Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004708.1 Hibiscus syriacus cultivar Beakdansim tig00010590_pilon, whole genome shotgun sequence
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: 95833
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2124 original size:23 final size:23
Alignment explanation
Indices: 2064--2126 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2054 AATGATTTAG
* *
2064 TGCTGATTGATTCAACAAAACAA
1 TGCTGAATGATTCAGCAAAACAA
* *
2087 TGCTGACTGATTCAGCAAAATAA
1 TGCTGAATGATTCAGCAAAACAA
*
2110 TGTTGAATGATTCAGCA
1 TGCTGAATGATTCAGCA
2127 CAGAAGTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (23 bp):
TGCTGAATGATTCAGCAAAACAA
Found at i:4406 original size:24 final size:24
Alignment explanation
Indices: 4356--4429 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
4346 AACACAAATG
* ***
4356 AACGAACATAAATGAACGGATGTA
1 AACGAACATAAATGAACGTAAACA
4380 AACGAACATAAATGAACGTAAACA
1 AACGAACATAAATGAACGTAAACA
*
4404 AAC--ACAATAAATGAACATAAACA
1 AACGAAC-ATAAATGAACGTAAACA
4427 AAC
1 AAC
4430 ATAAATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
22 2 0.05
23 19 0.43
24 23 0.52
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (24 bp):
AACGAACATAAATGAACGTAAACA
Found at i:4417 original size:23 final size:23
Alignment explanation
Indices: 4387--4430 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4377 GTAAACGAAC
*
4387 ATAAATGAACGTAAACAAACACA
1 ATAAATGAACATAAACAAACACA
4410 ATAAATGAACATAAACAAACA
1 ATAAATGAACATAAACAAACA
4431 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.16, G:0.07, T:0.14
Consensus pattern (23 bp):
ATAAATGAACATAAACAAACACA
Found at i:4617 original size:14 final size:14
Alignment explanation
Indices: 4598--4647 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
4588 ATTGGACTAA
*
4598 ACATAAATAAACGC
1 ACATAAACAAACGC
4612 ACATAAACAAACGC
1 ACATAAACAAACGC
* *
4626 GCATAAACGAACGC
1 ACATAAACAAACGC
4640 ACATAAAC
1 ACATAAAC
4648 GAACATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.54, C:0.26, G:0.10, T:0.10
Consensus pattern (14 bp):
ACATAAACAAACGC
Found at i:4917 original size:37 final size:36
Alignment explanation
Indices: 4868--4937 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
4858 TAGACAGTCG
4868 TTCGTACATACGTGTATATAT-GTACAGGAATGATCA
1 TTCGTACATACGTGTATATATGGT-CAGGAATGATCA
4904 TTCGTTACATACGTGTATATATGGTCAGGAATGA
1 TTCG-TACATACGTGTATATATGGTCAGGAATGA
4938 ACTAATGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
36 4 0.12
37 26 0.81
38 2 0.06
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (36 bp):
TTCGTACATACGTGTATATATGGTCAGGAATGATCA
Found at i:5075 original size:23 final size:23
Alignment explanation
Indices: 5026--5075 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
5016 ATAATATATT
* * *
5026 TTCACTTCCTATAATTTTATAAG
1 TTCACTTCCTAAAATTTTAGAAA
*
5049 TTCACTTCTTAAAATTTTAGAAA
1 TTCACTTCCTAAAATTTTAGAAA
5072 TTCA
1 TTCA
5076 ACCTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.46
Consensus pattern (23 bp):
TTCACTTCCTAAAATTTTAGAAA
Found at i:5759 original size:10 final size:10
Alignment explanation
Indices: 5741--5807 Score: 80
Period size: 10 Copynumber: 6.7 Consensus size: 10
5731 AAAAAATAAT
5741 GATTAAAGTA
1 GATTAAAGTA
*
5751 GATTGAAGTA
1 GATTAAAGTA
*
5761 GATTAAATTA
1 GATTAAAGTA
*
5771 GATTGAAGTA
1 GATTAAAGTA
*
5781 GATTAAATTA
1 GATTAAAGTA
* *
5791 AATTGAAGTA
1 GATTAAAGTA
5801 GATTAAA
1 GATTAAA
5808 TTACAAGATA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 45 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (10 bp):
GATTAAAGTA
Found at i:5766 original size:20 final size:20
Alignment explanation
Indices: 5741--5810 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
5731 AAAAAATAAT
*
5741 GATTAAAGTAGATTGAAGTA
1 GATTAAATTAGATTGAAGTA
5761 GATTAAATTAGATTGAAGTA
1 GATTAAATTAGATTGAAGTA
*
5781 GATTAAATTAAATTGAAGTA
1 GATTAAATTAGATTGAAGTA
5801 GATTAAATTA
1 GATTAAATTA
5811 CAAGATAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (20 bp):
GATTAAATTAGATTGAAGTA
Found at i:7469 original size:113 final size:112
Alignment explanation
Indices: 7250--7537 Score: 488
Period size: 113 Copynumber: 2.6 Consensus size: 112
7240 TTGTCGGTTT
* *
7250 GTGTCGATACTTTATAAAAATATATTGATCCATAATAATATAACAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
7315 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAA
66 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAA
*
7362 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACATGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* *
7427 CAGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CAGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAA
* *
7475 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
7538 AGGTAAAGCG
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
111 15 0.09
112 46 0.28
113 105 0.63
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTAAAA
Found at i:7590 original size:91 final size:92
Alignment explanation
Indices: 7435--7629 Score: 356
Period size: 91 Copynumber: 2.1 Consensus size: 92
7425 ACCAGTTTAT
*
7435 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
*
7500 CGATCCATAACAATATAACAGGT-AAA
66 CGATCCAAAACAATATAACAGGTAAAA
*
7526 AAATGACAAAACAGGTAAAGCGCTACCGGTTATATTGAAAGTATCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
7591 CGATCCAAAACAATATAACAGGTAAAA
66 CGATCCAAAACAATATAACAGGTAAAA
7618 AAATGACAAAAC
1 AAATGACAAAAC
7630 CGGTCTATAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 85 0.85
92 15 0.15
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.23
Consensus pattern (92 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
CGATCCAAAACAATATAACAGGTAAAA
Found at i:7876 original size:182 final size:182
Alignment explanation
Indices: 7563--8369 Score: 1218
Period size: 182 Copynumber: 4.4 Consensus size: 182
7553 GGTTATATTG
* *
7563 AAAGTATCGATACTTTATAAAAATGTATCGATCCAAAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
** * * * * * *
7628 ACCGGTCTATAAATGACAAAACAAGTAAAGCGCTATCGGATATGTTGATAGTGCCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
*
7693 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAATTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* * *
7745 AAAGTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAATATGAAAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
* * * *
7810 ATCGGTCTCGAAATGATAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTTAATACTTTAT
66 ACCGGTCTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
* *
7875 TATAAGTATCGATACTTTTGGAATTTAAAAGAAAAGAAGTTATAACGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* *
7927 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAAGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
* ** * *
7992 AACGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCAATACTTTAT
66 ACCGGTCTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
* *
8057 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGTTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* * * * * *
8109 AAAGTGTCGATATTTTATATAAATGTATCGGTTCATAATAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
* * * **
8174 ACCGGTTTCAAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTTGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
*
8239 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* *
8291 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
*
8356 ACCGGTATCGAAAT
66 ACCGGTCTCGAAAT
8370 AAAAAAAATC
Statistics
Matches: 558, Mismatches: 67, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 558 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
ACCGGTCTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCAATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
Found at i:8450 original size:26 final size:25
Alignment explanation
Indices: 8397--8446 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8387 AAAAAGTATG
8397 TTTGTGTGGTCATTTTTATTTCTGA
1 TTTGTGTGGTCATTTTTATTTCTGA
8422 TTTGTGTGGTCATTTTTATTTCTGA
1 TTTGTGTGGTCATTTTTATTTCTGA
8447 ATTTTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.20, T:0.60
Consensus pattern (25 bp):
TTTGTGTGGTCATTTTTATTTCTGA
Found at i:9599 original size:5 final size:5
Alignment explanation
Indices: 9589--9616 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9579 TGACTTAGAA
9589 ACCCG ACCCG ACCCG ACCCG ACCCG ACC
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACC
9617 AGAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.61, G:0.18, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:14042 original size:20 final size:21
Alignment explanation
Indices: 14019--14058 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14009 GTTTGAAAAA
14019 TTATTT-GAGTATCGATACCC
1 TTATTTAGAGTATCGATACCC
*
14039 TTATTTAGGGTATCGATACC
1 TTATTTAGAGTATCGATACC
14059 ATCACCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (21 bp):
TTATTTAGAGTATCGATACCC
Found at i:20631 original size:45 final size:44
Alignment explanation
Indices: 20570--20680 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 44
20560 TAGGAAACTT
* * *
20570 AGGCGAGATCTGGGTCACACAAAATTAACATCTCCTTATTACCTC
1 AGGCTAGATCCGGGTCA-ACAAAATTAACACCTCCTTATTACCTC
* * * *
20615 AGGCTAGGTTCGGGTCATACAACATTGACACCTCCTTATTACCTC
1 AGGCTAGATCCGGGTCA-ACAAAATTAACACCTCCTTATTACCTC
20660 AGGCTAGATCCGGGTCAACAA
1 AGGCTAGATCCGGGTCAACAA
20681 TATCGACATC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 4 0.07
45 52 0.93
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
AGGCTAGATCCGGGTCAACAAAATTAACACCTCCTTATTACCTC
Found at i:21536 original size:18 final size:19
Alignment explanation
Indices: 21491--21542 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
21481 TCCAATGTGG
*
21491 GTAGTATCGATACTCTACTT
1 GTAGTATCGATAC-CCACTT
*
21511 GTAGTATCGATACCCATTT
1 GTAGTATCGATACCCACTT
*
21530 G-AGTATCGGTACC
1 GTAGTATCGATACC
21543 AAAAATGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 11 0.38
19 5 0.17
20 13 0.45
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (19 bp):
GTAGTATCGATACCCACTT
Found at i:23645 original size:21 final size:22
Alignment explanation
Indices: 23619--23673 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
23609 GAAATTTCTC
*
23619 AGTATCGATACTCT-TATATGG
1 AGTATCGATACTCTATATAAGG
23640 AGTATCGATACTTCTATATAAGG
1 AGTATCGATAC-TCTATATAAGG
*
23663 -GTATCAATACT
1 AGTATCGATACT
23674 ACCCCAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.40
22 12 0.40
23 6 0.20
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
AGTATCGATACTCTATATAAGG
Found at i:23672 original size:22 final size:22
Alignment explanation
Indices: 23619--23673 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
23609 GAAATTTCTC
*
23619 AGTATCGATAC-TCTTATATGG
1 AGTATCGATACTTCTTATAAGG
23640 AGTATCGATACTTCTATATAAGG
1 AGTATCGATACTTCT-TATAAGG
*
23663 -GTATCAATACT
1 AGTATCGATACT
23674 ACCCCAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 6 0.20
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
AGTATCGATACTTCTTATAAGG
Found at i:23762 original size:20 final size:21
Alignment explanation
Indices: 23724--23762 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
23714 AAATAGCTGA
23724 GTATCAATACCTTTATTTAAG
1 GTATCAATACCTTTATTTAAG
* *
23745 GTATCGATA-CTTTCTTTA
1 GTATCAATACCTTTATTTA
23763 GTAGGGATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
GTATCAATACCTTTATTTAAG
Found at i:29081 original size:4 final size:4
Alignment explanation
Indices: 29072--29098 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
29062 TTTCAACATA
29072 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
29099 AATTAGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:29224 original size:3 final size:3
Alignment explanation
Indices: 29211--29256 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
29201 AAACAAATTA
29211 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29257 CAATTAGGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29428 original size:29 final size:29
Alignment explanation
Indices: 29374--29429 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
29364 GTTGTTAGAG
* **
29374 TGCAATAAAATAAAATTTAGTGGTTAATA
1 TGCAATAAAATAAAAGTTAGCAGTTAATA
*
29403 TGCAATAAAATGAAAGTTAGCAGTTAA
1 TGCAATAAAATAAAAGTTAGCAGTTAA
29430 CTTGAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.30
Consensus pattern (29 bp):
TGCAATAAAATAAAAGTTAGCAGTTAATA
Found at i:29838 original size:22 final size:21
Alignment explanation
Indices: 29811--29852 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
29801 ATTCATGCTA
29811 AAAAAAGAAAGAAAACAAACAT
1 AAAAAAGAAAGAAAA-AAACAT
29833 AAAAAAGAAAGAAAAAAACA
1 AAAAAAGAAAGAAAAAAACA
29853 CCGGCATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAAGAAAAAAACAT
Found at i:31352 original size:67 final size:67
Alignment explanation
Indices: 31281--31411 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
31271 GATTAACGAG
* * * *
