Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 59 of 333
Found at i:17274229 original size:19 final size:19
Alignment explanation
Indices: 17274205--17274243 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17274195 TATTTTCAAA
17274205 AGTCAACTCATATTGCGAG
1 AGTCAACTCATATTGCGAG
*
17274224 AGTCAATTCATATTGCGAG
1 AGTCAACTCATATTGCGAG
17274243 A
1 A
17274244 AATGAGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (19 bp):
AGTCAACTCATATTGCGAG
Found at i:17276949 original size:15 final size:16
Alignment explanation
Indices: 17276929--17276958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17276919 CATTGCCATG
17276929 TTATA-TTTTTATGTA
1 TTATATTTTTTATGTA
17276944 TTATATTTTTTATGT
1 TTATATTTTTTATGT
17276959 TATGTACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTATATTTTTTATGTA
Found at i:17277074 original size:20 final size:22
Alignment explanation
Indices: 17277032--17277077 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
17277022 GTAGTATATA
* *
17277032 TATATATTTTGACTATTTCATG
1 TATATATTTTAAATATTTCATG
17277054 TATATATTTTAAATA-TT-ATG
1 TATATATTTTAAATATTTCATG
17277074 TATA
1 TATA
17277078 GTATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 13 0.59
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (22 bp):
TATATATTTTAAATATTTCATG
Found at i:17281480 original size:4 final size:4
Alignment explanation
Indices: 17281471--17281498 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
17281461 GTTGTTTAGA
17281471 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17281499 GTGCATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17282818 original size:18 final size:18
Alignment explanation
Indices: 17282795--17282832 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17282785 ATAAAGAAAA
17282795 GAAAAGAAATTTAAGAAC
1 GAAAAGAAATTTAAGAAC
17282813 GAAAAGAAATTTAAGAAC
1 GAAAAGAAATTTAAGAAC
17282831 GA
1 GA
17282833 CTAGGTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.05, G:0.18, T:0.16
Consensus pattern (18 bp):
GAAAAGAAATTTAAGAAC
Found at i:17291816 original size:17 final size:17
Alignment explanation
Indices: 17291780--17291830 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
17291770 GCTTTCAAGC
17291780 TTGGTGAGCTCGCA-TAT
1 TTGGTGAGCTCGCAGT-T
17291797 TTGGTGAGCTCGCAGTT
1 TTGGTGAGCTCGCAGTT
* *
17291814 TTGATGACCTCGCAGTT
1 TTGGTGAGCTCGCAGTT
17291831 CGCACTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 30 0.97
18 1 0.03
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (17 bp):
TTGGTGAGCTCGCAGTT
Found at i:17292297 original size:20 final size:20
Alignment explanation
Indices: 17292269--17292309 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17292259 ATTTTGTTAA
17292269 CTAAACCATTTGAATTAAAT
1 CTAAACCATTTGAATTAAAT
* *
17292289 CTAAGCCATTTTAATTAAAT
1 CTAAACCATTTGAATTAAAT
17292309 C
1 C
17292310 AAGAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAAACCATTTGAATTAAAT
Found at i:17298185 original size:18 final size:18
Alignment explanation
Indices: 17298120--17298234 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
17298110 AGCAATTAAT
*
17298120 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* * *
17298140 CAATCAGTGAATCA-AAA
1 CAATCAGTTATTCAGTAA
* *
17298157 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* *
17298175 CAGTCAGTTATTCGGTAA
1 CAATCAGTTATTCAGTAA
* *
17298193 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* * *
17298211 TAATCAGTTACTCAGTAT
1 CAATCAGTTATTCAGTAA
17298229 CAATCA
1 CAATCA
17298235 ATTGATCGTT
Statistics
Matches: 72, Mismatches: 22, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
17 12 0.17
18 52 0.72
20 8 0.11
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:17298204 original size:36 final size:36
Alignment explanation
Indices: 17298130--17298237 Score: 101
Period size: 36 Copynumber: 3.0 Consensus size: 36
17298120 CAATCAGTAA
* * * * * *
17298130 TATTCATTAACAATCAGTGAATCA-AAACAATTATT
1 TATTCAATAACAATCAGTTACTCAGTAACAATCAAT
* * * *
17298165 TATTCAGTAACAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAACAATCAGTTACTCAGTAACAATCAAT
* *
17298201 TATTCAATAATAATCAGTTACTCAGTATCAATCAAT
1 TATTCAATAACAATCAGTTACTCAGTAACAATCAAT
17298237 T
1 T
17298238 GATCGTTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 19 0.33
36 39 0.67
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTACTCAGTAACAATCAAT
Found at i:17298552 original size:53 final size:53
Alignment explanation
Indices: 17298433--17298553 Score: 154
Period size: 53 Copynumber: 2.3 Consensus size: 53
17298423 CCGGAACAGT
* * **
17298433 AACAGTAATAGTAGCAGTACGGTACACAAAGTACCTCATCAGAACAAATTTAG
1 AACAGTAATAGTAACAGTACGGTACACAAAGTACCTCATCAAAACAAATCGAG
* * *
17298486 AACGGTAATAGTAACAGTACGGTACACAGATTACCTCATCAAAACAAATCCGA-
1 AACAGTAATAGTAACAGTACGGTACACAAAGTACCTCATCAAAACAAAT-CGAG
*
17298539 AACAGTAACAGTAAC
1 AACAGTAATAGTAAC
17298554 GGTAACAGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 57 0.98
54 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.19
Consensus pattern (53 bp):
AACAGTAATAGTAACAGTACGGTACACAAAGTACCTCATCAAAACAAATCGAG
Found at i:17308119 original size:28 final size:28
Alignment explanation
Indices: 17308079--17308135 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
17308069 TTCAAAATCA
*
17308079 TGTAAATCAAATAATTCATTAATAGTGT
1 TGTAAATCAAATAATTCATTAACAGTGT
17308107 TGTAAATCAAATAATTCATTAACAGTGT
1 TGTAAATCAAATAATTCATTAACAGTGT
17308135 T
1 T
17308136 TGAACTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (28 bp):
TGTAAATCAAATAATTCATTAACAGTGT
Found at i:17312882 original size:26 final size:21
Alignment explanation
Indices: 17312833--17312874 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17312823 CTTCATATTG
17312833 AATTTGATAAACTGGATGGGT
1 AATTTGATAAACTGGATGGGT
17312854 AATTTGATAAACTGGATGGGT
1 AATTTGATAAACTGGATGGGT
17312875 TATCTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (21 bp):
AATTTGATAAACTGGATGGGT
Found at i:17321946 original size:27 final size:27
Alignment explanation
Indices: 17321908--17321962 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
17321898 GTTACGGAAA
*
17321908 GTTAGTTTTCTCGGGCATATAGTATCT
1 GTTAGTTTTCTCCGGCATATAGTATCT
17321935 GTTAGTTTTCTCCGGCATATAGTATCT
1 GTTAGTTTTCTCCGGCATATAGTATCT
17321962 G
1 G
17321963 CTGAAGGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
GTTAGTTTTCTCCGGCATATAGTATCT
Found at i:17328809 original size:126 final size:126
Alignment explanation
Indices: 17328584--17328834 Score: 448
Period size: 126 Copynumber: 2.0 Consensus size: 126
17328574 GTGTCTTGGC
* * *
17328584 CGTGTGAAACTTGCACCTAATTTGAGAAAATTAAATTAACCACACGGCCTAGAACATGGGTGTGT
1 CGTGTGAAACTTGCACCTAATTTCAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCGTGT
* *
17328649 GCCAGATCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACACGGT
66 GCCAGACCGTGTGACACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACACGGT
*
17328710 CGTGTGAAACTTGCACCTAATTTCTGAAAATTAAATTAACCACACAGCCTAGAACATGGGCGTGT
1 CGTGTGAAACTTGCACCTAATTTCAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCGTGT
17328775 GCCAGACCGTGTGACACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACACGG
66 GCCAGACCGTGTGACACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACACGG
17328835 CCGTATGCCT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (126 bp):
CGTGTGAAACTTGCACCTAATTTCAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCGTGT
GCCAGACCGTGTGACACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACACGGT
Found at i:17329829 original size:17 final size:17
Alignment explanation
Indices: 17329809--17329841 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17329799 CTGAACTTAA
17329809 AGATAATTTGAAAATTT
1 AGATAATTTGAAAATTT
17329826 AGATAATTTGAAAATT
1 AGATAATTTGAAAATT
17329842 GGGCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
AGATAATTTGAAAATTT
Found at i:17341795 original size:17 final size:17
Alignment explanation
