Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 302 of 325
Found at i:92333278 original size:31 final size:31
Alignment explanation
Indices: 92333240--92333299 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
92333230 ATATGAAAAG
92333240 CCCTTATTTGAGCA-TATTCGAAAAAGTTTGA
1 CCCTTATTTGAGCACT-TTCGAAAAAGTTTGA
* *
92333271 CCCTTATTTTAGCACTTTCGAAAAGGTTT
1 CCCTTATTTGAGCACTTTCGAAAAAGTTT
92333300 AGCCTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (31 bp):
CCCTTATTTGAGCACTTTCGAAAAAGTTTGA
Found at i:92338351 original size:15 final size:15
Alignment explanation
Indices: 92338327--92338365 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
92338317 AAGTCAGCTC
*
92338327 AAGCCTATTGGGCCT
1 AAGCCCATTGGGCCT
92338342 AAGCCCATTGGGCCT
1 AAGCCCATTGGGCCT
92338357 AAGCCCATT
1 AAGCCCATT
92338366 AAGGTAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (15 bp):
AAGCCCATTGGGCCT
Found at i:92338791 original size:25 final size:27
Alignment explanation
Indices: 92338754--92338806 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
92338744 TCAAACATGC
92338754 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
92338780 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
92338806 A
1 A
92338807 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:92340292 original size:26 final size:26
Alignment explanation
Indices: 92340261--92340368 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
92340251 TGAAATTCCC
*
92340261 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92340287 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
* *
92340313 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92340339 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92340365 ATCA
1 ATCA
92340369 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92342740 original size:17 final size:17
Alignment explanation
Indices: 92342720--92342753 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92342710 AGATTTAGAT
92342720 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
92342737 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
92342754 AAATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:92349537 original size:17 final size:17
Alignment explanation
Indices: 92349506--92349539 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92349496 AGTTTAATAT
* *
92349506 ATATTATTCATATTTAA
1 ATATTATTAAAATTTAA
92349523 ATATTATTAAAATTTAA
1 ATATTATTAAAATTTAA
92349540 CTAATTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTATTAAAATTTAA
Found at i:92355614 original size:20 final size:19
Alignment explanation
Indices: 92355581--92355636 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
92355571 ATATTTTCTT
* *
92355581 TATTTAGTTATTATTTTGAA
1 TATTTATTTTTTATTTT-AA
92355601 TATTTATTTTTTATTCTTAA
1 TATTTATTTTTTATT-TTAA
*
92355621 -ATTCATTATTTTATTT
1 TATTTATT-TTTTATTT
92355637 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TATTTATTTTTTATTTTAA
Found at i:92375370 original size:27 final size:27
Alignment explanation
Indices: 92375332--92375385 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92375322 CCACTCTCAG
92375332 ATTCCTGTACTTTAAGGTAGTTGAGAA
1 ATTCCTGTACTTTAAGGTAGTTGAGAA
92375359 ATTCCTGTACTTTAAGGTAGTTGAGAA
1 ATTCCTGTACTTTAAGGTAGTTGAGAA
92375386 GATTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTCCTGTACTTTAAGGTAGTTGAGAA
Found at i:92375397 original size:27 final size:27
Alignment explanation
Indices: 92375340--92375398 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
92375330 AGATTCCTGT
**
92375340 ACTTTAAGGTAGTTGAGAAATTCCTGT
1 ACTTTAAGGTAGTTGAGAAATTCCTAA
*
92375367 ACTTTAAGGTAGTTGAGAAGATT-TTAA
1 ACTTTAAGGTAGTTGAGAA-ATTCCTAA
92375394 ACTTT
1 ACTTT
92375399 TTTCAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
ACTTTAAGGTAGTTGAGAAATTCCTAA
Found at i:92382456 original size:40 final size:40
Alignment explanation
Indices: 92382410--92382561 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
92382400 GAATATTTTA
*
92382410 TTTTATCTTTTAGTAGTTGAATAGAATAAAGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
* *
92382450 TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
92382490 TTTTATC--TT--TA---G--TAGAATAAAGGAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
*
92382521 TTTTATCTTTTAGTAGTTTATTAGAAT-AAGGAAATTATTT
1 TTTTATCTTTTAGTAGTTGATTAGAATAAAGG-AATTATTT
92382561 T
1 T
92382562 CCCAATTAGG
Statistics
Matches: 96, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
31 25 0.26
33 2 0.02
35 2 0.02
36 2 0.02
38 2 0.02
39 4 0.04
40 59 0.61
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.51
Consensus pattern (40 bp):
TTTTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTT
Found at i:92382506 original size:31 final size:32
Alignment explanation
Indices: 92382466--92382536 Score: 117
Period size: 31 Copynumber: 2.2 Consensus size: 32
92382456 CTTTTAGTAG
* *
92382466 TTTATTAGAATAAGGGAATTATTTTTTTATC-
1 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
92382497 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
1 TTTAGTAGAATAAAGGAATTATTTTTTTATCT
92382529 TTTAGTAG
1 TTTAGTAG
92382537 TTTATTAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (32 bp):
TTTAGTAGAATAAAGGAATTATTTTTTTATCT
Found at i:92388833 original size:3 final size:3
Alignment explanation
Indices: 92388825--92388852 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
92388815 CAACCAATAA
92388825 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
92388853 ACTAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:92391481 original size:48 final size:48
Alignment explanation
Indices: 92391409--92391596 Score: 252
Period size: 48 Copynumber: 3.9 Consensus size: 48
92391399 TAGGGAATTT
* * *
92391409 ATTGATTTGGCTTCAAGACC-TGATATTGGCACTTCGGGTGTGAGCTTC
1 ATTGATTTGGCTTC-GGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
*
92391457 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCTGGTGCGAGCTTC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
* * * *
92391505 ATTGATTTGGCTTCGGGCCATAATATTAGCCCTTCGGGTGCGAGCTAC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
* * * *
92391553 ATTGATTTGGCTTCGAGCCATGATATTGACACTTAGGGTACGAG
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
92391597 ACTCTCGAGT
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
47 3 0.02
48 120 0.98
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.34
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGCTTC
Found at i:92396837 original size:18 final size:18
Alignment explanation
Indices: 92396814--92396854 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
92396804 GATTTGTCAG
92396814 CAAGTTAAAGCTAAACAT
1 CAAGTTAAAGCTAAACAT
92396832 CAAGTTAAAGCTAAACAT
1 CAAGTTAAAGCTAAACAT
92396850 CAAGT
1 CAAGT
92396855 ACCTTCGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (18 bp):
CAAGTTAAAGCTAAACAT
Found at i:92401440 original size:40 final size:39
Alignment explanation
Indices: 92401396--92401614 Score: 294
Period size: 39 Copynumber: 5.6 Consensus size: 39
92401386 GTTCAAAACA
* * ** * *
92401396 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
92401436 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
92401476 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
92401515 CCTTCGGGCTTAGCCCGGATATCACAATTAGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
92401554 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
92401593 CCTTCGGGCTTAGCCCGGATAT
1 CCTTCGGGCTTAGCCCGGATAT
92401615 TACTCGAACA
Statistics
Matches: 163, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 123 0.75
40 40 0.25
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:92401507 original size:39 final size:39
Alignment explanation
Indices: 92401426--92401614 Score: 306
Period size: 39 Copynumber: 4.8 Consensus size: 39
92401416 TATGGTAACC
* *
92401426 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
92401466 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
92401505 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
92401544 AGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
92401583 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
92401615 TACTCGAACA
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 123 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:92415107 original size:21 final size:21
Alignment explanation
Indices: 92415065--92415115 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
92415055 AGTCATTTCG
* *
92415065 TTTCTTTTTGTCCAAGTTACT
1 TTTCTTTTTGTCCAACTCACT
*
92415086 TTTCTTTTTGTCTAACTCACT
1 TTTCTTTTTGTCCAACTCACT
92415107 TCTT-TTTTT
1 T-TTCTTTTT
92415116 CTTTGTGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.12, C:0.20, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTCTTTTTGTCCAACTCACT
Found at i:92421681 original size:38 final size:38
Alignment explanation
Indices: 92421630--92421706 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
92421620 CATTATGATA
92421630 TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
1 TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
*
92421668 TACAATTAAATCTAAGACTAATTCGAGCTTACGAATGC
1 TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
92421706 T
1 T
92421707 TTTTATAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (38 bp):
