Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 173 of 228
Found at i:51866161 original size:23 final size:23
Alignment explanation
Indices: 51866117--51866176 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
51866107 TTTCTTTTTA
51866117 TTTCTTCC-TTTTGTTTTATTCT
1 TTTCTTCCATTTTGTTTTATTCT
51866139 TTTCTTCCATTTTGATTTT-TTCT
1 TTTCTTCCATTTTG-TTTTATTCT
* *
51866162 TTACTGCCATTTTGT
1 TTTCTTCCATTTTGT
51866177 GTTTTAGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 9 0.26
23 21 0.62
24 4 0.12
ACGTcount: A:0.08, C:0.18, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTCTTCCATTTTGTTTTATTCT
Found at i:51867948 original size:6 final size:6
Alignment explanation
Indices: 51867939--51867965 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51867929 TAAATTTAAA
51867939 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
51867966 TAATTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:51868803 original size:21 final size:21
Alignment explanation
Indices: 51868759--51868812 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
51868749 TAACTGGGTG
** *
51868759 ACACGGGCATGTGTCTCCTCC
1 ACACGGGCATGTGTAGCCTAC
*
51868780 ACACGGGCATGTGTAGCTTAC
1 ACACGGGCATGTGTAGCCTAC
**
51868801 ACATAGGCATGT
1 ACACGGGCATGT
51868813 AGACCATCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (21 bp):
ACACGGGCATGTGTAGCCTAC
Found at i:51871933 original size:477 final size:478
Alignment explanation
Indices: 51871038--51871960 Score: 1383
Period size: 477 Copynumber: 1.9 Consensus size: 478
51871028 TGCTTCTTTG
* *
51871038 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGATTTTCTAACTAAATGAAG
1 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
* * * * *
51871103 TGGAAAATGGAGGGTTCGTGAATGAGATAAATGAGAGGTTCATGAATGATAAGAGGAAATGAAGG
66 GGGAAAATAGAGGGTTCATGAATGAGAGAAATGAGAGGTTCATGAATGATAAGAGAAAATGAAGG
*
51871168 ATGAATGTTAGGTGAGGGATGATAGATGATTTAAAATGGGGAATGGAGGTAGGTATTTATAGTGA
131 ATGAATGTTAGGTGAGGGATGATAGATGATTTAAAATGGGGAATGGAGGTAGGTATTTAGAGTGA
* * * * * *
51871233 AGGTTGGCGGTTGAGTTTACTAAAAATAGTGTGAAAAATCCCTCCATTTACTCCTTTGCTTGGCC
196 AGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTAGCC
51871298 AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
261 AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
*
51871363 CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCGTTTTCTAATTTATTTGCAAGTG
326 CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCAAGTG
* **
51871428 GAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCTTAGTAGTCCAAATGCCTTTTCTCAAGGA
391 CAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCCAAGTAGTCCAAATGCCTTTTCTCAAGGA
51871493 ATTGCTAACTAATTTCTCCTTCA
456 ATTGCTAACTAATTTCTCCTTCA
51871516 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
1 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
*
51871581 GGGAAAATAGA-GGTGT-ATGAATGAGAGAAATGAGAGGTT-ACTGAATGATAAGAGAAAATGGA
66 GGGAAAATAGAGGGT-TCATGAATGAGAGAAATGAGAGGTTCA-TGAATGATAAGAGAAAATGAA
* * * *
51871643 TGATGAATGTTCGGTGAGGGTTGA-AGGATGATTTGAAATGGGGAATGGAGGT-GTGTATTTAGA
129 GGATGAATGTTAGGTGAGGGATGATA-GATGATTTAAAATGGGGAATGGAGGTAG-GTATTTAGA
* *
51871706 GTGAAGGTTAGTGGATGAGTTTACTAAAGATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTT
192 GTGAAGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTT
* * * *
51871771 AGCCAGCCACATATAT-TGGAAGAGGGAGTTGTTTGGTTTCTTGATTTC-TGTATGATATCATGC
257 AGCCAACCACATAT-TGTGGAAGAGGCAGTTGTTTGGTTGCTTGA-TTCATGCATGATATCATGC
* * * * * * *
51871834 TTGAATCAAGCAAGGGGTGGATGGTTTCTTGGGCAAAGTTTGTGTGCCATTTTCTGATTTGTTTG
320 TTGAATCAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTG
* * * *
51871899 CAAGTGCAGGGACCTCTAGTAAATCTCCCAAAAATGAATTTCCAAGTAGTTCAAATGCCTTT
385 CAAGTGCAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCCAAGTAGTCCAAATGCCTTT
51871961 GCCGAATTTG
Statistics
Matches: 399, Mismatches: 40, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
476 3 0.01
477 319 0.80
478 77 0.19
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (478 bp):
CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
GGGAAAATAGAGGGTTCATGAATGAGAGAAATGAGAGGTTCATGAATGATAAGAGAAAATGAAGG
ATGAATGTTAGGTGAGGGATGATAGATGATTTAAAATGGGGAATGGAGGTAGGTATTTAGAGTGA
AGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTAGCC
AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCAAGTG
CAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCCAAGTAGTCCAAATGCCTTTTCTCAAGGA
ATTGCTAACTAATTTCTCCTTCA
Found at i:51877307 original size:171 final size:171
Alignment explanation
Indices: 51877015--51877355 Score: 583
Period size: 171 Copynumber: 2.0 Consensus size: 171
51877005 ATTCCACTGA
51877015 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
1 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
* * * * *
51877080 TTTATTCTCCTAATTCTCAAATTTAGTTTGTTAAAAAGTGGCACGACATACTGTCTTATGGGTTG
66 TCTAGTCTCCTAATTCTCAAATGTAGTTTGTTAAAAACTGGCACGACATACTGTCTTATGGGTCG
51877145 ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTAT
131 ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTAT
* * *
51877186 ATTGGCCTATTGTTTTAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGTAGTGCCTCGATC
1 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
* *
51877251 TCTAGTCTCCTAATTCTCAGATGTAGTTTGTTAAAAACTGGCACGACATGCTGTCTTATGGGTCG
66 TCTAGTCTCCTAATTCTCAAATGTAGTTTGTTAAAAACTGGCACGACATACTGTCTTATGGGTCG
*
51877316 ATCCCTATCATCGGCAATAACGATTGGATTTTGAGCATTA
131 ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTA
51877356 GCGGCTTTAT
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 159 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (171 bp):
ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
TCTAGTCTCCTAATTCTCAAATGTAGTTTGTTAAAAACTGGCACGACATACTGTCTTATGGGTCG
ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTAT
Found at i:51878668 original size:22 final size:24
Alignment explanation
Indices: 51878652--51878696 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
51878642 AATGAAGGGG
51878652 GAAATG-GAGGTTTATGAATGAGA
1 GAAATGAGAGGTTTATGAATGAGA
51878675 GAAATGAGAGG-TTACTGAATGA
1 GAAATGAGAGGTTTA-TGAATGA
51878697 TAAGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.24
Consensus pattern (24 bp):
GAAATGAGAGGTTTATGAATGAGA
Found at i:51881563 original size:23 final size:23
Alignment explanation
Indices: 51881533--51881600 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
51881523 CAACTCATAT
* *
51881533 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCGACA
* *
51881556 GAGCTTACCATTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGACA
51881579 GAGCTTACCGTTTATCAGCTCG
1 GAGCTTACCG-TT-TCAGCTCG
51881601 GAATGAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
23 28 0.74
24 2 0.05
25 8 0.21
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGACA
Found at i:51888465 original size:17 final size:17
Alignment explanation
Indices: 51888415--51888467 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
51888405 TATAATAAAA
* *
51888415 ATAAAAAATAAAAATATT
1 ATAAAAATTATAAAT-TT
51888433 -TAAAAATATATCAAATTT
1 ATAAAAAT-TAT-AAATTT
51888451 ATAAAAATTATAAATTT
1 ATAAAAATTATAAATTT
51888468 GTTTCTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.40
18 7 0.23
19 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAAATTATAAATTT
Found at i:51889652 original size:10 final size:10
Alignment explanation
Indices: 51889632--51889667 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
51889622 ATATATTATT
51889632 AAAAAAT-TA
1 AAAAAATATA
51889641 AAAAAATATA
1 AAAAAATATA
51889651 AAAAAATACTA
1 AAAAAATA-TA
51889662 AAAAAA
1 AAAAAA
51889668 GAATATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.28
10 10 0.40
11 8 0.32
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAATATA
Found at i:51892375 original size:43 final size:43
Alignment explanation
Indices: 51892327--51892570 Score: 300
Period size: 43 Copynumber: 5.7 Consensus size: 43
51892317 TTATTTCTAT
* *
51892327 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTCAAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
* * *** *
51892370 AAACGCCGCTAAAGGTCATATTCGTTAGCGGCGC--CACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCA-AC
*
51892412 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
*
51892455 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTT-ACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCA-AC
** **
51892498 AAATACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAA-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