Indices: 17341756--17341798 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
17341746 CTATGATTGT
**
17341756 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
17341772 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
17341789 ATTGACATTT
1 ATTGACATTT
17341799 TAAATGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:17347706 original size:19 final size:20
Alignment explanation
Indices: 17347669--17347706 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
17347659 AATGACAAGA
*
17347669 AAATGAGAAAACAAGAAAGT
1 AAATGAGAAAACAAAAAAGT
*
17347689 AAATG-GAAGACAAAAAAG
1 AAATGAGAAAACAAAAAAG
17347707 GTGAAGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.66, C:0.05, G:0.21, T:0.08
Consensus pattern (20 bp):
AAATGAGAAAACAAAAAAGT
Found at i:17351427 original size:13 final size:14
Alignment explanation
Indices: 17351403--17351431 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17351393 CGCTTGCAGT
17351403 GGCCGAAGGCCGGA
1 GGCCGAAGGCCGGA
17351417 GGCCG-AGGCCGGA
1 GGCCGAAGGCCGGA
17351430 GG
1 GG
17351432 GCTCCCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.28, G:0.55, T:0.00
Consensus pattern (14 bp):
GGCCGAAGGCCGGA
Found at i:17352055 original size:21 final size:21
Alignment explanation
Indices: 17352030--17352084 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17352020 CTTATAAATT
17352030 TTTATTATATATACATTTTAC
1 TTTATTATATATACATTTTAC
**
17352051 TTTA-TATATTATTTATTTTAC
1 TTTATTATA-TATACATTTTAC
*
17352072 TATATTTATATAT
1 TTTA-TTATATAT
17352085 GTAAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 3 0.11
23 4 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATATATACATTTTAC
Found at i:17352079 original size:25 final size:25
Alignment explanation
Indices: 17352051--17352123 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 25
17352041 TACATTTTAC
17352051 TTTATATATTATTTATT-TTACTATA
1 TTTATATATTATTTATTATTA-TATA
*
17352076 TTTATATATGTAAATTATTATTATATA
1 TTTATATAT-T-ATTTATTATTATATA
17352103 -TTATTATATTATTT-TTATTAT
1 TTTA-TATATTATTTATTATTAT
17352124 TAACTATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 7 0.17
25 12 0.29
26 5 0.12
27 15 0.36
28 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (25 bp):
TTTATATATTATTTATTATTATATA
Found at i:17352137 original size:17 final size:18
Alignment explanation
Indices: 17352096--17352137 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17352086 TAAATTATTA
*
17352096 TTATATATTATTATATTAT
1 TTAT-TATTATTATACTAT
17352115 TT-TTATTATTA-ACTAT
1 TTATTATTATTATACTAT
17352131 TTATTAT
1 TTATTAT
17352138 GTATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 12 0.57
18 1 0.05
19 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTATTATACTAT
Found at i:17353780 original size:5 final size:5
Alignment explanation
Indices: 17353764--17353793 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17353754 AAATATATAT
17353764 TTGTA TTTGTA TTGTA TTGTA TTGTA TTGT
1 TTGTA -TTGTA TTGTA TTGTA TTGTA TTGT
17353794 TTTTATACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (5 bp):
TTGTA
Found at i:17360600 original size:16 final size:17
Alignment explanation
Indices: 17360562--17360600 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
17360552 TTTTTATTAA
17360562 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
17360579 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
17360596 GTTTT
1 GTTTT
17360601 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:17362409 original size:13 final size:13
Alignment explanation
Indices: 17362391--17362417 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17362381 AAAGTAATCG
17362391 CACACGGGCGTGT
1 CACACGGGCGTGT
17362404 CACACGGGCGTGT
1 CACACGGGCGTGT
17362417 C
1 C
17362418 CCTGATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17379844 original size:24 final size:24
Alignment explanation
Indices: 17379812--17379935 Score: 158
Period size: 24 Copynumber: 5.0 Consensus size: 24
17379802 GACATTGTGC
*
17379812 TAAGTGAAATAAGACCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
*
17379836 TAAGTGAAATAAGACCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
*
17379860 TAAGTAAAATAAGTCCATGGCAATGT
1 TAAGTGAAATAAGTCCATGGC-AT-T
* *
17379886 GCTAAGTGAAATAAGTCCATGTCATC
1 --TAAGTGAAATAAGTCCATGGCATT
*
17379912 TAAGTCAAATAAGTCCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
17379936 GTGCTAAGTG
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
24 64 0.73
25 2 0.02
26 1 0.01
27 2 0.02
28 19 0.22
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (24 bp):
TAAGTGAAATAAGTCCATGGCATT
Found at i:17379916 original size:52 final size:52
Alignment explanation
Indices: 17379811--17379946 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
17379801 TGACATTGTG
* *
17379811 CTAAGTGAAATAAGACCATGGC-AT-T--TAAGTGAAATAAGACCATGGCAT
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
* * *
17379859 TTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGTCCATGTCAT
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
* *
17379911 CTAAGTCAAATAAGTCCATGGCATTGTGCTAAGTGA
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGA
17379947 GAAATTTCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 19 0.25
49 2 0.03
50 1 0.01
52 54 0.71
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (52 bp):
CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
Found at i:17380025 original size:51 final size:51
Alignment explanation
Indices: 17379970--17380168 Score: 310
Period size: 51 Copynumber: 3.9 Consensus size: 51
17379960 TGAACCATAG
*
17379970 GAATAAAATAGATTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
17380021 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCCCTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
17380072 GAATTAAATAGCTTCGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
17380123 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTCTGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
17380169 CGTGTATCTG
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 133 0.99
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:17380657 original size:17 final size:17
Alignment explanation
Indices: 17380635--17380668 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17380625 ACAGAGTCAG
17380635 AATGATTTTGGAATCTT
1 AATGATTTTGGAATCTT
17380652 AATGATTTTGGAATCTT
1 AATGATTTTGGAATCTT
17380669 CTGTTCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
AATGATTTTGGAATCTT
Found at i:17382721 original size:27 final size:27
Alignment explanation
Indices: 17382683--17382794 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
17382673 AGCATGGCTG
* *
17382683 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
17382709 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
17382737 CCAGA-ACAGATATATGTGGTAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
17382764 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
17382791 CCAG
1 CCAG
17382795 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:17382775 original size:54 final size:54
Alignment explanation
Indices: 17382683--17382794 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
17382673 AGCATGGCTG
* *
17382683 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
** * *
17382737 CCAGAACAGATATATGTGGTAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
17382791 CCAG
1 CCAG
17382795 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17390624 original size:27 final size:26
Alignment explanation
Indices: 17390561--17390671 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 26
17390551 AGCATGGCTG
* * **
17390561 CCAGAACAGATAATGTGACAGAGTAA
1 CCAGAGCAGATAATGTGGCAGAGCCA
* *
17390587 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-GCAGATAAT-GTGGCAGAGCCA
17390615 CCAGAGCAGATATATGTGGCAGAGCCA
1 CCAGAGCAGATA-ATGTGGCAGAGCCA
* * *
17390642 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAGCAGATAA-TGTGGCAGAGCCA
