Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 42 of 171
Found at i:18328917 original size:14 final size:14
Alignment explanation
Indices: 18328881--18328922 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
18328871 TTAACAATTT
*
18328881 CGCATAAAAATAAA
1 CGCAAAAAAATAAA
18328895 -GCAAAAAAATAAA
1 CGCAAAAAAATAAA
18328908 CG-AAAGAAAATAAA
1 CGCAAA-AAAATAAA
18328922 C
1 C
18328923 AAATGAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.10
Consensus pattern (14 bp):
CGCAAAAAAATAAA
Found at i:18328930 original size:14 final size:13
Alignment explanation
Indices: 18328887--18328930 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
18328877 ATTTCGCATA
18328887 AAAATAAAGCAAA-
1 AAAATAAA-CAAAG
18328900 AAAATAAACGAAAG
1 AAAATAAAC-AAAG
18328914 AAAATAAACAAATG
1 AAAATAAACAAA-G
18328928 AAA
1 AAA
18328931 GAAGGGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 14 0.50
14 13 0.46
ACGTcount: A:0.75, C:0.07, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAATAAACAAAG
Found at i:18330573 original size:31 final size:30
Alignment explanation
Indices: 18330518--18330605 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 30
18330508 ATGATATATA
* *
18330518 AAATATTTAAAAAACTTAAATATAATAATAA-
1 AAATATTTAAATAA-TTTAATATAATAA-AAT
* *
18330549 ATTATATTTATATAATTTAATATAATAAAAT
1 A-AATATTTAAATAATTTAATATAATAAAAT
18330580 GAAATATTTAAATAATTTAATATAAT
1 -AAATATTTAAATAATTTAATATAAT
18330606 GTTACATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 2 0.04
31 35 0.73
32 11 0.23
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AAATATTTAAATAATTTAATATAATAAAAT
Found at i:18331288 original size:26 final size:24
Alignment explanation
Indices: 18331250--18331310 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
18331240 ATATATTTTT
18331250 TATTTTTAAATAAAATAAATTTACA
1 TATTTTTAAAT-AAATAAATTTACA
* *
18331275 TTTTTTTGAAAT-AATAAATTTATA
1 TATTTTT-AAATAAATAAATTTACA
18331299 TATTTTTAAATA
1 TATTTTTAAATA
18331311 GCCCCAGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 17 0.55
25 6 0.19
26 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTTTTAAATAAATAAATTTACA
Found at i:18331859 original size:18 final size:18
Alignment explanation
Indices: 18331821--18331856 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
18331811 TTGATATTTT
18331821 TAATTACTTTAATAATTA
1 TAATTACTTTAATAATTA
18331839 TAATTA-TTTAAT-ATTA
1 TAATTACTTTAATAATTA
18331855 TA
1 TA
18331857 TAAATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTACTTTAATAATTA
Found at i:18332937 original size:29 final size:29
Alignment explanation
Indices: 18332900--18332962 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
18332890 TTTTTTACAT
18332900 AAATAATATA-AAATA-ATAATTAATTACGA
1 AAATAATATAGAAA-ACA-AATTAATTACGA
* *
18332929 AAATGATATAGAAAACAAATTAATTATGA
1 AAATAATATAGAAAACAAATTAATTACGA
18332958 AAATA
1 AAATA
18332963 GGTATTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAATATAGAAAACAAATTAATTACGA
Found at i:18336778 original size:31 final size:32
Alignment explanation
Indices: 18336737--18336810 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
18336727 TAATACATGA
18336737 AATATATT-AA-AATTCTAAATATAATAATAAAT
1 AATATATTAAATAATT-T-AATATAATAATAAAT
*
18336769 AATAT-TTAAATAATTTAATATAATAATACAT
1 AATATATTAAATAATTTAATATAATAATAAAT
*
18336800 AAAATA-TAAAT
1 AATATATTAAAT
18336811 TAATCTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
31 25 0.68
32 8 0.22
33 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
AATATATTAAATAATTTAATATAATAATAAAT
Found at i:18337136 original size:24 final size:24
Alignment explanation
Indices: 18337109--18337156 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18337099 AATTTGTGTT
*
18337109 ATTTATAGTCTGTCTGTTGACACG
1 ATTTATAGTCTGTCTATTGACACG
* *
18337133 ATTTTTCGTCTGTCTATTGACACG
1 ATTTATAGTCTGTCTATTGACACG
18337157 TTCTGGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (24 bp):
ATTTATAGTCTGTCTATTGACACG
Found at i:18339781 original size:17 final size:18
Alignment explanation
Indices: 18339759--18339792 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18339749 CATCAATTCA
18339759 TTTTTTATTA-TTATTTG
1 TTTTTTATTATTTATTTG
18339776 TTTTTTATTATTTATTT
1 TTTTTTATTATTTATTT
18339793 AATAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTTATTATTTATTTG
Found at i:18339822 original size:96 final size:95
Alignment explanation
Indices: 18339672--18339919 Score: 270
Period size: 96 Copynumber: 2.6 Consensus size: 95
18339662 ATGCTTTAAT
* * * * *
18339672 TTATGTATTTTTTTGTTTATTATTTATTTTTTAA-AATTTAAAT-TTA-TTTCTTTTTGGTAGAG
1 TTAT-TATTTATTT-TTTATTATTTATTTTATAATATTTTAAATGATATTTTATTTTTGGTAGAG
* * *
18339734 C-ATTCGAAATGGCAACATCAATTCATTTTTTA
64 CTATTCAAAAT-GCAACACCAATTCACTTTTTA
* * *
18339766 TTATTATTTGTTTTTTATTATTTATTTAATAATATTTTAAATGCATATTTTATTTTTGGTGGAGC
1 TTATTATTTATTTTTTATTATTTATTTTATAATATTTTAAATG-ATATTTTATTTTTGGTAGAGC
** *
18339831 TATTCAAAATGCGTCACCAGTTCACTTTTTA
65 TATTCAAAATGCAACACCAATTCACTTTTTA
* * *
18339862 CTATTACTAATTTTTTATTATTTATTTTATAATATTTTAAATGTATATTTTATTTTTG
1 TTATTATTTATTTTTTATTATTTATTTTATAATATTTTAAATG-ATATTTTATTTTTG
18339920 ATGAAGTCAT
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
92 17 0.13
93 16 0.12
94 4 0.03
95 2 0.02
96 83 0.64
97 8 0.06
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.56
Consensus pattern (95 bp):
TTATTATTTATTTTTTATTATTTATTTTATAATATTTTAAATGATATTTTATTTTTGGTAGAGCT
ATTCAAAATGCAACACCAATTCACTTTTTA
Found at i:18340835 original size:33 final size:31
Alignment explanation
Indices: 18340759--18340849 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 31
18340749 ATAATATTTT
* *
18340759 ATATTTAAGTAATTTAATACAATGATAAATG
1 ATATTTAAATAATTTAATATAATGATAAATG
*
18340790 ATATTTACATAATTTAATATAATGA-AAATTG
1 ATATTTAAATAATTTAATATAATGATAAA-TG
18340821 AATTATTTAAATAATTTAATATAATGATA
1 -A-TATTTAAATAATTTAATATAATGATA
18340850 CATAAAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 3 0.06
31 24 0.46
32 1 0.02
33 23 0.44
34 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (31 bp):
ATATTTAAATAATTTAATATAATGATAAATG
Found at i:18341523 original size:53 final size:53
Alignment explanation
Indices: 18341399--18341508 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 53
18341389 TTGTTGAACT
* *
18341399 AAAA-AGAAAAGGACCATTATCATTTATGAAAACTAATTGAGAAATAAATAGA
1 AAAATAGAAAAGAACCATTGTCATTTATGAAAACTAATTGAGAAATAAATAGA
* *
18341451 AAAATAGAAAAGAACCATTGTCATTTATGAAAATTAATTGAGAAATAAAT-GT
1 AAAATAGAAAAGAACCATTGTCATTTATGAAAACTAATTGAGAAATAAATAGA
18341503 AAAATA
1 AAAATA
18341509 TAACAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 11 0.21
53 42 0.79
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.25
Consensus pattern (53 bp):
AAAATAGAAAAGAACCATTGTCATTTATGAAAACTAATTGAGAAATAAATAGA
Found at i:18346293 original size:29 final size:30
Alignment explanation
Indices: 18346213--18346376 Score: 150
Period size: 28 Copynumber: 5.7 Consensus size: 30
18346203 TGGAAATTCG
*
18346213 AGGGC-AAAATGGTAA-TTTTG-GATGTTCA
1 AGGGCAAAAAT-GTAATTTTTGAGAAGTTCA
*
18346241 AGGG-TAAAATGGTAA-TTTTG-GAAGTTCA
1 AGGGCAAAAAT-GTAATTTTTGAGAAGTTCA
**
18346269 AGGGCAAAAATGT-ATTTTTGAGAAGTTTG
1 AGGGCAAAAATGTAATTTTTGAGAAGTTCA
* *
18346298 GGGGCAAAAATGTAATTTTTGAGAAGTT-T
1 AGGGCAAAAATGTAATTTTTGAGAAGTTCA
* **
18346327 AGGG-AAAAATGTAATTTTTAAGAAGTTTG
1 AGGGCAAAAATGTAATTTTTGAGAAGTTCA
18346356 AGGGTC-AAAATGTAATTTTTG
1 AGGG-CAAAAATGTAATTTTTG
18346377 GAAAGTTTGA
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.01
28 59 0.50
29 30 0.25
30 28 0.24
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
AGGGCAAAAATGTAATTTTTGAGAAGTTCA
Found at i:18346318 original size:30 final size:31
Alignment explanation
Indices: 18346246--18346395 Score: 167
Period size: 30 Copynumber: 5.1 Consensus size: 31
18346236 GTTCAAGGGT
* *
18346246 AAAATGGTAA-TTTTG-GAAG-TTCAAGGGCA
1 AAAAT-GTAATTTTTGAGAAGTTTGAGGGGCA
18346275 AAAATGT-ATTTTTGAGAAGTTTG-GGGGCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGGCA
18346304 AAAATGTAATTTTTGAGAAGTTT-A-GGG-A
1 AAAATGTAATTTTTGAGAAGTTTGAGGGGCA
* *
18346332 AAAATGTAATTTTTAAGAAGTTTGAGGGTC-
1 AAAATGTAATTTTTGAGAAGTTTGAGGGGCA
*
18346362 AAAATGTAATTTTTG-GAAAGTTTGAGGGTCA
1 AAAATGTAATTTTTGAG-AAGTTTGAGGGGCA
18346393 AAA
1 AAA
18346396 CGTGATTTCT
Statistics
Matches: 106, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.01
28 30 0.28
29 26 0.25
30 46 0.43
31 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (31 bp):
AAAATGTAATTTTTGAGAAGTTTGAGGGGCA
Found at i:18346345 original size:58 final size:57
Alignment explanation
Indices: 18346246--18346395 Score: 180
Period size: 58 Copynumber: 2.5 Consensus size: 57
18346236 GTTCAAGGGT
* *
18346246 AAAATGGTAA-TTTTGGAAGTTCAAGGGCAAAAATGTATTTTTGAGAAGTTTG-GGGGC
1 AAAAT-GTAATTTTTGGAAGTT-TAGGGCAAAAATGTATTTTTAAGAAGTTTGAGGGGC
*
18346303 AAAAATGTAATTTTTGAGAAGTTTAGGG-AAAAATGTAATTTTTAAGAAGTTTGAGGGTC
1 -AAAATGTAATTTTTG-GAAGTTTAGGGCAAAAATGT-ATTTTTAAGAAGTTTGAGGGGC
18346362 AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAA
1 AAAATGTAATTTTTGG-AAGTTT-AGGG-CAAAA
18346396 CGTGATTTCT
Statistics
Matches: 81, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
57 13 0.16
58 50 0.62
59 14 0.17
61 4 0.05
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (57 bp):
AAAATGTAATTTTTGGAAGTTTAGGGCAAAAATGTATTTTTAAGAAGTTTGAGGGGC
Found at i:18348198 original size:17 final size:17
Alignment explanation
Indices: 18348173--18348235 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
18348163 AAATTTAAAA
*
18348173 TTAAGTTTAGAAA-AATT
1 TTAAATTTA-AAATAATT
18348190 TTAAATTTAAAATAATT
1 TTAAATTTAAAATAATT
* *
18348207 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAATT
* *
18348224 TAAAAATTAAAA
1 TTAAATTTAAAA
18348236 ATTGGGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 3 0.08
17 37 0.93
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAAATTTAAAATAATT
Found at i:18350751 original size:18 final size:19
Alignment explanation
Indices: 18350719--18350757 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18350709 TTAATAGTAG
*
18350719 GAAAACAAAAAGAAAGAAA
1 GAAAACAAAAAGAAAAAAA
*
18350738 GAAAA-AAAACGAAAAAAA
1 GAAAACAAAAAGAAAAAAA
18350756 GA
1 GA
18350758 GTGGGTTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
GAAAACAAAAAGAAAAAAA
Found at i:18356248 original size:5 final size:5
Alignment explanation
Indices: 18356238--18356266 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18356228 TCCTTTAACT
18356238 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
1 ATGTC ATGTC ATGTC ATGTC ATGTC ATGT
18356267 TGACTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGTC
Found at i:18361959 original size:3 final size:3
Alignment explanation
Indices: 18361951--18361990 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18361941 GATAGGATAT
18361951 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
18361991 TGTACAAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18367435 original size:2 final size:2
Alignment explanation
Indices: 18367430--18367470 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18367420 ACACAATCTT
