Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 45 of 54
Found at i:17863509 original size:42 final size:42
Alignment explanation
Indices: 17863384--17863512 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
17863374 CCCTCCACAC
* * * *
17863384 TCAACTCATGTGCACTC-CATACTTGCACATGGCCGGGTCATCG
1 TCAACTCATGTGCACTCTCACAC--GCACATAGCTGGGTCATCA
* *
17863427 TCATCTCATGTGCACTCGT-ACATCGCACATAGTTGGGTCATCA
1 TCAACTCATGTGCACTC-TCACA-CGCACATAGCTGGGTCATCA
17863470 TCAACTCATGTGCACTCTCACACGCACATAGCTGGGTCATCA
1 TCAACTCATGTGCACTCTCACACGCACATAGCTGGGTCATCA
17863512 T
1 T
17863513 TATCACACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 21 0.28
43 50 0.68
44 2 0.03
45 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (42 bp):
TCAACTCATGTGCACTCTCACACGCACATAGCTGGGTCATCA
Found at i:17865814 original size:15 final size:16
Alignment explanation
Indices: 17865787--17865819 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
17865777 GTCTGACTGA
17865787 TTTTGTTTATTATTTT
1 TTTTGTTTATTATTTT
17865803 TTTTGTTT-TTATTTT
1 TTTTGTTTATTATTTT
17865818 TT
1 TT
17865820 CTGTCACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTGTTTATTATTTT
Found at i:17870130 original size:4 final size:4
Alignment explanation
Indices: 17870121--17870191 Score: 60
Period size: 4 Copynumber: 17.8 Consensus size: 4
17870111 CGTGCCTTAC
*
17870121 CTTT CTTT CTCT C-TT -TTT CTTT CTTT CTTT CCTTT CCTTT CCTTT CGTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT -CTTT -CTTT -CTTT C-TTT
*
17870171 C-TC CTTT CTTT -TTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTT
17870192 CCCCTTTCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
3 8 0.14
4 31 0.54
5 18 0.32
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:17870160 original size:18 final size:18
Alignment explanation
Indices: 17870115--17870189 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
17870105 GCAAATCGTG
* *
17870115 CCTTACCTTTCTTTCTCT
1 CCTTTCCTTTCTTTCTTT
* *
17870133 CTTTTTCTTTCTTTCTTT
1 CCTTTCCTTTCTTTCTTT
17870151 CCTTTCCTTTCCTTTCGTTTCT
1 CCTTTCCTTT-CTTTC--TT-T
17870173 CCTTT-CTTT-TTTCTTT
1 CCTTTCCTTTCTTTCTTT
17870189 C
1 C
17870190 TTCCCCTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
16 2 0.04
17 2 0.04
18 22 0.47
19 9 0.19
21 6 0.13
22 6 0.13
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.65
Consensus pattern (18 bp):
CCTTTCCTTTCTTTCTTT
Found at i:17874181 original size:11 final size:11
Alignment explanation
Indices: 17874151--17874186 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
17874141 CACCTAGGGT
17874151 TTTGTTCTTCC
1 TTTGTTCTTCC
17874162 TTT-TTCTTCC
1 TTTGTTCTTCC
17874172 TTTGTTCTTCC
1 TTTGTTCTTCC
17874183 TTTG
1 TTTG
17874187 GCCGGCCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:17881234 original size:11 final size:11
Alignment explanation
Indices: 17881200--17881246 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
17881190 CACCTAGGGT
17881200 TTTGTTCTTCC
1 TTTGTTCTTCC
17881211 TTT-TTCTTCC
1 TTTGTTCTTCC
*
17881221 TTTGTTCTTGC
1 TTTGTTCTTCC
17881232 TTTGTTCTTCC
1 TTTGTTCTTCC
17881243 TTTG
1 TTTG
17881247 GCCGGCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 10 0.30
11 23 0.70
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:17881242 original size:22 final size:21
Alignment explanation
Indices: 17881200--17881246 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
17881190 CACCTAGGGT
17881200 TTTGTTCTTCCTTTTTCTTCC
1 TTTGTTCTTCCTTTTTCTTCC
*
17881221 TTTGTTCTTGCTTTGTTCTTCC
1 TTTGTTCTTCCTTT-TTCTTCC
17881243 TTTG
1 TTTG
17881247 GCCGGCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (21 bp):
TTTGTTCTTCCTTTTTCTTCC
Found at i:17883644 original size:36 final size:36
Alignment explanation
Indices: 17883604--17883672 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
17883594 CTCCTTCATC
17883604 AAGGTTTAACTTAAGTTTCTAATTCAATCTAATATG
1 AAGGTTTAACTTAAGTTTCTAATTCAATCTAATATG
17883640 AAGGTTTAACTTAAGTTTCTAATTCAATCTAAT
1 AAGGTTTAACTTAAGTTTCTAATTCAATCTAAT
17883673 TGGTGGCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (36 bp):
AAGGTTTAACTTAAGTTTCTAATTCAATCTAATATG
Found at i:17887942 original size:25 final size:25
Alignment explanation
Indices: 17887914--17887977 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
17887904 GTGATCGTAA
* *
17887914 CCATGTATATCAACTCGTGGTCTTG
1 CCATGTATATCAACCCGTGGCCTTG
*
17887939 CCATGTATAACAACCCGTGGCCTTG
1 CCATGTATATCAACCCGTGGCCTTG
*
17887964 CCACGTATAATCAA
1 CCATGTAT-ATCAA
17887978 AGAGCATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (25 bp):
CCATGTATATCAACCCGTGGCCTTG
Found at i:17895035 original size:20 final size:20
Alignment explanation
Indices: 17895010--17895048 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17895000 GCATAAATAT
17895010 CTCATTTCTCCAACAGCTTC
1 CTCATTTCTCCAACAGCTTC
* *
17895030 CTCATTTTTCCAGCAGCTT
1 CTCATTTCTCCAACAGCTT
17895049 TTTCTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.36, G:0.08, T:0.38
Consensus pattern (20 bp):
CTCATTTCTCCAACAGCTTC
Found at i:17895874 original size:43 final size:43
Alignment explanation
Indices: 17895827--17895953 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
17895817 TTGTGTGATA
*
17895827 ATGATGACCCAGCTATATGCGGTGTGGGAGTGCACATGAGCCG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCCG
* * *
17895870 ATGATGACCTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCCG
* * *
17895913 ATGATGACCCAACTATGTGTGAGT-AGGGAGTGCACATGAGC
1 ATGATGACCCAGCTATGTGCG-GTGTGGGAGTGCACATGAGC
17895954 TTATGTGTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 72 0.97
44 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCCG
Found at i:17895997 original size:2 final size:2
Alignment explanation
Indices: 17895990--17896014 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17895980 ATGATGTATG
17895990 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17896015 GTTATAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17898453 original size:2 final size:2
Alignment explanation
Indices: 17898446--17898485 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
17898436 ATGATGATTG
* *
17898446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17898486 GGTATATGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:17904522 original size:19 final size:19
Alignment explanation
Indices: 17904498--17904534 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17904488 CCATTTGACT
17904498 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
17904517 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
17904535 AGTTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:17914454 original size:10 final size:11
Alignment explanation
Indices: 17914421--17914464 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
17914411 TCTAGGGTTC
*
17914421 TTGTTCTTTC-
1 TTGTTCTTCCT
17914431 TT-TTCTTCCT
1 TTGTTCTTCCT
17914441 TTGTTCTT-CT
1 TTGTTCTTCCT
17914451 TTGTTCTTCCT
1 TTGTTCTTCCT
17914462 TTG
1 TTG
17914465 GCCGGCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.20
10 14 0.47
11 10 0.33
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:17914459 original size:21 final size:20
Alignment explanation
Indices: 17914421--17914464 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
17914411 TCTAGGGTTC
17914421 TTGTTCTTTCTTTTCTTCCT
1 TTGTTCTTTCTTTTCTTCCT
17914441 TTGTTC-TTCTTTGTTCTTCCT
1 TTGTTCTTTC-TT-TTCTTCCT
17914462 TTG
1 TTG
17914465 GCCGGCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (20 bp):
TTGTTCTTTCTTTTCTTCCT
Found at i:17916528 original size:7 final size:7
Alignment explanation
Indices: 17916512--17916574 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
17916502 GTAAAAGTTG
*
17916512 AGAAAAA
1 AGAAAGA
17916519 AGAAAGA
1 AGAAAGA
17916526 AGAAA-A
1 AGAAAGA
17916532 GAGAAAGAA
1 -AGAAAG-A
*
17916541 AGAAAGG
1 AGAAAGA
17916548 AGAAAGA
1 AGAAAGA
* *
17916555 AGAAGGG
1 AGAAAGA
17916562 AGAAAGCA
1 AGAAAG-A
17916570 AGAAA
1 AGAAA
17916575 CCTAAAAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
6 1 0.02
7 32 0.71
8 11 0.24
9 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:17916531 original size:14 final size:14
Alignment explanation
Indices: 17916512--17916574 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
17916502 GTAAAAGTTG
*
17916512 AGAAAAAAGAAAGA
1 AGAAAAGAGAAAGA
17916526 AGAAAAGAGAAAGAA
1 AGAAAAGAGAAAG-A
*
17916541 AGAAAGGAGAAAGA
1 AGAAAAGAGAAAGA
**
17916555 AGAAGGGAGAAAGCA
1 AGAAAAGAGAAAG-A
17916570 AGAAA
1 AGAAA
17916575 CCTAAAAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
14 25 0.58
15 18 0.42
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAAAGAGAAAGA
Found at i:17916544 original size:22 final size:21
Alignment explanation
Indices: 17916511--17916552 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17916501 AGTAAAAGTT
17916511 GAGAAAAAAGAAAGAAGAAAA
1 GAGAAAAAAGAAAGAAGAAAA
*
17916532 GAGAAAGAAAGAAAGGAGAAA
1 GAGAAA-AAAGAAAGAAGAAA
17916553 GAAGAAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