TACAATTAAATCTAAAACTAATTCGAGCTTACGAATGC
Found at i:92423216 original size:30 final size:31
Alignment explanation
Indices: 92423157--92423220 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
92423147 ACTTAACAAT
92423157 CAAATACCTCTAAAATAATAATAAAAATTAA
1 CAAATACCTCTAAAATAATAATAAAAATTAA
* * *
92423188 CAAATGCCTTTAAAATAATAA-GAAAATTAA
1 CAAATACCTCTAAAATAATAATAAAAATTAA
92423218 CAA
1 CAA
92423221 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATACCTCTAAAATAATAATAAAAATTAA
Found at i:92423288 original size:11 final size:11
Alignment explanation
Indices: 92423257--92423296 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
92423247 ATAATAACAA
*
92423257 CAAAATAGTAG
1 CAAAATAATAG
*
92423268 CAACATAATAG
1 CAAAATAATAG
*
92423279 TAAAATAATAG
1 CAAAATAATAG
92423290 CAAAATA
1 CAAAATA
92423297 GGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:92424517 original size:22 final size:24
Alignment explanation
Indices: 92424489--92424532 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
92424479 ACTTTGATCA
92424489 ACTTTAACTT-TTAT-TCAAAACC
1 ACTTTAACTTGTTATATCAAAACC
*
92424511 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
92424533 TATATGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAACC
Found at i:92429009 original size:15 final size:14
Alignment explanation
Indices: 92428985--92429025 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
92428975 TAAATTCAAC
92428985 ACTTAAATTTTTAAT
1 ACTT-AATTTTTAAT
92429000 ACTTATATTTTTAAT
1 ACTTA-ATTTTTAAT
92429015 ACTTAATTTTT
1 ACTTAATTTTT
92429026 CAGTTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ACTTAATTTTTAAT
Found at i:92429480 original size:75 final size:75
Alignment explanation
Indices: 92429391--92429540 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
92429381 ATAATTTTAG
92429391 TTAAAATTTTAAGTAATTTCCCTATTTAAATTATTATCAGAATTGACTTATAATACCAAATTAGA
1 TTAAAATTTTAAGTAATTTCCCTATTTAAATTATTATCAGAATTGACTTATAATACCAAATTAGA
92429456 TTTTAAGACA
66 TTTTAAGACA
*
92429466 TTAAAATTTTAAGTAATTTCCCTATTTGAATTATTATCAGAATTGACTTATAATACCAAATTAGA
1 TTAAAATTTTAAGTAATTTCCCTATTTAAATTATTATCAGAATTGACTTATAATACCAAATTAGA
*
92429531 TTTTAGGACA
66 TTTTAAGACA
92429541 CATATGAAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (75 bp):
TTAAAATTTTAAGTAATTTCCCTATTTAAATTATTATCAGAATTGACTTATAATACCAAATTAGA
TTTTAAGACA
Found at i:92429912 original size:51 final size:52
Alignment explanation
Indices: 92429815--92429917 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 52
92429805 AGAATAAGGC
*
92429815 AAGTCCTACATTCTTGTTGGATGTTGTACTGTTTTTAGGTAAAAATAGACAACA
1 AAGTCCTACACTCTTGTTGGA--TTGTACTGTTTTTAGGTAAAAATAGACAACA
92429869 AAGTCCTACACTCTTGTTGGA-TGTACTGTTTTTAGGTAAAAATAGACAA
1 AAGTCCTACACTCTTGTTGGATTGTACTGTTTTTAGGTAAAAATAGACAA
92429918 AAATAATAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
51 28 0.58
54 20 0.42
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (52 bp):
AAGTCCTACACTCTTGTTGGATTGTACTGTTTTTAGGTAAAAATAGACAACA
Found at i:92431747 original size:22 final size:22
Alignment explanation
Indices: 92431719--92431765 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
92431709 TAAATTATAA
92431719 TAAAATGATAATGATACTACTT
1 TAAAATGATAATGATACTACTT
92431741 TAAAATGATAATGATACTACTT
1 TAAAATGATAATGATACTACTT
92431763 TAA
1 TAA
92431766 TGTAGCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAAATGATAATGATACTACTT
Found at i:92438912 original size:16 final size:18
Alignment explanation
Indices: 92438891--92438927 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
92438881 TTAAAATATG
92438891 AAAAAATAAT-TT-TTTT
1 AAAAAATAATGTTCTTTT
*
92438907 AAAAAATTATGTTCTTTT
1 AAAAAATAATGTTCTTTT
92438925 AAA
1 AAA
92438928 GGTAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AAAAAATAATGTTCTTTT
Found at i:92454405 original size:20 final size:20
Alignment explanation
Indices: 92454380--92454421 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
92454370 TTTCATGTAC
92454380 GTGGTATTGTAATGTAAGTT
1 GTGGTATTGTAATGTAAGTT
92454400 GTGGTATTGTAATGTAAGTT
1 GTGGTATTGTAATGTAAGTT
92454420 GT
1 GT
92454422 AGATGTTTGA
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:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
GTGGTATTGTAATGTAAGTT
Found at i:92457230 original size:16 final size:18
Alignment explanation
Indices: 92457205--92457238 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
92457195 TTTTTCATAA
92457205 AAAAATTAATT-ACCACT
1 AAAAATTAATTAACCACT
92457222 AAAAA-TAATTAACCACT
1 AAAAATTAATTAACCACT
92457239 TATAAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTAATTAACCACT
Found at i:92457464 original size:2 final size:2
Alignment explanation
Indices: 92457457--92457489 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
92457447 TCTATATCAT
*
92457457 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92457490 TAAATTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92457574 original size:15 final size:17
Alignment explanation
Indices: 92457550--92457586 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
92457540 CGTGTACTCT
92457550 ATTTTGATAT-TTTT-A
1 ATTTTGATATCTTTTGA
*
92457565 ATTTTTATATCTTTTGA
1 ATTTTGATATCTTTTGA
92457582 ATTTT
1 ATTTT
92457587 AAAGTTTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 4 0.21
17 6 0.32
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTGATATCTTTTGA
Found at i:92464860 original size:16 final size:18
Alignment explanation
Indices: 92464839--92464873 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
92464829 ATAAATATTA
92464839 ATATTATAT-T-ATTTTT
1 ATATTATATGTCATTTTT
92464855 ATATTATATGTCATTTTT
1 ATATTATATGTCATTTTT
92464873 A
1 A
92464874 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATATTATATGTCATTTTT
Found at i:92466774 original size:15 final size:15
Alignment explanation
Indices: 92466753--92466792 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
92466743 TAATTATTAA
92466753 AAAATTATAAA-AAT
1 AAAATTATAAATAAT
92466767 ATAAATTATTAAATAAT
1 A-AAATTA-TAAATAAT
92466784 AAAATTATA
1 AAAATTATA
92466793 TTTTTTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 10 0.43
17 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATTATAAATAAT
Found at i:92479543 original size:44 final size:44
Alignment explanation
Indices: 92479468--92479569 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
92479458 CTAAGAATTT
* *
92479468 GCACACTTAGTG-CATCAGTTATTAGCCGAAGCTATAAT-GATCTC
1 GCACACTTAGTGCCATCAATTA-TAGCCGAAGCTAT-ATCGATATC
* * *
92479512 GCACACTTAGTGCCATCACATTA-AGCTGAAGCTATCTCGGTATC
1 GCACACTTAGTGCCATCA-ATTATAGCCGAAGCTATATCGATATC
92479556 GCACACTTAGTGCC
1 GCACACTTAGTGCC
92479570 CCATATAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 41 0.82
45 5 0.10
46 3 0.06
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
GCACACTTAGTGCCATCAATTATAGCCGAAGCTATATCGATATC
Found at i:92482047 original size:15 final size:15
Alignment explanation
Indices: 92482027--92482066 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
92482017 AACTTTAATT
*
92482027 TTTATATTTGGGAAC
1 TTTATATTTAGGAAC
*
92482042 TTTATATTTTAGTAAC
1 TTTATA-TTTAGGAAC
92482058 TTTATATTT
1 TTTATATTT
92482067 TGAAAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTATATTTAGGAAC
Found at i:92482075 original size:16 final size:16
Alignment explanation
Indices: 92482039--92482071 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92482029 TATATTTGGG
*
92482039 AACTTTATATTTTAGT
1 AACTTTATATTTTAGA
92482055 AACTTTATATTTT-GA
1 AACTTTATATTTTAGA
92482070 AA
1 AA
92482072 ACTTCCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
AACTTTATATTTTAGA
Found at i:92483833 original size:50 final size:50
Alignment explanation
Indices: 92483758--92483858 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
92483748 ACTTTTTTCT
* *
92483758 GTCTATCATTACGATACTCTAATCTAATGGTATTAATTTCTAGCATTGGA
1 GTCTATCATTACGATACTCCAATCTAATGGTATTAATTTCTAACATTGGA
*
92483808 GTCTATCATTACGGTACTCCAATCTAATGGTATTAATTTCTAACATTGGA
1 GTCTATCATTACGATACTCCAATCTAATGGTATTAATTTCTAACATTGGA
92483858 G
1 G
92483859 AACACTAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (50 bp):
GTCTATCATTACGATACTCCAATCTAATGGTATTAATTTCTAACATTGGA
Found at i:92484294 original size:23 final size:22
Alignment explanation
Indices: 92484268--92484314 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
92484258 AGGATAAAAA
*
92484268 TTCTCCCTTTATTTTTTTTCTTT
1 TTCTCCCTTT-TCTTTTTTCTTT
**
92484291 TTCTTTCTTTTCTTTTTTCTTT
1 TTCTCCCTTTTCTTTTTTCTTT
92484313 TT
1 TT
92484315 AATTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTCCCTTTTCTTTTTTCTTT
Found at i:92484303 original size:15 final size:16
Alignment explanation
Indices: 92484283--92484312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92484273 CCTTTATTTT
92484283 TTTTC-TTTTTCTTTC
1 TTTTCTTTTTTCTTTC
92484298 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
92484313 TTAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTCTTTC
Found at i:92486742 original size:46 final size:46
Alignment explanation
Indices: 92486692--92486867 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
92486682 TGGTTGAGCA
92486692 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
92486738 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