18367430 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18367471 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:18367475 original size:2 final size:2
Alignment explanation
Indices: 18367470--18367514 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
18367460 TCTCTCTCTC
18367470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18367512 TA T
1 TA T
18367515 TACAATAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18367557 original size:38 final size:40
Alignment explanation
Indices: 18367501--18367579 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 40
18367491 ATATATATAT
* *
18367501 ATATATATATATATTACAATAGCTAGACTTAAAA-TAAAAA
1 ATATATATATATAGTACAA-AGCTAAACTTAAAATTAAAAA
**
18367541 ATATATA-AT-TAGTACAAATTTAAACTTAAAATTAAAAA
1 ATATATATATATAGTACAAAGCTAAACTTAAAATTAAAAA
18367579 A
1 A
18367580 AGTAAAATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 11 0.32
38 14 0.41
39 2 0.06
40 7 0.21
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (40 bp):
ATATATATATATAGTACAAAGCTAAACTTAAAATTAAAAA
Found at i:18368049 original size:29 final size:27
Alignment explanation
Indices: 18367979--18368102 Score: 92
Period size: 28 Copynumber: 4.4 Consensus size: 27
18367969 AGAAAAAGTC
**
18367979 AAAAAATATAAAAAAATATTAAA-TATT
1 AAAAAATATAAAAACCTATTAAATTA-T
** *
18368006 AAAAAGGATATAAACCTATTAAGATTAT
1 AAAAAATATAAAAACCTATTAA-ATTAT
*
18368034 AAAAAATCATAAAAACTTA-T-AATTATT
1 AAAAAAT-ATAAAAACCTATTAAATTA-T
* *
18368061 ATAAAAATATAAAAAATCTAATAAATTAT
1 A-AAAAATAT-AAAAACCTATTAAATTAT
18368090 AAAAAAATATAAA
1 -AAAAAATATAAA
18368103 TTTAATAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 17
0.73 0.10 0.16
Matches are distributed among these distances:
26 4 0.05
27 22 0.29
28 24 0.31
29 21 0.27
30 6 0.08
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAAATATAAAAACCTATTAAATTAT
Found at i:18368092 original size:19 final size:18
Alignment explanation
Indices: 18368029--18368095 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
18368019 ACCTATTAAG
18368029 ATTATAAAAAATCATAAAA
1 ATTATAAAAAATC-TAAAA
** * *
18368048 ACTTATAATTATTATAAAA
1 A-TTATAAAAAATCTAAAA
18368067 A-TATAAAAAATCTAATAA
1 ATTATAAAAAATCTAA-AA
18368085 ATTATAAAAAA
1 ATTATAAAAAA
18368096 ATATAAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 10 0.27
18 3 0.08
19 16 0.43
20 8 0.22
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTATAAAAAATCTAAAA
Found at i:18368781 original size:19 final size:21
Alignment explanation
Indices: 18368746--18368793 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
18368736 TTTAATACTT
18368746 TTAAAATTGATATTAAAA-TA
1 TTAAAATTGATATTAAAATTA
*
18368766 TTAAATTTGATA-TAAAATTA
1 TTAAAATTGATATTAAAATTA
18368786 TTAAAATT
1 TTAAAATT
18368794 ATAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TTAAAATTGATATTAAAATTA
Found at i:18368801 original size:19 final size:19
Alignment explanation
Indices: 18368746--18368837 Score: 55
Period size: 20 Copynumber: 4.7 Consensus size: 19
18368736 TTTAATACTT
*
18368746 TTAAAATTGATATTAAAA-TA
1 TTAAAATT-ATA-AAAAATTA
* *
18368766 TTAAATTTGATATAAAATTA
1 TTAAAATT-ATAAAAAATTA
*
18368786 TTAAAATTATAAAAAAATTG
1 TTAAAATTAT-AAAAAATTA
* *
18368806 TAAAAACTTAT-AAATATTA
1 TTAAAA-TTATAAAAAATTA
*
18368825 -TAAAAATATAAAA
1 TTAAAATTATAAAA
18368838 TTCTAATAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
17 3 0.05
18 7 0.12
19 13 0.22
20 32 0.54
21 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TTAAAATTATAAAAAATTA
Found at i:18369599 original size:20 final size:20
Alignment explanation
Indices: 18369576--18369613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18369566 TTTTATGTTT
* *
18369576 TTTTATAGAATTTTAAATGA
1 TTTTATAAAATTTAAAATGA
18369596 TTTTATAAAATTTAAAAT
1 TTTTATAAAATTTAAAAT
18369614 ACTTTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTATAAAATTTAAAATGA
Found at i:18369619 original size:19 final size:20
Alignment explanation
Indices: 18369577--18369619 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
18369567 TTTATGTTTT
* * *
18369577 TTTATAGAATTTTAAATGAT
1 TTTATAAAATTTAAAATGAC
18369597 TTTATAAAATTTAAAAT-AC
1 TTTATAAAATTTAAAATGAC
18369616 TTTA
1 TTTA
18369620 AATATGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTATAAAATTTAAAATGAC
Found at i:18369685 original size:19 final size:19
Alignment explanation
Indices: 18369628--18369686 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
18369618 TAAATATGTC
18369628 TTATTAATTTTTTTTAATA
1 TTATTAATTTTTTTTAATA
* * *
18369647 TTTTTACAATTTGTTATAAT-
1 TTATT--AATTTTTTTTAATA
18369667 TTATTAGATTTTTTTTAATA
1 TTATTA-ATTTTTTTTAATA
18369687 ATTTTTACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 4 0.13
21 11 0.37
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTAATTTTTTTTAATA
Found at i:18369692 original size:41 final size:39
Alignment explanation
Indices: 18369628--18369707 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 39
18369618 TAAATATGTC
18369628 TTATTAATTTTTTTTAATATTTTTACAATTTGTTATAAT
1 TTATTAATTTTTTTTAATATTTTTACAATTTGTTATAAT
18369667 TTATTAGATTTTTTTTAATAATTTTTACAATTTGTTATAAT
1 TTATTA-ATTTTTTTTAAT-ATTTTTACAATTTGTTATAAT
18369708 CATCTGAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 6 0.15
40 12 0.31
41 21 0.54
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (39 bp):
TTATTAATTTTTTTTAATATTTTTACAATTTGTTATAAT
Found at i:18379549 original size:30 final size:30
Alignment explanation
Indices: 18379481--18379549 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
18379471 TTAATTTAGT
* *
18379481 AATAAT-AAAATTATATTTTGACCCTTCAA
1 AATAATAAAAATTATAATTTAACCCTTCAA
* *
18379510 AAAAGATAAAAATT-TAATTTAACCCTTTGAA
1 AATA-ATAAAAATTATAATTTAACCC-TTCAA
18379541 AATAATAAA
1 AATAATAAA
18379550 GATGACTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.09
30 16 0.50
31 13 0.41
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (30 bp):
AATAATAAAAATTATAATTTAACCCTTCAA
Found at i:18382361 original size:20 final size:20
Alignment explanation
Indices: 18382330--18382391 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
18382320 TTTTGAAGTG
18382330 TTAAAATAATTTTAACTTGA
1 TTAAAATAATTTTAACTTGA
* * *
18382350 TTGAAATTATTTTAACTTGT
1 TTAAAATAATTTTAACTTGA
* *
18382370 TTAAAATCATTTTAACATGA
1 TTAAAATAATTTTAACTTGA
18382390 TT
1 TT
18382392 TTAAAATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (20 bp):
TTAAAATAATTTTAACTTGA
Found at i:18382954 original size:18 final size:19
Alignment explanation
Indices: 18382905--18382955 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
18382895 TCTAGAATTT
18382905 AATATTTTATATATTTTAAG
1 AATATTTTAT-TATTTTAAG
** *
18382925 AATATTAAATTATTTTTA-
1 AATATTTTATTATTTTAAG
18382943 AATATTTTATTAT
1 AATATTTTATTAT
18382956 AATGGATCGC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATATTTTATTATTTTAAG
Found at i:18387702 original size:18 final size:18
Alignment explanation
Indices: 18387679--18387713 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18387669 TTGATTATAT
18387679 TTAAAACTATTTTAATAA
1 TTAAAACTATTTTAATAA
*
18387697 TTAAAAGTATTTTAATA
1 TTAAAACTATTTTAATA
18387714 GAGTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAAAACTATTTTAATAA
Found at i:18387707 original size:28 final size:28
Alignment explanation
Indices: 18387655--18387708 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
18387645 AAAATACATT
**
18387655 AACTATTTTAATAATTGATTATATTTAA
1 AACTATTTTAATAATTGAAAATATTTAA
18387683 AACTATTTTAATAATT-AAAAGTATTT
1 AACTATTTTAATAATTGAAAA-TATTT
18387709 TAATAGAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (28 bp):
AACTATTTTAATAATTGAAAATATTTAA
Found at i:18387997 original size:29 final size:29
Alignment explanation
Indices: 18387938--18387997 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
18387928 TTTAGTTTTA
* * *
18387938 TGTGCAATTCTATACATGTACTTTGATTT
1 TGTGCAATTCTATACATGAAATTTGAATT
* *
18387967 TGTGCAATTTTATACATGAAATTTTAATT
1 TGTGCAATTCTATACATGAAATTTGAATT
18387996 TG
1 TG
18387998 ATCAAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.48
Consensus pattern (29 bp):
TGTGCAATTCTATACATGAAATTTGAATT
Found at i:18388846 original size:21 final size:21
Alignment explanation
Indices: 18388823--18388862 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18388813 TAAAAATACA
*
18388823 AAAATATA-AGATATTAAATT
1 AAAATATATAGAAATTAAATT
18388843 AAAATATATAGAAATTAAAT
1 AAAATATATAGAAATTAAAT
18388863 CCGCAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAATATATAGAAATTAAATT
Found at i:18389859 original size:21 final size:21
Alignment explanation
Indices: 18389835--18389917 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 21
18389825 AAATTATTAA
18389835 AATTTATTTTTTCAAAAATAT
1 AATTTATTTTTTCAAAAATAT
*
18389856 AATTTATTTTTTAATTAATAAAAAATAT
1 AATTTA---TTT--TT--TCAAAAATAT
18389884 AATTTATTTTTTCAAAAAATAT
1 AATTTATTTTTTC-AAAAATAT
18389906 AATTTATTTTTT
1 AATTTATTTTTT
18389918 AATTAATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
21 7 0.13
22 20 0.38
23 2 0.04
24 3 0.06
25 3 0.06
26 2 0.04
28 15 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTTATTTTTTCAAAAATAT
Found at i:18389879 original size:28 final size:28
Alignment explanation
Indices: 18389848--18389962 Score: 179
Period size: 28 Copynumber: 4.3 Consensus size: 28
18389838 TTATTTTTTC
18389848 AAAAATATAATTTATTTTTTAATTAATA
1 AAAAATATAATTTATTTTTTAATTAATA
*
18389876 AAAAATATAATTTA--TTTT--TT--CA
1 AAAAATATAATTTATTTTTTAATTAATA
18389898 AAAAATATAATTTATTTTTTAATTAATA
1 AAAAATATAATTTATTTTTTAATTAATA
18389926 AAAAATATAATTTATTTTTTAATTAATA
1 AAAAATATAATTTATTTTTTAATTAATA
18389954 AAAAATATA
1 AAAAATATA
18389963 GATAGATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
22 15 0.19
24 6 0.08
26 6 0.08
28 52 0.66
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
AAAAATATAATTTATTTTTTAATTAATA
Found at i:18389902 original size:50 final size:49
Alignment explanation
Indices: 18389835--18389945 Score: 213
Period size: 50 Copynumber: 2.2 Consensus size: 49
18389825 AAATTATTAA
18389835 AATTTATTTTTTCAAAAATATAATTTATTTTTTAATTAATAAAAAATAT
1 AATTTATTTTTTCAAAAATATAATTTATTTTTTAATTAATAAAAAATAT
18389884 AATTTATTTTTTCAAAAAATATAATTTATTTTTTAATTAATAAAAAATAT
1 AATTTATTTTTTC-AAAAATATAATTTATTTTTTAATTAATAAAAAATAT
18389934 AATTTATTTTTT
1 AATTTATTTTTT
18389946 AATTAATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 13 0.21
50 48 0.79
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (49 bp):
AATTTATTTTTTCAAAAATATAATTTATTTTTTAATTAATAAAAAATAT
Found at i:18389925 original size:21 final size:22
Alignment explanation
Indices: 18389875--18389917 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18389865 TTTAATTAAT
18389875 AAAAAATATAATTTATTTTTTC
1 AAAAAATATAATTTATTTTTTC
18389897 AAAAAATATAATTTATTTTTT
1 AAAAAATATAATTTATTTTTT
18389918 AATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAAAATATAATTTATTTTTTC
Found at i:18390830 original size:3 final size:3
Alignment explanation
Indices: 18390816--18390863 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
18390806 TCGTTAACAC
*
18390816 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18390864 TTAATAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18391404 original size:16 final size:16