31281 CAATGAATT-GAGTAATAAATTTTCTTAACGAGTATGAGTCGAGCAAAATTTTAACGAGCTTAAC
1 CAATG-ATTCGAGTAATAAATTTTCTTAACGAGCACGAGTCAAACAAAATTTTAACGAGCTTAAC
31345 AAT
65 AAT
31348 CAATGATTCGAGTAATAAATTTTCTTAACGAGCACGAGTCAAACAAAATTTTAACGAGCTTAAC
1 CAATGATTCGAGTAATAAATTTTCTTAACGAGCACGAGTCAAACAAAATTTTAACGAGCTTAAC
31412 GAGCAAGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 3 0.05
67 56 0.95
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (67 bp):
CAATGATTCGAGTAATAAATTTTCTTAACGAGCACGAGTCAAACAAAATTTTAACGAGCTTAACA
AT
Found at i:32381 original size:2 final size:2
Alignment explanation
Indices: 32376--32410 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
32366 GTAGGGGTAT
*
32376 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32411 GTATGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32710 original size:20 final size:20
Alignment explanation
Indices: 32687--32724 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32677 GTCTGTAAGT
32687 TTATAATATATAATATAATA
1 TTATAATATATAATATAATA
* *
32707 TTATATTATATTATATAA
1 TTATAATATATAATATAA
32725 AAATTAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATAATATATAATATAATA
Found at i:36298 original size:24 final size:24
Alignment explanation
Indices: 36271--36316 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36261 TAATAATTGG
*
36271 ATTTAACATCTTTAAAATTTTATA
1 ATTTAACATCCTTAAAATTTTATA
*
36295 ATTTTACATCCTTAAAATTTTA
1 ATTTAACATCCTTAAAATTTTA
36317 ATATACATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTAACATCCTTAAAATTTTATA
Found at i:40682 original size:175 final size:175
Alignment explanation
Indices: 40137--42045 Score: 2428
Period size: 175 Copynumber: 11.0 Consensus size: 175
40127 GAGCAGAATG
40137 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
40202 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
40267 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
* * * * * * * **
40312 TTAGTACTT-AAACTTTTAATTT-TTTAAA--TTATATCTAA-CATTTA-GT--TTTTG--TAAA
1 TTAG-ACTTGGAA---TCAGTTTCTGTAAAGCTTATA--TAATCGTGTACCTACTTAAGAATAAA
* *
40367 GCATACAATTCATTTTTTTAAGTAGGGATA-ATGTTAAG-AATATGAAG-TTGA--TA-TC-TAA
60 --ATACAATTCATTTTTTT-AGT-GGGATAGA-GGT-AGTAA-ATG--GTTTTATTTATTCTTAA
* * ** * * * *
40425 CTGCT-TT---AGTT--G-T----T--ATAGTG-GT--TGAAGTCTGTTAGGGTTGTTAGA-GCA
116 -TG-TATTAAAATTTAGGATAAACTACATATTGAGTACCCAA-ACTATCA--GTT-TT-GATTC-
*
40473 GAATG
173 G--TT
*
40478 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
40543 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
*
40608 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTTGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
40653 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
40718 TTCA-TTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
40782 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
* * * * * * * **
40827 TTAGTACTT-AAACTTTTAATTT-TTTAAA--TTATATCTAA-CATTTA-GT--TTTTG--TAAA
1 TTAG-ACTTGGAA---TCAGTTTCTGTAAAGCTTATA--TAATCGTGTACCTACTTAAGAATAAA
* *
40882 GCATACAATTCATTTTTTTAAGTAGGGATA-ATGTTAAG-AATATGAAG-TTGA--TA-TC-TAA
60 --ATACAATTCATTTTTTT-AGT-GGGATAGA-GGT-AGTAA-ATG--GTTTTATTTATTCTTAA
* * ** * * * *
40940 CTGCT-TT---AGTT--G-T----T--ATAGTG-GT--TGAAGTCTGTTAGGGTTGTTAGA-GCA
116 -TG-TATTAAAATTTAGGATAAACTACATATTGAGTACCCAA-ACTATCA--GTT-TT-GATTC-
*
40988 GAATG
173 G--TT
*
40993 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41058 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
41123 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
*
41168 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAACACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41233 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
41298 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
*
41343 TTAGACTTGGAATCATTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41408 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
41473 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
*
41518 TTAGACTTGAAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41583 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
*
41648 GATAAACTACATATTGAGTACCCAAACTATCAATTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
41693 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41758 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
*
41823 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTTGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
41868 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41933 TTCA-TTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
* *
41997 GATAAACTACATATTGAGTACCCAATCTATTAGTTTTGATTCGTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
42042 TTAG
1 TTAG
42046 TACCTAAACT
Statistics
Matches: 1517, Mismatches: 98, Indels: 239
0.82 0.05 0.13
Matches are distributed among these distances:
159 4 0.00
160 8 0.01
161 4 0.00
162 16 0.01
163 18 0.01
164 30 0.02
165 24 0.02
166 52 0.03
167 20 0.01
168 48 0.03
169 2 0.00
170 18 0.01
171 10 0.01
172 15 0.01
173 34 0.02
174 242 0.16
175 875 0.58
176 26 0.02
177 27 0.02
178 12 0.01
179 16 0.01
180 4 0.00
181 8 0.01
182 4 0.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (175 bp):
TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
Found at i:41109 original size:515 final size:515
Alignment explanation
Indices: 40137--41875 Score: 2747
Period size: 515 Copynumber: 3.4 Consensus size: 515
40127 GAGCAGAATG
40137 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
40202 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
40267 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTAAT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAG-ACTTAAACTTTTAAT
40332 TTTTTAAATTATATCTAACATTTAGTTTTTGTAAAGCATACAATTCATTTTTTTAAGTAGGGATA
195 TTTTTAAATTATATCTAACATTTAGTTTTTGTAAAGCATACAATTCATTTTTTTAAGTAGGGATA
40397 ATGTTAAGAATATGAAGTTGATATCTAACTGCTTTAGTTGTTATAGTGGTTGAAGTCTGTTAGGG
260 ATGTTAAGAATATGAAGTTGATATCTAACTGCTTTAGTTGTTATAGTGGTTGAAGTCTGTTAGGG
40462 TTGTTAGAGCAGAATGTTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACT
325 TTGTTAGAGCAGAATGTTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACT
40527 TAAGAATAAAATACAATTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTA
390 TAAGAATAAAATACAATTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTA
*
40592 ATGTATTAAAATTTAGGATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTTGTT
455 ATGTATTAAAATTTAGGATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