92486783 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
92486831 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92486868 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 59 0.53
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:92486848 original size:93 final size:93
Alignment explanation
Indices: 92486689--92486860 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
92486679 GGATGGTTGA
* *
92486689 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
92486754 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
92486782 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
92486846 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
92486861 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92503927 original size:9 final size:9
Alignment explanation
Indices: 92503907--92503981 Score: 53
Period size: 9 Copynumber: 8.3 Consensus size: 9
92503897 GGCATTGTTT
*
92503907 ATGATGAAG
1 ATGATGATG
*
92503916 ATGAAGATG
1 ATGATGATG
**
92503925 ATGGGGATG
1 ATGATGATG
*
92503934 ATGGTGATG
1 ATGATGATG
*
92503943 GTGATGATG
1 ATGATGATG
*
92503952 ATGATGGAAG
1 ATGAT-GATG
92503962 -TGATGATG
1 ATGATGATG
* *
92503970 GTGATGGTG
1 ATGATGATG
92503979 ATG
1 ATG
92503982 CATGCAACAC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
8 3 0.06
9 46 0.88
10 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.28
Consensus pattern (9 bp):
ATGATGATG
Found at i:92503933 original size:15 final size:15
Alignment explanation
Indices: 92503915--92503981 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
92503905 TTATGATGAA
*
92503915 GATGAAGATGATGGG
1 GATGATGATGATGGG
* *
92503930 GATGATGGTGATGGT
1 GATGATGATGATGGG
92503945 GATGATGATGATGGAAG
1 GATGATGATGATGG--G
* *
92503962 TGATGATGGTGATGGT
1 -GATGATGATGATGGG
92503978 GATG
1 GATG
92503982 CATGCAACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 29 0.69
18 13 0.31
ACGTcount: A:0.27, C:0.00, G:0.45, T:0.28
Consensus pattern (15 bp):
GATGATGATGATGGG
Found at i:92514748 original size:53 final size:51
Alignment explanation
Indices: 92514613--92514764 Score: 146
Period size: 52 Copynumber: 2.9 Consensus size: 51
92514603 TGACGAAAAA
* *
92514613 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGTTGGGATATGGCATCGGTAC
* * * * * **
92514665 AATATGACT-CGAGTTCCCGTATAAGACCATAGTTGGGTTATGGCATCGGTGT
1 GATGTGA-TATGTGTT-CCGTATAAGACCATAGTTGGGATATGGCATCGGTAC
*
92514717 GATGTGATAATGTGATTCCGTATGAGACCATA-TCTGGGATATGGCATC
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGT-TGGGATATGGCATC
92514765 AATATGTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
51 3 0.04
52 45 0.56
53 30 0.38
54 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGTTGGGATATGGCATCGGTAC
Found at i:92524443 original size:39 final size:39
Alignment explanation
Indices: 92524400--92524519 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
92524390 CCGGGTACCA
* * *
92524400 TTCCAACACGTAGCCTGTGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
92524439 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * *
92524478 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
92524517 TTC
1 TTC
92524520 AAATACCATG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:92525823 original size:21 final size:21
Alignment explanation
Indices: 92525798--92525838 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
92525788 CGGCAATTTC
92525798 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
92525819 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
92525839 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:92528280 original size:13 final size:14
Alignment explanation
Indices: 92528256--92528293 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
92528246 CCAGAAATGT
92528256 AAATTAATTTTT-AA
1 AAATT-ATTTTTCAA
92528270 AAATTATTTTTCAA
1 AAATTATTTTTCAA
92528284 AAATTATTTT
1 AAATTATTTT
92528294 CAGTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:92540568 original size:18 final size:17
Alignment explanation
Indices: 92540545--92540583 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
92540535 TAATCTTACA
*
92540545 ATATATTACTTTTATTAT
1 ATATATTACATTTATT-T
*
92540563 ATATATTAGATTTATTT
1 ATATATTACATTTATTT
92540580 ATAT
1 ATAT
92540584 TTTTTAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATATTACATTTATTT
Found at i:92541648 original size:11 final size:10
Alignment explanation
Indices: 92541616--92541665 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
92541606 TTTTTTCATT
*
92541616 AATTATAGAA
1 AATTATAAAA
*
92541626 CATTAT-AAA
1 AATTATAAAA
92541635 AATTATAGAAA
1 AATTATA-AAA
*
92541646 AATTATAAGA
1 AATTATAAAA
92541656 AATTATAAAA
1 AATTATAAAA
92541666 GTTCCCCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 7 0.21
10 16 0.48
11 10 0.30
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (10 bp):
AATTATAAAA
Found at i:92544401 original size:48 final size:48
Alignment explanation
Indices: 92544337--92544575 Score: 312
Period size: 48 Copynumber: 5.0 Consensus size: 48
92544327 GCATCAGTGA
*
92544337 GATATGTGATTCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
1 GATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
*
92544385 GATATGTGATCCGTGTAAGACCATAGTTGGTCTATGGCATCGATT-TGT
1 GATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCG-TTATGT
* * *
92544433 GATATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 G--ATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
* * *
92544483 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGA-TCCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
*
92544532 GA-A--T-AT--GTGTAAGACCATAGTTGGGCTATGGCATCATTATGT
1 GATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
92544574 GA
1 GA
92544576 AGATGTGTAA
Statistics
Matches: 175, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
42 35 0.20
44 1 0.01
45 1 0.01
46 1 0.01
48 53 0.30
49 42 0.24
50 42 0.24
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (48 bp):
GATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGT
Found at i:92544453 original size:98 final size:95
Alignment explanation
Indices: 92544333--92544610 Score: 335
Period size: 98 Copynumber: 3.0 Consensus size: 95
92544323 TATGGCATCA
92544333 GTGAGATATGTGATTCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCCG
1 GTGA-ATATGTGATT-GTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGAT-CG
* *
92544398 TGTAAGACCATAGTTGGTCTATGGCATCGATTT
63 TGTAAGACCATAGTTGGACTATGGCATCGATAT
* *
92544431 GTGATATATGTGATCTGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC
1 GTGA-ATATGTGAT-TGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGA-T-C
* *
92544496 GTGTAAGACCATAGCTGGGCTATGGCATCGATAT
62 GTGTAAGACCATAGTTGGACTATGGCATCGATAT
*
92544530 GTG-A-A--T-A-TGTGTAAGACCATAGTTGGGCTATGGCATCATTATGTGA-A---GAT-GTGT
1 GTGAATATGTGATTGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCGTGT
* *
92544584 AAGACCAAAGTTGAACTATGGCATCGA
66 AAGACCATAGTTGGACTATGGCATCGA
92544611 GAAAACGAAG
Statistics
Matches: 164, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
84 27 0.16
86 1 0.01
87 2 0.01
90 1 0.01
91 36 0.22
93 1 0.01
94 1 0.01
96 1 0.01
97 1 0.01
98 56 0.34
99 37 0.23
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (95 bp):
GTGAATATGTGATTGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCGTGT
AAGACCATAGTTGGACTATGGCATCGATAT
Found at i:92544542 original size:42 final size:42
Alignment explanation
Indices: 92544483--92544610 Score: 177
Period size: 42 Copynumber: 3.0 Consensus size: 42
92544473 ATCGATATGT
* * *
92544483 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
92544525 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
* * **
92544567 -ATTATGTGAAGATGTGTAAGACCAAAGTTGAACTATGGCATC
1 GA-TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
92544609 GA
1 GA
92544611 GAAAACGAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 75 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
Found at i:92549088 original size:20 final size:20
Alignment explanation
Indices: 92549046--92549095 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
92549036 ATTATTAAAT
92549046 TTAATTT-ATAAATATTTTA
1 TTAATTTAATAAATATTTTA
*
92549065 TTAATTTAATAGAT-TTTATA
1 TTAATTTAATAAATATTT-TA
92549085 TTAAATTTAAT
1 TT-AATTTAAT
92549096 CTAAATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 9 0.33
21 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATTTAATAAATATTTTA
Found at i:92553850 original size:15 final size:16
Alignment explanation
Indices: 92553818--92553852 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
92553808 CCACAACATC
92553818 ATTTATAAACATTTAA
1 ATTTATAAACATTTAA
*
92553834 ATTTATCAACA-TTAA
1 ATTTATAAACATTTAA
92553849 ATTT
1 ATTT
92553853 CTAATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTATAAACATTTAA
Found at i:92554028 original size:9 final size:9
Alignment explanation
Indices: 92554016--92554088 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
92554006 ATTTGGAAAA
92554016 TTTTATAAT
1 TTTTATAAT
92554025 TTTT-TAAT
1 TTTTATAAT
92554033 TATTCTATAAT
1 T-TT-TATAAT
*
92554044 TTTTGA-ACT
1 TTTT-ATAAT
*
92554053 TTTAATAAAT
1 TTTTAT-AAT
*
92554063 TGTTATAAT
1 TTTTATAAT
*
92554072 TTTTATAGT
1 TTTTATAAT
92554081 TTTTATAA
1 TTTTATAA
92554089 AATAAAAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
8 6 0.12
