Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007724.1 Hibiscus syriacus cultivar Beakdansim tig00109971_pilon, whole genome shotgun sequence
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: 1221931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1303 original size:21 final size:21
Alignment explanation
Indices: 1277--1321 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1267 GATTTCTGGG
* *
1277 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1298 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1319 CAA
1 CAA
1322 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2983 original size:23 final size:23
Alignment explanation
Indices: 2939--2983 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2929 ATCATTATAT
*
2939 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
2962 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2984 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:5158 original size:21 final size:21
Alignment explanation
Indices: 5133--5195 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
5123 GGAACATAGA
* *
5133 ATTTGTTCCGAAGGACCACAT
1 ATTTGTCCCGAAAGACCACAT
* *
5154 ATTTGTCCCAAAAAACCACAT
1 ATTTGTCCCGAAAGACCACAT
*
5175 ATTTATCCCGAAAGACCACAT
1 ATTTGTCCCGAAAGACCACAT
5196 GGAACCCTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (21 bp):
ATTTGTCCCGAAAGACCACAT
Found at i:10148 original size:17 final size:17
Alignment explanation
Indices: 10126--10161 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10116 CCTGTGGGGA
10126 CCGTTTTTATAATTTAC
1 CCGTTTTTATAATTTAC
*
10143 CCGTTTTTATATTTTAC
1 CCGTTTTTATAATTTAC
10160 CC
1 CC
10162 ATTTCTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (17 bp):
CCGTTTTTATAATTTAC
Found at i:12451 original size:21 final size:21
Alignment explanation
Indices: 12427--12478 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
12417 AAGTGACCGG
12427 TTTGACCGGTTTGGGAACTGT
1 TTTGACCGGTTTGGGAACTGT
*
12448 TTTGACCGGTTTTGGAACTGT
1 TTTGACCGGTTTGGGAACTGT
12469 TTTGACCGGT
1 TTTGACCGGT
12479 CACAACCCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.13, C:0.15, G:0.31, T:0.40
Consensus pattern (21 bp):
TTTGACCGGTTTGGGAACTGT
Found at i:14994 original size:24 final size:23
Alignment explanation
Indices: 14962--15049 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 23
14952 ATTTCCGACT
*
14962 TGAATTCTGTTCTGATACATTACC
1 TGAATTCTGTTCTGATAC-TTATC
*
14986 TGAATTCTGTTCTGATTTCTTATC
1 TGAATTCTGTTCTGA-TACTTATC
* * *
15010 TGGATTCTGTTATGATATCTGATC
1 TGAATTCTGTTCTGATA-CTTATC
*
15034 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
15050 TTCTGATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTTATC
Found at i:15000 original size:12 final size:12
Alignment explanation
Indices: 14985--15054 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
14975 GATACATTAC
14985 CTGAATTCTGTT
1 CTGAATTCTGTT
*
14997 CTGATTTCT-TAT
1 CTGAATTCTGT-T
*
15009 CTGGATTCTGTT
1 CTGAATTCTGTT
* *
15021 ATG-ATATCTGAT
1 CTGAAT-TCTGTT
15033 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
15045 TTGATTTCTG
1 CTGAATTCTG
15055 ATATCTTCGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
11 3 0.07
12 39 0.87
13 3 0.07
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:15054 original size:24 final size:24
Alignment explanation
Indices: 14985--15056 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
14975 GATACATTAC
* *
14985 CTGAATTCTGTTCTGATTTCTTAT
1 CTGAATTCTGTTATGATTTCTGAT
* *
15009 CTGGATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
*
15033 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
15057 ATCTTCGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Found at i:17116 original size:11 final size:11
Alignment explanation
Indices: 17083--17116 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17073 AAGTGACCGG
17083 TTTGACCGGTT
1 TTTGACCGGTT
* *
17094 TTTGAACTGTT
1 TTTGACCGGTT
17105 TTTGACCGGTT
1 TTTGACCGGTT
17116 T
1 T
17117 GACCGGTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.50
Consensus pattern (11 bp):
TTTGACCGGTT
Found at i:23389 original size:16 final size:16
Alignment explanation
Indices: 23368--23443 Score: 75
Period size: 16 Copynumber: 4.8 Consensus size: 16
23358 AAAGAGGAGA
23368 GAAAAGAAAAAAAGAG
1 GAAAAGAAAAAAAGAG
23384 GAAAAGATAAAAAA-A-
1 GAAAAGA-AAAAAAGAG
* *
23399 GAAAAGATAAAAGATAG
1 GAAAAGA-AAAAAAGAG
* *
23416 AAAAAGAAAAAGAGAG
1 GAAAAGAAAAAAAGAG
*
23432 AAAAAGAAAAAA
1 GAAAAGAAAAAA
23444 TATAAATGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.25
16 28 0.53
17 12 0.23
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (16 bp):
GAAAAGAAAAAAAGAG
Found at i:23395 original size:15 final size:15
Alignment explanation
Indices: 23354--23435 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 15
23344 AAAAATATAG
23354 AGATAAAGAGGAGAGAAA
1 AGATAAA-A-GAG-GAAA
*
23372 AGAAAAAAAGAGGAAA
1 AG-ATAAAAGAGGAAA
* *
23388 AGATAAAAAAAGAAA
1 AGATAAAAGAGGAAA
*
23403 AGATAAAAGATAGAAAA
1 AGATAAAAG--AGGAAA
23420 AGA-AAAAGAGAGAAA
1 AGATAAAAGAG-GAAA
23435 A
1 A
23436 AGAAAAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
14 2 0.04
15 22 0.42
16 11 0.21
17 10 0.19
18 3 0.06
19 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (15 bp):
AGATAAAAGAGGAAA
Found at i:23411 original size:38 final size:36
Alignment explanation
Indices: 23369--23458 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 36
23359 AAGAGGAGAG
* *
23369 AAAAGAAAAAAAGAGGAAAAGATAAAAAAAGAAAAGAT
1 AAAAGAAAAAAAGA--AAAAGAGAAAAAAAGAAAAAAT
*
23407 AAAAGATAGAAAAAGAAAAAGAGAGAAAAAGAAAAAAT
1 AAAAGA-A-AAAAAGAAAAAGAGAAAAAAAGAAAAAAT
23445 ATAAATGAAAAAAA
1 A-AAA-GAAAAAAA
23459 TAAATCAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
38 31 0.69
39 5 0.11
40 9 0.20
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (36 bp):
AAAAGAAAAAAAGAAAAAGAGAAAAAAAGAAAAAAT
Found at i:23439 original size:22 final size:22
Alignment explanation
Indices: 23369--23442 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
23359 AAGAGGAGAG
*
23369 AAAAGAAAAAAAGAGGAAAAGA
1 AAAAGAAAAAAAGAGAAAAAGA
*
23391 TAAAA-AAAGAAAAGATAAAAGATAGA
1 -AAAAGAAA-AAAAGA-GAAA-A-AGA
*
23417 AAAAGAAAAAGAGAGAAAAAGA
1 AAAAGAAAAAAAGAGAAAAAGA
23439 AAAA
1 AAAA
23443 ATATAAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
22 10 0.24
23 11 0.26
24 5 0.12
25 10 0.24
26 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAGAAAAAAAGAGAAAAAGA
Found at i:23441 original size:15 final size:15
Alignment explanation
Indices: 23358--23441 Score: 60
Period size: 16 Copynumber: 5.2 Consensus size: 15
23348 ATATAGAGAT
23358 AAAGAGGAGAGAAAAGAA
1 AAAGA-GAGA-AAAAG-A
* *
23376 AAAAAGAGGAAAAGA
1 AAAGAGAGAAAAAGA
* * *
23391 TAAAAAAAGAAAAGATA
1 -AAAGAGAGAAAA-AGA
*
23408 AAAGATAGAAAAAGAA
1 AAAGAGAGAAAAAG-A
23424 AAAGAGAGAAAAAGA
1 AAAGAGAGAAAAAGA
23439 AAA
1 AAA
23442 AATATAAATG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.11
16 39 0.72
17 5 0.09
18 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (15 bp):
AAAGAGAGAAAAAGA
Found at i:31478 original size:13 final size:13
Alignment explanation
Indices: 31462--31492 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31452 AATAACATTA
*
31462 CTAAATTTTAATT
1 CTAAATTTTAAAT
31475 CTAAATTTTAAAT
1 CTAAATTTTAAAT
31488 CTAAA
1 CTAAA
31493 CCATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (13 bp):
CTAAATTTTAAAT
Found at i:37493 original size:15 final size:15
Alignment explanation
Indices: 37475--37528 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
37465 GATAATGATG
37475 CTTGTGATGTTACAA
1 CTTGTGATGTTACAA
***
37490 CTTGTGATG-TAGGTT
1 CTTGTGATGTTA-CAA
*
37505 CTTGTGATGTTGCAA
1 CTTGTGATGTTACAA
37520 CTTGTGATG
1 CTTGTGATG
37529 ATGGTGCTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 2 0.07
15 27 0.90
16 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.43
Consensus pattern (15 bp):
CTTGTGATGTTACAA
Found at i:37511 original size:30 final size:30
Alignment explanation
Indices: 37454--37564 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 30
37444 AATGGACTAG
*
37454 CAACTTGTGATGATAATGATGCTTGTGATGTTA
1 CAACTTGTGATG---ATGGTGCTTGTGATGTTA
* *
37487 CAACTTGTGATG-TAGGTTCTTGTGATGTTG
1 CAACTTGTGATGAT-GGTGCTTGTGATGTTA
* *
37517 CAACTTGTGATGATGGTGCTTATGATGTTG
1 CAACTTGTGATGATGGTGCTTGTGATGTTA
*
37547 CATCCTT-TGATGATGGTG
1 CA-ACTTGTGATGATGGTG
37565 TGATCCTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.01
30 52 0.75
31 4 0.06
33 12 0.17
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.41
Consensus pattern (30 bp):
CAACTTGTGATGATGGTGCTTGTGATGTTA
Found at i:39101 original size:44 final size:41
Alignment explanation
Indices: 39026--39112 Score: 131
Period size: 41 Copynumber: 2.0 Consensus size: 41
39016 CATATGGGAA
39026 AGCAGCAACAATCACAAGATAAAAACCTATTAAGA-ATATGT
1 AGCAGCAACAATCACAAGATAAAAACCTATTAA-ACATATGT
39067 AGCAGCAACAATCACAAGATAAAAAAACCCTATTAAACATATGT
1 AGCAGCAACAATCACAAGAT--AAAAA-CCTATTAAACATATGT
39111 AG
1 AG
39113 TATCAACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
41 20 0.48
43 6 0.14
44 16 0.38
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.18
Consensus pattern (41 bp):
AGCAGCAACAATCACAAGATAAAAACCTATTAAACATATGT
Found at i:43866 original size:48 final size:48
Alignment explanation
Indices: 43812--43903 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
43802 TTCGACTTGA
* *
43812 ATTCTGTTCTGATA-CATTACCTGAATTATGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATATC-TCACCTGAATTATGTTCTGATTTCTGATCTGG