GAGAAAAAAGAAAGAAGAAAA
Found at i:17916545 original size:29 final size:29
Alignment explanation
Indices: 17916512--17916574 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
17916502 GTAAAAGTTG
17916512 AGAAAAAAGAAAGAAGAAAAGAGAAAGAA
1 AGAAAAAAGAAAGAAGAAAAGAGAAAGAA
** ** *
17916541 AGAAAGGAGAAAGAAGAAGGGAGAAAGCA
1 AGAAAAAAGAAAGAAGAAAAGAGAAAGAA
17916570 AGAAA
1 AGAAA
17916575 CCTAAAAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (29 bp):
AGAAAAAAGAAAGAAGAAAAGAGAAAGAA
Found at i:17921738 original size:42 final size:41
Alignment explanation
Indices: 17921686--17921804 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 41
17921676 TATTGACCCA
* *
17921686 GCTATGTGCGAGTAGGAGTGTGCATATGTCGTTGCTGACCTG
1 GCTATGTGCGAGT-GGAGTGTGCATAAGCCGTTGCTGACCTG
* ** *
17921728 GCTATGTGCGAGTGGGAGAGCACATAAGCCGTTGCTGACTTG
1 GCTATGTGCGAGT-GGAGTGTGCATAAGCCGTTGCTGACCTG
*
17921770 GCTATGTGCGAGTGCGAGTGTGCATAAGCTGTTGC
1 GCTATGTGCGAGTG-GAGTGTGCATAAGCCGTTGC
17921805 ATATGAGCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (41 bp):
GCTATGTGCGAGTGGAGTGTGCATAAGCCGTTGCTGACCTG
Found at i:17921852 original size:2 final size:2
Alignment explanation
Indices: 17921845--17921884 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
17921835 ATGATGATTG
17921845 AT 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 AT
17921885 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17921932 original size:2 final size:2
Alignment explanation
Indices: 17921915--17921987 Score: 119
Period size: 2 Copynumber: 35.5 Consensus size: 2
17921905 NNNNNNNNNG
17921915 TA TA GTA TA GTA 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
*
17921959 TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17921988 GGTATATGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 63 0.94
3 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17924935 original size:38 final size:38
Alignment explanation
Indices: 17924842--17924961 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 38
17924832 CACACTCAGC
* ***
17924842 TCATGTGCATCCCCCCACATCGTGCACATATCTGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AGCAATA-TCA
* *
17924882 TCATGTGCATCCCCCCACATTGTGCACAAGTAATATCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCAATATCA
* *
17924920 TCGTGTGCATTCCCCCACATCGTGCACAAGCAATATCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCAATATCA
17924958 TCAT
1 TCAT
17924962 CACACTCCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 40 0.58
39 2 0.03
40 27 0.39
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (38 bp):
TCATGTGCATCCCCCCACATCGTGCACAAGCAATATCA
Found at i:17928419 original size:12 final size:11
Alignment explanation
Indices: 17928392--17928430 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17928382 GCTAGTTTTA
*
17928392 CATTTGGATTT
1 CATTTGAATTT
*
17928403 AATTTGAATTT
1 CATTTGAATTT
17928414 GCATTTGAATTT
1 -CATTTGAATTT
17928426 CATTT
1 CATTT
17928431 ATAAAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.54
Consensus pattern (11 bp):
CATTTGAATTT
Found at i:17933247 original size:38 final size:40
Alignment explanation
Indices: 17933205--17933307 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
17933195 ATAGTGCCTG
*
17933205 TGTGCACGATGTGGGGGGATGTACACAATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
* * **
17933243 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
* *
17933283 TGTGCACGATGTGAGGGGATATACA
1 TGTGCACGATGTGGGGGGATGTACA
17933308 TGAGTCGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 32 0.58
39 1 0.02
40 22 0.40
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACAATGGCACCGACTA
Found at i:17941767 original size:9 final size:9
Alignment explanation
Indices: 17941753--17941780 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17941743 TTGTATATAA
17941753 AACTTTGAT
1 AACTTTGAT
17941762 AACTTTGAT
1 AACTTTGAT
17941771 AACTTTGAT
1 AACTTTGAT
17941780 A
1 A
17941781 TTGGGAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (9 bp):
AACTTTGAT
Found at i:17954213 original size:43 final size:43
Alignment explanation
Indices: 17954152--17954322 Score: 252
Period size: 43 Copynumber: 4.0 Consensus size: 43
17954142 ACTCCTCCTT
* *
17954152 AGCTCATGTGCATTCCCACACTGCACATAGCTGGGTCATCATC
1 AGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATC
* * *
17954195 AGCTCATGTGCACTCCCACACCACACATATCTAGGTCATCATC
1 AGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATC
* *
17954238 AGCTCATGTGCACTCCCAAACCGCACATGGCTGGGTCATCATC
1 AGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATC
* * *
17954281 AGGTCATGTACACTCCAACACCGCACATAGCTGGGTCATCAT
1 AGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
17954323 TATCCCACCA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 113 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.23
Consensus pattern (43 bp):
AGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATC
Found at i:17956231 original size:20 final size:20
Alignment explanation
Indices: 17956203--17956242 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17956193 TATAAATATT
*
17956203 ATTTTTCCAACAGCTTCTTC
1 ATTTCTCCAACAGCTTCTTC
**
17956223 ATTTCTCCAGTAGCTTCTTC
1 ATTTCTCCAACAGCTTCTTC
17956243 TTCTTCCTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTTCTCCAACAGCTTCTTC
Found at i:17964932 original size:26 final size:26
Alignment explanation
Indices: 17964894--17964955 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
17964884 ACTATATACC
*
17964894 CATCATCAACATGCACACCATTCC-AT
1 CATCATCATCATGCACACCA-TCCGAT
17964920 CATCATCATCATGCACACCATCCGAT
1 CATCATCATCATGCACACCATCCGAT
17964946 CATCATCATC
1 CATCATCATC
17964956 TCATATGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 3 0.09
26 31 0.91
ACGTcount: A:0.32, C:0.39, G:0.05, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCGAT
Found at i:17965047 original size:42 final size:42
Alignment explanation
Indices: 17964980--17965073 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
17964970 TTATGCGCAT
* *
17964980 ATAGTCGGGTCAGCAACGGCCTATGTGCACTCCCGCTCACAC
1 ATAGCCGGGTCAGCAACGGCCTATGTGCACTCCCACTCACAC
* * *
17965022 ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCAC
1 ATAGCCGGGTCAGCAACGGCCTATGTGCACTCCCACTCACAC
17965064 ATAGCCGGGT
1 ATAGCCGGGT
17965074 ACAAATCAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.20
Consensus pattern (42 bp):
ATAGCCGGGTCAGCAACGGCCTATGTGCACTCCCACTCACAC
Found at i:17966327 original size:176 final size:173
Alignment explanation
Indices: 17966033--17966381 Score: 644
Period size: 176 Copynumber: 2.0 Consensus size: 173
17966023 GTTAAATTTG
17966033 CACCTAGGTTTTCTTGTTTTTCCCTTTGTTCTTCCTTTGTTCCTGTTGCTGGTTGCCTAGGCAGA
1 CACCTAGGTTTTCTTGTTTTTCCCTTTGTTCTTCCTTTGTTCCTGTTGCTGGTTGCCTAGGCAGA
17966098 ATAGGGTGAGAGAATTGGGGATTTAATGGGCTGATTTCTATAGAAAATAATAAAATAATCAAGCA
66 ATAGGGTGAGAGAATTGGGGATTTAATGGGCTGATTTCTATAGAAAATAATAAAATAATCAAGCA
17966163 TGCCACGTGTCACATGCTTATTGGCCCAAATTTTTAACTTTTT
131 TGCCACGTGTCACATGCTTATTGGCCCAAATTTTTAACTTTTT
*
17966206 NNNCACCTAGGTTTTCTTGTTTTTCCCTTTGTTCTTCCTTTGTTCTTGTTGCTGGTTGCCTAGGC
1 ---CACCTAGGTTTTCTTGTTTTTCCCTTTGTTCTTCCTTTGTTCCTGTTGCTGGTTGCCTAGGC
* *
17966271 CGAATATGGTGAGAGAATTGGGGATTTAATGGGCTGATTTCTATAGAAAATAATAAAATAATCAA
63 AGAATAGGGTGAGAGAATTGGGGATTTAATGGGCTGATTTCTATAGAAAATAATAAAATAATCAA
17966336 GCATGCCACGTGTCACATGCTTATTGGCCCAAATTTTTAACTTTTT
128 GCATGCCACGTGTCACATGCTTATTGGCCCAAATTTTTAACTTTTT
17966382 GACTTTTTTC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 170 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (173 bp):
CACCTAGGTTTTCTTGTTTTTCCCTTTGTTCTTCCTTTGTTCCTGTTGCTGGTTGCCTAGGCAGA
ATAGGGTGAGAGAATTGGGGATTTAATGGGCTGATTTCTATAGAAAATAATAAAATAATCAAGCA
TGCCACGTGTCACATGCTTATTGGCCCAAATTTTTAACTTTTT
Found at i:17968843 original size:26 final size:26
Alignment explanation
Indices: 17968783--17968844 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
17968773 ACCATATACC
*
17968783 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
17968809 CATCATCATCATGCACACCATCCGAT
1 CATCATCATCATGCACACCATCCCAT
17968835 CATCATCATC
1 CATCATCATC
17968845 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.05, T:0.23
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:17968928 original size:42 final size:42
Alignment explanation
Indices: 17968869--17968963 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
17968859 TTATGTGCAT
*
17968869 ATAGCCGGGTCAGCAACGACTTATGTTCACTCCCACTCACAC
1 ATAGCCGGGTCAGCAACGACTTATGTGCACTCCCACTCACAC
* * * *
17968911 ATAGCCAGGTCAGCAACGGCTTATGTGCACTCCTACTCTCAC
1 ATAGCCGGGTCAGCAACGACTTATGTGCACTCCCACTCACAC
17968953 ATAGCCGGGTC
1 ATAGCCGGGTC
17968964 CAAATCAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (42 bp):
ATAGCCGGGTCAGCAACGACTTATGTGCACTCCCACTCACAC
Found at i:17969739 original size:90 final size:89
Alignment explanation
Indices: 17969586--17969764 Score: 331
Period size: 90 Copynumber: 2.0 Consensus size: 89
17969576 TTTTCCAAGC
*
17969586 CATTTTCCTTGAAATAAAAACAATCCCCCATTGATATTCAGCCCTCATGGTTCGTCCAACAAGGA
