Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 170 of 198
Found at i:53440896 original size:44 final size:44
Alignment explanation
Indices: 53440811--53440925 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
53440801 AACTTCAGAC
* * ** * *
53440811 TCCACTGTAACTTCAGGGAGATACGATTTATAGCTTTAATATAA
1 TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
* * * **
53440855 TCTAGTGCAACTTCAGAGAGATAAGATCGATAACTTCAATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
53440899 TCCACTGCAACTTCAGGGAGATAAGAT
1 TCCACTGCAACTTCAGGGAGATAAGAT
53440926 TTGTAATTTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
Found at i:53441050 original size:44 final size:44
Alignment explanation
Indices: 53441002--53441205 Score: 153
Period size: 44 Copynumber: 4.5 Consensus size: 44
53440992 TGCTGTACTG
* *
53441002 CAACTTCAGAGAGATAAGATCTATAATTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTGTAATTTCAATCTGCTCCACTA
* * * *
53441046 CAACTTCAGGGAGATACGATTTGTAATTTGTAGCTTTAATATGTTCCACTA
1 CAACTTCAGGGAGATAAGATCTGTAA-TT-T--C---AATCTGCTCCACTA
* * * * *
53441097 CAACTTTAGGGAAATAAGAT-TCGCT-ATCTTCAGTTTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCT-G-TAAT-TTCAATCTGCTCCACTA
* * * *
53441142 CAACTTCAGGGAGATAAGA-CTTGTAACTTCAACCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATC-TGTAATTTCAATCTGCTCCACTA
53441186 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
53441206 TTTCCATAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 27
0.73 0.12 0.16
Matches are distributed among these distances:
44 55 0.44
45 31 0.25
46 2 0.02
48 2 0.02
50 3 0.02
51 32 0.25
52 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTGTAATTTCAATCTGCTCCACTA
Found at i:53441112 original size:140 final size:140
Alignment explanation
Indices: 53440860--53441207 Score: 527
Period size: 140 Copynumber: 2.5 Consensus size: 140
53440850 TATAATCTAG
* *
53440860 TGCAACTTCAGAGAGATAAGATCGATAACTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
53440925 TTTGTAATTTGTAGCTTTAATCTGTTCCGCTGCAACTTTAGGGAAATAAAATTCACTATCTTCAG
66 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
**
53440990 TCTGCTGTAC
131 TCTGCTCCAC
* * *
53441000 TGCAACTTCAGAGAGATAAGATCTATAATTTCAATCTGCTCCACTACAACTTCAGGGAGATACGA
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
53441065 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTCAG
66 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
*
53441130 TTTGCTCCAC
131 TCTGCTCCAC
* * * *
53441140 TGCAACTTCAGGGAGATAAGA-CTTGTAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATC-TATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
53441204 ATTT
65 ATTT
53441208 TCCATAATGA
Statistics
Matches: 187, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
139 1 0.01
140 186 0.99
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (140 bp):
TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
TCTGCTCCAC
Found at i:53452934 original size:3 final size:3
Alignment explanation
Indices: 53452926--53452990 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
53452916 TGGTTTTAAA
* * * * *
53452926 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
53452971 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
53452991 CAAAGGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53453635 original size:24 final size:24
Alignment explanation
Indices: 53453603--53453651 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
53453593 GGTAAGACAT
*
53453603 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTATTCACCC
53453627 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTATTCACCC
53453651 T
1 T
53453652 ATCGATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.47, G:0.04, T:0.35
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTATTCACCC
Found at i:53458278 original size:20 final size:20
Alignment explanation
Indices: 53458253--53458294 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
53458243 TACTATGTGG
53458253 TGTACTACTAATTATGTATT
1 TGTACTACTAATTATGTATT
53458273 TGTACTACTAATTATGTATT
1 TGTACTACTAATTATGTATT
53458293 TG
1 TG
53458295 GATAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TGTACTACTAATTATGTATT
Found at i:53458644 original size:14 final size:14
Alignment explanation
Indices: 53458621--53458660 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
53458611 ACAGAAAAGT
*
53458621 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
53458635 AAATCATTTTACGG
1 AAAACATTTTACAG
53458649 AAAACATTTTAC
1 AAAACATTTTAC
53458661 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:53458646 original size:34 final size:35
Alignment explanation
Indices: 53458586--53458652 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53458576 CAAACACCAG
* *
53458586 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
53458621 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
53458653 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:53460745 original size:16 final size:17
Alignment explanation
Indices: 53460720--53460754 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
53460710 GAGAGAGAGA
53460720 TGTGTGGAATGAA-AGG
1 TGTGTGGAATGAATAGG
*
53460736 TGTGTTGAATGAATAGG
1 TGTGTGGAATGAATAGG
53460753 TG
1 TG
53460755 AAGGGGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (17 bp):
TGTGTGGAATGAATAGG
Found at i:53463112 original size:16 final size:15
Alignment explanation
Indices: 53463078--53463113 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
53463068 CAATTTAAAG
53463078 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
53463093 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
53463108 AAAAAT
1 AAAAAT
53463114 ATTGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:53464611 original size:20 final size:19
Alignment explanation
Indices: 53464586--53464626 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
53464576 AATATCAAAG
*
53464586 TAATTTTCAAATTTTGAAAA
1 TAATTTTCAAAATTT-AAAA
*
53464606 TAATTTTTAAAATTTAAAA
1 TAATTTTCAAAATTTAAAA
53464625 TA
1 TA
53464627 TTTATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATTTTCAAAATTTAAAA
Found at i:53464692 original size:21 final size:20
Alignment explanation
Indices: 53464650--53464714 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
53464640 TAAAATTTAT
* *
53464650 ATTTTTAAAAAAAATTATAAA
1 ATTTTT-AAAAAATTTAAAAA
53464671 ATTTTTAAAAAATTCTAAAAA
1 ATTTTTAAAAAATT-TAAAAA
* *
53464692 AATATTAAAAAATTTAATAAA
1 ATTTTTAAAAAATTTAA-AAA
53464713 AT
1 AT
53464715 AATAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.27
21 27 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTTTAAAAAATTTAAAAA
Found at i:53464713 original size:11 final size:10
Alignment explanation
Indices: 53464653--53464714 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
53464643 AATTTATATT
53464653 TTTAAAAAAA
1 TTTAAAAAAA
* * *
53464663 ATTATAAAAT
1 TTTAAAAAAA
*
53464673 TTTTAAAAAA
1 TTTAAAAAAA
53464683 TTCTAAAAAAA
1 TT-TAAAAAAA
53464694 TATT-AAAAAA
1 T-TTAAAAAAA
*
53464704 TTTAATAAAA
1 TTTAAAAAAA
53464714 T
1 T
53464715 AATAATTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 2 0.05
10 28 0.70
11 9 0.22
12 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:53465039 original size:21 final size:21
Alignment explanation
Indices: 53465015--53465054 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53465005 ACCTTTTCTA
*
53465015 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
53465036 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
53465055 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:53469553 original size:33 final size:33
Alignment explanation
Indices: 53469463--53469560 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
53469453 TATATATATA
*
53469463 TATAC-TT-CCATGGTCCAACCATGGTCTTACG
1 TATACATTGCCATGGTCTAACCATGGTCTTACG
* * * *
53469494 -ACTGAACAACTGCCATAGCCTCACCATGGTCTTACG
1 TA-T--AC-ATTGCCATGGTCTAACCATGGTCTTACG
53469530 TATACATTGCCATGGTCTAACCATGGTCTTA