* * *
43860 ATTCTGTTATGATATCTCATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATATCTCACCTGAATTATGTTCTGATTTCTGAT
43904 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATATCTCACCTGAATTATGTTCTGATTTCTGATCTGG
Found at i:43867 original size:24 final size:24
Alignment explanation
Indices: 43832--43903 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
43822 GATACATTAC
* *
43832 CTGAATTATGTTCTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* * *
43856 CTGGATTCTGTTATGATATCTCAT
1 CTGAATTCTGTTATGATTTCTGAT
*
43880 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
43904 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Found at i:45231 original size:3 final size:3
Alignment explanation
Indices: 45223--45248 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45213 TGTGAATCTA
45223 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
45249 GGAAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:48237 original size:24 final size:24
Alignment explanation
Indices: 48207--48279 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
48197 ATACATTACC
* * *
48207 TGAATTCTGTTCTGATTTTTTATC
1 TGAATTCTGTTATGATTTCTTATA
* *
48231 TGGATTCTGTTATGATATCTTATA
1 TGAATTCTGTTATGATTTCTTATA
*
48255 TGAATTCTGTTTTGATTTCTTATA
1 TGAATTCTGTTATGATTTCTTATA
48279 T
1 T
48280 CTTCGTTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.56
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTTATA
Found at i:49129 original size:44 final size:45
Alignment explanation
Indices: 49063--49168 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 45
49053 CCTTGTCTCG
* *
49063 TCCATCACATAAAGAGTGGGATCAACATCACTC-ATTTGCTCGAT
1 TCCATCACATAAGGAGTGGGATCAACATCACCCTATTTGCTCGAT
** * * *
49107 TTTATCACATAAGGAGTTGGATCAACATTACCCTTTTTGCTCGAT
1 TCCATCACATAAGGAGTGGGATCAACATCACCCTATTTGCTCGAT
49152 TCCATCACATAAGGAGT
1 TCCATCACATAAGGAGT
49169 AAGATCAGCA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 27 0.52
45 25 0.48
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (45 bp):
TCCATCACATAAGGAGTGGGATCAACATCACCCTATTTGCTCGAT
Found at i:49175 original size:45 final size:44
Alignment explanation
Indices: 49063--49181 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 44
49053 CCTTGTCTCG
* * *
49063 TCCATCACATAAAGAGTGGGATCAACATCACTCATTTGCTCGAT
1 TCCATCACATAAGGAGTAGGATCAACATCACCCATTTGCTCGAT
** * * *
49107 TTTATCACATAAGGAGTTGGATCAACATTACCCTTTTTGCTCGAT
1 TCCATCACATAAGGAGTAGGATCAACATCACCC-ATTTGCTCGAT
* *
49152 TCCATCACATAAGGAGTAAGATCAGCATCA
1 TCCATCACATAAGGAGTAGGATCAACATCA
49182 TCTCGCTTGA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 27 0.44
45 34 0.56
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (44 bp):
TCCATCACATAAGGAGTAGGATCAACATCACCCATTTGCTCGAT
Found at i:49326 original size:37 final size:35
Alignment explanation
Indices: 49230--49383 Score: 161
Period size: 36 Copynumber: 4.2 Consensus size: 35
49220 AAATCATTTC
49230 TCTTAAAACAAAAGTTTCATCTCACTTGAGTTTGTTTT
1 TCTTAAAAC-AAA-TTTCATCTCACTTGAGTTTG-TTT
*
49268 TCTAAAAACAAATTTCATCTCACTTGAGTTTGTTT
1 TCTTAAAACAAATTTCATCTCACTTGAGTTTGTTT
** *
49303 ATCTTAAAACAAAGTTTTTTCTCACTTTA-TATTGTTT
1 -TCTTAAAACAAA-TTTCATCTCACTTGAGT-TTGTTT
*
49340 TCTTATAAACAAA-TTCTGTCTCACTTGAGATTT-TTT
1 TCTTA-AAACAAATTTC-ATCTCACTTGAG-TTTGTTT
49376 TCTTAAAA
1 TCTTAAAA
49384 AAACAAAAGA
Statistics
Matches: 101, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
35 8 0.08
36 54 0.53
37 30 0.30
38 9 0.09
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.46
Consensus pattern (35 bp):
TCTTAAAACAAATTTCATCTCACTTGAGTTTGTTT
Found at i:49350 original size:73 final size:73
Alignment explanation
Indices: 49230--49383 Score: 183
Period size: 73 Copynumber: 2.1 Consensus size: 73
49220 AAATCATTTC
49230 TCTTAAAACAAAAGTTTCATCTCACTTGAGTTTGTTTTTCTAAAAACAAATT-TCATCTCACTTG
1 TCTTAAAACAAAAGTTTCATCTCACTTGAGTTTGTTTTTCTAAAAACAAATTCT-ATCTCACTTG
49294 AG-TTTGTTT
65 AGATTT-TTT
** * * *
49303 ATCTTAAAAC-AAAGTTTTTTCTCACTTTA-TATTG-TTTTCTTATAAACAAATTCTGTCTCACT
1 -TCTTAAAACAAAAGTTTCATCTCACTTGAGT-TTGTTTTTC-TAAAAACAAATTCTATCTCACT
49365 TGAGATTTTTT
63 TGAGATTTTTT
49376 TCTTAAAA
1 TCTTAAAA
49384 AAACAAAAGA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
72 14 0.20
73 44 0.62
74 13 0.18
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.46
Consensus pattern (73 bp):
TCTTAAAACAAAAGTTTCATCTCACTTGAGTTTGTTTTTCTAAAAACAAATTCTATCTCACTTGA
GATTTTTT
Found at i:49848 original size:23 final size:24
Alignment explanation
Indices: 49799--49850 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
49789 CACAACAACC
*
49799 AAAAAAGTATTCACAATCGAACCAG
1 AAAAAAGTAATCACAATCGAA-CAG
* *
49824 AAAAAATTAATCACAATCTAA-AG
1 AAAAAAGTAATCACAATCGAACAG
49847 AAAA
1 AAAA
49851 TACAAGGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
25 18 0.75
ACGTcount: A:0.60, C:0.15, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAAGTAATCACAATCGAACAG
Found at i:52934 original size:5 final size:5
Alignment explanation
Indices: 52924--53024 Score: 202
Period size: 5 Copynumber: 20.2 Consensus size: 5
52914 ATAAACAATT
52924 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
52974 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
53024 T
1 T
53025 AGGGGAATGA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 96 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:53953 original size:25 final size:26
Alignment explanation
Indices: 53911--53962 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
53901 TATATCAATT
53911 TAAACTATAATAAAAATAAAAATATA
1 TAAACTATAATAAAAATAAAAATATA
* *
53937 TAAA-TATAATTATAATAAAAATATA
1 TAAACTATAATAAAAATAAAAATATA
53962 T
1 T
53963 TTTATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAACTATAATAAAAATAAAAATATA
Found at i:53954 original size:31 final size:32
Alignment explanation
Indices: 53898--53959 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
53888 TTATTATATG
* *
53898 AAATATATCAATTTAAACTATAATAAAAATAA
1 AAATATATAAATATAAACTATAATAAAAATAA
*
53930 AAATATATAAATAT-AATTATAATAAAAATA
1 AAATATATAAATATAAACTATAATAAAAATA
53960 TATTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (32 bp):
AAATATATAAATATAAACTATAATAAAAATAA
Found at i:55275 original size:225 final size:223
Alignment explanation
Indices: 54938--55384 Score: 616
Period size: 225 Copynumber: 2.0 Consensus size: 223
54928 ACATAATCGG
*
54938 TTAATTACTTGAAACATTATCAACCATAATAACATAACAGATAATGCTTATGTATGTAATAGGTA
1 TTAATTACTTGAAACATTATCAACCATAATAACATAAAAGATAAT-CTTATGTATGTAATAGGTA
* * ** *
55003 GCGTTTTTTAAAGTTGATGAGGCTTTAGAAATCCAACGATAACAAAATAGGTTAATTATTTGATT
65 ACGTTTTTTAAAGTTGAAGAGGCCATAGAAATCCAACGATAACAAAATAGGTTAATTATTTAATT
* * * *
55068 TGTTATCAATATTATCAACATATTAGGTAGCACCTAAAATGTTA-CTAAAGTTTAAGCTGATGGG
130 TGTTAGCAATATTATCAACATATTAGGTAGCACCTAAAATATTATC-AAAGTTTAACCTGATAGG
55132 GCCTTAGAAATCCGACGATAACAAAATAGA
194 GCCTTAGAAATCCGACGATAACAAAATAGA
*
55162 TTAATTAC-TGAAACATTATCAACCATAATAACATAATAAG-TAGCAT-TTATTTAATGTAATAG
1 TTAATTACTTGAAACATTATCAACCATAATAACATAA-AAGATA--ATCTTATGT-ATGTAATAG
* * * * *
55224 GTAACGTCTTTTTAAATTTGACAG-GGCCATAGAAATTCGACGATAACAAAATATGTTAATTTTT
62 GTAACGT-TTTTTAAAGTTGA-AGAGGCCATAGAAATCCAACGATAACAAAATAGGTTAATTATT
* *
55288 TAATTTGTTAGCAATATTATCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTCACCTGA
125 TAATTTGTTAGCAATATTATCAACATATTAGGTAGCACCTAAAATATTATCAAAGTTTAACCTGA
*
55353 TAGGGCCTTAGAAATCCGATGATAACAAAATA
190 TAGGGCCTTAGAAATCCGACGATAACAAAATA
55385 TGTTAAATAC
Statistics
Matches: 197, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
223 35 0.18
224 25 0.13
225 135 0.69
226 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (223 bp):
TTAATTACTTGAAACATTATCAACCATAATAACATAAAAGATAATCTTATGTATGTAATAGGTAA
CGTTTTTTAAAGTTGAAGAGGCCATAGAAATCCAACGATAACAAAATAGGTTAATTATTTAATTT
GTTAGCAATATTATCAACATATTAGGTAGCACCTAAAATATTATCAAAGTTTAACCTGATAGGGC
CTTAGAAATCCGACGATAACAAAATAGA
Found at i:55437 original size:108 final size:108
Alignment explanation
Indices: 55246--55512 Score: 363
Period size: 108 Copynumber: 2.5 Consensus size: 108
55236 TAAATTTGAC
* * * * *
55246 AGGGCCATAGAAATTCGACGATAACAAAATATGTTAATTTTTTAATTTGTTAGCAATATTATCAA
1 AGGGCCTTAGAAATCCGATGATAACAAAATATGTTAATTTCTTATTTTGTTAGCAATATTATCAA
* *
55311 CATATTAGGTAGCGCCTAAAATATTATCAAAGTTTCACCTGAT
66 CATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAACCTGAT
* * **
55354 AGGGCCTTAGAAATCCGATGATAACAAAATATGTTAAATACTTATTTTGTTATTAATATTATCAA
1 AGGGCCTTAGAAATCCGATGATAACAAAATATGTTAATTTCTTATTTTGTTAGCAATATTATCAA
* * * *
55419 CATATTAGGTATCTCCTAAAATATTACCAATGTTTAAGCTGAT
66 CATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAACCTGAT
* * * *
55462 GGGGCCTTCGAAATCCCATGACAACAAAATATGTTAATTTCTTATTTTGTT
1 AGGGCCTTAGAAATCCGATGATAACAAAATATGTTAATTTCTTATTTTGTT
55513 GTAAATAAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 138 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (108 bp):
AGGGCCTTAGAAATCCGATGATAACAAAATATGTTAATTTCTTATTTTGTTAGCAATATTATCAA
CATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAACCTGAT
Found at i:60448 original size:21 final size:21
Alignment explanation
Indices: 60422--60461 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60412 TAGAACCCCA
*
60422 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
60443 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
60462 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:60491 original size:21 final size:23
Alignment explanation