1 CATTTTCCTTGAAATAAAAACAATCCCCCATTGATATTCAGCCCTCATGGTTCGACCAACAAGGA
*
17969651 ACCCTAGAGAAGTTGAATATTTCT
66 ACCCTAGAGAAATTGAATATTTCT
17969675 NCATTTTCCTTGAAATAAAAACAATCCCCCATTGATATTCAGCCCTCATGGTTCGACCAACAAGG
1 -CATTTTCCTTGAAATAAAAACAATCCCCCATTGATATTCAGCCCTCATGGTTCGACCAACAAGG
17969740 AACCCTAGAGAAATTGAATATTTCT
65 AACCCTAGAGAAATTGAATATTTCT
17969765 TTTGTGTTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (89 bp):
CATTTTCCTTGAAATAAAAACAATCCCCCATTGATATTCAGCCCTCATGGTTCGACCAACAAGGA
ACCCTAGAGAAATTGAATATTTCT
Found at i:17972582 original size:55 final size:56
Alignment explanation
Indices: 17972518--17972668 Score: 191
Period size: 55 Copynumber: 2.7 Consensus size: 56
17972508 GGGTGATTCT
17972518 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGGT-GA-ATCC
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGT-GGTGGTCGATATCC
* ** *
17972573 AG-TCGTGTGCGGTGTGGGAGTGCACATGAGCTGATGACTAGTGGTGGTCTATATCC
1 AGCT-ATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGTGGTCGATATCC
* * * *
17972629 AGCTATGTGAGGTGTGGGAGGGCACATAAGCTGAGGACCG
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCG
17972669 TTAAGCATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
54 7 0.09
55 38 0.47
56 35 0.43
57 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (56 bp):
AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGTGGTCGATATCC
Found at i:17979980 original size:55 final size:55
Alignment explanation
Indices: 17979883--17980093 Score: 289
Period size: 55 Copynumber: 3.8 Consensus size: 55
17979873 TACAACCACC
*
17979883 GGTCATCAGCTCATGTGCACTCCCACACCGCATATAGCTGGAATCATCATCCTCT
1 GGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCTCT
* * * * *
17979938 GGTCATTAGCTCTTGTGCACTCCCACACTGCACATAGTTGGAATCATCATCCTTT
1 GGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCTCT
* * * ** *
17979993 AGTCATCAGCTCATGTGCACTCCCACACCACACAAAATTGGAATCATCACCCATC-
1 GGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCC-TCT
*
17980048 GATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
1 GGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
17980094 CCCGTCATTA
Statistics
Matches: 134, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
55 133 0.99
56 1 0.01
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (55 bp):
GGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCTCT
Found at i:17981450 original size:19 final size:19
Alignment explanation
Indices: 17981426--17981467 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17981416 GGTGGTAAGG
*
17981426 TGAAAATGGTGTAGAAGCA
1 TGAAAATGGCGTAGAAGCA
* *
17981445 TGAAAATGGCGTGGGAGCA
1 TGAAAATGGCGTAGAAGCA
17981464 TGAA
1 TGAA
17981468 GGTGAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (19 bp):
TGAAAATGGCGTAGAAGCA
Found at i:17982126 original size:19 final size:19
Alignment explanation
Indices: 17982089--17982127 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17982079 CCTATAAATA
*
17982089 TCTTGAATTTCTAGCAGCT
1 TCTTGAATTTCCAGCAGCT
*
17982108 TCTTGAATTTCCAGTAGCT
1 TCTTGAATTTCCAGCAGCT
17982127 T
1 T
17982128 GTCTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TCTTGAATTTCCAGCAGCT
Found at i:17983047 original size:38 final size:40
Alignment explanation
Indices: 17982996--17983098 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
17982986 ATAGTGCCCG
* *
17982996 TGTGCAGGATGTGGGGGGATGTACACGATGGCACTGA-T-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
* **
17983034 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGACTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
17983074 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
17983099 TGAGCCCGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 24 0.42
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCACCGACTA
Found at i:17989336 original size:43 final size:43
Alignment explanation
Indices: 17989284--17989402 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
17989274 TCACCAGCTC
* * **
17989284 ATGCACACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATC-CTCGACTT
* *
17989327 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCCTCGACTT
* * *
17989370 ATGCGCACTCTCGACTCGCACATAGCTGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCA
17989403 ATATAATTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCCTCGACTT
Found at i:17990223 original size:19 final size:21
Alignment explanation
Indices: 17990184--17990227 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
17990174 AGGGAAGAAG
*
17990184 AAGACAGCTGCTGGAAATTTC
1 AAGACAGCTGCTAGAAATTTC
17990205 AAGA-AGCTGCTAG-AATTTC
1 AAGACAGCTGCTAGAAATTTC
17990224 AAGA
1 AAGA
17990228 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (21 bp):
AAGACAGCTGCTAGAAATTTC
Found at i:17994025 original size:32 final size:32
Alignment explanation
Indices: 17993979--17994044 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
17993969 TTTGAAGAAG
17993979 TAAAGCCAACTGTAGACTTCGACGCTATCAGC
1 TAAAGCCAACTGTAGACTTCGACGCTATCAGC
* * *
17994011 TAAAGCCAATTGTAGCCTTCGACGCTATTAGC
1 TAAAGCCAACTGTAGACTTCGACGCTATCAGC
17994043 TA
1 TA
17994045 TCTACAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (32 bp):
TAAAGCCAACTGTAGACTTCGACGCTATCAGC
Found at i:18001663 original size:236 final size:232
Alignment explanation
Indices: 18001196--18001663 Score: 830
Period size: 236 Copynumber: 2.0 Consensus size: 232
18001186 TTACTATTTT
*
18001196 CTTTATACTACATCTATCTAGAGTTAAAGTAGTACAACTTCAACAAAATACTAAGTATCTTTAGG
1 CTTTATACTACATCTATCTAGAGTTAAAGTAGTACAACTTCAACAAAACACTAAGTATCTTTAGG
*
18001261 GTCATCATCACCCTGATCCTCTTTCGGATTCTCTTGGAGCTTTTTTTTTTTTTTTTGTTCTTCAA
66 GTCATCATCACCCTGATCCTCTTTCGGAATCTCTTGGAGCTTTTTTTTTTTTTTTTGTTCTTCAA
*
18001326 TCCGAGCCTGTTGGATTTTCCTACATTCCTCAATTTCTTTCAAGATGAAATTTCTTATACCTTCA
131 TCCGAGCCTGTTGGATTTTCCTACATTCCTCAATTTATTTCAAGATGAAATTTCTTATACCTTCA
*
18001391 TTAACGTCATTACTATCAACACTTTCAATGGTCTCAC
196 TTAACGTCATTACTATCAACACTTTCAATAGTCTCAC
18001428 NCTTTATACTACATCTATCTAGAGTTAAAGTAGTACAACTTCAACAAAACACTAAGTATCTTTAG
1 -CTTTATACTACATCTATCTAGAGTTAAAGTAGTACAACTTCAACAAAACACTAAGTATCTTTAG
18001493 GGTCATCATCACCCTGATCCTCTTTCGGAATCTCTTGGAGCTTTCCTTTTTTTTTTTTTTGTTCT
65 GGTCATCATCACCCTGATCCTCTTTCGGAATCTCTTGGAGC-TT--TTTTTTTTTTTTTTGTTCT
*
18001558 TCAATCCGAGCCTGTTGGATTTTCCTACATTCCTCAATTTATTTCAAGATGAAATTTCTTATGCC
127 TCAATCCGAGCCTGTTGGATTTTCCTACATTCCTCAATTTATTTCAAGATGAAATTTCTTATACC
*
18001623 TTCATTAACGTCGTTACTATCAACACTTTC-ATCAGTCTCAC
192 TTCATTAACGTCATTACTATCAACACTTTCAAT-AGTCTCAC
18001664 TAGCACTAGT
Statistics
Matches: 225, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
233 103 0.46
234 2 0.01
235 2 0.01
236 118 0.52
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (232 bp):
CTTTATACTACATCTATCTAGAGTTAAAGTAGTACAACTTCAACAAAACACTAAGTATCTTTAGG
GTCATCATCACCCTGATCCTCTTTCGGAATCTCTTGGAGCTTTTTTTTTTTTTTTTGTTCTTCAA
TCCGAGCCTGTTGGATTTTCCTACATTCCTCAATTTATTTCAAGATGAAATTTCTTATACCTTCA
TTAACGTCATTACTATCAACACTTTCAATAGTCTCAC
Found at i:18017668 original size:15 final size:15
Alignment explanation
Indices: 18017638--18017679 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
18017628 TTCTTATTAG
18017638 TTTATTTTTATTAA-
1 TTTATTTTTATTAAT
*
18017652 TTTATTTTATGTTAAT
1 TTTATTTT-TATTAAT
18017668 TTTATTTTTATT
1 TTTATTTTTATT
18017680 TCCTTAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTATTTTTATTAAT
Found at i:18017702 original size:30 final size:31
Alignment explanation
Indices: 18017631--18017703 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
18017621 GTTATTTTTC
* *
18017631 TTATTAGTTTATTTTTATTAATTTATTTTATG
1 TTATTA-TTTATTTTTATTAACTTAGTTTATG
* **
18017663 TTAAT-TTTATTTTTATTTCCTTAGTTTA-G
1 TTATTATTTATTTTTATTAACTTAGTTTATG
18017692 TTATTATTTATT
1 TTATTATTTATT
18017704 AGTTTTTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 5 0.15
30 25 0.74
32 4 0.12
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.68
Consensus pattern (31 bp):
TTATTATTTATTTTTATTAACTTAGTTTATG
Found at i:18029456 original size:60 final size:60
Alignment explanation
Indices: 18029363--18029505 Score: 214
Period size: 60 Copynumber: 2.4 Consensus size: 60
18029353 TAGGAGACCA
* * *
18029363 AAACAGAAAGTTTTTCGCTGCAGCGAGATTCAATCTCGCTGCAGAGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
* * * *
18029423 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTTGTTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
*
18029483 AAACAGAAAGTTTCTCGTTGCAG
1 AAACAGAAAGTTTCTCGCTGCAG
18029506 TAAGAATGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGCTGCAGAGAAATTGCAACCCAG
Found at i:18029526 original size:60 final size:60
Alignment explanation
Indices: 18029363--18029529 Score: 180
Period size: 60 Copynumber: 2.8 Consensus size: 60
18029353 TAGGAGACCA
* * * * *
18029363 AAACAGAAAGTTTTTCGCTGCAGCGAGATTCAATC-TCGCTGCAGAGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCAAAATT-AATCTTCGCTGCAGCGAAATTGCAACCCAG
* * *
18029423 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTT-GTTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCAAAATT-AATCTTCGCTGCAGCGAAATTGCAACCCAG
