Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 136 of 144
Found at i:42183151 original size:15 final size:15
Alignment explanation
Indices: 42183133--42183162 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42183123 TTTTATTTTG
42183133 TTTTTTATAAATTAA
1 TTTTTTATAAATTAA
42183148 TTTTTTATAAATTAA
1 TTTTTTATAAATTAA
42183163 AATAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTATAAATTAA
Found at i:42183746 original size:21 final size:22
Alignment explanation
Indices: 42183718--42183800 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
42183708 CCCCTGAATC
42183718 CCTAAACCTTAAATCCCTAACA
1 CCTAAACCTTAAATCCCTAACA
* * * *
42183740 TCTAACCCCTAAA-CCCTAACC
1 CCTAAACCTTAAATCCCTAACA
42183761 CCTAAACCTTAAATCCC-AAC-
1 CCTAAACCTTAAATCCCTAACA
*
42183781 CCTTAAACCAT-AATCCCTAA
1 CC-TAAACCTTAAATCCCTAA
42183801 ATCCATACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 8 0.16
21 29 0.58
22 13 0.26
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.22
Consensus pattern (22 bp):
CCTAAACCTTAAATCCCTAACA
Found at i:42183751 original size:14 final size:14
Alignment explanation
Indices: 42183741--42183768 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42183731 TCCCTAACAT
42183741 CTAACCCCTAAACC
1 CTAACCCCTAAACC
42183755 CTAACCCCTAAACC
1 CTAACCCCTAAACC
42183769 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (14 bp):
CTAACCCCTAAACC
Found at i:42183773 original size:7 final size:7
Alignment explanation
Indices: 42183717--42183801 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
42183707 ACCCCTGAAT
42183717 CCCTAAA
1 CCCTAAA
*
42183724 CCTTAAA
1 CCCTAAA
42183731 TCCCT-AA
1 -CCCTAAA
* *
42183738 CATCTAAC
1 C-CCTAAA
42183746 CCCTAAA
1 CCCTAAA
*
42183753 CCCTAAC
1 CCCTAAA
42183760 CCCTAAA
1 CCCTAAA
*
42183767 CCTTAAA
1 CCCTAAA
42183774 TCCC--AA
1 -CCCTAAA
42183780 CCCTTAAA
1 CCC-TAAA
* *
42183788 CCATAAT
1 CCCTAAA
42183795 CCCTAAA
1 CCCTAAA
42183802 TCCATACTCC
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
5 3 0.05
6 3 0.05
7 40 0.70
8 11 0.19
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:42183806 original size:15 final size:14
Alignment explanation
Indices: 42183784--42183818 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
42183774 TCCCAACCCT
42183784 TAAACCATAATCCC
1 TAAACCATAATCCC
*
42183798 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
42183813 TAAACC
1 TAAACC
42183819 TTAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:42184147 original size:7 final size:7
Alignment explanation
Indices: 42184121--42184159 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
42184111 TAACTGATCT
*
42184121 TAACCTC
1 TAACCCC
*
42184128 TAACCTC
1 TAACCCC
42184135 TAACCCC
1 TAACCCC
42184142 TAACCCC
1 TAACCCC
*
42184149 TAGCCCC
1 TAACCCC
42184156 TAAC
1 TAAC
42184160 ACATAAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.49, G:0.03, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:42184946 original size:41 final size:41
Alignment explanation
Indices: 42184901--42185223 Score: 420
Period size: 41 Copynumber: 7.9 Consensus size: 41
42184891 TTTTATTATT
* * *
42184901 ATTAGCGGCGCTTTTTTC-AAAATGCTGCTAAAGGCCAGAGC
1 ATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
42184942 ATTAGCGGCGCTT-TCTCAAAAACGCCACTAAAGATCC-GAGT
1 ATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAG-GCCAGAGC
42184983 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
42185024 ATTAGCGGCGCTACATCAAAAATGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
42185065 ATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGATC-GAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CCAGAGC
* *
42185106 ATTAGCGGCGCTTCTTCAAAAACGCCTCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
42185147 ATTAGCGGCGCTTCTTCATAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
42185188 ATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
42185224 CCAAAAACTC
Statistics
Matches: 245, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 233 0.95
42 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:42185120 original size:123 final size:124
Alignment explanation
Indices: 42184919--42185221 Score: 475
Period size: 123 Copynumber: 2.5 Consensus size: 124
42184909 CGCTTTTTTC
* * * *
42184919 AAAATGCTGCTAAAGGCCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCACTAAA-GATCCGAGT
1 AAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGATCCGAGC
42184983 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTACATCA
66 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTACATCA
* *
42185042 AAAATGCCGCTAAAGCCCAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGAT-CGAGC
1 AAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGATCCGAGC
* * * *
42185106 ATTAGCGGCGCTTCTTCAAAAACGCCTCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCA
66 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTACATCA
* * *
42185165 TAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGG
1 AAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG
42185222 CCCCAAAAAC
Statistics
Matches: 164, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 161 0.98
124 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (124 bp):
AAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGATCCGAGC
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTACATCA
Found at i:42185309 original size:39 final size:40
Alignment explanation
Indices: 42185260--42185393 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
42185250 GGGCTTAGGC
42185260 TTTTT-GCGGCGCTTTT-CAAAAAACGCCACTAATGCT-TA
1 TTTTTAGCGGCG-TTTTCCAAAAAACGCCACTAATGCTCTA
* *
42185298 TTTTTAGCGGCGTTTTCCAAAAAGCGCTACTAATGCTCTA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCACTAATGCTCTA
** * * * * *
42185338 CCTTTAGCGGCGTTTT-TATAAAAGCGCCGCTAGTGCTCGA
1 TTTTTAGCGGCGTTTTCCA-AAAAACGCCACTAATGCTCTA
* *
42185378 TTTTTAGTGGCATTTT
1 TTTTTAGCGGCGTTTT
42185394 TTGTCCAAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 9 0.11
39 25 0.32
40 45 0.57
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCAAAAAACGCCACTAATGCTCTA
Found at i:42185635 original size:17 final size:19
Alignment explanation
Indices: 42185600--42185642 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
42185590 TAAAAATTAT
42185600 AAATCTTAATAAAAGAAATC
1 AAAT-TTAATAAAAGAAATC
*
42185620 AAATTTAA-AAAA-AAATG
1 AAATTTAATAAAAGAAATC
42185637 AAATTT
1 AAATTT
42185643 TTTGAGAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 4 0.18
20 4 0.18
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATTTAATAAAAGAAATC
Found at i:42200632 original size:6 final size:6
Alignment explanation
Indices: 42200621--42200645 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42200611 GTCAAAATCA
42200621 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
42200646 ACATCAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:42207782 original size:18 final size:17
Alignment explanation
Indices: 42207751--42207799 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
42207741 TCTCATTGAC
42207751 ACCACAATTCAATTATCA-
1 ACCA-AATTCAATT-TCAT
42207769 ACCAAATTCAAATTTCAT
1 ACCAAATTC-AATTTCAT
42207787 ACCAAATT-AATTT
1 ACCAAATTCAATTT
42207800 GCATTCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 16 0.55
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (17 bp):
ACCAAATTCAATTTCAT
Found at i:42214708 original size:26 final size:26
Alignment explanation
Indices: 42214646--42214706 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
42214636 GCAAAACTAT
*
42214646 AATTTAACAATTATTAAAATGATTTA
1 AATTTAAAAATTATTAAAATGATTTA
42214672 AATTTAAAAATTATTAAAAT-ATTTA
1 AATTTAAAAATTATTAAAATGATTTA
42214697 AATTTAAAAA
1 AATTTAAAAA
42214707 ATATGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTTAAAAATTATTAAAATGATTTA
Found at i:42215394 original size:19 final size:18
Alignment explanation
Indices: 42215367--42215430 Score: 78
Period size: 18 Copynumber: 3.5 Consensus size: 18
42215357 AGTGTACTTC
*
42215367 ATGATTTTTTTAAATTTT
1 ATGAATTTTTTAAATTTT
42215385 ATGAATTTTTTAAATTCTT
1 ATGAATTTTTTAAATT-TT
42215404 -TGAATTTTTTAATATTTTT
1 ATGAATTTTTTAA-A-TTTT
42215423 AT-AATTTT
1 ATGAATTTT
42215431 AAAATTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 27 0.66
19 11 0.27
20 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (18 bp):
ATGAATTTTTTAAATTTT
Found at i:42215436 original size:36 final size:36