Indices: 60443--60493 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
60433 ATTCCCCTGT
60443 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
60466 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
60487 GGGGGGA
1 GGGGGGA
60494 TCAATTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 3 0.12
23 13 0.50
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:64354 original size:22 final size:21
Alignment explanation
Indices: 64314--64353 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
64304 GAGTTTGTTT
64314 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
64335 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
64354 ATAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:67785 original size:15 final size:15
Alignment explanation
Indices: 67761--67791 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67751 ACACATAGTT
*
67761 TTTATGAAAACAACA
1 TTTATAAAAACAACA
67776 TTTATAAAAACAACA
1 TTTATAAAAACAACA
67791 T
1 T
67792 AATTAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (15 bp):
TTTATAAAAACAACA
Found at i:72200 original size:88 final size:88
Alignment explanation
Indices: 72096--72272 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
72086 TTCAAATTTC
*
72096 ATTTTTGAGAGTTCTAAATCCTTCTTCAATATTTCATTTTGATTTTCAAAATCCATTTTCATTTC
1 ATTTTTGAGAGTTCTAAATCCTTCTTCAAGATTTCATTTTGATTTTCAAAATCCATTTTCATTTC
72161 TAGAAGAAGTTTGTTTAATTTGA
66 TAGAAGAAGTTTGTTTAATTTGA
72184 ATTTTTGAGAGTTCTAAATCCTTCTTCAAGATTTCATTTTGATTTTCAAAATCCATTTTCATTTC
1 ATTTTTGAGAGTTCTAAATCCTTCTTCAAGATTTCATTTTGATTTTCAAAATCCATTTTCATTTC
72249 TAGAAGAAGTTTGTTTAATTTGA
66 TAGAAGAAGTTTGTTTAATTTGA
72272 A
1 A
72273 AATTTCTTTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (88 bp):
ATTTTTGAGAGTTCTAAATCCTTCTTCAAGATTTCATTTTGATTTTCAAAATCCATTTTCATTTC
TAGAAGAAGTTTGTTTAATTTGA
Found at i:73720 original size:20 final size:20
Alignment explanation
Indices: 73682--73720 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
73672 TGTTGAACAG
**
73682 TGGGGGGAATCGGTACCCTC
1 TGGGGGGAATCAATACCCTC
*
73702 TGGGGGGAATCAATTCCCT
1 TGGGGGGAATCAATACCCT
73721 TCGAGCATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (20 bp):
TGGGGGGAATCAATACCCTC
Found at i:74137 original size:17 final size:17
Alignment explanation
Indices: 74115--74150 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
74105 TTAGAGTAAG
74115 TATGAATACATTATTAT
1 TATGAATACATTATTAT
74132 TATGAATACATTATTAT
1 TATGAATACATTATTAT
74149 TA
1 TA
74151 ACTTTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
TATGAATACATTATTAT
Found at i:74500 original size:23 final size:23
Alignment explanation
Indices: 74438--74509 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
74428 AAGTAGCTAG
* *
74438 TTTAACGTAATAGGTAACACTTA
1 TTTAACGTAATAGGTAGCGCTTA
*
74461 TTTAACGTAATAGGTAGTGCTTA
1 TTTAACGTAATAGGTAGCGCTTA
* *
74484 TTTAACATAATAGGTAGCGCCTA
1 TTTAACGTAATAGGTAGCGCTTA
74507 TTT
1 TTT
74510 TATTTTACCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCTTA
Found at i:74600 original size:74 final size:75
Alignment explanation
Indices: 74484--74645 Score: 236
Period size: 74 Copynumber: 2.2 Consensus size: 75
74474 GTAGTGCTTA
* *
74484 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGATTACATTATTAATAACCTTTAAACAAAC
1 TTTAACATAATAGATAGCGCCTATTTTATTTTACCGATTACATTATTAATAACCTTCAAACAAAC
74549 CGGTAGATAT
66 CGGTAGATAT
* * * *
74559 TTTAACGTAATAGATAGCGCCT-TTTTATTTTGCCGTTTACATTATTAATAACCTTCAAACAAAT
1 TTTAACATAATAGATAGCGCCTATTTTATTTTACCGATTACATTATTAATAACCTTCAAACAAAC
*
74623 CGGTAGATAG
66 CGGTAGATAT
* *
74633 TTTGATATAATAG
1 TTTAACATAATAG
74646 GTAACACTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 57 0.74
75 20 0.26
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (75 bp):
TTTAACATAATAGATAGCGCCTATTTTATTTTACCGATTACATTATTAATAACCTTCAAACAAAC
CGGTAGATAT
Found at i:74666 original size:23 final size:23
Alignment explanation
Indices: 74639--74692 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
74629 ATAGTTTGAT
*
74639 ATAATAGGTAACACTTATTTAAC
1 ATAATAGGTAACACCTATTTAAC
* *
74662 GTAATAGGTAGCACCTATTTAAC
1 ATAATAGGTAACACCTATTTAAC
74685 ATAATAGG
1 ATAATAGG
74693 CAACGTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (23 bp):
ATAATAGGTAACACCTATTTAAC
Found at i:74854 original size:23 final size:23
Alignment explanation
Indices: 74828--74900 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
74818 CCAGTATGTA
**
74828 ATTTAACATAATAGGTAGCGTTT
1 ATTTAACATAATAGGTAGCGCCT
* * ***
74851 ATTTAACGTAATATGTAATACCT
1 ATTTAACATAATAGGTAGCGCCT
74874 ATTTAACATAATAGGTAGCGCCT
1 ATTTAACATAATAGGTAGCGCCT
74897 ATTT
1 ATTT
74901 TATTTTACCG
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (23 bp):
ATTTAACATAATAGGTAGCGCCT
Found at i:74854 original size:75 final size:74
Alignment explanation
Indices: 74677--74854 Score: 248
Period size: 75 Copynumber: 2.4 Consensus size: 74
74667 AGGTAGCACC
* * * *
74677 TATTTAACATAATAGGCAACGTTTATTTTATTTTATTGTTTACATTATTAGTAACCTTTAAACAA
1 TATTTAACATAATAGGTAGCGTTTATTTTATTTTACTGTTTACATTATTAGTAACCTTCAAACAA
74742 ACCAGTAGG
66 ACCAGTAGG
* * ***
74751 TATTTGAATATAATAAGTAGCACCTATTTTATTTTACTGTTTACATTATTAGTAACCTTCAAACA
1 TATTT-AACATAATAGGTAGCGTTTATTTTATTTTACTGTTTACATTATTAGTAACCTTCAAACA
*
74816 AACCAGTATG
65 AACCAGTAGG
74826 TAATTTAACATAATAGGTAGCGTTTATTT
1 T-ATTTAACATAATAGGTAGCGTTTATTT
74855 AACGTAATAT
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
74 5 0.06
75 78 0.90
76 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (74 bp):
TATTTAACATAATAGGTAGCGTTTATTTTATTTTACTGTTTACATTATTAGTAACCTTCAAACAA
ACCAGTAGG
Found at i:74876 original size:196 final size:196
Alignment explanation
Indices: 74389--75246 Score: 1155
Period size: 196 Copynumber: 4.4 Consensus size: 196
74379 AAGTTGTATA
* * * * * *
74389 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACAAGTAGCTAGTTTAACGTAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTAGATAGTTTAACATAATAGGTA
* * ** * *
74454 ACACTTATTTAACGTAATAGGTAGTGCTTATTTAACATAATAGGTAGCGCCTATTTTATTTTACC
66 GCGCTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGTAACGCCTATTTTATTTTACC
* * * *
74519 GATTACATTATTAATAACCTTTAAACAAACCGGTAGATATTTTAACGTAAT-AGATAGCGCCT-T
131 GTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATAAG-TAGCACCTAT
74582 TT
195 TT
* * * * * *
74584 TATTTTGCCGTTTACATTATTAATAACCTTCAAACAAATCGGTAGATAGTTTGATATAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTAGATAGTTTAACATAATAGGTA
* * * ** **
74649 ACACTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGCAACGTTTATTTTATTTTATT
66 GCGCTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGTAACGCCTATTTTATTTTACC
* * **
74714 GTTTACATTATTAGTAACCTTTAAACAAACCAGTAGGTATTTGAATATAATAAGTAGCACCTATT
131 GTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATAAGTAGCACCTATT
74779 T
196 T
* *
74780 TATTTTACTGTTTACATTATTAGTAACCTTCAAACAAACCAGTATG-TAATTTAACATAATAGGT
1 TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTA-GATAGTTTAACATAATAGGT
* * ** *
74844 AGCGTTTATTTAACGTAATATGTAATACCTATTTAACATAATAGGTAGCGCCTATTTTATTTTAC
65 AGCGCTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGTAACGCCTATTTTATTTTAC
**
74909 CGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATGGGTAGCACCTAT
130 CGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATAAGTAGCACCTAT
74974 TT
195 TT
* * * *
74976 TATTTTACCGTTTACATTATTAGTATCCTTCAAACAAACCGGTAGGTAGTTTAACATAATAGGTG
1 TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTAGATAGTTTAACATAATAGGTA
* ** *
75041 GCGTTTATTTAACGTAATAGGTAGCGTCTATTTAACATAATAGGTAACACCTATTTTATTTTACC
66 GCGCTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGTAACGCCTATTTTATTTTACC
* * * *
75106 GTTTACATTATTAGTAACCTTTAAACAAACTGGTATGTATTTTAACGTAATAGGTAGCACCTCTT
131 GTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATAAGTAGCACCTATT
75171 T
196 T
* **
75172 TATTTTACCATTTACATTATTAGTAACCTTCAAACAAAATAGTAGATAGTTTAACATAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTAGATAGTTTAACATAATAGGTA
*
75237 GCGCCTATTT
66 GCGCTTATTT
75247 TATTTTAACC
Statistics
Matches: 580, Mismatches: 79, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
195 162 0.28
196 417 0.72
197 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (196 bp):
TATTTTACCGTTTACATTATTAGTAACCTTCAAACAAACCAGTAGATAGTTTAACATAATAGGTA
GCGCTTATTTAACGTAATAGGTAGCACCTATTTAACATAATAGGTAACGCCTATTTTATTTTACC
GTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTATTTTAACGTAATAAGTAGCACCTATT
T
Found at i:74975 original size:121 final size:122
Alignment explanation
Indices: 74751--74975 Score: 326
Period size: 121 Copynumber: 1.9 Consensus size: 122
74741 AACCAGTAGG
* *
74751 TATTTGAATATAATAAGTAGCACCTATTTTATTTTACTGTTTACATTATTAGTAACCTTCAAACA
1 TATTTGAACATAATAAGTAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACA
* ***
74816 AACCAGTATGTAATTTAACATAATAGGTAGCGTTTATTTAACGTAATATGTAATACC
66 AACCAGTAGGTAATTTAACATAATAGGTAGCACCTATTTAACGTAATATGTAATACC
* * *
74873 TATTT-AACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACA
1 TATTTGAACATAATAAGTAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACA
* * * *
74937 AACCGGTAGGTATTTTAACGTAATGGGTAGCACCTATTT
66 AACCAGTAGGTAATTTAACATAATAGGTAGCACCTATTT
74976 TATTTTACCG
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
121 85 0.94
122 5 0.06
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (122 bp):
TATTTGAACATAATAAGTAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACA
AACCAGTAGGTAATTTAACATAATAGGTAGCACCTATTTAACGTAATATGTAATACC