* *
18029483 AAACAGAAAGTTTCTCGTTGCAGTAAGAATGT-AT-TTCGCTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCAA-AAT-TAATCTTCGCTGCAGCGA
18029530 GAAGCTACAG
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.02
60 85 0.92
61 4 0.04
62 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCAAAATTAATCTTCGCTGCAGCGAAATTGCAACCCAG
Found at i:18029615 original size:90 final size:90
Alignment explanation
Indices: 18029462--18029662 Score: 359
Period size: 90 Copynumber: 2.2 Consensus size: 90
18029452 TCAATCTTGT
*
18029462 TGCAGCGAAATTGCAACC-CAGAAACAGAAAGTTTCTCGTTGCAGTAAGAATGTATTTCGCTGCA
1 TGCAGCGAAATTGCAACCTC-GAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCA
18029526 GCGAGAAGCTACAGTGTCATTCTCAC
65 GCGAGAAGCTACAGTGTCATTCTCAC
18029552 TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
1 TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
18029617 CGAGAAGCTACAGTGTCATTCTCAC
66 CGAGAAGCTACAGTGTCATTCTCAC
* *
18029642 TGCAGCGAAAATGCATCCTCG
1 TGCAGCGAAATTGCAACCTCG
18029663 CTGCAGCGAG
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
90 106 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (90 bp):
TGCAGCGAAATTGCAACCTCGAAACAGAAAGTTTCTAGTTGCAGTAAGAATGTATTTCGCTGCAG
CGAGAAGCTACAGTGTCATTCTCAC
Found at i:18030035 original size:43 final size:43
Alignment explanation
Indices: 18029987--18030105 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
18029977 TCACCAGCTC
** * *
18029987 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
18030030 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
18030073 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
18030106 ATATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:18032052 original size:73 final size:74
Alignment explanation
Indices: 18031933--18032124 Score: 244
Period size: 74 Copynumber: 2.6 Consensus size: 74
18031923 TTCCATGACG
* * *
18031933 GAGAAGACTTAATCAACTAAGAAGTATGGTTAGCCAACTAAAAGCTCA-AAGTCA-AAAATTTAA
1 GAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACAA-CCAGAAAATTTAA
*
18031996 TTGCAAGACA
65 TTACAAGACA
* * * *
18032006 GAGAAGACTTAGTCGACTAAGAAGTATTGTTAGCCCACTAAGAGCTCACTACCAGAAAATTTAAT
1 GAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACAACCAGAAAATTTAAT
*
18032071 TACAGGACA
66 TACAAGACA
* * * *
18032080 AAAAAGACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGC
1 GAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGC
18032125 ACACTGTCTA
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
73 45 0.45
74 56 0.55
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (74 bp):
GAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACAACCAGAAAATTTAAT
TACAAGACA
Found at i:18032102 original size:74 final size:74
Alignment explanation
Indices: 18031936--18032146 Score: 239
Period size: 74 Copynumber: 2.9 Consensus size: 74
18031926 CATGACGGAG
* * * * *
18031936 AAGACTTAATCAACTAAGAAGTATGGTTAGCCAACTAAAAGCTCA-AAGTCAAAAATTTAATTGC
1 AAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACTAGCCAAAAATTTAATTAC
* *
18032000 AAGACAGAG
66 AAGACAAAA
* * *
18032009 AAGACTTAGTCGACTAAGAAGTATTGTTAGCCCACTAAGAGCTCACTA-CCAGAAAATTTAATTA
1 AAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACTAGCCA-AAAATTTAATTA
*
18032073 CAGGACAAAA
65 CAAGACAAAA
* * * *
18032083 AAGACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCACACT-GTCTAAAAATTTGAATT
1 AAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACTAG-CCAAAAATTT-AATT
18032147 TGAATGCTTA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
73 42 0.37
74 67 0.58
75 6 0.05
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (74 bp):
AAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAGAGCTCACTAGCCAAAAATTTAATTAC
AAGACAAAA
Found at i:18038546 original size:73 final size:71
Alignment explanation
Indices: 18038335--18038548 Score: 200
Period size: 73 Copynumber: 2.9 Consensus size: 71
18038325 ATTGAGAAAT
* * * *
18038335 AGAACCAACTTAGTCGACCAAGATAAGAGTTAGTCGACTAAGAAGCT-ACTGCCAAAATCTGGAC
1 AGAACCAACTTAGTCGACCAAGA-AAGAGTTAGTCGACTAAG-AGCTCTCTGCTAAAATTTGAAC
*
18038399 -ATCAAGAC
64 TA-GAAGAC
* * * * * * *
18038407 AGAACCAACTTAGTTGATCAATAAATGAGTTAGTCAACTAA-ATGCTCTTTGCTAGAATCTTTAA
1 AGAACCAACTTAGTCGACCAAGAAA-GAGTTAGTCGACTAAGA-GCTCTCTGCTAAAAT-TTGAA
18038471 CTAGAAGAC
63 CTAGAAGAC
* * *
18038480 AGAACCAACTTAGTCGACCAAGAAGAAAGTTAGTTGACTAAGAGCTCTCTGTCTACAATTTGAAC
1 AGAACCAACTTAGTCGACCAAGAA-AGAGTTAGTCGACTAAGAGCTCTCTG-CTAAAATTTGAAC
18038545 TAGA
64 TAGA
18038549 GCACGAGAAG
Statistics
Matches: 113, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
70 1 0.01
71 5 0.04
72 41 0.36
73 57 0.50
74 9 0.08
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (71 bp):
AGAACCAACTTAGTCGACCAAGAAAGAGTTAGTCGACTAAGAGCTCTCTGCTAAAATTTGAACTA
GAAGAC
Found at i:18040088 original size:21 final size:21
Alignment explanation
Indices: 18040062--18040111 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
18040052 GGGGGGATGC
*
18040062 ACACGATGGTGCTGGCTATGT
1 ACACGATGGTGCCGGCTATGT
18040083 ACACGATGGTGCCGGCTATGT
1 ACACGATGGTGCCGGCTATGT
*
18040104 GCACGATG
1 ACACGATG
18040112 TGGGGGGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (21 bp):
ACACGATGGTGCCGGCTATGT
Found at i:18043683 original size:42 final size:42
Alignment explanation
Indices: 18043601--18043768 Score: 174
Period size: 42 Copynumber: 4.0 Consensus size: 42
18043591 TCTCCCATTG
* * * *
18043601 TCATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGGTCA
1 TCATCAGCTTATGCGCACT-CCCACTCGCACATAGCTGGGTCA
* *
18043644 TCATCCGCTTATGCGCACTCCCACTCGCACATAGTTGGGTCA
1 TCATCAGCTTATGCGCACTCCCACTCGCACATAGCTGGGTCA
* * * * *
18043686 TCATCAACTTATGTGCACTCCTACTCGCGCATAGCCGGGTCA
1 TCATCAGCTTATGCGCACTCCCACTCGCACATAGCTGGGTCA
* * * * * *
18043728 TCATCGGCTTATGCACACTCCTACTTGCATAGAGCTGGGTC
1 TCATCAGCTTATGCGCACTCCCACTCGCACATAGCTGGGTC
18043769 CACATCAACA
Statistics
Matches: 103, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 87 0.84
43 16 0.16
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.26
Consensus pattern (42 bp):
TCATCAGCTTATGCGCACTCCCACTCGCACATAGCTGGGTCA
Found at i:18043767 original size:84 final size:86
Alignment explanation
Indices: 18043601--18043777 Score: 207
Period size: 84 Copynumber: 2.1 Consensus size: 86
18043591 TCTCCCATTG
* * * *
18043601 TCATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGGTCATCATCCGCTTATGCGCACTCCC
1 TCATCAACTCATGTGCACTCCCCACTAGCACATAGCCGGGTCATCATCCGCTTATGCACACTCCC
* *
18043666 ACTCGCACATAGTTGGGT-CA
66 ACTCGCACAGAGCTGGGTCCA
* * * * * *
18043686 TCATCAACTTATGTGCACT-CCTACTCGCGCATAGCCGGGTCATCATCGGCTTATGCACACTCCT
1 TCATCAACTCATGTGCACTCCCCACTAGCACATAGCCGGGTCATCATCCGCTTATGCACACTCCC
* *
18043750 ACTTGCATAGAGCTGGGTCCA
66 ACTCGCACAGAGCTGGGTCCA
18043771 -CATCAAC
1 TCATCAAC
18043778 ATACAAAGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
84 58 0.75
85 19 0.25
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.25
Consensus pattern (86 bp):
TCATCAACTCATGTGCACTCCCCACTAGCACATAGCCGGGTCATCATCCGCTTATGCACACTCCC
ACTCGCACAGAGCTGGGTCCA
Found at i:18060988 original size:22 final size:22
Alignment explanation
Indices: 18060958--18061005 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
18060948 GAAAAACGGA
* *
18060958 TGCTGATATGTTTATGATATTT
1 TGCTAATATGATTATGATATTT
*
18060980 TGCTAATATGATTATGGTATTT
1 TGCTAATATGATTATGATATTT
18061002 TGCT
1 TGCT
18061006 GCTGATGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (22 bp):
TGCTAATATGATTATGATATTT
Found at i:18061930 original size:73 final size:71
Alignment explanation
Indices: 18061736--18061930 Score: 191
Period size: 72 Copynumber: 2.7 Consensus size: 71
18061726 ATACTGAGAA
* *
18061736 ACAGAACCAACTTAGTCGACCAAGATAAGAGTTAGTCGACTAAGAAGCTAC-TGCCAAAATCTAG
1 ACAGAACCAACTTAGTCGACCAAGAAAAAAGTTAGTCGACTAAG-AGCT-CTTGCCAAAATCTAG
*
18061800 ACTTCAAG
64 ACTACAAG
* * * * * *
18061808 ACAAAACTAACTTAGTTGATCAA-AAAATGAA-TTAGTTGACTAA-ATGCTCTTTGCCAGAATCT
1 ACAGAACCAACTTAGTCGACCAAGAAAA--AAGTTAGTCGACTAAGA-GCTC-TTGCCAAAATCT
* *
18061870 GCGACTAGAAG
62 -AGACTACAAG
*
18061881 ACGGAACCAACTTAGTCGACCAAGAAAAAAGTTAGTCGACTAAGAGCTCT
1 ACAGAACCAACTTAGTCGACCAAGAAAAAAGTTAGTCGACTAAGAGCTCT
18061931 CTGTCAGCAA
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
70 2 0.02
71 6 0.06
72 43 0.44
73 41 0.42
74 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (71 bp):
ACAGAACCAACTTAGTCGACCAAGAAAAAAGTTAGTCGACTAAGAGCTCTTGCCAAAATCTAGAC
TACAAG
Found at i:18063108 original size:43 final size:43
Alignment explanation
Indices: 18063060--18063161 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
18063050 CAACTTTGTC
* * *
18063060 TCAGCTTATGTGCACTAC-CACACTGCACATAGTTGGGTCATCA
1 TCAGCTCATGTGCACT-CTCACACTGCACATAGCTGGGTCAGCA
* * * *
18063103 TCAGCTCATGTACACTCTTACACTGCATATGGCTGGGTCAGCA
1 TCAGCTCATGTGCACTCTCACACTGCACATAGCTGGGTCAGCA
18063146 -CAGCTCATGTGCACTC
1 TCAGCTCATGTGCACTC
18063162 AGCTCATGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 16 0.32
43 34 0.68
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCTCACACTGCACATAGCTGGGTCAGCA