17390669 CCA
1 CCA
17390672 AGACGCTTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.70
28 15 0.21
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAGCAGATAATGTGGCAGAGCCA
Found at i:17390652 original size:54 final size:54
Alignment explanation
Indices: 17390561--17390671 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
17390551 AGCATGGCTG
* *
17390561 CCAGAACAGATAATGTGACAGAGTAACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCAACCAGATACAGATAATCGTGGCAGAGCCA
* * * * * *
17390615 CCAGAGCAGATATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCAACCAGATACAGATAATCGTGGCAGAGCCA
17390669 CCA
1 CCA
17390672 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCAACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17393087 original size:27 final size:27
Alignment explanation
Indices: 17393057--17393234 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
17393047 ATATTGAGTC
* *
17393057 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
17393084 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
17393111 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
17393139 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
17393166 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
17393193 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
17393220 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17393235 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17393196 original size:82 final size:81
Alignment explanation
Indices: 17393083--17393233 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
17393073 TATAATCAAC
* *
17393083 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
17393148 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
17393165 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
17393229 AGTGC
65 AGTGC
17393234 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:17420801 original size:19 final size:19
Alignment explanation
Indices: 17420757--17420802 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17420747 CCTTTTGATT
17420757 TTTTTTTTATTTCAATTGA
1 TTTTTTTTATTTCAATTGA
* * * *
17420776 GTATTTTTATTTCAGTTTA
1 TTTTTTTTATTTCAATTGA
17420795 TTTTTTTT
1 TTTTTTTT
17420803 TCTCTTGTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTTATTTCAATTGA
Found at i:17421685 original size:29 final size:29
Alignment explanation
Indices: 17421629--17421686 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
17421619 TATTATTTAT
*
17421629 TTTAAAATCTTTTATATATAATTTATTTC
1 TTTAAAATCTTTTATATATAATTGATTTC
* * **
17421658 TTTAAATTGTTTTATATATTGTTGATTTC
1 TTTAAAATCTTTTATATATAATTGATTTC
17421687 AAATTTCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTAAAATCTTTTATATATAATTGATTTC
Found at i:17421762 original size:16 final size:17
Alignment explanation
Indices: 17421726--17421764 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17421716 TAACATTGTT
*
17421726 TATTTTTTATATTTATTA
1 TATTTTTTAAATTTA-TA
17421744 TATTTTTTAAATTTA-A
1 TATTTTTTAAATTTATA
17421760 TATTT
1 TATTT
17421765 GTATTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTTAAATTTATA
Found at i:17429424 original size:23 final size:21
Alignment explanation
Indices: 17429377--17429424 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
17429367 TTACATAAGG
*
17429377 TTTAATTACCTATTAATACTT
1 TTTAATTACCTATTAATACTA
* *
17429398 TTTAATTTACTCTCTTATTACTA
1 TTTAA-TTAC-CTATTAATACTA
17429421 TTTA
1 TTTA
17429425 TAGCTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 13 0.59
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTACCTATTAATACTA
Found at i:17431935 original size:40 final size:40
Alignment explanation
Indices: 17431886--17432018 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
17431876 TCAATCTCCC
17431886 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGT
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGT
** * * *
17431926 ACACTAAGTGCTTTATATAGCCGAAGCGATTCCGATTTGT
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGT
** * * *
17431966 ACACTAAGTGCTTTATATAGTCGAAGCTA-TCTCGATACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCT-GATTCGT
17432006 ACACTAAGTGCCA
1 ACACTAAGTGCCA
17432019 AACATAATCG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.03
40 77 0.97
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGT
Found at i:17432962 original size:19 final size:19
Alignment explanation
Indices: 17432938--17432976 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17432928 TATGCGAGGG
*
17432938 ATCAGATCTATATCGTCGA
1 ATCAGATCTATATCATCGA
*
17432957 ATCAGATCTGTATCATCGA
1 ATCAGATCTATATCATCGA
17432976 A
1 A
17432977 GCATCGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (19 bp):
ATCAGATCTATATCATCGA
Found at i:17437434 original size:28 final size:27
Alignment explanation
Indices: 17437385--17437438 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
17437375 ATGCATTTCA
*
17437385 TTTATTTTTCATTTTAGTCCCTCAATTT
1 TTTATTTTTCAATTTAGTCCCT-AATTT
17437413 TTTATTTTTGCAATTTAG-CCCTAATT
1 TTTATTTTT-CAATTTAGTCCCTAATT
17437439 ACTCAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
29 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTATTTTTCAATTTAGTCCCTAATTT
Found at i:17443344 original size:21 final size:20
Alignment explanation
Indices: 17443320--17443358 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17443310 GATGTCATTC
17443320 AAATATACACATTTTTACTCT
1 AAATATA-ACATTTTTACTCT
* *
17443341 AAATGTAACCTTTTTACT
1 AAATATAACATTTTTACT
17443359 TTGTAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATATAACATTTTTACTCT
Found at i:17444686 original size:12 final size:13
Alignment explanation
Indices: 17444658--17444690 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17444648 TTATTTCTTT
17444658 TTCTCCATCTACC
1 TTCTCCATCTACC
*
17444671 TTCTCC-TCTTCC
1 TTCTCCATCTACC
17444683 TTCTCCAT
1 TTCTCCAT
17444691 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:17445790 original size:28 final size:28
Alignment explanation
Indices: 17445758--17445822 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
17445748 ATTTACTAGA
*
17445758 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGAAAAATGACCATT
* * *
17445786 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGAAAAATGACCATT
17445814 ATACCCCTA
1 ATACCCCTA
17445823 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCATT
Found at i:17445989 original size:27 final size:28
Alignment explanation
Indices: 17445928--17446017 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
17445918 AGGAAGCGTC
*
17445928 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
17445956 CTAGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
17445983 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
17446012 CTGGTG
1 CTGGTG
17446018 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:17446028 original size:29 final size:28
Alignment explanation
Indices: 17445938--17446028 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
17445928 CTGGTGGCTA
* * * *
17445938 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
17445966 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
17445993 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
17446022 TGTCACA
1 TGCCACA
17446029 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:17446036 original size:55 final size:56
Alignment explanation
Indices: 17445928--17446042 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
17445918 AGGAAGCGTC
* * *
17445928 CTGGTGGCTATGCCACAAATTATCTGTTCTAGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
* * * *
17445983 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTAGTGACCCTGCCACATATATCTGTAT
17446039 CTGG
1 CTGG
17446043 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
Found at i:17446505 original size:19 final size:19
Alignment explanation
Indices: 17446481--17446519 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17446471 TTTTAATTAT