40653 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
40718 TTCA-TTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
40782 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGTACTTAAACTTTTAAT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAG-ACTTAAACTTTTAAT
40847 TTTTTAAATTATATCTAACATTTAGTTTTTGTAAAGCATACAATTCATTTTTTTAAGTAGGGATA
195 TTTTTAAATTATATCTAACATTTAGTTTTTGTAAAGCATACAATTCATTTTTTTAAGTAGGGATA
40912 ATGTTAAGAATATGAAGTTGATATCTAACTGCTTTAGTTGTTATAGTGGTTGAAGTCTGTTAGGG
260 ATGTTAAGAATATGAAGTTGATATCTAACTGCTTTAGTTGTTATAGTGGTTGAAGTCTGTTAGGG
40977 TTGTTAGAGCAGAATGTTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACT
325 TTGTTAGAGCAGAATGTTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACT
41042 TAAGAATAAAATACAATTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTA
390 TAAGAATAAAATACAATTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTA
41107 ATGTATTAAAATTTAGGATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
455 ATGTATTAAAATTTAGGATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
*
41168 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAACACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41233 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
* *
41298 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGACTTGGAA----TCAT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGACTT-AAACTTTTAAT
* * * **
41359 TTTCTGTAAAGCTTATA--TAATCGTGTACCTACTTAAGAATAAA--ATACAATTCATTTTTTT-
195 TTT-T-TAAA--TTATATCTAA-CATTTA-GT--TTTTG--TAAAGCATACAATTCATTTTTTTA
* * *
41419 AGT-GGGATAGA-GGT-AGTAA-ATG--GTTTTATTTATTCTTAA-TG-TATTAAAATTTAGGAT
250 AGTAGGGATA-ATGTTAAG-AATATGAAG-TTGA--TA-TC-TAACTGCT-TT---AGTT--G-T
* ** * * * * * *
41476 AAACTACATATTGAGTACCCAA-ACTATCA--GTT-TT-GATTC-G--TTTTAGACTTGAAATCA
301 ----T--ATAGTG-GT--TGAAGTCTGTTAGGGTTGTTAGA-GCAGAATGTTAGACTTGGAATCA
*
41533 GTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAATTCATTTTTTTAGTG
356 GTTTCTGTAAAGCTTATATAATTGTGTACCTACTTAAGAATAAAATACAATTCATTTTTTTAGTG
41598 GGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAGGATAAACTACATATT
421 GGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAGGATAAACTACATATT
*
41663 GAGTACCCAAACTATCAATTTTGATTCGTT
486 GAGTACCCAAACTATCAGTTTTGATTCGTT
41693 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
1 TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
41758 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
66 TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
*
41823 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTTGTTTTAGACTT
131 GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGACTT
41876 GGAATCAGTT
Statistics
Matches: 1162, Mismatches: 25, Indels: 63
0.93 0.02 0.05
Matches are distributed among these distances:
512 6 0.01
513 2 0.00
514 10 0.01
515 526 0.45
516 199 0.17
517 10 0.01
518 23 0.02
520 7 0.01
522 1 0.00
523 1 0.00
525 354 0.30
527 4 0.00
528 3 0.00
529 8 0.01
530 2 0.00
531 4 0.00
532 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (515 bp):
TTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATCGTGTACCTACTTAAGAATAAAATACAA
TTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAATGTATTAAAATTTAG
GATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTTTTAGACTTAAACTTTTAATT
TTTTAAATTATATCTAACATTTAGTTTTTGTAAAGCATACAATTCATTTTTTTAAGTAGGGATAA
TGTTAAGAATATGAAGTTGATATCTAACTGCTTTAGTTGTTATAGTGGTTGAAGTCTGTTAGGGT
TGTTAGAGCAGAATGTTAGACTTGGAATCAGTTTCTGTAAAGCTTATATAATTGTGTACCTACTT
AAGAATAAAATACAATTCATTTTTTTAGTGGGATAGAGGTAGTAAATGGTTTTATTTATTCTTAA
TGTATTAAAATTTAGGATAAACTACATATTGAGTACCCAAACTATCAGTTTTGATTCGTT
Found at i:42474 original size:18 final size:18
Alignment explanation
Indices: 42438--42475 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
42428 CTTCGATTTA
*
42438 TAATTATTAATATTTAAT
1 TAATTATTAATATTAAAT
42456 TAATTAATTAAT-TTAAAT
1 TAATT-ATTAATATTAAAT
42474 TA
1 TA
42476 CATATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTATTAATATTAAAT
Found at i:44113 original size:13 final size:13
Alignment explanation
Indices: 44076--44211 Score: 77
Period size: 13 Copynumber: 10.5 Consensus size: 13
44066 ATAATATATA
*
44076 TATATAATATAAGT
1 TATAT-ATATAAAT
44090 T-TATATATAAAT
1 TATATATATAAAT
*
44102 TATATATATAAAC
1 TATATATATAAAT
*
44115 TATAT-T-TATAT
1 TATATATATAAAT
* *
44126 TATAAACCATACAA-
1 TATATA-TATA-AAT
**
44140 T-TAT-TATAAGC
1 TATATATATAAAT
44151 TATATATATAAAT
1 TATATATATAAAT
* * * *
44164 TATGTTTACATCAAC
1 TA--TATATATAAAT
*
44179 TATATATATAAAC
1 TATATATATAAAT
44192 TATATATATAAAT
1 TATATATATAAAT
44205 TATATAT
1 TATATAT
44212 GTATAAACTA
Statistics
Matches: 92, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
10 1 0.01
11 11 0.12
12 12 0.13
13 54 0.59
14 4 0.04
15 10 0.11
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (13 bp):
TATATATATAAAT
Found at i:44123 original size:30 final size:33
Alignment explanation
Indices: 44070--44131 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
44060 AAAAATATAA
44070 TATATATATATAATATAAGTTTATA-TATAAAT
1 TATATATATATAATATAAGTTTATATTATAAAT
44102 TATATATATA-AACTAT-A-TTTATATTATAAA
1 TATATATATATAA-TATAAGTTTATATTATAAA
44132 CCATACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 6 0.21
31 9 0.32
32 13 0.46
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
TATATATATATAATATAAGTTTATATTATAAAT
Found at i:44223 original size:13 final size:13
Alignment explanation
Indices: 44091--44223 Score: 78
Period size: 13 Copynumber: 10.2 Consensus size: 13
44081 AATATAAGTT
*
44091 TATATATAAATTA
1 TATATATAAACTA
44104 TATATATAAACTA
1 TATATATAAACTA
* *
44117 TAT-T-TATATTA
1 TATATATAAACTA
* *
44128 TAAACCATACAA-T-
1 TATA-TATA-AACTA
*
44141 TAT-TATAAGCTA
1 TATATATAAACTA
*
44153 TATATATAAATTA
1 TATATATAAACTA
* * *
44166 TGTTTACATCAACTA
1 --TATATATAAACTA
44181 TATATATAAACTA
1 TATATATAAACTA
*
44194 TATATATAAATTA
1 TATATATAAACTA
44207 TATATGTATAAACTA
1 TATA--TATAAACTA
44222 TA
1 TA
44224 AAAAGTTTAT
Statistics
Matches: 89, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
10 1 0.01
11 11 0.12
12 4 0.04
13 50 0.56
14 3 0.03
15 20 0.22
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:44393 original size:17 final size:18
Alignment explanation
Indices: 44371--44413 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
44361 TTGAGAAATT
44371 TTGAGAATAT-AGGGAAA
1 TTGAGAATATGAGGGAAA
*
44388 TTGAGAATTTGGAGGGAAA
1 TTGAGAATAT-GAGGGAAA
44407 TTGAGAA
1 TTGAGAA
44414 ATTTAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