Found at i:18063175 original size:57 final size:57
Alignment explanation
Indices: 18063103--18063275 Score: 319
Period size: 57 Copynumber: 3.0 Consensus size: 57
18063093 TGGGTCATCA
* *
18063103 TCAGCTCATGTACACTCTTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
1 TCAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
*
18063160 TCAGCTCATGCACACTCCTACACCGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
1 TCAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
18063217 TCAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
1 TCAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
18063274 TC
1 TC
18063276 CTACACCACA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 112 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.24
Consensus pattern (57 bp):
TCAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCACAGCTCATGTGCAC
Found at i:18063277 original size:42 final size:42
Alignment explanation
Indices: 18063218--18063340 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
18063208 CATGTGCACT
** * * *
18063218 CAGCTCATGCACACTCCTACACTGCATATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCAGCA
* *
18063260 CAGCTCATGTGCACTCCTACACCACACATGATTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCAGCA
*
18063302 CAGCTCATGTGCACTCATACACCGCACATGACTGGGTCA
1 CAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCA
18063341 TAATTATCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.21
Consensus pattern (42 bp):
CAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCAGCA
Found at i:18069395 original size:73 final size:74
Alignment explanation
Indices: 18069275--18069470 Score: 234
Period size: 74 Copynumber: 2.7 Consensus size: 74
18069265 AGGCAGATTG
*
18069275 CGAGACAAAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAAAGCTCA-CGATCA-AA
1 CGAGACAGAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAAAGCTCATCGAT-AGAA
18069338 AATTTAATTA
65 AATTTAATTA
* * * * * * * *
18069348 CGAGACAGAGAAGACTTAGTCAACTAAGAAGTATTGTTAGCCCACTAAGAGCTCATTGCTAGTAA
1 CGAGACAGAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAAAGCTCATCGATAGAAA
*
18069413 ATTTGATTA
66 ATTTAATTA
** * * *
18069422 TAAGACAGAGAAGACTTAATCGACTAAGAAGCATGATTAGTCAACTAAA
1 CGAGACAGAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAA
18069471 GCACACTGTT
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
73 50 0.50
74 51 0.50
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (74 bp):
CGAGACAGAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCAACTAAAAGCTCATCGATAGAAA
ATTTAATTA
Found at i:18072540 original size:57 final size:57
Alignment explanation
Indices: 18072450--18072558 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
18072440 TTAAGGTCTC
*
18072450 ATTTTGCATGCATAGCATTTATTAAATATCATAAAATAAATCTATCACATGCTTACT
1 ATTTTGCATGCATAACATTTATTAAATATCATAAAATAAATCTATCACATGCTTACT
18072507 ATTTTGCATTGCATAACA-TTATTAAATCA-CATAAAATAAATCTATCACATGC
1 ATTTTGCA-TGCATAACATTTATTAAAT-ATCATAAAATAAATCTATCACATGC
18072559 ATTCGTATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
57 40 0.82
58 9 0.18
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (57 bp):
ATTTTGCATGCATAACATTTATTAAATATCATAAAATAAATCTATCACATGCTTACT
Found at i:18075329 original size:42 final size:42
Alignment explanation
Indices: 18075269--18075429 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
18075259 TGTTGATGTC
* * * * *
18075269 GACCCAGCCATGTACGAGTAGAAGTGTACATAAGCAGATGAT
1 GACCCGGCTATGTGCGAGTAGAAGTGCACATAAGCAGATGCT
* * *
18075311 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGTCATAT-CT
1 GACCCGGCTATGTGCGAGTAGAAGTGCACATAAG-CAGATGCT
* * *
18075353 GACCCGGCTATGTGCGAGT-GAGAGTGCACATAAACCGTTGCT
1 GACCCGGCTATGTGCGAGTAGA-AGTGCACATAAGCAGATGCT
* * *
18075395 AACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGC
1 GACCCGGCTATGTGCGAGTAGAAGTGCACATAAGC
18075430 CATTGCATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 3 0.03
42 89 0.92
43 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGAAGTGCACATAAGCAGATGCT
Found at i:18082526 original size:83 final size:83
Alignment explanation
Indices: 18082414--18082569 Score: 233
Period size: 83 Copynumber: 1.9 Consensus size: 83
18082404 TGATGTGGAC
*
18082414 CCGGCTATGTGCGAGTAGGAGTGTACATAAGCCGA-TGATAACCCGGCTATGTGCGAGTAGGAGT
1 CCGGCTATGTGCGAGTAGGAGTGCACATAAGCC-ATTGATAACCCGGCTATGTGCGAGTAGGAGT
18082478 GCGCATAAGTGTTGCTGAG
65 GCGCATAAGTGTTGCTGAG
* * * * *
18082497 CCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCATTGCTAACCCGGTTATGTGCGAGTAGGAGTG
1 CCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGATAACCCGGCTATGTGCGAGTAGGAGTG
*
18082562 TGCATAAG
66 CGCATAAG
18082570 CCATTGCATA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 1 0.02
83 64 0.98
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (83 bp):
CCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGATAACCCGGCTATGTGCGAGTAGGAGTG
CGCATAAGTGTTGCTGAG
Found at i:18082572 original size:42 final size:42
Alignment explanation
Indices: 18082412--18082576 Score: 208
Period size: 42 Copynumber: 4.0 Consensus size: 42
18082402 GTTGATGTGG
** *
18082412 ACCCGGCTATGTGCGAGTAGGAGTGTACATAAGCCGA-TGATA
1 ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCC-ATTGCTA
** *
18082454 ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAG-TGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTA
* * *
18082495 AGCCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCATTGCTA
1 ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTA
* *
18082537 ACCCGGTTATGTGCGAGTAGGAGTGTGCATAAGCCATTGC
1 ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGC
18082577 ATATGAGCTA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 33 0.32
42 71 0.68
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTA
Found at i:18094399 original size:21 final size:21
Alignment explanation
Indices: 18094363--18094405 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18094353 GCTATAAATA
*
18094363 TCATTTTCCAACAGCTTTTTC
1 TCATTTTCCAACAGCTTCTTC
**
18094384 TCATTTTCCAGTAGCTTCTTC
1 TCATTTTCCAACAGCTTCTTC
18094405 T
1 T
18094406 TCTTCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.28, G:0.07, T:0.49
Consensus pattern (21 bp):
TCATTTTCCAACAGCTTCTTC
Found at i:18101628 original size:19 final size:20
Alignment explanation
Indices: 18101604--18101641 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18101594 CTATAAATAC
18101604 CTTGAA-TTTCTAGCAGCTT
1 CTTGAATTTTCTAGCAGCTT
18101623 CTTGAATTTTCTAGCAGCT
1 CTTGAATTTTCTAGCAGCT
18101642 GGTCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (20 bp):
CTTGAATTTTCTAGCAGCTT
Found at i:18104792 original size:35 final size:34
Alignment explanation
Indices: 18104723--18104793 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
18104713 GCTTAAAGTC
* * * *
18104723 CCCCCATTTTCCTTCTCAAATTGGCAGCCAACAG
1 CCCCCATTTTCCTTCACAAATCGACAGCAAACAG
18104757 CCCCCATTTTCCTTCACAAATCGACAGCAACACAG
1 CCCCCATTTTCCTTCACAAATCGACAGCAA-ACAG
18104792 CC
1 CC
18104794 TCTATTTCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 26 0.81
35 6 0.19
ACGTcount: A:0.27, C:0.41, G:0.10, T:0.23
Consensus pattern (34 bp):
CCCCCATTTTCCTTCACAAATCGACAGCAAACAG
Found at i:18105754 original size:19 final size:17
Alignment explanation
Indices: 18105732--18105773 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 17
18105722 TTAATATTCT
18105732 AATATCATTTTATTCATAA
1 AATAT-ATTTTATTC-TAA
18105751 AATAATATTTTATTCTAA
1 AAT-ATATTTTATTCTAA
18105769 AATAT
1 AATAT
18105774 TCTTCTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 6 0.27
19 12 0.55
20 2 0.09
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATATTTTATTCTAA
Found at i:18109680 original size:14 final size:13
Alignment explanation
Indices: 18109620--18109680 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
18109610 CTCTTTCTAG
18109620 CTTTTTC-TCTTT
1 CTTTTTCTTCTTT
*
18109632 CTTCTCTCTTCTTT
1 CTT-TTTCTTCTTT
* *
18109646 CTCTTTCCTTTTTT
1 CT-TTTTCTTCTTT
18109660 CTCTTTTCTTCCTTT
1 CT-TTTTCTT-CTTT
18109675 CTTTTT
1 CTTTTT
18109681 GCTTTCAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.08
13 3 0.08
14 27 0.69
15 6 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTTTCTTCTTT
Found at i:18109828 original size:14 final size:15
Alignment explanation
Indices: 18109794--18109831 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
18109784 CTCATTGGAC
18109794 CAATTTATCACGCATT
1 CAATTT-TCACGCATT
*
18109810 CAATTTTCATGCA-T
1 CAATTTTCACGCATT
18109824 CAATTTTC
1 CAATTTTC
18109832 TCCCTTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 6 0.29
16 6 0.29
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (15 bp):
CAATTTTCACGCATT
Found at i:18115717 original size:56 final size:56
Alignment explanation
Indices: 18115625--18115776 Score: 170
Period size: 55 Copynumber: 2.8 Consensus size: 56
18115615 CTAACGGTCC
* *
18115625 TTAGCTCATGTGC-CCTCACACACCGCACATAGCTGGATATAGACCA-CCACCAGTCA
1 TTAGCTCATGTGCACCTCACACACCGCACAGAGCTGGA-AT-CACCACCCACCAGTCA