51892540 AAACGGCC-CTAAAGGTCATGTTCTTTAGCGG
1 AAAC-GCCGCTAAAGGTCATGTTCTTTAGCGG
51892571 TGCCGCTATT
Statistics
Matches: 171, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 59 0.35
43 108 0.63
44 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
Found at i:51892470 original size:85 final size:85
Alignment explanation
Indices: 51892327--51892570 Score: 305
Period size: 85 Copynumber: 2.9 Consensus size: 85
51892317 TTATTTCTAT
* * * *
51892327 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTCAACAAACGCCGCTAAAGGTCATATT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACG-CGCTAAAGGTCATGTT
*
51892392 CGTTAGCGGCGCCACCATA-A-
65 CTTTAGCGGCG-CACCATACAC
51892412 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCTGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACGC-GCTAAAGGTCATGTT
****
51892477 CTTTAGCGGCGCTTTTTACAC
65 CTTTAGCGGCGCACCATACAC
** * * *
51892498 AAATACCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCAAAAACGGCCCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC-GCGCTAAAGGTCATGTT
51892562 CTTTAGCGG
65 CTTTAGCGG
51892571 TGCCGCTATT
Statistics
Matches: 141, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
84 4 0.03
85 103 0.73
86 34 0.24
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCGCTAAAGGTCATGTTC
TTTAGCGGCGCACCATACAC
Found at i:51892474 original size:128 final size:128
Alignment explanation
Indices: 51892327--51892570 Score: 350
Period size: 128 Copynumber: 1.9 Consensus size: 128
51892317 TTATTTCTAT
*
51892327 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTT-CAACAAACGCCGCTAAAGGTCATAT
1 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTAC-ACAAACACCGCTAAAGGTCATAT
*
51892391 TCGTTAGCGGCGC-CACCATAAAAAC-GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCA
65 TCGTTAGCGGCGCTCACC-CAAAAACGGCC-CTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCA
51892454 C
128 C
* * * * *
51892455 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTACACAAATACCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTACACAAACACCGCTAAAGGTCATATT
* **
51892520 CTTTAGCGGCGCTTTCCCAAAAACGGCCCTAAAGGTCATGTTCTTTAGCGG
66 CGTTAGCGGCGCTCACCCAAAAACGGCCCTAAAGGTCATGTTCTTTAGCGG
51892571 TGCCGCTATT
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
128 97 0.94
129 6 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (128 bp):
AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTACACAAACACCGCTAAAGGTCATATT
CGTTAGCGGCGCTCACCCAAAAACGGCCCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:51892942 original size:21 final size:21
Alignment explanation
Indices: 51892917--51892966 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
51892907 TGTCGTACTT
51892917 TCTGCTTTCCTCACTGCAGCC
1 TCTGCTTTCCTCACTGCAGCC
* * *
51892938 TCTGCTTCCCTCGCTGCCGCC
1 TCTGCTTTCCTCACTGCAGCC
51892959 TCTGCTTT
1 TCTGCTTT
51892967 AAGTTGTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.44, G:0.16, T:0.36
Consensus pattern (21 bp):
TCTGCTTTCCTCACTGCAGCC
Found at i:51895122 original size:13 final size:13
Alignment explanation
Indices: 51895106--51895146 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
51895096 CATTTACTAT
51895106 ATTCATTAAGAAA
1 ATTCATTAAGAAA
51895119 ATTCATTCAA-AAA
1 ATTCATT-AAGAAA
*
51895132 ATTCATTTAGAAA
1 ATTCATTAAGAAA
51895145 AT
1 AT
51895147 CTCTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (13 bp):
ATTCATTAAGAAA
Found at i:51895281 original size:60 final size:60
Alignment explanation
Indices: 51895187--51895310 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
51895177 CACAAAATTC
* *
51895187 ATTC-GGGCAACTGCTAAATAAACAATTTAAACCTAAATCCCTCATACA-TCGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACT-GTAACCAAA
*
51895246 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACTGTAACCAAA
51895306 ATTCA
1 ATTCA
51895311 CAAAATTCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
59 4 0.07
60 55 0.92
61 1 0.02
ACGTcount: A:0.43, C:0.26, G:0.08, T:0.23
Consensus pattern (60 bp):
ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACTGTAACCAAA
Found at i:51896858 original size:270 final size:271
Alignment explanation
Indices: 51896278--51896960 Score: 762
