Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold218
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: 193631
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 1 of 2
Found at i:311 original size:25 final size:25
Alignment explanation
Indices: 258--315 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
248 TTGCATATTG
* *
258 ATTTTATTAAATTATATTCCACTTA
1 ATTTTATTAAATTATATTCAAATTA
283 ATTTTATTATTAATTATATT-AAATT-
1 ATTTTATTA--AATTATATTCAAATTA
308 A-TTTATTA
1 ATTTTATTA
316 CTACTTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 7 0.24
25 10 0.34
26 3 0.10
27 9 0.31
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTATTAAATTATATTCAAATTA
Found at i:996 original size:14 final size:15
Alignment explanation
Indices: 977--1006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
967 TTTACATTAT
977 TTTTAA-TTAAATCA
1 TTTTAATTTAAATCA
991 TTTTAATTTAAATCA
1 TTTTAATTTAAATCA
1006 T
1 T
1007 CTTTTCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAATTTAAATCA
Found at i:3266 original size:13 final size:13
Alignment explanation
Indices: 3248--3291 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
3238 TTTTTTAAAA
3248 AAATATTTATATT
1 AAATATTTATATT
3261 AAATATTTATATT
1 AAATATTTATATT
** *
3274 CGATATATAT-TT
1 AAATATTTATATT
3286 AAATAT
1 AAATAT
3292 AAATAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
AAATATTTATATT
Found at i:3303 original size:17 final size:17
Alignment explanation
Indices: 3280--3322 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
3270 TATTCGATAT
3280 ATATTTAAATATA-AATA
1 ATATTTAAATATATAA-A
*
3297 ATTTTTAAATATATAAA
1 ATATTTAAATATATAAA
3314 ATATTTAAA
1 ATATTTAAA
3323 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATTTAAATATATAAA
Found at i:4787 original size:14 final size:15
Alignment explanation
Indices: 4761--4789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4751 ATATATATAT
4761 ATATAATAAATATGA
1 ATATAATAAATATGA
4776 ATATAA-AAATATGA
1 ATATAATAAATATGA
4790 TTCTCGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
ATATAATAAATATGA
Found at i:5104 original size:20 final size:19
Alignment explanation
Indices: 5077--5138 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 19
5067 TATTTAAAAT
5077 ATTTT-ATAT-TTATATAA
1 ATTTTAATATATTATATAA
5094 ATTTTAATATATTA-AT-A
1 ATTTTAATATATTATATAA
5111 A--TT--TATATTATATAA
1 ATTTTAATATATTATATAA
*
5126 ATTTTAAAATATT
1 ATTTTAATATATT
5139 TGTATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 7 0.19
14 2 0.06
15 4 0.11
17 9 0.25
18 6 0.17
19 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATATATTATATAA
Found at i:5125 original size:32 final size:33
Alignment explanation
Indices: 5074--5138 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
5064 TTATATTTAA
* *
5074 AATATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTTAAAATATT
5107 AATAATTTATA-TTATATAAATTTTAAAATATT
1 AATAATTTATATTTATATAAATTTTAAAATATT
5139 TGTATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAAAATATT
Found at i:5131 original size:16 final size:17
Alignment explanation
Indices: 5064--5131 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 17
5054 CATAATATAA
*
5064 TTATATT-TAAAATATT
1 TTATATTATATAATATT
5080 TTATATTTATATAA-ATT
1 TTATA-TTATATAATATT
*
5097 TTA-A-TATATTAATAAT
1 TTATATTATA-TAATATT
5113 TTATATTATATAA-ATT
1 TTATATTATATAATATT
5129 TTA
1 TTA
5132 AAATATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.09
15 3 0.07
16 16 0.37
17 12 0.28
18 8 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATTATATAATATT
Found at i:5155 original size:32 final size:31
Alignment explanation
Indices: 5081--5156 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
5071 TAAAATATTT
* *
5081 TATATTTATATAAATTTTAATATATTAATAA
1 TATATATATATAAATTTTAAAATATTAATAA
* **
5112 TTTATATTATATAAATTTTAAAATATTTGTATA
1 TATATA-TATATAAATTTTAAAATATTAATA-A
5145 TATATATATATA
1 TATATATATATA
5157 TATATCTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 4 0.11
32 27 0.73
33 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TATATATATATAAATTTTAAAATATTAATAA
Found at i:9323 original size:6 final size:6
Alignment explanation
Indices: 9312--9345 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
9302 TTCCAAAACC
9312 CAAAAA CAAAAA CAAAAA C-AAAA -AAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
9346 AATCCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 8 0.31
6 18 0.69
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:9329 original size:12 final size:12
Alignment explanation
Indices: 9312--9345 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
9302 TTCCAAAACC
9312 CAAAAACAAAAA
1 CAAAAACAAAAA
9324 CAAAAAC-AAAA
1 CAAAAACAAAAA
9335 -AAAAACAAAAA
1 CAAAAACAAAAA
9346 AATCCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 8 0.38
12 7 0.33
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAACAAAAA
Found at i:9340 original size:16 final size:17
Alignment explanation
Indices: 9314--9345 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9304 CCAAAACCCA
9314 AAAACAAAAACAAAAAC
1 AAAACAAAAACAAAAAC
9331 AAAA-AAAAACAAAAA
1 AAAACAAAAACAAAAA
9346 AATCCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAACAAAAAC
Found at i:9353 original size:10 final size:10
Alignment explanation
Indices: 9313--9347 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
9303 TCCAAAACCC
9313 AAAAACAAAAA
1 AAAAAC-AAAA
9324 CAAAAACAAAA
1 -AAAAACAAAA
9335 AAAAACAAAA
1 AAAAACAAAA
9345 AAA
1 AAA
9348 TCCAAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 4 0.17
12 6 0.26
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:11149 original size:22 final size:22
Alignment explanation
Indices: 11114--11155 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11104 AATTTTTATT
11114 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
11136 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
11156 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:11261 original size:18 final size:18
Alignment explanation
Indices: 11238--11275 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
11228 ATTTTAACCT
11238 TATCTAGTCAAACATGAA
1 TATCTAGTCAAACATGAA
11256 TATCTAGTCAAACATGAA
1 TATCTAGTCAAACATGAA
11274 TA
1 TA
11276 CTTTTGATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (18 bp):
TATCTAGTCAAACATGAA
Found at i:12073 original size:16 final size:16
Alignment explanation
Indices: 12052--12088 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
12042 CTTCCAACTC
12052 AATTTAATAATTATT-A
1 AATTTAA-AATTATTAA
12068 AATTT-AAATTATTAA
1 AATTTAAAATTATTAA
12083 AATTTA
1 AATTTA
12089 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.37
15 7 0.37
16 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTAAAATTATTAA
Found at i:12148 original size:6 final size:6
Alignment explanation
Indices: 12131--12176 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
12121 TTTTTTAAAA
*
12131 AAATTT -AATTT AAATTT AAATTT AAATAT AAATAATT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAAT--TT AAATTT AAA
12177 ATCAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.14
6 25 0.71
8 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
AAATTT
Found at i:12402 original size:27 final size:28
Alignment explanation
Indices: 12348--12402 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
12338 TTCAAGTAGA
* *
12348 TTATATAATTTTTATATTTGTATTTTAT
1 TTATATAATTTTTACATTTGTATGTTAT
12376 TTATAT-ATTTTTACATTT-TATAGTTAT
1 TTATATAATTTTTACATTTGTAT-GTTAT
12403 ATTTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (28 bp):
TTATATAATTTTTACATTTGTATGTTAT
Found at i:12737 original size:21 final size:21
Alignment explanation
Indices: 12700--12739 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12690 TATTTTTATT
*
12700 TAAATTTAATTATAAAATATA
1 TAAATTTAATTAAAAAATATA
12721 TAAATATTAA-TAAAAAATA
1 TAAAT-TTAATTAAAAAATA
12740 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATTTAATTAAAAAATATA
Found at i:16532 original size:62 final size:62
Alignment explanation
Indices: 16414--16532 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
16404 GTATAATATA
* * * *
16414 ATTCATAAATATTATAAAATATATTAATAATTAAATTTAATATTTTAAGATTTTGAATCATG
1 ATTCATAAATATTATAAAACATACTAATAATTAAATTTAATACTTTAAGATCTTGAATCATG
**
16476 ATTCATAAATATTATTGAACATACTAATAATTAAATTTAATACTTT-AGAATCTTGAA
1 ATTCATAAATATTATAAAACATACTAATAATTAAATTTAATACTTTAAG-ATCTTGAA
16533 CCTATTAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 2 0.04
62 48 0.96
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (62 bp):
ATTCATAAATATTATAAAACATACTAATAATTAAATTTAATACTTTAAGATCTTGAATCATG
Found at i:16645 original size:23 final size:22
Alignment explanation
Indices: 16609--16679 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
16599 CTGAACGTTT
16609 ATAAAATAT-TTAAATAAATGA
1 ATAAAATATATTAAATAAATGA