* *
18115681 TTAGCTCATGTGCACCT-TCACACTGCACACGA-CTGGAATCACCACCCACCAGTCA
1 TTAGCTCATGTGCACCTCACACACCGCACA-GAGCTGGAATCACCACCCACCAGTCA
* * * *
18115736 TCAGCTCATGTGCA-CTCCCACACCGCACATAGCTAGAATCA
1 TTAGCTCATGTGCACCTCACACACCGCACAGAGCTGGAATCA
18115777 TCCGTCATTA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
54 7 0.09
55 43 0.52
56 28 0.34
57 4 0.05
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (56 bp):
TTAGCTCATGTGCACCTCACACACCGCACAGAGCTGGAATCACCACCCACCAGTCA
Found at i:18119074 original size:40 final size:39
Alignment explanation
Indices: 18119017--18119119 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 39
18119007 ACCCTGCTCA
* *
18119017 TGTGCATCCCCCCACATCGTGCACATAGTCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AGTCAGAGCCATCG
* *
18119057 TGTGCATCCCCCTACATCGTGCAC-AGTCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAGTCAGAGCCATCG
* *
18119095 TGTACATCCCCCCACATCATGCACA
1 TGTGCATCCCCCCACATCGTGCACA
18119120 CGAGCACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
38 32 0.58
40 23 0.42
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.22
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAGTCAGAGCCATCG
Found at i:18127118 original size:5 final size:5
Alignment explanation
Indices: 18127097--18127131 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
18127087 CATTTTATTC
* *
18127097 AACTT AACCT GACTT AACTT AACTT AACTT AACTT
1 AACTT AACTT AACTT AACTT AACTT AACTT AACTT
18127132 GGGGCCACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (5 bp):
AACTT
Found at i:18134781 original size:73 final size:73
Alignment explanation
Indices: 18134687--18134827 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
18134677 TATTAACTAT
* * *
18134687 CATTTTAGGTCATGGGCTGTTACACTGTCTCAAAGCATCATTGATGTCTTGTCTCAATGATACAT
1 CATTTTAGGTCACGGGCTGTTACACTATCTCAAAGCATCATTGATGTCTAGTCTCAATGATACAT
18134752 TAAACCAC
66 TAAACCAC
* * *
18134760 CATTTTAGGTCACGAGG-TGTTACATTATCTCGAAGCATCATTGATGTCTAGTCTTAATGATACA
1 CATTTTAGGTCACG-GGCTGTTACACTATCTCAAAGCATCATTGATGTCTAGTCTCAATGATACA
18134824 TTAA
65 TTAA
18134828 CTAGGAACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 59 0.97
74 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (73 bp):
CATTTTAGGTCACGGGCTGTTACACTATCTCAAAGCATCATTGATGTCTAGTCTCAATGATACAT
TAAACCAC
Found at i:18137220 original size:21 final size:20
Alignment explanation
Indices: 18137192--18137233 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
18137182 TCCTTAACTT
18137192 TTTCATAGCATATATAAACA
1 TTTCATAGCATATATAAACA
18137212 TTTCTATAGCATATATAAACA
1 TTTC-ATAGCATATATAAACA
18137233 T
1 T
18137234 CTATATAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTCATAGCATATATAAACA
Found at i:18137247 original size:21 final size:21
Alignment explanation
Indices: 18137196--18137241 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
18137186 TAACTTTTTC
* *
18137196 ATAGCATATATAAACATTTCT
1 ATAGCATATATAAACATCTAT
18137217 ATAGCATATATAAACATCTAT
1 ATAGCATATATAAACATCTAT
18137238 ATAG
1 ATAG
18137242 TGTATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (21 bp):
ATAGCATATATAAACATCTAT
Found at i:18137378 original size:35 final size:35
Alignment explanation
Indices: 18137287--18137390 Score: 163
Period size: 35 Copynumber: 3.0 Consensus size: 35
18137277 CATCAGCTCT
* * ***
18137287 TGTGCACTCCTTACACGCACAAGGCAATATCATCA
1 TGTGCAGTCCCTACACGCACATTTCAATATCATCA
18137322 TGTGCAGTCCCTACACGCACATTTCAATATCATCA
1 TGTGCAGTCCCTACACGCACATTTCAATATCATCA
18137357 TGTGCAGTCCCTACACGCACATTTCAATATCATC
1 TGTGCAGTCCCTACACGCACATTTCAATATCATC
18137391 CCATGCACTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (35 bp):
TGTGCAGTCCCTACACGCACATTTCAATATCATCA
Found at i:18144043 original size:23 final size:23
Alignment explanation
Indices: 18144000--18144043 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18143990 AGGACCTCAT
* * *
18144000 TTGCACTAAAAATCCATTTGGTG
1 TTGCAATAAAAATCAAATTGGTG
18144023 TTGCAATAAAAATCAAATTGG
1 TTGCAATAAAAATCAAATTGG
18144044 AAGAAAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (23 bp):
TTGCAATAAAAATCAAATTGGTG
Found at i:18144350 original size:37 final size:37
Alignment explanation
Indices: 18144150--18144332 Score: 258
Period size: 37 Copynumber: 4.9 Consensus size: 37
18144140 CATATACACA
* *
18144150 CATCGTCATCATGTGTGCACTCCCTACTTGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
* * * *
18144187 TATCATCGTCATGTGTGCATTCCCTACTTGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*** *
18144224 CATCATCATCATGTGTGCACTTTTTACTCGCACACTT
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
18144261 TATCATCATCATGTGTGCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
18144298 CATCATCATCATGTGCGCACTCCCTACTCGCACAC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACAC
18144333 ACCAGCACCG
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 127 1.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:18146020 original size:2 final size:2
Alignment explanation
Indices: 18146015--18146044 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18146005 CACNACTTAC
*
18146015 TA TA TA TG 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
18146045 GTCTACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18151274 original size:37 final size:37
Alignment explanation
Indices: 18151230--18151335 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
18151220 CCTTTTTTGT
* *
18151230 TGGTCACCATAATACCCAACTCTTCCTCTCTCTCTTC
1 TGGTCACCAAAATACCCAACTCTTCCTCTCTCTCCTC
*
18151267 TGGTCACCACAATACCCAACTCTTCCTCTCTCTCCTC
1 TGGTCACCAAAATACCCAACTCTTCCTCTCTCTCCTC
** * *
18151304 CAGTCACCACAAAAACCCAACTCTTTCTCTCT
1 TGGTCACCA-AAATACCCAACTCTTCCTCTCT
18151336 TTTCTGCTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
37 42 0.69
38 19 0.31
ACGTcount: A:0.23, C:0.42, G:0.05, T:0.30
Consensus pattern (37 bp):
TGGTCACCAAAATACCCAACTCTTCCTCTCTCTCCTC
Found at i:18155574 original size:43 final size:43
Alignment explanation
Indices: 18155493--18155596 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
18155483 TATTGACTCG
*
18155493 GCTATGTGCGAGTTGGGAGTGCGCATAAGCCAAGGATGA-CCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGAGCCA
* ** *
18155535 GGTTATGTGCGAGTAGGGAGTGCGCATAA-CCCGGTGATGAGCTA
1 -GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGAGCCA
*
18155579 GCCATGTGCGAGTAGGGA
1 GCTATGTGCGAGTAGGGA
18155597 ATGTGCATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.06
43 47 0.90
44 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.20
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGAGCCA
Found at i:18158119 original size:19 final size:20
Alignment explanation
Indices: 18158095--18158146 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
18158085 TAATATTTTT
18158095 ATATTATTTTATT-AATAAA
1 ATATTATTTTATTAAATAAA
18158114 ATATTATTTTATTAAATAAA
1 ATATTATTTTATTAAATAAA
18158134 ATATTATTTTATT
1 ATATTATTTTATT
18158147 CTAAATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTATTTTATTAAATAAA
Found at i:18158967 original size:20 final size:20
Alignment explanation
Indices: 18158942--18158981 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18158932 AAAAGTTAAG
*
18158942 AATATTGGGGCAATATGAAT
1 AATATTGGGGCAACATGAAT
*
18158962 AATATTGGTGCAACATGAAT
1 AATATTGGGGCAACATGAAT
18158982 GGAAATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (20 bp):
AATATTGGGGCAACATGAAT
Found at i:18164006 original size:16 final size:16
Alignment explanation
Indices: 18163985--18164020 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
18163975 GATAGAAAAA
18163985 TTTAGATTTTGATTCT
1 TTTAGATTTTGATTCT
*
18164001 TTTAGATTTTGATTTT
1 TTTAGATTTTGATTCT
18164017 TTTA
1 TTTA
18164021 ATATTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (16 bp):
TTTAGATTTTGATTCT
Found at i:18167136 original size:12 final size:12
Alignment explanation
Indices: 18167119--18167154 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18167109 TTTTTGATGA
18167119 ACATGTATCGAT
1 ACATGTATCGAT
18167131 ACATGT-TC-AT
1 ACATGTATCGAT
18167141 A-ATGTATCGAT
1 ACATGTATCGAT
18167152 ACA
1 ACA
18167155 ATTTCCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.19
10 5 0.24
11 5 0.24
12 7 0.33
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (12 bp):
ACATGTATCGAT
Found at i:18168984 original size:52 final size:54
Alignment explanation
Indices: 18168925--18169077 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 54
18168915 AATAGCAAGT
*
18168925 GATTCCAGCTATGCGCGGTGTGGGAGTGCGCATGAGCTGATGACCAGTGG-GG-
1 GATTCCAGCTATGCGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGTGGC
* * ** * **
18168977 GATTCCAG-TCGTGTGTAGTGTGGAAGTGCACATGAGCTGATGACTGGTGGTGGTC
1 GATTCCAGCT-ATGCGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGTGG-C
* * * * *
18169032 TATATCCAACTATGCGCGGTGTGGGAGGGCACATGCGCTGAGGACC
1 GAT-TCCAGCTATGCGCGGTGTGGGAGTGCACATGAGCTGATGACC
18169078 GTTGGGCGTG
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
51 1 0.01
52 40 0.53
53 2 0.03
55 2 0.03