19 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
TTGAGAATATGAGGGAAA
Found at i:44423 original size:20 final size:19
Alignment explanation
Indices: 44381--44425 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
44371 TTGAGAATAT
**
44381 AGGGAAATTGAGAATTTGG
1 AGGGAAATTGAGAATTTAA
44400 AGGGAAATTGAGAAATTTAA
1 AGGGAAATTGAG-AATTTAA
44420 AGGGAA
1 AGGGAA
44426 TATAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (19 bp):
AGGGAAATTGAGAATTTAA
Found at i:44660 original size:6 final size:6
Alignment explanation
Indices: 44655--44705 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
44645 GTGTGTGCGC
* * * *
44655 GCGCGC GCGCGT GCGCGT GCGCGT GCGCGT GTGCGT GTGCGT GCGTGT
1 GCGCGT GCGCGT GCGCGT GCGCGT GCGCGT GCGCGT GCGCGT GCGCGT
44703 GCG
1 GCG
44706 TGTGTGTGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.00, C:0.29, G:0.51, T:0.20
Consensus pattern (6 bp):
GCGCGT
Found at i:44700 original size:10 final size:10
Alignment explanation
Indices: 44685--44797 Score: 81
Period size: 10 Copynumber: 11.3 Consensus size: 10
44675 GCGTGCGCGT
44685 GTGCGTGTGC
1 GTGCGTGTGC
44695 GTGCGTGTGC
1 GTGCGTGTGC
*
44705 GT--GTGTGT
1 GTGCGTGTGC
*
44713 GTGCGTGTGT
1 GTGCGTGTGC
* *
44723 GTGTGTGTGT
1 GTGCGTGTGC
*
44733 GTGCATGTCTGC
1 GTGC--GTGTGC
*
44745 CTGCGTGTGC
1 GTGCGTGTGC
*
44755 GT--GTGTGT
1 GTGCGTGTGC
* *
44763 GTGTGTGTGT
1 GTGCGTGTGC
44773 GTGCGTGTGC
1 GTGCGTGTGC
44783 GTGTGCGTGTGC
1 --GTGCGTGTGC
44795 GTG
1 GTG
44798 TGCGTGTGTG
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
8 14 0.17
10 53 0.63
12 17 0.20
ACGTcount: A:0.01, C:0.13, G:0.48, T:0.38
Consensus pattern (10 bp):
GTGCGTGTGC
Found at i:44706 original size:6 final size:6
Alignment explanation
Indices: 44663--44805 Score: 127
Period size: 6 Copynumber: 24.2 Consensus size: 6
44653 GCGCGCGCGC
* * *
44663 GCGTGC GCGTGC GCGTGC GCGTGT GCGTGT GC--GT GCGTGT GCGTGT
1 GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT
* * * *
44709 GTGTGT GCGTGTGT GTGTGT GTGTGT GCATGT -C-TGCCT GCGTGT GCGTGT
1 GCGTGT GC--GTGT GCGTGT GCGTGT GCGTGT GCGTG--T GCGTGT GCGTGT
* *
44759 --GTGT GTGTGT GTGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT
1 GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT
44805 G
1 G
44806 TGTTCTGCAT
Statistics
Matches: 120, Mismatches: 7, Indels: 20
0.82 0.05 0.14
Matches are distributed among these distances:
4 10 0.08
5 1 0.01
6 101 0.84
7 1 0.01
8 7 0.06
ACGTcount: A:0.01, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
GCGTGT
Found at i:44864 original size:4 final size:4
Alignment explanation
Indices: 44818--47268 Score: 4306
Period size: 4 Copynumber: 616.5 Consensus size: 4
44808 TTCTGCATGC
* * * *
44818 ATGT ATGC ATGT ATGC ATGC ATGT GCATGT GTGT ATG- -TGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT
44865 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
44912 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
44960 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45008 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45056 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45104 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45152 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45200 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45248 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45294 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45342 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45390 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45437 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45485 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45533 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45581 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45629 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45677 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45725 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45773 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45821 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45869 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45917 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45965 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46012 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46060 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46108 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46156 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46204 ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46251 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46299 ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46345 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46393 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46441 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46489 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46537 ATGT A--T ATGT ATGT ATGC ATGT ATGT ATGT ATG- -TGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46581 ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46629 ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
46677 ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
46725 ATGC ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46773 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46821 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46869 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
46917 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
46965 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
47013 ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
47061 ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
47109 ATGT ATGC ATGC ATGT ATGC ATGT ATGC ATGT ATGT ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
47157 AT-T -TGT ATGC ATGT ATGT ATGT ATAT ATGT ATGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * **
47203 ATGC ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATCT ATGT ATAC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
47251 ATGT ACGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT AT
47269 AAACTATACA
Statistics
Matches: 2330, Mismatches: 98, Indels: 38
0.94 0.04 0.02
Matches are distributed among these distances:
2 13 0.01
3 11 0.00
4 2302 0.99
6 4 0.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:47363 original size:2 final size:2
Alignment explanation
