105117 GAATGTAACG
105127 TAAATA-ATATATAAAAATA-TAAAA
1 TAAATAGATATATAAAAATATTAAAA
*
105151 TAAATATGATATATAAATATATTAAAA
1 TAAATA-GATATATAAAAATATTAAAA
105178 T
1 T
105179 TTATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
26 12 0.50
27 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TAAATAGATATATAAAAATATTAAAA
Found at i:105185 original size:20 final size:19
Alignment explanation
Indices: 105160--105219 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
105150 ATAAATATGA
105160 TATATAAATATATTAAAATT
1 TATAT-AATATATTAAAATT
105180 TATATAA-A-A-T-AAA-T
1 TATATAATATATTAAAATT
105194 TA-ATAATATATTAAAATT
1 TATATAATATATTAAAATT
105212 TATATAAT
1 TATATAAT
105220 TATGTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 4 0.12
16 2 0.06
17 4 0.12
18 4 0.12
19 7 0.21
20 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:105195 original size:21 final size:22
Alignment explanation
Indices: 105129--105210 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 22
105119 ATGTAACGTA
105129 AATAATATATA-AAAATATAA--
1 AATAATATATATAAAATA-AATT
*
105149 AATAAATATGATATATAAATATATT
1 AAT-AATAT-ATATA-AAATAAATT
*
105174 AA-AATTTATATAAAATAAATT
1 AATAATATATATAAAATAAATT
105195 AATAATATAT-TAAAAT
1 AATAATATATATAAAAT
105211 TTATATAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.06
21 21 0.41
22 14 0.27
23 6 0.12
24 5 0.10
25 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (22 bp):
AATAATATATATAAAATAAATT
Found at i:105877 original size:3 final size:3
Alignment explanation
Indices: 105869--105908 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
105859 TTAGGTCATC
*
105869 TTA TTA TTA TTA TTA TTA TTA -TA TTT TTA -TA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
105909 GTTATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:105883 original size:9 final size:9
Alignment explanation
Indices: 105869--105908 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
105859 TTAGGTCATC
105869 TTATTATTA
1 TTATTATTA
105878 TTATTATTA
1 TTATTATTA
*
105887 TTA-TATTT
1 TTATTATTA
105895 TTA-TATT-
1 TTATTATTA
105902 TTATTAT
1 TTATTAT
105909 GTTATATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 3 0.10
8 14 0.48
9 12 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATTATTA
Found at i:105918 original size:21 final size:22
Alignment explanation
Indices: 105876--105918 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
105866 ATCTTATTAT
*
105876 TATTATTATTATTATATTTTTA
1 TATTATTATTATTATATATTTA
105898 TATT-TTATTATGT-TATATTTA
1 TATTATTATTAT-TATATATTTA
105919 AAATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTATTATTATATATTTA
Found at i:105944 original size:16 final size:16
Alignment explanation
Indices: 105910--105970 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
105900 TTTTATTATG
105910 TTATATTT-AAAATAT
1 TTATATTTAAAAATAT
105925 TTATATTTAAAAATTATTATT
1 TTATATTT-AAAA--A-TA-T
105946 TTATATTT-AAAATATT
1 TTATATTTAAAAATA-T
105962 TTATATTTA
1 TTATATTTA
105971 TGTAAATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.21
16 12 0.31
17 4 0.10
19 4 0.10
20 2 0.05
21 9 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTTAAAAATAT
Found at i:105950 original size:21 final size:22
Alignment explanation
Indices: 105921--105971 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
105911 TATATTTAAA
105921 ATATTTATATTTAAAA-ATTATT
1 ATATTTATATTTAAAATATT-TT
105943 AT-TTTATATTTAAAATATTTT
1 ATATTTATATTTAAAATATTTT
105964 ATATTTAT
1 ATATTTAT
105972 GTAAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTTATATTTAAAATATTTT
Found at i:106074 original size:13 final size:13
Alignment explanation
Indices: 106033--106090 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 13
106023 TTATATATTC
106033 ATATTGTTTATAT-
1 ATATT-TTTATATA
**
106046 -TATTTTTATACC
1 ATATTTTTATATA
106058 ATATTTTTATATA
1 ATATTTTTATATA
106071 ATA-TTTTA-ATA
1 ATATTTTTATATA
*
106082 ATAATTTTA
1 ATATTTTTA
106091 GTTTCTCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 12 0.31
12 14 0.36
13 13 0.33