9 29 0.58
10 10 0.20
11 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:92555341 original size:13 final size:14
Alignment explanation
Indices: 92555317--92555357 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
92555307 TTTATTTAAA
*
92555317 AATAATTAAATATT
1 AATAAATAAATATT
*
92555331 AAT-TATAAATATT
1 AATAAATAAATATT
92555344 -ATAAATAAATATT
1 AATAAATAAATATT
92555357 A
1 A
92555358 CCGAGGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAATAAATATT
Found at i:92559917 original size:46 final size:46
Alignment explanation
Indices: 92559635--92559911 Score: 482
Period size: 46 Copynumber: 6.0 Consensus size: 46
92559625 GAGTGTGCTC
92559635 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
92559681 CCTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCCTGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
92559727 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
92559773 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* **
92559819 CGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
92559865 CCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
92559911 C
1 C
92559912 ATGACAGAAA
Statistics
Matches: 220, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 220 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (46 bp):
CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:92559928 original size:46 final size:46
Alignment explanation
Indices: 92559635--92559948 Score: 468
Period size: 46 Copynumber: 6.8 Consensus size: 46
92559625 GAGTGTGCTC
*
92559635 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
92559681 CCTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCCTGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
92559727 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
*
92559773 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
92559819 CGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
*
92559865 CCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * *
92559911 CATGACA-GAAAACGAGTAAAATCATAGTTGAAAGATAC
1 CCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
92559949 TATGACATCA
Statistics
Matches: 251, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 250 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:92560060 original size:13 final size:13
Alignment explanation
Indices: 92560042--92560071 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
92560032 TATCAGATGG
92560042 AATGGTTATATGA
1 AATGGTTATATGA
*
92560055 AATGGTTGTATGA
1 AATGGTTATATGA
92560068 AATG
1 AATG
92560072 TTTACAGGAA
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:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:92566108 original size:2 final size:2
Alignment explanation
Indices: 92566101--92566125 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92566091 CTCTTTTGTG
92566101 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
92566126 GGCGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92566572 original size:12 final size:12
Alignment explanation
Indices: 92566555--92566580 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92566545 ATTCTAGCCG
92566555 AATTTATTCACA
1 AATTTATTCACA
92566567 AATTTATTCACA
1 AATTTATTCACA
92566579 AA
1 AA
92566581 CTAGGACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTTATTCACA
Found at i:92568761 original size:31 final size:28
Alignment explanation
Indices: 92568721--92568778 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
92568711 TTGTTCAATT
*
92568721 CATGTCTATTACAATATCATTCTTTTTATTA
1 CATGGCTATTA-AATA--ATTCTTTTTATTA
*
92568752 CATGGCTATTAAATAATTTTTTTTATT
1 CATGGCTATTAAATAATTCTTTTTATT
92568779 TCAAAATACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
30 4 0.16
31 10 0.40
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.53
Consensus pattern (28 bp):
CATGGCTATTAAATAATTCTTTTTATTA
Found at i:92568866 original size:3 final size:3
Alignment explanation
Indices: 92568858--92568894 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
92568848 AAATTTGAAG
92568858 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92568895 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92569102 original size:20 final size:21
Alignment explanation
Indices: 92569067--92569114 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
92569057 GCTTACTACA
92569067 TCTTACACAGTCTAATATATTT
1 TCTTACACA-TCTAATATATTT
*
92569089 TCTTACAC-TCTAATGTATTT
1 TCTTACACATCTAATATATTT
92569109 TCTTAC
1 TCTTAC
92569115 TGCACAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.27, C:0.21, G:0.04, T:0.48
Consensus pattern (21 bp):
TCTTACACATCTAATATATTT
Found at i:92573232 original size:69 final size:69
Alignment explanation
Indices: 92573022--92573233 Score: 256
Period size: 69 Copynumber: 3.1 Consensus size: 69
92573012 GAGTTAAGCC
* *
92573022 TTTTAATTTTTGTTTTTCAAATCAACTCATATTGCTAGA-TGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTAATTTGTG-TTTTCAAATCAACTCATATTGCTAGAGTGAGTTGAGCCTCAGGGCACGCTGA
92573086 GGTAT
65 GGTAT
* * * * * *
92573091 TTTCAATTTTTGTGTTTT-AATTC-ACTCATATTGCGA-AGATGAGTTGAGCCTCAAGACACGTT
1 TTTTAA--TTTGTGTTTTCAAATCAACTCATATTGCTAGAG-TGAGTTGAGCCTCAGGGCACGCT
92573153 GAGGTAT
63 GAGGTAT
92573160 TTTTAA-TTGTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTTAATTTGTGTTTTC-AAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCAGGGCACGCTG
92573223 AGGTAT
64 AGGTAT
92573229 TTTTA
1 TTTTA
92573234 GTTTAAATTG
Statistics
Matches: 120, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
66 9 0.08
67 1 0.01
68 16 0.13
69 70 0.58
70 18 0.15
71 6 0.05
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTAATTTGTGTTTTCAAATCAACTCATATTGCTAGAGTGAGTTGAGCCTCAGGGCACGCTGAG
GTAT
Found at i:92573303 original size:249 final size:254
Alignment explanation
Indices: 92572861--92573462 Score: 940
Period size: 249 Copynumber: 2.4 Consensus size: 254
92572851 TATNGTAAAA
*
92572861 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTC
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTG-TGTTT
*
92572926 TCAAAATCAACTCATATTGCGAGAAGTGA--TGAGCTCGGGGCACGCTGAGGTATTTTTAGTTTT
65 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCGGGGCACGCTGAGGTATTTTTAGTTTT
* *
92572989 AAATTGACTCATATTGCGAGAGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAATCAACTCATAT
130 AAATTGACTCATACTGCGAGAGTGAGTTAAGCCTTTTAATTTTGGTTTTTCAAATCAACTCATAT
92573054 TGCTAGA-TGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTCAATTTTTGTGTTTTAA-T
195 TGCTAGAGTGAGTTGAGCCTCGGGGCACGCTGA-GTATTTTTCAATTTTTGTGTTTTAATT
92573112 TC-ACTCATATTGCGA-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTGTTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTGTTTT
*
92573175 CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAG-TTT
66 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCGGGGCACGCTGAGGTATTTTTAGTTTT
92573238 AAATTGACTCATACTGCGAGAGGTGAGTT-AGCCTTTT-ATTTTGGTTTTTCAAAATCAACTCAT
130 AAATTGACTCATACTGCGAGA-GTGAGTTAAGCCTTTTAATTTTGGTTTTTC-AAATCAACTCAT
92573301 ATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGTATTTTTCAATTTTTGTGTTTTAATT
193 ATTGCTAGA-GTGAGTTGAGCCTCGGGGCACGCTGAGTATTTTTCAATTTTTGTGTTTTAATT
* * * * * *
92573364 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA-ATTTATTTCTGTTTG
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTGTTT-
*
92573428 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
65 TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
92573463 ACCTTTTAAT
Statistics
Matches: 325, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
248 43 0.13
249 94 0.29
250 49 0.15
251 51 0.16
252 3 0.01
253 24 0.07
254 33 0.10
255 28 0.09
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (254 bp):
TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTGTTTT
CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCGGGGCACGCTGAGGTATTTTTAGTTTTA
AATTGACTCATACTGCGAGAGTGAGTTAAGCCTTTTAATTTTGGTTTTTCAAATCAACTCATATT
GCTAGAGTGAGTTGAGCCTCGGGGCACGCTGAGTATTTTTCAATTTTTGTGTTTTAATT
Found at i:92573452 original size:71 final size:68
Alignment explanation
Indices: 92573272--92573462 Score: 204
Period size: 72 Copynumber: 2.7 Consensus size: 68
92573262 GAGTTAGCCT
* * * *
92573272 TTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTATTTT-G-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGA
*
92573337 GTATT
64 GTATA
* **
92573342 TTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
1 TTT--A-TTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
92573407 GAGGTA-A
62 GA-GTATA
*
92573414 TTTATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTATTT-TGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
92573463 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
69 5 0.05
70 10 0.10
71 28 0.28
72 51 0.50
73 7 0.07
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (68 bp):
TTTATTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGT
ATA
Found at i:92573633 original size:87 final size:88
Alignment explanation
Indices: 92573487--92573892 Score: 405
Period size: 87 Copynumber: 4.8 Consensus size: 88
92573477 ACTTTTTCAA
* *
92573487 AATCAGCTCATATTGCGAGAGGTGAGTT-AGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
92573551 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
*
92573574 AATCAGCTCATATTGCGAGAGGTGAG-TGAACCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