1 TATACATTGCCATGGTCTAACCATGGTCTTA
53469561 TATCCGAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
33 24 0.47
34 2 0.04
35 1 0.02
36 21 0.41
37 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (33 bp):
TATACATTGCCATGGTCTAACCATGGTCTTACG
Found at i:53482515 original size:12 final size:12
Alignment explanation
Indices: 53482468--53482515 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
53482458 GGTCCAACCC
53482468 AAAAAAAAAATT
1 AAAAAAAAAATT
*
53482480 AACAAAATAAAAAT
1 AA-AAAA-AAAATT
53482494 AAAAATAAAAATT
1 AAAAA-AAAAATT
53482507 AGAAAAAAA
1 A-AAAAAAA
53482516 TCAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.07
13 16 0.53
14 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:53483014 original size:27 final size:27
Alignment explanation
Indices: 53482975--53483043 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
53482965 ACAAAAAAAA
* **
53482975 TTATAAATAAAAATTAGAAAAAAG-GT
1 TTATAAAAAAAAAAAAGAAAAAAGAGT
53483001 TTATAAAAAGAAAAAAAGAAAAAAGAGT
1 TTATAAAAA-AAAAAAAGAAAAAAGAGT
*
53483029 TT-TAAATAAAAAAAA
1 TTATAAAAAAAAAAAA
53483044 TCAGTCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.41
27 18 0.49
28 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (27 bp):
TTATAAAAAAAAAAAAGAAAAAAGAGT
Found at i:53487035 original size:37 final size:39
Alignment explanation
Indices: 53486994--53487076 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 39
53486984 CCTTCTCTAC
* * *
53486994 ATATATAGTTTT-TATATTTTATAATTC-GTATATACAT
1 ATATATAGTTTTGTATATTTTACAATGCAATATATACAT
*
53487031 ATATAT-TTTTTGTATATTTTACAATGCATATATATACAT
1 ATATATAGTTTTGTATATTTTACAATGCA-ATATATACAT
53487070 ATATATA
1 ATATATA
53487077 TATATCCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
36 4 0.11
37 19 0.50
39 15 0.39
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (39 bp):
ATATATAGTTTTGTATATTTTACAATGCAATATATACAT
Found at i:53487041 original size:35 final size:37
Alignment explanation
Indices: 53486991--53487075 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 37
53486981 TACCCTTCTC
* * * *
53486991 TACATATATAGTTTT-TATATTTTATAATTC-GTATA
1 TACATATATATTTTTGTATATTTTACAATGCAATATA
53487026 TACATATATATTTTTTGTATATTTTACAATGCATATATA
1 TACATATATA-TTTTTGTATATTTTACAATGCA-ATATA
53487065 TACATATATAT
1 TACATATATAT
53487076 ATATATCCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 10 0.24
36 4 0.10
37 13 0.31
38 1 0.02
39 14 0.33
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (37 bp):
TACATATATATTTTTGTATATTTTACAATGCAATATA
Found at i:53487077 original size:16 final size:17
Alignment explanation
Indices: 53487058--53487091 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
53487048 TTTACAATGC
53487058 ATATATAT-ACATATAT
1 ATATATATCACATATAT
53487074 ATATATATCCACATATAT
1 ATATATAT-CACATATAT
53487092 TTTTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATATCACATATAT
Found at i:53490229 original size:6 final size:6
Alignment explanation
Indices: 53490218--53490258 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
53490208 TATAGAAACA
53490218 ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGA
1 ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGA
53490259 ATTGATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (6 bp):
ATGGAT
Found at i:53490457 original size:13 final size:14
Alignment explanation
Indices: 53490429--53490458 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53490419 AGCTTCAAAT
53490429 TATTTTTTTTATAA
1 TATTTTTTTTATAA
53490443 TATTTTTTTTA-AA
1 TATTTTTTTTATAA
53490456 TAT
1 TAT
53490459 CACTAGTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTTTTATAA
Found at i:53496291 original size:3 final size:3
Alignment explanation
Indices: 53496283--53496327 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
53496273 TTTTCACAAA
53496283 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53496328 GAGAATTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53500069 original size:18 final size:19
Alignment explanation
Indices: 53500043--53500080 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
53500033 TATCAGTATT
*
53500043 TTTACTACTATTA-TTATG
1 TTTAATACTATTATTTATG
53500061 TTTAATACTATTATTTATG
1 TTTAATACTATTATTTATG
53500080 T
1 T
53500081 ATTTTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAATACTATTATTTATG
Found at i:53500122 original size:38 final size:40
Alignment explanation
Indices: 53500039--53500122 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
53500029 ATATTATCAG
* *
53500039 TATTTTTACTACTATTATTATGTTTAATACTATTATTTATG
1 TATTTTTACTACTACTATTATGTTTAATA-TATTATTTATC
*
53500080 TATTTTTACTACTACTATTAT-TATT-AT-TCTTATTTATC
1 TATTTTTACTACTACTATTATGT-TTAATATATTATTTATC
53500118 TATTT
1 TATTT
53500123 AATATTGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 14 0.36
40 3 0.08
41 22 0.56
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (40 bp):
TATTTTTACTACTACTATTATGTTTAATATATTATTTATC
Found at i:53500461 original size:20 final size:19
Alignment explanation
Indices: 53500438--53500481 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
53500428 TTCAAAATAC
53500438 ATTTAT-ATACATACTCGTAT
1 ATTTATCATACATA-TC-TAT
53500458 ATTT-TCATACATATCTAT
1 ATTTATCATACATATCTAT
53500476 ATTTAT
1 ATTTAT
53500482 TCACACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTATCATACATATCTAT
Found at i:53500484 original size:20 final size:20
Alignment explanation
Indices: 53500444--53500479 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
53500434 ATACATTTAT
53500444 ATACATACTCGTATATTTTC
1 ATACATACTCGTATATTTTC
53500464 ATACATA-TC-TATATTT
1 ATACATACTCGTATATTT
53500480 ATTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
ATACATACTCGTATATTTTC
Found at i:53502287 original size:18 final size:18
Alignment explanation
Indices: 53502225--53502289 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
53502215 CCAACACATT
53502225 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
* *
53502243 CAATA-AA-AAACCCAACACATC
1 CAA-AGAACAAA--TAACA-A-A
53502264 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
53502282 CAAAGAAC
1 CAAAGAAC
53502290 CCAAAATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 3 0.08
18 13 0.36
19 6 0.17
20 6 0.17
21 5 0.14
22 3 0.08
ACGTcount: A:0.66, C:0.23, G:0.05, T:0.06
Consensus pattern (18 bp):
CAAAGAACAAATAACAAA
Found at i:53502429 original size:19 final size:19
Alignment explanation
Indices: 53502405--53502453 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
53502395 AAAAAAAATT
* *
53502405 AACAACCTAATATAATAGC
1 AACAACCTAAAATAAGAGC
*
53502424 AACAACCCAAAATAAGAGC
1 AACAACCTAAAATAAGAGC
53502443 AACAACCTAAA
1 AACAACCTAAA
53502454 GAATTACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.24, G:0.06, T:0.12
Consensus pattern (19 bp):
AACAACCTAAAATAAGAGC
Found at i:53503067 original size:13 final size:13
Alignment explanation
Indices: 53503049--53503076 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53503039 AAAGAGGAAT
53503049 GAAAGATGAAGAA
1 GAAAGATGAAGAA
53503062 GAAAGATGAAGAA
1 GAAAGATGAAGAA
53503075 GA
1 GA
53503077 CAGTGTGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (13 bp):
GAAAGATGAAGAA
Found at i:53504869 original size:33 final size:33
Alignment explanation
Indices: 53504800--53504950 Score: 134
Period size: 33 Copynumber: 4.5 Consensus size: 33
53504790 ATGTGAAGGG
*
53504800 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
53504827 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
53504860 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
53504902 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
53504935 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
53504951 ATCCACTGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
27 21 0.21
31 2 0.02
32 2 0.02
33 35 0.35
34 6 0.06
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
41 6 0.06
42 20 0.20
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:53504904 original size:102 final size:102