Alignment explanation
Indices: 42215372--42215441 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
42215362 ACTTCATGAT
* *
42215372 TTTTTTAAATTTTATGAATTTTTTAAATTCTTTGAA
1 TTTTTTAAATTTTATGAATTTTTAAAATTATTTGAA
42215408 TTTTTTAATATTTTTAT-AA-TTTTAAAATTATTTG
1 TTTTTTAA-A-TTTTATGAATTTTTAAAATTATTTG
42215442 TTGACATGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 21 0.70
37 3 0.10
38 6 0.20
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (36 bp):
TTTTTTAAATTTTATGAATTTTTAAAATTATTTGAA
Found at i:42221433 original size:23 final size:23
Alignment explanation
Indices: 42221407--42221450 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
42221397 TGTGGTTTGA
42221407 ATGTATGTTCAAATTCTTTGATC
1 ATGTATGTTCAAATTCTTTGATC
42221430 ATGTATGTTCAAATTCTTTGA
1 ATGTATGTTCAAATTCTTTGA
42221451 GCTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (23 bp):
ATGTATGTTCAAATTCTTTGATC
Found at i:42222301 original size:17 final size:17
Alignment explanation
Indices: 42222279--42222314 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42222269 ATTTTATAAG
42222279 TTGAAACTTAATTTTGA
1 TTGAAACTTAATTTTGA
42222296 TTGAAACTTAATTTTGA
1 TTGAAACTTAATTTTGA
42222313 TT
1 TT
42222315 ATGGCATGTA
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:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (17 bp):
TTGAAACTTAATTTTGA
Found at i:42226830 original size:141 final size:141
Alignment explanation
Indices: 42226561--42226835 Score: 353
Period size: 141 Copynumber: 2.0 Consensus size: 141
42226551 ATTGGAAAAT
* *
42226561 AACAACAACAAGAGCTTCAACAATTCAACAACCAAGATCACTTACTCAACACAACTTCAACTTCT
1 AACAACAACAAGAGCTTCAACAATTCAACAACCAAGATCACTCACTCAACACAACTTCAACTTCC
* * *
42226626 ATACTCTCTTCTACTCCCTCTTTTTGTTCAAAAAACTTGTCAATCAGAGTGCCAAAAACCCCTTA
66 ATACTCTCTTCTACTCCCTCTTTCTGTTCAAAAAACATGTCAATCAGAATGCCAAAAACCCCTTA
42226691 CTCTTTTGACC
131 CTCTTTTGACC
* * * * *
42226702 AACAACAATCAA-AGCTTCAACAATTTAATAACC-AGCATCACTCACTCAACATAGCTTCACCTT
1 AACAACAA-CAAGAGCTTCAACAATTCAACAACCAAG-ATCACTCACTCAACACAACTTCAACTT
* * *
42226765 CCATACTCTCTTCTACT-CCTCATTTGCTGTTCAAGAAACATG-CTAATTAGAATGCTAAAAA-C
64 CCATACTCTCTTCTACTCCCTC-TTT-CTGTTCAAAAAACATGTC-AATCAGAATGCCAAAAACC
42226827 CCTTACTCT
126 CCTTACTCT
42226836 CTTAATTGGA
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
140 6 0.05
141 80 0.69
142 30 0.26
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.29
Consensus pattern (141 bp):
AACAACAACAAGAGCTTCAACAATTCAACAACCAAGATCACTCACTCAACACAACTTCAACTTCC
ATACTCTCTTCTACTCCCTCTTTCTGTTCAAAAAACATGTCAATCAGAATGCCAAAAACCCCTTA
CTCTTTTGACC
Found at i:42232367 original size:35 final size:34
Alignment explanation
Indices: 42232289--42232370 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
42232279 GCCACGTTAG
42232289 AAATTAATTAATTTTTTAAATATAAAAATTATAA
1 AAATTAATTAATTTTTTAAATATAAAAATTATAA
** * * * * *
42232323 AAAAAAATTATTTTTTTCATATTTAAAATTTTTAA
1 AAATTAATTAATTTTTT-AAATATAAAAATTATAA
42232358 AAATTAATTAATT
1 AAATTAATTAATT
42232371 GCTAACATGG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
34 14 0.38
35 23 0.62
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (34 bp):
AAATTAATTAATTTTTTAAATATAAAAATTATAA
Found at i:42235240 original size:19 final size:19
Alignment explanation
Indices: 42235216--42235255 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
42235206 ATAGAATATA
42235216 TACTGAAGATAACTATGAT
1 TACTGAAGATAACTATGAT
42235235 TACTGAAGATAACTATGAT
1 TACTGAAGATAACTATGAT
42235254 TA
1 TA
42235256 TTGACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
TACTGAAGATAACTATGAT
Found at i:42235267 original size:19 final size:19
Alignment explanation
Indices: 42235216--42235268 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
42235206 ATAGAATATA
*
42235216 TACTGAAGATAACTATGAT
1 TACTGAAGAAAACTATGAT
*
42235235 TACTGAAGATAACTATGAT
1 TACTGAAGAAAACTATGAT
*
42235254 TATTGACA-AAAACTA
1 TACTGA-AGAAAACTA
42235269 ACACGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (19 bp):
TACTGAAGAAAACTATGAT
Found at i:42237362 original size:6 final size:5
Alignment explanation
Indices: 42237332--42237361 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
42237322 TCTACCATCT
42237332 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT
42237362 TTCAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:42238380 original size:24 final size:24
Alignment explanation
Indices: 42238348--42238400 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
42238338 CGAACCAGGT
42238348 ATGTTTCAAGCCTAATTATTTGGC
1 ATGTTTCAAGCCTAATTATTTGGC
42238372 ATGTTTCAAGCCTAATTATTTGGC
1 ATGTTTCAAGCCTAATTATTTGGC
42238396 ATGTT
1 ATGTT
42238401 AGCAAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (24 bp):
ATGTTTCAAGCCTAATTATTTGGC
Found at i:42242329 original size:92 final size:92
Alignment explanation
Indices: 42242219--42242404 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
42242209 AGGGCTTTAA
*
42242219 GTGGCAATTTGACCTTAGTTATTAAGTAGTGGATTGTAGGTAAATAATTTTTTTTCTTTTAAATT
1 GTGGCAATTTGACCTTAGTTATTAAGTAGTGGATGGTAGGTAAATAATTTTTTTTCTTTTAAATT
*
42242284 AGAAATGAAACAACTAATGGCAATTTT
66 AGAAATGAAACAACTAATGGAAATTTT
42242311 GTGGCAATTTGACCTTAGTTATTAAGTAGTGGATGGTAGGTAAATAATTTTTTTTCTTTTAAATT
1 GTGGCAATTTGACCTTAGTTATTAAGTAGTGGATGGTAGGTAAATAATTTTTTTTCTTTTAAATT
42242376 AGAAATGAAACAACTAATGGAAATTTT
66 AGAAATGAAACAACTAATGGAAATTTT
42242403 GT
1 GT
42242405 AATTCTAATT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (92 bp):
GTGGCAATTTGACCTTAGTTATTAAGTAGTGGATGGTAGGTAAATAATTTTTTTTCTTTTAAATT
AGAAATGAAACAACTAATGGAAATTTT
Found at i:42245289 original size:8 final size:8
Alignment explanation
Indices: 42245232--42245289 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
42245222 TTGTATTTGT
42245232 TTTTGTTTC
1 TTTT-TTTC
*
42245241 TCTTTTTC
1 TTTTTTTC
*
42245249 TATTTTTC
1 TTTTTTTC
*
42245257 TGTTTTTC
1 TTTTTTTC
*
42245265 TTTCTTTC
1 TTTTTTTC
42245273 TTTTGTTTTC
1 -TTT-TTTTC
42245283 TTTTTTT
1 TTTTTTT
42245290 AAGTATATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
8 28 0.68
9 9 0.22
10 4 0.10
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:42256932 original size:114 final size:111
Alignment explanation
Indices: 42256772--42257161 Score: 388
Period size: 114 Copynumber: 3.4 Consensus size: 111
42256762 AAAAACTTCG
* * * * * *
42256772 GCCCAACAACGTCGTTTTCCGCGCATTCGAGGATTTAGCAGCGTTTTTTATGAAGCGCCGCTAAA
1 GCCCAACGACGTCGTTTTCTGAGCATTCG-GGATTTAGCGGCGTTTTTGA-GAAGCGCCGCTAAT
* * * *
42256837 GCTCAGGGATTTAGTGGCGTTTTTGAGAATTCACCGCAAAGAAACCTAA
64 GCTCAGGGCTTTAGCGGCGTTTTTGAGAA-GCGCCGCAAAGAAACCTAA
* * * *
42256886 GCCCAACGACGTCGTTTTCTGAGCATTCGGTGACTTAGCGGAGTTTTTGAGGTAGCGCCGCCAAT
1 GCCCAACGACGTCGTTTTCTGAGCATTCGG-GATTTAGCGGCGTTTTTGA-GAAGCGCCGCTAAT
* * * *
42256951 GTTCAGTGCTTTAGCGGCATTTCTGAGGAAGCGCCGCAAAGAAACCTAA
64 GCTCAGGGCTTTAGCGGCGTTTTTGA-GAAGCGCCGCAAAGAAACCTAA
* * * * * *
42257000 GCCCAACGATGCCAG-TCTCTGAGTATTCGGGGATTTAGCGGCGTTTATGGAGAAGCGCTGCTAA
1 GCCCAACGACGTC-GTTTTCTGAGCATTC-GGGATTTAGCGGCGTTT-TTGAGAAGCGCCGCTAA
* * * * *
42257064 TGCTAAAGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAGA-AAACCTAG
63 TGCTCAGGGCTTTAGCGGCGTTTTTGAG-AAGCGCCGCAAAGAAACCTAA
*
42257113 GCCCAACGATGTCGTTTTACTGAGCATTGCGGGATTTAGCGGCGTTTTT
1 GCCCAACGACGTCGTTTT-CTGAGCATT-CGGGATTTAGCGGCGTTTTT
42257162 TAACAAGTGC
Statistics
Matches: 225, Mismatches: 42, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
112 1 0.00
113 24 0.11
114 190 0.84
115 10 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (111 bp):
GCCCAACGACGTCGTTTTCTGAGCATTCGGGATTTAGCGGCGTTTTTGAGAAGCGCCGCTAATGC
TCAGGGCTTTAGCGGCGTTTTTGAGAAGCGCCGCAAAGAAACCTAA
Found at i:42261917 original size:43 final size:42
Alignment explanation
Indices: 42261869--42261983 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 42
42261859 CAAAAATAGT
*
42261869 GGCGTTTTTTATAAAAGCGCCGCTAAAGAATAT-TTCTTTCAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAAGAACATATT-TTT-AGC
* *
42261912 GGCGTTTGTGA-ATAAAGCGCCGCTAAAGAACATGATTTTTAGC
1 GGCGTTTTTTATA-AAAGCGCCGCTAAAGAACAT-ATTTTTAGC
* *
42261955 GGCGATTTTTT-T-GAAGTGCCGCTAAAGAA
1 GGCG-TTTTTTATAAAAGCGCCGCTAAAGAA
42261984 AAAAAAACGC
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
42 16 0.27
43 35 0.58
44 7 0.12
45 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
GGCGTTTTTTATAAAAGCGCCGCTAAAGAACATATTTTTAGC
Found at i:42262239 original size:22 final size:22