92573638 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
** * * *
92573661 AATCA-CTTGTATTGCGAAAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * ** *
92573725 GTTTTTCAAT-TTCTGTCTTTCAAAAA
64 G-TTTTCATTATTATGT-TTTTGAAAG
* * ** * * * *
92573751 AATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTG-
92573816 TTTTCA--A--A--------AAA-
65 TTTTCATTATTATGTTTTTGAAAG
* * * * *
92573827 AGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
92573892 T
66 T
92573893 GTCAAAAAAA
Statistics
Matches: 276, Mismatches: 35, Indels: 28
0.81 0.10 0.08
Matches are distributed among these distances:
75 2 0.01
76 57 0.21
77 3 0.01
86 17 0.06
87 97 0.35
89 58 0.21
90 18 0.07
91 24 0.09
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (88 bp):
AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:92573732 original size:14 final size:14
Alignment explanation
Indices: 92573713--92573747 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
92573703 CGCCGAGGTA
92573713 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
92573727 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
92573741 CTTTCAA
1 TTTTCAA
92573748 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:92573812 original size:178 final size:173
Alignment explanation
Indices: 92573497--92573818 Score: 403
Period size: 178 Copynumber: 1.8 Consensus size: 173
92573487 AATCAGCTCA
* * * * * *
92573497 TATTGCGAGAGGTGAGTTAGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTCTTCATTATTA
1 TATTGCGAAAGGCGAGTTAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCCGTCTTCAATATTA
** * * ** * *
92573562 TGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTGAACCTCAGGTCACGCCGAGGTATTT
66 TGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTGAACCTCAAGACACGCCGAGGTATTT
92573627 TCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCACTTG
131 TCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCACTTG
*
92573670 TATTGCGAAAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAAT
1 TATTGCGAAAGGCGAGTT-AGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCCG-TCTTCAAT
* * * * *
92573735 -TTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
62 ATTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAG-TGAACCTCAAGACACGCCGAG
92573799 GTATTTTCAATTTCTGTTTT
125 GTATTTTCAATTTCTGTTTT
92573819 TCAAAAAAAG
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
173 16 0.13
174 10 0.08
176 27 0.22
177 34 0.28
178 36 0.29
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (173 bp):
TATTGCGAAAGGCGAGTTAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCCGTCTTCAATATTA
TGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTGAACCTCAAGACACGCCGAGGTATTT
TCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCACTTG
Found at i:92574009 original size:80 final size:77
Alignment explanation
Indices: 92573727--92574335 Score: 590
Period size: 80 Copynumber: 7.7 Consensus size: 77
92573717 CAATTTCCGT
* ** *
92573727 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--A
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
92573790 CATGCTGAGGTA
66 CACGCTGAGGTA
*
92573802 TTTTCAATTTCTGTTTTTCAAAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
1 TTTTCAATTTCTGTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
92573865 ACACGCTGAGGTA
65 ACACGCTGAGGTA
* * * * *
92573878 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
92573942 CACGCCGAGGTA
66 CACGCTGAGGTA
* * *
92573954 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGG
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
92574018 CTCACGCGCTGAGCTA
63 -TCACACGCTGAGGTA
* * *
92574034 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
92574099 CAC-CTGAGGTA
66 CACGCTGAGGTA
* * * * * *
92574110 TTTTTTCAATTTATAT-TTCTCAAAAAAATCAACTCACATTGTGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
92574174 TCACATG-TCGAGGTA
63 TCACACGCT-GAGGTA
* *** *
92574189 TTTTCAAAATCTGTTTTTTAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTC--AA-----TTTCT-G--TCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* ** *
92574254 GCCT-TGGCTCACGTGCTGAGCTA
55 GCCTCAGG-TCACACGCTGAGGTA
* *
92574277 TTTTCAATTTCTGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG---TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
92574336 TTTTTAATTT
Statistics
Matches: 445, Mismatches: 60, Indels: 53
0.80 0.11 0.09
Matches are distributed among these distances:
74 33 0.07
75 35 0.08
76 88 0.20
77 51 0.11
78 57 0.13
79 10 0.02
80 101 0.23
81 7 0.02
84 4 0.01
86 2 0.00
87 3 0.01
88 52 0.12
89 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
CACGCTGAGGTA
Found at i:92574282 original size:88 final size:88
Alignment explanation
Indices: 92574133--92574295 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
92574123 TATTTCTCAA
* * * *
92574133 AAAAATCAACTCACATTGTGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
92574198 TCTGTTTTTTAGATTCTGTTTTC
66 TCTGTTTTTTAGATTCTGTTTTC
* * * *
92574221 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
92574285 TTCTGTTTTTT
65 ATCTGTTTTTT
92574296 TTCAAAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 1 0.02
88 64 0.98
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTTAGATTCTGTTTTC
Found at i:92574353 original size:30 final size:30
Alignment explanation
Indices: 92574317--92574378 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
92574307 CAACTCATAT
92574317 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
92574347 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
92574377 TG
1 TG
92574379 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:92574547 original size:14 final size:13
Alignment explanation
Indices: 92574528--92574563 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
92574518 TGTCGAGGTA
92574528 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
92574541 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
92574555 TTTTCAAAA
1 TTTTCAAAA
92574564 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:92574635 original size:88 final size:88
Alignment explanation
Indices: 92574472--92574637 Score: 226
Period size: 88 Copynumber: 1.9 Consensus size: 88
92574462 TATTTTTCAA
* * *
92574472 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
* *
92574537 TCTGTTTTTCAAATTCTGTTTTC
66 TCTATCTTTCAAATTCTGTTTTC
* * * *
92574560 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
92574624 TTCTATCTTTCAAA
65 ATCTATCTTTCAAA
92574638 AAAAATTCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
87 1 0.01
88 66 0.99
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTATCTTTCAAATTCTGTTTTC
Found at i:92574718 original size:72 final size:72
Alignment explanation
Indices: 92574543--92574779 Score: 287
Period size: 72 Copynumber: 3.2 Consensus size: 72
92574533 AAAATCTGTT
* * ** *
92574543 TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGT
1 TTTCAAATTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGT
* *
92574607 GCTGAGCTAT
65 --TGAGGTAA
* * *
92574617 TTTCAATTTCTATCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGGCTCAAGAC
1 TTTCAAATTCTGT-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
92574682 ACGTTGAGGTAA
61 ACGTTGAGGTAA
*
92574694 TTTCAAATTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTT
1 TTTCAAATTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
92574759 GAGGTAA
66 GAGGTAA
*
92574766 TTTCAATTTCTGTT
1 TTTCAAATTCTGTT
92574780 CAAAATGAGT
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
72 66 0.46
74 11 0.08
75 4 0.03
76 4 0.03
77 17 0.12
79 39 0.27
80 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (72 bp):
TTTCAAATTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:92574790 original size:49 final size:49
Alignment explanation
Indices: 92574733--92574828 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
92574723 ATATTGCGAG
* *
92574733 AAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
92574782 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
92574829 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:92574883 original size:121 final size:121
Alignment explanation
Indices: 92574661--92574900 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
92574651 ATATTGCGAG
* *
92574661 AAATGAGTTGAGGCTCAAGACACGTTGAGGTAATTTCAAATTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAATTCTGTTTTCAAAATTCAACTCATA
* *
92574726 TTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
92574782 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAATTCTGTTTTCAAAATTCAACTCATA
* * *
92574847 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
92574901 TTTCAAAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAATTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:92575035 original size:75 final size:75
Alignment explanation
Indices: 92574782--92575135 Score: 450
Period size: 75 Copynumber: 4.7 Consensus size: 75
92574772 TTTCTGTTCA
* *
92574782 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
92574844 ATATTGCGAG
66 ATATTGCGAG
* *
92574854 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAATCA
*
92574919 ACTCATATTGTGAG
62 ACTCATATTGCGAG
*
92574933 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
92574998 ATATTGCGAG
66 ATATTGCGAG