Found at i:75050 original size:75 final size:75
Alignment explanation
Indices: 74875--75039 Score: 276
Period size: 75 Copynumber: 2.2 Consensus size: 75
74865 GTAATACCTA
*
74875 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
*
74940 CGGTAGGTAT
66 CGGTAGGTAG
* * * *
74950 TTTAACGTAATGGGTAGCACCTATTTTATTTTACCGTTTACATTATTAGTATCCTTCAAACAAAC
1 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
75015 CGGTAGGTAG
66 CGGTAGGTAG
75025 TTTAACATAATAGGT
1 TTTAACATAATAGGT
75040 GGCGTTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (75 bp):
TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
CGGTAGGTAG
Found at i:75058 original size:23 final size:23
Alignment explanation
Indices: 75025--75086 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
75015 CGGTAGGTAG
* *
75025 TTTAACATAATAGGTGGCGTTTA
1 TTTAACATAATAGGTAGCGTCTA
*
75048 TTTAACGTAATAGGTAGCGTCTA
1 TTTAACATAATAGGTAGCGTCTA
75071 TTTAACATAATAGGTA
1 TTTAACATAATAGGTA
75087 ACACCTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (23 bp):
TTTAACATAATAGGTAGCGTCTA
Found at i:75094 original size:23 final size:23
Alignment explanation
Indices: 75046--75096 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
75036 AGGTGGCGTT
* * **
75046 TATTTAACGTAATAGGTAGCGTC
1 TATTTAACATAATAGGTAACACC
75069 TATTTAACATAATAGGTAACACC
1 TATTTAACATAATAGGTAACACC
75092 TATTT
1 TATTT
75097 TATTTTACCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
TATTTAACATAATAGGTAACACC
Found at i:75194 original size:75 final size:75
Alignment explanation
Indices: 75071--75253 Score: 269
Period size: 75 Copynumber: 2.4 Consensus size: 75
75061 GTAGCGTCTA
* * * *
75071 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAAA
* *
75136 TGGTATG-TAT
66 TAGTA-GATAG
* *
75146 TTTAACGTAATAGGTAGCACCTCTTTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAAA
1 TTTAACATAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAAA
75211 TAGTAGATAG
66 TAGTAGATAG
*
75221 TTTAACATAATAGGTAGCGCCTATTTTATTTTA
1 TTTAACATAATAGGTAGCACCTATTTTATTTTA
75254 ACCGATTAGG
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 1 0.01
75 95 0.99
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (75 bp):
TTTAACATAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAAA
TAGTAGATAG
Found at i:76123 original size:16 final size:16
Alignment explanation
Indices: 76098--76128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76088 TATTAATTAT
76098 AAATTAAATATTATAA
1 AAATTAAATATTATAA
*
76114 AAATTTAATATTATA
1 AAATTAAATATTATA
76129 TAAACTCATT
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):
AAATTAAATATTATAA
Found at i:80257 original size:105 final size:105
Alignment explanation
Indices: 80074--80281 Score: 319
Period size: 105 Copynumber: 2.0 Consensus size: 105
80064 ATACTCCTAT
* *
80074 ATTCTGATGTCAACATCTATTCCTAAAGAACTTGCTAGCAATACCTCTCTTTGAATTCAGTCAAC
1 ATTCTGATGTCAACATCTATTCCTAAACAACTTGCTAGAAATACCTCTCTTTGAATTCAGTCAAC
* *
80139 AATTAGATAATGACAACTTCCTAACTAGCAACAGTAAACA
66 AATTAGATAATGACAACTTCATAACTAACAACAGTAAACA
* * *
80179 ATTCTGATGTCAGCATCTATTTCTAAACAAC-TGACTAGAAATACCTCTCTTTGACTTCAGTCAA
1 ATTCTGATGTCAACATCTATTCCTAAACAACTTG-CTAGAAATACCTCTCTTTGAATTCAGTCAA
* *
80243 CAATTAGATGATGACAACTTCATAACTAACACCAGTAAA
65 CAATTAGATAATGACAACTTCATAACTAACAACAGTAAA
80282 TAAAATGCAG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 2 0.02
105 91 0.98
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (105 bp):
ATTCTGATGTCAACATCTATTCCTAAACAACTTGCTAGAAATACCTCTCTTTGAATTCAGTCAAC
AATTAGATAATGACAACTTCATAACTAACAACAGTAAACA
Found at i:86509 original size:2 final size:2
Alignment explanation
Indices: 86459--86496 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
86449 GGATCATAGA
86459 AT 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 AT
86497 CACATTGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87354 original size:18 final size:18
Alignment explanation
Indices: 87331--87384 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
87321 TTAAAATTTG
*
87331 TCCCGAAGGACCACTTTA
1 TCCCGAAGGACCACTATA
*
87349 TCCCGAATGACCACTATA
1 TCCCGAAGGACCACTATA
87367 TCCCGAAGGACCACTATA
1 TCCCGAAGGACCACTATA
87385 ACCCTCAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.20
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:88073 original size:20 final size:20
Alignment explanation
Indices: 88048--88116 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
88038 TGTTTCAAAG
88048 ATGGTATCGATACCGTCCTT
1 ATGGTATCGATACCGTCCTT
*
88068 ATGGTATCGGTA-C--CC-T
1 ATGGTATCGATACCGTCCTT
* *
88084 -TGGTATCGATACTGTTCTT
1 ATGGTATCGATACCGTCCTT
88103 CA-GGTATCGATACC
1 -ATGGTATCGATACC
88117 TCATGAATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 10 0.26
16 1 0.03
17 2 0.05
18 1 0.03
19 2 0.05
20 22 0.58
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (20 bp):
ATGGTATCGATACCGTCCTT
Found at i:88109 original size:35 final size:35
Alignment explanation
Indices: 88049--88116 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
88039 GTTTCAAAGA
*
88049 TGGTATCGATACCGTCCTTATGGTATCGGTACCCT
1 TGGTATCGATACCGTCCTTATGGTATCGATACCCT
* *
88084 TGGTATCGATACTGTTCTTCA-GGTATCGATACC
1 TGGTATCGATACCGTCCTT-ATGGTATCGATACC
88117 TCATGAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (35 bp):
TGGTATCGATACCGTCCTTATGGTATCGATACCCT
Found at i:94534 original size:23 final size:22
Alignment explanation
Indices: 94489--94540 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
94479 TTAGTGTAGA
*
94489 GGGAATCGATACCCCCTTAAAG
1 GGGAACCGATACCCCCTTAAAG
* * *
94511 GGTAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTAAAG
94534 GGGAACC
1 GGGAACC
94541 TGTAACACCC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTAAAG
Found at i:95443 original size:21 final size:21
Alignment explanation
Indices: 95417--95474 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
95407 ACGTAGAATT
95417 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
95438 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
95459 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
95475 TTATAACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (21 bp):
TGTCCCGAAGGACCACGTAGA
Found at i:97257 original size:22 final size:21
Alignment explanation
Indices: 97206--97263 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
97196 GTTACAGAAC
*
97206 CGATTCCCCCTGTAGGGGAAT
1 CGATACCCCCTGTAGGGGAAT
97227 CGATACCCCCTGTAGGGGAAT
1 CGATACCCCCTGTAGGGGAAT
97248 CGATACCCCCTG-AGGG
1 CGATACCCCCTGTAGGG
97264 TTCTGGTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (21 bp):
CGATACCCCCTGTAGGGGAAT
Found at i:98859 original size:18 final size:18
Alignment explanation
Indices: 98838--98876 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
98828 AACATCACGC
*
98838 GGAACAAGCACCAGCAGA
1 GGAACAAGCACCAACAGA
*
98856 GGAACAAGCACGAACAGA
1 GGAACAAGCACCAACAGA
98874 GGA
1 GGA
98877 TCAAATGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.31, T:0.00
Consensus pattern (18 bp):
GGAACAAGCACCAACAGA
Found at i:99355 original size:14 final size:14
Alignment explanation
Indices: 99336--99362 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99326 GCTATTTCAC
99336 ATTTGATTATGAAT
1 ATTTGATTATGAAT
99350 ATTTGATTATGAA
1 ATTTGATTATGAA
99363 ACTAATGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
ATTTGATTATGAAT
Found at i:108714 original size:20 final size:20
Alignment explanation
Indices: 108672--108716 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
108662 GGTTCACCCA
* *
108672 GGTTTTATCGGTTTTCAGTC
1 GGTTCTATCGGTTTTCAGCC
*
108692 GGTTCTATCGGTTTTCGGCC
1 GGTTCTATCGGTTTTCAGCC
108712 GGTTC
1 GGTTC
108717 ATTGCCAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.20, G:0.29, T:0.44
Consensus pattern (20 bp):
GGTTCTATCGGTTTTCAGCC
Found at i:114458 original size:15 final size:14
Alignment explanation
Indices: 114440--114530 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 14
114430 GCAACATTAG
114440 AAATAAATAGAAAAA
1 AAATAAA-AGAAAAA
114455 AAATTAAAA-ATTAAAA
1 AAA-TAAAAGA--AAAA
* **
114471 AATTAAAAGTCAAA
1 AAATAAAAGAAAAA
*
114485 AAAGAAAAGAAAAA
1 AAATAAAAGAAAAA
* *
114499 AAAGAAAAAAAAAAGA
1 AAA-TAAAAGAAAA-A
*
114515 AAAAAAAAGAAAAA
1 AAATAAAAGAAAAA
114529 AA
1 AA
114531 TGGTTGTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 20 0.33
15 26 0.43
16 14 0.23
ACGTcount: A:0.81, C:0.01, G:0.08, T:0.10
Consensus pattern (14 bp):
AAATAAAAGAAAAA
Found at i:114486 original size:1 final size:1
Alignment explanation
Indices: 114482--114530 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
114472 ATTAAAAGTC
* * * * *
114482 AAAAAAGAAAAGAAAAAAAAGAAAAAAAAAAGAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
114531 TGGTTGTTTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:114506 original size:20 final size:21
Alignment explanation
Indices: 114482--114530 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
114472 ATTAAAAGTC
114482 AAAAAAGAAAAG-AAAAAAAAG
1 AAAAAA-AAAAGAAAAAAAAAG
114503 AAAAAAAAAAGAAAAAAAAAG
1 AAAAAAAAAAGAAAAAAAAAG
114524 AAAAAAA
1 AAAAAAA
114531 TGGTTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAAAAG
Found at i:114507 original size:10 final size:10
Alignment explanation
Indices: 114483--114530 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
114473 TTAAAAGTCA
114483 AAAAAGAAAAG
1 AAAAA-AAAAG
114494 -AAAAAAAAG
1 AAAAAAAAAG
114503 AAAAAAAAAAG
1 -AAAAAAAAAG
114514 AAAAAAAAAG
1 AAAAAAAAAG
114524 AAAAAAA
1 AAAAAAA