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (13 bp):
ATATTTTTATATA
Found at i:111244 original size:28 final size:28
Alignment explanation
Indices: 111212--111274 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
111202 GAGCAGAAAA
*
111212 ATCTCATACTCTTCATAATACCTTAAGT
1 ATCTCATACTCTTCATAATACCTAAAGT
*
111240 ATCTCATGCTCTTCATAATACCTAAAGT
1 ATCTCATACTCTTCATAATACCTAAAGT
111268 -TCTCATA
1 ATCTCATA
111275 ATTAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (28 bp):
ATCTCATACTCTTCATAATACCTAAAGT
Found at i:112287 original size:2 final size:2
Alignment explanation
Indices: 112282--112306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112272 GAAATCCATC
112282 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
112307 TTCAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115715 original size:14 final size:15
Alignment explanation
Indices: 115696--115724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115686 TTTAAAATTA
115696 TTTTA-TAATTAAAT
1 TTTTATTAATTAAAT
115710 TTTTATTAATTAAAT
1 TTTTATTAATTAAAT
115725 AATAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATTAATTAAAT
Found at i:116156 original size:20 final size:20
Alignment explanation
Indices: 116107--116159 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
116097 ATTATTTTAT
*
116107 TATATCATATAATCATATTA
1 TATATAATATAATCATATTA
* *
116127 TATTTAATATTATCATATATA
1 TATATAATATAATCATAT-TA
116148 TATATATATATA
1 TATATA-ATATA
116160 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 15 0.58
21 7 0.27
22 4 0.15
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATAATATAATCATATTA
Found at i:116460 original size:12 final size:12
Alignment explanation
Indices: 116443--116467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116433 TAAGTTCGAA
116443 TTATTTAAAATT
1 TTATTTAAAATT
116455 TTATTTAAAATT
1 TTATTTAAAATT
116467 T
1 T
116468 AGTTCGAACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTAAAATT
Found at i:118789 original size:21 final size:18
Alignment explanation
Indices: 118761--118800 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
118751 TTTATTAATT
118761 AAATTTAATTATAAAATATA
1 AAATTTAA-TATAAAA-ATA
118781 AAATATTAATATAAAAATA
1 AAAT-TTAATATAAAAATA
118800 A
1 A
118801 TTATATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTAATATAAAAATA
Found at i:119715 original size:20 final size:21
Alignment explanation
Indices: 119660--119715 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
119650 CATAATCTTG
*
119660 ATAATT-TATGTATTTATAAT
1 ATAATTATATTTATTTATAAT
*
119680 ATAATTATATATTTTATTT-TATT
1 ATAA-T-TATA-TTTATTTATAAT
119703 ATAATTATATTTA
1 ATAATTATATTTA
119716 AAATATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 2 0.07
23 9 0.30
24 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATAATTATATTTATTTATAAT
Found at i:119752 original size:30 final size:30
Alignment explanation
Indices: 119673--119752 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
119663 ATTTATGTAT
* *
119673 TTATAA-TAT-AATTATATATTTTATTTTA
1 TTATAATTATAAATAATATATTTTATATTA
** *
119701 TTATAATTATATTTAAAATATTTTATATT-
1 TTATAATTATAAATAATATATTTTATATTA
*
119730 TTATAAATTTTAAATAATATATT
1 TTAT-AATTATAAATAATATATT
119753 CATACTATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 6 0.15
29 7 0.17
30 27 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTATAATTATAAATAATATATTTTATATTA
Found at i:121500 original size:47 final size:47
Alignment explanation
Indices: 121425--121523 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 47
121415 GCATTAGAGA
** *
121425 AGTT-AGATAAGTGTAGATTGGGAGCCCTGGTTGGCTAGACAAGTTT
1 AGTTAAGATAAGCATAGACTGGGAGCCCTGGTTGGCTAGACAAGTTT
* *
121471 GGTTAAGATAAGCATAGACTGGGCGCCCTGGTTGGCTAGACAAGTTT
1 AGTTAAGATAAGCATAGACTGGGAGCCCTGGTTGGCTAGACAAGTTT
121518 AGTTAA
1 AGTTAA
121524 TCCAATTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 3 0.07
47 43 0.93
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.28
Consensus pattern (47 bp):
AGTTAAGATAAGCATAGACTGGGAGCCCTGGTTGGCTAGACAAGTTT
Done.