Alignment explanation
Indices: 18391367--18391398 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18391357 TAATTATAAT
18391367 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
*
18391383 TCTATTTCATTACAAC
1 TCTATTCCATTACAAC
18391399 CGTATTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:18417067 original size:38 final size:38
Alignment explanation
Indices: 18417025--18417108 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
18417015 ATATTTCTAT
18417025 TAGAATACGACACGTGGTCAGTTGTTGGATAGTCCACA
1 TAGAATACGACACGTGGTCAGTTGTTGGATAGTCCACA
18417063 TAGAATACGACACGTGGTCAGTTGTTGGATAGTCCACA
1 TAGAATACGACACGTGGTCAGTTGTTGGATAGTCCACA
18417101 TAGCAATA
1 TAG-AATA
18417109 ACCCTCCACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 41 0.91
39 4 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (38 bp):
TAGAATACGACACGTGGTCAGTTGTTGGATAGTCCACA
Found at i:18418675 original size:19 final size:19
Alignment explanation
Indices: 18418651--18418690 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
18418641 TTGAGTCAAA
18418651 TTGTTGAAGATAGTGTTGG
1 TTGTTGAAGATAGTGTTGG
18418670 TTGTTGAAGATAGTGTTGG
1 TTGTTGAAGATAGTGTTGG
18418689 TT
1 TT
18418691 CCAGATAGTG
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:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (19 bp):
TTGTTGAAGATAGTGTTGG
Found at i:18421962 original size:18 final size:17
Alignment explanation
Indices: 18421941--18421993 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
18421931 CAAATTTTTT
18421941 ATATATTACTTATTTAAA
1 ATATATT-CTTATTTAAA
* *
18421959 ATATTATTTTTATTAAAA
1 ATA-TATTCTTATTTAAA
18421977 ATA-ATTCATTATTTAAA
1 ATATATTC-TTATTTAAA
18421994 TAAAAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 14 0.48
19 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATTCTTATTTAAA
Found at i:18422373 original size:16 final size:18
Alignment explanation
Indices: 18422342--18422374 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18422332 TTAAATAGCT
18422342 TAACTTCTTATTTTTCTC
1 TAACTTCTTATTTTTCTC
18422360 TAACTT-TT-TTTTTCT
1 TAACTTCTTATTTTTCT
18422375 GTTTTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (18 bp):
TAACTTCTTATTTTTCTC
Found at i:18422929 original size:6 final size:6
Alignment explanation
Indices: 18422918--18422946 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18422908 CAAAAGAGAA
18422918 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
18422947 AGAGAGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:18423627 original size:16 final size:16
Alignment explanation
Indices: 18423606--18423656 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
18423596 AGTGAAAAGG
18423606 AAATTAGAAAGATGAA
1 AAATTAGAAAGATGAA
*
18423622 AAATTA-AAATGATAAA
1 AAATTAGAAA-GATGAA
* *
18423638 AAATT-GGAAGATGGA
1 AAATTAGAAAGATGAA
18423653 AAAT
1 AAAT
18423657 ATAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.22
Consensus pattern (16 bp):
AAATTAGAAAGATGAA
Found at i:18423938 original size:9 final size:9
Alignment explanation
Indices: 18423924--18423953 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18423914 CACACTAATT
18423924 TTTTTTTCA
1 TTTTTTTCA
18423933 -TTTTTTCA
1 TTTTTTTCA
18423941 TTTTTTTCA
1 TTTTTTTCA
18423950 TTTT
1 TTTT
18423954 ATCCTTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:18434343 original size:20 final size:18
Alignment explanation
Indices: 18434318--18434382 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 18
18434308 TTCTTTAGAA
18434318 TTTTGTATCTCCTCATAACT
1 TTTTGTATCT-CTCATAA-T
18434338 TTTTGTAT-TC-CATAAT
1 TTTTGTATCTCTCATAAT
*
18434354 TATTTGTAATCTTTCATAATT
1 T-TTTGT-ATCTCTCATAA-T
18434375 TTTTGTAT
1 TTTTGTAT
18434383 GCGTTGGTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 3 0.08
19 4 0.10
20 18 0.46
21 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTGTATCTCTCATAAT
Found at i:18434600 original size:19 final size:17
Alignment explanation
Indices: 18434560--18434603 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18434550 TTCTTTATAA
*
18434560 AATTTTTTATACCTTCT
1 AATTTTTTATACCCTCT
*
18434577 CATTTTTTATATCCCTCAT
1 AATTTTTTATA-CCCTC-T
18434596 AATTTTTT
1 AATTTTTT
18434604 GGTATACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTTATACCCTCT
Found at i:18436775 original size:18 final size:19
Alignment explanation
Indices: 18436729--18436778 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
18436719 CATAATTTAT
18436729 AATTATAATG-ATAAAATAA
1 AATTA-AATGAATAAAATAA
* *
18436748 AAATACATGAATAAAAT-A
1 AATTAAATGAATAAAATAA
18436766 AATTAAATGAATA
1 AATTAAATGAATA
18436779 CAATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
AATTAAATGAATAAAATAA
Found at i:18437001 original size:24 final size:21
Alignment explanation
Indices: 18436974--18437022 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 21
18436964 AATTTAAAAG
18436974 TAAAAAATATGACATATAAATAAA
1 TAAAAAATAT--CA-ATAAATAAA
*
18436998 T-AAAAATATCAATGAATAAA
1 TAAAAAATATCAATAAATAAA
18437018 TAAAA
1 TAAAA
18437023 TTAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
23 8 0.35
24 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (21 bp):
TAAAAAATATCAATAAATAAA
Found at i:18437085 original size:15 final size:14
Alignment explanation
Indices: 18437054--18437155 Score: 64
Period size: 15 Copynumber: 7.1 Consensus size: 14
18437044 AATAGCATAA
18437054 AAATAACAAAAAAT
1 AAATAACAAAAAAT
*
18437068 AAATAATAAAACAAT
1 AAATAACAAAA-AAT
**
18437083 AAATAA-ATTAAAT
1 AAATAACAAAAAAT
* **
18437096 AAA-ATCGAAAATGT
1 AAATAAC-AAAAAAT
*
18437110 AAATATCAAAAAAT
1 AAATAACAAAAAAT
* *
18437124 GAATAACCAATAAAT
1 AAATAA-CAAAAAAT
*
18437139 AAATAATAAATAAAT
1 AAATAACAAA-AAAT
18437154 AA
1 AA
18437156 CAATAAATAT
Statistics
Matches: 66, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
12 1 0.02
13 6 0.09
14 29 0.44
15 30 0.45
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATAACAAAAAAT
Found at i:18437107 original size:67 final size:66
Alignment explanation
Indices: 18437012--18437164 Score: 148
Period size: 67 Copynumber: 2.3 Consensus size: 66
18437002 AATATCAATG
* *
18437012 AATAAATAAAATTAAATGAAGATAAAAATATTAATAGCATAAAAAT-AACAAAAAATAAAT-AAT
1 AATAAAT-AAATTAAAT-AAAATAAAAATATAAATAGCA-AAAAATGAACAAAAAATAAATAAAT
18437075 AAAA
63 AAAA
* * * * **
18437079 CAATAAATAAATTAAATAAAATCGAAAATGTAAATATCAAAAAATGAATAACCAATAAATAAATA
1 -AATAAATAAATTAAATAAAAT-AAAAATATAAATAGCAAAAAATGAACAAAAAATAAATAAATA
*
18437144 ATA
64 AAA
*
18437147 AATAAATAACAATAAATA
1 AATAAATAA-ATTAAATA
18437165 TATGAAATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
66 10 0.14
67 41 0.58
68 20 0.28
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (66 bp):
AATAAATAAATTAAATAAAATAAAAATATAAATAGCAAAAAATGAACAAAAAATAAATAAATAAA
A
Found at i:18437146 original size:11 final size:11
Alignment explanation
Indices: 18437132--18437183 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
18437122 ATGAATAACC
18437132 AATAAATAAAT
1 AATAAATAAAT
18437143 AATAAATAAAT
1 AATAAATAAAT
*
18437154 AA-CAATAAAT
1 AATAAATAAAT
18437164 ATATGAAATACAAT
1 A-AT-AAATA-AAT
*
18437178 CATAAA
1 AATAAA
18437184 AATATCTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 8 0.24
11 14 0.41
12 3 0.09
13 6 0.18
14 3 0.09
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:18437320 original size:15 final size:15
Alignment explanation
Indices: 18437302--18437392 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 15
18437292 ATAGTCAAAT
18437302 TAAATAAAATAATAA
1 TAAATAAAATAATAA
*
18437317 TAAA-ATAAATAACAA
1 TAAATA-AAATAATAA
* *
18437332 TAAAATGACATGAA-AA
1 T-AAATAAAAT-AATAA
18437348 TAAATAACAACTAGATAAA
1 TAAATAA-AA-TA-AT-AA
18437367 TAAATAAAAATAAATAA
1 TAAAT-AAAAT-AATAA
18437384 T-AATAAAAT
1 TAAATAAAAT
18437393 GCTAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 1 0.02
15 23 0.38
16 14 0.23
17 7 0.12
18 3 0.05
19 10 0.17
20 2 0.03
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAATAAAATAATAA
Found at i:18437333 original size:26 final size:26
Alignment explanation
Indices: 18437248--18437392 Score: 84
Period size: 29 Copynumber: 5.3 Consensus size: 26
18437238 AGAAAAAAAT
*
18437248 ATAAAATTAATGAT-AAATAAATAAACA
1 ATAAAA-TAATAATAAAATAAAT-AACA
*
18437275 A-ACAAGATAATAATAATATAGTCAAATTA-A
1 ATA-AA-ATAATAATAA-A-A-T-AAATAACA
18437305 ATAAAATAATAATAAAATAAATAACA
1 ATAAAATAATAATAAAATAAATAACA
* *
18437331 ATAAAATGA-CATGAAAATAAATAACA
1 ATAAAATAATAAT-AAAATAAATAACA
* *
18437357 ACT-AGATAAATAAATAAAAATAAATAATA
1 A-TAAAAT-AAT-AAT-AAAATAAATAACA
18437386 ATAAAAT
1 ATAAAAT
18437393 GCTAAAATAA
Statistics
Matches: 92, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
25 7 0.08
26 28 0.30
27 12 0.13
28 4 0.04
29 29 0.32
30 5 0.05
31 3 0.03
32 4 0.04
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAAAATAATAATAAAATAAATAACA
Found at i:18437478 original size:16 final size:16
Alignment explanation
Indices: 18437443--18437485 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
18437433 ATTAGGTATG
*
18437443 AAAATAAAT-GACAAA
1 AAAATAAATAAACAAA
*
18437458 TAAATAAATAAACAAA
1 AAAATAAATAAACAAA
*
18437474 AAAATCAATAAA
1 AAAATAAATAAA
18437486 TTAAATGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAACAAA
Found at i:18437516 original size:3 final size:3
Alignment explanation
Indices: 18437508--18437536 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18437498 ATAAAAAATA
18437508 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18437537 GACGAACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18438577 original size:3 final size:3
Alignment explanation
Indices: 18438558--18438602 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
18438548 AAATACTTAC
*
18438558 AAT AAT AA- GAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18438603 GATCAATCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 3 0.08
3 35 0.92
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18438957 original size:25 final size:25
Alignment explanation
Indices: 18438910--18438970 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
18438900 AAAGGATTGA
*
18438910 ATTAAAATTAAAAACAAATTAAAGG
1 ATTAAAATTAAAAACAAAATAAAGG
18438935 -TTAAAATTAAAAA-ATAGAATAAAGG
1 ATTAAAATTAAAAACA-A-AATAAAGG
18438960 ATT-AAATTAAA
1 ATTAAAATTAAA
18438971 GCAATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.03
24 14 0.44
25 15 0.47
26 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (25 bp):
ATTAAAATTAAAAACAAAATAAAGG
Found at i:18440425 original size:29 final size:29
Alignment explanation
Indices: 18440389--18440471 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
18440379 AATGACATAT
*
18440389 TATGAATACAATTTCAAATACAGATATAA
1 TATGAATACAATTACAAATACAGATATAA
* * *
18440418 TATGAATACAGTTACAGATGCAGATATAA
1 TATGAATACAATTACAAATACAGATATAA
** * * *
18440447 TACAAATACAGTTACAGATGCAGAT
1 TATGAATACAATTACAAATACAGAT
18440472 TCCTACCCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (29 bp):
TATGAATACAATTACAAATACAGATATAA
Found at i:18440464 original size:23 final size:24
Alignment explanation
Indices: 18440403--18440465 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
18440393 AATACAATTT