114531 TGGTTGTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.14
10 21 0.60
11 9 0.26
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:115269 original size:23 final size:23
Alignment explanation
Indices: 115239--115283 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
115229 GGACACGACG
*
115239 TTGGGCATGACGCGTGTCTGACT
1 TTGGGCATGACGCGGGTCTGACT
115262 TTGGGCATGACGCGGGTCTGAC
1 TTGGGCATGACGCGGGTCTGAC
115284 ATGGCAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.38, T:0.27
Consensus pattern (23 bp):
TTGGGCATGACGCGGGTCTGACT
Found at i:117928 original size:3 final size:3
Alignment explanation
Indices: 117914--117950 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
117904 TCTACAAAAA
117914 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
117951 ACTTAATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:119004 original size:2 final size:2
Alignment explanation
Indices: 118999--119044 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
118989 CCTAAGAGAT
118999 TA TA TA TA 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 TA
119041 TA TA
1 TA TA
119045 GGCGAAACGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119249 original size:20 final size:21
Alignment explanation
Indices: 119207--119249 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
119197 TATTTTAGTA
*
119207 TTTTTTTTACATATTATGTAT
1 TTTTTTTTACATATTATGAAT
119228 TTTTTTGTTA-ATATT-TGAAT
1 TTTTTT-TTACATATTATGAAT
119248 TT
1 TT
119250 GGCCATGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 11 0.55
22 3 0.15
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTTTTACATATTATGAAT
Found at i:119509 original size:30 final size:29
Alignment explanation
Indices: 119464--119597 Score: 94
Period size: 29 Copynumber: 4.5 Consensus size: 29
119454 TGTTAGGACC
*
119464 ATTTTAGACCCTTTAAGATTCTATTTTTACT
1 ATTTTAG-TCCTTTAA-ATTCTATTTTTACT
* *
119495 ATTTTAGTCCTTTAATTATCTA-TTTTGCT
1 ATTTTAGTCCTTTAAAT-TCTATTTTTACT
* * * *
119524 ATTTTAATCCCTTAAATGTATGTTTTTACT
1 ATTTTAGTCCTTTAAAT-TCTATTTTTACT
* * *
119554 ATTTTGGACCTTTTAAATTTCTATTTTT-GT
1 ATTTTAGTCC-TTTAAA-TTCTATTTTTACT
*
119584 -TTTTGGTCCTTTAA
1 ATTTTAGTCCTTTAA
119598 GTTTCTGTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
28 5 0.06
29 31 0.38
30 25 0.31
31 19 0.23
32 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.08, T:0.56
Consensus pattern (29 bp):
ATTTTAGTCCTTTAAATTCTATTTTTACT
Found at i:119536 original size:60 final size:60
Alignment explanation
Indices: 119464--119580 Score: 134
Period size: 59 Copynumber: 1.9 Consensus size: 60
119454 TGTTAGGACC
* *
119464 ATTTTAGACCCTTTAAGAT-TCTATTTTTACTATTTTAGTCC-TTT-AATTATCTATTTTGCT
1 ATTTTAGACCC-TTAA-ATGTATATTTTTACTATTTTAGACCTTTTAAATT-TCTATTTTGCT
* *
119524 ATTTTA-ATCCCTTAAATGTATGTTTTTACTATTTTGGACCTTTTAAATTTCTATTTT
1 ATTTTAGA-CCCTTAAATGTATATTTTTACTATTTTAGACCTTTTAAATTTCTATTTT
119581 TGTTTTTGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
58 2 0.04
59 23 0.47
60 20 0.41
61 4 0.08
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.56
Consensus pattern (60 bp):
ATTTTAGACCCTTAAATGTATATTTTTACTATTTTAGACCTTTTAAATTTCTATTTTGCT
Found at i:119597 original size:28 final size:30
Alignment explanation
Indices: 119553--119627 Score: 91
Period size: 28 Copynumber: 2.5 Consensus size: 30
119543 ATGTTTTTAC
* *
119553 TATTTTGGACCTTTTAAATTTCTATTTTTG-
1 TATTTTGGTCC-TTTAAATTTCTATATTTGT
* *
119583 T-TTTTGGTCCTTTAAGTTTCTGTATTTGT
1 TATTTTGGTCCTTTAAATTTCTATATTTGT
119612 TATTTTGGTCCTTTAA
1 TATTTTGGTCCTTTAA
119628 CGTTATGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.38
29 9 0.23
30 15 0.38
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (30 bp):
TATTTTGGTCCTTTAAATTTCTATATTTGT
Found at i:122976 original size:20 final size:20
Alignment explanation
Indices: 122951--122991 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
122941 ACATTCCCTC
*
122951 TCTTTGAGACCTTGAAACAT
1 TCTTTGAGACCTTAAAACAT
122971 TCTTTGAGACCTTAAAACAT
1 TCTTTGAGACCTTAAAACAT
122991 T
1 T
122992 GGATTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCTTTGAGACCTTAAAACAT
Found at i:124087 original size:20 final size:20
Alignment explanation
Indices: 124055--124109 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
124045 TGAATCTTTA
*
124055 AGTAGTATCGATACTGAATG
1 AGTAGTATCGATACTGAAGG
* *
124075 AGTATTATTGATACTGAAGG
1 AGTAGTATCGATACTGAAGG
124095 AGTAGTATCGATACT
1 AGTAGTATCGATACT
124110 AGGGGTATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (20 bp):
AGTAGTATCGATACTGAAGG
Found at i:125074 original size:21 final size:22
Alignment explanation
Indices: 125046--125172 Score: 116
Period size: 21 Copynumber: 5.8 Consensus size: 22
125036 CTTAAGGAGA
*
125046 ATTCTATGTGGTCATTCGGGAC
1 ATTCTATGTGGTCCTTCGGGAC
*
125068 A-TATATGTGGTCCTTCGGGAC
1 ATTCTATGTGGTCCTTCGGGAC
* *
125089 ATT-TATACGTGTTCCTTTGGGAC
1 ATTCTAT--GTGGTCCTTCGGGAC
* * *
125112 ATTTCTACGTGTTCCTTTGGGAC
1 A-TTCTATGTGGTCCTTCGGGAC
* *
125135 A-TCTATGTGGTCATTCGAGAC
1 ATTCTATGTGGTCCTTCGGGAC
*
125156 ATTCTATGTGGTACTTC
1 ATTCTATGTGGTCCTTC
125173 AGTGAAATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
21 38 0.44
22 15 0.17
23 30 0.34
24 2 0.02
25 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
ATTCTATGTGGTCCTTCGGGAC
Found at i:125104 original size:23 final size:23
Alignment explanation
Indices: 125060--125136 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
125050 TATGTGGTCA
* *
125060 TTCGGGACA--TATATGTGGTCC
1 TTCGGGACATTTATACGTGTTCC
125081 TTCGGGACATTTATACGTGTTCC
1 TTCGGGACATTTATACGTGTTCC
* *
125104 TTTGGGACATTTCTACGTGTTCC
1 TTCGGGACATTTATACGTGTTCC
*
125127 TTTGGGACAT
1 TTCGGGACAT
125137 CTATGTGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.18
23 41 0.82
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (23 bp):
TTCGGGACATTTATACGTGTTCC
Found at i:131457 original size:21 final size:20
Alignment explanation
Indices: 131429--131467 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
131419 CATTGTAGGA
*
131429 ATTTATGGCATCGACAAAAG
1 ATTTATGGCATCAACAAAAG
*
131449 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCATCAACAAA
131468 GACCTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTTATGGCATCAACAAAAG
Found at i:142417 original size:23 final size:21
Alignment explanation
Indices: 142390--142462 Score: 94
Period size: 23 Copynumber: 3.3 Consensus size: 21
142380 CTTAAGGAGA
*
142390 ATTCTATGTGGTCATTTCGGAC
1 ATTCTATGTGGTCCTTT-GGAC
142412 ATTTCTATGTGGTCCTTTGGGAC
1 A-TTCTATGTGGTCCTTT-GGAC
142435 A-TCTATGTGGTCCTTTGAGAC
1 ATTCTATGTGGTCCTTTG-GAC
142456 ATTCTAT
1 ATTCTAT
142463 ATGGCACTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.02
21 19 0.41
22 6 0.13
23 20 0.43
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (21 bp):
ATTCTATGTGGTCCTTTGGAC
Found at i:142441 original size:21 final size:22
Alignment explanation
Indices: 142390--142462 Score: 103
Period size: 21 Copynumber: 3.3 Consensus size: 22
142380 CTTAAGGAGA
* *
142390 ATTCTATGTGGTCATTTCGGAC
1 ATTCTATGTGGTCCTTTGGGAC
142412 ATTTCTATGTGGTCCTTTGGGAC
1 A-TTCTATGTGGTCCTTTGGGAC
*
142435 A-TCTATGTGGTCCTTTGAGAC
1 ATTCTATGTGGTCCTTTGGGAC
142456 ATTCTAT
1 ATTCTAT
142463 ATGGCACTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 20 0.43
22 6 0.13
23 20 0.43
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (22 bp):
ATTCTATGTGGTCCTTTGGGAC
Found at i:144057 original size:2 final size:2
Alignment explanation
Indices: 144050--144080 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
144040 ACCCATAATG
144050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
144081 GTATGTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:146125 original size:23 final size:22
Alignment explanation
Indices: 146091--146133 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
146081 TCCCCGCCCC
146091 GATTCCCGAATACCCGGCCCGA
1 GATTCCCGAATACCCGGCCCGA
146113 GATTACCCGAATACCCGGCCC
1 GATT-CCCGAATACCCGGCCC
146134 AATAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.23, C:0.42, G:0.21, T:0.14
Consensus pattern (22 bp):
GATTCCCGAATACCCGGCCCGA
Found at i:146821 original size:130 final size:129
Alignment explanation
Indices: 146605--146849 Score: 348
Period size: 130 Copynumber: 1.9 Consensus size: 129
146595 ATGGTTTGTT
** ** * * * *
146605 ATCCTCATCGTGTAGGAACTGTGTTATCCCCCTACCAGACCTCCTCATCACGTAGGAGTCGTGTC
1 ATCCTCATCACGTAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGTCGTGTC
* *
146670 ACCCCTGATAATCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATAGCATGCC
66 ACCCCTGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCA-CCCTAAAGATAGCATGCC
146735 ATCCTCATCACGTAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGTCGTGTC
1 ATCCTCATCACGTAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGTCGTGTC
** *
146800 ACCCCTAGATAACCA-TTGTCCTCATCGCGTAGGAACCATGTTATCACCCT
66 ACCCCT-GATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCCT
146850 CCCTAAATAT
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.04
130 90 0.89
131 7 0.07
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (129 bp):
ATCCTCATCACGTAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGTCGTGTC
ACCCCTGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCCTAAAGATAGCATGCC
Found at i:148134 original size:2 final size:2
Alignment explanation
Indices: 148129--148194 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
148119 CCTAAGAGAT
148129 TA TA TA TA 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 TA