Period size: 270 Copynumber: 2.5 Consensus size: 271
51896268 AATACTTGAT
* * * * * *
51896278 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGGCACCATTTACCCATTACTCTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * * * *
51896343 CCCTTTTGCGGCGTTTATTGTAAAAATGCCGCTATTGCTTCCACATTTCTGGCGTTTTCCTAAAA
66 CCCTTTTGCGGCGTTTACTGTAAAAACGCCACTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
** ** * * * *
51896408 ACGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCACCGTTTTTGTTAGTCTCAAATTGCATTA
131 ACGCCACTAAATATTAAAGTCATAAACAGAAACGACACCGTTTTTGCTACTCTCAAACTGCATTA
** * * * *
51896473 TTTCTGGCGTTTTATGTAAAAACACCACTAATACTTAATTTACTTTAACCCAAATGGTGATGTTT
196 TTTCTGGCGTTTTATGTAAAAACACCACTAATACTTAACGTAATTTAACCCAAACGATGACGTTT
51896538 TAAATAAATAA
261 TAAATAAATAA
* * * *
51896549 TTCTAAAATCTTTCTAAGTTAAAAATCGTGTACAGAAACGACGCCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * *
51896614 CCCTTGTGCAGCGTTTACTGTACAAACGCCACTATTGCTTCCAAAGTTCCGGCGTTTTGCC-GAA
66 CCCTTTTGCGGCGTTTACTGTAAAAACGCCACTATTGCTTCCAAAGTTCCGGCGTTTT-CCTAAA
* *
51896678 AACGCCAC-AAATATTTAAAGTCATAAACAGAAACGACGCCG-TTTTGCTACTGTCAAACTGCAT
130 AACGCCACTAAATA-TTAAAGTCATAAACAGAAACGACACCGTTTTTGCTACTCTCAAACTGCAT
* * * * *
51896741 TGTTTCTGGCGTTTTATGTTAAAACGCCGCTAATACTTAACGTAATTTAAGCCAAACGATGACGT
194 TATTTCTGGCGTTTTATGTAAAAACACCACTAATACTTAACGTAATTTAACCCAAACGATGACGT
*
51896806 TTTAAGTAAATAA
259 TTTAAATAAATAA
* * * * * * * ** *
51896819 TTCTAAACTTTTTATAAGTTAAAAATTGTGGAGAGAAACGGCGTCGTTTACTCAAAATTTTAAGA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * * * * **
51896884 CACTTTTGCGGCGTTT-CTTGTAAAAACGCCACTAATGCATCCAATATTTGCAGCGTTTTCAAAA
66 CCCTTTTGCGGCGTTTAC-TGTAAAAACGCCACTATTGCTTCCAA-AGTTCCGGCGTTTTCCTAA
51896948 AAACGCCACTAAA
129 AAACGCCACTAAA
51896961 AGTTTAACTA
Statistics
Matches: 340, Mismatches: 66, Indels: 11
0.82 0.16 0.03
Matches are distributed among these distances:
269 1 0.00
270 178 0.52
271 156 0.46
272 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (271 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
CCCTTTTGCGGCGTTTACTGTAAAAACGCCACTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
ACGCCACTAAATATTAAAGTCATAAACAGAAACGACACCGTTTTTGCTACTCTCAAACTGCATTA
TTTCTGGCGTTTTATGTAAAAACACCACTAATACTTAACGTAATTTAACCCAAACGATGACGTTT
TAAATAAATAA
Found at i:51897335 original size:44 final size:42
Alignment explanation
Indices: 51897284--51897386 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 42
51897274 ACCTTTGAAT
* *
51897284 TCCTAAACCCTAAATCATTAACCCCTTAAACCCTAGCCCTTAAA
1 TCCTAAACCCTAAATC-TT-ACCCCCTAAACCCTAACCCTTAAA
* * *
51897328 TCCTAAACCCCTAAACTCTTACCCCCTAACCCCTAACTCTTATA
1 TCCTAAA-CCCTAAA-TCTTACCCCCTAAACCCTAACCCTTAAA
*
51897372 TCCCAAACCCTAAAT
1 TCCTAAACCCTAAAT
51897387 TCATACCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 7 0.14
44 32 0.63
45 9 0.18
46 2 0.04
ACGTcount: A:0.34, C:0.40, G:0.01, T:0.25
Consensus pattern (42 bp):
TCCTAAACCCTAAATCTTACCCCCTAAACCCTAACCCTTAAA
Found at i:51897380 original size:22 final size:22
Alignment explanation
Indices: 51897326--51897385 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
51897316 CTAGCCCTTA
*
51897326 AATCCTAAACCCCTAAACTCTT
1 AATCCCAAACCCCTAAACTCTT
** *
51897348 ACCCCCTAACCCCT-AACTCTT
1 AATCCCAAACCCCTAAACTCTT
51897369 ATATCCCAAA-CCCTAAA
1 A-ATCCCAAACCCCTAAA
51897386 TTCATACCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (22 bp):
AATCCCAAACCCCTAAACTCTT
Found at i:51904332 original size:29 final size:31
Alignment explanation
Indices: 51904299--51904361 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
51904289 AGCTAGAAAT
51904299 CGAAAAATTAAG-AAAAGGGAAGAATAAA-C
1 CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
*
51904328 CGAAAAATTAAGAAAAAGTGAAGAATAAAGC
1 CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
51904359 CGA
1 CGA
51904362 GGAAGATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 12 0.39
30 15 0.48
31 4 0.13
ACGTcount: A:0.60, C:0.08, G:0.21, T:0.11
Consensus pattern (31 bp):
CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
Found at i:51904969 original size:19 final size:19
Alignment explanation
Indices: 51904945--51904991 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