Alignment explanation
Indices: 53504727--53504923 Score: 304
Period size: 102 Copynumber: 1.9 Consensus size: 102
53504717 ATAAAAGGAT
* * * ** *
53504727 TTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGTTAAGTACTGATTGCACCATATTTTAAAT
1 TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
*
53504792 GTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
* * *
53504829 TTGCTAAGTGCTGATTTCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAAT
1 TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
53504894 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
53504924 GAATCATTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (102 bp):
TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
GTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
Found at i:53509084 original size:9 final size:9
Alignment explanation
Indices: 53509070--53509098 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
53509060 TTTCAAATCA
53509070 CAACCAATT
1 CAACCAATT
53509079 CAACCAATT
1 CAACCAATT
53509088 CAACCAATT
1 CAACCAATT
53509097 CA
1 CA
53509099 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:53510598 original size:24 final size:24
Alignment explanation
Indices: 53510579--53510623 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
53510569 CATATATTTC
53510579 TGTTTTAT-AATATTTTTATAGTT
1 TGTTTTATGAATATTTTTATAGTT
*
53510602 TGTTTTATGTATA-TTTTATAGT
1 TGTTTTATGAATATTTTTATAGT
53510624 CCAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (24 bp):
TGTTTTATGAATATTTTTATAGTT
Found at i:53510772 original size:14 final size:14
Alignment explanation
Indices: 53510749--53510791 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
53510739 TATTAATATA
53510749 TATTTA-CTTTTTT
1 TATTTACCTTTTTT
*
53510762 TATTTACCTTTATT
1 TATTTACCTTTTTT
53510776 TATTT-CCATTTTTT
1 TATTTACC-TTTTTT
53510790 TA
1 TA
53510792 GATACCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTACCTTTTTT
Found at i:53511650 original size:21 final size:21
Alignment explanation
Indices: 53511626--53511665 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53511616 ATGTACCTAA
53511626 AAATTAGGTATAAACTAAGAG
1 AAATTAGGTATAAACTAAGAG
*
53511647 AAATTAGGTATAAATTAAG
1 AAATTAGGTATAAACTAAG
53511666 TACTCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (21 bp):
AAATTAGGTATAAACTAAGAG
Found at i:53518109 original size:2 final size:2
Alignment explanation
Indices: 53518102--53518128 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53518092 ATTCAGCCTA
53518102 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
53518129 ATTGTTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53523856 original size:34 final size:34
Alignment explanation
Indices: 53523813--53523880 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
53523803 GCATTTTTGA
* * *
53523813 CACTGTACTGAGATGGGCTAAGGCTCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAATACTGT
*
53523846 CACTGATACTGAAAAGGGCTTAGGCCCAATACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAATACTGT
53523881 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAATACTGT
Found at i:53524931 original size:28 final size:28
Alignment explanation
Indices: 53524898--53525140 Score: 337
Period size: 28 Copynumber: 8.7 Consensus size: 28
53524888 AGTACACTGA
*
53524898 GGGCCTTAGCCCAATACAGTAA-CAATGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
* *
53524926 GGGCCTTAGCCCAATACAGAATCTGTAT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* *
53524954 GGGCCTTAGCCCAATATAGAATTAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
53524982 GGGCCTTAGCCCAATACAGTAAT-AGTGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
53525010 GGGCCTTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
53525038 TGGCCTTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* ** *
53525066 TGGCCTTAGAACAATACATAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* *
53525094 GAGCCTTAGCCCAATACAGAATTAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
53525122 GGGCTTTAGCCCAATACAG
1 GGGCCTTAGCCCAATACAG
53525141 TAACAATGCA
Statistics
Matches: 192, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.03
28 184 0.96
29 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGAATCAGTGT
Found at i:53525297 original size:26 final size:26
Alignment explanation
Indices: 53525254--53525303 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
53525244 ACCAATATTG
* *
53525254 CAGCAAAGCTGCCGGTAATAGTATCA
1 CAGCAAAGCTGCCAGTAACAGTATCA
*
53525280 CAGCAAAGCTGCTAGTAACAGTAT
1 CAGCAAAGCTGCCAGTAACAGTAT
53525304 ATGTGGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATCA
Found at i:53525440 original size:15 final size:14
Alignment explanation
Indices: 53525420--53525458 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
53525410 GTCATGCTCA
53525420 ATCATAGTCATACAT
1 ATCATAGTC-TACAT
53525435 ATCATAGATCTACAT
1 ATCATAG-TCTACAT
*
53525450 ATCCTAGTC
1 ATCATAGTC
53525459 CAGTATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (14 bp):
ATCATAGTCTACAT
Found at i:53531157 original size:13 final size:13
Alignment explanation
Indices: 53531139--53531163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53531129 TAAGTTATAT
53531139 GTGTGAAAATTTC
1 GTGTGAAAATTTC
53531152 GTGTGAAAATTT
1 GTGTGAAAATTT
53531164 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:53532115 original size:2 final size:2
Alignment explanation
Indices: 53532108--53532141 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53532098 TTAAACTAGA
53532108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53532142 GGAAATCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53532781 original size:41 final size:41
Alignment explanation
Indices: 53532736--53532827 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
53532726 GGCTATGTGC
* *
53532736 CTAGCAGGCTTAATGCTGGTGAAATAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATACGT
* * * *
53532777 CTAGCAGGCTTAATGCTGGTGATACATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATACGT
53532818 CTAGCAGGCT
1 CTAGCAGGCT
53532828 AAAAGCCGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCTGGTGAAACAATTCAGACTATACGT
Found at i:53533330 original size:2 final size:2
Alignment explanation
Indices: 53533277--53533310 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53533267 TTATAATGAG
53533277 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
53533311 CACACACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53534053 original size:15 final size:14
Alignment explanation
Indices: 53534019--53534048 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
53534009 CCAAGCTTAT
53534019 TATATTTAAATATA
1 TATATTTAAATATA
53534033 TATATTT-AATATA
1 TATATTTAAATATA
53534046 TAT
1 TAT
53534049 GTATTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTAAATATA
Found at i:53539061 original size:13 final size:13
Alignment explanation
Indices: 53539043--53539067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53539033 TAAGTTATAT
53539043 GTGTGAAAATTTC
1 GTGTGAAAATTTC
53539056 GTGTGAAAATTT
1 GTGTGAAAATTT
53539068 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:53540026 original size:2 final size:2
Alignment explanation
Indices: 53540019--53540054 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
53540009 ATTAACTAGA
53540019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53540055 GGAAATCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53540690 original size:41 final size:41
Alignment explanation
Indices: 53540645--53540747 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
53540635 GGCTATGTGC
* *
53540645 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGG-CTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTC-GGACTATACGT
* * *
53540686 CTAGCAGGCTTAATGCCGGTGATACATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCGGACTATACGT
* *
53540727 CTAGCAGGCTAAAAGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
53540748 TATCGAATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.04