Alignment explanation
Indices: 42262196--42262239 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
42262186 TAGTGGCGTT
* * **
42262196 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCACTAAAAACCTA
42262218 AAAAAACGCCACTAAAAACCTA
1 AAAAAACGCCACTAAAAACCTA
42262240 TTTTGGTGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAACCTA
Found at i:42262407 original size:23 final size:23
Alignment explanation
Indices: 42262377--42262423 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42262367 TTAAAGAAGT
42262377 GTATGTATATATTCTCTCTGTTG
1 GTATGTATATATTCTCTCTGTTG
42262400 GTATGTATATATTCTCTCTGTTG
1 GTATGTATATATTCTCTCTGTTG
42262423 G
1 G
42262424 CCAAACATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (23 bp):
GTATGTATATATTCTCTCTGTTG
Found at i:42264916 original size:22 final size:22
Alignment explanation
Indices: 42264891--42264933 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42264881 TATCCAAAAA
42264891 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
***
42264913 ATAACAGTGAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
42264934 AACAGTGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:42269215 original size:22 final size:23
Alignment explanation
Indices: 42269170--42269216 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
42269160 GTGGCTTATT
* *
42269170 TTGAATGTTCTTGAGTTTGAACC
1 TTGAATATGCTTGAGTTTGAACC
*
42269193 TTGAATATGCTTGA-TTTGGACC
1 TTGAATATGCTTGAGTTTGAACC
42269215 TT
1 TT
42269217 AAACAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (23 bp):
TTGAATATGCTTGAGTTTGAACC
Found at i:42281745 original size:11 final size:11
Alignment explanation
Indices: 42281729--42281753 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42281719 TTACCCTAAT
42281729 TTTTTAAAATA
1 TTTTTAAAATA
42281740 TTTTTAAAATA
1 TTTTTAAAATA
42281751 TTT
1 TTT
42281754 AACTTTTTTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:42284316 original size:22 final size:21
Alignment explanation
Indices: 42284291--42284334 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
42284281 CACTGTTCCA
*
42284291 CATTCTGCAACTAGATATTTGT
1 CATTCTACAA-TAGATATTTGT
*
42284313 CATTCTACTATAGATATTTGT
1 CATTCTACAATAGATATTTGT
42284334 C
1 C
42284335 CACTTCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (21 bp):
CATTCTACAATAGATATTTGT
Found at i:42288669 original size:22 final size:21
Alignment explanation
Indices: 42288629--42288670 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42288619 AATTATAAAA
*
42288629 AATAAAAAAAATTATAATTTC
1 AATAAAAAAAATTAAAATTTC
*
42288650 AATAAAAAAATCTTAAAATTT
1 AATAAAAAAA-ATTAAAATTT
42288671 TAAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAAAAAAAATTAAAATTTC
Found at i:42288685 original size:16 final size:16
Alignment explanation
Indices: 42288634--42288693 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
42288624 TAAAAAATAA
42288634 AAAAAATTATAATTTCAAT
1 AAAAAATTATAATTT---T
*
42288653 AAAAAAATCTTAAAATTTT
1 -AAAAAA--TTATAATTTT
42288672 AAAAAATTATAATTTT
1 AAAAAATTATAATTTT
42288688 AAAAAA
1 AAAAAA
42288694 ATAGAACGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 15 0.42
18 6 0.17
19 1 0.03
20 6 0.17
22 8 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAAATTATAATTTT
Found at i:42288828 original size:13 final size:13
Alignment explanation
Indices: 42288810--42288847 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
42288800 ATTAAAATTG
42288810 AAAATTTATTTTA
1 AAAATTTATTTTA
*
42288823 AAAA-TTATATTA
1 AAAATTTATTTTA
*
42288835 AAAATTTAATTTA
1 AAAATTTATTTTA
42288848 TTCAACCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAATTTATTTTA
Found at i:42290736 original size:19 final size:19
Alignment explanation
Indices: 42290712--42290786 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
42290702 AATCTACGAG
42290712 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42290731 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
42290750 GATATATACAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
42290771 GATATGTAATCGTAGA
1 GATATGCAATCTTAGA
42290787 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42290761 original size:21 final size:21
Alignment explanation
Indices: 42290713--42290775 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
42290703 ATCTACGAGG
42290713 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
42290732 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
42290753 ATATACAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
42290774 AT
1 AT
42290776 GTAATCGTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42290973 original size:44 final size:45
Alignment explanation
Indices: 42290917--42291004 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 45
42290907 TTCATTGTAG
42290917 AAAAAAAAGAATCAATAAAAAAGAGAGAACGATT-GCAGTTTTTA
1 AAAAAAAAGAATCAATAAAAAAGAGAGAACGATTGGCAGTTTTTA
*
42290961 AAAAAAAAGAATCAATAAAAAAGGGAGAACGATTGGCAGTTTTT
1 AAAAAAAAGAATCAATAAAAAAGAGAGAACGATTGGCAGTTTTT
42291005 TAAAGGTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 33 0.79
45 9 0.21
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (45 bp):
AAAAAAAAGAATCAATAAAAAAGAGAGAACGATTGGCAGTTTTTA
Found at i:42291295 original size:3 final size:3
Alignment explanation
Indices: 42291287--42291326 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
42291277 ATTAATTTTG
*
42291287 TTA TTA TTA TTT TTA TTA TTA -TA TTA -TA TT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42291327 ACCTACATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:42291295 original size:15 final size:15
Alignment explanation
Indices: 42291271--42291326 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
42291261 GTTTTTAGTC
42291271 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
42291285 TGTTATTATTATTTT
1 TATTATTATTAATTT
42291300 TATTATTATATTATATTT
1 TATTA-T-TATTA-ATTT
42291318 TATTATTAT
1 TATTATTAT
42291327 ACCTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 4 0.12
17 6 0.18
18 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:42291327 original size:18 final size:18
Alignment explanation
Indices: 42291271--42291327 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
42291261 GTTTTTAGTC
* *
42291271 TATTTTATTA-ATTTTGT
1 TATTATATTATATTTTAT
42291288 TA-T-TATTAT-TTTTAT
1 TATTATATTATATTTTAT
42291303 TATTATATTATATTTTAT
1 TATTATATTATATTTTAT
42291321 TATTATA
1 TATTATA
42291328 CCTACATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 12 0.34
16 2 0.06
17 8 0.23
18 13 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTATATTATATTTTAT
Found at i:42291699 original size:51 final size:52
Alignment explanation
Indices: 42291585--42291700 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
42291575 ATTTTCCACG
**
42291585 TTTT-TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
* * * * *
42291635 TTTTATATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATA
42291686 TTTTATATATATATA
1 TTTTATATATATATA
42291701 AGTTTTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 28 0.51
52 23 0.42
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (52 bp):
TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:42293008 original size:20 final size:20
Alignment explanation
Indices: 42292983--42293020 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42292973 GTCAGATTAT
*
42292983 CATCTCCGTATGGTCATAAG
1 CATCTCCGTATAGTCATAAG
42293003 CATCTCCGTATAGTCATA
1 CATCTCCGTATAGTCATA
42293021 GGGAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
CATCTCCGTATAGTCATAAG
Found at i:42293881 original size:32 final size:32
Alignment explanation
Indices: 42293840--42293903 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
42293830 TAACGAGAGA
42293840 AAGATTATGGTCTAAGGGATGACTACGCAACT
1 AAGATTATGGTCTAAGGGATGACTACGCAACT
42293872 AAGATTATGGTCTAAGGGATGACTACGCAACT
1 AAGATTATGGTCTAAGGGATGACTACGCAACT
42293904 TTGCTTCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (32 bp):
AAGATTATGGTCTAAGGGATGACTACGCAACT
Found at i:42297149 original size:88 final size:88
Alignment explanation
Indices: 42296955--42297521 Score: 859
Period size: 88 Copynumber: 6.5 Consensus size: 88
42296945 ATCAGTGAAG
* * * *
42296955 ATAACAGATCTTGTCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACCTTGTCC-TC-T
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTG-CCTTCTT
** * *
42297018 GGGTTGTAGCGAAACAGGTTAAAA