* *
16630 TTAAAATATATCTAAAT-AATTA
1 ATAAAATATAT-TAAATAAATGA
*
16652 ATAAAGATATATATAAAT-AATCA
1 ATAAA-ATATAT-TAAATAAATGA
16675 ATAAA
1 ATAAA
16680 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 25 0.60
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
ATAAAATATATTAAATAAATGA
Found at i:16680 original size:23 final size:23
Alignment explanation
Indices: 16631--16681 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
16621 AATAAATGAT
* *
16631 TAAA-ATATATCTAAATAATTAA
1 TAAAGATATATATAAATAATCAA
16653 TAAAGATATATATAAATAATCAA
1 TAAAGATATATATAAATAATCAA
16676 TAAAGA
1 TAAAGA
16682 GATTTGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAGATATATATAAATAATCAA
Found at i:17289 original size:2 final size:2
Alignment explanation
Indices: 17242--17280 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
17232 TAACATACTC
17242 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17281 CACATATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17824 original size:24 final size:24
Alignment explanation
Indices: 17767--17835 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
17757 TATACTTAAC
*
17767 ATATAAATTT-AATCTT-TATATT
1 ATATAAATTTAAATATTATATATT
*
17789 ATAATTATATTTAAATATTATATATT
1 AT-A-TAAATTTAAATATTATATATT
17815 ATATAAATTTTAACATATTAT
1 ATATAAA-TTTAA-ATATTAT
17836 TAGTTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.05
23 1 0.03
24 9 0.24
25 11 0.29
26 15 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATAAATTTAAATATTATATATT
Found at i:17853 original size:7 final size:7
Alignment explanation
Indices: 17783--17819 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
17773 ATTTAATCTT
17783 TATATTA
1 TATATTA
17790 TA-ATTA
1 TATATTA
17796 TAT-TTA
1 TATATTA
*
17802 AATATTA
1 TATATTA
17809 TATATTA
1 TATATTA
17816 TATA
1 TATA
17820 AATTTTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TATATTA
Found at i:17887 original size:24 final size:23
Alignment explanation
Indices: 17839--17883 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17829 ATATTATTAG
17839 TTTATATTATATATTTTAATAAA
1 TTTATATTATATATTTTAATAAA
* *
17862 TTTATATT-TATATCTTATTAAA
1 TTTATATTATATATTTTAATAAA
17884 AATTAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATATTATATATTTTAATAAA
Found at i:19042 original size:12 final size:11
Alignment explanation
Indices: 19015--19052 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19005 TGTTCACTTC
*
19015 CTTTCTTTTTT
1 CTTTTTTTTTT
19026 CTTTTTTTTTT
1 CTTTTTTTTTT
*
19037 C-ATTTTTTTT
1 CTTTTTTTTTT
19047 CTTTTT
1 CTTTTT
19053 ATTAACTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:22612 original size:3 final size:3
Alignment explanation
Indices: 22606--22638 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22596 AAAAAAAAAA
22606 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
22639 GATGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:28033 original size:30 final size:31
Alignment explanation
Indices: 27999--28057 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
27989 TCAATTTAGA
27999 TTTAAAATAAAT-AAT-ATTATATTTTAAATG
1 TTTAAAATAAATAAATAATTA-ATTTTAAATG
* *
28029 TTTAAATTTAATAAATAATTAATTTTAAA
1 TTTAAAATAAATAAATAATTAATTTTAAA
28058 AGTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 11 0.44
32 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTAAAATAAATAAATAATTAATTTTAAATG
Found at i:28095 original size:23 final size:23
Alignment explanation
Indices: 28062--28133 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
28052 TTTAAAAGTT
28062 AATTTTATTTTTTTATAAATATAA
1 AATTTT-TTTTTTTATAAATATAA
* *
28086 AATTTTTTTTATAATAAATATATCTA
1 AATTTTTTTTTTTATAAATATA---A
* *
28112 AA-TTTATTATTTATAAATATAA
1 AATTTTTTTTTTTATAAATATAA
28134 TGTGAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.36
24 6 0.15
25 15 0.38
26 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
AATTTTTTTTTTTATAAATATAA
Found at i:28156 original size:13 final size:13
Alignment explanation
Indices: 28138--28167 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28128 ATATAATGTG
*
28138 AATTTAAATGATA
1 AATTTAAATAATA
28151 AATTTAAATAATA
1 AATTTAAATAATA
28164 AATT
1 AATT
28168 ATTTTATAAA
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:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
AATTTAAATAATA
Found at i:28194 original size:14 final size:15
Alignment explanation
Indices: 28139--28208 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 15
28129 TATAATGTGA
*
28139 ATTTAAATGAT-AA-
1 ATTTAAATAATAAAT
28152 ATTTAAATAATAAATT
1 ATTTAAATAATAAA-T
*
28168 ATTTTATAAAAATAATAT
1 A-TTTA-AATAATAA-AT
28186 AATTTAAATAATAAAT
1 -ATTTAAATAATAAAT
28202 ATTTAAA
1 ATTTAAA
28209 AATTTATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
13 10 0.21
14 2 0.04
15 7 0.15
16 3 0.06
17 11 0.23
18 12 0.26
19 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (15 bp):
ATTTAAATAATAAAT
Found at i:28219 original size:48 final size:49
Alignment explanation
Indices: 28096--28219 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
28086 AATTTTTTTT
* ** * *
28096 ATAATAAATATATCTAAATTTAT-TATTTATAAATATAATGTGAATTTAA
1 ATAATAAATATTTAAAAATTTATAT-TTTATAAAAATAATATGAATTTAA
* **
28145 ATGAT-AA-ATTTAAATAATAAATTATTTTATAAAAATAATAT-AATTTAA
1 ATAATAAATATTTAAA-AATTTA-TATTTTATAAAAATAATATGAATTTAA
28193 ATAATAAATATTTAAAAATTTATATTT
1 ATAATAAATATTTAAAAATTTATATTT
28220 ATTTTAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
47 4 0.07
48 22 0.37
49 25 0.42
50 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (49 bp):
ATAATAAATATTTAAAAATTTATATTTTATAAAAATAATATGAATTTAA
Found at i:28567 original size:16 final size:16
Alignment explanation
Indices: 28548--28605 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
28538 TTAATAAGTT
28548 TAAATTTTAATATTTA
1 TAAATTTTAATATTTA
** *
28564 TAAATTTTTTTATTTT
1 TAAATTTTAATATTTA
* *
28580 TAAATTATAATTTTTA
1 TAAATTTTAATATTTA
*
28596 AATAATTTTA
1 TA-AATTTTA
28606 TTAATTAAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
16 25 0.81
17 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATTTTAATATTTA
Found at i:28605 original size:30 final size:32
Alignment explanation
Indices: 28546--28607 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
28536 ATTTAATAAG
* **
28546 TTTAAATTTTAATATTTATAAATTTTTTTATT
1 TTTAAATTATAATATTTATAAATAATTTTATT
28578 TTTAAATTATAAT-TTT-TAAATAATTTTATT
1 TTTAAATTATAATATTTATAAATAATTTTATT
28608 AATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 12 0.44
31 3 0.11
32 12 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTAAATTATAATATTTATAAATAATTTTATT
Found at i:29185 original size:17 final size:17
Alignment explanation
Indices: 29160--29192 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29150 ATCTATGCTA
29160 TGTACATCTATATACTC
1 TGTACATCTATATACTC
*
29177 TGTATATCTATATACT
1 TGTACATCTATATACT
29193 ATATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (17 bp):
TGTACATCTATATACTC
Found at i:29199 original size:17 final size:17
Alignment explanation
Indices: 29165--29199 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29155 TGCTATGTAC
* *
29165 ATCTATATACTCTGTAT
1 ATCTATATACTATATAT
29182 ATCTATATACTATATAT
1 ATCTATATACTATATAT
29199 A
1 A
29200 ATAGGAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (17 bp):
ATCTATATACTATATAT
Found at i:29679 original size:10 final size:11
Alignment explanation
Indices: 29645--29678 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
29635 AAGGAGATCT
29645 AAATT-TAAAA
1 AAATTATAAAA
29655 AAATTATAAAA
1 AAATTATAAAA
29666 AAATTATAGAAA
1 AAATTATA-AAA
29678 A
1 A
29679 TAAAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 13 0.59
12 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAATTATAAAA
Found at i:30519 original size:52 final size:53
Alignment explanation
Indices: 30463--30571 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 53
30453 ACTTGAAGAA
* *
30463 TAATTATTGT-ATAAAAAATAAT-AATGTAATT-TGATTTTAAATTTTTGAAATT
1 TAATTATT-TAATAAAAAATAATAAATGTAATTATAATTTTAAA-TTTTAAAATT
** * *
30515 TAATTATTTAATATTAGATAATAAATTTAATTATAATTTTAAATTTTAAAATT
1 TAATTATTTAATAAAAAATAATAAATGTAATTATAATTTTAAATTTTAAAATT
30568 TAAT
1 TAAT
30572 AAATTGGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
51 1 0.02
52 17 0.35
53 21 0.44
54 9 0.19
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.50
Consensus pattern (53 bp):
TAATTATTTAATAAAAAATAATAAATGTAATTATAATTTTAAATTTTAAAATT
Found at i:31200 original size:25 final size:25
Alignment explanation
Indices: 31145--31230 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 25
31135 GGTACGGTCT
31145 ATTTTACTATTATATAATATATATTA
1 ATTTTA-TATTATATAATATATATTA
*
31171 ATTTTATATTTTAT-ATAT-TATGTA
1 ATTTTATATTATATAATATATAT-TA
* *
31195 ATTTTTATAATATAAAAATATATATATA
1 A-TTTTATATTAT-ATAATATATAT-TA
*