41 52 0.96
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATTCGGACTATACGT
Found at i:53541420 original size:15 final size:14
Alignment explanation
Indices: 53541386--53541415 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
53541376 CCAAGCTTAT
53541386 TATATTTAAATATA
1 TATATTTAAATATA
53541400 TATATTT-AATATA
1 TATATTTAAATATA
53541413 TAT
1 TAT
53541416 GTATTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTAAATATA
Found at i:53545891 original size:15 final size:15
Alignment explanation
Indices: 53545854--53545922 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
53545844 AAATTAATCC
*
53545854 AATTCAATTTGATTT
1 AATTTAATTTGATTT
*
53545869 -TTTATAATTTGATTT
1 AATT-TAATTTGATTT
*
53545884 TATTTAATTCT--TTT
1 AATTTAATT-TGATTT
*
53545898 AATTTAATTTAATTT
1 AATTTAATTTGATTT
53545913 AATTTAATTT
1 AATTTAATTT
53545923 TAATATACCT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 1 0.02
14 13 0.29
15 28 0.62
16 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTTAATTTGATTT
Found at i:53545903 original size:5 final size:5
Alignment explanation
Indices: 53545873--53545922 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
53545863 TGATTTTTTA
* *
53545873 TAATT TGATT TTATT TAATT CT--TT TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT -TAATT TAATT TAATT TAATT TAATT TAATT
53545922 T
1 T
53545923 TAATATACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 35 0.90
6 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (5 bp):
TAATT
Found at i:53555566 original size:26 final size:28
Alignment explanation
Indices: 53555518--53555570 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
53555508 GCCCATTTTT
*
53555518 TAATAAACATTAAAAACTATTTTAAAAA
1 TAATAAACAATAAAAACTATTTTAAAAA
53555546 TAATAAA-AATAAAAA-TATTTTAAAA
1 TAATAAACAATAAAAACTATTTTAAAA
53555571 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
27 7 0.29
28 7 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAAACAATAAAAACTATTTTAAAAA
Found at i:53555767 original size:18 final size:17
Alignment explanation
Indices: 53555740--53555775 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
53555730 TCCCATATTT
*
53555740 CGGGCGGGCCGTCGGGC
1 CGGGCGGGCCGTCCGGC
53555757 CGGGCCGGGCCGTCCGGC
1 CGGG-CGGGCCGTCCGGC
53555775 C
1 C
53555776 TATGGACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.42, G:0.53, T:0.06
Consensus pattern (17 bp):
CGGGCGGGCCGTCCGGC
Found at i:53556304 original size:43 final size:42
Alignment explanation
Indices: 53556243--53556367 Score: 180
Period size: 41 Copynumber: 3.0 Consensus size: 42
53556233 TTGTCCACAT
* *
53556243 AAACGCCACTAAAGAACATGACCTTTATCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTAT-AC
* * *
53556286 AAACGCCGCTAAGGAACATGACCTTTAGCGATGCTTTTA-GC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATAC
*
53556327 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATA
53556368 GACCTTTATC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
41 37 0.51
43 35 0.49
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATAC
Found at i:53556454 original size:44 final size:43
Alignment explanation
Indices: 53556368--53556491 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 43
53556358 CGCTTTTATA
* * *
53556368 GACCTTTATCGGCGCTTTTTTCACAATCGCCACTAAAGAACAT
1 GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAAGAACAT
* ** *
53556411 GACCTTTAGCGGCACTTTTTATCACAAAGGCTGCTAAATAACAT
1 GACCTTTAGCGGCACTTTTT-TCACAAACGCCACTAAAGAACAT
* * * * *
53556455 GACCTTTAGCGACGCTTTATTAACAAACACCACTAAA
1 GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAA
53556492 AGTACCGTTC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
43 30 0.46
44 35 0.54
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAAGAACAT
Found at i:53571520 original size:164 final size:164
Alignment explanation
Indices: 53571249--53571557 Score: 600
Period size: 164 Copynumber: 1.9 Consensus size: 164
53571239 TATCCCACAT
*
53571249 TCAATTTGATCCTGGTTTTATCTGTTTCCTGTTATTATCTCAAGTACTGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTTTCCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
53571314 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
53571379 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
131 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
*
53571413 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTTTCCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
53571478 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
53571543 TACGGTCTTTTTCTT
131 TACGGTCTTTTTCTT
53571558 CATAAAGCTC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 143 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (164 bp):
TCAATTTGATCCTGGTTTTATCTGTTTCCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
Found at i:53574625 original size:3 final size:3
Alignment explanation
Indices: 53574619--53574650 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
53574609 AGAGGAGGAG
*
53574619 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
53574651 GAAAACAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:53576084 original size:20 final size:19
Alignment explanation
Indices: 53576044--53576084 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
53576034 TTTTAAATTT
* *
53576044 ATTTTATTTTATTATTCTA
1 ATTTTATTTTATTACTATA
53576063 ATTTTAATTTTATTACTATA
1 ATTTT-ATTTTATTACTATA
53576083 AT
1 AT
53576085 ATTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATTTTATTACTATA
Found at i:53586160 original size:3 final size:3
Alignment explanation
Indices: 53586152--53586183 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53586142 GCTTAGTTAA
53586152 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
53586184 ATAATTGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:53589940 original size:20 final size:20
Alignment explanation
Indices: 53589915--53589954 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53589905 TTACCGGACC
53589915 GCTGATATGGCAAGTTAACT
1 GCTGATATGGCAAGTTAACT
*
53589935 GCTGATATGGCCAGTTAACT
1 GCTGATATGGCAAGTTAACT
53589955 TGTCACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (20 bp):
GCTGATATGGCAAGTTAACT
Found at i:53590210 original size:17 final size:17
Alignment explanation
Indices: 53590197--53590235 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
53590187 AAAAAATTTT
53590197 AAAATATTTTAAATTAA
1 AAAATATTTTAAATTAA
53590214 AAAATATTTTAAAATTAA
1 AAAATATTTT-AAATTAA
53590232 AAAA
1 AAAA
53590236 ATTAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATATTTTAAATTAA
Found at i:53590218 original size:40 final size:39
Alignment explanation
Indices: 53590161--53590296 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 39
53590151 ACCAAAAATT
53590161 TATTTTAAAAATTAAAATAAAAATTAAAAAAATTTTAAAA-
1 TATTTTAAAAA--AAAATAAAAATTAAAAAAATTTTAAAAG
**
53590201 TATTTTAAATTAAAAAATATTTTAAAATTAAAAAAATTAAAAAAG
1 TATTTTAAA--AAAAAATA----AAAATTAAAAAAATTTTAAAAG
* * *
53590246 TAATTTT-AAAAAAATTTAAAATTTAAAAAATTTAATAAAAG
1 T-ATTTTAAAAAAAAATAAAAATTAAAAAAATTT--TAAAAG
53590287 TATTTTAAAA
1 TATTTTAAAA
53590297 GTATTTTAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
39 14 0.18
40 20 0.26
41 9 0.12
42 2 0.03
43 6 0.08
44 19 0.24
45 3 0.04
46 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (39 bp):
TATTTTAAAAAAAAATAAAAATTAAAAAAATTTTAAAAG
Found at i:53590295 original size:11 final size:11
Alignment explanation
Indices: 53590281--53590307 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53590271 AAAAATTTAA
53590281 TAAAAGTATTT
1 TAAAAGTATTT
53590292 TAAAAGTATTT
1 TAAAAGTATTT
53590303 TAAAA
1 TAAAA
53590308 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:53590312 original size:40 final size:39
Alignment explanation
Indices: 53590214--53590327 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 39
53590204 TTTAAATTAA
53590214 AAAATATTTTAAAATTAAAAAAATTAAAAAAGTAATTTT
1 AAAATATTTTAAAATTAAAAAAATTAAAAAAGTAATTTT