65 GGGTTACAGCGGAGCAGGTTAAAA
*
42297042 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCTTG
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
42297107 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGTTAAAA
* *
42297130 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCTTG
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
42297195 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGTTAAAA
* *
42297218 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCTTG
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
42297283 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGTTAAAA
* * * * * *
42297306 ATAGCAGATCTTTCCTTCCTGCACCGACAGCGAAGCAAATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
*
42297371 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGTTAAAA
* * * * *
42297394 ATAACAGATCTTGCCTTCCTGCACCAACAGTGAAGTAGATCGAAGACACCAGCCTTGCCTTCCTG
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
*
42297459 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGTTAAAA
* *
42297482 ATAACAGATCTTGCCTTCCTGCACCGATAGTGAAGCAGAT
1 ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
42297522 AGATGACCCC
Statistics
Matches: 451, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
86 2 0.00
87 54 0.12
88 395 0.88
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (88 bp):
ATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCTTG
GGTTACAGCGGAGCAGGTTAAAA
Found at i:42298054 original size:44 final size:44
Alignment explanation
Indices: 42297965--42298080 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
42297955 ATGGCAAATT
* *
42297965 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
* * *
42298009 TTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT-AATC
** *
42298053 TTATCTATCTGAAGTTGCAGAG-AGCAGA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGA
42298081 ACGCATCTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 6 0.10
44 56 0.90
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
Found at i:42298115 original size:128 final size:129
Alignment explanation
Indices: 42297965--42298216 Score: 301
Period size: 128 Copynumber: 2.0 Consensus size: 129
42297955 ATGGCAAATT
* * * ** * *
42297965 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-AATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTAAA-CAAATAAATCCTATCTCCCTAAAGTTGCAG
* * * *
42298029 TGAAGCGGATTAAAACCTTGGATCTTATCTATCTGAAGTTGCAG-AGAGCAGAACGCATCTAGTC
65 CGAAGCGGATTAAAACCATGGATCTTATCTATCTGAAATTACAGTAGAGCAGAACGCATCTAGTC
* *
42298093 TTATCTCCCTAAAGTTACAGTGGAGCAGACTAAATAAATAAATCCTATCTCCCTAAAGTTGTAGC
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTAAACAAATAAATCCTATCTCCCTAAAGTTGCAGC
* * * ** * *
42298158 GTAGTGGATTAGAATGATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGATCGCATC
66 GAAGCGGATTAAAACCATGGATCTTATCTATCTGAAATTACAGTAGAGCAGAACGCATC
42298217 AAATTCATCT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
127 2 0.02
128 86 0.84
129 14 0.14
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (129 bp):
TTATCTCCCTAAAGTTACAGTGGAGCAGACTAAACAAATAAATCCTATCTCCCTAAAGTTGCAGC
GAAGCGGATTAAAACCATGGATCTTATCTATCTGAAATTACAGTAGAGCAGAACGCATCTAGTC
Found at i:42298524 original size:19 final size:19
Alignment explanation
Indices: 42298500--42298595 Score: 138
Period size: 21 Copynumber: 4.8 Consensus size: 19
42298490 AACCTTCGAG
42298500 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
42298519 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
42298538 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
42298559 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
42298580 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
42298596 AGATATGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 33 0.46
21 39 0.54
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42298546 original size:21 final size:21
Alignment explanation
Indices: 42298501--42298584 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
42298491 ACCTTCGAGG
42298501 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
42298520 ATATGCAATCTTATATATGAT
1 ATATGCAATCTTAGATATGAT
42298541 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
42298562 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
42298583 AT
1 AT
42298585 GTAATCTTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.30
21 43 0.70
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42298585 original size:40 final size:38
Alignment explanation
Indices: 42298500--42298602 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 38
42298490 AACCTTCGAG
*
42298500 GATATGCAATCTTAGATATGATATGCAATCTTATATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
42298538 GATATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
*
42298580 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
42298603 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
36 5 0.08
38 2 0.03
39 1 0.02
40 33 0.56
42 18 0.31
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:42298614 original size:23 final size:22
Alignment explanation
Indices: 42298513--42298618 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 22
42298503 ATGCAATCTT
* *
42298513 AGATATGATATGCAATCTTA-T
1 AGATATGATATGTAATCTTAGA
* *
42298534 ATATGAT-ATATGCAATCTTAG-
1 AGAT-ATGATATGTAATCTTAGA
* *
42298555 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
42298574 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
42298596 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
42298619 GATTTAATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
18 2 0.03
19 14 0.19
21 35 0.47
22 10 0.14
23 13 0.18
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:42298628 original size:22 final size:23
Alignment explanation
Indices: 42298584--42298628 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
42298574 AGATATGATA
*
42298584 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
42298607 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
42298629 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:42298830 original size:132 final size:132
Alignment explanation
Indices: 42298593--42298857 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
42298583 ATGTAATCTT
42298593 AGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTTCGTCATTGTG
1 AGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTTCGTCATTGTG
42298658 TAATTGATCTGTACCGTTGGATTTGGGGAGGCTCAGCTATAAATAGAGGCCTATCCCTTCATTAT
66 TAATTGATCTGTACCGTTGGATTTGGGGAGGCTCAGCTATAAATAGAGGCCTATCCCTTCATTAT
42298723 AG
131 AG
42298725 AGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTTCGTCATTGTG
1 AGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTTCGTCATTGTG
42298790 TAATTGATCTGTACCGTTGGATTTGGGGAGGCTCAGCTATAAATAGAGGCCTATCCCTTCATTAT
66 TAATTGATCTGTACCGTTGGATTTGGGGAGGCTCAGCTATAAATAGAGGCCTATCCCTTCATTAT
42298855 AG
131 AG
42298857 A
1 A
42298858 AAAAAAGAAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (132 bp):
AGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTTCGTCATTGTG
TAATTGATCTGTACCGTTGGATTTGGGGAGGCTCAGCTATAAATAGAGGCCTATCCCTTCATTAT
AG
Found at i:42299182 original size:3 final size:3
Alignment explanation
Indices: 42299174--42299213 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
42299164 ATTAATTTTG
*
42299174 TTA TTA TTA TTT TTA TTA TTA -TA TTA -TA TT- TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42299214 ACCTACATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:42299182 original size:15 final size:15
Alignment explanation
Indices: 42299158--42299213 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
42299148 GTTTTTAGTC
42299158 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
42299172 TGTTATTATTATTTT
1 TATTATTATTAATTT
42299187 TATTATTATATTATATTT
1 TATTA-T-TATTA-ATTT
42299205 TATTATTAT
1 TATTATTAT
42299214 ACCTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 4 0.12
17 6 0.18
18 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:42299214 original size:18 final size:18
Alignment explanation
Indices: 42299158--42299214 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
42299148 GTTTTTAGTC
* *
42299158 TATTTTATTA-ATTTTGT
1 TATTATATTATATTTTAT
42299175 TA-T-TATTAT-TTTTAT
1 TATTATATTATATTTTAT
42299190 TATTATATTATATTTTAT
1 TATTATATTATATTTTAT
42299208 TATTATA
1 TATTATA
42299215 CCTACATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 12 0.34
16 2 0.06