* *
17446481 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17446500 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17446519 T
1 T
17446520 ATGATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17448713 original size:52 final size:52
Alignment explanation
Indices: 17448593--17448745 Score: 200
Period size: 52 Copynumber: 2.9 Consensus size: 52
17448583 CATATCATAT
* * *
17448593 CGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCACAC
1 CGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACA-TATCACATCACAC
* * * * **
17448646 AGATGCCATAGCCCAGCTATGGTCTTATAGGGGAA-CACGTATCACATTGCAC
1 CGATGCCATAACCCAGCTATGGTCTTATA-CGGAAGCACATATCACATCACAC
17448698 CGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCACATC
1 CGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCACATC
17448746 TTTTCCATCA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 4 0.05
52 49 0.57
53 29 0.34
54 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (52 bp):
CGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCACATCACAC
Found at i:17453023 original size:16 final size:16
Alignment explanation
Indices: 17453004--17453034 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17452994 CTTCTTCACT
17453004 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
17453020 TACTCACTTACTTAA
1 TACTCACTTACTTAA
17453035 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17453358 original size:53 final size:54
Alignment explanation
Indices: 17453231--17453485 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
17453221 ACGCGGGTAC
* * * * *
17453231 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
17453280 CTTACCATTGCCATGTCTTGACATGGTCTTTCATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
17453333 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
17453388 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
17453441 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
17453486 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 71 0.42
56 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:17453433 original size:108 final size:110
Alignment explanation
Indices: 17453278--17453478 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
17453268 ATCCTTTTGA
* * * *
17453278 AACTTACCATTGCCATGTCTTGACATGGTCTTTCATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTA-GAAACCTCACCAA
17453341 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
17453386 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
17453451 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17453479 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.08
110 28 0.34
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:17459021 original size:52 final size:52
Alignment explanation
Indices: 17458933--17459050 Score: 157
Period size: 52 Copynumber: 2.2 Consensus size: 52
17458923 ATCACATTAT
*
17458933 CACATTATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-
1 CACA-TATCACATCACACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAAG
* ** * *
17458986 CACGTATCACATTGCACTGATGCCATAACCTAGCTATGGTCTTATACGGAAG
1 CACATATCACATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAG
17459038 CACATATCACATC
1 CACATATCACATC
17459051 TTTTCCGTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 4 0.07
52 49 0.88
53 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (52 bp):
CACATATCACATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAG
Found at i:17460746 original size:42 final size:43
Alignment explanation
Indices: 17460681--17460793 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 43
17460671 ATATCGTACA
* *
17460681 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGC-TATCACATACG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGCAAATCAAATACG
17460723 ATGCCACTGTCCCAGACAGGGTCTTACA--CAAATCAAATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGCAAATCAAATACG
* *
17460764 ATGTCGA-TGTCCCAGACATGGTCTTACATG
1 ATG-CCACTGTCCCAGACAGGGTCTTACATG
17460794 TAATCATAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
40 1 0.02
41 34 0.56
42 25 0.41
43 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGCAAATCAAATACG
Found at i:17467356 original size:49 final size:49
Alignment explanation
Indices: 17467284--17467521 Score: 284
Period size: 49 Copynumber: 4.8 Consensus size: 49
17467274 TGAGGTCACG
*
17467284 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
17467333 TGTGTAGTACTAAGTGCAGGCTACTA-TTCGTACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAA--TTGGTCGCA
* * **
17467384 TGTGTAGTACTAAGTGCAGACTACTACGTGTATCAGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
*
17467432 TGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
17467483 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17467522 GCTTCGGCTA
Statistics
Matches: 158, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.03
49 74 0.47
50 37 0.23
51 42 0.27
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:17470289 original size:16 final size:15
Alignment explanation
Indices: 17470251--17470289 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
17470241 TGGATTCTCA
*
17470251 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
17470266 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
17470281 TATTCTTGG
1 TA-TCTTGG
17470290 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:17473120 original size:49 final size:50
Alignment explanation
Indices: 17473038--17473283 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
17473028 AGCTATTGTG
* * *
17473038 AGGTCACGTCTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
17473088 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
17473138 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
17473188 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
17473238 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17473284 GCTTCGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17473175 original size:28 final size:28
Alignment explanation
Indices: 17473143--17473226 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
17473133 AACTTCGATC
17473143 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
17473171 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
17473193 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
17473221 ACGTGT
1 ACGTGT
17473227 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:17476343 original size:31 final size:31
Alignment explanation
Indices: 17476305--17476378 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
17476295 ACGGTTACTA
17476305 GGCCGAAGCCTTTTCAAAAATCAAATCACTG
1 GGCCGAAGCCTTTTCAAAAATCAAATCACTG
* *
17476336 GGCCGAAG-CTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCAAAAATCAAATCACTG
17476366 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
17476379 ATTGTAAACG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 28 0.70
31 12 0.30
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCAAAAATCAAATCACTG
Found at i:17476462 original size:42 final size:42
Alignment explanation
Indices: 17476402--17476493 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
17476392 TGGCCCATAG
*
17476402 GCCCATTTCAATAACACATGAAATATCAATGAATGTATACAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
* *
17476444 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
17476486 GCCCATTT
1 GCCCATTT
17476494 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
Found at i:17476666 original size:25 final size:26
Alignment explanation
Indices: 17476638--17476786 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
17476628 CCTCTTTAAT
*
17476638 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
**
17476663 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
17476688 AATTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
17476714 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
17476740 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