* * *
53590253 AAAAAAATTTAAAATTTAAAAAATTTAATAAAAGT-ATTTT
1 AAAATATTTTAAAA-TTAAAAAAATTAA-AAAAGTAATTTT
53590293 AAAAGTATTTTAAAATTAAAAAAA-TAAAAAA-TAAT
1 AAAA-TATTTTAAAATTAAAAAAATTAAAAAAGTAAT
53590328 AAAAATATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 6 0.09
39 15 0.23
40 29 0.45
41 14 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
AAAATATTTTAAAATTAAAAAAATTAAAAAAGTAATTTT
Found at i:53591063 original size:40 final size:39
Alignment explanation
Indices: 53590980--53591127 Score: 167
Period size: 39 Copynumber: 3.7 Consensus size: 39
53590970 CCAAAAAATT
*
53590980 TATTTTAAAAATTAAAATAAAAATTAAAAAAATTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATT-AAAAAAGTATTTTAAAAA
*
53591024 TATTTTAAAATTAAAAAAATTAAAGAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
* * *
53591063 -AATTTAAAATTTAAAAAATTTAATAAAAGTATTTTAAAAG
1 TATTTTAAAA-TTAAAAAAATTAA-AAAAGTATTTTAAAAA
53591103 TATTTTAAAATT-AAAAAA-TAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAA
53591128 TAATAAAAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
37 4 0.04
38 11 0.12
39 33 0.35
40 23 0.25
41 10 0.11
43 6 0.06
44 6 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:53591100 original size:11 final size:11
Alignment explanation
Indices: 53591086--53591112 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53591076 AAAAATTTAA
53591086 TAAAAGTATTT
1 TAAAAGTATTT
53591097 TAAAAGTATTT
1 TAAAAGTATTT
53591108 TAAAA
1 TAAAA
53591113 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:53591157 original size:5 final size:5
Alignment explanation
Indices: 53591147--53591177 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
53591137 TAATTATATT
53591147 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC
53591178 AAAAAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:53591996 original size:3 final size:3
Alignment explanation
Indices: 53591988--53592056 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
53591978 CAATTTTTTC
* *
53591988 TCT TCT TC- TCTT TCT TCT TCT TCT TCT TCT TC- TCC TCT TCT TAT
1 TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
53592032 TCT TCT T-T TCT TCT T-T TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
53592057 AAACCCAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 8 0.14
3 46 0.82
4 2 0.04
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:53592004 original size:9 final size:8
Alignment explanation
Indices: 53591981--53592054 Score: 64
Period size: 8 Copynumber: 9.2 Consensus size: 8
53591971 GGCATCTCAA
53591981 TTTT-TTC
1 TTTTCTTC
*
53591988 TCTTCTTC
1 TTTTCTTC
53591996 TCTTTCTTC
1 T-TTTCTTC
53592005 --TTCTTC
1 TTTTCTTC
53592011 TTCTTCTTC
1 TT-TTCTTC
**
53592020 TCCTCTTC
1 TTTTCTTC
53592028 TTATTCTTC
1 TT-TTCTTC
53592037 TTTTCTTC
1 TTTTCTTC
*
53592045 TTTTCCTC
1 TTTTCTTC
53592053 TT
1 TT
53592055 CTAAACCCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
6 6 0.11
7 3 0.06
8 25 0.46
9 20 0.37
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTCTTC
Found at i:53598525 original size:41 final size:41
Alignment explanation
Indices: 53598443--53598530 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
53598433 GGTTTATTGT
** * *
53598443 CAGTGAAATAATTCAAACTTTATGTCTAGCAGGCCTGATGC
1 CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
* * *
53598484 CAGTGAAATTATTCAGACTACAAGTCTAGCAGGCTTAATGC
1 CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
*
53598525 CGGTGA
1 CAGTGA
53598531 TACATTTCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
Found at i:53603384 original size:17 final size:16
Alignment explanation
Indices: 53603337--53603384 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
53603327 GGCCTAGAAT
*
53603337 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
53603354 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
53603372 ATTTGATAGATTA
1 ATTTGATAGATTA
53603385 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:53603914 original size:21 final size:21
Alignment explanation
Indices: 53603888--53603949 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
53603878 ATTGGGTGAA
*
53603888 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
53603909 TCAGCTCTTACGAGCTTCTGA
1 TCAGCTCTTACGAGCTTCTGT
53603930 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
53603949 T
1 T
53603950 GGCGTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 11 0.29
20 2 0.05
21 25 0.66
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:53609518 original size:29 final size:28
Alignment explanation
Indices: 53609477--53609531 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
53609467 TATACATGCA
53609477 TACATACATTTTT-TATAATATATATACG
1 TACATACATTTTTCT-TAATATATATACG
* *
53609505 TACATAACCTTTTTCTTAATTTATATA
1 TACAT-ACATTTTTCTTAATATATATA
53609532 GATATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 17 0.74
30 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (28 bp):
TACATACATTTTTCTTAATATATATACG
Found at i:53610141 original size:71 final size:71
Alignment explanation
Indices: 53610025--53610159 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
53610015 TCTTTTCAAA
* * * *
53610025 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCCT
53610090 TTTTTT
66 TTTTTT
* *
53610096 CTCAAGTTTTAAATAATCTCGGGAATTAAGAAAAGTTCATGTCCTAACTTACTGAGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCC
53610160 CCCTTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCCT
TTTTTT
Found at i:53622231 original size:45 final size:45
Alignment explanation
Indices: 53621822--53622229 Score: 466
Period size: 45 Copynumber: 9.1 Consensus size: 45
53621812 ACAGATCAGT
* * * * * *
53621822 GAAGATAGTAGATATTGCCTTCCTGTACTGACAGCGAAA-CAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATC
* * *
53621867 GAAGATAGAAGATCTTGTCTTCTTGTATTGGCAGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
53621912 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
53621956 TGAAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAA-TAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATC
* * *
53622002 AAAGATAGTAGGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* ** * *
53622046 TGAAGATAGCAGATCTTATCTTCCTGTATTAACAGTAAAGTAGATT
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* * * *
53622092 GAAGATAGCATG-TCTTATTTTCCTGTATTGGCAACAAAGTAGACC
1 GAAGATAGCA-GATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* * *
53622137 GAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
53622182 GAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
53622227 GAA
1 GAA
53622230 TACTGGCTTC
Statistics
Matches: 311, Mismatches: 43, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
44 9 0.03
45 298 0.96
46 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
Found at i:53622308 original size:44 final size:44
Alignment explanation
Indices: 53622245--53622543 Score: 246
Period size: 44 Copynumber: 6.8 Consensus size: 44
53622235 GCTTCAAATT
* * *
53622245 TTATCTCTCTGAATTTGCAGTGGAGCAAATTAAAGCCATAAACC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * *
53622289 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA-ATAATAAACT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ATAAACC
* * * * * * * **
53622333 TTATCCCTCTGAAGTTGCAGTGGGGTAGGTTGAAGATACAAGTC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * *
53622377 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTAT-AAACC
* * * * * ** *
53622422 TTATTTCCCTGAAGTTGCAGTGGAGCAGGTTAACGATACCAATC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * * *
53622466 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAA-CTACTAATCC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-TAAACC
*
53622511 TATATC-CT-TGAAGTTGCAGTGGAGCGGATTAAA
1 T-TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
53622544 ATGATGAATT
Statistics
Matches: 202, Mismatches: 47, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.01
44 152 0.75
45 43 0.21
46 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