17 8 0.23
18 13 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTATATTATATTTTAT
Found at i:42300840 original size:20 final size:20
Alignment explanation
Indices: 42300815--42300883 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
42300805 TAATACCTAC
42300815 ATTCGAATATATATATACAT
1 ATTCGAATATATATATACAT
*
42300835 ATTCGAATACATAGCTAATACAT
1 ATTCGAATATATA--T-ATACAT
42300858 ACATTCGAATATATATATACAT
1 --ATTCGAATATATATATACAT
42300880 ATTC
1 ATTC
42300884 ATCATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 16 0.38
22 7 0.17
23 7 0.17
25 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCGAATATATATATACAT
Found at i:42300847 original size:45 final size:45
Alignment explanation
Indices: 42300795--42300883 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
42300785 TTTATACCTA
*
42300795 AATACATAGCTAATACCTACATTCGAATATATATATACATATTCG
1 AATACATAGCTAATACATACATTCGAATATATATATACATATTCG
42300840 AATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 AATACATAGCTAATACATACATTCGAATATATATATACATATTC
42300884 ATCATATACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.34
Consensus pattern (45 bp):
AATACATAGCTAATACATACATTCGAATATATATATACATATTCG
Found at i:42300866 original size:25 final size:25
Alignment explanation
Indices: 42300795--42300868 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
42300785 TTTATACCTA
*
42300795 AATACATAGCTAATACCTACATTCG
1 AATACATAGCTAATACATACATTCG
*
42300820 AATATATA--T-ATACAT--ATTCG
1 AATACATAGCTAATACATACATTCG
42300840 AATACATAGCTAATACATACATTCG
1 AATACATAGCTAATACATACATTCG
42300865 AATA
1 AATA
42300869 TATATATACA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 12 0.29
22 6 0.15
23 7 0.17
25 16 0.39
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.31
Consensus pattern (25 bp):
AATACATAGCTAATACATACATTCG
Found at i:42301335 original size:41 final size:41
Alignment explanation
Indices: 42301233--42301341 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
42301223 ACCGGCTTTT
* * * * * *
42301233 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
42301274 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
42301315 AGCCTGCTAGACGTAAAGTCTGTATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTA
42301342 CATTCGATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
Found at i:42311635 original size:31 final size:31
Alignment explanation
Indices: 42311600--42311665 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
42311590 TTAACTCACT
42311600 CTCAACCTCTAGCCTTTATATTTCTCTCATC
1 CTCAACCTCTAGCCTTTATATTTCTCTCATC
42311631 CTCAACCTCTAGCCTTTATATTTCTCTCATC
1 CTCAACCTCTAGCCTTTATATTTCTCTCATC
42311662 CTCA
1 CTCA
42311666 CTCTTTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.20, C:0.36, G:0.03, T:0.41
Consensus pattern (31 bp):
CTCAACCTCTAGCCTTTATATTTCTCTCATC
Found at i:42323400 original size:92 final size:91
Alignment explanation
Indices: 42323243--42323451 Score: 251
Period size: 92 Copynumber: 2.3 Consensus size: 91
42323233 TTGATTTTAG
* * * *
42323243 TAAATTCCTATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
42323308 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
42323335 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
42323399 TATGTAATAATTATTATTTTAAGTTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
42323427 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
42323452 GTTATAATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.28
92 69 0.68
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:42323581 original size:66 final size:63
Alignment explanation
Indices: 42323506--42323715 Score: 190
Period size: 66 Copynumber: 3.4 Consensus size: 63
42323496 AATATATGAT
42323506 ATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAT
1 ATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAAT
42323571 A
63 A
* * * * *
42323572 ATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TTA
1 ATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAATA
*
42323626 ATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 ATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
*
42323690 GA
62 TA
*
42323692 ATATTAATTATTAAGAATTTTATT
1 ATATTAATTATTTA-AATTTTATT
42323716 AAATTATATA
Statistics
Matches: 113, Mismatches: 14, Indels: 35
0.70 0.09 0.22
Matches are distributed among these distances:
53 5 0.04
54 14 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 31 0.27
67 5 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (63 bp):
ATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAATA
Found at i:42323605 original size:120 final size:120
Alignment explanation
Indices: 42323467--42323759 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
42323457 AATTATTTTA
* * *
42323467 AATTTTATTAAATCATATATTTTAATTAAAATATATGAT-ATATTAATTAT-TTCAAATTT-TCA
1 AATTTTATTAAATTATATATTTTAATTATAATATAT-ATAATAATAATTATGTT--AATTTAT-A
* *
42323529 -TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
62 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
42323587 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTTAATTTATATTTT
42323652 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
42323707 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTT
42323760 TAAATATGAT
Statistics
Matches: 163, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 154 0.94
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATATAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:42323627 original size:15 final size:15
Alignment explanation
Indices: 42323592--42323643 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
42323582 TTAAGAATTT
*
42323592 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42323606 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42323620 TATTTAATAATAAT-
1 TATTTAATTATAATA
42323634 TATGTTAATT
1 TAT-TTAATT
42323644 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:42323742 original size:16 final size:16
Alignment explanation
Indices: 42323721--42323762 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42323711 TTATTAAATT
*
42323721 ATATATTTTAATTATA
1 ATATATTTTAATAATA
42323737 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
42323752 AT-TATGTTTAA
1 ATATAT-TTTAA
42323763 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:42323747 original size:15 final size:15
Alignment explanation
Indices: 42323712--42323753 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42323702 TTAAGAATTT
*
42323712 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42323726 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42323740 TATTTAATAATAAT
1 TATTTAATTATAAT
42323754 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:42323874 original size:157 final size:156
Alignment explanation
Indices: 42323696--42324004 Score: 573
Period size: 157 Copynumber: 2.0 Consensus size: 156
42323686 ATAAGAATAT
*
42323696 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
42323761 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATA-TAATAATCTTATTAAAATTTAAATAACAATAACAA
*
42323826 TAATAATTTACCAAAACAAATTTCTAC
130 TAATAATATACCAAAACAAATTTCTAC
42323853 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
42323918 AAATATGATTAAAATATTTATTATTGATATAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAAATATTTATTATTGATATAATAATCTTATTAAAATTTAAATAACAATAACAAT
*
42323983 AATCATATACCAAAACAAATTT
131 AATAATATACCAAAACAAATTT
42324005 ATGCCAAGGG
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 56 0.38
157 92 0.62
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATATACCAAAACAAATTTCTAC
Found at i:42323893 original size:18 final size:17
Alignment explanation
Indices: 42323865--42323899 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42323855 ATTATTAAGA
*
42323865 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42323882 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42323900 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42324155 original size:16 final size:16
Alignment explanation
Indices: 42324134--42324169 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
42324124 GATTTGCTAT
42324134 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42324150 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42324166 TACA
1 TACA
42324170 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:42331178 original size:28 final size:28
Alignment explanation