17476766 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
17476787 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
25 31 0.28
26 80 0.72
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:17476867 original size:11 final size:11
Alignment explanation
Indices: 17476836--17476891 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17476826 TTATGAATTC
17476836 ATCATGTGCAT
1 ATCATGTGCAT
* *
17476847 TTCA--TACAT
1 ATCATGTGCAT
17476856 ATCATGTGCAT
1 ATCATGTGCAT
*
17476867 ATCA--TACAT
1 ATCATGTGCAT
17476876 ATCATGTGCAT
1 ATCATGTGCAT
17476887 ATCAT
1 ATCAT
17476892 ATAATTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17476901 original size:40 final size:38
Alignment explanation
Indices: 17476836--17476911 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 38
17476826 TTATGAATTC
* *
17476836 ATCATGTGCATTTCATACATATCATGTGCATATCATACAT
1 ATCATGTGCATATCATAAATATCATGT--ATATCATACAT
17476876 ATCATGTGCATATCATATAAT-TCATGTATATCATAC
1 ATCATGTGCATATCATA-AATATCATGTATATCATAC
17476912 CCCACGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 9 0.27
40 22 0.67
41 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (38 bp):
ATCATGTGCATATCATAAATATCATGTATATCATACAT
Found at i:17476902 original size:20 final size:20
Alignment explanation
Indices: 17476836--17476892 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
17476826 TTATGAATTC
*
17476836 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
17476856 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17476876 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
17476893 TAATTCATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17477635 original size:27 final size:28
Alignment explanation
Indices: 17477593--17477670 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
17477583 CACGGAACAT
17477593 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCATTTTACCATAC
* *
17477620 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCATTTTACCATAC
* * *
17477647 AGGGGCTTTTACGGTCTTTTTACC
1 AAGGGCTATTACGGTCATTTTACC
17477671 TATTAGGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 22 0.52
28 15 0.36
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
AAGGGCTATTACGGTCATTTTACCATAC
Found at i:17478005 original size:80 final size:81
Alignment explanation
Indices: 17477811--17478018 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
17477801 TTTGTAAATC
*** ** * * * *
17477811 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTT
*
17477876 GGTAACTTTACAAACT
66 GGTAACTTTACAAACG
* *
17477892 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATTTTATAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTT
* * *
17477956 GGTAATTTTACTGATCG
66 GGTAACTTTAC-AAACG
** *
17477973 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTT
17478019 GTAAATCGAG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 58 0.54
81 50 0.46
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTATAGACCAGTGGTATTTT
GGTAACTTTACAAACG
Found at i:17478019 original size:27 final size:27
Alignment explanation
Indices: 17477701--17478023 Score: 217
Period size: 27 Copynumber: 12.0 Consensus size: 27
17477691 TTTCATCCTA
* * * *
17477701 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
**
17477728 CAAGGGTATTTCAGTAA-TTTAGTAAAC
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* * * * *
17477755 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
17477784 CAAGGGTATTTT-GTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
17477810 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
17477837 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
17477864 C-AGTGGTATTTTGGTAACTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
17477891 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
17477918 TAGGGGTATTTTAGCAATTTTATAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
17477945 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
17477971 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
17477998 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
17478024 TCGAGGCTAA
Statistics
Matches: 239, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 38 0.16
27 180 0.75
28 8 0.03
29 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:17478042 original size:27 final size:27
Alignment explanation
Indices: 17478011--17478300 Score: 400
Period size: 27 Copynumber: 10.7 Consensus size: 27
17478001 GGGTATTTTA
* * **
17478011 GTAATTTTGTAAATCGAGGCTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
17478038 ATAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17478065 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
17478092 ATAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
17478119 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17478146 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17478173 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17478200 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17478227 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17478254 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
17478281 GTAATTCTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
17478301 CATTTTAGTA
Statistics
Matches: 236, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 236 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17483039 original size:44 final size:44
Alignment explanation
Indices: 17482976--17483064 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
17482966 TAAAATGTGC
* *
17482976 TGGCTTCATCAAATAATCGATAATTACGCAAATAGTATTTTTCT
1 TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
*
17483020 TGGCTTCGTCAAACAATCGATAATTACACAAATAGTATTTTTCT
1 TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
17483064 T
1 T
17483065 TTCATAGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (44 bp):
TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
Found at i:17488925 original size:16 final size:16
Alignment explanation
Indices: 17488899--17488951 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
17488889 TGAACATAGC
*
17488899 TATTCTCAAACAATAGT
1 TATTCT-AAACAATAAT
*
17488916 TGTTCTAAACAATAAT
1 TATTCTAAACAATAAT
*
17488932 TATTCTAAACAACAAT
1 TATTCTAAACAATAAT
17488948 TATT
1 TATT
17488952 GCTACGGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 27 0.84
17 5 0.16
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (16 bp):
TATTCTAAACAATAAT
Found at i:17503234 original size:17 final size:17
Alignment explanation
Indices: 17503212--17503261 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
17503202 ATTATTGATA
17503212 TAAATTTTTTTATTTTT
1 TAAATTTTTTTATTTTT
**
17503229 TAAATTAATTTATTTTTT
1 TAAATTTTTTTA-TTTTT
* *
17503247 TATATTTTTATATTT
1 TAAATTTTTTTATTT
17503262 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TAAATTTTTTTATTTTT
Found at i:17510886 original size:8 final size:8
Alignment explanation
Indices: 17510875--17510899 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17510865 AAAAATAAAA
17510875 ATACAATT
1 ATACAATT
17510883 ATACAATT
1 ATACAATT
17510891 ATACAATT
1 ATACAATT
17510899 A
1 A
17510900 ATATAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
ATACAATT
Found at i:17511510 original size:17 final size:16
Alignment explanation
Indices: 17511482--17511534 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
17511472 TTTGGTTCGC
17511482 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17511498 TGTATTGGGATTAAAGG
1 TGTATT-GGATTAGAGG
17511515 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17511531 TGTA
1 TGTA
17511535 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17511599 original size:44 final size:45
Alignment explanation
Indices: 17511515--17511605 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17511505 GGATTAAAGG
* * *
17511515 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
17511560 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