31223 ATATTATA
1 ATTTTATA
31231 ATGTAAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.06
24 7 0.14
25 16 0.33
26 7 0.14
27 10 0.20
28 6 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
ATTTTATATTATATAATATATATTA
Found at i:31669 original size:29 final size:29
Alignment explanation
Indices: 31635--31699 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
31625 TTATAATTAA
31635 ATTTAATGTTAAATATCATATCAATATTT
1 ATTTAATGTTAAATATCATATCAATATTT
* *
31664 ATTTAATGTTAAATATTATATTAATATTT
1 ATTTAATGTTAAATATCATATCAATATTT
*
31693 ACTTAAT
1 ATTTAAT
31700 TATATTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTAATGTTAAATATCATATCAATATTT
Found at i:35868 original size:15 final size:17
Alignment explanation
Indices: 35812--35857 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 17
35802 TCGAATTTAA
35812 ATATATTTAAATATAAAT
1 ATATATTT-AATATAAAT
35830 AT-TA---AATATAAAT
1 ATATATTTAATATAAAT
35843 ATATATTTAATATAA
1 ATATATTTAATATAA
35858 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.46
14 2 0.08
17 9 0.38
18 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATTTAATATAAAT
Found at i:36753 original size:22 final size:21
Alignment explanation
Indices: 36722--36762 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36712 ATTTTTTATT
*
36722 TAAATTTAATTATAAAATATA
1 TAAATTTAATTAAAAAATATA
36743 TAAATATTAATTAAAAAATA
1 TAAAT-TTAATTAAAAAATA
36763 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTTAATTAAAAAATATA
Found at i:37595 original size:21 final size:22
Alignment explanation
Indices: 37555--37595 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37545 TTATTTACTT
* *
37555 TTTTGTATTTTTGTATTTTTCC
1 TTTTGTATTTATGAATTTTTCC
37577 TTTTGT-TTTATGAATTTTT
1 TTTTGTATTTATGAATTTTT
37596 GGTGGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.73
Consensus pattern (22 bp):
TTTTGTATTTATGAATTTTTCC
Found at i:38199 original size:167 final size:166
Alignment explanation
Indices: 37918--38244 Score: 485
Period size: 167 Copynumber: 2.0 Consensus size: 166
37908 TGGTCTTTGC
* * * * * * *
37918 TTTAGCTTTGGGATGACTTTTCGCAGCTATCATAGCTGCAGCTTTCTTTGATCTTCTTAAAAGCT
1 TTTAGCTCTGAGATGACTTTTCGCAACTATCATAGATGCAGCTGTCTTTGATATTCTTAAAAACT
*
37983 CTTTGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCGAAACTATGACTAGATTTTGTC
66 CTTTGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCGAAACTATGACTAAATTTTGTC
*
38048 ATATAATATTTCAGAACATATGTCATTGTCAGCATT
131 ATATAATAGTTCAGAACATATGTCATTGTCAGCATT
* * *
38084 TTTAGCTCTGAGATGAGTTTTCTCAACTATCATAGATGCCGCTGTCTTTGATATTCTTAAAAAAC
1 TTTAGCTCTGAGATGACTTTTCGCAACTATCATAGATGCAGCTGTCTTTGATATTCTT-AAAAAC
* * *
38149 TCTTTGATGCAGTATTTTTAAGAAG-TATTCGTCATCTGAAATCTGAAACTATGGCTAAATTTTG
65 TCTTTGATGCAGTATTTTTAAGAAGCT-TTCATCATCTGAAATCCGAAACTATGACTAAATTTTG
*
38213 TGATATAATAGTTCAGAACATATGTCATTGTC
129 TCATATAATAGTTCAGAACATATGTCATTGTC
38245 GGTCTTAATA
Statistics
Matches: 143, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
166 50 0.35
167 93 0.65
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (166 bp):
TTTAGCTCTGAGATGACTTTTCGCAACTATCATAGATGCAGCTGTCTTTGATATTCTTAAAAACT
CTTTGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCGAAACTATGACTAAATTTTGTC
ATATAATAGTTCAGAACATATGTCATTGTCAGCATT
Found at i:38953 original size:341 final size:335
Alignment explanation
Indices: 38327--39322 Score: 1358
Period size: 341 Copynumber: 3.0 Consensus size: 335
38317 GGTCTTTGAC
*
38327 TTAGCTTTGAGATGACTTTTCT-TAACTATCATAGCTGCAATTGTCTTTGATCTTCTTAAAGCTC
1 TTAGCTTTGAGATGACTTTTCTCT-ACTATCATAGCTGCAACTGTCTTTGATCTTCTTAAAGCTC
* * * * *
38391 TTCGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCGACATTATGGTTAGATTTTGTTA
65 TTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGA
* *
38456 TATAATATTTCAGAACATATGTCATTGTCAGTCTTTTTAGCTTTGAGATGACTTTTCTCTACCAT
130 TATAATATTTCAGAACATATGTCATTGTCAGTCTTTTTAGCTTTGAGATGACTTTTCTCAACTAT
* * *
38521 CATAGCTGCAACTGTCTTTGAATTGATCTTCTTAAAGCTCTTCGATGCAGTATTTTTAAGAAGCT
195 CATAGCTGCAACTGTCTTTGAATTGATCTTCTTAAAGCTCTTTGATGCGGTATTTTTAAGAAGCA
* *
38586 TTCATCATCTGAAATCCAACATTATGGCTAGATTTTGTGATATAATATTTCAGAACATATGCCAT
260 TTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGATATAATATTTCAGAACATATGCCAT
38651 TGTCAGTCTTT
325 TGTCAGTCTTT
** *
38662 TTAGCTTTGAGATGACTTTTCTCTACTATCATATTTGCAACTGTCTTTGAATTGATCTTCTTAAG
1 TTAGCTTTGAGATGACTTTTCTCTACTATCATAGCTGCAACTGTC--T---TTGATCTTCTTAAA
* * * *
38727 GCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCGATATTATGGCTCGATTTT
61 GCTCTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGA-TTT
* * *
38792 TGTGATGTAATATTTCAGAAAATATGTCATTGTCAGTCTTTTTAGCATTGAGATGACTTTTCTCA
125 TGTGATATAATATTTCAGAACATATGTCATTGTCAGTCTTTTTAGCTTTGAGATGACTTTTCTCA
* * * *
38857 ACTATCATAGGTGCAACTGTCTTTGAATTGATCTTCTTAAGGCTTTTTGATGCGGTATTGTTAAG
190 ACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAAAGCTCTTTGATGCGGTATTTTTAAG
* *
38922 AAGCATTCATCATCTGAGATCCGATATTATGGCTTGATTTTGTGATATAATATTTCAGAACATAT
255 AAGCATTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGATATAATATTTCAGAACATAT
*
38987 GTCATTGTCAGTCTTT
320 GCCATTGTCAGTCTTT
* *
39003 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTTGATCTTCTGAAAGCTCT
1 TTAGCTTTGAGATGACTTTTCTCTACTATCATAGCTGCAACTGTCTTTGATCTTCTTAAAGCTCT
* * * * * *
39068 TTGATGCAGTATTGTTGAGAAGATTTCATCATCTAAAATCTGATATTATAGCAAGATTTTGTGAT
66 TTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGAT
* * * * * *
39133 ATACTATTCCAGAACATATGTCATTGTCAATCTTTTTAGCTTTGAGACGACTTTACTTAACTATC
131 ATAATATTTCAGAACATATGTCATTGTCAGTCTTTTTAGCTTTGAGATGACTTTTCTCAACTATC
*
39198 ATCGCTGCAACTGTC--T---TTGATCTTCTTAAAAGCTCTTTGATGCGGTATTTTTAAGAAGCC
196 ATAGCTGCAACTGTCTTTGAATTGATCTTCTT-AAAGCTCTTTGATGCGGTATTTTTAAGAAG-C
* * * ** * *
39258 ATCGCCTGAATTCCAAAATCCG-TAATTATGGCTAGATTTTGTGATATTATATTTCATAACATAT
259 AT-TCAT-CA-TCTGAAATCCGAT-ATTATGGCTAGATTTTGTGATATAATATTTCAGAACATAT
39322 G
320 G
39323 TTATTATTGC
Statistics
Matches: 580, Mismatches: 68, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
330 11 0.02
331 27 0.05
332 3 0.01
333 3 0.01
334 2 0.00
335 164 0.28
336 64 0.11
337 1 0.00
339 1 0.00
340 66 0.11
341 238 0.41
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (335 bp):
TTAGCTTTGAGATGACTTTTCTCTACTATCATAGCTGCAACTGTCTTTGATCTTCTTAAAGCTCT
TTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGAT
ATAATATTTCAGAACATATGTCATTGTCAGTCTTTTTAGCTTTGAGATGACTTTTCTCAACTATC
ATAGCTGCAACTGTCTTTGAATTGATCTTCTTAAAGCTCTTTGATGCGGTATTTTTAAGAAGCAT
TCATCATCTGAAATCCGATATTATGGCTAGATTTTGTGATATAATATTTCAGAACATATGCCATT
GTCAGTCTTT
Found at i:39151 original size:165 final size:167
Alignment explanation
Indices: 38327--39323 Score: 1297
Period size: 170 Copynumber: 5.9 Consensus size: 167
38317 GGTCTTTGAC
* *
38327 TTAGCTTTGAGATGACTTTTCTTAACTATCATAGCTGCAATTGTC-T-TTGATCTTCTTAAAGCT
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTATTGATCTTCTTAAAGCT
* * * * *
38390 CTTCGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCGACATTATGGTTAGATTTTGTT
66 CTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTG
38455 ATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
131 ATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
* *
38492 TTAGCTTTGAGATGACTTTTCTCTACCATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAAA
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTC-TT--ATTGATCTTCTTAAA
* * * *
38557 GCTCTTCGATGCAGTATTTTTAAGAAGCTTTCATCATCTGAAATCCAACATTATGGCTAGATTTT
63 GCTCTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTT
*
38622 GTGATATAATATTTCAGAACATATGCCATTGTCAGTCTTT
128 GTGATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
* ** *
38662 TTAGCTTTGAGATGACTTTTCTCTACTATCATATTTGCAACTGTCTTTGAATTGATCTTCTTAAG
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTC-TT--ATTGATCTTCTTAAA
* * * *
38727 GCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCGATATTATGGCTCGATTTT
63 GCTCTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGA-TTT
* *
38792 TGTGATGTAATATTTCAGAAAATATGTCATTGTCAGTCTTT
127 TGTGATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
* * *
38833 TTAGCATTGAGATGACTTTTCTCAACTATCATAGGTGCAACTGTCTTTGAATTGATCTTCTTAAG
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTC-TT--ATTGATCTTCTTAAA
* * * * *
38898 GCTTTTTGATGCGGTATTGTTAAGAAGCATTCATCATCTGAGATCCGATATTATGGCTTGATTTT
63 GCTCTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTT
38963 GTGATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
128 GTGATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
*
39003 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTC-T-TTGATCTTCTGAAAGCT
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTATTGATCTTCTTAAAGCT
* * * * * *
39066 CTTTGATGCAGTATTGTTGAGAAGATTTCATCATCTAAAATCTGATATTATAGCAAGATTTTGTG
66 CTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTG
* * *
39131 ATATACTATTCCAGAACATATGTCATTGTCAATCTTT