*
18440403 CAAATACAGATATA-ATATGAATA
1 CAAATACAGATACAGATATGAATA
** *
18440426 CAGTTACAGATGCAGATAT-AATA
1 CAAATACAGATACAGATATGAATA
*
18440449 CAAATACAGTTACAGAT
1 CAAATACAGATACAGAT
18440466 GCAGATTCCT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (24 bp):
CAAATACAGATACAGATATGAATA
Found at i:18449630 original size:3 final size:3
Alignment explanation
Indices: 18449622--18449656 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18449612 ATCTACTTTC
18449622 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18449657 GCCAATAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18452766 original size:16 final size:16
Alignment explanation
Indices: 18452740--18452793 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
18452730 TCAAATTATT
18452740 TTTACTTTTAAATTAAA
1 TTTA-TTTTAAATTAAA
*
18452757 TTTATTTTAATTTTAAA
1 TTTATTTTAA-ATTAAA
18452774 TTT-TTTTAAATTTAAA
1 TTTATTTTAAA-TTAAA
18452790 TTTA
1 TTTA
18452794 ATAATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTTAAATTAAA
Found at i:18454854 original size:29 final size:30
Alignment explanation
Indices: 18454768--18455125 Score: 333
Period size: 30 Copynumber: 12.1 Consensus size: 30
18454758 CCTTGAAGGT
* *
18454768 CCCT-AAACTGTCTAGAAATTATA-TTTTAA
1 CCCTAAAACT-TCTAAAAATTACATTTTTAA
* *
18454797 CCCCAAAACTTCTCTAAAATTACATTTTTAA
1 CCCTAAAACTTCT-AAAAATTACATTTTTAA
*
18454828 CCCTAAAACTTCTAAAAATTATA-TTTTAA
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* *
18454857 -CCTCGAAACTTCTTTAAAATTACA-TTTTAA
1 CCCT-AAAACTTC-TAAAAATTACATTTTTAA
*
18454887 CCCTAAAACTTCTAAAAATTACATTTTTGA
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* *
18454917 CCCTAAAACTTCCAAAAATTACATTTTTAC
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* *
18454947 CCCT-AAATTTCCAAAAATTACATTTTTAA
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* * *
18454976 CCCCAAAACTTCCAAAAATTACATTTTT-G
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* * * *
18455005 CCCTCAAACTTTTAAAAATTACAATTTTGA
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
*** * *
18455035 TTTTGAAACTTCCT-AAAATTACATTTTTAC
1 CCCTAAAACTT-CTAAAAATTACATTTTTAA
*
18455065 CCCT-AAACTTTTAAAAATTACATTTTTAA
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
* ** *
18455094 CCTTAAAAC-TCTCGAAATTACAATTTT-A
1 CCCTAAAACTTCTAAAAATTACATTTTTAA
18455122 CCCT
1 CCCT
18455126 CAGATGTCCA
Statistics
Matches: 271, Mismatches: 46, Indels: 25
0.79 0.13 0.07
Matches are distributed among these distances:
28 8 0.03
29 116 0.43
30 125 0.46
31 22 0.08
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCTAAAACTTCTAAAAATTACATTTTTAA
Found at i:18454935 original size:59 final size:59
Alignment explanation
Indices: 18454768--18455103 Score: 358
Period size: 59 Copynumber: 5.7 Consensus size: 59
18454758 CCTTGAAGGT
* * *
18454768 CCCTAAACTGTCTAGAAATTATA-TTTTAACCCCAAAACTTCTCTAAAATTACATTTTTAA
1 CCCTAAACT-TCTAAAAATTACATTTTTAACCCTAAAACTTC-CTAAAATTACATTTTTAA
* * *
18454828 CCCTAAAACTTCTAAAAATTATA-TTTTAA-CCTCGAAACTTCTTTAAAATTACA-TTTTAA
1 CCCT-AAACTTCTAAAAATTACATTTTTAACCCT-AAAACTTC-CTAAAATTACATTTTTAA
* * *
18454887 CCCTAAAACTTCTAAAAATTACATTTTTGACCCTAAAACTTCCAAAAATTACATTTTTAC
1 CCCT-AAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCTAAAATTACATTTTTAA
* * * * *
18454947 CCCTAAATTTCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAAATTACATTTTT-G
1 CCCTAAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCTAAAATTACATTTTTAA
* * * *** * *
18455005 CCCTCAAACTTTTAAAAATTACAATTTTGATTTTGAAACTTCCTAAAATTACATTTTTAC
1 CCCT-AAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCTAAAATTACATTTTTAA
* *
18455065 CCCTAAACTTTTAAAAATTACATTTTTAACCTTAAAACT
1 CCCTAAACTTCTAAAAATTACATTTTTAACCCTAAAACT
18455104 CTCGAAATTA
Statistics
Matches: 237, Mismatches: 32, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
58 4 0.02
59 160 0.68
60 65 0.27
61 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (59 bp):
CCCTAAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCTAAAATTACATTTTTAA
Found at i:18455171 original size:118 final size:117
Alignment explanation
Indices: 18454802--18455256 Score: 306
Period size: 118 Copynumber: 3.8 Consensus size: 117
18454792 TTTAACCCCA
* * * **
18454802 AAACTTCTCT-AAAATTACATTTTTAACCCTAAAACTTCTAAAAATTATA-TTTTAACCTCGAAA
1 AAACTTC-CTAAAAATTACATTTTTACCCCT-AAA-TTTTAAAAATTACATTTTTAACCTTAAAA
* * * * * * * * * *
18454865 CTTCTTTAAAATTAC-ATTTTAACCCTAAAACT-TCTAAAAATTACATTTTTGACCCTA
63 C-TC-TCAAAATTACAATTTT-GCCCTCAGA-TGTCCAAAAATCACAATTTTGATCTTG
* **
18454922 AAACTTCC-AAAAATTACATTTTTACCCCTAAATTTCCAAAAATTACATTTTTAACCCCAAAACT
1 AAACTTCCTAAAAATTACATTTTTACCCCTAAATTT-TAAAAATTACATTTTTAACCTTAAAACT
* * ** * *
18454986 -TCCAAAAATTACATTTTTGCCCTCAAACT-TTTAAAAATTACAATTTTGATTTTG
65 CT-C-AAAATTACAATTTTGCCCTCAGA-TGTCCAAAAATCACAATTTTGATCTTG
18455040 AAACTTCCT-AAAATTACATTTTTACCCCTAAACTTTTAAAAATTACATTTTTAACCTTAAAACT
1 AAACTTCCTAAAAATTACATTTTTACCCCTAAA-TTTTAAAAATTACATTTTTAACCTTAAAACT
* * * **
18455104 CTCGAAATTACAATTTTACCCTCAGATGTCCAAAAATCCCGTTTTTGATCTTG
65 CTCAAAATTACAATTTTGCCCTCAGATGTCCAAAAATCACAATTTTGATCTTG
** * * * * *
18455157 -ATTTTTCTAAAAAATTACCGTTTTTA-CCCTCAAGTGTGT-AAAA-TATCTTTTTTAACCTTAA
1 AAACTTCCT-AAAAATTA-CATTTTTACCCCT-AAAT-TTTAAAAATTA-CATTTTTAACCTTAA
* * *
18455218 AATTCCCAAAATTACCATTTTGCCCTCGAGA-GTCCAAAA
61 AACTCTCAAAATTACAATTTTGCCCTC-AGATGTCCAAAA
18455257 TTACCATTTT
Statistics
Matches: 276, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
116 7 0.03
117 41 0.15
118 166 0.60
119 55 0.20
120 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (117 bp):
AAACTTCCTAAAAATTACATTTTTACCCCTAAATTTTAAAAATTACATTTTTAACCTTAAAACTC
TCAAAATTACAATTTTGCCCTCAGATGTCCAAAAATCACAATTTTGATCTTG
Found at i:18466991 original size:20 final size:20
Alignment explanation
Indices: 18466962--18466999 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18466952 ACAACGAGAA
*
18466962 AGATCTAATACCGCAATGGT
1 AGATCCAATACCGCAATGGT
18466982 AGATCCAATACCGCAATG
1 AGATCCAATACCGCAATG
18467000 ATACAAAAAA
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:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AGATCCAATACCGCAATGGT
Found at i:18467475 original size:92 final size:92
Alignment explanation
Indices: 18467213--18467990 Score: 1374
Period size: 92 Copynumber: 8.5 Consensus size: 92
18467203 ATCAGATCAA
* * * *
18467213 GATAACAAGTCTTTATCTCTCTGAAGTTGTAGTAAGTGTAAGATGAAGCTTCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
*
18467278 TATCCTCTTGAAATTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
*
18467305 GTTAGCAAGTCTTTATCTCTCTGAAGTTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTC
1 GATAGCAAGTCTTTATCTCTCTGAAG-TTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTC
18467370 CTATCCTCTTGAAGTTGTAGTAAAGTTG
65 CTATCCTCTTGAAGTTGTAGTAAAGTTG
18467398 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
* *
18467463 TATTCTCTTGAAGTGGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
*
18467490 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATCCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467555 TATCCTCTTGAAGTTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
*
18467582 GATAGCAAGTCTTTATCTCTTTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467647 TATCCTCTTGAAGTTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
18467674 GATAGCAAGTCTTTATCTCTCTGAAG-TGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467738 TATCCTCTTGAAGTTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
*
18467765 GATAGCAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467830 TATCCTCTTGAAGTTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
18467857 GATAGCAAG------TCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467916 TATCCTCTTGAAGTTGTAGTAAAGTTG
66 TATCCTCTTGAAGTTGTAGTAAAGTTG
* *
18467943 GATAGCAAGTCTTCATCTCTCTGAAG-TGTAGTAAGAGTAAGATGAAGC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
18467991 CTCGACATCA
Statistics
Matches: 660, Mismatches: 18, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
86 85 0.13
91 111 0.17
92 377 0.57
93 87 0.13
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (92 bp):
GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
TATCCTCTTGAAGTTGTAGTAAAGTTG
Found at i:18467802 original size:275 final size:274
Alignment explanation
Indices: 18467213--18467990 Score: 1377
Period size: 275 Copynumber: 2.8 Consensus size: 274
18467203 ATCAGATCAA
* * * *
18467213 GATAACAAGTCTTTATCTCTCTGAAGTTGTAGTAAGTGTAAGATGAAGCTTCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
* *
18467278 TATCCTCTTGAAATTGTAGTAAAGTTGGTTAGCAAGTCTTTATCTCTCTGAAGTTTGTAGTAAGA
66 TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCT-TGAAG-TTGTAGTAAGA
18467343 GCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGT
129 GCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGT
*
18467408 CTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATTCTCTTG
194 CTTTATCTCTCTGAAG-TGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTG
18467473 AAGTGGTAGTAAAGTTG
258 AAGTGGTAGTAAAGTTG
*
18467490 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATCCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467555 TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTTGAAGTTGTAGTAAGAG
66 TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTC-TTGAAGTTGTAGTAAGAG
18467620 CAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTC
130 CAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTC
18467685 TTTATCTCTCTGAAGTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAA
195 TTTATCTCTCTGAAGTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAA
*
18467750 GTTGTAGTAAAGTTG
260 GTGGTAGTAAAGTTG
*
18467765 GATAGCAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
1 GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
18467830 TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTC----TCTC-TGAAGTTGTAGTAAGAGC
66 TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTGAAGTTGTAGTAAGAGC
18467890 AAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
131 AAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
* *
18467955 TCATCTCTCTGAAGTGTAGTAAGAGTAAGATGAAGC
196 TTATCTCTCTGAAGTGTAGTAAGAGCAAGATGAAGC
18467991 CTCGACATCA
Statistics
Matches: 487, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
269 117 0.24
271 4 0.01
275 164 0.34
276 92 0.19
277 109 0.22
278 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (274 bp):
GATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCC
TATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTGAAGTTGTAGTAAGAGC
AAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
TTATCTCTCTGAAGTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAG
TGGTAGTAAAGTTG
Found at i:18468293 original size:17 final size:17
Alignment explanation
Indices: 18468252--18468294 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
18468242 TTTTACTTTG
* *
18468252 AAATTAAAT-TTATTTT
1 AAATTTAATATTATTAT
18468268 AAATTTAATATTATTAT
1 AAATTTAATATTATTAT
18468285 AAATTTAATA
1 AAATTTAATA
18468295 AAATGTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTTAATATTATTAT
Found at i:18470322 original size:30 final size:30