51904935 TTGATGTCTT
*
51904945 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
51904964 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
51904983 TATGCATTA
1 TTTGCATTA
51904992 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:51907513 original size:51 final size:51
Alignment explanation
Indices: 51907330--51907530 Score: 203
Period size: 51 Copynumber: 4.0 Consensus size: 51
51907320 TAAAAGTTAA
* * *
51907330 AGTGATGGTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGA-
1 AGTGATAGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT
* * * * *
51907380 A-TGATAAGTCGCATGTGTAGTACTATGTGCAAACTATTATGCGTACCGGAT
1 AGTGAT-AGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT
* * * * *
51907431 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGAT
1 AG-TGATAG-TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT
* * *
51907482 AGTGATTGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGG
1 AGTGATAGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGG
51907531 TATCATTAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
AGTGATAGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT
Found at i:51907769 original size:16 final size:16
Alignment explanation
Indices: 51907748--51907779 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51907738 TGATTGAAAG
*
51907748 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
51907764 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
51907780 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:51912040 original size:36 final size:36
Alignment explanation
Indices: 51911991--51912062 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
51911981 CAGGACTATT
51911991 GTTTAGAACGCACCAGGTTTAAAGGTTGGAAATATC
1 GTTTAGAACGCACCAGGTTTAAAGGTTGGAAATATC
*
51912027 GTTTAGAATGCACCAGGTTTAAAGGTTGGAAATATC
1 GTTTAGAACGCACCAGGTTTAAAGGTTGGAAATATC
51912063 TGAGAAGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (36 bp):
GTTTAGAACGCACCAGGTTTAAAGGTTGGAAATATC
Found at i:51913539 original size:44 final size:44
Alignment explanation
Indices: 51913490--51913594 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
51913480 AACTCATCGG
* **
51913490 AATAATAACAGATACACGATGGCCTGCACAGAGTCCGTACCACT
1 AATAATAACAGATACACGATGGCCTGCACAGAGTCCATACCAAA
* * *
51913534 AATAATAACAGATACACGGTGGCCTGCACATAGTCCATCCCAAA
1 AATAATAACAGATACACGATGGCCTGCACAGAGTCCATACCAAA
*
51913578 AATAATAACATATACAC
1 AATAATAACAGATACAC
51913595 AGTGCATCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (44 bp):
AATAATAACAGATACACGATGGCCTGCACAGAGTCCATACCAAA
Found at i:51913639 original size:43 final size:43
Alignment explanation
Indices: 51913589--51913717 Score: 204
Period size: 43 Copynumber: 3.0 Consensus size: 43
51913579 ATAATAACAT
*
51913589 ATACACAGTGCATCAGCACATAGCACCACCCTTATAGTCAATG
1 ATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAATG
* *
51913632 ATACACAGTGGATCAGCACATAGCACCACCCGTATAATCAATG
1 ATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAATG
* * *
51913675 ATACCCGGTGGATCAGCACATAGCACTACCCTTATAGTCAATG
1 ATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAATG
51913718 TCATCCGGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (43 bp):
ATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAATG
Found at i:51915877 original size:143 final size:143
Alignment explanation
Indices: 51914802--51915879 Score: 1344
Period size: 143 Copynumber: 7.5 Consensus size: 143
51914792 GTTGTAGTAC
* * * **
51914802 AGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGCTGCAGCGGAGCAGACTGAAGACAGTGAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * * *
51914867 CTTATATCCCTGAAG-A-TGCAGTGGAACAGATTGAAGCTACAAATTATGGTGGTTCTTATCTTT
66 CTTATTTCCCTG--GCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTC
* * * *
51914930 CTAAAATTACAATGG
129 CTGAAGTTGCAGTGG
* * * *
51914945 AGCAGATTGAAGCCACCAGCCTTATTTCCCTGAAATTGCAGCGGAGCAGACTGAATACAGTAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * * * * *
51915010 CTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGATAGAAATTATGGCGGATCTTATCTTCTT
66 CTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCCT
*
51915075 GAAGTTGTAGTGG
131 GAAGTTGCAGTGG
* *
51915088 AGCAGATTGAAGCCACCAACCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