Indices: 42331134--42331193 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
42331124 ACCTAACAGT
*
42331134 AAAGAATAGCCCTTGTGGCGAACTCTGA
1 AAAGAATAGCCCTTGTGACGAACTCTGA
42331162 AAAGAATAG-CCTGTGTGACGAACTCTGA
1 AAAGAATAGCCCT-TGTGACGAACTCTGA
42331190 AAAG
1 AAAG
42331194 GGTGCCTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (28 bp):
AAAGAATAGCCCTTGTGACGAACTCTGA
Found at i:42332978 original size:9 final size:9
Alignment explanation
Indices: 42332964--42333030 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
42332954 TTAGGTTAAA
*
42332964 AATTAACTG
1 AATTAACCG
42332973 AATTAACCG
1 AATTAACCG
*
42332982 AATTAACCA
1 AATTAACCG
42332991 AATTAACCG
1 AATTAACCG
*
42333000 AATTACCCG
1 AATTAACCG
*
42333009 AATTACCCG
1 AATTAACCG
*
42333018 AATTACCCG
1 AATTAACCG
42333027 AATT
1 AATT
42333031 GAATCACTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:42333269 original size:38 final size:39
Alignment explanation
Indices: 42333225--42333308 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 39
42333215 ACTTAAGAGT
*
42333225 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
42333263 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
42333302 TAGACTT
1 TAGACTT
42333309 GGGTTGGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 27 0.61
39 17 0.39
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:42336200 original size:30 final size:30
Alignment explanation
Indices: 42336166--42336225 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
42336156 CCGAATGCAC
42336166 ATATGTACTTATCATGTGCATATAATTGAT
1 ATATGTACTTATCATGTGCATATAATTGAT
42336196 ATATGTACTTATCATGTGCATATAATTGAT
1 ATATGTACTTATCATGTGCATATAATTGAT
42336226 CATACACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (30 bp):
ATATGTACTTATCATGTGCATATAATTGAT
Found at i:42337076 original size:17 final size:17
Alignment explanation
Indices: 42337054--42337086 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42337044 ACTAATCAAA
42337054 TCACTTAAATACATATT
1 TCACTTAAATACATATT
42337071 TCACTTAAATACATAT
1 TCACTTAAATACATAT
42337087 ATATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
TCACTTAAATACATATT
Found at i:42338379 original size:3 final size:3
Alignment explanation
Indices: 42338365--42338394 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
42338355 CTGAAAGGGG
42338365 TTC TTCC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TT-C TTC TTC TTC TTC TTC TTC TTC TT
42338395 TCTCTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:42339418 original size:10 final size:10
Alignment explanation
Indices: 42339388--42339421 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42339378 TTAGTTTAGG
42339388 TTTAGTTTTC
1 TTTAGTTTTC
*
42339398 TCTAGGTTTTC
1 TTTA-GTTTTC
42339409 TTTAGTTTTC
1 TTTAGTTTTC
42339419 TTT
1 TTT
42339422 GCACTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:42343704 original size:29 final size:29
Alignment explanation
Indices: 42343669--42343759 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
42343659 GCATCACAAA
42343669 CATATCTCCCCTTCTTCATTACCACAGAT
1 CATATCTCCCCTTCTTCATTACCACAGAT
* * * *
42343698 CATATCTCACATATC-GCA-T--CACA-AA
1 CATATCTCCCCT-TCTTCATTACCACAGAT
*
42343723 CATATCTCCCCTTCTTCATCACCACAGAT
1 CATATCTCCCCTTCTTCATTACCACAGAT
42343752 CATATCTC
1 CATATCTC
42343760 ACATATCACA
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
24 2 0.04
25 13 0.28
26 4 0.09
28 5 0.11
29 21 0.45
30 2 0.04
ACGTcount: A:0.29, C:0.37, G:0.03, T:0.31
Consensus pattern (29 bp):
CATATCTCCCCTTCTTCATTACCACAGAT
Found at i:42343741 original size:54 final size:54
Alignment explanation
Indices: 42343659--42343766 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
42343649 CCTACCGGAG
*
42343659 GCATCACAAACATATCTCCCCTTCTTCATTACCACAGATCATATCTCACATATC
1 GCATCACAAACATATCTCCCCTTCTTCATCACCACAGATCATATCTCACATATC
42343713 GCATCACAAACATATCTCCCCTTCTTCATCACCACAGATCATATCTCACATATC
1 GCATCACAAACATATCTCCCCTTCTTCATCACCACAGATCATATCTCACATATC
42343767 ACAAATTGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (54 bp):
GCATCACAAACATATCTCCCCTTCTTCATCACCACAGATCATATCTCACATATC
Found at i:42343742 original size:25 final size:25
Alignment explanation
Indices: 42343660--42343744 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 25
42343650 CTACCGGAGG
42343660 CATCACAAACATATCTCCCCTTCTT
1 CATCACAAACATATCTCCCCTTCTT
* * * *
42343685 CATTACCACAGATCATATCTCACATATC-G
1 CA-T--CACA-AACATATCTCCCCT-TCTT
42343714 CATCACAAACATATCTCCCCTTCTT
1 CATCACAAACATATCTCCCCTTCTT
42343739 CATCAC
1 CATCAC
42343745 CACAGATCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
24 2 0.04
25 19 0.41
26 5 0.11
28 5 0.11
29 13 0.28
30 2 0.04
ACGTcount: A:0.31, C:0.38, G:0.02, T:0.29
Consensus pattern (25 bp):
CATCACAAACATATCTCCCCTTCTT
Found at i:42348671 original size:19 final size:18
Alignment explanation
Indices: 42348647--42348689 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
42348637 TTACAATTCG
*
42348647 AATAACTTGAATAATTCCA
1 AATAACTTGAATAACT-CA
42348666 AATAACTTGAATAACTCA
1 AATAACTTGAATAACTCA
42348684 AATAAC
1 AATAAC
42348690 AGATTGGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAACTTGAATAACTCA
Found at i:42348812 original size:17 final size:18
Alignment explanation
Indices: 42348775--42348827 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
42348765 TTACAAAAAT
* *
42348775 AAATTCCAAATAATTTTTA
1 AAATTACAAAT-ATTTATA
42348794 AAATTA-AAATATTTATA
1 AAATTACAAATATTTATA
42348811 AAATTACAAA-ATTTATA
1 AAATTACAAATATTTATA
42348828 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 19 0.61
18 7 0.23
19 5 0.16
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTACAAATATTTATA
Found at i:42348857 original size:19 final size:20
Alignment explanation
Indices: 42348835--42348878 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
42348825 ATATTTTTTA
42348835 AAAAAAT-TATAAAAATAT-T
1 AAAAAATCTA-AAAAATATAT
*
42348854 AAAAAATCTAAAGAATATAT
1 AAAAAATCTAAAAAATATAT
42348874 AAAAA
1 AAAAA
42348879 TTTTAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAAATCTAAAAAATATAT
Found at i:42355148 original size:50 final size:50
Alignment explanation
Indices: 42355077--42355261 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
42355067 ACATGCCAAA
42355077 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
42355127 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
42355177 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
42355227 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42355262 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:42358581 original size:4 final size:4
Alignment explanation
Indices: 42358574--42358645 Score: 90
Period size: 4 Copynumber: 17.8 Consensus size: 4
42358564 GTATGTACAA
* *
42358574 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
42358622 GCAT GTAT GGTTT GTAC GTAT GTA
1 GTAT GTAT -GTAT GTAT GTAT GTA
42358646 CCTTGCTAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
4 58 0.95
5 3 0.05
ACGTcount: A:0.24, C:0.06, G:0.26, T:0.44
Consensus pattern (4 bp):
GTAT
Found at i:42359695 original size:16 final size:16
Alignment explanation
Indices: 42359674--42359728 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
42359664 TTTAATAATA
42359674 TAATAAATTATTATTT
1 TAATAAATTATTATTT
*
42359690 TAATAAATTATT-TTA
1 TAATAAATTATTATTT
* * *
42359705 TATTAAAATCTTATTT
1 TAATAAATTATTATTT
42359721 TAATAAAT
1 TAATAAAT
42359729 AACTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATAAATTATTATTT
Found at i:42361861 original size:21 final size:18
Alignment explanation
Indices: 42361828--42361867 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
42361818 ATTTCAATAA
42361828 TATTAAATTTAATTGTTTT
1 TATTAAATTTAATT-TTTT
42361847 TATTATAATTATAATTTTTT
1 TATTA-AATT-TAATTTTTT
42361867 T
1 T
42361868 GTGTAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTAAATTTAATTTTTT
Found at i:42365975 original size:19 final size:20
Alignment explanation
Indices: 42365939--42365992 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
42365929 TAGATCATAT
* *
42365939 AATTATAATTTCAAAAAA-A
1 AATTAGAATTTTAAAAAATA
*
42365958 AATTAGAATTTTAGAAAATA
1 AATTAGAATTTTAAAAAATA
*
42365978 TATTATGAATTTTAA
1 AATTA-GAATTTTAA
42365993 TTTTTTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 5 0.18
21 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (20 bp):
AATTAGAATTTTAAAAAATA
Found at i:42368633 original size:15 final size:15