148171 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
148195 GGCGAAACGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:148762 original size:30 final size:30
Alignment explanation
Indices: 148718--148778 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
148708 TTTAAATTTA
* * * *
148718 TGTTTTTTTTGTCCTTTAAGTTTCTGTATT
1 TGTTATTTTGGTCCTTTAACTTTATGTATT
148748 TGTTATTTTGGTCCTTTAACTTTATGTATT
1 TGTTATTTTGGTCCTTTAACTTTATGTATT
148778 T
1 T
148779 ATTGTTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.64
Consensus pattern (30 bp):
TGTTATTTTGGTCCTTTAACTTTATGTATT
Found at i:150306 original size:14 final size:14
Alignment explanation
Indices: 150287--150315 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
150277 AATTAATGTA
150287 TTAATTTAAAAAAT
1 TTAATTTAAAAAAT
150301 TTAATTTAAAAAAT
1 TTAATTTAAAAAAT
150315 T
1 T
150316 ACAGTCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATTTAAAAAAT
Found at i:154517 original size:20 final size:20
Alignment explanation
Indices: 154492--154535 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
154482 TTTGCGGATC
154492 AAACCACGATTTTTATCTTT
1 AAACCACGATTTTTATCTTT
154512 AAACCACGATTTTTATCTTT
1 AAACCACGATTTTTATCTTT
154532 AAAC
1 AAAC
154536 TCAGCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (20 bp):
AAACCACGATTTTTATCTTT
Found at i:155579 original size:4 final size:4
Alignment explanation
Indices: 155570--155594 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
155560 ATTTCATGAA
155570 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
155595 CACATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:157479 original size:111 final size:111
Alignment explanation
Indices: 157319--157910 Score: 891
Period size: 111 Copynumber: 5.3 Consensus size: 111
157309 AACTTTAAAA
* * * * *
157319 AAAGTATCGATCCTTTTTATAAAAAGTATTTATACATTCAACATATCAGGTAAATTTTACTGTTT
1 AAAGTATCGATCATTTTTAT-AAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTT
157384 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
65 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
157431 AAAGTATCTATCATTTTTATAAAAGGATCTATATTTTCAACATATCAGGTAAATTTTACCGGTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* *
157496 TATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * *
157542 AAAGTATCTATCCTTTTTATAAAATGATCTATACTTTCAACATATCAGGTAAATTTGACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* * *
157607 TGTCATAATGAAATTGGTTTTGTCATATTTATACATGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
157653 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTTT
157718 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * * *
157764 AAAGTATCGATCATTTTTATAAAATGATCGATACTTTCAACATATTAGGTAAACTTTA-CTTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* *
157828 TGTCATAATGAAATTGATTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
157874 AAAATATCGATACATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATCGAT-CATTTTTATAAAAGGATCTATACTTT
157911 ATAGGCGCTA
Statistics
Matches: 440, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
110 73 0.17
111 349 0.79
112 18 0.04
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAGGATCTATACTTTCAACATATCAGGTAAATTTTACCGTTTT
TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:157563 original size:20 final size:21
Alignment explanation
Indices: 157538--157578 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
157528 ACCTGTTATA
* *
157538 TTATAAAGT-ATCTATCCTTT
1 TTATAAAATGATCTATACTTT
157558 TTATAAAATGATCTATACTTT
1 TTATAAAATGATCTATACTTT
157579 CAACATATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (21 bp):
TTATAAAATGATCTATACTTT
Found at i:158538 original size:90 final size:91
Alignment explanation
Indices: 158431--158614 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 91
158421 TGGTTTTATT
* *
158431 ATATTTTTACATGTTATATTGTAAAGTAT-TATTCTTTTTATAAAAGAATTTATACTTTTAACAT
1 ATATTTTTACATGTTATATTGTAAAGTATCTATTCTTCTTATAAAAGAATCTATACTTTTAACAT
*
158495 ATTAGGTAAATTTTACCAG-TTTTGTC
66 ATCAGGTAAATTTTACC-GTTTTTGTC
* *
158521 ATATTTTTACCTGTTATATTGTAAAGTATCTATTCTTCTTATAAAAGGATCTATACTTTTAACAT
1 ATATTTTTACATGTTATATTGTAAAGTATCTATTCTTCTTATAAAAGAATCTATACTTTTAACAT
158586 ATCAGGTAAATTTTACCGTTTTTGTC
66 ATCAGGTAAATTTTACCGTTTTTGTC
158612 ATA
1 ATA
158615 ATGAAACTGG
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
90 29 0.33
91 58 0.67
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.48
Consensus pattern (91 bp):
ATATTTTTACATGTTATATTGTAAAGTATCTATTCTTCTTATAAAAGAATCTATACTTTTAACAT
ATCAGGTAAATTTTACCGTTTTTGTC
Found at i:158716 original size:81 final size:81
Alignment explanation
Indices: 158581--158742 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
158571 CTATACTTTT
* * **
158581 AACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTATTTGT
1 AACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGT
158646 TATATTGTAAAGTATC
66 TATATTGTAAAGTATC
158662 AACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGT
1 AACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGT
158727 TATATTGTAAAGTATC
66 TATATTGTAAAGTATC
158743 TATCCTTTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (81 bp):
AACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCTGT
TATATTGTAAAGTATC
Found at i:158919 original size:110 final size:110
Alignment explanation
Indices: 158660--159213 Score: 889
Period size: 111 Copynumber: 5.0 Consensus size: 110
158650 TTGTAAAGTA
* *
158660 TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
158725 GTTATATTGTAAAGTATCTATCCTTTTTATAAAAGAATCTATACTT
66 GTTATATTGTAAAGTATCTATCCTTTTTATAAAAG-ATCGATACTT
*
158771 TCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
158836 GTTATATTGTAAAGTATCTAT-CTTTTTATAAAACGATCTATACTT
66 GTTATATTGTAAAGTATCTATCCTTTTTATAAAA-GATCGATACTT
158881 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
158946 GTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTT
66 GTTATATTGTAAAGTATCTATCCTTTTTATAAAA-GATCGATACTT
*
158992 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* *
159057 GTTATATCGTAAAGTATCGATCCTTTTTATAAAATGATCGATACTT
66 GTTATATTGTAAAGTATCTATCCTTTTTATAAAA-GATCGATACTT
* * *
159103 TCAATATATCAGGTAAA-TTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACTT
1 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* * * *
159167 GTTATATTATAAAATATCGATACATTTTTAT-AAAGTATCGATACTT
66 GTTATATTGTAAAGTATCTAT-CCTTTTTATAAAAG-ATCGATACTT
159213 T
1 T
159214 ATAGACGCTA
Statistics
Matches: 419, Mismatches: 20, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.00
110 183 0.44
111 235 0.56
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (110 bp):
TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
GTTATATTGTAAAGTATCTATCCTTTTTATAAAAGATCGATACTT
Found at i:158932 original size:221 final size:222
Alignment explanation
Indices: 158660--159213 Score: 925
Period size: 221 Copynumber: 2.5 Consensus size: 222
158650 TTGTAAAGTA
*
158660 TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTAGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* *
158725 GTTATATTGTAAAGTATCTATCCTTTTTATAAAAGAATCTATACTTTCAACATATCAGGTAAATT
66 GTTATATTGTAAAGTATCTATCATTTTTATAAAAGAATCGATACTTTCAACATATCAGGTAAATT
* * *
158790 TTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCT
131 TTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATCGTAAAGTATCG
*
158855 AT-CTTTTTATAAAACGATCTATACTT
196 ATCCTTTTTATAAAACGATCGATACTT
*
158881 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
1 TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
*
158946 GTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATT
66 GTTATATTGTAAAGTATCTATCATTTTTATAAAAGAATCGATACTTTCAACATATCAGGTAAATT
*
159011 TTACCGTTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATCGTAAAGTATCG
131 TTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATCGTAAAGTATCG
*
159076 ATCCTTTTTATAAAATGATCGATACTT
196 ATCCTTTTTATAAAACGATCGATACTT
* *
159103 TCAATATATCAGGTAAA-TTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACTT
1 TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
* * * *
159167 GTTATATTATAAAATATCGATACATTTTTAT-AAAGTATCGATACTTT
66 GTTATATTGTAAAGTATCTAT-CATTTTTATAAAAGAATCGATACTTT
159214 ATAGACGCTA
Statistics
Matches: 313, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
221 266 0.85
222 47 0.15
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (222 bp):
TCAACATATCAGGTAAATTTTACCCTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT
GTTATATTGTAAAGTATCTATCATTTTTATAAAAGAATCGATACTTTCAACATATCAGGTAAATT
TTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATCGTAAAGTATCG
ATCCTTTTTATAAAACGATCGATACTT
Found at i:159216 original size:18 final size:19
Alignment explanation
Indices: 159173--159213 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
159163 ACTTGTTATA
159173 TTATAAAATATCGATACATTT
1 TTATAAAATATCGATAC--TT
*
159194 TTATAAAGTATCGATACTT
1 TTATAAAATATCGATACTT
159213 T
1 T
159214 ATAGACGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
21 16 0.84
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (19 bp):
TTATAAAATATCGATACTT
Found at i:159705 original size:135 final size:135
Alignment explanation
Indices: 159454--159904 Score: 805
Period size: 135 Copynumber: 3.3 Consensus size: 135
159444 ACAAATTAAG
* ** * * * * *
159454 TAAGAAATT-ACCTATTTTGTTACATAAGCGCTACTTAATATGTTATTACATTTGATAATGTTTC
1 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
159518 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