** * * * *
51915153 CTTATTTCTTTGGCGTTGCAGTGGAACAAATTAAAGCTAGAAATTATGGTGGGTCTTATCTTCCT
66 CTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCCT
*
51915218 GAAGTTGTAGTGG
131 GAAGTTGCAGTGG
* * * *
51915231 AGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGTA-CTGGAGCAGACTGAAGATAGCGAA
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC-GGAGCAGACTGAAGACAGCAAA
* * * **
51915295 TCTTATTTCTCTAGCATTGCAGTGGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCC
65 TCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCC
* **
51915360 TGAAGTTGTAGTAA
130 TGAAGTTGCAGTGG
* * * ** *
51915374 AGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGCTGCAGCGGAGCAGACTAAAGATTGCGAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * * *
51915439 CTTATTTCCTTGAAG-A-TGCAGTGGAACATATTGAAGCTACAAATTATGGCT-GTTCTTATCTT
66 CTTATTTCCCTG--GCATTGCAGTGGAACAGATTAAAGCTACAAATTATGG-TGGATCTTATCTT
* *
51915501 CCTAAAGTTGCAGTGA
128 CCTGAAGTTGCAGTGG
* * * * *
51915517 AGCAAATTGAGGCCACCAGCCTTATCTCCCTGAACTTACAGCGGAGCACACTGAAGACAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * **
51915582 CTT-TTTCCCCTGGCATTACAGTGGAACAGATTAAAGCTATAAATTATGCCGGATCTTATCTTCC
66 CTTATTT-CCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCC
51915646 TGAAGTTGCAGTGG
130 TGAAGTTGCAGTGG
* * *
51915660 AGCAGATTGAAGCCACCAACCTTATCTCTCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * *
51915725 CTTATTTCCCTGGCATTGTAGTGGAATAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
66 CTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCCT
51915790 -AGAGTTGCAGTGG
131 GA-AGTTGCAGTGG
* * * *
51915803 AGTAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
51915868 CTTATTTCCCTG
66 CTTATTTCCCTG
51915880 AAATTACAAT
Statistics
Matches: 811, Mismatches: 111, Indels: 26
0.86 0.12 0.03
Matches are distributed among these distances:
141 2 0.00
142 6 0.01
143 797 0.98
144 5 0.01
145 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
CTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCCT
GAAGTTGCAGTGG
Found at i:51919411 original size:38 final size:38
Alignment explanation
Indices: 51919337--51919412 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
51919327 GAAACAACAT
* * *
51919337 ACATGCTTAACATGCATTCAGTTTAACATTAGTAGTAA
1 ACATGCTTAACATGCATTCAGTTCAACAATAATAGTAA
*
51919375 ACATGCTTAACATGTATTC-GATTCAACAATAATAGTAA
1 ACATGCTTAACATGCATTCAG-TTCAACAATAATAGTAA
51919413 GCATCCTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (38 bp):
ACATGCTTAACATGCATTCAGTTCAACAATAATAGTAA
Found at i:51922582 original size:25 final size:25
Alignment explanation
Indices: 51922550--51922602 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
51922540 GTTACAAATT
**
51922550 TTTGTTTTTAAGTTGTGTCTTTTAA
1 TTTGTTTTTAAGTCATGTCTTTTAA
*
51922575 TTTGTTTTTAGGTCATGTCTTTTAA
1 TTTGTTTTTAAGTCATGTCTTTTAA
51922600 TTT
1 TTT
51922603 TCTCTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (25 bp):
TTTGTTTTTAAGTCATGTCTTTTAA
Found at i:51924224 original size:17 final size:18
Alignment explanation
Indices: 51924202--51924242 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
51924192 AATTAATTGA
51924202 AATTTAATATTTTCA-AT
1 AATTTAATATTTTCACAT
51924219 AATTTAATATTTTCACAT
1 AATTTAATATTTTCACAT
51924237 -ATTTAA
1 AATTTAA
51924243 CAATTCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTAATATTTTCACAT
Found at i:51924336 original size:9 final size:9
Alignment explanation
Indices: 51924322--51924347 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
51924312 GCTACTTATT
51924322 ATTTAATTA
1 ATTTAATTA
51924331 ATTTAATTA
1 ATTTAATTA
51924340 ATTTAATT
1 ATTTAATT
51924348 TTAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTAATTA
Found at i:51924822 original size:81 final size:81
Alignment explanation
Indices: 51924687--51924929 Score: 459
Period size: 81 Copynumber: 3.0 Consensus size: 81
51924677 AAGTTCTTTA
*
51924687 CCACTACACTTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
51924752 CCCACCCACATTGTGT
66 CCCACCCACATTGTGT
51924768 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
51924833 CCCACCCACATTGTGT
66 CCCACCCACATTGTGT
*
51924849 CCACTACGCCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