17511604 TG
1 TG
17511606 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:17511788 original size:18 final size:17
Alignment explanation
Indices: 17511767--17511801 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17511757 TTATTATTAA
*
17511767 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17511785 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17511802 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17511848 original size:61 final size:61
Alignment explanation
Indices: 17511782--17511969 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
17511772 TTTTAATTAA
17511782 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
17511843 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
17511902 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
17511963 AATATAT
1 AATATAT
17511970 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:17511889 original size:120 final size:121
Alignment explanation
Indices: 17511750--17512042 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
17511740 ATCATATTTA
17511750 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
17511815 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
17511870 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
17511935 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
17511991 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
17512043 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:17511915 original size:14 final size:15
Alignment explanation
Indices: 17511866--17511917 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17511856 ATAAAATATA
17511866 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
17511881 TATTAAATATATTAT
1 AATTAAATATATTAT
17511896 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
17511909 AATTTAATA
1 AATTAAATA
17511918 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:17512089 original size:101 final size:93
Alignment explanation
Indices: 17511983--17512265 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
17511973 ACTATAAAAG
* * * *
17511983 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
17512047 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
17512084 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
17512147 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
17512175 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
17512238 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
17512266 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:17512112 original size:26 final size:28
Alignment explanation
Indices: 17512083--17512143 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
17512073 TATGAATTTG
*
17512083 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
17512109 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
17512137 TAAAATT
1 TATAATT
17512144 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:17512141 original size:47 final size:46
Alignment explanation
Indices: 17512090--17512233 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
17512080 TTGTATAATT
17512090 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
17512137 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
17512181 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
17512228 TAAAAT
1 TAAAAT
17512234 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:17512153 original size:91 final size:90
Alignment explanation
Indices: 17512058--17512265 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
17512048 TAATTATAAC
* * * *
17512058 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
17512123 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
17512149 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
17512214 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
17512240 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
17512266 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:17512225 original size:44 final size:43
Alignment explanation
Indices: 17512083--17512225 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
17512073 TATGAATTTG
* *
17512083 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
17512127 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
17512174 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
17512218 TATAATTT
1 TATAATTT
17512226 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:17512240 original size:47 final size:47
Alignment explanation
Indices: 17512108--17512246 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
17512098 TTATTATTAC
* *
17512108 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
17512155 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
17512199 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
17512246 A
1 A
17512247 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:17514308 original size:104 final size:104
Alignment explanation
Indices: 17514172--17514596 Score: 647
Period size: 104 Copynumber: 4.1 Consensus size: 104
17514162 ATCAGGCACC
* * * * * * * *
17514172 AACCACTAAGTTAAATACTCGAGTTTATGCGAAAATTA-CAGATCAAAAACAAACTCCTGCTACA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGA-ATCAAAATCAAACTCATTCTACA
*
17514236 ATGTAAGAGCTTTGATTAATTATTTACATAAAAATCTTGA
65 ATGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
17514276 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
17514341 TGTAAGAGCTTTGATTCCTTGTTTACATGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
17514380 AACCTCTAAGTTAAATATTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
17514445 TGTAAGAGCTTTGATTCATTATTTACATGAAAATTTTTA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
17514484 AACCTCTAAGTTTAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
*
17514549 TGTAAGAGCTTTGATTCATTACTTACA-AGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATA-AAAATCTTGA
*
17514588 AGCCTCTAA
1 AACCTCTAA
17514597 ATTTACAACA
Statistics
Matches: 295, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
104 294 1.00
105 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (104 bp):
AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
Found at i:17515892 original size:16 final size:16
Alignment explanation
Indices: 17515861--17515897 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17515851 ATGTGAATAA
17515861 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17515877 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17515893 TATTA
1 TATTA
17515898 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17515949 original size:22 final size:22
Alignment explanation
Indices: 17515909--17515964 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17515899 AATAAAATTG
*
17515909 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
17515929 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
17515951 TATTAATAATTTAT
1 AAATAATAAATTAT
17515965 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:17516745 original size:9 final size:8
Alignment explanation
Indices: 17516708--17516741 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
17516698 ATTATATTCA
17516708 TTATATTT
1 TTATATTT
**
17516716 TTGGATTT
1 TTATATTT
17516724 TTATATTT
1 TTATATTT
17516732 TTATATTT
1 TTATATTT
17516740 TT
1 TT
17516742 TATAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:17522939 original size:13 final size:13
Alignment explanation
Indices: 17522907--17522939 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17522897 ACAAATTGAA
*
17522907 CCACACAGCCAGG
1 CCACACGGCCAGG
17522920 CCACACGGCCAGG
1 CCACACGGCCAGG
17522933 CCACACG
1 CCACACG
17522940 TCTGTGTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.48, G:0.24, T:0.00
Consensus pattern (13 bp):
CCACACGGCCAGG
Found at i:17529080 original size:27 final size:27
Alignment explanation
Indices: 17529030--17529081 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17529020 TGTCATGTAA
* *
17529030 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