66 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
159583 CAAAT
131 CAAAT
159588 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
1 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
159653 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
66 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
159718 CAAAT
131 CAAAT
159723 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
1 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
* *
159788 TAGTAATTAACCGATTATGTTATCATTAGTAACATTTTAGGCGTTTACTTAATATGTTGTAATAA
66 TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
159853 CAAAT
131 CAAAT
159858 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTAT
1 TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTAT
159905 ATAAGCGTTA
Statistics
Matches: 306, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
134 8 0.03
135 298 0.97
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (135 bp):
TAAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTATTACATTTGATAATGTTTC
TAGTAATTAACCGATTATGTTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
CAAAT
Found at i:159905 original size:23 final size:23
Alignment explanation
Indices: 159879--159927 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
159869 CCTATTTTAA
*
159879 TATATAAACGCTACCTATTACGT
1 TATATAAACGCTACCTAATACGT
* * *
159902 TATATAAGCGTTACCTAATATGT
1 TATATAAACGCTACCTAATACGT
159925 TAT
1 TAT
159928 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (23 bp):
TATATAAACGCTACCTAATACGT
Found at i:159981 original size:23 final size:23
Alignment explanation
Indices: 159955--160044 Score: 153
Period size: 23 Copynumber: 3.9 Consensus size: 23
159945 CCAATAATTA
**
159955 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
159978 ACCTATTACATTATATAAGCACT
1 ACCTATTACATTATATAAGCGCT
160001 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
160024 ACCTATTACATTATATAAGCG
1 ACCTATTACATTATATAAGCG
160045 GTATCTAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:160060 original size:23 final size:23
Alignment explanation
Indices: 159964--160054 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
159954 AACCTATTTT
*
159964 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
159987 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
160010 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
160033 ATTATATAAGCGGTATCTAATA
1 ATTATATAAGCGCTACCTAATA
160055 TGTTATTGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:160106 original size:133 final size:133
Alignment explanation
Indices: 159879--160129 Score: 421
Period size: 133 Copynumber: 1.9 Consensus size: 133
159869 CCTATTTTAA
* * *
159879 TATATAAACGCTACCTATTACGTTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATT
1 TATATAAACGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTACTTAATAATATT
*
159944 TCCAATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCACTACCTATTA
66 TCCAATAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCACTACCTATTA
160009 CAT
131 CAT
* * * *
160012 TATATAAGCGCTACCTATTACATTATATAAGCGGTATCTAATATGTTATTGTGCTTAATAATGTT
1 TATATAAACGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTACTTAATAATATT
*
160077 TCCAGTAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAG
66 TCCAATAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAG
160130 TGGTACATAA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 109 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (133 bp):
TATATAAACGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTACTTAATAATATT
TCCAATAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCACTACCTATTA
CAT
Found at i:164561 original size:26 final size:26
Alignment explanation
Indices: 164532--164606 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
164522 ATTTAATTAA
*
164532 TTAAAATGACTGAAATACCC-CGAGCT
1 TTAAAATGACTAAAATACCCTCGAG-T
*
164558 TTAAAAT-AATCAAAATACCCTCGAGT
1 TTAAAATGACT-AAAATACCCTCGAGT
* *
164584 TCTAGAATGACTTAAATACCCTC
1 T-TAAAATGACTAAAATACCCTC
164607 ATGACTTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 2 0.05
26 17 0.43
27 19 0.47
28 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.27
Consensus pattern (26 bp):
TTAAAATGACTAAAATACCCTCGAGT
Found at i:167348 original size:39 final size:39
Alignment explanation
Indices: 167297--167402 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 39
167287 TTTAAAAAAT
167297 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
* * * **
167336 AATTTACAATGTT-ATGGTGGTAA-AATGTAAGAAATTAGG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAAA
*
167375 AATTTTGAATGTTAGA-GTGAAATAATTT
1 AATTTAGAATGTTA-ATGTGAAATAATTT
167403 GAGGATTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
38 5 0.09
39 44 0.83
40 3 0.06
41 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.18, T:0.37
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
Found at i:177841 original size:61 final size:61
Alignment explanation
Indices: 177724--177851 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 61
177714 GTTTATTTTG
* * *
177724 TAGTAAATTAATAGCTATTAATTAATAATTTAATATTTTTTTTATTAGAAGATTAATAGAT
1 TAGTAAATTAATAGCTATTAATTAATAATTTAATATATTATTTATTAGAAGATTAATAAAT
* * * *
177785 TAGTAAATTAGTAGTAGTTATTAATTAGTAATTT-AT-TATTATTTATTA-TATATTAATAAAT
1 TAGTAAATTA--A-TAGCTATTAATTAATAATTTAATATATTATTTATTAGAAGATTAATAAAT
177846 TAGTAA
1 TAGTAA
177852 TTATTACTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
61 26 0.46
62 10 0.18
63 3 0.05
64 18 0.32
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (61 bp):
TAGTAAATTAATAGCTATTAATTAATAATTTAATATATTATTTATTAGAAGATTAATAAAT
Found at i:179353 original size:13 final size:13
Alignment explanation
Indices: 179337--179373 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
179327 TTATTTTTTA
179337 AATTTTATAATTT
1 AATTTTATAATTT
179350 AATTTTAT-A-TT
1 AATTTTATAATTT
179361 AATATTTATAATT
1 AAT-TTTATAATT
179374 CTGATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.24
12 6 0.29
13 9 0.43
14 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTATAATTT
Found at i:182035 original size:20 final size:20
Alignment explanation
Indices: 182007--182060 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
181997 GATATGTTGA
*
182007 AAGTGTCGATACTTTATTAT
1 AAGTATCGATACTTTATTAT
182027 AAGTATCGATACTTTATTAT
1 AAGTATCGATACTTTATTAT
182047 AAGTATCGA-ACTTT
1 AAGTATCGATACTTT
182061 TGGAATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (20 bp):
AAGTATCGATACTTTATTAT
Found at i:182180 original size:20 final size:21
Alignment explanation
Indices: 182147--182185 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
182137 ATAACAAGTA
*
182147 AAAATATGATAAAAACGGTCT
1 AAAATATGACAAAAACGGTCT
*
182168 AAAA-ATGACAAAATCGGT
1 AAAATATGACAAAAACGGT
182186 AAAGCACCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (21 bp):
AAAATATGACAAAAACGGTCT
Found at i:182324 original size:144 final size:144
Alignment explanation
Indices: 182064--182353 Score: 465
Period size: 144 Copynumber: 2.0 Consensus size: 144
182054 GAACTTTTGG
*
182064 AATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTTATAAAAATGTATTGATCC
1 AATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
* *
182129 ATAACAATATAACAAGTAAAAATATGATAAAAACGGTCTAAAAATGACAAAATC-GGTAAAGCAC
66 ATAACAATATAACAAGTAAAAATATGATAAAAACAGTATAAAAATGACAAAA-CAGGTAAAGCAC
182193 CACCGGATATGTTAA
130 CACCGGATATGTTAA
** *
182208 AATTTAAAAGAGAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATTC
1 AATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
* * * *
182273 ATAACAATATAACATGTAAAAATATGATAAAAGCAGTATAAAAATGACAAAACAGGTAAAGCGCT
66 ATAACAATATAACAAGTAAAAATATGATAAAAACAGTATAAAAATGACAAAACAGGTAAAGCACC
*
182338 ACTGGATATGTTAA
131 ACCGGATATGTTAA
182352 AA
1 AA
182354 ATGTCGATAT
Statistics
Matches: 134, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
143 1 0.01
144 133 0.99
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (144 bp):
AATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
ATAACAATATAACAAGTAAAAATATGATAAAAACAGTATAAAAATGACAAAACAGGTAAAGCACC
ACCGGATATGTTAA
Found at i:182554 original size:180 final size:182
Alignment explanation
Indices: 182208--182580 Score: 617
Period size: 180 Copynumber: 2.1 Consensus size: 182
182198 GATATGTTAA
* *
182208 AATTTAAAAGAGAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATTC
1 AATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
* *
182273 ATAACAATATAACATGTAAAAATATGATAAAAGCAGTATAAAAATGACAAAACAGGTAAAGCGCT
66 ATAACAATATAACAGGTAAAAATATGATAAAAGCAGTATAAAAATGACAAAACAGGTAAAGCGCC
** *
182338 ACTGGATATGTTAAAAATGTCGATATTTTATTATAAGTATCGACACTTTTGG
131 ACCAGATATGTTAAAAATGTCGATACTTTATTATAAGTATCGACACTTTTGG
182390 AATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG-ATCGATCC
1 AATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
* * *
182454 ATAATAATATAACAGGTAAAAATATGATAAAA-CCGTCTAAAAATGACAAAACCA-GTAAAGCGC
66 ATAACAATATAACAGGTAAAAATATGATAAAAGCAGTATAAAAATGACAAAA-CAGGTAAAGCGC
*
182517 CACCAGATATGTTAAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGG
130 CACCAGATATGTTAAAAATGTCGATACTTTATTATAAGTATCGACACTTTTGG
182570 AATTTAAAAGA
1 AATTTAAAAGA
182581 TAAGTTTTTG
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
180 85 0.47
181 39 0.22
182 55 0.31
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
ATAACAATATAACAGGTAAAAATATGATAAAAGCAGTATAAAAATGACAAAACAGGTAAAGCGCC
ACCAGATATGTTAAAAATGTCGATACTTTATTATAAGTATCGACACTTTTGG