Alignment explanation
Indices: 42368603--42368636 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42368593 TCTACAACTC
42368603 CACATATCATTTATA
1 CACATATCATTTATA
42368618 CACAT-TCATTTCATA
1 CACATATCATTT-ATA
42368633 CACA
1 CACA
42368637 AGCAATCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (15 bp):
CACATATCATTTATA
Found at i:42373141 original size:19 final size:19
Alignment explanation
Indices: 42373094--42373141 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
42373084 ATATGTTCTA
*
42373094 TATTATTTATCTTTAATAT
1 TATTATTTTTCTTTAATAT
* *
42373113 TATTAATTTTCTTTTATAAT
1 TATTATTTTTCTTTAAT-AT
42373133 TA-TATTTTT
1 TATTATTTTT
42373142 TATTTGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTTTTCTTTAATAT
Found at i:42373918 original size:20 final size:21
Alignment explanation
Indices: 42373869--42373921 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
42373859 TGTCGTTCCG
42373869 CTGTTGTT-TTGTTAGCATTT
1 CTGTTGTTATTGTTAGCATTT
*
42373889 CTGTT-ATATTGTTA-CTATTT
1 CTGTTGTTATTGTTAGC-ATTT
42373909 -TGTTGTTATTGTT
1 CTGTTGTTATTGTT
42373922 TGGATATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.13, C:0.08, G:0.17, T:0.62
Consensus pattern (21 bp):
CTGTTGTTATTGTTAGCATTT
Found at i:42380837 original size:2 final size:2
Alignment explanation
Indices: 42380830--42380860 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42380820 TAAATACTTT
42380830 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
42380861 TTGGGTTTTT
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:42393524 original size:32 final size:32
Alignment explanation
Indices: 42393460--42393572 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 32
42393450 TGTGTGGTTC
* * * *
42393460 TGTGAAATGAGAATAAATATGAGCTTTC-ATTT
1 TGTGAAATGATAACAAATATCAAC-TTCAATTT
* *
42393492 TGTGAAATGGTAACAAAT-TACAAGTTCAATTT
1 TGTGAAATGATAACAAATAT-CAACTTCAATTT
*
42393524 TGTGAAATGATAACAAATATCAACTTTAATTTT
1 TGTGAAATGATAACAAATATCAACTTCAA-TTT
*
42393557 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
42393573 TATTCCTCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
31 4 0.06
32 44 0.66
33 19 0.28
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTCAATTT
Found at i:42397086 original size:43 final size:43
Alignment explanation
Indices: 42396971--42397087 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
42396961 TTTTGTCCTG
* *
42396971 ATGTGG-TTCTGCCACGTTGCTTCTTTTTTTGTCTGGACATAA
1 ATGTGGTTTCTTCCACGTTGCTTCTTTTTTTGTCTGGACACAA
* * **
42397013 ATGTGGTTCCTTCCACATTGCTTAC-TTTTTTGTCTGGATGCAA
1 ATGTGGTTTCTTCCACGTTGCTT-CTTTTTTTGTCTGGACACAA
* *
42397056 TTGTGGTTTCTTCCACGTAGCTTCTTTTTTTG
1 ATGTGGTTTCTTCCACGTTGCTTCTTTTTTTG
42397088 GTCTTTTTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 7 0.11
43 54 0.87
44 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.48
Consensus pattern (43 bp):
ATGTGGTTTCTTCCACGTTGCTTCTTTTTTTGTCTGGACACAA
Found at i:42405705 original size:11 final size:11
Alignment explanation
Indices: 42405691--42405731 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
42405681 TGTTTTCTCT
42405691 CTATTTTGCTA
1 CTATTTTGCTA
*
42405702 CTATTTTACTA
1 CTATTTTGCTA
* *
42405713 TTATATTGCTA
1 CTATTTTGCTA
42405724 CTATTTTG
1 CTATTTTG
42405732 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:42405802 original size:30 final size:30
Alignment explanation
Indices: 42405768--42405826 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
42405758 ACTTATTTTA
42405768 TTGTTAATTTTGTTATTATTTTAAAGGCAC
1 TTGTTAATTTTGTTATTATTTTAAAGGCAC
*
42405798 TTGTTAATTTTGTTATTATTTTAGAGGCA
1 TTGTTAATTTTGTTATTATTTTAAAGGCA
42405827 TTTGCTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.54
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAC
Found at i:42415160 original size:42 final size:42
Alignment explanation
Indices: 42415071--42415196 Score: 198
Period size: 42 Copynumber: 3.0 Consensus size: 42
42415061 AAACAAAAAC
*
42415071 GCCGCTAAAGAACGTGGTCTTTAGCGGCGTTTTTTTTACAAAT
1 GCCGCTAAAGAACGTGTTCTTTAGCGGCG-TTTTTTTACAAAT
*
42415114 GCCGCTAAAGAACGTGTTCTGTAGCGGCGTTTTTTTACAAAT
1 GCCGCTAAAGAACGTGTTCTTTAGCGGCGTTTTTTTACAAAT
* * *
42415156 GCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTATACAAA
1 GCCGCTAAAGAACGTGTTCTTTAGCGGCGTTTTTTTACAAA
42415197 AAAATGCCAC
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 50 0.65
43 27 0.35
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGAACGTGTTCTTTAGCGGCGTTTTTTTACAAAT
Found at i:42415566 original size:21 final size:21
Alignment explanation
Indices: 42415498--42415568 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
42415488 TTTTGCTCTG
* *
42415498 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
42415519 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
42415540 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
42415561 CTCTGCTT
1 CTCTGCTT
42415569 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:42419801 original size:22 final size:22
Alignment explanation
Indices: 42419762--42419815 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
42419752 GTATATTTAA
*
42419762 TTTAA-ATTTTACATTAATAAT
1 TTTAATATTTTACAGTAATAAT
42419783 TATTAATATTTTA-AGTAATAAT
1 T-TTAATATTTTACAGTAATAAT
42419805 TTTAAGTATTT
1 TTTAA-TATTT
42419816 AATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 18 0.62
23 6 0.21
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTAATATTTTACAGTAATAAT
Found at i:42420675 original size:39 final size:40
Alignment explanation
Indices: 42420612--42420688 Score: 106
Period size: 39 Copynumber: 1.9 Consensus size: 40
42420602 AACCCATAAC
42420612 CCTAAATCCCCCTTAACCCTTAAAGCATAAA-CCCTAAACT
1 CCTAAATCCCCCTTAACCCTTAAAGCA-AAACCCCTAAACT
*
42420652 CCTAAATCTCCC-TAATCCC-TAAAGCAAAACCCCTAAA
1 CCTAAATCCCCCTTAA-CCCTTAAAGCAAAACCCCTAAA
42420689 AAATTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 3 0.09
39 17 0.50
40 14 0.41
ACGTcount: A:0.39, C:0.38, G:0.03, T:0.21
Consensus pattern (40 bp):
CCTAAATCCCCCTTAACCCTTAAAGCAAAACCCCTAAACT
Found at i:42420982 original size:15 final size:15
Alignment explanation
Indices: 42420962--42421012 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
42420952 CGTTCAAACT
*
42420962 CTAAACCCCAAATCC
1 CTAAACCCCAAACCC
*
42420977 CTAAACCCCTAACCC
1 CTAAACCCCAAACCC
*
42420992 CTAAACTCCTAAACCC
1 CTAAAC-CCCAAACCC
42421008 CTAAA
1 CTAAA
42421013 TCCTACTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAAACCCCAAACCC
Found at i:42420988 original size:8 final size:8
Alignment explanation
Indices: 42420962--42421012 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
42420952 CGTTCAAACT
42420962 CTAAACCC
1 CTAAACCC
*
42420970 C-AAATCC
1 CTAAACCC
42420977 CTAAACCC
1 CTAAACCC
42420985 CT-AACCC
1 CTAAACCC
*
42420992 CTAAACTC
1 CTAAACCC
42421000 CTAAACCC
1 CTAAACCC
42421008 CTAAA
1 CTAAA
42421013 TCCTACTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 13 0.35
8 24 0.65
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (8 bp):
CTAAACCC
Found at i:42420988 original size:23 final size:24
Alignment explanation
Indices: 42420962--42421012 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
42420952 CGTTCAAACT
42420962 CTAAACCCC-AAA-TCCCTAAACCC
1 CTAAACCCCTAAACT-CCTAAACCC
42420985 CTA-ACCCCTAAACTCCTAAACCC
1 CTAAACCCCTAAACTCCTAAACCC
42421008 CTAAA
1 CTAAA
42421013 TCCTACTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.20
23 18 0.72
24 2 0.08
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (24 bp):
CTAAACCCCTAAACTCCTAAACCC
Found at i:42421504 original size:114 final size:113
Alignment explanation
Indices: 42421357--42421642 Score: 283
Period size: 113 Copynumber: 2.5 Consensus size: 113
42421347 AAAAGATAAG
* * * *
42421357 GAGACGACGTCGTTGGGCTTAGGTTTTTAGCGGCGCTTTTACAACAAACGCTGCTAAA-AGCCTG
1 GAGACGACGTCGTTGCGC-TAGTTTTTTTGCGGCGCTTTTACAA-AAACGCCGCTAAAGA-CCTG
*
42421421 ATAATTAGCAGCACTTCCTATA-AAGCGCCACTAAATCCCTGAA-AGCT-GGC
63 AGAATTAGCAGCACTT--TATAGAAGCGCCACTAAATCCCTGAATAGCTCGGC
* **
42421471 GAGACGATGTCGTTGCGCTAGATTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAG
1 GAGACGACGTCGTTGCGCTAG-TTTTTTTGCGGCGCTTTTACAAAAACGCCGCTAAAGACCTGAG
* * * * * * *
42421536 CATTAGCGGCGCTTTATAGGAAGCGCCGCTAATTCCGTGAATAGCTCGGG
65 AATTAGCAGCACTTTATA-GAAGCGCCACTAAATCCCTGAATAGCTCGGC
* * * * * *
42421586 GAAACGACGTTGTTGCGTTTAGTTTTTTTGCGGCGCTTTTATACAAACACCGCTAAA