Indices: 47356--47388 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
47346 ATCTATAGAT
47356 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47389 GAAATACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47467 original size:14 final size:14
Alignment explanation
Indices: 47448--47491 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
47438 AAAAAAACCC
47448 TAAACTTTAAAACA
1 TAAACTTTAAAACA
* *
47462 TAAACTTTAAATCT
1 TAAACTTTAAAACA
* *
47476 TAAACTCTAAACCA
1 TAAACTTTAAAACA
47490 TA
1 TA
47492 CACACTAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAACTTTAAAACA
Found at i:48000 original size:15 final size:15
Alignment explanation
Indices: 47980--48025 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
47970 CATGTATAGC
47980 ATATATAAACTATAT
1 ATATATAAACTATAT
*
47995 ATATATAACCTATAT
1 ATATATAAACTATAT
**
48010 ATACGTAAACTATAT
1 ATATATAAACTATAT
48025 A
1 A
48026 AAGTAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (15 bp):
ATATATAAACTATAT
Found at i:48143 original size:7 final size:7
Alignment explanation
Indices: 48133--48201 Score: 75
Period size: 7 Copynumber: 9.9 Consensus size: 7
48123 TCATAAACTT
*
48133 TAAACCA
1 TAAACCC
*
48140 TAAACAC
1 TAAACCC
**
48147 TAAACGT
1 TAAACCC
48154 TAAACCC
1 TAAACCC
48161 TAAACCC
1 TAAACCC
48168 TAAACCC
1 TAAACCC
**
48175 TAAATTC
1 TAAACCC
48182 TAAACCC
1 TAAACCC
*
48189 TAAACTC
1 TAAACCC
48196 TAAACC
1 TAAACC
48202 ATAGACTAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:48151 original size:14 final size:14
Alignment explanation
Indices: 48100--48193 Score: 75
Period size: 14 Copynumber: 6.8 Consensus size: 14
48090 TAAATTATAG
*
48100 AAACCCTAAATCAT
1 AAACCCTAAACCAT
* *
48114 AAACTCT-AATCAT
1 AAACCCTAAACCAT
**
48127 AAACTTTAAACCAT
1 AAACCCTAAACCAT
* **
48141 AAACACTAAACGTT
1 AAACCCTAAACCAT
*
48155 AAACCCTAAACCCT
1 AAACCCTAAACCAT
*
48169 AAACCCTAAATTC-T
1 AAACCCTAAA-CCAT
48183 AAACCCTAAAC
1 AAACCCTAAAC
48194 TCTAAACCAT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
13 12 0.18
14 53 0.80
15 1 0.02
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:48151 original size:21 final size:21
Alignment explanation
Indices: 48126--48204 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
48116 ACTCTAATCA
* *
48126 TAAACTTTAAACCATAAACAC
1 TAAACTCTAAACCATAAACCC
*
48147 TAAACGT-TAAACCCTAAACCC
1 TAAAC-TCTAAACCATAAACCC
* *
48168 TAAACCCTAAATTC-TAAACCC
1 TAAACTCTAAA-CCATAAACCC
48189 TAAACTCTAAACCATA
1 TAAACTCTAAACCATA
48205 GACTAGCACT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.02
21 45 0.94
22 2 0.04
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACTCTAAACCATAAACCC
Found at i:48384 original size:14 final size:14
Alignment explanation
Indices: 48365--48411 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
48355 ATTTTTTCTT
48365 TATATAAATTAAAC
1 TATATAAATTAAAC
48379 TATAT-AATT----
1 TATATAAATTAAAC
48388 TATATAAATTAAAC
1 TATATAAATTAAAC
*
48402 TATATTAATT
1 TATATAAATT
48412 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:48390 original size:23 final size:24
Alignment explanation
Indices: 48363--48412 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
48353 TTATTTTTTC
48363 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
48386 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
48410 TTT
1 TTT
48413 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:58763 original size:14 final size:14
Alignment explanation
Indices: 58744--58774 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
58734 TCATAATTAA
58744 GGCGAAGATGTAAG
1 GGCGAAGATGTAAG
58758 GGCGAAGATGTAAG
1 GGCGAAGATGTAAG
58772 GGC
1 GGC
58775 TAAGTGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.45, T:0.13
Consensus pattern (14 bp):
GGCGAAGATGTAAG
Found at i:61871 original size:2 final size:2
Alignment explanation
Indices: 61864--61901 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61854 ACAGTACAAT
61864 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
61902 GATAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61910 original size:2 final size:2
Alignment explanation
Indices: 61905--61956 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
61895 ATATATAGAT
61905 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
61947 AG AG AG AG AG
1 AG AG AG AG AG
61957 GATTAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62334 original size:11 final size:11
Alignment explanation
Indices: 62320--62345 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62310 AAATATATAG
62320 TATATATTATT
1 TATATATTATT
62331 TATATATTATT
1 TATATATTATT
62342 TATA
1 TATA
62346 AATTTCGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:63574 original size:11 final size:11
Alignment explanation
Indices: 63544--63574 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
63534 AAAAAACAAA
63544 AAAAAAAAATT
1 AAAAAAAAATT
*
63555 TAAAAAAAATT
1 AAAAAAAAATT
63566 AAAAAAAAA
1 AAAAAAAAA
63575 GTATAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:63839 original size:50 final size:49
Alignment explanation
Indices: 63723--63847 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 49
63713 GCAGTAAAGT
* * *
63723 GCGC-CCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTATA
1 GCGCGCCCCTGATCCGCGCTATACGCTGATCTGGAGCCACGTGGGTATA
* *
63771 GCGCGCCCCATG-TCCCGCGATATACGGTGATCTGGAGCCACGTGGGTATA
1 GCGCGCCCC-TGAT-CCGCGCTATACGCTGATCTGGAGCCACGTGGGTATA
63821 GCGCGCTCCCTGATCCGCGCTATACGC
1 GCGCGC-CCCTGATCCGCGCTATACGC
63848 CACGTAGGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
48 4 0.06
49 4 0.06
50 53 0.82
51 4 0.06
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.20
Consensus pattern (49 bp):
GCGCGCCCCTGATCCGCGCTATACGCTGATCTGGAGCCACGTGGGTATA
Found at i:69844 original size:111 final size:111
Alignment explanation
Indices: 69650--69982 Score: 594
Period size: 111 Copynumber: 3.0 Consensus size: 111
69640 ATTACAAAAA
*
69650 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
69715 AATTAAAACGTTAAAATGTTACCGTATTAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
69761 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
69826 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* * *
69872 TTAATTCTTAATCTAATAATCATGCATTAAATAAATTAACTAAATCTTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
69937 AATTAATACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
69983 ATTATTTCCA
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:70851 original size:17 final size:17