131 ATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
* * * *
39168 TTAGCTTTGAGACGACTTTACTTAACTATCATCGCTGCAACTGTC-T-TTGATCTTCTTAAAAGC
1 TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTATTGATCTTCTT-AAAGC
* * ** * * **
39231 TCTTTGATGCGGTATTTTTAAGAAGCCATCGCCTGAATTCCAAAATCCG-TAATTATGGCTAGAT
65 TCTTTGATGCAGTATTGTTAAGAAG-C-TTTCAT-CA-TCTGAAATCCGAT-ATTATGGCTAGAT
* *
39295 TTTGTGATATTATATTTCATAACATATGT
125 TTTGTGATATAATATTTCAGAACATATGT
39324 TATTATTGCT
Statistics
Matches: 750, Mismatches: 70, Indels: 19
0.89 0.08 0.02
Matches are distributed among these distances:
165 196 0.26
166 27 0.04
167 1 0.00
168 4 0.01
169 2 0.00
170 359 0.48
171 161 0.21
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (167 bp):
TTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTATTGATCTTCTTAAAGCT
CTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAAATCCGATATTATGGCTAGATTTTGTG
ATATAATATTTCAGAACATATGTCATTGTCAGTCTTT
Found at i:41476 original size:170 final size:166
Alignment explanation
Indices: 41122--41636 Score: 677
Period size: 170 Copynumber: 3.1 Consensus size: 166
41112 TGGTCTTTGC
* *
41122 TTTAGCTTTGGGATGACTTTTCTCAACTATCATAGCTGCAGCTGTC--T---TTGATCTTCTTAA
1 TTTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTT--
* * * *
41182 AAAGCTCTTTGATGCGGTACTT-TAAAGAAGCTTTCATCATCTGAAATCCGAA-ATTATGGCTAG
64 AAGGCTTTTTGATGCGGTA-TTGTTAAGAAGCTTTCATCATCTGAGATCC-AATATTATGGCT--
**
41245 ATTTTGTGAT-ATATTTCAGAACATATGCCATTGTCAGTCTT
125 ATTTTGTGATAATATTTCAGAACATATATCATTGTCAGTCTT
*
41286 TTTAGCTTTGAGATGACTTTTCTCTACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAA
1 TTTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAA
*
41351 GGCTTTTTGATGCAGTATTGTTAAGAAGCTTTCATCATCTGAGATCCAATATTATGGCTCATTTT
66 GGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCAATATTATGGCT-A-TTT
* *
41416 TGTGACGTAATATTTCAGAAAATATTTCATTGTCAGTCTT
129 TGTGA--TAATATTTCAGAACATATATCATTGTCAGTCTT
* *
41456 TTTAGCTTTGAGATGACTTTTCTCAACTATCATTGGTGCAACTGTCTTTGAATTGATCTTCTTAA
1 TTTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAA
* ** *
41521 GGTTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCTGATATCATGGCTTGATTT
66 GGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCAATATTATGGC-T-ATTT
*
41586 TGTGATATAATATTTCAGAACATGTATCATTGTCAGTCTT
129 TGTG--ATAATATTTCAGAACATATATCATTGTCAGTCTT
41626 TTTAGCTTTGA
1 TTTAGCTTTGA
41637 ATTGATCTTC
Statistics
Matches: 313, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
164 43 0.14
166 6 0.02
167 58 0.19
169 12 0.04
170 191 0.61
171 2 0.01
172 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (166 bp):
TTTAGCTTTGAGATGACTTTTCTCAACTATCATAGCTGCAACTGTCTTTGAATTGATCTTCTTAA
GGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCAATATTATGGCTATTTTG
TGATAATATTTCAGAACATATATCATTGTCAGTCTT
Found at i:41734 original size:130 final size:130
Alignment explanation
Indices: 41501--41762 Score: 436
Period size: 130 Copynumber: 2.0 Consensus size: 130
41491 GTGCAACTGT
*
41501 CTTTGAATTGATCTTCTTAAGGTTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGAT
1 CTTTGAATTGATCTTCTTAAGGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGAT
* * * *
41566 CTGATATCATGGCTTGATTTTGTGATATAATATTTCAGAACATGTATCATTGTCAGTCTTTTTAG
66 CCGATATCATGGCTCGATTTTGTGATATAATATTTCAGAACATATATCATTGTCAGCCTTTTTAG
*
41631 CTTTGAATTGATCTTCTTAAGGCTTTTTGATGTGGTATTGTTAAGAAGCTTTCATCATCTGAGAT
1 CTTTGAATTGATCTTCTTAAGGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGAT
* *
41696 CCGATAAT-ATGGCTCGATTTTGTGATATAATATTTCAGAACATATGTCGTTGTCAGCCTTTTTA
66 CCGAT-ATCATGGCTCGATTTTGTGATATAATATTTCAGAACATATATCATTGTCAGCCTTTTTA
41760 G
130 G
41761 CT
1 CT
41763 CTTAGATGAC
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
130 121 0.98
131 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (130 bp):
CTTTGAATTGATCTTCTTAAGGCTTTTTGATGCGGTATTGTTAAGAAGCTTTCATCATCTGAGAT
CCGATATCATGGCTCGATTTTGTGATATAATATTTCAGAACATATATCATTGTCAGCCTTTTTAG
Found at i:41924 original size:165 final size:165
Alignment explanation
Indices: 41638--42017 Score: 492
Period size: 165 Copynumber: 2.3 Consensus size: 165
41628 TAGCTTTGAA
* * ** * * * *
41638 TTGATCTTCTTAAGGCTTTTTGATGTGGTATTGTTAAGAAGCTTTCATCATCTGAGATCCGATAA
1 TTGATCTTCTTAAAGCTCTTTGATGCAGTATTGTTAACAAGATTTCATCATCTAAAATCCGATAA
* ** * * * *
41703 TATGGCTCGATTTTGTGATATAATATTTCAGAACATATGTCGTTGTCAGCCTTTTTAGCTCTT-A
66 TATAGCAAGATTTTGTGATATAATATTCCAGAACATATGTCATCGTCAACCTTTTTAGCT-TTGA
* * *
41767 GATGACTTTTCTCAACTATCATAGCTGCAACTGTCT
130 GACGACTTTACTCAACTATCATAACTGCAACTGTCT
* * *
41803 TTGATCTTCTTAAAGCTCTTTGATGCAGTATTGTTGACAAGATTTCATCATCTAAAATCTGATAT
1 TTGATCTTCTTAAAGCTCTTTGATGCAGTATTGTTAACAAGATTTCATCATCTAAAATCCGATAA
*
41868 TATAGCAAGATTTTGTGATATAATATTCCAGAACATATGTCATCGTCAATCTTTTTAGCTTTGAG
66 TATAGCAAGATTTTGTGATATAATATTCCAGAACATATGTCATCGTCAACCTTTTTAGCTTTGAG
*
41933 ACGACTTTACTCACCTATCATAACTGCAACTGTCT
131 ACGACTTTACTCAACTATCATAACTGCAACTGTCT
* * * *
41968 TTGATCTTCTTAAAAGTTCTTTGATGCAGTATTTTTAAGAAGCTTTCATC
1 TTGATCTTCTT-AAAGCTCTTTGATGCAGTATTGTTAACAAGATTTCATC
42018 GTCTGAACTC
Statistics
Matches: 185, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
164 2 0.01
165 150 0.81
166 33 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (165 bp):
TTGATCTTCTTAAAGCTCTTTGATGCAGTATTGTTAACAAGATTTCATCATCTAAAATCCGATAA
TATAGCAAGATTTTGTGATATAATATTCCAGAACATATGTCATCGTCAACCTTTTTAGCTTTGAG
ACGACTTTACTCAACTATCATAACTGCAACTGTCT
Found at i:45046 original size:29 final size:29
Alignment explanation
Indices: 45004--45061 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44994 TCACTTGGCA
45004 ATGAATTCGAGTGTAGTAACAATTAAGAG
1 ATGAATTCGAGTGTAGTAACAATTAAGAG
*
45033 ATGAATTCGAGTGTAGTCACAATTAAGAG
1 ATGAATTCGAGTGTAGTAACAATTAAGAG
45062 GTTTTAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (29 bp):
ATGAATTCGAGTGTAGTAACAATTAAGAG
Found at i:45113 original size:16 final size:16
Alignment explanation
Indices: 45092--45122 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45082 CCTAACGATA
45092 AATTTAAATTTAATCC
1 AATTTAAATTTAATCC
45108 AATTTAAATTTAATC
1 AATTTAAATTTAATC
45123 ACATTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTAAATTTAATCC
Found at i:48841 original size:170 final size:170
Alignment explanation
Indices: 48522--48859 Score: 423
Period size: 170 Copynumber: 2.0 Consensus size: 170
48512 CATCAAGAAG
* * *
48522 TTACTTTAGTTCCAAACTCAAAATAAGGTAAATGGGGGGAACAGAAGGAACACACAAAGGAATTA
1 TTACTTTAGATCCAAACTCAAAATAAGGTAAATAGGGGGAACAAAAGGAACACACAAAGGAATTA
* * * *
48587 CAAGATCATATTACGAACTAATCGAAACTCAGAACAATAATATGAGCCTGTTTCACTGTAAAAAA
66 CAAGAACAGAATACGAACTAATCGAAACTCAGAACAATAATACGAGCCTGTTTCAC-GTAAAAAA
* *
48652 ATCTTCTGCAACAGATACTTTAGGGAAATCTTGAATCAAAC
130 AGCTTCTGCAACAGATACTTTAGGGAAATCTAGAATCAAAC
* * * * *
48693 TTACTTTAGATCCAAACTCGAAGTAAGGTAAA-AGGGGG-ACAAACAGGAAGATACATAGGAATT
1 TTACTTTAGATCCAAACTCAAAATAAGGTAAATAGGGGGAACAAA-AGGAACACACAAAGGAATT
* * * *
48756 ACAAGAGCACAGAGATAGGAACTATTCGAAACTCAGAACAATAATACGAGCTTGTTTCAC-T-AT
65 ACAAGA--ACAGA-ATACGAACTAATCGAAACTCAGAACAATAATACGAGCCTGTTTCACGTAAA
* *
48819 AAAAGCTTCTGCAATAGATACTTTGGGGAAATCTAGAATCA
127 AAAAGCTTCTGCAACAGATACTTTAGGGAAATCTAGAATCA
48860 TATTAATTAA
Statistics
Matches: 143, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
169 4 0.03
170 65 0.45
171 30 0.21
172 3 0.02
173 41 0.29
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (170 bp):
TTACTTTAGATCCAAACTCAAAATAAGGTAAATAGGGGGAACAAAAGGAACACACAAAGGAATTA
CAAGAACAGAATACGAACTAATCGAAACTCAGAACAATAATACGAGCCTGTTTCACGTAAAAAAA
GCTTCTGCAACAGATACTTTAGGGAAATCTAGAATCAAAC
Found at i:49828 original size:22 final size:21
Alignment explanation
Indices: 49793--49834 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
49783 GAGAGTGGAT
*
49793 AATTTTTTATTTAATAAATTA
1 AATTTATTATTTAATAAATTA
*
49814 AATTTATTAGTTTAATTAATT
1 AATTTATTA-TTTAATAAATT
49835 TTTTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTATTATTTAATAAATTA
Found at i:49877 original size:26 final size:25
Alignment explanation
Indices: 49848--49914 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
49838 TAATATTTAA
49848 AAATATTTTAATATTAAATAAATAAT
1 AAATATTTTAATATTAAATAAA-AAT
*
49874 AAATATTATTTATAATT-AATAAAAAT
1 AAATATT-TTAAT-ATTAAATAAAAAT
*
49900 ATATA-TTTAAT-TTAA
1 AAATATTTTAATATTAA
49915 TCATATAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 4 0.11
25 1 0.03
26 14 0.40
27 10 0.29
28 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATATTTTAATATTAAATAAAAAT
Found at i:49915 original size:26 final size:26
Alignment explanation
Indices: 49846--49915 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 26
49836 TTTAATATTT
49846 AAAA-ATAT-TTTAATATTAAATAAATA
1 AAAATATATATTTAAT-TT-AATAAATA
*
49872 ATAAATAT-TATTT-A--TAATTAATA
1 A-AAATATATATTTAATTTAATAAATA
49895 AAAATATATATTTAATTTAAT
1 AAAATATATATTTAATTTAAT