56 30 0.39
57 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.24
Consensus pattern (54 bp):
GATTCCAGCTATGCGCGGTGTGGGAGTGCACATGAGCTGATGACCAGTGGTGGC
Found at i:18170829 original size:43 final size:43
Alignment explanation
Indices: 18170713--18170832 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 43
18170703 CTCAGCTATT
* * * ***
18170713 TGCGAGTAGGGAGTGCACATAAGTCGAG-GATGACCTAGTTATG
1 TGCGAGTAGGGAGTGCGCATAAG-CCAGTGATGACCCAACCATG
* * * *
18170756 TGCGAGTAAGGATTGCGCATAACCCGGTGATGACCCAACCATG
1 TGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCAACCATG
* *
18170799 TGCGAGTAGGGAGTGCGCATGAGCTAGTGATGAC
1 TGCGAGTAGGGAGTGCGCATAAGCCAGTGATGAC
18170833 GATGATGGGA
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 2 0.03
43 58 0.97
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (43 bp):
TGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCAACCATG
Found at i:18173226 original size:160 final size:160
Alignment explanation
Indices: 18172962--18173317 Score: 624
Period size: 160 Copynumber: 2.2 Consensus size: 160
18172952 AGATTGTAAC
* *
18172962 ATGTATGCCATGGGATGTATGTGTTAAGCATA-TCATATACACTATGGGAAAAGCATGTAAGTGA
1 ATGTATGCCATGAGATGTATATGTTAAG-ATAGTCATATACACTATGGGAAAAGCATGTAAGTGA
18173026 TTAATGAGGTTATGAAATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGC
65 TTAATGAGGTTATGAAATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGC
*
18173091 TAAACATGTAAGTGATTTATGAGGTTATGAA
130 TAAACATATAAGTGATTTATGAGGTTATGAA
* * *
18173122 ATGTATGCCATAAGATGTATACGTTAAGATAGTCATATACACTATGGGCAAAGCATGTAAGTGAT
1 ATGTATGCCATGAGATGTATATGTTAAGATAGTCATATACACTATGGGAAAAGCATGTAAGTGAT
*
18173187 TTATGAGGTTATGAAATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCT
66 TAATGAGGTTATGAAATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCT
*
18173252 AAGCATATAAGTGATTTATGAGGTTATGAA
131 AAACATATAAGTGATTTATGAGGTTATGAA
18173282 ATGTATGCCATGAGATGTATATGTTAAGATAGTCAT
1 ATGTATGCCATGAGATGTATATGTTAAGATAGTCAT
18173318 TTGCGCTACG
Statistics
Matches: 185, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
159 3 0.02
160 182 0.98
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (160 bp):
ATGTATGCCATGAGATGTATATGTTAAGATAGTCATATACACTATGGGAAAAGCATGTAAGTGAT
TAATGAGGTTATGAAATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCT
AAACATATAAGTGATTTATGAGGTTATGAA
Found at i:18173333 original size:80 final size:80
Alignment explanation
Indices: 18172962--18173317 Score: 561
Period size: 80 Copynumber: 4.5 Consensus size: 80
18172952 AGATTGTAAC
* **
18172962 ATGTATGCCATGGGATGTATGTGTTAAGCATA-TCATATACACTATGGGAAAAGCATGTAAGTGA
1 ATGTATGCCATGAGATGTATGTGTTAAG-ATAGTCATATACACTATGGGCTAAGCATGTAAGTGA
*
18173026 TTAATGAGGTTATGAA
65 TTTATGAGGTTATGAA
* * *
18173042 ATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCTAAACATGTAAGTGAT
1 ATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
18173107 TTATGAGGTTATGAA
66 TTATGAGGTTATGAA
* ** *
18173122 ATGTATGCCATAAGATGTATACGTTAAGATAGTCATATACACTATGGGCAAAGCATGTAAGTGAT
1 ATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
18173187 TTATGAGGTTATGAA
66 TTATGAGGTTATGAA
* * *
18173202 ATGTATGCCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCTAAGCATATAAGTGAT
1 ATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
18173267 TTATGAGGTTATGAA
66 TTATGAGGTTATGAA
*
18173282 ATGTATGCCATGAGATGTATATGTTAAGATAGTCAT
1 ATGTATGCCATGAGATGTATGTGTTAAGATAGTCAT
18173318 TTGCGCTACG
Statistics
Matches: 251, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
79 3 0.01
80 248 0.99
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (80 bp):
ATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGAT
TTATGAGGTTATGAA
Found at i:18188566 original size:2 final size:2
Alignment explanation
Indices: 18188554--18188588 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18188544 ACCATATACC
*
18188554 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18188589 AATCATCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18195835 original size:42 final size:43
Alignment explanation
Indices: 18195773--18195865 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
18195763 TTTTGTGTGA
* * *
18195773 TGATGATGACCTAGCTATGTG-G-GTGTGGGAGTGCATATGAGC
1 TGATGATGACCCAGCCATGTGCGAGTG-GGGAGTGCACATGAGC
18195815 TGATGATGACCCAGCCATGTGCGAGTGGGGAGTGCACATGAGC
1 TGATGATGACCCAGCCATGTGCGAGTGGGGAGTGCACATGAGC
18195858 TGATGATG
1 TGATGATG
18195866 GTGGGATGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 19 0.41
43 24 0.52
44 3 0.07
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.25
Consensus pattern (43 bp):
TGATGATGACCCAGCCATGTGCGAGTGGGGAGTGCACATGAGC
Found at i:18196215 original size:51 final size:51
Alignment explanation
Indices: 18196142--18196265 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
18196132 TTGATTCTTA
* * * * *
18196142 CTGCAGCAAGAATGTATTCTCGCTTTAGCGAGAAAGTTATTGAAGCTTTTCG
1 CTGCAGCGAG-ATTTATTCTCGCTATAGCGAGAAAGTTACTGAAGCTTCTCG
* * *
18196194 CTGCAGCGAGATTTGTTCTCGCTATAGTGAGAAAGTTGCTGAAGCTTCTCG
1 CTGCAGCGAGATTTATTCTCGCTATAGCGAGAAAGTTACTGAAGCTTCTCG
*
18196245 CTGCAGCGATATTTATTCTCG
1 CTGCAGCGAGATTTATTCTCG
18196266 ATGCAACGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 53 0.85
52 9 0.15
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (51 bp):
CTGCAGCGAGATTTATTCTCGCTATAGCGAGAAAGTTACTGAAGCTTCTCG
Found at i:18196277 original size:51 final size:51
Alignment explanation
Indices: 18196170--18196278 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
18196160 CTCGCTTTAG
* * * * * *
18196170 CGAGAAAGTTATTGAAGCTTTTCGCTGCAGCGAGATTTGTTCTCGCTATAG
1 CGAGAAAGTTACTGAAGCTTCTCGCTGCAGCGAGATTTATTCTCGATACAA
* * * *
18196221 TGAGAAAGTTGCTGAAGCTTCTCGCTGCAGCGATATTTATTCTCGATGCAA
1 CGAGAAAGTTACTGAAGCTTCTCGCTGCAGCGAGATTTATTCTCGATACAA
18196272 CGAGAAA
1 CGAGAAA
18196279 CATTCTATCT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (51 bp):
CGAGAAAGTTACTGAAGCTTCTCGCTGCAGCGAGATTTATTCTCGATACAA
Found at i:18204483 original size:142 final size:141
Alignment explanation
Indices: 18204223--18204500 Score: 495
Period size: 142 Copynumber: 2.0 Consensus size: 141
18204213 GAAGGGAAAA
* *
18204223 AAGCTTATGGGGAAAAGTATTTAACAAACACACTCTTCGAAATATGCGAGTAAACATTAACAAAT
1 AAGCTTATGGGGAAAAGTATTTAACAAACACACTCTTAGAAATATGCAAGTAAACATTAACAAAT
*
18204288 GTTTTTCAAAACCCTCTTTCCGAGGCGTAACAATAAATGAAGTCCTATGTTTCCAAGCATCATCA
66 GTTTTTCAAAACCCTCCTTCCGAGGCGTAACAATAAATGAAGTCCTATGTTTCCAAGCATCATCA
18204353 TATAACAATTGC
131 TA-AACAATTGC
18204365 AAGCTTATGGGGAAAAGTATTTAACAAACACACTCTTAGAAATATGCAAGTAAACATTAACAAAT
1 AAGCTTATGGGGAAAAGTATTTAACAAACACACTCTTAGAAATATGCAAGTAAACATTAACAAAT
*
18204430 GTTTTTCAAAA-CCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTTTTCCAAGCATCATC
66 GTTTTTCAAAACCCT-CCTTCCGAGGCGTAACAATAAATGAAGTCCTATGTTTCCAAGCATCATC
18204494 ATAAACA
130 ATAAACA
18204501 TTAACAAATG
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
141 7 0.05
142 124 0.95
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (141 bp):
AAGCTTATGGGGAAAAGTATTTAACAAACACACTCTTAGAAATATGCAAGTAAACATTAACAAAT
GTTTTTCAAAACCCTCCTTCCGAGGCGTAACAATAAATGAAGTCCTATGTTTCCAAGCATCATCA
TAAACAATTGC
Found at i:18204548 original size:80 final size:80
Alignment explanation
Indices: 18204415--18204581 Score: 325
Period size: 80 Copynumber: 2.1 Consensus size: 80
18204405 AATATGCAAG
18204415 TAAACATTAACAAATGTTTTTCAAAACCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTT
1 TAAACATTAACAAATGTTTTTCAAAACCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTT
18204480 TTCCAAGCATCATCA
66 TTCCAAGCATCATCA
18204495 TAAACATTAACAAATGTTTTTCAAAACCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTT
1 TAAACATTAACAAATGTTTTTCAAAACCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTT
18204560 TTCCAAGCATCATCA
66 TTCCAAGCATCATCA
18204575 TATAACA
1 TA-AACA
18204582 ATTGCATTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 82 0.95
81 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (80 bp):
TAAACATTAACAAATGTTTTTCAAAACCTACCTTCCGAGGCGTAACAATAAATGAAGTCCTATTT
TTCCAAGCATCATCA
Found at i:18206506 original size:2 final size:2
Alignment explanation
Indices: 18206496--18206534 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
18206486 ACACATTTAC
*
18206496 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18206535 CGTATCATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18213900 original size:56 final size:52
Alignment explanation
Indices: 18213834--18213984 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 52
18213824 CCAACGGTCC
* *
18213834 TCAACTCATGTGCCCTCCCACACCGTACATAGTTGGATATAGACCACCACCAATCA
1 TCAACTCATGTGCACTCCCACACCGTACATAGTTGGA-AT-CA-C-CCACCAATCA
* **
18213890 TCAACTCATGTGCACTCCCACACCGCACA-AGGTTGGAATCACCCACCGGTCA
1 TCAACTCATGTGCACTCCCACACCGTACATA-GTTGGAATCACCCACCAATCA
* * * *
18213942 TCAGCTCATGCGCATTCCCACACCGTGCATAGTTGGAATCACC
1 TCAACTCATGTGCACTCCCACACCGTACATAGTTGGAATCACC
18213985 TGTCATTACC
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
52 44 0.53
53 2 0.02
54 1 0.01
55 3 0.04
56 33 0.40