Alignment explanation
Indices: 18470274--18470600 Score: 236
Period size: 29 Copynumber: 11.1 Consensus size: 30
18470264 CCCTGAAGGT
18470274 CCCT-AAACTATC-CAAAAATTACATTTTGA
1 CCCTAAAACT-TCTCAAAAATTACATTTTGA
* * * *
18470303 CACAAAAACTTCTCCAAAATTACATTTTTAA
1 CCCTAAAACTTCTCAAAAATTACA-TTTTGA
* * *
18470334 CCCCAAAAATT-TCAAAAATTACATTTTTA
1 CCCTAAAACTTCTCAAAAATTACATTTTGA
*
18470363 -CCTCAAAACTTCTCCAAAATTACATATTTGA
1 CCCT-AAAACTTCTCAAAAATTACAT-TTTGA
** * *
18470394 CTTTGAAACTTCT-AAAAATTACATTTTAA
1 CCCTAAAACTTCTCAAAAATTACATTTTGA
18470423 CCCTAAAACTTC-C-AAAATTACATTTTTGA
1 CCCTAAAACTTCTCAAAAATTACA-TTTTGA
18470452 CCCTAAAACTTC-CAAAAATTACATTTTTG-
1 CCCTAAAACTTCTCAAAAATTACA-TTTTGA
** * *
18470481 CCCTCGAACTT-TCAAAAATTATATTTTTAA
1 CCCTAAAACTTCTCAAAAATTACA-TTTTGA
* * * *
18470511 CTCC-GAAACTT-TCCAATATTACATTTTTA
1 C-CCTAAAACTTCTCAAAAATTACATTTTGA
** * *
18470540 CCCCCAAACTT-TCAAAAACTATATTTTTGA
1 CCCTAAAACTTCTCAAAAATTACA-TTTTGA
18470570 CCCTAAAAC-TCTC-AAAATTACAATTTT-A
1 CCCTAAAACTTCTCAAAAATTAC-ATTTTGA
18470598 CCC
1 CCC
18470601 CCAGATGTCC
Statistics
Matches: 239, Mismatches: 42, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
28 17 0.07
29 101 0.42
30 93 0.39
31 27 0.11
32 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
CCCTAAAACTTCTCAAAAATTACATTTTGA
Found at i:18470539 original size:118 final size:118
Alignment explanation
Indices: 18470278--18470599 Score: 323
Period size: 118 Copynumber: 2.7 Consensus size: 118
18470268 GAAGGTCCCT
* * * * * *
18470278 AAACTATCCAAAAATTACATTTTGACACAAAAACTTCTCCAAAATTACATTTTTAACCCCAAAAA
1 AAACT-TCTAAAAATTACATTTT-ACCCCAAAACTT-TCCAAAATTACATTTTTGACCCTAAAAC
* * * **
18470343 TTTCAAAAATTACATTTTTACCTCAAAACTTCTCCAAAATTACATATTTGACTTTG
63 TTCCAAAAATTACATTTTTACCTCAAAACTTCTCAAAAATTACATATTTAACTCCG
*
18470399 AAACTTCTAAAAATTACATTTTAACCCTAAAAC-TTCCAAAATTACATTTTTGACCCTAAAACTT
1 AAACTTCTAAAAATTACATTTT-ACCCCAAAACTTTCCAAAATTACATTTTTGACCCTAAAACTT
* * * *
18470463 CCAAAAATTACATTTTTGCCCTC-GAACTT-TCAAAAATTATATTTTTAACTCCG
65 CCAAAAATTACATTTTT-ACCTCAAAACTTCTCAAAAATTACATATTTAACTCCG
* * * * * *
18470516 AAACTT-TCCAATATTACATTTTTACCCCCAAACTTTCAAAAACTATATTTTTGACCCTAAAAC-
1 AAACTTCT-AAAAATTACA-TTTTACCCCAAAACTTTCCAAAATTACATTTTTGACCCTAAAACT
*
18470579 TCTC-AAAATTACAATTTTACC
64 TC-CAAAAATTACATTTTTACC
18470600 CCCAGATGTC
Statistics
Matches: 171, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
116 3 0.02
117 55 0.32
118 79 0.46
119 5 0.03
120 24 0.14
121 5 0.03
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (118 bp):
AAACTTCTAAAAATTACATTTTACCCCAAAACTTTCCAAAATTACATTTTTGACCCTAAAACTTC
CAAAAATTACATTTTTACCTCAAAACTTCTCAAAAATTACATATTTAACTCCG
Found at i:18470759 original size:28 final size:28
Alignment explanation
Indices: 18470698--18470759 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18470688 CCTAAATTTC
*
18470698 CCAAAATTACCATTTTGCCCTCGAGAGT
1 CCAAAATTACCATTTTACCCTCGAGAGT
* *
18470726 CTAAAATTACTATTTTACCCTCGAGCA-T
1 CCAAAATTACCATTTTACCCTCGAG-AGT
18470754 CCAAAA
1 CCAAAA
18470760 AACCCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCTCGAGAGT
Found at i:18474026 original size:6 final size:6
Alignment explanation
Indices: 18474001--18474057 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
18473991 GAATTTGTTC
* **
18474001 TAAAAT TAAATT TAAAATT TAAATT T-AATT TAAATT TGGATT T-AATT
1 TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT TAAATT
18474048 TAAATT TAAA
1 TAAATT TAAA
18474058 ATTATTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 9 0.20
6 29 0.66
7 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (6 bp):
TAAATT
Found at i:18474037 original size:17 final size:17
Alignment explanation
Indices: 18474003--18474070 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
18473993 ATTTGTTCTA
*
18474003 AAATTAAATTTAAAATTT
1 AAATTTAATTT-AAATTT
18474021 AAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
**
18474038 GGATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
*
18474055 AAAATT-ATTATAAATT
1 AAATTTAATT-TAAATT
18474071 CAATTGAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
16 3 0.07
17 30 0.70
18 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
AAATTTAATTTAAATTT
Found at i:18475902 original size:29 final size:29
Alignment explanation
Indices: 18475791--18476026 Score: 187
Period size: 29 Copynumber: 7.9 Consensus size: 29
18475781 GAAGTCTATA
* *
18475791 AAACTATTCAAAAATTACATTTTAACCCTT
1 AAACT-TTTAAAAATTACATTTTAACCCCT
* * *
18475821 AAACTTTTTCTAAAATTATATTTTGAA--GCT
1 AAAC-TTTT-AAAAATTACATTTT-AACCCCT
*
18475851 AAAACTTTTTGAAAATTACATTTTAACCCCT
1 -AAAC-TTTTAAAAATTACATTTTAACCCCT
*
18475882 AAACTTTTAAAAATTATATTTTAA-CCCT
1 AAACTTTTAAAAATTACATTTTAACCCCT
* *
18475910 AAAACTTTTAAAAATTACATTTTGACCCCC
1 -AAACTTTTAAAAATTACATTTTAACCCCT
* * * *
18475940 AAACTTTTCCAAAACTATATTTTAA-CCTT
1 AAACTTTT-AAAAATTACATTTTAACCCCT
*
18475969 AAAACTTTCT-AAAATTACATTTTTACCCCT
1 -AAACTTT-TAAAAATTACATTTTAACCCCT
*
18475999 AAACTTTCT-AAAATTCCATTTTTAACCC
1 AAACTTT-TAAAAATTACA-TTTTAACCC
18476027 TGATTTCACC
Statistics
Matches: 168, Mismatches: 25, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
28 4 0.02
29 81 0.48
30 56 0.33
31 25 0.15
32 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (29 bp):
AAACTTTTAAAAATTACATTTTAACCCCT
Found at i:18475959 original size:59 final size:59
Alignment explanation
Indices: 18475789--18476027 Score: 272
Period size: 59 Copynumber: 4.0 Consensus size: 59
18475779 TAGAAGTCTA
* * * *
18475789 TAAAACTATTCAAAAATTACATTTTAACCCTTAAACTTTTTCTAAAATTATATTTTGAA-GC
1 TAAAACT-TTTAAAAATTACATTTTAACCCCTAAAC-TTTTCAAAAATTATATTTT-AACCC
*
18475850 TAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTT-AAAAATTATATTTTAACCC
1 TAAAAC-TTTTAAAAATTACATTTTAACCCCTAAACTTTTCAAAAATTATATTTTAACCC
* * * * *
18475909 TAAAACTTTTAAAAATTACATTTTGACCCCCAAACTTTTCCAAAACTATATTTTAACCT
1 TAAAACTTTTAAAAATTACATTTTAACCCCTAAACTTTTCAAAAATTATATTTTAACCC
* *
18475968 TAAAACTTTCT-AAAATTACATTTTTACCCCTAAAC-TTTCTAAAATTCCAT-TTTTAACCC
1 TAAAACTTT-TAAAAATTACATTTTAACCCCTAAACTTTTCAAAAATT--ATATTTTAACCC
18476027 T
1 T
18476028 GATTTCACCA
Statistics
Matches: 156, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
58 41 0.26
59 76 0.49
60 7 0.04
61 31 0.20
62 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (59 bp):
TAAAACTTTTAAAAATTACATTTTAACCCCTAAACTTTTCAAAAATTATATTTTAACCC
Found at i:18476027 original size:29 final size:29
Alignment explanation
Indices: 18475791--18476137 Score: 134
Period size: 29 Copynumber: 11.8 Consensus size: 29
18475781 GAAGTCTATA
* *
18475791 AAACTATTCAAAAATTACA-TTTTAACCCTT
1 AAACT-TTCTAAAATTCCATTTTTAACCC-T
** * *
18475821 AAACTTTTTCTAAAATTATATTTTGAA-GCT
1 AAAC--TTTCTAAAATTCCATTTTTAACCCT
* *
18475851 AAAACTTTTTGAAAATTACA-TTTTAACCCCT
1 -AAACTTTCT-AAAATTCCATTTTTAA-CCCT
18475882 AAACTTT-TAAAAATT--ATATTTTAACCCT
1 AAACTTTCT-AAAATTCCAT-TTTTAACCCT
* * * *
18475910 AAAACTTT-TAAAAATTACATTTTGACCCCC
1 -AAACTTTCT-AAAATTCCATTTTTAACCCT
* * *
18475940 AAACTTTTCCAAAA--CTATATTTTAACCTT
1 AAAC-TTTCTAAAATTCCAT-TTTTAACCCT
* *
18475969 AAAACTTTCTAAAATTACATTTTTACCCCT
1 -AAACTTTCTAAAATTCCATTTTTAACCCT
18475999 AAACTTTCTAAAATTCCATTTTTAACCCT
1 AAACTTTCTAAAATTCCATTTTTAACCCT
*
18476028 -GA-TTTC-ACCAGAATTACCA-TTTT-ACCCT
1 AAACTTTCTA--A-AATT-CCATTTTTAACCCT
* * * *
18476056 CGAATTTTCTAAAATTCTATTTTTAACTCT
1 -AAACTTTCTAAAATTCCATTTTTAACCCT
* * *
18476086 -AA-TTTCACCAAAATTACCA-TTTTACCCCG
1 AAACTTT--CTAAAATT-CCATTTTTAACCCT
* *
18476115 AAACTTTCCAAAATCCCATTTTT
1 AAACTTTCTAAAATTCCATTTTT
18476138 TACCTCGATT
Statistics
Matches: 247, Mismatches: 36, Indels: 69
0.70 0.10 0.20
Matches are distributed among these distances:
26 1 0.00
27 8 0.03
28 20 0.08
29 123 0.50
30 59 0.24
31 29 0.12
32 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (29 bp):
AAACTTTCTAAAATTCCATTTTTAACCCT
Found at i:18476053 original size:58 final size:58
Alignment explanation
Indices: 18475979--18476156 Score: 218
Period size: 58 Copynumber: 3.1 Consensus size: 58
18475969 AAAACTTTCT
18475979 AAAATTA-CATTTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACC
1 AAAATTACCA-TTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACC
* * * * * *
18476037 AGAATTACCATTTTA-CCCTCGAATTTTCTAAAATTCTATTTTTAACTCTAATTTCACC
1 AAAATTACCATTTTACCCCT-AAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACC
* * * *
18476095 AAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTTA-CCTCGATTTCACC
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCT-GATTTCACC
18476153 AAAA
1 AAAA
18476157 AATCACATTT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
57 6 0.06
58 89 0.89
59 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACC
Found at i:18476122 original size:116 final size:117
Alignment explanation
Indices: 18475979--18476225 Score: 290
Period size: 116 Copynumber: 2.1 Consensus size: 117
18475969 AAAACTTTCT
* * * *
18475979 AAAATTA-CATTTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACC-CTGATTTCACC--AGA
1 AAAATTACCA-TTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCTC-GATTTCACCAAAAA
* * * * *
18476040 ATTACCATTTTACCCTCGAATTTTCTAAAAT-TCTATTTTTAACTCTAATTTC-ACC
64 ATCA-CATTTTACCATCGAACTTTCCAAAATCTC-ATTTTTAAC-CCAATTTCGACC
*
18476095 AAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTTACCTCGATTTCACCAAAAAAT
1 AAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAAAT
* **
18476160 CACATTTTACCATCGAACTTTCCAAAATCTCGTTTTTGTCCCAATTTCGACC
66 CACATTTTACCATCGAACTTTCCAAAATCTCATTTTTAACCCAATTTCGACC
18476212 AAAATTACCATTTT
1 AAAATTACCATTTT
18476226 GCCTCGGGTA
Statistics
Matches: 112, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
116 56 0.50
117 49 0.44
118 7 0.06
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCGAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAAAT
CACATTTTACCATCGAACTTTCCAAAATCTCATTTTTAACCCAATTTCGACC
Found at i:18476179 original size:59 final size:58
Alignment explanation
Indices: 18476000--18476231 Score: 208
Period size: 58 Copynumber: 4.0 Consensus size: 58
18475990 TTTACCCCTA
* * * *
18476000 AACTTTCTAAAATTCCATTTTTAACC-CTGATTTCACCAGAATTACCATTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTTACCTCTGATTTCACCAAAATTACCATTTTA-CCTCG
* * * * * * *
18476058 AATTTTCTAAAATTCTA-TTTTTAACTCTAATTTCACCAAAATTACCATTTTACCCCG
1 AACTTTCCAAAATCCCATTTTTTACCTCTGATTTCACCAAAATTACCATTTTACCTCG
*
18476115 AAACTTTCCAAAATCCCATTTTTTACCTC-GATTTCACCAAAA-AATCACATTTTACCATCG
1 -AACTTTCCAAAATCCCATTTTTTACCTCTGATTTCACCAAAATTA-C-CATTTTACC-TCG
* * * *
18476175 AACTTTCCAAAATCTCGTTTTTGT-CC-C-AATTTCGACCAAAATTACCATTTTGCCTCG
1 AACTTTCCAAAATCCCATTTTT-TACCTCTGATTTC-ACCAAAATTACCATTTTACCTCG
18476232 GGTATCCAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
57 14 0.10
58 79 0.54
59 48 0.33
60 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (58 bp):
AACTTTCCAAAATCCCATTTTTTACCTCTGATTTCACCAAAATTACCATTTTACCTCG
Found at i:18487826 original size:51 final size:50
Alignment explanation
Indices: 18487760--18488326 Score: 326
Period size: 50 Copynumber: 11.5 Consensus size: 50
18487750 ATCAAAATAC
*
18487760 AAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAATACCGCAAAAACACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCGCAAAAACACA
* * * * * * ** * * **
18487811 AAAGGAAAAGGTCTAAGTCACAATGGCGGA-CTGTGTACCTCAGAAACATG
1 AAAGGGAAAGATCTAAGCCGCAACGGCAGATC-CAGTACCGCAAAAACACA
* * *
18487861 AAAGGGAAAGATCTAAGACAGCAATGGCAGATCCAGTACAGCAAAAAACACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCGC-AAAAACACA
* * * * * * * *
18487913 ACAGGGAAAGGTCTAAGTCGTAACGGCAGA-CCATGTACCTCAGAAGCA-T
1 AAAGGGAAAGATCTAAGCCGCAACGGCAGATCCA-GTACCGCAAAAACACA
* * *
18487962 GAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCG-CAAAAACACA
* * * * * * * **
18488014 ACAGGGAAAGGTCTAAGTCGTAACGGCAGA-CCGTGTACCTCAGAAACATG
1 AAAGGGAAAGATCTAAGCCGCAACGGCAGATCC-AGTACCGCAAAAACACA
* *
18488064 AATGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCGCAAAAACACA
* * * **
18488115 AAAGGGAAAGGTCTAAGTCGCAACGGC-G-----G-A--G---AAGCATG
1 AAAGGGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCGCAAAAACACA
* * *
18488153 AAAGGGAAAGATCTAAGTCCGTAATGGCAGATCCAGTA-AGC-AAAACACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCGCAAAAACACA
* * * * ** * * * *
18488202 AAAGGGAAAGGTCTAAGTCGCAATGGCAAATCGTGTACCTCAGAAGCA-T
1 AAAGGGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCGCAAAAACACA
* * * * * *
18488251 GAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCACAAAGATACA
1 AAAGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCGCAAAAACACA
* *
18488302 AAAGGGAAAGGTCTAAGTCGCAACG
1 AAAGGGAAAGATCTAAGCCGCAACG
18488327 ACGAACCCGG
Statistics
Matches: 379, Mismatches: 110, Indels: 55
0.70 0.20 0.10
Matches are distributed among these distances:
38 20 0.05
39 7 0.02
40 1 0.00
41 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 15 0.04
49 52 0.14
50 120 0.32
51 120 0.32
52 38 0.10
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (50 bp):
AAAGGGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCGCAAAAACACA
Found at i:18487967 original size:101 final size:100
Alignment explanation
Indices: 18487761--18488326 Score: 712
Period size: 101 Copynumber: 5.8 Consensus size: 100
18487751 TCAAAATACA
* * * *
18487761 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAATACCGCAAAAACACAAAAGGAAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAGCAAAAACACAAAAGGGAAAGGTCTA
* * * * *
18487826 AGTCACAATGGCGGACTGTGTACCTCAGAAACATG
66 AGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
* *
18487861 AAAGGGAAAGATCTAAGACAGCAATGGCAGATCCAGTACAGCAAAAAACACAACAGGGAAAGGTC
1 -AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAGC-AAAAACACAAAAGGGAAAGGTC
* *
18487926 TAAGTCGTAACGGCAGACCATGTACCTCAGAAGCATG
64 TAAGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
* * * * *
18487963 AAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAACAGGGAAAGGTCT
1 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAG-CAAAAACACAAAAGGGAAAGGTCT
* *
18488028 AAGTCGTAACGGCAGACCGTGTACCTCAGAAACATG
65 AAGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
*
18488064 AATGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCT
1 AA-GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAGCAAAAACACAAAAGGGAAAGGTCT
18488129 AAGTCGCAAC-G--G--CG-G------AGAAGCATG
65 AAGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
* *
18488153 AAAGGGAAAGATCTAAGTCCGTAATGGCAGATCCAGTA-AGC-AAAACACAAAAGGGAAAGGTCT
1 -AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAGCAAAAACACAAAAGGGAAAGGTCT
* * *
18488216 AAGTCGCAATGGCAAATCGTGTACCTCAGAAGCATG
65 AAGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
* * *
18488252 AAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCA-CAAAGATACAAAAGGGAAAGGTCT
1 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTA-CAGCAAAAACACAAAAGGGAAAGGTCT
18488316 AAGTCGCAACG
65 AAGTCGCAACG
18488327 ACGAACCCGG
Statistics
Matches: 409, Mismatches: 37, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
87 31 0.08
88 3 0.01
89 41 0.10
90 2 0.00
92 2 0.00
93 1 0.00
95 1 0.00
96 2 0.00
98 35 0.09
99 10 0.02
100 32 0.08
101 163 0.40
102 86 0.21
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (100 bp):
AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACAGCAAAAACACAAAAGGGAAAGGTCTA
AGTCGCAACGGCAGACCGTGTACCTCAGAAGCATG
Found at i:18488110 original size:203 final size:190
Alignment explanation
Indices: 18487760--18488326 Score: 725
Period size: 203 Copynumber: 2.9 Consensus size: 190
18487750 ATCAAAATAC
* * * *
18487760 AAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAATACCG-CAAAAACACAAAAGGAAAAGGTC
1 AAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAAAAGGGAAAGGTC
* * * *
18487824 TAAGTCACAATGGCGGACTGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACAGCAATGGC
66 TAAGTCGCAATGGCAGACCGTGTACCTCAGAAACATG-AAGGGAAAGATCTAAGACCGCAATGGC
* *
18487889 AGATCCAGTACAGCAAAAAACACAACAGGGAAAGGTCTAAGTCGTAACGGCAGACCATGTACCTC
130 AGATCCAGTACCGCAAAAAACACAA-AGGGAAAGGTCTAAGTCGCAACGGC-G-----G------
18487954 AGAAGCATG
182 AGAAGCATG
*
18487963 -AAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAACAGGGAAAGGTC
1 AAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAAAAGGGAAAGGTC
* *
18488027 TAAGTCGTAACGGCAGACCGTGTACCTCAGAAACATGAATGGGAAAGATCTAAGACCGCAATGGC
66 TAAGTCGCAATGGCAGACCGTGTACCTCAGAAACATGAA-GGGAAAGATCTAAGACCGCAATGGC
18488092 AGATCCAGTACCGC-AAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGAGAAGCATG
130 AGATCCAGTACCGCAAAAAACAC-AAAGGGAAAGGTCTAAGTCGCAACGGCGGAGAAGCATG
* * **
18488153 AAAGGGAAAGATCTAAGTCCGTAATGGCAGATCCAGTA---AGCAAAACACAAAAGGGAAAGGTC
1 AAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAAAAGGGAAAGGTC
* * * *
18488215 TAAGTCGCAATGGCAAATCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCA
66 TAAGTCGCAATGGCAGACCGTGTACCTCAGAAACATGAAGGGAAAGATCTAAGACCGCAATGGCA
* *
18488280 GATCCAGTACCACAAAGATACA-AAAGGGAAAGGTCTAAGTCGCAACG
131 GATCCAGTACCGCAAA-AAACACAAAGGGAAAGGTCTAAGTCGCAACG
18488327 ACGAACCCGG
Statistics
Matches: 332, Mismatches: 26, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
187 62 0.19
188 57 0.17
189 4 0.01
190 9 0.03
191 35 0.11
196 1 0.00
201 1 0.00
202 72 0.22
203 91 0.27
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (190 bp):
AAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAAAAGGGAAAGGTC
TAAGTCGCAATGGCAGACCGTGTACCTCAGAAACATGAAGGGAAAGATCTAAGACCGCAATGGCA
GATCCAGTACCGCAAAAAACACAAAGGGAAAGGTCTAAGTCGCAACGGCGGAGAAGCATG
Found at i:18488305 original size:187 final size:188
Alignment explanation
Indices: 18487954--18488326 Score: 579
Period size: 187 Copynumber: 2.0 Consensus size: 188
18487944 CATGTACCTC
*
18487954 AGAAGCATGAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACCGAAAAAAACACAACAGG
1 AGAAGCATGAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTA-C-AAAAAAACACAAAAGG
* *
18488019 GAAAGGTCTAAGTCGTAACGGCAGACCGTGTACCTCAGAAACATGAATGGGAAAGATCTAAGACC
64 GAAAGGTCTAAGTCGCAACGGCAAACCGTGTACCTCAGAAACATGAATGGGAAAGATCTAAGACC
* *
18488084 GCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGG
129 ACAATGGCAGATCCAGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGG
* * **
18488144 AGAAGCATGAAAGGGAAAGATCTAAGTCCGTAATGGCAGATCCAGTA-AGCAAAACACAAAAGGG
1 AGAAGCATG-AAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACAAAAAAACACAAAAGGG
* * *
18488208 AAAGGTCTAAGTCGCAATGGCAAATCGTGTACCTCAGAAGCATGAA-GGGAAAGATCTAAGACCA
65 AAAGGTCTAAGTCGCAACGGCAAACCGTGTACCTCAGAAACATGAATGGGAAAGATCTAAGACCA
* *
18488272 CAATGGCAGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACG
130 CAATGGCAGATCCAGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACG
18488327 ACGAACCCGG
Statistics
Matches: 168, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
187 69 0.41
188 55 0.33
190 9 0.05
191 35 0.21
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (188 bp):
AGAAGCATGAAGGGAAAGATCTAAGACCGTAACGGCAGATCCAGTACAAAAAAACACAAAAGGGA
AAGGTCTAAGTCGCAACGGCAAACCGTGTACCTCAGAAACATGAATGGGAAAGATCTAAGACCAC
AATGGCAGATCCAGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGG
Found at i:18488341 original size:100 final size:98
Alignment explanation
Indices: 18488144--18488353 Score: 271
Period size: 100 Copynumber: 2.1 Consensus size: 98
18488134 GCAACGGCGG
* **
18488144 AGAAGCATGAAAGGGAAAGATCTAAGTCCGTAATGGCAGATCCAGTAAGCAAAACACAAAAGGGA
1 AGAAGCATG-AAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTAAGCAAAACACAAAAGGGA
* * *
18488209 AAGGTCTAAGTCGCAATGGCAAATCGTGTACCTC
65 AAGGTCTAAGTCGCAACGACAAACCGTGTACCTC
*
18488243 AGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCA-CAAAGATACAAAAGG
1 AGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTA--AGCAAA-ACACAAAAGG
* *
18488307 GAAAGGTCTAAGTCGCAACGACGAACCCG-GTACCTT
63 GAAAGGTCTAAGTCGCAACGAC-AAACCGTGTACCTC
*
18488343 AGAAACATGAA
1 AGAAGCATGAA
18488354 AGGTCAAATC
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
98 34 0.35
99 13 0.13
100 46 0.47
101 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (98 bp):
AGAAGCATGAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTAAGCAAAACACAAAAGGGAA
AGGTCTAAGTCGCAACGACAAACCGTGTACCTC
Found at i:18488756 original size:11 final size:11
Alignment explanation
Indices: 18488729--18488791 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
18488719 ATTTGTTCTA
*
18488729 AAATTAAATTT
1 AAATTTAATTT
*
18488740 -ATTTTAATTT
1 AAATTTAATTT
*
18488750 AAATTTATTTT
1 AAATTTAATTT
18488761 AAATTTAAATTT
1 AAATTT-AATTT
*
18488773 AGATTTAATTT
1 AAATTTAATTT
18488784 AAATTTAA
1 AAATTTAA
18488792 ATTATTATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.19
11 26 0.60
12 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:18488767 original size:17 final size:16
Alignment explanation
Indices: 18488732--18488790 Score: 91
Period size: 17 Copynumber: 3.6 Consensus size: 16
18488722 TGTTCTAAAA
18488732 TTAAATTTATTTTAAT
1 TTAAATTTATTTTAAT
18488748 TTAAATTTATTTTAAAT
1 TTAAATTTATTTT-AAT
*
18488765 TTAAATTTAGATTTAAT
1 TTAAATTTA-TTTTAAT
18488782 TTAAATTTA
1 TTAAATTTA
18488791 AATTATTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 13 0.32
17 24 0.60
18 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:18488771 original size:23 final size:23
Alignment explanation
Indices: 18488740--18488794 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
18488730 AATTAAATTT
* *
18488740 ATTTTAATTTAAATTTATTTTAA
1 ATTTAAATTTAAATTTAATTTAA
*
18488763 ATTTAAATTTAGATTTAATTTAA
1 ATTTAAATTTAAATTTAATTTAA
18488786 ATTTAAATT
1 ATTTAAATT
18488795 ATTATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:18489778 original size:24 final size:23
Alignment explanation
Indices: 18489744--18489804 Score: 97
Period size: 23 Copynumber: 2.6 Consensus size: 23
18489734 CCCAGATCCG
18489744 GTTT-AAATAAAAAGGGGAAAAGT
1 GTTTAAAATAAAAA-GGGAAAAGT
18489767 GTTTAAAATAAAAAGGGAAAAGT
1 GTTTAAAATAAAAAGGGAAAAGT
18489790 GTTTAAAATCAAAAA
1 GTTTAAAAT-AAAAA
18489805 ATGAAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.61
24 14 0.39
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.23
Consensus pattern (23 bp):
GTTTAAAATAAAAAGGGAAAAGT
Found at i:18490532 original size:30 final size:29
Alignment explanation
Indices: 18490498--18490585 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
18490488 TAAAAGTCCC
*
18490498 TAAACTATCCAAAAATTACATTTTGACCCT
1 TAAACT-TCCAAAAATTACATTTTAACCCT
* * *