17529057 AATTGAATGTTAAATTACTATTACA
1 AATTGAATGACAAATTACTATTACA
17529082 CGGGTAGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:17529455 original size:51 final size:49
Alignment explanation
Indices: 17529330--17529574 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 49
17529320 TCTATTGTGA
*
17529330 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
17529379 GGTCACATGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
17529429 CGGTCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * **
17529479 AGGTCACGTGTGTAGTACTAAATGCAAGCTACTACGTGTACTGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
17529529 GGTCGCATGTGTAGTACGAACTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17529575 GCCTTGTCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 79 0.48
50 45 0.27
51 40 0.24
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17535718 original size:32 final size:32
Alignment explanation
Indices: 17535682--17535745 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
17535672 ACATTTTTAG
17535682 GTGGTTTCTATTCAACGATAGCAGAGATCTTA
1 GTGGTTTCTATTCAACGATAGCAGAGATCTTA
17535714 GTGGTTTCTATTCAACGATAGCAGAGATCTTA
1 GTGGTTTCTATTCAACGATAGCAGAGATCTTA
17535746 CTTGGATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (32 bp):
GTGGTTTCTATTCAACGATAGCAGAGATCTTA
Found at i:17544308 original size:16 final size:17
Alignment explanation
Indices: 17544266--17544309 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
17544256 ATTCAAGCAA
*
17544266 ATATTTTTCTTTTTATAT
1 ATATTTTTC-ATTTATAT
17544284 ATATTTTTCATTTAT-T
1 ATATTTTTCATTTATAT
*
17544300 ATTTTTTTCA
1 ATATTTTTCA
17544310 CTCTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 5 0.21
18 9 0.38
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
ATATTTTTCATTTATAT
Found at i:17544568 original size:48 final size:48
Alignment explanation
Indices: 17544495--17544586 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
17544485 ATCAACAGGA
*
17544495 TTAACTAGGGGTTAATTCAATGAGTAAATTGTTTACAAGTTATGTGGG
1 TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATGTGGG
*
17544543 TTAACTAGGGGTTAATTCAACGAGTAAGTTGTTTACAAGTTATG
1 TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
17544587 CAGGTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (48 bp):
TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATGTGGG
Found at i:17544593 original size:48 final size:48
Alignment explanation
Indices: 17544490--17544594 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
17544480 TTAGGATCAA
*
17544490 CAGGATTAACTAGGGGTTAATTCAATGAGTAAATTGTTTACAAGTTATG
1 CAGG-TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
** *
17544539 TGGGTTAACTAGGGGTTAATTCAACGAGTAAGTTGTTTACAAGTTATG
1 CAGGTTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
17544587 CAGGTTAA
1 CAGGTTAA
17544595 ATCCTAAGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 48 0.96
49 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (48 bp):
CAGGTTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
Found at i:17545357 original size:18 final size:18
Alignment explanation
Indices: 17545332--17545386 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17545322 ATATAAGTCT
17545332 AAAA-AAAACTAAAAATA
1 AAAATAAAACTAAAAATA
* * *
17545349 AAGATAAAAGTACAAATA
1 AAAATAAAACTAAAAATA
17545367 AAAAT-AAA-TAAAACATA
1 AAAATAAAACTAAAA-ATA
17545384 AAA
1 AAA
17545387 CTGAATGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 4 0.13
17 12 0.39
18 15 0.48
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (18 bp):
AAAATAAAACTAAAAATA
Found at i:17548723 original size:21 final size:21
Alignment explanation
Indices: 17548694--17548735 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17548684 AATGACGCTT
*
17548694 TGATCCAAAGTTAAGAAGCAA
1 TGATCCAAAGTCAAGAAGCAA
* *
17548715 TGATTCAAAGTCAAGTAGCAA
1 TGATCCAAAGTCAAGAAGCAA
17548736 CACTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (21 bp):
TGATCCAAAGTCAAGAAGCAA
Found at i:17555302 original size:17 final size:17
Alignment explanation
Indices: 17555277--17555317 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17555267 TAAATGAATG
*
17555277 TTCAGAAAAACATTTTA
1 TTCATAAAAACATTTTA
*
17555294 TTCATAAAAACATTTTG
1 TTCATAAAAACATTTTA
17555311 TTCATAA
1 TTCATAA
17555318 GTATGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (17 bp):
TTCATAAAAACATTTTA
Found at i:17557683 original size:21 final size:21
Alignment explanation
Indices: 17557659--17557713 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17557649 GTTTCCACTC
17557659 CACACGGGCGTGTG-ACCCCTT
1 CACACGGGCGTGTGTA-CCCTT
* * *
17557680 CACACAGGTGTGTGTAGCCTT
1 CACACGGGCGTGTGTACCCTT
*
17557701 CACATGGGCGTGT
1 CACACGGGCGTGT
17557714 AGCCCCCCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTGTACCCTT
Found at i:17561044 original size:21 final size:21
Alignment explanation
Indices: 17561020--17561060 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17561010 TATCCCCTCC
17561020 ACACAGGTGTGTGTGGCCTTT
1 ACACAGGTGTGTGTGGCCTTT
*
17561041 ACACGGGTGTGTGTGGCCTT
1 ACACAGGTGTGTGTGGCCTT
17561061 CACATGGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.20, G:0.37, T:0.32
Consensus pattern (21 bp):
ACACAGGTGTGTGTGGCCTTT
Found at i:17561073 original size:21 final size:21
Alignment explanation
Indices: 17561019--17561073 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
17561009 ATATCCCCTC
* *
17561019 CACACAGGTGTGTGTGGCCTT
1 CACACGGGCGTGTGTGGCCTT
* *
17561040 TACACGGGTGTGTGTGGCCTT
1 CACACGGGCGTGTGTGGCCTT
*
17561061 CACATGGGCGTGT
1 CACACGGGCGTGT
17561074 AGATCCTCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.22, G:0.36, T:0.29
Consensus pattern (21 bp):
CACACGGGCGTGTGTGGCCTT
Found at i:17562993 original size:36 final size:36
Alignment explanation
Indices: 17562953--17563023 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
17562943 GAGGAGCACC
*
17562953 TTAGTCAAAATAGATCTGAAAGGCTGCTGAATTGAG
1 TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGAG
* *
17562989 TTAGTCAGAATAGATCCGAAAGGCTGTTGAATTGA
1 TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGA
17563024 ATAAAGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (36 bp):
TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGAG
Found at i:17585028 original size:25 final size:25
Alignment explanation
Indices: 17585000--17585047 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17584990 TTATATTATG
* * *
17585000 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
17585025 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
17585048 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:17585108 original size:20 final size:20
Alignment explanation
Indices: 17585083--17585149 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
17585073 ATTTTGATAT
17585083 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
17585103 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17585123 ACATAATATGTATGATATGC
1 ACATGATATGTATGATATGC
17585143 ACATGAT
1 ACATGAT
17585150 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17585110 original size:11 final size:11
Alignment explanation
Indices: 17585094--17585149 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17585084 CATGATTGAT
17585094 ATGATATGCAC
1 ATGATATGCAC
*
17585105 ATGATATG--T
1 ATGATATGCAC
17585114 ATGATATGCAC
1 ATGATATGCAC
* *
17585125 ATAATATG--T
1 ATGATATGCAC
17585134 ATGATATGCAC
1 ATGATATGCAC
17585145 ATGAT
1 ATGAT
17585150 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17585228 original size:26 final size:26
Alignment explanation
Indices: 17585199--17585270 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
17585189 GAGGAAGTGC
**
17585199 AAAAGGGCTTATGCCCTAGTTTATTGA
1 AAAAGGGCTT-TGCCCTAGTTTACCGA
* *
17585226 AAAAGGGTTTTGCCCTGGTTTACCG-
1 AAAAGGGCTTTGCCCTAGTTTACCGA
* *
17585251 AAAATGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