*
51924914 CCCACTCACATTGTGT
66 CCCACCCACATTGTGT
51924930 ATCTATACGA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 159 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (81 bp):
CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
CCCACCCACATTGTGT
Found at i:51925523 original size:50 final size:51
Alignment explanation
Indices: 51925469--51925573 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
51925459 GGGATTAGTC
* *
51925469 CATATTATTTAAGGGGTAGGACGAATCATATATTTGTGTTTATATTTTTT-
1 CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
*
51925519 CATATTATTTAAGGTGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
1 CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
51925570 CATA
1 CATA
51925574 GATAAATTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.92
51 4 0.08
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.47
Consensus pattern (51 bp):
CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
Found at i:51929482 original size:18 final size:18
Alignment explanation
Indices: 51929444--51929479 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51929434 TTATTATTTT
*
51929444 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
51929462 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
51929480 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:51929608 original size:9 final size:9
Alignment explanation
Indices: 51929594--51929622 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51929584 ATTTTATATT
51929594 AATATTTTA
1 AATATTTTA
51929603 AATATTTTA
1 AATATTTTA
51929612 AATATTTTA
1 AATATTTTA
51929621 AA
1 AA
51929623 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATTTTA
Found at i:51933775 original size:18 final size:18
Alignment explanation
Indices: 51933752--51933793 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
51933742 AATTTAAATT
*
51933752 TAAAAATTTAATAAAAAC
1 TAAAAATGTAATAAAAAC
* *
51933770 TAAAAATGTAATAATAAT
1 TAAAAATGTAATAAAAAC
51933788 TAAAAA
1 TAAAAA
51933794 ACATTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATGTAATAAAAAC
Found at i:51934102 original size:22 final size:20
Alignment explanation
Indices: 51934077--51934126 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
51934067 TTGGTTAATT
51934077 AAAGTTCAATGACTAAATTGTA
1 AAAGTTCAAT-A-TAAATTGTA
51934099 AAAGTTC-A-ATAAATTGTA
1 AAAGTTCAATATAAATTGTA
51934117 AAAGTTCAAT
1 AAAGTTCAAT
51934127 TGATATTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 16 0.62
19 2 0.08
21 1 0.04
22 7 0.27
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAGTTCAATATAAATTGTA
Found at i:51934113 original size:18 final size:18
Alignment explanation
Indices: 51934090--51934126 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
51934080 GTTCAATGAC
51934090 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
51934108 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
51934126 T
1 T
51934127 TGATATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
TAAATTGTAAAAGTTCAA
Found at i:51939278 original size:17 final size:19
Alignment explanation
Indices: 51939250--51939284 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51939240 AAGAATAATT
51939250 TTTTATTGTTTAT-TTTTC
1 TTTTATTGTTTATGTTTTC
51939268 TTTTA-TGTTTATGTTTT
1 TTTTATTGTTTATGTTTT
51939285 TCCTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.03, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTATTGTTTATGTTTTC
Found at i:51940081 original size:30 final size:30
Alignment explanation
Indices: 51940047--51940143 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
51940037 AGCCTTATAC
* *
51940047 AGTAACAGTGTGTGGGCCATAGCCCAATAT
1 AGTAACAGAGTGTGGGCCTTAGCCCAATAT
* * *
51940077 AGTAATAGAGAGTGGGCCTTAGCCCAATAC
1 AGTAACAGAGTGTGGGCCTTAGCCCAATAT
*
51940107 AGTAACAAAGTGTGGGCCTTAGCCCAATAT
1 AGTAACAGAGTGTGGGCCTTAGCCCAATAT
51940137 AGTAACA
1 AGTAACA
51940144 AGGCAAATGC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (30 bp):
AGTAACAGAGTGTGGGCCTTAGCCCAATAT
Found at i:51940281 original size:26 final size:26
Alignment explanation
Indices: 51940252--51940349 Score: 108
Period size: 26 Copynumber: 3.8 Consensus size: 26
51940242 ACACCAATAT
*