18490528 TAAACTTTTCCAAAAA-TATATTTTTACCCC
1 TAAAC--TTCCAAAAATTACATTTTAACCCT
* *
18490558 TAAACTT-CTAAAATTCCATTTTAACCCT
1 TAAACTTCCAAAAATTACATTTTAACCCT
18490586 GATTTCACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
27 5 0.11
28 12 0.26
30 21 0.45
31 8 0.17
32 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.38
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACATTTTAACCCT
Found at i:18490540 original size:31 final size:30
Alignment explanation
Indices: 18490495--18490564 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
18490485 CTCTAAAAGT
*
18490495 CCCTAAAC-TATCCAAAAATTACATTTTGAC
1 CCCTAAACTTTTCCAAAAA-TACATTTTGAC
* * *
18490525 CCTTAAACTTTTCCAAAAATATATTTTTAC
1 CCCTAAACTTTTCCAAAAATACATTTTGAC
18490555 CCCTAAACTT
1 CCCTAAACTT
18490565 CTAAAATTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAAATACATTTTGAC
Found at i:18490629 original size:58 final size:58
Alignment explanation
Indices: 18490549--18490842 Score: 325
Period size: 58 Copynumber: 5.1 Consensus size: 58
18490539 AAAAATATAT
*
18490549 TTTTACCC-CTAAAC-TTCTAAAATTCCA-TTTTAACCCTGATTTCACCAGAATTACCA
1 TTTTACCCTC-AAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAATTACCA
* *
18490605 TTTTACCC-CTAAACTTTCTAAAAATTCTATTTTTAACCCCGATTTCACCAAAATTACCA
1 TTTTACCCTC-AAACTTTCT-AAAATTCCATTTTTAACCCTGATTTCACCAAAATTACCA
* *
18490664 TTTTACCCTCAAACTTTCTAAAATTCTATTTTT-ACCCTCGATTTCACCAAAATTACTA
1 TTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCCT-GATTTCACCAAAATTACCA
* * * * * *
18490722 CTTTACCCTCAAACTTTCCAAAATCCCATTTTTGACCCTGATTTTACCAAAA-AATCACA
1 TTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAATTA-C-CA
* ** *
18490781 TTTTACCCTCAAACTTTCCAAAA-TCTCATTTTTGTCCC-AATTTCGACCAAAATTACCA
1 TTTTACCCTCAAACTTTCTAAAATTC-CATTTTTAACCCTGATTTC-ACCAAAATTACCA
18490839 TTTT
1 TTTT
18490843 GCCTCGGGTA
Statistics
Matches: 209, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
56 14 0.07
57 9 0.04
58 93 0.44
59 91 0.44
60 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (58 bp):
TTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAATTACCA
Found at i:18490726 original size:29 final size:29
Alignment explanation
Indices: 18490567--18490731 Score: 105
Period size: 29 Copynumber: 5.7 Consensus size: 29
18490557 CTAAACTTCT
*
18490567 AAAATT-CCATTTTAACCCT-GATTTCACC
1 AAAATTACTATTTT-ACCCTCGATTTCACC
* * **
18490595 AGAATTACCATTTTACCCCTAAACTTTCTA--
1 AAAATTACTATTTTA-CCCTCGA-TTTC-ACC
18490625 AAAATT-CTATTTTTAACCC-CGATTTCACC
1 AAAATTACTA-TTTT-ACCCTCGATTTCACC
* * *
18490654 AAAATTACCATTTTACCCTCAAACTTT--CT
1 AAAATTACTATTTTACCCTC-GA-TTTCACC
18490683 AAAATT-CTATTTTTACCCTCGATTTCACC
1 AAAATTACTA-TTTTACCCTCGATTTCACC
*
18490712 AAAATTACTACTTTACCCTC
1 AAAATTACTATTTTACCCTC
18490732 AAACTTTCCA
Statistics
Matches: 107, Mismatches: 13, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
27 4 0.04
28 17 0.16
29 58 0.54
30 19 0.18
31 8 0.07
32 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACTATTTTACCCTCGATTTCACC
Found at i:18490742 original size:29 final size:29
Alignment explanation
Indices: 18490495--18490804 Score: 104
Period size: 29 Copynumber: 10.7 Consensus size: 29
18490485 CTCTAAAAGT
*
18490495 CCCT-AAACTATCCAAAAATTAC-ATTTTGA
1 CCCTCAAACTTTCC-AAAATTACTATTTT-A
* *
18490524 CCCTTAAACTTTTCCAAAAATA-TATTTTTA
1 CCCTCAAAC-TTTCCAAAATTACTA-TTTTA
* *
18490554 CCC-CTAAAC-TTCTAAAATT-CCATTTTAA
1 CCCTC-AAACTTTCCAAAATTACTATTTT-A
* * *
18490582 CCCT--GA-TTTCACCAGAATTACCATTTTA
1 CCCTCAAACTTT--CCAAAATTACTATTTTA
*
18490610 CCC-CTAAACTTTCTAAAAATT-CTATTTTTAA
1 CCCTC-AAACTTTC-CAAAATTACTA-TTTT-A
* *
18490641 CCC-C-GA-TTTCACCAAAATTACCATTTTA
1 CCCTCAAACTTT--CCAAAATTACTATTTTA
*
18490669 CCCTCAAACTTTCTAAAATT-CTATTTTTA
1 CCCTCAAACTTTCCAAAATTACTA-TTTTA
* *
18490698 CCCTC-GA-TTTCACCAAAATTACTACTTTA
1 CCCTCAAACTTT--CCAAAATTACTATTTTA
* *
18490727 CCCTCAAACTTTCCAAAA-TCCCATTTTTGA
1 CCCTCAAACTTTCCAAAATTACTA-TTTT-A
* * *
18490757 CCCT--GATTTTACCAAAAAATCAC-ATTTTA
1 CCCTCAAACTTT-CC--AAAATTACTATTTTA
18490786 CCCTCAAACTTTCCAAAAT
1 CCCTCAAACTTTCCAAAAT
18490805 CTCATTTTTG
Statistics
Matches: 210, Mismatches: 32, Indels: 79
0.65 0.10 0.25
Matches are distributed among these distances:
26 3 0.01
27 7 0.03
28 45 0.21
29 75 0.36
30 48 0.23
31 31 0.15
32 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTCAAACTTTCCAAAATTACTATTTTA
Found at i:18490786 original size:117 final size:117
Alignment explanation
Indices: 18490549--18490838 Score: 326
Period size: 117 Copynumber: 2.5 Consensus size: 117
18490539 AAAAATATAT
* * * *
18490549 TTTTACCC-CTAAAC-TTCTAAAATTCCATTTTAACCCT-GATTTCACCAGAATTACCATTTTAC
1 TTTTACCCTC-AAACTTTCTAAAATTCTATTTTTACCCTCGATTTCACCAAAATTACCACTTTAC
* * *
18490611 CCCTAAACTTTCTAAAAATTCTATTTTTAACCCCGATTTCACCAAAATTACCA
65 CCCTAAACTTTCTAAAAATCCCATTTTTAACCCCGATTTCACCAAAATCACCA
*
18490664 TTTTACCCTCAAACTTTCTAAAATTCTATTTTTACCCTCGATTTCACCAAAATTACTACTTTA-C
1 TTTTACCCTCAAACTTTCTAAAATTCTATTTTTACCCTCGATTTCACCAAAATTACCACTTTACC
* * * *
18490728 CCTCAAACTTTC-CAAAATCCCATTTTTGACCCTGATTTTACCAAAAAATCA-CA
66 CCT-AAACTTTCTAAAAATCCCATTTTTAACCCCGATTTCACC--AAAATCACCA
* ** *
18490781 TTTTACCCTCAAACTTTCCAAAA-TCTCATTTTTGTCC-CAATTTCGACCAAAATTACCA
1 TTTTACCCTCAAACTTTCTAAAATTCT-ATTTTTACCCTCGATTTC-ACCAAAATTACCA
18490839 TTTTGCCTCG
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
115 12 0.08
116 59 0.39
117 73 0.49
118 6 0.04
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (117 bp):
TTTTACCCTCAAACTTTCTAAAATTCTATTTTTACCCTCGATTTCACCAAAATTACCACTTTACC
CCTAAACTTTCTAAAAATCCCATTTTTAACCCCGATTTCACCAAAATCACCA
Found at i:18500358 original size:13 final size:13
Alignment explanation
Indices: 18500337--18500370 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18500327 AAATTTAGAT
*
18500337 CATAAAACTCTAA
1 CATATAACTCTAA
*
18500350 CATATAACTCTAC
1 CATATAACTCTAA
18500363 CATATAAC
1 CATATAAC
18500371 ATATAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (13 bp):
CATATAACTCTAA
Found at i:18500899 original size:584 final size:585
Alignment explanation
Indices: 18499790--18500941 Score: 2236
Period size: 584 Copynumber: 2.0 Consensus size: 585
18499780 AAATAATGAC
18499790 AACTTTTATTTAATAACCAAGTAACATAACTTTTGCATACTTATAACTTTTCATTTGTAACTGTT
1 AACTTTTATTTAATAACCAAGTAACATAACTTTTGCATACTTATAACTTTTCATTTGTAACTGTT
18499855 GAAACACTATATATATTTTGAAAATGTTCCAACAAGTACTAGTTTTAAATGTATACAGTTTAAAA
66 GAAACACTATATATATTTTGAAAATGTTCCAACAAGTACTAGTTTTAAATGTATACAGTTTAAAA
18499920 ATATATATATAATGTCATTATAATGCACAATTAATGCTTTATTATTAATAATTATAATTCAAATT
131 ATATATATATAATGTCATTATAATGCACAATTAATGCTTTATTATTAATAATTATAATTCAAATT
18499985 TTAATGTAATGTAAAAGTTGAACGTCGACAATGAAAAAATATCGTAAAAGAGATGAAAAAGAGAA
196 TTAATGTAATGTAAAAGTTGAACGTCGACAATGAAAAAATATCGTAAAAGAGATGAAAAAGAGAA
18500050 AAAAACACAAATTTTACGGGAGACCCTTTCGGGAAAAAACCATGGGCAAAGGAGAAGAAATTTCA
261 AAAAACACAAATTTTACGGGAGACCCTTTCGGGAAAAAACCATGGGCAAAGGAGAAGAAATTTCA
18500115 CTAATATCGAAAATCAAATGATTACAAGAAGAGACGATTACGTCTATTTATAGGTTAAAAAATTA
326 CTAATATCGAAAATCAAATGATTACAAGAAGAGACGATTACGTCTATTTATAGGTTAAAAAATTA
18500180 TTGTAATCAATCTCTAATAGAAGTAATGTAGTAAGGTCAAAACATCTTATTCTAAACAATATCAA
391 TTGTAATCAATCTCTAATAGAAGTAATGTAGTAAGGTCAAAACATCTTATTCTAAACAATATCAA
18500245 ATAGTAGAAGTATATTTCTATACGAATTCTACTTATTTAGTTTGTACCGTACCTTCGGCACTCCC
456 ATAGTAGAAGTATATTTCTATACGAATTCTACTTATTTAGTTTGTACCGTACCTTCGGCACTCCC
18500310 GATTGCAACCCCAACCCAAATTTAGATCATAAAACTCTAACATATAACTCTACCATATAACATAT
521 GATTGCAACCCCAACCCAAATTTAGATCATAAAACTCTAACATATAACTCTACCATATAACATAT
18500375 AACTTTTATTTAATAACCAAGTAACATAACTTTTGCATACTTATAACTTTTCATTTGTAACTGTT
1 AACTTTTATTTAATAACCAAGTAACATAACTTTTGCATACTTATAACTTTTCATTTGTAACTGTT
*
18500440 GAAACATTATATATATTTTGAAAATGTTCCAACAAGTACTAGTTTTAAATGTATACAGTTTAAAA
66 GAAACACTATATATATTTTGAAAATGTTCCAACAAGTACTAGTTTTAAATGTATACAGTTTAAAA
*
18500505 ATATATATATAATGTCATTATAATGCACAATTAATTCTTTATTATTAATAATTATAATTCAAATT
131 ATATATATATAATGTCATTATAATGCACAATTAATGCTTTATTATTAATAATTATAATTCAAATT
18500570 TTAATGTAATGTAAAAGTTGAACGTCGACAATGAAAAAATATCGT-AAAGAGATGAAAAAGAG-A
196 TTAATGTAATGTAAAAGTTGAACGTCGACAATGAAAAAATATCGTAAAAGAGATGAAAAAGAGAA
18500633 AAAAACACAAATTTTACGGGAGACCCTTTCGGGAAAAAAACCATGGGCAAAGGAGAAGAAATTTC
261 AAAAACACAAATTTTACGGGAGACCCTTTCGGG-AAAAAACCATGGGCAAAGGAGAAGAAATTTC
* *
18500698 ACTAATATCGAAAATTAAATGATTACAAGAGGAGACGATTACGTCTATTTATAGGTTAAAAAATT
325 ACTAATATCGAAAATCAAATGATTACAAGAAGAGACGATTACGTCTATTTATAGGTTAAAAAATT
18500763 ATTGTAATCAATCTCTAATAGAAGTAATGTAGTAAGGTCAAAACATCTTATTCTAAACAATATCA
390 ATTGTAATCAATCTCTAATAGAAGTAATGTAGTAAGGTCAAAACATCTTATTCTAAACAATATCA
18500828 AATAGTAGAAGTATATTTCTATACGAATTCTACTTATTTAGTTTGTACCGTACCTTCGGCACTCC
455 AATAGTAGAAGTATATTTCTATACGAATTCTACTTATTTAGTTTGTACCGTACCTTCGGCACTCC
*
18500893 CGATTGCAACCCCAATCCAAATTTAGATCATAAAACTCTAACATATAAC
520 CGATTGCAACCCCAACCCAAATTTAGATCATAAAACTCTAACATATAAC
18500942 ATTTTAATGA
Statistics
Matches: 561, Mismatches: 5, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
583 34 0.06
584 289 0.52
585 238 0.42
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (585 bp):
AACTTTTATTTAATAACCAAGTAACATAACTTTTGCATACTTATAACTTTTCATTTGTAACTGTT
GAAACACTATATATATTTTGAAAATGTTCCAACAAGTACTAGTTTTAAATGTATACAGTTTAAAA
ATATATATATAATGTCATTATAATGCACAATTAATGCTTTATTATTAATAATTATAATTCAAATT
TTAATGTAATGTAAAAGTTGAACGTCGACAATGAAAAAATATCGTAAAAGAGATGAAAAAGAGAA
AAAAACACAAATTTTACGGGAGACCCTTTCGGGAAAAAACCATGGGCAAAGGAGAAGAAATTTCA
CTAATATCGAAAATCAAATGATTACAAGAAGAGACGATTACGTCTATTTATAGGTTAAAAAATTA
TTGTAATCAATCTCTAATAGAAGTAATGTAGTAAGGTCAAAACATCTTATTCTAAACAATATCAA
ATAGTAGAAGTATATTTCTATACGAATTCTACTTATTTAGTTTGTACCGTACCTTCGGCACTCCC
GATTGCAACCCCAACCCAAATTTAGATCATAAAACTCTAACATATAACTCTACCATATAACATAT
Found at i:18510913 original size:2 final size:2
Alignment explanation
Indices: 18510908--18510947 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
18510898 ATATATACAT
*
18510908 AC AC AC AC AC AA AC AC -C AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18510948 TATTATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18519550 original size:2 final size:2
Alignment explanation
Indices: 18519543--18519579 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18519533 CAAAATATGT
18519543 TA TA TA 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 TA TA TA T
18519580 GCATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18520773 original size:24 final size:24
Alignment explanation
Indices: 18520735--18520786 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
18520725 TTAATACATG
*
18520735 AAATATTAATTTTAAATATTT-TA
1 AAATATTAATATTAAATATTTATA
*
18520758 AAATAATTAATATTAATTATTTATA
1 AAAT-ATTAATATTAAATATTTATA
18520783 AAAT
1 AAAT
18520787 CTAATTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATATTAATATTAAATATTTATA
Found at i:18529539 original size:34 final size:34
Alignment explanation
Indices: 18529501--18529593 Score: 125
Period size: 34 Copynumber: 2.7 Consensus size: 34
18529491 CCTTTCATCT
18529501 TTTAACCTTCCAT-TTTCCTTAACTTCCTTTGACC
1 TTTAACCTTCCATCTTT-CTTAACTTCCTTTGACC
* * *
18529535 TTTAACCTTCCATCTTTCTTAACCTCTTTTGATC
1 TTTAACCTTCCATCTTTCTTAACTTCCTTTGACC
* *
18529569 TTTAATCTTTCATCTTTCTTAACTT
1 TTTAACCTTCCATCTTTCTTAACTT