49916 CATATAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
22 6 0.17
23 13 0.36
24 2 0.06
26 5 0.14
27 5 0.14
28 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAATATATATTTAATTTAATAAATA
Found at i:50970 original size:17 final size:17
Alignment explanation
Indices: 50948--50986 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
50938 ATATTATTTT
50948 AAAAATT-TTAAAGATAA
1 AAAAATTATTAAA-ATAA
50965 AAAAATTGATTAAAATAA
1 AAAAATT-ATTAAAATAA
50983 AAAA
1 AAAA
50987 TAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 8 0.40
19 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAATTATTAAAATAA
Found at i:53706 original size:3 final size:3
Alignment explanation
Indices: 53698--53722 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
53688 CATCAGTCAT
53698 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
53723 AACGAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:56283 original size:33 final size:33
Alignment explanation
Indices: 56241--56306 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
56231 CTATCAAGCG
56241 TCGAGTGCCGCCAATACTGTGGTGTTGCTGGCC
1 TCGAGTGCCGCCAATACTGTGGTGTTGCTGGCC
*
56274 TCGAGTGCCGCCATTACTGTGGTGTTGCTGGCC
1 TCGAGTGCCGCCAATACTGTGGTGTTGCTGGCC
56307 GTGACCGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (33 bp):
TCGAGTGCCGCCAATACTGTGGTGTTGCTGGCC
Found at i:57744 original size:3 final size:3
Alignment explanation
Indices: 57736--57767 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
57726 TTAATTGATT
57736 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57768 GTCTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:63067 original size:3 final size:3
Alignment explanation
Indices: 63059--63097 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
63049 AATTAATTTC
63059 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63098 CTCTTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:63717 original size:37 final size:37
Alignment explanation
Indices: 63665--63735 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
63655 AACAAACGGT
* * *
63665 TCCCAGAATTGCAGCCAAAGCCTAATGCGATCCAAGG
1 TCCCAGAATTACAGCCAAAACCTAAAGCGATCCAAGG
* *
63702 TCCCAGCATTACAGCCAAAACCTAAAGTGATCCA
1 TCCCAGAATTACAGCCAAAACCTAAAGCGATCCA
63736 GGGTTTTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (37 bp):
TCCCAGAATTACAGCCAAAACCTAAAGCGATCCAAGG
Found at i:73420 original size:69 final size:69
Alignment explanation
Indices: 73347--73479 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 69
73337 TTTGTCAGAC
* * *
73347 AATTAATTCGGGTTTAATCACAA-TTAAAATGTTATATTTAATAAGTTTAAAATTCAAATTTCAA
1 AATTAATTCAGGTTTAATCA-AACTTAAAATATTATATTTAACAAGTTTAAAATTCAAATTTCAA
73411 ATAAT
65 ATAAT
* * * * *
73416 AATTAGTTCAGTTTTAATCAAACTTAAGATATTATATTTAACAAGTTTAGAATTCGAATTTCAA
1 AATTAATTCAGGTTTAATCAAACTTAAAATATTATATTTAACAAGTTTAAAATTCAAATTTCAA
73480 TATTTAAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 2 0.04
69 53 0.96
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (69 bp):
AATTAATTCAGGTTTAATCAAACTTAAAATATTATATTTAACAAGTTTAAAATTCAAATTTCAAA
TAAT
Found at i:73662 original size:2 final size:2
Alignment explanation
Indices: 73655--73692 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
73645 AGAATCTTTC
* *
73655 AT AT AT AT AT AT AT AT AT AT AT AT AA AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73693 TTCATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:81112 original size:142 final size:138
Alignment explanation
Indices: 80951--81301 Score: 350
Period size: 142 Copynumber: 2.5 Consensus size: 138
80941 TTATCACCTC
* * * * * *
80951 AATTTTTTAAAATTTCTAATATT-TTCATGGGTATCCAT-GAGGATATAAAAATTTTTAAAATTT
1 AATTTTTCAAGATTTCTAATATTCTT-ATGAGTATCCATAAAGG-TATAAAAATTTTCAAAACTT
* * *
81014 TTCGTATCTTTTCGATTCTCCATTAAGGTACAAAATAAATTTTTTAAAAAACTAAAATTTAAATT
64 TTCATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTTT-AAAAACTAAAAATTAAA-T
* *
81079 AATATTATTATTTT
127 AA-A-AATTATCTT
* * ***
81093 AATTTTTCAAGATTTCTAATATTCTTATGATTTTTGGTAAAGGTATAAAAATTTTCAAAACTTTT
1 AATTTTTCAAGATTTCTAATATTCTTATGAGTATCCATAAAGGTATAAAAATTTTCAAAACTTTT
* * * * *
81158 CATATCTTTTGGGTTCTCTATTAAAGTACAAAATGAATTTTTTAAAAATTAAAAATTAAATAAAA
66 CATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTTTAAAAACTAAAAATTAAATAAAA
81223 ATTATCTT
131 ATTATCTT
* * * * * * *
81231 AATTTTTCGAGATTTTTAACATTCCTATG-GCTTTCCGTAAGGGTATAAAAAATTTT-AAAACTT
1 AATTTTTCAAGATTTCTAATATTCTTATGAG-TATCCATAAAGGTAT-AAAAATTTTCAAAACTT
81294 TTCATATC
64 TTCATATC
81302 CCTCATTTTT
Statistics
Matches: 176, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
138 59 0.34
139 10 0.06
140 3 0.02
141 15 0.09
142 84 0.48
143 5 0.03
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.44
Consensus pattern (138 bp):
AATTTTTCAAGATTTCTAATATTCTTATGAGTATCCATAAAGGTATAAAAATTTTCAAAACTTTT
CATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTTTAAAAACTAAAAATTAAATAAAA
ATTATCTT
Found at i:81301 original size:138 final size:142
Alignment explanation
Indices: 80994--81301 Score: 383
Period size: 138 Copynumber: 2.2 Consensus size: 142
80984 TCCATGAGGA
* * * *
80994 TATAAAAATTTTTAAAATTTTTCGTATCTTTTCGATTCTCCATTAAGGTACAAAATAAATTTTTT
1 TATAAAAAATTTTAAAACTTTTCATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTTT
* * * * * *
81059 AAAAAACTAAAATTTAAATTAATATTATTATTTTAATTTTTCAAGATTTCTAATATTCTTATGAT
66 AAAAAACTAAAAATTAAATTAATATAATTATCTTAATTTTTCAAGATTTCTAACATTCCTATGAC
**
81124 TTTTGGTAAAGG
131 TTTCCGTAAAGG
* * * *
81136 TAT-AAAAATTTTCAAAACTTTTCATATCTTTTGGGTTCTCTATTAAAGTACAAAATGAATTTTT
1 TATAAAAAATTTT-AAAACTTTTCATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTT
* * * *
81200 T-AAAAATTAAAAATTAAA-TAA-A-AATTATCTTAATTTTTCGAGATTTTTAACATTCCTATGG
65 TAAAAAACTAAAAATTAAATTAATATAATTATCTTAATTTTTCAAGATTTCTAACATTCCTATGA
*
81261 CTTTCCGTAAGGG
130 CTTTCCGTAAAGG
81274 TATAAAAAATTTTAAAACTTTTCATATC
1 TATAAAAAATTTTAAAACTTTTCATATC
81302 CCTCATTTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
138 59 0.41
139 10 0.07
140 3 0.02
141 23 0.16
142 48 0.34
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (142 bp):
TATAAAAAATTTTAAAACTTTTCATATCTTTTCGATTCTCCATTAAAGTACAAAATAAATTTTTT
AAAAAACTAAAAATTAAATTAATATAATTATCTTAATTTTTCAAGATTTCTAACATTCCTATGAC
TTTCCGTAAAGG
Found at i:84788 original size:50 final size:50
Alignment explanation
Indices: 84729--84858 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 50
84719 AATTTCTAGG
* * **
84729 TTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGA
1 TTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAA
* *
84779 TTTTTCATCTCGAGGATACTCTAACCCCGGTTTTATTTCCAAAACATCAA
1 TTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAA
* *
84829 TTTTTCATAATCGGGGATACTCCAATCCCG
1 TTTTTCAT-CTCGGGGATACTCCAACCCCG
84859 TTATTTCCGA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 52 0.75
51 17 0.25
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (50 bp):
TTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAA
Found at i:85144 original size:79 final size:79
Alignment explanation
Indices: 84793--85155 Score: 350
Period size: 79 Copynumber: 4.6 Consensus size: 79
84783 TCATCTCGAG
* * *
84793 GATACTCTAACCCCGGTTTTATTTCCAAAACA-TCAATTTT-TCATAATCGGGGATACTCCAATC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACT-GATTTTCTCATAATC-GGGATACTCCAATC
* *
84856 CCGTTATTTCCGAGGA
64 CCATTATTTTCGAGGA
* * * * *
84872 GATACTCTAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCACAATCGGGATACTCCAA-CCC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACTGATTTTCTCATAATCGGGATACTCCAATCCC
* * *
84935 TATTATTTTGGCGGG
66 -ATTATTTTCGAGGA
** * * *
84950 GATACTCCAACCCCGGCCTTATTTCTAAAGC-TTCGATTTT-TCACAATCGAGGATACTCCAATC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACT-GATTTTCTCATAATCG-GGATACTCCAATC
* *
85013 CCATTATCTTCGAGGG
64 CCATTATTTTCGAGGA
* * * *
85029 GATACTCCAACCTCGATTTTATTT-TCAAAACGCTGATTTTCT-ATAATCAGGGATGCTCCAA-C
1 GATACTCCAACCCCGGTTTTATTTCT-AAAACACTGATTTTCTCATAATC-GGGATACTCCAATC
85091 CCTATTATTTTCGAGGA
64 CC-ATTATTTTCGAGGA
* *
85108 GATACTCCAACCCCGATTTTATTTCTAGAACACTGATTTTC-CATAATC
1 GATACTCCAACCCCGGTTTTATTTCTAAAACACTGATTTTCTCATAATC
85156 AGAGGGTACT
Statistics
Matches: 240, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
77 5 0.02
78 66 0.28
79 161 0.67
80 8 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCCGGTTTTATTTCTAAAACACTGATTTTCTCATAATCGGGATACTCCAATCCC
ATTATTTTCGAGGA
Found at i:85148 original size:157 final size:156
Alignment explanation
Indices: 84793--85166 Score: 414
Period size: 157 Copynumber: 2.4 Consensus size: 156
84783 TCATCTCGAG
* * * *
84793 GATACTCTAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
1 GATACTCCAACCCCGGTTTTATTT-CTAAACATCGATTTTTCATAATCGAGGATACTCCAATCCC
* * * * *
84858 GTTATTTCCGAGGAGATACTCTAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGG
65 ATTATTTCCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAACACTGATTTCTCACAATCGGG
* * *
84923 ATACTCCAACCCTATTATTTTGGCGGG
130 ATACTCCAACCCTATTATTTTCGAGGA
** * *
84950 GATACTCCAACCCCGGCCTTATTTCTAAAGCTTCGATTTTTCACAATCGAGGATACTCCAATCCC
1 GATACTCCAACCCCGGTTTTATTTCTAAA-CATCGATTTTTCATAATCGAGGATACTCCAATCCC
* * * * *
85015 ATTATCTT-CGAGGGGATACTCCAACCTCGATTTTATTT-TCAAAACGCTGATTT-TCTATAATC
65 ATTAT-TTCCGAGGAGATACTCCAACCCCGACTTTATTTCT-AAAACACTGATTTCTC-ACAATC
*
85077 AGGGATGCTCCAACCCTATTATTTTCGAGGA
127 -GGGATACTCCAACCCTATTATTTTCGAGGA
* * *
85108 GATACTCCAACCCCGATTTTATTTCTAGAACA-CTGATTTTCCATAATCAGAGGGTACTC
1 GATACTCCAACCCCGGTTTTATTTCTA-AACATC-GATTTTTCATAATC-GAGGATACTC
85167 AAGTCTCGTT
Statistics
Matches: 180, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
156 7 0.04
157 97 0.54
158 65 0.36
159 11 0.06
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (156 bp):
GATACTCCAACCCCGGTTTTATTTCTAAACATCGATTTTTCATAATCGAGGATACTCCAATCCCA
TTATTTCCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAACACTGATTTCTCACAATCGGGA
TACTCCAACCCTATTATTTTCGAGGA
Found at i:95043 original size:3 final size:3
Alignment explanation
Indices: 95035--95083 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
95025 CATCAGTCAC
95035 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
95083 A
1 A
95084 AAACGAAACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:106038 original size:20 final size:20
Alignment explanation
Indices: 106013--106056 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
106003 TAAAATTTAA
106013 TAATTTAAAT-TATTTTAATT
1 TAATTTAAATAT-TTTTAATT
106033 TAATTTAAATATTTTTAATT
1 TAATTTAAATATTTTTAATT
106053 TAAT
1 TAAT
106057 AAAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTTAAATATTTTTAATT
Found at i:106068 original size:20 final size:21
Alignment explanation
Indices: 106013--106068 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
106003 TAAAATTTAA
*
106013 TAATTTAAATT-ATTTTAATT
1 TAATTAAAATTAATTTTAATT
* *
106033 TAATTTAAA-TATTTTTAATT
1 TAATTAAAATTAATTTTAATT
106053 TAA-TAAAATTAATTTT
1 TAATTAAAATTAATTTT
106069 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTAAAATTAATTTTAATT
Found at i:106105 original size:20 final size:20
Alignment explanation
Indices: 106072--106110 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
106062 TAATTTTTTA
106072 AAATTTAATGATAAAATTAT
1 AAATTTAATGATAAAATTAT
106092 AAATATTAAT-ATAAAATTA
1 AAAT-TTAATGATAAAATTA
106111 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTTAATGATAAAATTAT
Found at i:106722 original size:3 final size:3
Alignment explanation
Indices: 106714--106754 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
106704 CGTTTTAGTC
106714 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
106755 TTAAAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:106815 original size:33 final size:34
Alignment explanation
Indices: 106775--106880 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 34
106765 GAAAGATCAA
*
106775 AGCTTTGATTTACTATATAAGATTTGAGGTATAT
1 AGCTTTGATTTACTATATAAGATTTGAGATATAT
* * *
106809 -GGTTTGATTTACTCTATAAGATTTGATTTACTATAT
1 AGCTTTGATTTACTATATAAGATTTGA--GA-TATAT
*
106845 AAGCTTTGATTTACGATATAAGATTTGAGATATAT
1 -AGCTTTGATTTACTATATAAGATTTGAGATATAT
106880 A
1 A
106881 TGTTTTATGA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
33 24 0.41
34 1 0.02
35 5 0.08
36 6 0.10
38 23 0.39
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (34 bp):
AGCTTTGATTTACTATATAAGATTTGAGATATAT
Found at i:106826 original size:19 final size:19
Alignment explanation
Indices: 106811--106872 Score: 97
Period size: 19 Copynumber: 3.3 Consensus size: 19
106801 AGGTATATGG
*
106811 TTTGATTTACTCTATAAGA
1 TTTGATTTACTATATAAGA
*
106830 TTTGATTTACTATATAAGC
1 TTTGATTTACTATATAAGA
*
106849 TTTGATTTACGATATAAGA
1 TTTGATTTACTATATAAGA
106868 TTTGA
1 TTTGA
106873 GATATATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (19 bp):
TTTGATTTACTATATAAGA
Found at i:107340 original size:21 final size:20
Alignment explanation
Indices: 107307--107348 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
107297 ATAATTTTAG
*
107307 ATAAAATATAAATATATAAT
1 ATAAAATAGAAATATATAAT
*
107327 ATAAAATACGAAATATTTAAT
1 ATAAAATA-GAAATATATAAT
107348 A
1 A
107349 AATATAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAATAGAAATATATAAT
Found at i:107801 original size:16 final size:16
Alignment explanation
Indices: 107750--107801 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
107740 TAAAGTATTT
107750 TTTAT-TTATATAAAA
1 TTTATATTATATAAAA
* *
107765 TTT-TATAACATTAATAA
1 TTTATATTATA-TAA-AA
107782 TTTATATTATATAAAA
1 TTTATATTATATAAAA
107798 TTTA
1 TTTA
107802 AAATATTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 9 0.31
17 8 0.28
18 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTATATTATATAAAA
Found at i:111728 original size:3 final size:3
Alignment explanation
Indices: 111720--111751 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
111710 TAATCGTTAA
111720 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
111752 CAGAAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:123577 original size:18 final size:18
Alignment explanation
Indices: 123554--123590 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
123544 TATGTAATAT
*
123554 TTATTTAATTAAATTTAA
1 TTATTTAAGTAAATTTAA
*
123572 TTATTTAAGTGAATTTAA
1 TTATTTAAGTAAATTTAA
123590 T
1 T
123591 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTATTTAAGTAAATTTAA
Found at i:123867 original size:28 final size:28
Alignment explanation
Indices: 123834--123906 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
123824 TAAAAAATTT
123834 TTAATTTAATTTAATTTAATTGATTCAG
1 TTAATTTAATTTAATTTAATTGATTCAG
* * *
123862 TTAATTTAATCTAAATTTTAATTGGTTTAG
1 TTAATTTAAT-TTAA-TTTAATTGATTCAG
123892 --AATGTTAATTTAATT
1 TTAAT-TTAATTTAATT
123907 AGTTAATTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.05
28 16 0.42
29 8 0.21
30 12 0.32
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (28 bp):
TTAATTTAATTTAATTTAATTGATTCAG
Found at i:124049 original size:21 final size:22
Alignment explanation
Indices: 124023--124074 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
124013 AACTTAAGTT
124023 CATCTAAACTTAAACT-AAAGC
1 CATCTAAACTTAAACTCAAAGC
*
124044 CATCTAAACTTAAACTCAAATC
1 CATCTAAACTTAAACTCAAAGC
*
124066 TATCTAAAC
1 CATCTAAAC
124075 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (22 bp):
CATCTAAACTTAAACTCAAAGC
Found at i:124133 original size:18 final size:18
Alignment explanation
Indices: 124112--124146 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
124102 TGAAAAAATG
124112 ATTAAATCGATTAATTTT
1 ATTAAATCGATTAATTTT
**
124130 ATTACTTCGATTAATTT
1 ATTAAATCGATTAATTT
124147 AATTTTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTAAATCGATTAATTTT
Found at i:124208 original size:27 final size:27
Alignment explanation
Indices: 124184--124238 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
124174 AATCAATTTC
124184 ATTAATTTTAACA-TTAAATTTAATTAA
1 ATTAATTTTAA-ATTTAAATTTAATTAA
*
124211 ATTAATTTTAAATTTAAA-TAAATTAA
1 ATTAATTTTAAATTTAAATTTAATTAA
124237 AT
1 AT
124239 CGATCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTAATTTTAAATTTAAATTTAATTAA
Found at i:124221 original size:21 final size:21
Alignment explanation
Indices: 124197--124236 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
124187 AATTTTAACA
*
124197 TTAAATTTAATTAAATTAATT
1 TTAAATTTAAATAAATTAATT
124218 TTAAATTTAAATAAATTAA
1 TTAAATTTAAATAAATTAA
124237 ATCGATCTAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATTTAAATAAATTAATT
Found at i:124875 original size:8 final size:8
Alignment explanation
Indices: 124864--124897 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
124854 TTATCTATTT
*
124864 AAATTATA
1 AAATTTTA
124872 AAATTTTA
1 AAATTTTA
124880 AAATTTT-
1 AAATTTTA
124887 AAATTTTA
1 AAATTTTA
124895 AAA
1 AAA
124898 ATAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTTA
Found at i:125453 original size:39 final size:38
Alignment explanation
Indices: 125376--125453 Score: 88
Period size: 39 Copynumber: 2.0 Consensus size: 38
125366 TCATTTTTTG
* *
125376 ATTAATTTAAAATTATTTTATTTTATTTTAATTATAAAA
1 ATTAATATAAAATTATTTTA-TTTATTTTAAATATAAAA
125415 ATTAATATAAAATCATATTTTA-TT-TTTTAAATAGTAAAA
1 ATTAATATAAAAT--TATTTTATTTATTTTAAATA-TAAAA
125454 GTGATATACG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
38 8 0.24
39 19 0.56
41 7 0.21
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
ATTAATATAAAATTATTTTATTTATTTTAAATATAAAA
Found at i:125897 original size:18 final size:18
Alignment explanation
Indices: 125852--125906 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 18
125842 TGACTTATTT
**
125852 TATTA-TTATATAATATA
1 TATTATTTATATTTTATA
125869 TATTAATTTTATATTTTATA
1 TATT-A-TTTATATTTTATA