Found at i:53622468 original size:89 final size:87
Alignment explanation
Indices: 53622288--53622535 Score: 256
Period size: 89 Copynumber: 2.8 Consensus size: 87
53622278 AGCCATAAAC
* * * *
53622288 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATAAT-AAACTTTA-TCCCTCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAAT-ATCAAACCTTATTTCC-CTGAAGTTGC
* *
53622351 AGTGGGGTAGGTTGAAGATACAAGT
63 AGTGGAGCAGGTTGAAGATACAAGT
53622376 CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATTTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAA-ATATCAAACCTTATTTCCCTGAAGTTGCA
53622441 GTGGAGCAGGTT-AACGATACCAA-T
64 GTGGAGCAGGTTGAA-GATA-CAAGT
* * * * * *
53622465 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAACTA-CTAATCC-TATATCCTTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAA-TATC-AAACCTTATTTCCCTGAAGTTGC
53622528 AGTGGAGC
63 AGTGGAGC
53622536 GGATTAAAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
88 61 0.44
89 72 0.52
90 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAATATCAAACCTTATTTCCCTGAAGTTGCAGT
GGAGCAGGTTGAAGATACAAGT
Found at i:53622482 original size:133 final size:133
Alignment explanation
Indices: 53622245--53622535 Score: 308
Period size: 133 Copynumber: 2.2 Consensus size: 133
53622235 GCTTCAAATT
* * * *
53622245 TTATCTCTCTGAATTTGCAGTGGAGCAAATTAAAGCCATAAACCTTATCTCTCTGAAGTTGCAGT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAAGACATAAACCTTATCTCCCTGAAGTTGCAGT
* * * * *
53622310 AGAGCAGATTAAAATAATAAACTTTATCCCTCTGAAGTTGCAGTGGGGTAGGTTGAAGA-TAC-A
66 AGAGCAGATTAAAATAACAAACTTTATCCCTCTAAAGTTGCAGTGGAGCAGATTGAA-ACTACTA
53622373 AGT-C
130 A-TCC
* * * *
53622377 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATTTCCCTGAAGTTGCAG
1 TTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAAGACAT-AAACCTTATCTCCCTGAAGTTGCAG
* * * * * *
53622442 TGGAGCAGGTTAACGATACCAATC-TTATCTCC-CTAAAGTTGTAGTGGAGCAGATTGAAACTAC
65 TAGAGCAGATTAA-AATAACAAACTTTATC-CCTCTAAAGTTGCAGTGGAGCAGATTGAAACTAC
53622505 TAATCC
128 TAATCC
53622511 TATATC-CT-TGAAGTTGCAGTGGAGC
1 T-TATCTCTCTGAAGTTGCAGTGGAGC
53622536 GGATTAAAAT
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
132 34 0.26
133 81 0.61
134 14 0.11
135 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAAGACATAAACCTTATCTCCCTGAAGTTGCAGT
AGAGCAGATTAAAATAACAAACTTTATCCCTCTAAAGTTGCAGTGGAGCAGATTGAAACTACTAA
TCC
Found at i:53622566 original size:88 final size:89
Alignment explanation
Indices: 53622288--53622574 Score: 245
Period size: 88 Copynumber: 3.2 Consensus size: 89
53622278 AGCCATAAAC
* * * *
53622288 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TTAAAATAAT-AAA-CTT-TATCCCTCTGAAGTT
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAT-ATCAAACCTTATAT-CC-CTGAAGTT
* * *
53622349 GCAGTGGGGTAGGTTGAA-GATA-CAAGT
63 GCAGTGGAGCAGGTT-AACAATACCAA-T
* *
53622376 CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATTTCCCTGAAGTTGCA
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATATCCCTGAAGTTGCA
*
53622441 GTGGAGCAGGTTAACGATACCAAT
66 GTGGAGCAGGTTAACAATACCAAT
* * * * *
53622465 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAA-ACTA-CTAATCC-TATATCCTTGAAGTTG
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGA-TATC-AAACCTTATATCCCTGAAGTTG
**
53622527 CAGTGGAGC-GGATTAA-AATGATGAAT
64 CAGTGGAGCAGG-TTAACAAT-ACCAAT
* *
53622553 TTTATCTATCTAAAGTTGCAGT
1 CTTATCTCTCTAAAGTTGCAGT
53622575 AAAGCAGATC
Statistics
Matches: 169, Mismatches: 20, Indels: 20
0.81 0.10 0.10
Matches are distributed among these distances:
87 4 0.02
88 84 0.50
89 71 0.42
90 8 0.05
91 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (89 bp):
CTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATATCCCTGAAGTTGCA
GTGGAGCAGGTTAACAATACCAAT
Found at i:53624236 original size:29 final size:29
Alignment explanation
Indices: 53624187--53624246 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
53624177 ATTAACTATT
*
53624187 TTAATCTTATTACTACTATTATTATA-TCA
1 TTAATATTATTACTACTATTATT-TACTCA
*
53624216 TTAATATTATTATTA-TCATTATTTACTCA
1 TTAATATTATTACTACT-ATTATTTACTCA
53624245 TT
1 TT
53624247 TATGTCTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAATATTATTACTACTATTATTTACTCA
Found at i:53624931 original size:70 final size:72
Alignment explanation
Indices: 53624832--53624974 Score: 236
Period size: 70 Copynumber: 2.0 Consensus size: 72
53624822 TCTTTTCAAA
* * *
53624832 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGAT-CC
1 CTCAAGTTTTAAATAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
53624896 TTTTTTT
66 TTTTTTT
53624903 CTCAAG-TTTAAATAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAATAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT-CC
53624967 CTTTTTTT
65 CTTTTTTT
53624975 TTTAAATCCG
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
70 52 0.78
71 6 0.09
72 9 0.13
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (72 bp):
CTCAAGTTTTAAATAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTTT
Found at i:53626321 original size:23 final size:24
Alignment explanation
Indices: 53626293--53626338 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
53626283 ATATTATTTA
53626293 AATAAAAA-ACCCTAAAATTTAAC
1 AATAAAAATACCCTAAAATTTAAC
* *
53626316 AATAAAAATACTCTAACATTTAA
1 AATAAAAATACCCTAAAATTTAA
53626339 AATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (24 bp):
AATAAAAATACCCTAAAATTTAAC
Found at i:53626969 original size:27 final size:26
Alignment explanation
Indices: 53626939--53627012 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
53626929 CAAAAATCAA
53626939 TAAAAATATAAAATTTATTAAATTTAT
1 TAAAAATATAAAATTT-TTAAATTTAT
* *
53626966 TAAAAATAAAAGAATATTTAAATTTAT
1 TAAAAATATAA-AATTTTTAAATTTAT
53626993 TAAAAAT-TAGAAATTTTTAA
1 TAAAAATATA-AAATTTTTAA
53627013 TAAAAATCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.22
27 28 0.68
28 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TAAAAATATAAAATTTTTAAATTTAT
Found at i:53627046 original size:10 final size:10
Alignment explanation
Indices: 53627031--53627077 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
53627021 GTAAAAGAAC
53627031 TATAAAAAAT
1 TATAAAAAAT
**
53627041 TATAAAATTT
1 TATAAAAAAT
53627051 TAT-AAAAAT
1 TATAAAAAAT
*
53627060 CATAAAAAAAT
1 TAT-AAAAAAT
53627071 TATAAAA
1 TATAAAA
53627078 TACATTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
9 6 0.21
10 15 0.52
11 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:53627056 original size:40 final size:41
Alignment explanation
Indices: 53626994--53627077 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 41
53626984 TAAATTTATT
* * *
53626994 AAAAATTAGAAATTTTTAATAAAAATCGTAAAAGAACTATA
1 AAAAATTAGAAAATTTTAATAAAAATCATAAAAAAACTATA
* *
53627035 AAAAATTATAAAATTTT-ATAAAAATCATAAAAAAATTATA
1 AAAAATTAGAAAATTTTAATAAAAATCATAAAAAAACTATA
53627075 AAA
1 AAA
53627078 TACATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 23 0.61
41 15 0.39
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (41 bp):
AAAAATTAGAAAATTTTAATAAAAATCATAAAAAAACTATA
Found at i:53627087 original size:20 final size:20
Alignment explanation
Indices: 53627012--53627077 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
53627002 GAAATTTTTA
* * *
53627012 ATAAAAATCGTAAAAGAACT
1 ATAAAAATCATAAAAAAATT
* **
53627032 ATAAAAAATTAT-AAAATTTT
1 AT-AAAAATCATAAAAAAATT
53627052 ATAAAAATCATAAAAAAATT
1 ATAAAAATCATAAAAAAATT
53627072 ATAAAA
1 ATAAAA
53627078 TACATTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 8 0.23
20 20 0.57
21 7 0.20
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (20 bp):
ATAAAAATCATAAAAAAATT
Found at i:53627087 original size:40 final size:39
Alignment explanation
Indices: 53626994--53627088 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 39
53626984 TAAATTTATT
* *
53626994 AAAAATTAGAAATTTTTAATAAAAATCGTAAAAGAACTATA
1 AAAAATTA-AAA-TTTTAATAAAAATCATAAAAAAACTATA
*
53627035 AAAAATTATAAAATTTT-ATAAAAATCATAAAAAAATTATA
1 AAAAA-T-TAAAATTTTAATAAAAATCATAAAAAAACTATA