18529594 TTCATATTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 49 0.94
35 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.02, T:0.52
Consensus pattern (34 bp):
TTTAACCTTCCATCTTTCTTAACTTCCTTTGACC
Found at i:18530686 original size:26 final size:26
Alignment explanation
Indices: 18530657--18530707 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
18530647 AACACACAGC
18530657 CTCTACTAATATTAAACTATTTATAT
1 CTCTACTAATATTAAACTATTTATAT
* * *
18530683 CTCTATTAATATTAAATTCTTTATA
1 CTCTACTAATATTAAACTATTTATA
18530708 AAGTTTAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (26 bp):
CTCTACTAATATTAAACTATTTATAT
Found at i:18538825 original size:73 final size:73
Alignment explanation
Indices: 18538746--18538886 Score: 282
Period size: 73 Copynumber: 1.9 Consensus size: 73
18538736 ATACTGAGAT
18538746 TTTTTTATTATCTTTGGAGGGGCAAATTGTGAAGTGTAGTTTGTTGATTGTTAATTGTCTTAACT
1 TTTTTTATTATCTTTGGAGGGGCAAATTGTGAAGTGTAGTTTGTTGATTGTTAATTGTCTTAACT
18538811 ACTAGCAA
66 ACTAGCAA
18538819 TTTTTTATTATCTTTGGAGGGGCAAATTGTGAAGTGTAGTTTGTTGATTGTTAATTGTCTTAACT
1 TTTTTTATTATCTTTGGAGGGGCAAATTGTGAAGTGTAGTTTGTTGATTGTTAATTGTCTTAACT
18538884 ACT
66 ACT
18538887 TAGTCATTGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.47
Consensus pattern (73 bp):
TTTTTTATTATCTTTGGAGGGGCAAATTGTGAAGTGTAGTTTGTTGATTGTTAATTGTCTTAACT
ACTAGCAA
Found at i:18550139 original size:18 final size:18
Alignment explanation
Indices: 18550089--18550149 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
18550079 CTTTAAATTT
* *
18550089 TAAAAA-ATAAATATAATG
1 TAAAAATATAAA-ATTATA
*
18550107 TAAATAATTTAAAATTATA
1 TAAA-AATATAAAATTATA
*
18550126 TAAAAATATAAAATT-TT
1 TAAAAATATAAAATTATA
18550143 TAAAAAT
1 TAAAAAT
18550150 TCAAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.22
18 14 0.39
19 10 0.28
20 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATATAAAATTATA
Found at i:18574101 original size:2 final size:2
Alignment explanation
Indices: 18574096--18574123 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18574086 ATATATATAT
18574096 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18574124 TCCAACATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18577244 original size:14 final size:14
Alignment explanation
Indices: 18577225--18577257 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18577215 ACCCATAAAA
18577225 AGAAAAAGA-AAGAG
1 AGAAAAAGAGAAG-G
18577239 AGAAAAAGAGAAGG
1 AGAAAAAGAGAAGG
18577253 AGAAA
1 AGAAA
18577258 TTTCAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAGAAGG
Found at i:18587265 original size:24 final size:23
Alignment explanation
Indices: 18587238--18587287 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
18587228 TTTTATAAAA
18587238 ATTAAATTGTA-ATTTTATCATTTT
1 ATTAAATT-TATATTTTAT-ATTTT
18587262 ATT-AATTTATATTTTATATTTT
1 ATTAAATTTATATTTTATATTTT
18587284 -TTAA
1 ATTAA
18587288 TGATTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.08
22 8 0.33
23 11 0.46
24 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTAAATTTATATTTTATATTTT
Found at i:18597310 original size:19 final size:18
Alignment explanation
Indices: 18597286--18597325 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18597276 TCGTTTGATA
18597286 AAAATAAATACTTATTTTT
1 AAAAT-AATACTTATTTTT
* *
18597305 AAAATATTATTTATTTTT
1 AAAATAATACTTATTTTT
18597323 AAA
1 AAA
18597326 TTTTAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATAATACTTATTTTT
Found at i:18599369 original size:29 final size:30
Alignment explanation
Indices: 18599322--18599380 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
18599312 AAATTGAATC
*
18599322 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCACGTATAAAATTACACA
* * *
18599352 AAATC-AAATTTCCCGTATGACATTACACA
1 AAATCAAAATTTCACGTATAAAATTACACA
18599381 TTAGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCACGTATAAAATTACACA
Found at i:18600387 original size:54 final size:53
Alignment explanation
Indices: 18600317--18600815 Score: 261
Period size: 48 Copynumber: 9.5 Consensus size: 53
18600307 ACCCAAGGAG
* * *
18600317 CCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGTGCATTATCCTCCACCC
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCA-CCTCCACCC
* * ** *
18600371 CCTTACGAGTACAAGTCTCCTCCACCATCACATCCACCACCACAGCATCACCACCTACACGC
1 CCTTACAAGTACAAG--T-CTCCACCA-C-CA-CCTCCACCAGTGCATCACCTCC-AC-C-C
* * *
18600433 ACCTTACAAGTACAAGTCTCCA-CACCACC-CCACCA-T-CACCACCT-AAGCAC
1 -CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCA-CCC
*
18600483 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCACCC
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCA-CCTCCACCC
* * * * *
18600537 CCTTACGAGTACAAGTCTCCACCTCCACTCCACTCCACCA-T-CACCACC-CAAGCAC
1 CCTTACAAGTACAAGTCTCCACCACCA---C-CTCCACCAGTGCATCACCTCCA-CCC
* * *
18600592 CCTTACAAATACAAGTCTCCACCACCACCTCCACCA-T-CACCACC-CAAGCACC
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCA-C-CC
* **
18600644 CC-TACAAGTACAAGTCTCCACCA-C-CC-CCACCA-T-CACCACC-GAAGCACC
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCA-C-CC
* * *
18600692 CC-TACAAGTACAAGTCTCCTCCA-C-CC-CCACCA-T-CACCACC-CAAGCACC
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCA-C-CC
* * * **
18600740 CC-TACAAGTACAAGTCTCCTCCA-C-CC-CCACCA-T-CACCACC-CAAGCAT
1 CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCA-CCC
*
18600787 CCTTACAAGTACAAGTCTCCACCTCCACC
1 CCTTACAAGTACAAGTCTCCACCACCACC
18600816 ATCACCACCC
Statistics
Matches: 383, Mismatches: 36, Indels: 56
0.81 0.08 0.12
Matches are distributed among these distances:
47 2 0.01
48 131 0.34
49 24 0.06
50 11 0.03
51 48 0.13
52 6 0.02
53 9 0.02
54 45 0.12
55 35 0.09
56 6 0.02
57 12 0.03
58 10 0.03
59 7 0.02
60 20 0.05
61 2 0.01
62 1 0.00
63 14 0.04
ACGTcount: A:0.29, C:0.48, G:0.07, T:0.16
Consensus pattern (53 bp):
CCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATCACCTCCACCC
Found at i:18600501 original size:166 final size:160
Alignment explanation
Indices: 18600303--18600815 Score: 593
Period size: 166 Copynumber: 3.3 Consensus size: 160
18600293 TACTCTCCTC
* * * *
18600303 CACCACCCAAGGAGCCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGTGCATTATCCTCCA
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCA
*
18600368 CCCCCTTACGAGTACAAGTCTCCTCCACCAT-CACATCCACCACCACAGCATCACCACCTACACG
66 CCCCCTTACGAGTACAAG--T-CTCCACC-TCCAC-TCCA-CACCAC--CATCACCACC--CAAG
*
18600432 CA-CCTTACAAGTACAAGTCTCCA-CACCACC-CCACCAT
121 CACCCTTACAAATACAAGTCTCCACCACCACCTCCACCAT
*
18600469 CACCACCTAAGCACCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCA
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCA
*
18600534 CCCCCTTACGAGTACAAGTCTCCACCTCCACTCCACTCCACCATCACCACCCAAGCACCCTTACA
66 CCCCCTTACGAGTACAAGTCTCCACCTCCACTCCACACCACCATCACCACCCAAGCACCCTTACA
18600599 AATACAAGTCTCCACCACCACCTCCACCAT
131 AATACAAGTCTCCACCACCACCTCCACCAT
* ** **
18600629 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCA-C-CC-CCACCA-T-CACCA-CC-GAA
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCA
* *
18600687 GCACCCC-TACAAGTACAAGTCT---CCTCCA--CC-C-CCACCATCACCACCCAAGCACCCCTA
66 -C-CCCCTTACGAGTACAAGTCTCCACCTCCACTCCACACCACCATCACCACCCAAGCACCCTTA
* *
18600744 CAAGTACAAGTCTCCTCCA-C-CC-CCACCAT
129 CAAATACAAGTCTCCACCACCACCTCCACCAT
* *
18600773 CACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCTCCACC
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCACC
18600816 ATCACCACCC
Statistics
Matches: 318, Mismatches: 21, Indels: 36
0.85 0.06 0.10
Matches are distributed among these distances:
144 42 0.13
145 3 0.01
146 3 0.01
147 42 0.13
148 1 0.00
149 2 0.01
151 6 0.02
153 1 0.00
154 17 0.05
155 7 0.02
156 1 0.00
157 11 0.03
158 22 0.07
159 18 0.06
160 43 0.14
161 5 0.02
162 5 0.02
163 10 0.03
164 1 0.00
166 78 0.25
ACGTcount: A:0.29, C:0.48, G:0.07, T:0.16
Consensus pattern (160 bp):
CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAGTGCATTATCCTCCA
CCCCCTTACGAGTACAAGTCTCCACCTCCACTCCACACCACCATCACCACCCAAGCACCCTTACA
AATACAAGTCTCCACCACCACCTCCACCAT
Found at i:18600689 original size:48 final size:48
Alignment explanation
Indices: 18600403--18600908 Score: 573
Period size: 48 Copynumber: 10.3 Consensus size: 48
18600393 CACCATCACA
* * *
18600403 TCCACCA-CCACAGCATCACCACCTACACGCA-CCTTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACC--CAAGCACCCTTACAAGTACAAGTC
*
18600451 TCCA-CACCACCCCACCATCACCACCTAAGCACCCTTACAAGTACAAGTC
1 TCCACCA-C-CCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
** * * *
18600500 TCCACCACCACCTCCACCAGTGCATTATCCTCCA-CCCCCTTACGAGTACAAGTC
1 TCCACCA-C-CC-CCACCA-T-CACCA-CC-CAAGCACCCTTACAAGTACAAGTC
*
18600554 TCCACCTCCACTCCACTCCACCATCACCACCCAAGCACCCTTACAAATACAAGTC
1 TCCA---CCA--CC-C-CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
*
18600609 TCCACCACCACCTCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTC
1 TCCACCA-C-CC-CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
* *
18600660 TCCACCACCCCCACCATCACCACCGAAGCACCCCTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
* *
18600708 TCCTCCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
* *
18600756 TCCTCCACCCCCACCATCACCACCCAAGCATCCTTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
*
18600804 T---CCACCTCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
18600849 T---CCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
1 TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
*
18600894 TCCCCCACCACCCAC
1 TCCACCACC-CCCAC
18600909 TCCAGTCTAC
Statistics
Matches: 409, Mismatches: 28, Indels: 41
0.86 0.06 0.09
Matches are distributed among these distances:
45 87 0.21
47 2 0.00
48 143 0.35
49 28 0.07
50 22 0.05
51 52 0.13
52 5 0.01
53 3 0.01
54 26 0.06
55 24 0.06
56 3 0.01
57 5 0.01
58 9 0.02
ACGTcount: A:0.30, C:0.49, G:0.07, T:0.14
Consensus pattern (48 bp):
TCCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTC
Found at i:18607411 original size:8 final size:8
Alignment explanation
Indices: 18607398--18607428 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
18607388 ATACACAAGG
18607398 CATAAAGA
1 CATAAAGA
18607406 CATAAAGA
1 CATAAAGA
18607414 CATAAAGA
1 CATAAAGA
18607422 CATAAAG
1 CATAAAG
18607429 GTGGAGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (8 bp):
CATAAAGA
Found at i:18618151 original size:18 final size:18
Alignment explanation
Indices: 18618128--18618163 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18618118 ACAATAGATT
18618128 ATTATGCAAGTGCAACAA
1 ATTATGCAAGTGCAACAA
18618146 ATTATGCAAGTGCAACAA
1 ATTATGCAAGTGCAACAA
18618164 CCGCCAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
ATTATGCAAGTGCAACAA
Found at i:18624219 original size:17 final size:17
Alignment explanation
Indices: 18624197--18624268 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
18624187 CCAACAAAGT
*
18624197 TTAAATTTGTTTTAAAA
1 TTAAATTTATTTTAAAA
*
18624214 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAA
*
18624231 TTAAATTTA-CTTAAAA
1 TTAAATTTATTTTAAAA
* *
18624247 TTTAAATTTATTATAAAT
1 -TTAAATTTATTTTAAAA
18624265 TTAA
1 TTAA
18624269 GTTCAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
16 5 0.11
17 37 0.80
18 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Done.