125889 TATTATTTA-ATTTT-TA
1 TATTATTTATATTTTATA
125905 TA
1 TA
125907 ATATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 9 0.27
18 5 0.15
19 1 0.03
20 14 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATTTATATTTTATA
Found at i:130166 original size:25 final size:28
Alignment explanation
Indices: 130138--130189 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
130128 GTTTGAATCA
*
130138 TTATTT-A-TTTAATTA-AATAATATTT
1 TTATTTAATTTTAATTATAAAAATATTT
130163 TTATTTAATTTTAATTATAAAAATATT
1 TTATTTAATTTTAATTATAAAAATATT
130190 GATATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
27 8 0.35
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATTTAATTTTAATTATAAAAATATTT
Found at i:131139 original size:2 final size:2
Alignment explanation
Indices: 131128--131214 Score: 72
Period size: 2 Copynumber: 44.5 Consensus size: 2
131118 GCATTAAAAG
* * * * *
131128 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AC AA AC AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
131169 -T AT AT AT AT AGC A- AA AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131210 AT AT A
1 AT AT A
131215 GACACACACA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
1 3 0.04
2 71 0.95
3 1 0.01
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:131972 original size:22 final size:23
Alignment explanation
Indices: 131947--131990 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
131937 TAAATATAAT
131947 AAAAATATAAA-AATTA-ATTTTA
1 AAAAATA-AAATAATTATATTTTA
131969 AAAAATAAAATAATTATATTTT
1 AAAAATAAAATAATTATATTTT
131991 TAATACTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 12 0.60
23 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAATAAAATAATTATATTTTA
Found at i:132179 original size:6 final size:6
Alignment explanation
Indices: 132170--132196 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
132160 ATTTTTATTT
132170 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
132197 TTAATACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:135558 original size:16 final size:17
Alignment explanation
Indices: 135537--135570 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
135527 TTCTACATTA
*
135537 TTTTAAAT-TTTTTATT
1 TTTTAAATATTTATATT
135553 TTTTAAATATTTATATT
1 TTTTAAATATTTATATT
135570 T
1 T
135571 ACTATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAAATATTTATATT
Found at i:135660 original size:2 final size:2
Alignment explanation
Indices: 135653--135685 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
135643 TTCATATTGG
135653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
135686 GGGAGGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:142920 original size:22 final size:20
Alignment explanation
Indices: 142886--142934 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
142876 TAAATTATTT
142886 TTAAAT-TTATTTTATTAATTA
1 TTAAATATT-TTTTATTAA-TA
142907 TTATAATATTTTTTATTAATA
1 TTA-AATATTTTTTATTAATA
142928 TTAAATA
1 TTAAATA
142935 AAAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 12 0.46
23 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATATTTTTTATTAATA
Found at i:143649 original size:14 final size:14
Alignment explanation
Indices: 143630--143663 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
143620 CAAGAATAAT
143630 AAAAATAAAAAGGA
1 AAAAATAAAAAGGA
143644 AAAAATAAAAAGGA
1 AAAAATAAAAAGGA
143658 AAAAAT
1 AAAAAT
143664 CCAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAAATAAAAAGGA
Found at i:144224 original size:33 final size:34
Alignment explanation
Indices: 144187--144259 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
144177 TATTTTATAT
* *
144187 TTAAATAAATATATATATATT-TTATAA-TTAAAA
1 TTAAATAAAAATATATATATTATTAAAAGTT-AAA
* *
144220 TTAAATAAAAATATTTGTATTATTAAAAGTTAAA
1 TTAAATAAAAATATATATATTATTAAAAGTTAAA
144254 TTAAAT
1 TTAAAT
144260 TAATTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 18 0.53
34 14 0.41
35 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (34 bp):
TTAAATAAAAATATATATATTATTAAAAGTTAAA
Found at i:144233 original size:27 final size:28
Alignment explanation
Indices: 144177--144254 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
144167 ATTAGAATAT
* *
144177 TATTTTATATTTAAA-TAAATATATATA
1 TATTTTATATTAAAATTAAATATATAAA
144204 TATTTTATAATTAAAATTAAATA-A-AAA
1 TATTTTAT-ATTAAAATTAAATATATAAA
144231 TATTTGTATTATTAAAAGTTAAAT
1 TATTT-TA-TATTAAAA-TTAAAT
144255 TAAATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 15 0.34
28 16 0.36
29 13 0.30
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
TATTTTATATTAAAATTAAATATATAAA
Found at i:144289 original size:12 final size:12
Alignment explanation
Indices: 144242--144298 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
144232 ATTTGTATTA
* *
144242 TTAAAAGTTAAA
1 TTAAAATTTAAT
144254 TT-AAA-TTAAT
1 TTAAAATTTAAT
144264 TT-AAATTT--T
1 TTAAAATTTAAT
*
144273 TTAAAATTTTAT
1 TTAAAATTTAAT
144285 TTAAAATTTAAT
1 TTAAAATTTAAT
144297 TT
1 TT
144299 TATCAACCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 3 0.08
10 15 0.38
11 5 0.13
12 16 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTAAAATTTAAT
Found at i:144773 original size:6 final size:6
Alignment explanation
Indices: 144762--144789 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
144752 GCAATCCCCT
144762 TTCCTC TTCCTC TTCCTC TTCCTC TTCC
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCC
144790 ATTTCTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:148602 original size:19 final size:20
Alignment explanation
Indices: 148580--148626 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
148570 CTATTTAATT
148580 AATAAAA-ATATATTTTTTA
1 AATAAAACATATATTTTTTA
* *
148599 AATAATAACTATTTATTTTTTC
1 AATAA-AAC-ATATATTTTTTA
148621 AATAAA
1 AATAAA
148627 CTCTAATCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 1 0.04
22 15 0.65
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAAAACATATATTTTTTA
Found at i:149616 original size:19 final size:18
Alignment explanation
Indices: 149589--149631 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
149579 TTTTTTATTT
*
149589 TTATTTTTATATATTCGTA
1 TTATATTTATATATT-GTA
* *
149608 TTATATTTATTTATTTTA
1 TTATATTTATATATTGTA
149626 TTATAT
1 TTATAT
149632 AATAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATATTTATATATTGTA
Found at i:150237 original size:14 final size:14
Alignment explanation
Indices: 150202--150246 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
150192 ATTAAAAATT
* *
150202 AATAATTTATTTAA
1 AATAATTAAATTAA
150216 AA-AATTAAATTAA
1 AATAATTAAATTAA
150229 AATAATTAAATTTAA
1 AATAATTAAA-TTAA
150244 AAT
1 AAT
150247 TAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATTAAATTAA
Found at i:150265 original size:19 final size:19
Alignment explanation
Indices: 150238--150277 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
150228 AAATAATTAA
150238 ATTTAAAA-TTAATATTTT
1 ATTTAAAATTTAATATTTT
*
150256 ATTTATAAATTTGATATTTT
1 ATTTA-AAATTTAATATTTT
150276 AT
1 AT
150278 ATATTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTAAAATTTAATATTTT
Found at i:150283 original size:9 final size:9
Alignment explanation
Indices: 150269--150358 Score: 50
Period size: 9 Copynumber: 10.3 Consensus size: 9
150259 TATAAATTTG
150269 ATATTTTAT
1 ATATTTTAT
150278 ATATTTTAT
1 ATATTTTAT
* *
150287 CCTATTATA-
1 -ATATTTTAT
*
150296 ATACTTT-T
1 ATATTTTAT
150304 A-A--TTAT
1 ATATTTTAT
150310 ATATTTTAT
1 ATATTTTAT
150319 A-ATATTTAT
1 ATAT-TTTAT
150328 ATATTTTTAT
1 ATA-TTTTAT
*
150338 CACATTTTA-
1 -ATATTTTAT
*
150347 ATTTTTTAT
1 ATATTTTAT
150356 ATA
1 ATA
150359 ATTGTGTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 2 0.03
8 13 0.21
9 22 0.36
10 17 0.28
11 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAT
Found at i:150855 original size:2 final size:2
Alignment explanation
Indices: 150848--150876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
150838 ATTAAAATAC
150848 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
150877 GAAAAAAGGA
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:155672 original size:16 final size:15
Alignment explanation
Indices: 155650--155731 Score: 61
Period size: 17 Copynumber: 5.6 Consensus size: 15
155640 ATTTATTTAT
155650 TTTATATTTAATAAA
1 TTTATATTTAATAAA
155665 TTTAATATTTTAAT-AA
1 TTT-ATA-TTTAATAAA
155681 TTTATA-TTATATAAA
1 TTTATATTTA-ATAAA
*
155696 TTT-TA---AA-ATA
1 TTTATATTTAATAAA
155706 TTTATATTTATATCAAA
1 TTTATATTTA-AT-AAA
155723 TTTATATTT
1 TTTATATTT
155732 TTATTATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
10 5 0.09
11 3 0.06
12 1 0.02
13 3 0.06
14 5 0.09
15 12 0.22
16 8 0.15
17 17 0.31
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATATTTAATAAA
Found at i:155678 original size:17 final size:16
Alignment explanation