53627075 AAATACATTAAAAT
1 AAA-A-ATTAAAAT
53627089 ACCCTTTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
40 29 0.62
41 11 0.23
42 5 0.11
43 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (39 bp):
AAAAATTAAAATTTTAATAAAAATCATAAAAAAACTATA
Found at i:53627304 original size:17 final size:19
Alignment explanation
Indices: 53627263--53627314 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
53627253 AGTATAATAT
53627263 TTTTATAACTTTTTTTACGAA
1 TTTTATAA--TTTTTTACGAA
*
53627284 TTTTAT-ATTTTTTAC-AT
1 TTTTATAATTTTTTACGAA
53627301 TTTTATAATTTTTT
1 TTTTATAATTTTTT
53627315 TGACTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.24
18 15 0.52
20 1 0.03
21 6 0.21
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:53627392 original size:19 final size:19
Alignment explanation
Indices: 53627357--53627423 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
53627347 CTTCTATATT
** *
53627357 TTTTTATAAAAAATTACAG
1 TTTTTATAAAATTTTACAA
53627376 TTTTTATAAAATTTTACAA
1 TTTTTATAAAATTTTACAA
* **
53627395 TTTTTTTATAAATTTTATGA
1 TTTTTATA-AAATTTTACAA
53627415 TTTTTATAA
1 TTTTTATAA
53627424 TTTTTTTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTTATAAAATTTTACAA
Found at i:53627419 original size:21 final size:21
Alignment explanation
Indices: 53627319--53627411 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 21
53627309 TTTTTTTGAC
*
53627319 TTTATAAAATTTTAGAATTTT
1 TTTATAAAATTTTACAATTTT
* * *
53627340 TTCTAT--ACTTCTA-TATTTT
1 TT-TATAAAATTTTACAATTTT
** *
53627359 TTTATAAAAAATTAC-A-GTT
1 TTTATAAAATTTTACAATTTT
53627378 TTTATAAAATTTTACAATTTT
1 TTTATAAAATTTTACAATTTT
53627399 TTTAT-AAATTTTA
1 TTTATAAAATTTTA
53627412 TGATTTTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
18 3 0.05
19 22 0.40
20 18 0.33
21 9 0.16
22 3 0.05
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATAAAATTTTACAATTTT
Found at i:53627446 original size:29 final size:29
Alignment explanation
Indices: 53627387--53627511 Score: 95
Period size: 29 Copynumber: 4.5 Consensus size: 29
53627377 TTTTATAAAA
*
53627387 TTTTACAATTTTTTTATAAATTTTATGAT
1 TTTTATAATTTTTTTATAAATTTTATGAT
*
53627416 TTTTATAATTTTTTTCT-AATTTTAAAT-AT
1 TTTTATAATTTTTTTATAAATTTT--ATGAT
* * *
53627445 TTTTAT-ATTTTTATTA-AAACTTAATAAT
1 TTTTATAATTTTT-TTATAAATTTTATGAT
* *
53627473 TTTTATAA--CTTTTATTAATTTT-T-AT
1 TTTTATAATTTTTTTATAAATTTTATGAT
*
53627498 TTTTATCATTTTTT
1 TTTTATAATTTTTT
53627512 GTCACATATC
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
25 9 0.12
26 4 0.05
27 11 0.14
28 20 0.26
29 30 0.39
30 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTTATAATTTTTTTATAAATTTTATGAT
Found at i:53627456 original size:18 final size:19
Alignment explanation
Indices: 53627397--53627458 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
53627387 TTTTACAATT
53627397 TTTTTATAA-A-TTTTATGA
1 TTTTTATAATATTTTTAT-A
* *
53627415 TTTTTATAATTTTTTTCTA
1 TTTTTATAATATTTTTATA
*
53627434 ATTTTA-AATATTTTTATA
1 TTTTTATAATATTTTTATA
53627452 TTTTTAT
1 TTTTTAT
53627459 TAAAACTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 24 0.69
19 6 0.17
20 5 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTATAATATTTTTATA
Found at i:53628093 original size:13 final size:13
Alignment explanation
Indices: 53628075--53628104 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53628065 TATATTAAAA
53628075 AAATTAATTCAAT
1 AAATTAATTCAAT
*
53628088 AAATTAATTCATT
1 AAATTAATTCAAT
53628101 AAAT
1 AAAT
53628105 ATTAAGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTCAAT
Found at i:53637648 original size:3 final size:3
Alignment explanation
Indices: 53637634--53637675 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
53637624 GGTTTGTTTC
*
53637634 TCT TCC TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
53637676 ACCAGGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:53644618 original size:6 final size:6
Alignment explanation
Indices: 53644607--53644633 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
53644597 CTCTCAATGA
53644607 AAGCTG AAGCTG AAGCTG AAGCTG AAG
1 AAGCTG AAGCTG AAGCTG AAGCTG AAG
53644634 GGATTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (6 bp):
AAGCTG
Found at i:53651877 original size:29 final size:29
Alignment explanation
Indices: 53651836--53651897 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
53651826 TGGTATTCCC
53651836 TAAG-GGTGGGAGTAAGAGAAATAAGAGT
1 TAAGTGGTGGGAGTAAGAGAAATAAGAGT
53651864 TAAGTGGTGGGAGTAAGAGAAATAAGAGT
1 TAAGTGGTGGGAGTAAGAGAAATAAGAGT
53651893 TAAGT
1 TAAGT
53651898 TATTTGACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (29 bp):
TAAGTGGTGGGAGTAAGAGAAATAAGAGT
Found at i:53652010 original size:22 final size:22
Alignment explanation
Indices: 53651979--53652026 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
53651969 CAAGTTATTT
* * *
53651979 GACTTGATGGCATTTCTTGAAA
1 GACTTAATGGCATCTCTTAAAA
*
53652001 GACTTAATGGTATCTCTTAAAA
1 GACTTAATGGCATCTCTTAAAA
53652023 GACT
1 GACT
53652027 AAACTTTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (22 bp):
GACTTAATGGCATCTCTTAAAA
Found at i:53658958 original size:2 final size:2
Alignment explanation
Indices: 53658951--53659005 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
53658941 NNNNNNNNNT
53658951 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
*
53658993 TA TA TA TG TA TA T
1 TA TA TA TA TA TA T
53659006 TAATAAAGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53667516 original size:3 final size:3
Alignment explanation
Indices: 53667508--53667552 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
53667498 TGGGGGTCTC
53667508 ATT 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
53667553 GTTGTAGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:53668280 original size:16 final size:16
Alignment explanation
Indices: 53668259--53668294 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
53668249 TTTGGTTCGC
53668259 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
53668275 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
53668291 TGTA
1 TGTA
53668295 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:53668359 original size:44 final size:45
Alignment explanation
Indices: 53668275--53668365 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
53668265 GGATTAGAGG
* * *
53668275 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
53668320 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
53668364 TG
1 TG
53668366 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:53668551 original size:18 final size:17
Alignment explanation
Indices: 53668530--53668564 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53668520 TTATTATTAA
*
53668530 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53668548 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53668565 TCTTATAATT
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:53668701 original size:156 final size:157
Alignment explanation
Indices: 53668417--53668732 Score: 589
Period size: 156 Copynumber: 2.0 Consensus size: 157
53668407 TAGAATACCC
53668417 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
53668482 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
53668547 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
53668573 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
53668638 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTTTTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
53668703 TATATAATTTAATAAATTTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
53668730 TTA
1 TTA
53668733 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 148 0.95
157 7 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (157 bp):
TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:53668706 original size:16 final size:16
Alignment explanation
Indices: 53668666--53668707 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53668656 TTAATCATAT
*
53668666 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