1 GAGACGACGTCGTTGCG-CTAGTTTTTTTGCGGCGCTTTTACAAAAACGCCGCTAAA
42421643 TCCCCAAAAT
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
111 4 0.03
113 49 0.35
114 39 0.28
115 46 0.33
116 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (113 bp):
GAGACGACGTCGTTGCGCTAGTTTTTTTGCGGCGCTTTTACAAAAACGCCGCTAAAGACCTGAGA
ATTAGCAGCACTTTATAGAAGCGCCACTAAATCCCTGAATAGCTCGGC
Found at i:42421711 original size:72 final size:71
Alignment explanation
Indices: 42421586--42421780 Score: 184
Period size: 71 Copynumber: 2.7 Consensus size: 71
42421576 ATAGCTCGGG
* * * * * *
42421586 GAAACGACGTTGTTGCGTTTAGTTTTTTTGCGGCGCTT--TTATACAAACACCGCTAAATCCCCA
1 GAAACGGCGTCGTTGCG-CTAGGTTTTTTGCGGCGCTTACTTA-A-AAACGCCGCTAAATCACC-
42421649 AAAT-CTC-A
62 AAATGCTCTA
* * *
42421657 GAAACGGTGTCGTTGGGCTTAGGGTTTTTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
1 GAAACGGCGTCGTTGCGC-TA-GGTTTTTTGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
*
42421722 ATGCTCTT
64 ATGCTCTA
* *
42421730 GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGAGCTGTACCT-AAAACGCCG
1 GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCT-TACTTAAAAACGCCG
42421781 GTAATGTTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
71 42 0.41
72 40 0.39
73 17 0.17
74 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (71 bp):
GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAAAT
GCTCTA
Found at i:42424348 original size:39 final size:39
Alignment explanation
Indices: 42424290--42424367 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
42424280 AAATGAACAA
*
42424290 ATTAAACCCTGTACATTAAACTAGAGAGCAAATTAGTTC
1 ATTAAACCCTGTACATTAAACTAAAGAGCAAATTAGTTC
*
42424329 ATTAAACCCTGTACGTTAAACTAAAGAGCAAATTAGTTC
1 ATTAAACCCTGTACATTAAACTAAAGAGCAAATTAGTTC
42424368 TTTCTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (39 bp):
ATTAAACCCTGTACATTAAACTAAAGAGCAAATTAGTTC
Found at i:42427284 original size:6 final size:6
Alignment explanation
Indices: 42427273--42427300 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
42427263 TAATTTTAGA
42427273 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
42427301 GTATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:42427504 original size:149 final size:148
Alignment explanation
Indices: 42427233--42427528 Score: 433
Period size: 145 Copynumber: 2.0 Consensus size: 148
42427223 CTGGCCCGAT
42427233 CCGGCCCATTTTTTAATAAACACCAAAAAATAATTTTAGAAAAAATAAAAATAAAAATAAAAATA
1 CCGGCCCATTTTTTAATAAACACCAAAAAATAATTTTAGAAAAAATAAAAATAAAAATAAAAATA
* *
42427298 AAAGTATTTTAAAATTAAAAAATAAAAATAAAATATATTTTTATTAAATTCGTGCC-G-G-GGCC
66 AAAATATTTTAAAATTAAAAAATAAAAATAAAATATATTTTTATTAAATTCGGGCCGGCGAGGCC
42427360 AAAAAAGTGGTGCCCGGC
131 AAAAAAGTGGTGCCCGGC
* *
42427378 CCGGCCTATTTTTTAATAAACACCAAAAAATAATTTTA-AAAATA-AAAAATAAAAATAAAAGTA
1 CCGGCCCATTTTTTAATAAACACCAAAAAATAATTTTAGAAAAAATAAAAATAAAAATAAAA--A
42427441 TTTTAAAAATATTTTAAAATT-AAAAATAAAAATAAAAAATATATTTTTATTAAATTCGGGCCGG
64 ---TAAAAATATTTTAAAATTAAAAAATAAAAAT--AAAATATATTTTTATTAAATTCGGGCC-G
42427505 GCCGAGGCCAAAAAAGTGGTGCCC
123 G-CGAGGCCAAAAAAGTGGTGCCC
42427529 AAGGTCCGGC
Statistics
Matches: 135, Mismatches: 4, Indels: 15
0.88 0.03 0.10
Matches are distributed among these distances:
143 16 0.12
144 5 0.04
145 38 0.28
147 12 0.09
148 17 0.13
149 26 0.19
151 1 0.01
153 1 0.01
154 19 0.14
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (148 bp):
CCGGCCCATTTTTTAATAAACACCAAAAAATAATTTTAGAAAAAATAAAAATAAAAATAAAAATA
AAAATATTTTAAAATTAAAAAATAAAAATAAAATATATTTTTATTAAATTCGGGCCGGCGAGGCC
AAAAAAGTGGTGCCCGGC
Found at i:42428175 original size:16 final size:16
Alignment explanation
Indices: 42428144--42428180 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
42428134 ATATGAAGAA
42428144 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
42428160 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
42428176 TATTA
1 TATTA
42428181 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:42428203 original size:17 final size:18
Alignment explanation
Indices: 42428166--42428200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42428156 TTATTATTTT
* *
42428166 TAAAATTTATTATTAAAA
1 TAAAATTAAATATTAAAA
42428184 TAAAATTAAATATTAAA
1 TAAAATTAAATATTAAA
42428201 TAATTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATTAAATATTAAAA
Found at i:42435469 original size:15 final size:14
Alignment explanation
Indices: 42435449--42435484 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
42435439 TATATATAAT
42435449 TATTATATTATGTAA
1 TATTATATTATGT-A
42435464 TATTATATTATGTA
1 TATTATATTATGTA
42435478 TATTATA
1 TATTATA
42435485 ATTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATTATATTATGTA
Found at i:42436481 original size:29 final size:29
Alignment explanation
Indices: 42436438--42436494 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
42436428 AGCCCCGTGA
*
42436438 CAAGTGGTATCCGAGCTG-TTGGTTCGAAC
1 CAAGTGATATCCGAG-TGATTGGTTCGAAC
*
42436467 CAAGTGATATTCGAGTGATTGGTTCGAA
1 CAAGTGATATCCGAGTGATTGGTTCGAA
42436495 GGCACCGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (29 bp):
CAAGTGATATCCGAGTGATTGGTTCGAAC
Found at i:42436618 original size:3 final size:3
Alignment explanation
Indices: 42436604--42436662 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
42436594 TCACATACAC
*
42436604 ACA ACA ATA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
42436652 ACA ACA ACA AC
1 ACA ACA ACA AC
42436663 TCTTCAAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.02
Consensus pattern (3 bp):
ACA
Found at i:42436786 original size:45 final size:45
Alignment explanation
Indices: 42436722--42436814 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
42436712 CACCATAAAA
* * *
42436722 TATGATGCAGAATTTGGTTTTAGAGACTCACTAGAAACCTACCTT
1 TATGATGCAGAAGTCGGTTTTAGAGACTCACCAGAAACCTACCTT
* *
42436767 TATGATGCAGAAGTCGGTTTTAGAGACTCACCAGAGACCTACTTT
1 TATGATGCAGAAGTCGGTTTTAGAGACTCACCAGAAACCTACCTT
42436812 TAT
1 TAT
42436815 CTCGACCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (45 bp):
TATGATGCAGAAGTCGGTTTTAGAGACTCACCAGAAACCTACCTT
Found at i:42439654 original size:20 final size:20
Alignment explanation
Indices: 42439629--42439669 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42439619 ATTTCTAAGC
*
42439629 TTCAAAATCTACAATAAACA
1 TTCAAAAACTACAATAAACA
* *
42439649 TTCAAAAACTTCAATTAACA
1 TTCAAAAACTACAATAAACA
42439669 T
1 T
42439670 GAATGAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (20 bp):
TTCAAAAACTACAATAAACA
Found at i:42439926 original size:19 final size:18
Alignment explanation
Indices: 42439902--42439937 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
42439892 TAATTAAAAA
*
42439902 TTAATTAATCATAGTTTAT
1 TTAATTAAACAT-GTTTAT
42439921 TTAATTAAACATGTTTA
1 TTAATTAAACATGTTTA
42439938 ACTAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TTAATTAAACATGTTTAT
Found at i:42453142 original size:21 final size:21
Alignment explanation
Indices: 42453104--42453143 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42453094 TTGTTATTAA
**
42453104 ATATTTATAATTTTAATATAT
1 ATATTTATAATTAAAATATAT
*
42453125 ATATTTATTATTAAAATAT
1 ATATTTATAATTAAAATAT
42453144 TAGTATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTATAATTAAAATATAT
Found at i:42453155 original size:27 final size:27
Alignment explanation
Indices: 42453120--42453224 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
42453110 ATAATTTTAA
*
42453120 TATATATATTTATTATTAAAATATTAG
1 TATAAATATTTATTATTAAAATATTAG
* * *
42453147 TATAAATATTTTTTAATAATATATTAAG
1 TATAAATATTTATTATTAAAATATT-AG
* * ** *
42453175 AAT-ATTATTTAAAATTAAAATTATTAT
1 TATAAATATTTATTATTAAAA-TATTAG
*
42453202 TTTCAAAT-TTTATTATTAAAATA
1 TAT-AAATATTTATTATTAAAATA
42453225 AAATTGTAAT
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
27 36 0.63
28 19 0.33
29 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (27 bp):
TATAAATATTTATTATTAAAATATTAG
Found at i:42453271 original size:16 final size:16
Alignment explanation
Indices: 42453215--42453273 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
42453205 CAAATTTTAT
42453215 TATTAA-AATAAAATTG
1 TATTAATAAT-AAATTG
*
42453231 TAATAATAA-ATAATT-
1 TATTAATAATA-AATTG
42453246 TATTGAAATAATAAATTG
1 TATT--AATAATAAATTG
42453264 TATTAATAAT
1 TATTAATAAT
42453274 TTATTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 11 0.31
18 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
TATTAATAATAAATTG
Done.