Indices: 155650--155698 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
155640 ATTTATTTAT
155650 TTTATA-TTTAATAAA
1 TTTATATTTTAATAAA
155665 TTTAATATTTTAAT-AA
1 TTT-ATATTTTAATAAA
*
155681 TTTATATTAT-ATAAA
1 TTTATATTTTAATAAA
155696 TTT
1 TTT
155699 TAAAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 8 0.27
17 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTTTAATAAA
Found at i:155715 original size:31 final size:30
Alignment explanation
Indices: 155643--155718 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
155633 TTCATTTATT
*
155643 TATTTAT-TTTATATTTAATAAATTTAATA
1 TATTTATATTTATATTTAATAAATTTAAAA
155672 T-TTTAATAATTTATA-TTATATAAATTTTAAAA
1 TATTT-AT-ATTTATATTTA-ATAAA-TTTAAAA
155704 TATTTATATTTATAT
1 TATTTATATTTATAT
155719 CAAATTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
28 3 0.08
29 3 0.08
30 3 0.08
31 18 0.46
32 9 0.23
33 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTTATATTTATATTTAATAAATTTAAAA
Found at i:155735 original size:25 final size:26
Alignment explanation
Indices: 155671--155725 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
155661 TAAATTTAAT
*
155671 ATTTTAATA-ATTTATA-TTATATAA
1 ATTTTAAAATATTTATATTTATATAA
155695 ATTTTAAAATATTTATATTTATATCAA
1 ATTTTAAAATATTTATATTTATAT-AA
155722 ATTT
1 ATTT
155726 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 7 0.26
26 6 0.22
27 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTTAAAATATTTATATTTATATAA
Found at i:156088 original size:19 final size:18
Alignment explanation
Indices: 156066--156105 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
156056 TATTTTTATT
156066 TAAAT-TTAATTATAAATAA
1 TAAATATTAA-TATAAA-AA
156085 TAAATATTAATATAAAAA
1 TAAATATTAATATAAAAA
156103 TAA
1 TAA
156106 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATTAATATAAAAA
Found at i:156105 original size:21 final size:19
Alignment explanation
Indices: 156066--156106 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
156056 TATTTTTATT
*
156066 TAAATTTAATTATAAATAA
1 TAAATTTAATTAAAAATAA
156085 TAAATATTAATATAAAAATAA
1 TAAAT-TTAAT-TAAAAATAA
156106 T
1 T
156107 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATTTAATTAAAAATAA
Found at i:156448 original size:28 final size:28
Alignment explanation
Indices: 156364--156448 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
156354 TAAAATTTTA
*
156364 TTTTATTATTTATAATATTAATTTTATATAT
1 TTTTATTA-TTA-AATATTAA-TTTAAATAT
* **
156395 TTTTATAATTAAA-ATTAAATAAAAATAT
1 TTTTATTATTAAATATT-AATTTAAATAT
*
156423 TTTTATTATTAAATAATAATTTAAAT
1 TTTTATTATTAAATATTAATTTAAAT
156449 TAAATTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
28 28 0.64
29 6 0.14
30 3 0.07
31 7 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTATTATTAAATATTAATTTAAATAT
Found at i:156455 original size:22 final size:22
Alignment explanation
Indices: 156399--156458 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 22
156389 ATATATTTTT
*
156399 ATAATTAAAATTAAA-TAAA-A
1 ATAATTTAAATTAAATTAAATA
**
156419 AT-ATTTTTATT--ATTAAATA
1 ATAATTTAAATTAAATTAAATA
156438 ATAATTTAAATTAAATTAAAT
1 ATAATTTAAATTAAATTAAAT
156459 TATTCAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 4 0.13
19 9 0.30
20 9 0.30
22 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATTTAAATTAAATTAAATA
Found at i:160735 original size:35 final size:35
Alignment explanation
Indices: 160696--160967 Score: 476
Period size: 35 Copynumber: 7.8 Consensus size: 35
160686 CAAAAAAAAA
160696 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
160731 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
*
160766 AAAAATGAAGGCATGGGATGAT-GGCATGGAATAT
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
*
160800 AAAAATGAAGGCATGGGATGATGGGCATGGAATAT
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
160835 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
*
160870 AAAAA-GAAAGGCATGGAATGATGGGCGTGGAATAT
1 AAAAATG-AAGGCATGGAATGATGGGCATGGAATAT
* *
160905 AAAAATGAAGGCATGAAATGATGGGCATGGAATAA
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
160940 AAAAATGAAGGCATGGAATGATGGGCAT
1 AAAAATGAAGGCATGGAATGATGGGCAT
160968 AAAAATGAAA
Statistics
Matches: 227, Mismatches: 7, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
34 35 0.15
35 191 0.84
36 1 0.00
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (35 bp):
AAAAATGAAGGCATGGAATGATGGGCATGGAATAT
Found at i:160744 original size:21 final size:21
Alignment explanation
Indices: 160719--160781 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
160709 TGGAATGATG
160719 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
*
160740 GGCATGG-A-AT---GATG--
1 GGCATGGAATATAAAAATGAA
160754 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
160775 GGCATGG
1 GGCATGG
160782 GATGATGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 7 0.21
15 1 0.03
16 5 0.15
19 5 0.15
20 1 0.03
21 14 0.42
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (21 bp):
GGCATGGAATATAAAAATGAA
Found at i:160911 original size:139 final size:140
Alignment explanation
Indices: 160696--160967 Score: 476
Period size: 139 Copynumber: 1.9 Consensus size: 140
160686 CAAAAAAAAA
160696 AAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGG
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGG
** * *
160761 AATATAAAAATGAAGGCATGGGATGAT-GGCATGGAATATAAAAATGAAGGCATGGGATGATGGG
66 AATATAAAAATGAAGGCATGAAATGATGGGCATGGAATAAAAAAATGAAGGCATGGAATGATGGG
160825 CATGGAATAT
131 CATGGAATAT
*
160835 AAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAA-GAAAGGCATGGAATGATGGGCGTG
1 AAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATG-AAGGCATGGAATGATGGGCATG
160899 GAATATAAAAATGAAGGCATGAAATGATGGGCATGGAATAAAAAAATGAAGGCATGGAATGATGG
65 GAATATAAAAATGAAGGCATGAAATGATGGGCATGGAATAAAAAAATGAAGGCATGGAATGATGG
160964 GCAT
130 GCAT
160968 AAAAATGAAA
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
138 1 0.01
139 87 0.69
140 38 0.30
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (140 bp):
AAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGG
AATATAAAAATGAAGGCATGAAATGATGGGCATGGAATAAAAAAATGAAGGCATGGAATGATGGG
CATGGAATAT
Found at i:162498 original size:79 final size:79
Alignment explanation
Indices: 162366--162630 Score: 386
Period size: 79 Copynumber: 3.4 Consensus size: 79
162356 TAAGTTTCTC
* * *
162366 AATTTTTCACAATCGGTGATACTCCAACCCCGTTATTTCCGAGGGGGTACTCCAACCCCGGTTTT
1 AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
162431 ATTTCTAAAATATT
66 ATTTCTAAAATATT
* * *
162445 AATTTCTCATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGATGCTCCAACCCCGGTTTT
1 AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
*
162510 TTTTCTAAAATATT
66 ATTTCTAAAATATT
* * * * *
162524 AATTTCTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGAGGAGATACTTCAACCCCGATTTT
1 AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
* **
162589 ATTTCTAAAACACC
66 ATTTCTAAAATATT
*
162603 AATTTTTCACAATCGGGGATACTCCAAC
1 AATTTCTCACAATCGGGGATACTCCAAC
162631 TCCGATTTTA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 167 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAATATT
Found at i:162650 original size:51 final size:51
Alignment explanation
Indices: 162569--162685 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
162559 TTTCCGAGGA
* * * * *
162569 GATACTTCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGG
1 GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCAGG
*
162620 GATACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCAGG
1 GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCAGG
162671 GATACTCCAACCCCG
1 GATACTCCAACCCCG
162686 TTATTTTCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCAGG
Found at i:162682 original size:130 final size:127
Alignment explanation
Indices: 162524--162767 Score: 328
Period size: 130 Copynumber: 1.9 Consensus size: 127
162514 CTAAAATATT
* * * * *
162524 AATTTCTCATAATCGGGGATACTCCAACCCCGTTGTTTCCGA-GGAGATACTTCAACCCCGATTT
1 AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCC-ACGGAGATACTCCAACCCCG---G
* *
162588 TATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTAGTTCCAAAACAC
62 TATTTCTAAAACACCAATTTTTCACAATCGGGAATACTCCAACCCCGATTTTAGTTCCAAAACAC
162653 C
127 C
*
162654 AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCACGGAGATACTCCAACCCCGGTATT
1 AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCACGGAGATACTCCAACCCCGGTATT
* ** * *
162719 TCTAAAATATTAATTTTTCATAATCGGGAATACTCTAACCCCGATTTTA
66 TCTAAAACACCAATTTTTCACAATCGGGAATACTCCAACCCCGATTTTA
162768 CTTTTTAGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
127 46 0.46
129 1 0.01
130 53 0.53
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (127 bp):
AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCACGGAGATACTCCAACCCCGGTATT
TCTAAAACACCAATTTTTCACAATCGGGAATACTCCAACCCCGATTTTAGTTCCAAAACACC
Done.