** * *
92575008 AGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTGTC-AAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* *
92575071 GTATTGTGAG
66 ATATTGCGAG
*** * *
92575081 AGGCGAGTTGAGCCTCAGGTCACACG-TCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCT-GAGGTATTTTCAATTTCTGTTTTTCAA
92575136 TTTCTGCCTT
Statistics
Matches: 251, Mismatches: 19, Indels: 19
0.87 0.07 0.07
Matches are distributed among these distances:
72 42 0.17
73 43 0.17
74 5 0.02
75 86 0.34
76 4 0.02
77 1 0.00
79 70 0.28
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:92575063 original size:154 final size:149
Alignment explanation
Indices: 92574782--92575345 Score: 467
Period size: 154 Copynumber: 3.6 Consensus size: 149
92574772 TTTCTGTTCA
* *
92574782 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
92574844 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC----
92574909 AAAAAAATCAACTCATATTGTGAG
127 -AAAAAATCAACTCATATTGTGAG
*
92574933 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
**
92574998 ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
*
92575062 AATCAACTCGTATTGTGAG
131 AATCAACTCATATTGTGAG
*** * *
92575081 AGGCGAGTTGAGCCTCAGGTCACACG-TCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCT
1 AAATGAGTTGAGCCTCAAG--ACACGCT-GAGGTATTTTCAA--------TTTC--TGT-T---T
* ** ** * * *
92575145 TTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTAT
49 TTC--AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGCTGAGGTAA
* *
92575209 TTTCAATTTCTATCTT-TCAAAAAAATCAACTCATATTGCGAG
109 TTTCAATTTCTGT-TTGTC-AAAAAATCAACTCATATTGTGAG
** * * * * *
92575251 AGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCA
1 AAATGAGTTGAGCCTCA-A-GACACGCTGAGGTA--TTTTCAATTTCTGTTTTTCAAAAAAATCA
* **
92575316 ACTCACATTGCGAGATGTGAGTTGAGCCTC
62 ACTCATATTGCGAGAAATGAGTTGAGCCTC
92575346 GGGTCACATG
Statistics
Matches: 345, Mismatches: 35, Indels: 64
0.78 0.08 0.14
Matches are distributed among these distances:
148 37 0.11
149 1 0.00
150 17 0.05
151 43 0.12
152 5 0.01
153 5 0.01
154 61 0.18
155 1 0.00
156 35 0.10
158 8 0.02
160 2 0.01
161 2 0.01
162 2 0.01
164 7 0.02
166 37 0.11
167 1 0.00
168 22 0.06
169 3 0.01
170 48 0.14
171 1 0.00
172 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (149 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
AATCAACTCATATTGTGAG
Found at i:92575227 original size:93 final size:93
Alignment explanation
Indices: 92575058--92575228 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
92575048 TTCTGTTGTC
* * *
92575058 AAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGCTATTTTCAAT
* *
92575123 TTCCGTTTTTCAATTTCTGCCTTTCAAA
66 TTCCATCTTTCAATTTCTGCCTTTCAAA
* * * *
92575151 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCG-CTGAGCTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGTC-GAGCTATTTTCA
*
92575214 ATTTCTATCTTTCAA
64 ATTTCCATCTTTCAA
92575229 AAAAATCAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 3 0.05
93 63 0.95
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (93 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGCTATTTTCAAT
TTCCATCTTTCAATTTCTGCCTTTCAAA
Found at i:92575258 original size:77 final size:77
Alignment explanation
Indices: 92575129--92575514 Score: 317
Period size: 79 Copynumber: 4.7 Consensus size: 77
92575119 CAATTTCCGT
** *
92575129 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTATCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
92575194 CACGCGCTGAGCTA
64 CACACGCTGAGCTA
* *
92575208 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
* *
92575272 ACACACTGAGGTA
65 ACACGCTGAGCTA
* * * * * *
92575285 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
* *
92575350 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
* *** *
92575364 TTTTCAAAATCTTTTTTCAAATTCTGTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTC--AA-----TTTC-TA-TCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
**
92575429 CCTTGGCTCACGTGCTGAGCTA
56 CCTTGGCTCACACGCTGAGCTA
* *
92575451 TTTTCAATTTCTGTTTTTTTTTCTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC------TATCT-TTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
92575515 TTTTAATTTC
Statistics
Matches: 247, Mismatches: 38, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
76 3 0.01
77 53 0.21
78 1 0.00
79 82 0.33
80 6 0.02
84 12 0.05
85 32 0.13
86 2 0.01
87 55 0.22
88 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CACGCTGAGCTA
Found at i:92575382 original size:13 final size:14
Alignment explanation
Indices: 92575364--92575401 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
92575354 TGTCGAGGTA
92575364 TTTTCAAAATCT-T
1 TTTTCAAAATCTGT
*
92575377 TTTTCAAATTCTGT
1 TTTTCAAAATCTGT
*
92575391 TTTTAAAAATC
1 TTTTCAAAATC
92575402 AACTCATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTCAAAATCTGT
Found at i:92575453 original size:87 final size:86
Alignment explanation
Indices: 92575308--92575773 Score: 306
Period size: 88 Copynumber: 5.4 Consensus size: 86
92575298 TATTTTTCAA
* * * * * *
92575308 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGT-GAGCTATTTTCAAAA
92575373 TCT-TTTTTCAAATTCTGTTTTT
65 TCTGTTTTT-AAATTCTGTTTTT
* **
92575395 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTG-TGAGCTATTTTCAAAA
* * ***
92575460 TCTGTTTTT---TTTTCTTCAA
65 TCTGTTTTTAAATTCTGTTTTT
* *** ** * * **
92575479 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAATTTC-TGTGAG--A-GTT-GAGT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTGAGCTATTTTCAAAA
** *
92575539 TGAGTCTTTTAATTTCTGTTTTT
65 TCTGT-TTTTAAATTCTGTTTTT
* ** * * *
92575562 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATATCGAGGTATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGT-GAGCTATTTTCAA
* * * ** **
92575626 AATCTGCCTTTCAAGTTAAGTTTCA
63 AATCTG-TTTTTAAATTCTGTTTTT
* **
92575651 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTG-TGAGCTATTTTCAAAA
*
92575716 TCTGTTTTT-AATGCCTGTTTTT
65 TCTGTTTTTAAAT-TCTGTTTTT
* * * **
92575738 AGAAAGTCAATTCATATTGCGAAAAATGAGTTGAGC
1 A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
92575774 TCAGGATCAC
Statistics
Matches: 286, Mismatches: 73, Indels: 39
0.72 0.18 0.10
Matches are distributed among these distances:
79 5 0.02
80 6 0.02
81 1 0.00
83 41 0.14
84 19 0.07
85 36 0.13
86 2 0.01
87 68 0.24
88 93 0.33
89 15 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTGAGCTATTTTCAAAAT
CTGTTTTTAAATTCTGTTTTT
Found at i:92575541 original size:29 final size:30
Alignment explanation
Indices: 92575499--92575557 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
92575489 CTCATATTGC
92575499 GAGAGGTGAGTTGAG-CTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGTCTTTTAATTTCTGT
*
92575528 GAGAGTTGAGTTGAGTCTTTTAATTTCTGT
1 GAGAGGTGAGTTGAGTCTTTTAATTTCTGT
92575558 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (30 bp):
GAGAGGTGAGTTGAGTCTTTTAATTTCTGT
Found at i:92575710 original size:256 final size:249
Alignment explanation
Indices: 92574980--92575725 Score: 867
Period size: 243 Copynumber: 3.0 Consensus size: 249
92574970 AATTTCTGTT
* * * *
92574980 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA--A
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCT
* * * *
92575041 TTTCAATTTCTG-TTGTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT-CAGGTCAC
66 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCA-GTCAC
* ** * * *
92575104 ACGTCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTTATATT
130 ATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG--TTTC---AAAAAATCAACTCATATT
92575169 GCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTC------TATC
190 GCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTATC
*
92575223 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCT
* * * * **
92575288 TTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCAC
66 TTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGTCAC
**
92575353 ATGTCGAGGTATTTTCAAAATCT-TTTTTCAAATTCTGTTTTTAAAAATCAACTCATATTGCGAG
130 ATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAG
* * * *
92575417 AAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTT
195 AGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTATC
* ** * *
92575472 TCTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTA-ATTTCTGTGAGAGTTG
1 T-TTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-TTCAGA--TC--ACACA-CTG
* *
92575536 AGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
58 AGGT-A-TCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* ** * **
92575599 TCCAGTCACATATCGAGGTATTTTCAAAATCTGCCTTTCAAGTTAAGTTTCAAAAAATCAACTCA
121 TCCAGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAAATCAACTCA
92575664 TATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTA
186 TATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTA
92575726 ATGCCTGTTT
Statistics
Matches: 428, Mismatches: 51, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
243 108 0.25
244 1 0.00
245 12 0.03
246 3 0.01
247 10 0.02
248 17 0.04
249 60 0.14
250 10 0.02
251 31 0.07
252 3 0.01
253 2 0.00
255 64 0.15
256 89 0.21
257 13 0.03
258 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (249 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATCT
TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGTCACA
TGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTTATC
Found at i:92576425 original size:33 final size:33
Alignment explanation
Indices: 92576378--92576466 Score: 132
Period size: 32 Copynumber: 2.8 Consensus size: 33
92576368 TAAGCCCCCC
92576378 AAAA-AAAACCTAACCCAAAAAAAAAAGAAGAA
1 AAAAGAAAACCTAACCCAAAAAAAAAAGAAGAA
*
92576410 AAAAGAAAACTTAACCC-AAAAAAAAAGAAGAA
1 AAAAGAAAACCTAACCCAAAAAAAAAAGAAGAA
92576442 AAAAGAAAAACCTAA--CAAAAAAAAA
1 AAAAG-AAAACCTAACCCAAAAAAAAA
92576467 CTAAAAAAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.02
32 32 0.62
33 19 0.37
ACGTcount: A:0.75, C:0.13, G:0.07, T:0.04
Consensus pattern (33 bp):
AAAAGAAAACCTAACCCAAAAAAAAAAGAAGAA
Found at i:92576527 original size:13 final size:13
Alignment explanation
Indices: 92576505--92576535 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92576495 TCCCACTTGC
92576505 CCCA-TTTTTCCT
1 CCCATTTTTTCCT
92576517 CCCATTTTTTCCT
1 CCCATTTTTTCCT
92576530 CCCATT
1 CCCATT
92576536 GTCTACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.10, C:0.42, G:0.00, T:0.48
Consensus pattern (13 bp):
CCCATTTTTTCCT
Found at i:92579149 original size:3 final size:3
Alignment explanation
Indices: 92579143--92579285 Score: 114
Period size: 3 Copynumber: 47.0 Consensus size: 3
92579133 AAAAGGAAAA
* * * * *
92579143 AAT AAT AAT AAT AAT AAGC AA- AAA AAA AAG ACT AAT GAAT -AT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
92579188 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * *
92579233 ACGTT AAGT TAT AAT AGT AA- AAT AAT AAT AAT AGT GAT AAT AAT AAT
1 A--AT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
92579280 AAT AAT
1 AAT AAT
92579286 TCGATAAAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.07
3 96 0.83
4 9 0.08
5 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:92580757 original size:32 final size:30
Alignment explanation
Indices: 92580671--92580772 Score: 82
Period size: 32 Copynumber: 3.3 Consensus size: 30
92580661 CTTATAGAGA
*
92580671 ATATACATATAAAATAATTT-AATG-ACAAT
1 ATATACATAT-AAATAATTTAAAAGAACAAT
* * * * *
92580700 AATATATACATCAATAAATTCAAAAGAAGACAT
1 -ATATACATATAAAT-AATTTAAAAGAACA-AT
92580733 ATATACATATAAATACATTTAAAAGAACAAT
1 ATATACATATAAATA-ATTTAAAAGAACAAT
*
92580764 ATTTACATA
1 ATATACATA
92580773 AAACAGTATG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
29 3 0.05
30 12 0.22
31 14 0.25
32 24 0.44
33 2 0.04
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (30 bp):
ATATACATATAAATAATTTAAAAGAACAAT
Found at i:92581006 original size:18 final size:19
Alignment explanation
Indices: 92580985--92581027 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
92580975 AATAATTTAA
*
92580985 AATAATATAT-ATTAAAAT
1 AATAATATATAAATAAAAT
92581003 AAT-ATATATAAATAAAAT
1 AATAATATATAAATAAAAT
92581021 AA-AATAT
1 AATAATAT
92581028 GAACTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAATATATAAATAAAAT
Found at i:92581017 original size:13 final size:15
Alignment explanation
Indices: 92580981--92581011 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
92580971 ATAAAATAAT
92580981 TTAAAATAATATATA
1 TTAAAATAATATATA
92580996 TTAAAATAATATATA
1 TTAAAATAATATATA
92581011 T
1 T
92581012 AAATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAAATAATATATA
Found at i:92604195 original size:19 final size:19
Alignment explanation
Indices: 92604158--92604196 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92604148 TAAAAATGTA
*
92604158 AGGAATAATATATATATAT
1 AGGAATAATATATACATAT
92604177 AGGAA-AATATATAACATAT
1 AGGAATAATATAT-ACATAT
92604196 A
1 A
92604197 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (19 bp):
AGGAATAATATATACATAT
Found at i:92604229 original size:21 final size:21
Alignment explanation
Indices: 92604205--92604250 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92604195 TAATAAAATT
92604205 TATAAATAAAATG-TATAATAA
1 TATAAATAAAATGATA-AATAA
*
92604226 TATAAATAATATGATAAATAA
1 TATAAATAAAATGATAAATAA
92604247 TATA
1 TATA
92604251 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATAAATAAAATGATAAATAA
Found at i:92604234 original size:12 final size:11
Alignment explanation
Indices: 92604219--92604265 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
92604209 AATAAAATGT
92604219 ATAATAATATAA
1 ATAAT-ATATAA
92604231 ATAATATGATAA
1 ATAATAT-ATAA
92604243 ATAATATATAAAA
1 ATAATATAT--AA
92604256 ATAATATATA
1 ATAATATATA
92604266 TACAATTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
ATAATATATAA
Found at i:92606162 original size:21 final size:20
Alignment explanation
Indices: 92606132--92606170 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
92606122 AAGAAATTTT
92606132 AATATTAATAAATACAAACA
1 AATATTAATAAATACAAACA
*
92606152 AATATATAATAATTACAAA
1 AATAT-TAATAAATACAAA
92606171 TAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
AATATTAATAAATACAAACA
Found at i:92607113 original size:17 final size:17
Alignment explanation
Indices: 92607091--92607166 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
92607081 AAATATTGTT
92607091 AAAAAATATTATCATTA
1 AAAAAATATTATCATTA
92607108 AAAAAATA--A-CATTA
1 AAAAAATATTATCATTA
*
92607122 AAAATACTAAACTGT-TCTATTA
1 AAAA-A--ATA-T-TATC-ATTA
*
92607144 AAAAAACATTATCATTA
1 AAAAAATATTATCATTA
92607161 AAAAAA
1 AAAAAA
92607167 CAGTTTAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
14 9 0.19
15 2 0.04
17 21 0.45
18 3 0.06
19 2 0.04
21 2 0.04
22 8 0.17
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.29
Consensus pattern (17 bp):
AAAAAATATTATCATTA
Found at i:92607292 original size:25 final size:24
Alignment explanation
Indices: 92607218--92607299 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 24
92607208 TTTTAAGTGA
*
92607218 TATTATTGTGTTTTGTATGCATTTGTAT
1 TATTATTGTGATTTG-ATGC-TTT-T-T
92607246 ATATTATTGTGATATT-AT--TTTTT
1 -TATTATTGTGAT-TTGATGCTTTTT
*
92607269 TATTATTGTGATTTGCATGCTTTTG
1 TATTATTGTGATTTG-ATGCTTTTT
92607294 TATTAT
1 TATTAT
92607300 ATTTATGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
21 2 0.04
22 12 0.26
23 3 0.07
24 1 0.02
25 13 0.28
28 2 0.04
29 11 0.24
30 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.15, T:0.61
Consensus pattern (24 bp):
TATTATTGTGATTTGATGCTTTTT
Found at i:92609335 original size:15 final size:15
Alignment explanation
Indices: 92609317--92609351 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
92609307 TAGACAACAG
92609317 TGTTTCAAACGGTGA
1 TGTTTCAAACGGTGA
*
92609332 TGTTTCAATCGGTGA
1 TGTTTCAAACGGTGA
92609347 TGTTT
1 TGTTT
92609352 TCTTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (15 bp):
TGTTTCAAACGGTGA
Found at i:92614639 original size:31 final size:31
Alignment explanation
Indices: 92614591--92614661 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
92614581 TTAGAAAAAA
*
92614591 AAGTTCAAGCCCCAATGTAGGAATAATTGTC
1 AAGTTCAAGCCCCAATGTAGGAACAATTGTC
* * * *
92614622 TAGTTCATGCCCTAATGTGGGAACAATTGTC
1 AAGTTCAAGCCCCAATGTAGGAACAATTGTC
92614653 AAGTTCAAG
1 AAGTTCAAG
92614662 GACTAACTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (31 bp):
AAGTTCAAGCCCCAATGTAGGAACAATTGTC
Found at i:92614725 original size:91 final size:89
Alignment explanation
Indices: 92614544--92614819 Score: 344
Period size: 91 Copynumber: 3.1 Consensus size: 89
92614534 CAAGTTTAAA
* * * * *
92614544 CCTAATATGAGAACAAATT-CCAAGTTCGAGGACTAACTTAG-AAAAAAAA-GTTCAAGCCCCAA
1 CCTAATGTGGGAAC-AATTGCCAAGTTCAAGGACTAACTTGGAAAAAAAAATGTTTAAGCCCCAA
* *
92614606 TGTAGGAATAATTGTCTAGTTCATGC
65 TGTA-GAACAATTGTCTAGTTCAGGC
* *
92614632 CCTAATGTGGGAACAATTGTCAAGTTCAAGGACTAACTTGGACAAAAAAAATGTTTAAGCCACAA
1 CCTAATGTGGGAACAATTGCCAAGTTCAAGGACTAACTTGGA-AAAAAAAATGTTTAAGCCCCAA
*
92614697 TGTGAGAACAATTGTCTAGTTCGGGC
65 TGT-AGAACAATTGTCTAGTTCAGGC
* * *
92614723 CCTAATGTGGGAACAATTGCCAAGCTCAAGGACTAACTTGGATAAAAAAAT-TCTAAGCCCCAAT
1 CCTAATGTGGGAACAATTGCCAAGTTCAAGGACTAACTTGGAAAAAAAAATGTTTAAGCCCCAAT
*
92614787 GTAGAAACAATTGCCTAGTTCAGGC
66 GTAG-AACAATTGTCTAGTTCAGGC
*
92614812 CTTAATGT
1 CCTAATGT
92614820 AACATCCTGA
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
87 4 0.02
88 33 0.20
89 38 0.23
90 16 0.10
91 72 0.44
92 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (89 bp):
CCTAATGTGGGAACAATTGCCAAGTTCAAGGACTAACTTGGAAAAAAAAATGTTTAAGCCCCAAT
GTAGAACAATTGTCTAGTTCAGGC
Found at i:92614947 original size:13 final size:13
Alignment explanation
Indices: 92614931--92614956 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92614921 AAAATGATTT
92614931 TTTGAAAATTTCG
1 TTTGAAAATTTCG
92614944 TTTGAAAATTTCG
1 TTTGAAAATTTCG
92614957 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:92616119 original size:49 final size:49
Alignment explanation
Indices: 92616047--92616228 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
92616037 TCTATTGTGA
*
92616047 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
92616096 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* *
92616146 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
92616196 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
92616229 TGCGTACCAG
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 72 0.62
50 4 0.03
51 41 0.35
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:92616222 original size:100 final size:100
Alignment explanation
Indices: 92616049--92616236 Score: 367
Period size: 100 Copynumber: 1.9 Consensus size: 100