53668682 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
53668697 TTAAAATATAT
1 TTAAAATATAT
53668708 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:53668814 original size:120 final size:119
Alignment explanation
Indices: 53668669--53668893 Score: 396
Period size: 120 Copynumber: 1.9 Consensus size: 119
53668659 ATCATATTTA
* * *
53668669 AACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTTCTTAATAATTAA
1 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
53668734 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATA-TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
53668789 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTCA
1 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
53668854 TATTCTTATATAATTTATTCAAATCATAATATATGATACT
66 TATTCTTATATAATTTACTCAAATCATAATATATGATACT
53668894 ATAATTAATA
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 29 0.29
120 71 0.71
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (119 bp):
AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:53668827 original size:18 final size:17
Alignment explanation
Indices: 53668806--53668840 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53668796 ATATTATTAA
*
53668806 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53668824 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53668841 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:53668969 original size:26 final size:27
Alignment explanation
Indices: 53668894--53668975 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
53668884 ATATGATACT
* *
53668894 ATAATTAATATTAAATATATTTTAATTA
1 ATAATTATTATTAAATATAATTTAA-TA
* *
53668922 A-AATATATGATTAAATACAATTTAA-A
1 ATAAT-TATTATTAAATATAATTTAATA
*
53668948 ATAATTATTATTAAATATAATTTCATA
1 ATAATTATTATTAAATATAATTTAATA
53668975 A
1 A
53668976 AATGTTCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTATTATTAAATATAATTTAATA
Found at i:53676596 original size:26 final size:26
Alignment explanation
Indices: 53676558--53676610 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
53676548 TTGATAATAA
* *
53676558 TATCAATACCAACTAAATTAAGACTT
1 TATCAATAACAACCAAATTAAGACTT
*
53676584 TATCTATAACAACCAAATTAAGACTT
1 TATCAATAACAACCAAATTAAGACTT
53676610 T
1 T
53676611 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (26 bp):
TATCAATAACAACCAAATTAAGACTT
Found at i:53680542 original size:42 final size:42
Alignment explanation
Indices: 53680483--53680567 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
53680473 AAGAGGGGGA
53680483 CGGAAGTGCTGAACATCAGAACTTGCACCAGCATGAACCATC
1 CGGAAGTGCTGAACATCAGAACTTGCACCAGCATGAACCATC
53680525 CGGAAGTGCTGAACATCAGAACTTGCACCAGCATGAACCATC
1 CGGAAGTGCTGAACATCAGAACTTGCACCAGCATGAACCATC
53680567 C
1 C
53680568 TTTTCAGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.16
Consensus pattern (42 bp):
CGGAAGTGCTGAACATCAGAACTTGCACCAGCATGAACCATC
Found at i:53692324 original size:25 final size:25
Alignment explanation
Indices: 53692296--53692407 Score: 81
Period size: 25 Copynumber: 4.5 Consensus size: 25
53692286 ATGAACTCCC
*
53692296 CGATATATGGCTCTTCAGAGCTTTT
1 CGATATATGGCTCTTCAGAGCTTCT
* * *
53692321 CGATAAATGGCTCTT-ATGATCTTCC
1 CGATATATGGCTCTTCA-GAGCTTCT
* *
53692346 CGAT-TAATGGCCCTCCAGAGCTTCT
1 CGATAT-ATGGCTCTTCAGAGCTTCT
* *
53692371 CGATAT-TGGCTCGCTTGA-ACCTTCT
1 CGATATATGGCT--CTTCAGAGCTTCT
53692396 CGATAT-TGGCTC
1 CGATATATGGCTC
53692408 GTATGAGTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 57 0.84
26 5 0.07
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
CGATATATGGCTCTTCAGAGCTTCT
Found at i:53692356 original size:50 final size:50
Alignment explanation
Indices: 53692280--53692375 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
53692270 ACACATCGTA
* * *
53692280 GCTCTTATGAACTCCCCGATATATGGCTCTTCAGAGCTTTTCGATAAATG
1 GCTCTTATGAACTCCCCGATATATGGCCCTCCAGAGCTTCTCGATAAATG
* *
53692330 GCTCTTATGATCTTCCCGAT-TAATGGCCCTCCAGAGCTTCTCGATA
1 GCTCTTATGAACTCCCCGATAT-ATGGCCCTCCAGAGCTTCTCGATA
53692376 TTGGCTCGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (50 bp):
GCTCTTATGAACTCCCCGATATATGGCCCTCCAGAGCTTCTCGATAAATG
Found at i:53692490 original size:25 final size:25
Alignment explanation
Indices: 53692410--53692498 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
53692400 ATTGGCTCGT
* * *
53692410 ATGAGTTTCCGATTACATGT-CTCA
1 ATGAGCTTCCCATTATATGTGCTCA
*
53692434 CATGAGCTTCCCGTTATATG-GCTCGA
1 -ATGAGCTTCCCATTATATGTGCTC-A
*
53692460 AAGAGCTTCCCATT-TATGTGCTCA
1 ATGAGCTTCCCATTATATGTGCTCA
53692484 TATGAGCATTCCCAT
1 -ATGAGC-TTCCCAT
53692499 ATACGAATTG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
24 5 0.10
25 39 0.75
26 8 0.15
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGTGCTCA
Found at i:53692871 original size:25 final size:25
Alignment explanation
Indices: 53692837--53692889 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
53692827 ATATATGGTA
53692837 AGTTAATTTCCCGTCATACAAAAGC
1 AGTTAATTTCCCGTCATACAAAAGC
53692862 AGTTAATTTCCCGTCATACAAAAGC
1 AGTTAATTTCCCGTCATACAAAAGC
53692887 AGT
1 AGT
53692890 AAATGCTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (25 bp):
AGTTAATTTCCCGTCATACAAAAGC
Found at i:53706385 original size:20 final size:20
Alignment explanation
Indices: 53706360--53706399 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53706350 CGTAAATTGA
*
53706360 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
53706380 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
53706400 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:53706389 original size:34 final size:34
Alignment explanation
Indices: 53706346--53706411 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
53706336 AGTAAAATAT
* *
53706346 TTTTCGTAAATTGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
53706379 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
53706412 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.38
35 13 0.45
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:53715561 original size:50 final size:50
Alignment explanation
Indices: 53715446--53715694 Score: 329
Period size: 50 Copynumber: 4.8 Consensus size: 50
53715436 GATAATAACA
* **
53715446 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
53715497 GGCCCATGCCATGTCCCAGACATGATCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
53715547 TGCCAACT-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
53715597 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
*
53715652 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
53715695 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
50 95 0.55
51 32 0.18
53 5 0.03
55 2 0.01
56 40 0.23
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:53716082 original size:29 final size:31
Alignment explanation
Indices: 53716032--53716089 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
53716022 CCTCGACTCT
* *
53716032 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTACAAAATTATCATTTTTGCCCCTA
*
53716062 AACTTTTACATAATTA-CATTTTTGCCCC
1 AACTTTTACAAAATTATCATTTTTGCCCC
53716090 AAGAATCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
AACTTTTACAAAATTATCATTTTTGCCCCTA
Found at i:53718275 original size:22 final size:23
Alignment explanation
Indices: 53718250--53718293 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
53718240 TTGGTGAGAA
53718250 AGTCT-TTTTATAGTATGCAACG
1 AGTCTATTTTATAGTATGCAACG
53718272 AGTCTAGTTTTATAGTATGCAA
1 AGTCTA-TTTTATAGTATGCAA
53718294 TATTGTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (23 bp):
AGTCTATTTTATAGTATGCAACG
Found at i:53729192 original size:18 final size:17
Alignment explanation
Indices: 53729159--53729197 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
53729149 TTTTATAAAT
53729159 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
53729177 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
53729194 TGTG
1 TGTG
53729198 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.