Alignment explanation
Indices: 70816--70848 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
70806 TAACTAGATT
70816 TAAAAAATGAAAAGAAA
1 TAAAAAATGAAAAGAAA
70833 TAAAAAAT-AAAAGAAA
1 TAAAAAATGAAAAGAAA
70849 ATATAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
TAAAAAATGAAAAGAAA
Found at i:72617 original size:84 final size:84
Alignment explanation
Indices: 72526--73495 Score: 893
Period size: 84 Copynumber: 11.7 Consensus size: 84
72516 ACGAGTGTAA
* * * * *
72526 TCGAACTCGAAGGTCTTCGGTTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
72591 GACTTGGAGCTGAGTGCAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * * *
72610 TCAAACTCGAAGATCTTTTGG-TGACAGATAACCCTTCTAGCCTTATGTTATGTTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * * * *
72674 TGCCCTCGAAACTGTGTGTAA
65 TG-CCTTGGAGCTGAGCGTAG
* * *
72695 TCGAACCCG-AGTGTC--T--TTGGCAGATACCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCGAAG-GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
72755 CGCCTTGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * * * * *
72775 TCGAACTTGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
72840 GCCCTCGAAGCTGAGTGTAA
66 G-CCTTGGAGCTGAGCGTAG
* * *
72860 TCAAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
72921 ACCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * *
72940 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
73005 GCATTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * * **
73024 TCGAACTCAAAGGTTTTTGG-TGACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*** *
73088 GCCCTCAAAGCTGAGCATAG
66 G-CCTTGGAGCTGAGCGTAG
* * * * *
73108 TAGAACTTGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
73169 ACCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
73188 TCAAACTCGAAGGTCTTTGGTTGGCAGATAATCCTTCTCGATTTAAGTTATGCTGCAAATAATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
73253 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
73272 TCGAACTCGAAGGTCTTTGG-TGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
73336 GCCCTCGTAGCTGAGCGTAG
66 G-CCTTGGAGCTGAGCGTAG
* * * * * * *
73356 TCGAACTCGAGGGTCTTT-G-T--CTGATAGCCCTTCTTGATTTAAGCTATGCTGCAAATTATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
73417 GCATTGGAGCTGAGCATAG
66 GCCTTGGAGCTGAGCGTAG
* * *** * *
73436 TTGAACTCAAAGGTCTTT-GTTGGCAGATAACCCTTCTATCCTTGAGTTATGCTTCAAATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
73496 TTGTCTTAAA
Statistics
Matches: 696, Mismatches: 166, Indels: 49
0.76 0.18 0.05
Matches are distributed among these distances:
80 105 0.15
81 142 0.20
82 5 0.01
83 100 0.14
84 293 0.42
85 51 0.07
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:72738 original size:165 final size:162
Alignment explanation
Indices: 72546--73488 Score: 926
Period size: 165 Copynumber: 5.7 Consensus size: 162
72536 AGGTCTTCGG
* * * * * *
72546 TTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGACTTGGAGCTGAGTGCAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * *
72611 CAAACTCGAAGATCTTTTGGTGACAGATAACCCTTCTAGCCTTATGTTATGTTGTAAATGATGTG
66 CGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTA-GTTATGCTGTAAATGATATG
* * * * *
72676 CCCTCGAAACTGTGTGTAATCGAACCCGAGTGTCT
129 CCCTCGAAGCTGAGCGTAGTCGAACTCGAG-GTCT
* *
72711 TTGGCAGATACCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * *
72776 CGAACTTGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATATG
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTT-AGTTATGCTGTAAATGATATG
* * *
72841 CCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCT
129 CCCTCGAAGCTGAGCGTAGTCGAACTCG-AGGTCT
**
72876 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
** * ** *
72941 CGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATG
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTT-AGTTATGCTGTAAATGATATG
* * * * *
73006 -CATTGGAGCTGAGCGTAGTCGAACTCAAAGGTTT
129 CCCTCGAAGCTGAGCGTAGTCGAACTC-GAGGTCT
* * * * * ** *** *
73040 TTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCAAAGCTGAGCA
1 TT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCG
* * * * * * *
73105 TAGTAGAACTTGAGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG--
62 TAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTT-AGTTATGCTGTAAATGAT
* * *
73165 ATGCACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
126 ATGC-CCTCGAAGCTGAGCGTAGTCGAACTCG-AGGTC--T
* * * * *
73206 GGTTGGCAGATAATCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTA
1 --TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* *
73271 GTCGAACTCGAAGGTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
64 GTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTT-AGTTATGCTGTAAATGATAT
*
73336 GCCCTCGTAGCTGAGCGTAGTCGAACTCGAGGGTCT
128 GCCCTCGAAGCTGAGCGTAGTCGAACTCGA-GGTCT
* * * * * * * *
73372 TTGTCTGATAGCCCTTCTTGATTTAAGCTATGCTGCAAATTATGTGCATTGGAGCTGAGCATAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * *
73437 TGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTATCCTTGAGTTATGCT
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTT-AGTTATGCT
73489 TCAAATGTTG
Statistics
Matches: 655, Mismatches: 102, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
162 3 0.00
164 224 0.34
165 291 0.44
166 8 0.01
167 67 0.10
168 59 0.09
169 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (162 bp):
TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTAGTTATGCTGTAAATGATATGCC
CTCGAAGCTGAGCGTAGTCGAACTCGAGGTCT
Found at i:73125 original size:248 final size:248
Alignment explanation
Indices: 72711--73472 Score: 1141
Period size: 248 Copynumber: 3.1 Consensus size: 248
72701 CCGAGTGTCT
* * * **
72711 TTGGCAGATACCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * * *
72776 CGAACTTGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATATG
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * *
72841 CCCTCGAAGCTGAGTGTAATCA-AACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
130 CCCTCGAAGCTGAGCGTAGT-AGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCT
72905 ATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
194 ATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* *
72960 TTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCATTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * * * *
73025 CGAACTCAAAGGTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
* * *
73090 CCTCAAAGCTGAGCATAGTAGAACTTGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