17585271 ATTAAAGAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 16 0.43
26 12 0.32
27 9 0.24
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCTAGTTTACCGA
Found at i:17593285 original size:20 final size:20
Alignment explanation
Indices: 17593260--17593326 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
17593250 ATTTTGATAT
17593260 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
17593280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17593300 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
17593320 ACATGAT
1 ACATGAT
17593327 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17593287 original size:11 final size:11
Alignment explanation
Indices: 17593271--17593326 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17593261 CATGATTGAT
17593271 ATGATATGCAC
1 ATGATATGCAC
*
17593282 ATGATATG--T
1 ATGATATGCAC
17593291 ATGATATGCAC
1 ATGATATGCAC
* *
17593302 ATGGTATG--T
1 ATGATATGCAC
17593311 ATGATATGCAC
1 ATGATATGCAC
17593322 ATGAT
1 ATGAT
17593327 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17593476 original size:25 final size:26
Alignment explanation
Indices: 17593376--17593499 Score: 189
Period size: 26 Copynumber: 4.8 Consensus size: 26
17593366 GAGGAAGTGC
17593376 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17593402 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
17593429 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
17593455 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17593480 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
17593500 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 31 0.34
26 35 0.38
27 26 0.28
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17600720 original size:27 final size:27
Alignment explanation
Indices: 17600675--17600776 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
17600665 AAATCCCTAT
* * * * *
17600675 TACAGAATATACCATAAAGGCGATCCA
1 TACAGAGTATGCCACAAAGGCTATACA
*
17600702 TACAGAGTATGCCACAAAGGCTATATATA
1 TACAGAGTATGCCACAAAGGC--TATACA
* *
17600731 TACAGAGTATG-C-CATAGGCTATTCA
1 TACAGAGTATGCCACAAAGGCTATACA
* *
17600756 TTCAGAGTGTGCCACAAAGGC
1 TACAGAGTATGCCACAAAGGC
17600777 ATTTTTTAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
25 13 0.22
26 1 0.02
27 30 0.51
28 1 0.02
29 14 0.24
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
TACAGAGTATGCCACAAAGGCTATACA
Found at i:17600735 original size:29 final size:29
Alignment explanation
Indices: 17600701--17600776 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 29
17600691 AAGGCGATCC
17600701 ATACAGAGTATGCCACAAAGGCTATAT-AT
1 ATACAGAGTATGCCACAAAGGCTAT-TCAT
*
17600730 ATACAGAGTATG-C-CATAGGCTATTCAT
1 ATACAGAGTATGCCACAAAGGCTATTCAT
*
17600757 -T-CAGAGTGTGCCACAAAGGC
1 ATACAGAGTATGCCACAAAGGC
17600777 ATTTTTTAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.20
26 3 0.07
27 17 0.41
28 1 0.02
29 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (29 bp):
ATACAGAGTATGCCACAAAGGCTATTCAT
Found at i:17616866 original size:20 final size:20
Alignment explanation
Indices: 17616838--17616891 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
17616828 ACAGGCAAGG
17616838 CACACGGTCGTGTGTTCAGA
1 CACACGGTCGTGTGTTCAGA
*
17616858 CACATGGTCGTGTGTTCAGA
1 CACACGGTCGTGTGTTCAGA
*
17616878 CACACGGACGTGTG
1 CACACGGTCGTGTG
17616892 AGGTACCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (20 bp):
CACACGGTCGTGTGTTCAGA
Found at i:17619038 original size:6 final size:6
Alignment explanation
Indices: 17619027--17619057 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17619017 GTCCCTTTTA
17619027 TTATTT TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
17619058 CCTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:17622756 original size:23 final size:21
Alignment explanation
Indices: 17622704--17622758 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 21
17622694 TTTAGAAAGA
*
17622704 AAAAATTAAATTAATATAAGTT
1 AAAAA-TAAAATAATATAAGTT
17622726 AAATAATAAAATAATATAAGTGAT
1 AAA-AATAAAATAATATAAGT--T
17622750 AAAAATAAA
1 AAAAATAAA
17622759 GGAAAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 17 0.59
23 8 0.28
24 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATAAAATAATATAAGTT
Found at i:17623948 original size:95 final size:95
Alignment explanation
Indices: 17623782--17624038 Score: 336
Period size: 95 Copynumber: 2.7 Consensus size: 95
17623772 TGTACTAGTG
* *
17623782 GTGGATACCTTACCGATGGCTAAGATCTTGCATATATTGCGGATTCTTCATAGCTCGTGTGAGCA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCATAGCTCGTGTGAACA
17623847 GCATTGTGTAACAGTTAATGTCGCGATTTA
66 GCATTGTGTAACAGTTAATGTCGCGATTTA
* * * *
17623877 TTGGATACCTTATCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAATA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCATAGCTCGTGTGAACA
* * **
17623942 GTATTGTGTAACGGTTAATGTTTCGATTTA
66 GCATTGTGTAACAGTTAATGTCGCGATTTA
* * * * * * * * *
17623972 GTGGATACCTTGCCAATGGCTAAGATTCTGGATGTACTAC-GATTCTTCATAGCTTGTGTGAGCA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCATAGCTCGTGTGAACA
17624036 GCA
66 GCA
17624039 CCATGTAATG
Statistics
Matches: 138, Mismatches: 24, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
94 22 0.16
95 116 0.84
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (95 bp):
GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCATAGCTCGTGTGAACA
GCATTGTGTAACAGTTAATGTCGCGATTTA
Found at i:17625301 original size:20 final size:19
Alignment explanation
Indices: 17625261--17625302 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
17625251 TATGAATATG
*
17625261 TGATGATTTTGATATGTTT
1 TGATGATTTTGATATGGTT
17625280 TGATGAGTTTTGA-ATAGGTT
1 TGATGA-TTTTGATAT-GGTT
17625300 TGA
1 TGA
17625303 ACACAACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (19 bp):
TGATGATTTTGATATGGTT
Found at i:17625446 original size:17 final size:18
Alignment explanation
Indices: 17625421--17625455 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17625411 ACTCTGCTTC
*
17625421 ATTTTTAAT-TGTTTTAT
1 ATTTATAATATGTTTTAT
17625438 ATTTATAATATGTTTTAT
1 ATTTATAATATGTTTTAT
17625456 TTAACACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
ATTTATAATATGTTTTAT
Found at i:17626492 original size:17 final size:17
Alignment explanation
Indices: 17626472--17626507 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
17626462 AATATGAAAC
17626472 GTATAAATTAATGGAAT
1 GTATAAATTAATGGAAT
*
17626489 GTATAAATTAATGGCAT
1 GTATAAATTAATGGAAT
17626506 GT
1 GT
17626508 GAGTACATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (17 bp):
GTATAAATTAATGGAAT
Found at i:17634036 original size:16 final size:16
Alignment explanation
Indices: 17634013--17634085 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 16
17634003 GAAAAGATTA
17634013 GATGAAGAAGATGAGT
1 GATGAAGAAGATGAGT
* *
17634029 GGTTAAG-AG-TGA-T
1 GATGAAGAAGATGAGT
*
17634042 GATGAAGAAGATGAGAA
1 GATGAAGAAGATGAG-T
*
17634059 GA-GAA-AAGATTA--
1 GATGAAGAAGATGAGT
17634071 GATGAAGAAGATGAG
1 GATGAAGAAGATGAG
17634086 AGAGAGGGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 15
0.66 0.11 0.23
Matches are distributed among these distances:
12 2 0.05
13 9 0.21
14 11 0.26
15 11 0.26
16 8 0.19
17 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.18
Consensus pattern (16 bp):
GATGAAGAAGATGAGT
Found at i:17634074 original size:29 final size:29
Alignment explanation
Indices: 17633999--17634091 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
17633989 ATTTCATGTT
17633999 AAGAGAAAAGATTAGATGAAGAAGATGAG
1 AAGAGAAAAGATTAGATGAAGAAGATGAG
* ** *
17634028 -TG-GTTAAGAGTGATGATGAAGAAGATGAG
1 AAGAGAAAAGA-TTA-GATGAAGAAGATGAG
17634057 AAGAGAAAAGATTAGATGAAGAAGATGAG
1 AAGAGAAAAGATTAGATGAAGAAGATGAG
17634086 AGAGAG
1 A-AGAG
17634092 GGACAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 31 0.61
30 7 0.14
31 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.16
Consensus pattern (29 bp):
AAGAGAAAAGATTAGATGAAGAAGATGAG
Done.