Found at i:184409 original size:22 final size:23
Alignment explanation
Indices: 184359--184415 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
184349 AACATTTTTG
* * *
184359 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATAAAAAATGATAGAA
*
184382 TATTATTATAAAAAATGATA-AA
1 TTTTATTATAAAAAATGATAGAA
184404 TTTTATTATAAA
1 TTTTATTATAAA
184416 TGTAGGTTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTTATTATAAAAAATGATAGAA
Found at i:185078 original size:18 final size:18
Alignment explanation
Indices: 185057--185095 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
185047 AAAAAAATAT
*
185057 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGATGGAG
185075 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
185093 GAA
1 GAA
185096 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:187113 original size:11 final size:11
Alignment explanation
Indices: 187097--187121 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
187087 TGTGGGTTTG
187097 ATTATTTGAAC
1 ATTATTTGAAC
187108 ATTATTTGAAC
1 ATTATTTGAAC
187119 ATT
1 ATT
187122 GTTATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATTTGAAC
Found at i:189224 original size:198 final size:198
Alignment explanation
Indices: 188813--189369 Score: 719
Period size: 199 Copynumber: 2.8 Consensus size: 198
188803 ATTATAACGG
** * * * * * * *
188813 AATAGGTAAATTTCCAATGTAACCGGTAGATATATACCGTTTTAATTAGAAAACATGTTA-ACAC
1 AATAGGTAAATTAACAATGTAACCGGTACAAATTTACCGGTTT-ATGAGAAAATA-GTTATACAT
* * * * *
188877 AATGTATCGACACTTTTTAAA-TTATGTCGATTCTTTTTGTCTAGAATGAATGCCCAACCGATGT
64 AATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCAAACAG-GGT
* * *
188941 GCATGAATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAATCAAATAATT
128 GCACGCATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACAAATAATT
*
189006 ATAATGT
192 ACAATGT
189013 AATAGGTAAATTAACAATGTAACCGGTACAAATTTACCGGTTTATGAGAAAATAGTTATACATAA
1 AATAGGTAAATTAACAATGTAACCGGTACAAATTTACCGGTTTATGAGAAAATAGTTATACATAA
* * *
189078 TGTATTGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTGGGTGCA
66 TGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCAAACAGGGTGCA
* * *
189143 CGCATAAAGTGTCGATGCATTCTA-AATTA-TATCGATCCCAAAAACATCGAAACCAATAATTAC
131 CGCATAAAGTGTCGATACATT-TATAA-AAGTATCGATCCCAAAAACATCGAAACAAATAATTAC
189206 AATGT
194 AATGT
* * ** * *
189211 AATAGGTAAATTAACAATGTAACCGATATAAATTTATTGGTTTTATGAGAAAATAGGTCTACATA
1 AATAGGTAAATTAACAATGTAACCGGTACAAATTTACCGG-TTTATGAGAAAATAGTTATACATA
*
189276 ATGTATCAACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAA-AGGGTG
65 ATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAATG-CCAAACAGGGTG
*
189340 CACCCATAAAGTGTCGATACATTTATAAAA
129 CACGCATAAAGTGTCGATACATTTATAAAA
189370 AGAATCGAGA
Statistics
Matches: 314, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
198 81 0.26
199 155 0.49
200 78 0.25
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (198 bp):
AATAGGTAAATTAACAATGTAACCGGTACAAATTTACCGGTTTATGAGAAAATAGTTATACATAA
TGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCAAACAGGGTGCA
CGCATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTACAA
TGT
Found at i:191020 original size:19 final size:19
Alignment explanation
Indices: 190996--191043 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
190986 ATATAGGTGA
190996 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
191015 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
191034 AATTTTGTAT
1 AATTTTGTAT
191044 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:194117 original size:201 final size:198
Alignment explanation
Indices: 193757--194250 Score: 681
Period size: 201 Copynumber: 2.5 Consensus size: 198
193747 GTAAGCATAT
* *
193757 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTCTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
* * * *
193822 GGTAATTTTTCAATGTAACCGGCATAAATATACTGATTTTATGAGATAATAGGTCTACATAATGT
66 GGTAATTTTT-AATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCAACATAATGT
* * *
193887 ATCGACACTTGTTTAATTTGTGTCGATACTTTTTGTCCAGAATTAATGCCCAAA-AGGGATGCAC
130 ATCGACACTTGTTTAATATGTGCCGATACTTTTT-TCCAGAATGAATGCCCAAAGA-GG-TGCAC
193951 GCATAAA
192 GCATAAA
193958 GTGTCGATACATTTATAAAAAGTCTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTCTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
* **
194023 GGTAATTTTGTAATGTAACCGTTATAAATATACCGATTTTATTTGAGAATAGGTCAACATAATGT
66 GGTAATTTT-TAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCAACATAATGT
*
194088 ATCGACACTT-TTTAAATATGTGCCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACGC
130 ATCGACACTTGTTT-AATATGTGCCGATACTTTTTTCCAGAATGAATGCCCAAAGAGGTGCACGC
194152 ATAAA
194 ATAAA
* ** * * ***
194157 GTGTTGATACATTTA-AAATTG-CGTTGATTCCAAAAACATCAAAAATGATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTC-TCGATCCCAAAAACATCAAAACCCATAATTATAATGTAAT
* *
194220 AGGTAAATTTTCAATGTTACCGGTATAAATA
65 AGGT-AATTTTTAATGTAACCGGTATAAATA
194251 AATCGGTTTA
Statistics
Matches: 264, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
197 1 0.00
198 60 0.23
199 32 0.12
200 22 0.08
201 148 0.56
202 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
GTGTCGATACATTTATAAAAAGTCTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
GGTAATTTTTAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCAACATAATGTA
TCGACACTTGTTTAATATGTGCCGATACTTTTTTCCAGAATGAATGCCCAAAGAGGTGCACGCAT
AAA
Found at i:194835 original size:14 final size:14
Alignment explanation
Indices: 194816--194846 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
194806 ATTATTTAAA
194816 TTATTTGAATTTAT
1 TTATTTGAATTTAT
194830 TTATTTGAATTTAT
1 TTATTTGAATTTAT
194844 TTA
1 TTA
194847 AATAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTATTTGAATTTAT
Found at i:196882 original size:54 final size:54
Alignment explanation
Indices: 196816--197146 Score: 350
Period size: 54 Copynumber: 6.1 Consensus size: 54
196806 TTTATTAAGA
* ** * *
196816 TGCACACGTAGTGCCTATACGGTCATTCATCAACGCATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTTCGTGAGT
* * *
196870 TGCACACATAGTGTCTATACGGTTGTTCATCATCTCATGATGAA-TTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTTC-GTGAGT
* * * * * *
196924 TACACATATAGTGCATTTACGGTTGTTCAT-AATCTCATGATGAATTCCAT-AGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAA-CTCATGATGAATTTCGTGA-GT
* * *
196978 TGCACACATAGTGCCTGTACGTTTGTTCATCAACTCATGATGAATTCCGTGAGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTTCGTGAGT
* * * *
197032 TGCACACATAGTGCCGAAACGGTTGTTCATAAACAT-ATGATGAATTTCATGAGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAAC-TCATGATGAATTTCGTGAGT
* * *
197086 TGCACATATAGTGCCGAAACGGTTGTTCATCAACAT-ATGATGAA-TTCTGTGAGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAAC-TCATGATGAATTTC-GTGAGT
197140 TGCACAC
1 TGCACAC
197147 TTTGTGCCAA
Statistics
Matches: 237, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
53 7 0.03
54 224 0.95
55 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTTCGTGAGT
Found at i:197146 original size:162 final size:162
Alignment explanation
Indices: 196816--197132 Score: 390
Period size: 162 Copynumber: 2.0 Consensus size: 162
196806 TTTATTAAGA
* * *
196816 TGCACACGTAGTGCCTATACGGTCATTCATCAACGCATGATGAATTTCGTGGGTTGCACACATAG
1 TGCACACATAGTGCCTATACGGTCATTCATCAACGCATGATGAATTCCGTGAGTTGCACACATAG
* * * * * * * ***
196881 TGTCTATACGGTTGTTCATCATCTCATGATGAATTCTGTGGGTTACACATATAGTGCATTTACGG
66 TGCCGAAACGGTTGTTCATAAACTCATGATGAATTCTATGAGTTACACATATAGTGCAGAAACGG
196946 TTGTTCATAATCTCATGATGAATTCCATAGGT
131 TTGTTCATAATCTCATGATGAATTCCATAGGT
* * ** *
196978 TGCACACATAGTGCCTGTACGTTTGTTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAG
1 TGCACACATAGTGCCTATACGGTCATTCATCAACGCATGATGAATTCCGTGAGTTGCACACATAG
* *
197043 TGCCGAAACGGTTGTTCATAAACAT-ATGATGAATT-TCATGAGTTGCACATATAGTGCCGAAAC
66 TGCCGAAACGGTTGTTCATAAAC-TCATGATGAATTCT-ATGAGTTACACATATAGTGCAGAAAC
197106 GGTTGTTCATCAA-CAT-ATGATGAATTC
129 GGTTGTTCAT-AATC-TCATGATGAATTC
197133 TGTGAGTTGC
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
161 1 0.01
162 126 0.96
163 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (162 bp):
TGCACACATAGTGCCTATACGGTCATTCATCAACGCATGATGAATTCCGTGAGTTGCACACATAG
TGCCGAAACGGTTGTTCATAAACTCATGATGAATTCTATGAGTTACACATATAGTGCAGAAACGG
TTGTTCATAATCTCATGATGAATTCCATAGGT
Found at i:198369 original size:29 final size:29
Alignment explanation
Indices: 198336--198393 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
198326 TATAATATTG
198336 AGTCTTCAAATTTTAAATCTTTGTAATAA
1 AGTCTTCAAATTTTAAATCTTTGTAATAA
198365 AGTCTTCAAATTTTAAATCTTTGTAATAA
1 AGTCTTCAAATTTTAAATCTTTGTAATAA
198394 GTCACTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (29 bp):
AGTCTTCAAATTTTAAATCTTTGTAATAA
Found at i:199011 original size:21 final size:21
Alignment explanation
Indices: 198987--199027 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
198977 TTCTTTCACC
198987 AAATCTGAAAT-TTAAATTTTA
1 AAAT-TGAAATCTTAAATTTTA
*
199008 AAATTGAAATCTTGAATTTT
1 AAATTGAAATCTTAAATTTT
199028 GAATTCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
AAATTGAAATCTTAAATTTTA
Found at i:202327 original size:15 final size:15
Alignment explanation
Indices: 202289--202329 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
202279 TAAGGTTGTT
*
202289 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
202304 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
202319 TCAAGGGAGAC
1 TCAAGGGAGAC
202330 AAAATTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Done.