131 CCTCGAAGCTGAGCGTAGTAGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
*
73155 GCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG
196 GCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* *
73208 TTGGCAGATAATCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
73273 CGAACTCGAAGGTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
* * * * * * *
73338 CCTCGTAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGTCTGATAGCCCTTCTTGATTTAAGCTAT
131 CCTCGAAGCTGAGCGTAGTAGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
* ** * * * *
73403 GCTGCAAATTATGTGCATTGGAGCTGAGCATAGTTGAACTCAAAGGTCTTT-G
196 GCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
73455 TTGGCAGATAACCCTTCT
1 TTGGCAGATAACCCTTCT
73473 ATCCTTGAGT
Statistics
Matches: 461, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
247 19 0.04
248 368 0.80
249 74 0.16
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (248 bp):
TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
CCTCGAAGCTGAGCGTAGTAGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
GCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:73140 original size:164 final size:164
Alignment explanation
Indices: 72722--73495 Score: 465
Period size: 164 Copynumber: 4.7 Consensus size: 164
72712 TGGCAGATAC
* * * * ** *** * * *
72722 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGTCGAACTTGAAG
1 CCCTTCTAGACTTAAGTTATGCTACAAATAATATGCCTCAAAGCTGAGCATAGTAGAACTCGAAG
* * * * * * * * *
72787 GTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCT
66 GTC--T--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CATTGGAGCT
* * * * *
72852 GAGTGTAATCAAACTCGAAGGTCTTT-G--G-CAGATAA
126 GAGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAAATAA
* * * * *** *** * *
72887 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTATGCTACAAATAATATGCCTCAAAGCTGAGCATAGTAGAACTCGAAG
* *
72952 GTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCATTGGAGCTG
66 GTC--T--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCATTGGAGCTG
*
73017 AGCGTAGTCGAACTCAAAGGTTTTTGG-TGACAAATAA
127 AGCGTAGTCGAACTCAAAGGTCTTTGGTTGACAAATAA
* * * * * * *
73054 CCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCAAAGCTGAGCATAGTAGAACTTGAG
1 CCCTTCTAGACTTAAGTTATGCTACAAATAATATG-CCTCAAAGCTGAGCATAGTAGAACTCGAA
*
73119 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG--ATGCACCTTGGAGCTGA
65 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCA--TTGGAGCTGA
* * * *
73182 GCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAA
128 GCGTAGTCGAACTCAAAGGTCTTTGGTTGACAAATAA
* * * * *** * *
73219 TCCTTCTCGATTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTATGCTACAAATAATATGCCTCAAAGCTGAGCATAGTAGAACTCGAAG
* * * * * * * * *
73284 GTCTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGTAGCTG
66 GTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CATTGGAGCTG
* * *
73349 AGCGTAGTCGAACTCGAGGGTCTTT-GTCTG----ATAG
127 AGCGTAGTCGAACTCAAAGGTCTTTGGT-TGACAAATAA
* * * * * * * *** * *
73383 CCCTTCTTGATTTAAGCTATGCTGCAAATTATGTGCATTGGAGCTGAGCATAGTTGAACTCAAAG
1 CCCTTCTAGACTTAAGTTATGCTACAAATAATATGCCTCAAAGCTGAGCATAGTAGAACTCGAAG
*** * *
73448 GTCTTTGTTGGCAGATAACCCTTCTATCCTTGAGTTATGCTTCAAATG
66 GTC--T-TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
73496 TTGTCTTAAA
Statistics
Matches: 508, Mismatches: 84, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
162 5 0.01
164 223 0.44
165 146 0.29
166 5 0.01
167 68 0.13
168 58 0.11
169 2 0.00
170 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (164 bp):
CCCTTCTAGACTTAAGTTATGCTACAAATAATATGCCTCAAAGCTGAGCATAGTAGAACTCGAAG
GTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCATTGGAGCTGAGCG
TAGTCGAACTCAAAGGTCTTTGGTTGACAAATAA
Found at i:76411 original size:24 final size:24
Alignment explanation
Indices: 76383--76432 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
76373 ATAAAGAACC
*
76383 AAAATAAACTT-AAATATACCATTA
1 AAAATAAACTTCAAACA-ACCATTA
*
76407 AAAATAAAGTTCAAACAACCATTA
1 AAAATAAACTTCAAACAACCATTA
76431 AA
1 AA
76433 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTCAAACAACCATTA
Found at i:86380 original size:24 final size:24
Alignment explanation
Indices: 86336--86385 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
86326 ATAAAAAACC
*
86336 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
86360 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
86384 AA
1 AA
86386 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:89309 original size:17 final size:17
Alignment explanation
Indices: 89287--89320 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89277 CTTGGATTGG
89287 TAAACTGCTAGAATCGA
1 TAAACTGCTAGAATCGA
89304 TAAACTGCTAGAATCGA
1 TAAACTGCTAGAATCGA
89321 GAGGGTTTTA
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:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
TAAACTGCTAGAATCGA
Found at i:89625 original size:16 final size:17
Alignment explanation
Indices: 89604--89638 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
89594 AACTAGATTT
89604 AAAAAATGAAAAGAAAA
1 AAAAAATGAAAAGAAAA
89621 AAAAAAT-AAAAGAAAA
1 AAAAAATGAAAAGAAAA
89637 AA
1 AA
89639 TAATAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAAAATGAAAAGAAAA
Found at i:89636 original size:12 final size:12
Alignment explanation
Indices: 89612--89649 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
89602 TTAAAAAATG
*
89612 AAAAGAAAA-AA
1 AAAATAAAAGAA
89623 AAAATAAAAGAA
1 AAAATAAAAGAA
*
89635 AAAATAATAGAA
1 AAAATAAAAGAA
89647 AAA
1 AAA
89650 TATATGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAATAAAAGAA
Found at i:92435 original size:33 final size:33
Alignment explanation
Indices: 92375--92437 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
92365 TTTTTGTCTT
92375 CTTGTGGTGGCTTCCACGTCTTATACTTTTCTC
1 CTTGTGGTGGCTTCCACGTCTTATACTTTTCTC
* * * * *
92408 CTTGTTGTGTCTTCTACGTGTTGTACTTTT
1 CTTGTGGTGGCTTCCACGTCTTATACTTTT
92438 ATTTATTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.08, C:0.22, G:0.19, T:0.51
Consensus pattern (33 bp):
CTTGTGGTGGCTTCCACGTCTTATACTTTTCTC
Found at i:95142 original size:18 final size:18
Alignment explanation
Indices: 95119--95158 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
95109 TTTCAGTTGT
95119 TTCTGAAACATTTATAGC
1 TTCTGAAACATTTATAGC
95137 TTCTGAAACATTTATAGC
1 TTCTGAAACATTTATAGC
95155 TTCT
1 TTCT
95159 ATATCTTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (18 bp):
TTCTGAAACATTTATAGC
Done.