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.21
Consensus pattern (52 bp):
TCAACTCATGTGCACTCCCACACCGTACATAGTTGGAATCACCCACCAATCA
Found at i:18216610 original size:21 final size:20
Alignment explanation
Indices: 18216586--18216633 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
18216576 ATCTTACCTT
*
18216586 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
18216607 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
18216628 TTTTTC
1 TTTTTC
18216634 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:18216633 original size:22 final size:22
Alignment explanation
Indices: 18216591--18216631 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18216581 ACCTTTTTTT
*
18216591 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
18216613 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
18216632 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:18235897 original size:18 final size:18
Alignment explanation
Indices: 18235874--18235908 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
18235864 TCTCCATCAA
18235874 GCTTGTACCTTATTTTAG
1 GCTTGTACCTTATTTTAG
18235892 GCTTGTACCTTATTTTA
1 GCTTGTACCTTATTTTA
18235909 CATAGACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (18 bp):
GCTTGTACCTTATTTTAG
Found at i:18251199 original size:21 final size:22
Alignment explanation
Indices: 18251161--18251202 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18251151 TACCTTTTGT
* *
18251161 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTCAATTTTCA
18251183 CACTT-TTCCCTTCAATTTTC
1 CACTTGTTCCCTTCAATTTTC
18251203 CACCTAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.50
Consensus pattern (22 bp):
CACTTGTTCCCTTCAATTTTCA
Found at i:18251243 original size:11 final size:11
Alignment explanation
Indices: 18251213--18251248 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
18251203 CACCTAGGGT
18251213 TTTGTTCTTCC
1 TTTGTTCTTCC
18251224 TTT-TTCTTCC
1 TTTGTTCTTCC
18251234 TTTGTTCTTCC
1 TTTGTTCTTCC
18251245 TTTG
1 TTTG
18251249 GCCGGCCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:18252194 original size:21 final size:21
Alignment explanation
Indices: 18252168--18252207 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18252158 CACTTAACTC
*
18252168 TTTCTTCTTTCTCCTTTCTCT
1 TTTCTTCCTTCTCCTTTCTCT
18252189 TTTCTTCCTTCTCCTTTCT
1 TTTCTTCCTTCTCCTTTCT
18252208 TCCTTTCTCT
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCTTCCTTCTCCTTTCTCT
Found at i:18252219 original size:14 final size:14
Alignment explanation
Indices: 18252167--18252219 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
18252157 TCACTTAACT
18252167 CTTTCTTCTTTC-TC
1 CTTTC-TCTTTCTTC
18252181 CTTTCTCTTTTCTTC
1 CTTTCTC-TTTCTTC
18252196 C-TTCTCCTTTCTTC
1 CTTTCT-CTTTCTTC
18252210 CTTTCTCTTT
1 CTTTCTCTTT
18252220 TACTTTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.06
14 25 0.71
15 8 0.23
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
CTTTCTCTTTCTTC
Found at i:18253253 original size:18 final size:19
Alignment explanation
Indices: 18253227--18253264 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18253217 ATTATTTTAA
18253227 TATTATTTTA-CCAAAAAT
1 TATTATTTTATCCAAAAAT
* *
18253245 TATTGTTTTATCCTAAAAT
1 TATTATTTTATCCAAAAAT
18253264 T
1 T
18253265 GTTCTCTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (19 bp):
TATTATTTTATCCAAAAAT
Found at i:18254232 original size:18 final size:20
Alignment explanation
Indices: 18254190--18254236 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
18254180 AAAATCAAGA
*
18254190 TTTTTCATTTTCTTTTCCTT
1 TTTTTCCTTTTCTTTTCCTT
*
18254210 GTTTTCCTTTT-TTTT-CTT
1 TTTTTCCTTTTCTTTTCCTT
18254228 TTTTTCCTT
1 TTTTTCCTT
18254237 GCTTCTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 4 0.17
20 9 0.38
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCCTTTTCTTTTCCTT
Found at i:18255090 original size:9 final size:9
Alignment explanation
Indices: 18255076--18255100 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18255066 AGTAATTGCA
18255076 TATATATGT
1 TATATATGT
18255085 TATATATGT
1 TATATATGT
18255094 TATATAT
1 TATATAT
18255101 AGAGAGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TATATATGT
Found at i:18257934 original size:2 final size:2
Alignment explanation
Indices: 18257922--18257959 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
18257912 ACGATATACC
*
18257922 AT AT AT GT 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
18257960 CATCATGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18258062 original size:42 final size:42
Alignment explanation
Indices: 18257996--18258141 Score: 184
Period size: 42 Copynumber: 3.5 Consensus size: 42
18257986 CATCTCATAT
* * * * * * *
18257996 GCAACGGCTTATGCGTACTGCCACTTGCATATAGTCGGGTTA
1 GCAACGGCTTATGTGCACTCCCACTCGCATATAGCCAGGTCA
* *
18258038 GCAACGGCTTATGTGCACTCCCACTCACACATAGCCAGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCATATAGCCAGGTCA
* *
18258080 GCAACGGCTTATGTGCACTCCTACTCGCATATAGCCATGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCATATAGCCAGGTCA
*
18258122 ACAACGGCTTATGTGCACTC
1 GCAACGGCTTATGTGCACTC
18258142 TTACACCCAC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCATATAGCCAGGTCA
Found at i:18272731 original size:38 final size:40
Alignment explanation
Indices: 18272688--18272793 Score: 126
Period size: 38 Copynumber: 2.7 Consensus size: 40
18272678 AAAGTGCCCG
* * *
18272688 TGTGCACGATGTAGGGGGATGCACATGATGGC-ACTAAT-
1 TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
* * * **
18272726 TGTGCACAATGTGGGGGGATGCACACGATGACTCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
18272766 TGTGCACGATGTGGGGGGATGCACATGA
1 TGTGCACGATGTGGGGGGATGCACATGA
18272794 GCTGGATGAG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 28 0.50
39 2 0.04
40 26 0.46
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
Found at i:18277177 original size:2 final size:2
Alignment explanation
Indices: 18277170--18277208 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
18277160 TGTTATGTTG
* *
18277170 AT AT AT AT AT AT AT AT AT AT AT CT AA AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
18277209 GTATTGATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18280555 original size:7 final size:7
Alignment explanation
Indices: 18280539--18280588 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
18280529 TCCTCTAGCT
*
18280539 TTTCTTC
1 TTTCTCC
18280546 TTTCTCC
1 TTTCTCC
18280553 TTTCTTCC
1 TTTC-TCC
*
18280561 TTTCTCT
1 TTTCTCC
*
18280568 TTTCTTC
1 TTTCTCC
18280575 TTTCTCC
1 TTTCTCC
18280582 TTTCTCC
1 TTTCTCC
18280589 CCTCTTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTCTCC
Found at i:18280555 original size:15 final size:15
Alignment explanation
Indices: 18280537--18280584 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
18280527 CTTCCTCTAG
18280537 CTTTTCTTCTTTCTC
1 CTTTTCTTCTTTCTC
18280552 C-TTTCTTCCTTTCT-
1 CTTTTCTT-CTTTCTC
18280566 CTTTTCTTCTTTCTC
1 CTTTTCTTCTTTCTC
18280581 CTTT
1 CTTT
18280585 CTCCCCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTCTTCTTTCTC
Found at i:18280558 original size:14 final size:14
Alignment explanation
Indices: 18280539--18280586 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
18280529 TCCTCTAGCT
18280539 TTTCTTCTTTCTCC
1 TTTCTTCTTTCTCC
*
18280553 TTTCTTCCTTTCTCT
1 TTTCTT-CTTTCTCC
18280568 TTTCTTCTTTCTCC
1 TTTCTTCTTTCTCC
18280582 TTTCT
1 TTTCT
18280587 CCCCTCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTCTTCTTTCTCC
Found at i:18280560 original size:29 final size:29
Alignment explanation
Indices: 18280527--18280586 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
18280517 AAAACCAAAC
18280527 CTTCCTCTAGCTTTTCTTCTTTCTCCTTT
1 CTTCCTCTAGCTTTTCTTCTTTCTCCTTT
* **
18280556 CTTCCTTTCTCTTTTCTTCTTTCTCCTTT
1 CTTCCTCTAGCTTTTCTTCTTTCTCCTTT
18280585 CT
1 CT
18280587 CCCCTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.62
Consensus pattern (29 bp):
CTTCCTCTAGCTTTTCTTCTTTCTCCTTT
Found at i:18280594 original size:21 final size:22
Alignment explanation
Indices: 18280552--18280594 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
18280542 CTTCTTTCTC
***
18280552 CTTTCTTCCTTTCTCTTTTCTT
1 CTTTCTTCCTTTCTCCCCTCTT
18280574 CTTTC-TCCTTTCTCCCCTCTT
1 CTTTCTTCCTTTCTCCCCTCTT
18280595 TTTGTTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTCTTCCTTTCTCCCCTCTT
Found at i:18291304 original size:43 final size:43
Alignment explanation
Indices: 18291186--18291307 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 43
18291176 TGACTCGACT
**
18291186 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCAGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCAGGCC
*
18291229 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA-GCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA-CCAGGCC
* *
18291272 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
18291308 TGATGATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.94
44 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCAGGCC
Done.