92616039 TATTGTGAGG
92616049 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
92616114 AAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
*
92616149 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
92616214 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
92616237 AGATAGCTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
Found at i:92617448 original size:18 final size:18
Alignment explanation
Indices: 92617425--92617510 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
92617415 GAACGATTAT
* *
92617425 TTATTCAATAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
92617443 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
*
92617461 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAG
* *
92617479 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAG
92617498 TTATTCAGTAACA
1 TTATTCAGTAACA
92617511 GTCGATCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
18 42 0.74
19 15 0.26
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:92617466 original size:36 final size:37
Alignment explanation
Indices: 92617425--92617513 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
92617415 GAACGATTAT
* * *
92617425 TTATTCAATAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* *
92617461 TTATTCAGTAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
92617498 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
92617514 GATCTTTCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 28 0.62
37 17 0.38
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:92617707 original size:47 final size:47
Alignment explanation
Indices: 92617638--92617744 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
92617628 CAGTAACAGT
* * * * *
92617638 AACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATCCGA
*
92617685 AACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATTCGA
1 AACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATCCGA
92617732 AACAGTAACAGTA
1 AACAGTAACAGTA
92617745 ACGGTAACAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATCCGA
Found at i:92617745 original size:53 final size:50
Alignment explanation
Indices: 92617632--92617756 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 50
92617622 CCGAAACAGT
* * * *
92617632 AACAGTAACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAATC
1 AACAGTAACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATC
*
92617682 --C-GGAACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATTC
1 AACAGTAACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAA-TC
*
92617730 GAAACAGTAACAGTAACGGTAACAGTA
1 --AACAGTAACAGTAACAGT-ACAGTA
92617757 ACAATATCCG
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
47 39 0.64
48 3 0.05
52 1 0.02
53 12 0.20
54 6 0.10
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (50 bp):
AACAGTAACAGTAACAGTACAGTACACAGAGTAACTCATCGGAACAAATC
Found at i:92617991 original size:21 final size:20
Alignment explanation
Indices: 92617935--92617991 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
92617925 CACTTTTCAG
92617935 TTTTCAATTAAT-TCATATTT
1 TTTTCAATTAATAT-ATATTT
*
92617955 TAATT-AATTAATTATATATTT
1 T-TTTCAATTAA-TATATATTT
92617976 TTTTCAATTCAATATA
1 TTTTCAATT-AATATA
92617992 ATTCCATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 9 0.30
21 18 0.60
22 3 0.10
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTCAATTAATATATATTT
Found at i:92626703 original size:55 final size:55
Alignment explanation
Indices: 92626598--92626703 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
92626588 CTGAGTAGGT
* *
92626598 AAATGTCTAATGTAGTCAAGAACCGAGATTTTGAGTTTTTCCTTTCTATGTCAGC
1 AAATGTCTAATGTAATCAAGAACCGAGATTTTGAGTTTTTCCTTACTATGTCAGC
* * * * *
92626653 AAATGTTTGATGTAATCAAGAACTGAGGTTTTTGAG-TTTTCCTTAGTATGT
1 AAATGTCTAATGTAATCAAGAACCGA-GATTTTGAGTTTTTCCTTACTATGT
92626704 ATCTGCATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 35 0.81
56 8 0.19
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (55 bp):
AAATGTCTAATGTAATCAAGAACCGAGATTTTGAGTTTTTCCTTACTATGTCAGC
Found at i:92634690 original size:13 final size:13
Alignment explanation
Indices: 92634672--92634697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92634662 ATTGGGGTAT
92634672 TCGAACTCTTGTA
1 TCGAACTCTTGTA
92634685 TCGAACTCTTGTA
1 TCGAACTCTTGTA
92634698 GAATTGAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TCGAACTCTTGTA
Found at i:92645578 original size:33 final size:33
Alignment explanation
Indices: 92645505--92645650 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
92645495 ATGGACCTTT
* * * *
92645505 CCTTTTCTAGTAGTACACCCGAGGTGTACACT-C
1 CCTTTTCAAGTGGTACACACGAAGTGTACA-TAC
*
92645538 CCATTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
* ** * * *
92645571 CCTTTTCAATTTATACACACAAAGTGCACATAA
1 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
* * **
92645604 CCTTTTCAAGT-GTACACA-TATAGTGTACCTTT
1 CCTTTTCAAGTGGTACACACGA-AGTGTACATAC
92645636 CCTTTTCAAGTGGTA
1 CCTTTTCAAGTGGTA
92645651 TACAAAAAGT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
31 1 0.01
32 25 0.27
33 65 0.71
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACGAAGTGTACATAC
Found at i:92645673 original size:30 final size:30
Alignment explanation
Indices: 92645637--92645694 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
92645627 TGTACCTTTC
*
92645637 CTTTTCA-AGTGGTATACAAAAAGTATACCT
1 CTTTTCATA-TGGAATACAAAAAGTATACCT
*
92645667 CTTTTCATATGGAATACACAAAGTATAC
1 CTTTTCATATGGAATACAAAAAGTATAC
92645695 TTAACCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTTCATATGGAATACAAAAAGTATACCT
Found at i:92646424 original size:21 final size:21
Alignment explanation
Indices: 92646394--92646436 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
92646384 TGTAAAAGTG
92646394 ATTTCTCTATTAATAAACTTTC
1 ATTTCTCTA-TAATAAACTTTC
*
92646416 ATTTC-CTATCATAAACTTTC
1 ATTTCTCTATAATAAACTTTC
92646436 A
1 A
92646437 ATTTACATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 3 0.15
22 5 0.25
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCTATAATAAACTTTC
Found at i:92646446 original size:20 final size:20
Alignment explanation
Indices: 92646406--92646448 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
92646396 TTCTCTATTA
*
92646406 ATAAACTTTCATTTCCTATC
1 ATAAACTTTCATTTACTATC
92646426 ATAAACTTTCAATTTAC-ATC
1 ATAAACTTTC-ATTTACTATC
92646446 ATA
1 ATA
92646449 TTCATCCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAACTTTCATTTACTATC
Found at i:92655104 original size:30 final size:31
Alignment explanation
Indices: 92655057--92655118 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
92655047 AGGTTAGTTT
92655057 TATAAAAAGACCCAACTACCCATCTATCTGC
1 TATAAAAAGACCCAACTACCCATCTATCTGC
*
92655088 TATAAAAA-AGCCAACTACCCATCTATCTGC
1 TATAAAAAGACCCAACTACCCATCTATCTGC
92655118 T
1 T
92655119 CTGCTCCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.39, C:0.31, G:0.06, T:0.24
Consensus pattern (31 bp):
TATAAAAAGACCCAACTACCCATCTATCTGC
Found at i:92656778 original size:21 final size:21
Alignment explanation
Indices: 92656752--92656803 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
92656742 TTTCAGAGAT
92656752 ACTTTTAAGGTTACGTGTCAA
1 ACTTTTAAGGTTACGTGTCAA
92656773 ACTTTTAAGGTTACGTGTCAA
1 ACTTTTAAGGTTACGTGTCAA
92656794 ACTTTTAAGG
1 ACTTTTAAGG
92656804 GTAACATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (21 bp):
ACTTTTAAGGTTACGTGTCAA
Found at i:92656939 original size:58 final size:59
Alignment explanation
Indices: 92656877--92656992 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 59
92656867 TATAAATATG
* *
92656877 AAAATTACTTCCATAAAGAGGGGATAAGAGAAAAAAAAA-ACATATATTCCAATTAATA
1 AAAATAACTTCCATAAAGAGGGGACAAGAGAAAAAAAAATACATATATTCCAATTAATA
* * * *
92656935 AAAATAACTTTCATGAGGAGGGGACCAGAGAAAAAAAAATACATATATTCCAATTAAT
1 AAAATAACTTCCATAAAGAGGGGACAAGAGAAAAAAAAATACATATATTCCAATTAAT
92656993 TGATTTACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 33 0.65
59 18 0.35
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (59 bp):
AAAATAACTTCCATAAAGAGGGGACAAGAGAAAAAAAAATACATATATTCCAATTAATA
Found at i:92666540 original size:20 final size:20
Alignment explanation
Indices: 92666499--92666541 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
92666489 TTTGTTTAAA
*
92666499 AATATTTTTATTTAAAACAT
1 AATATTTTTATATAAAACAT
*
92666519 AATATTTGTTATATCAAA-AT
1 AATATTT-TTATATAAAACAT
92666539 AAT
1 AAT
92666542 TTTCCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATTTTTATATAAAACAT
Found at i:92668639 original size:15 final size:15
Alignment explanation
Indices: 92668619--92668647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92668609 TTAGGTATCG
92668619 ATATTTTTGTATCTA
1 ATATTTTTGTATCTA
92668634 ATATTTTTGTATCT
1 ATATTTTTGTATCT
92668648 GTAACACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (15 bp):
ATATTTTTGTATCTA
Found at i:92672700 original size:13 final size:13
Alignment explanation
Indices: 92672682--92672729 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
92672672 TATATATATA
92672682 TATATTATTGTGG
1 TATATTATTGTGG
* *
92672695 TATATTATATAT-A
1 TATATTAT-TGTGG
92672708 TATATTATTGTGG
1 TATATTATTGTGG
92672721 TATATTATT
1 TATATTATT
92672730 TTAGGAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TATATTATTGTGG
Done.