51940252 CGCAGCAAAGCTGCCAATAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
51940278 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
** * *
51940304 TACAGCAGAGCTACCAGT-ATCAGTAA
1 CGCAGCAAAGCTGCCAGTAAT-AGTAA
* *
51940330 CGCAACAAAGCTACCAGTAA
1 CGCAGCAAAGCTGCCAGTAA
51940350 CAATATTTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.02
26 57 0.97
27 1 0.02
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:51940557 original size:27 final size:27
Alignment explanation
Indices: 51940527--51940806 Score: 271
Period size: 27 Copynumber: 10.4 Consensus size: 27
51940517 AGGAGCATAA
*
51940527 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * ** **
51940554 CAGTCATTTTACCTTTTAAGTATATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
51940581 C-GATCATTTTATCCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* *
51940608 TAGTAATTTTACCCTTCAAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * *
51940635 TAATAATTTTACCGTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
51940662 CAGTAATTTTACCCTTCGGGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
51940689 C-GATAATTTTACTCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* * *
51940716 CAATAATTTTACTCATCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * *
51940743 -TGATAATTTTACTCATCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
*
51940770 C-GATAATTTTACCCATCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
**
51940797 TGGTAATTTT
1 CAGTAATTTT
51940807 CCCATGAATC
Statistics
Matches: 216, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 212 0.98
28 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (27 bp):
CAGTAATTTTACCCTTCGAGGGTATTT
Found at i:51940597 original size:54 final size:53
Alignment explanation
Indices: 51940532--51940806 Score: 300
Period size: 54 Copynumber: 5.1 Consensus size: 53
51940522 CATAACAGTC
* * * ** *
51940532 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTTTTAAGTATATTTCGATC
1 ATTTTA-CCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTCGATA
* **
51940586 ATTTTATCCTTCGAGGGTATTTTAGTAATTTTACCCTTCAAGGGTATTTTAATA
1 ATTTTA-CCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTCGATA
**
51940640 ATTTTACCGTTCGAGGGTATTTCAGTAATTTTACCCTTCGGGGGTATTTCGATA
1 ATTTTACC-TTCGAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTCGATA
* * * * *
51940694 ATTTTACTCTTCGAGGGTATTTCAATAATTTTACTCATCGAGGGTATTTTGATA
1 ATTTTAC-CTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTCGATA
* * * * *
51940748 ATTTTACTCATCGAGGGTATTTC-GATAATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTAC-CTTCGAGGGTATTTCAG-TAATTTTACCCTTCAAGGGTATTTCGATA
51940802 ATTTT
1 ATTTT
51940807 CCCATGAATC
Statistics
Matches: 194, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 191 0.98
55 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (53 bp):
ATTTTACCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTCGATA
Found at i:51948833 original size:28 final size:28
Alignment explanation
Indices: 51948763--51948819 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
51948753 AGGGAAAATG
* *
51948763 ACTAGTTAAAAAGAATATCAGGGGTTTC
1 ACTAATTAAAAATAATATCAGGGGTTTC
51948791 ACTAATTAAAAATAATATCAGGGGTTTC
1 ACTAATTAAAAATAATATCAGGGGTTTC
51948819 A
1 A
51948820 TAAATTGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTAATTAAAAATAATATCAGGGGTTTC
Found at i:51954200 original size:35 final size:35
Alignment explanation
Indices: 51954156--51954245 Score: 135
Period size: 35 Copynumber: 2.6 Consensus size: 35
51954146 ACACCAAATT
* * * *
51954156 CTCACAAGAGCTAGTCCGACCGAAAAACGCCAATG
1 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
51954191 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
1 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
*
51954226 CTGATAAGAGCTAGTCCAAC
1 CTCATAAGAGCTAGTCCAAC
51954246 TGAAACACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
Found at i:51961864 original size:27 final size:26
Alignment explanation
Indices: 51961793--51961876 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 26
51961783 TGTTCAAATA
* ** *
51961793 GGATAGTCTAACGGGACGTTAATCACG
1 GGATAGTCT-TCGGGACACTAAACACG
**
51961820 GGATAGTTCTTCAAGACACTAAACACG
1 GGATAG-TCTTCGGGACACTAAACACG
* *
51961847 GGATAGTCTGTCGGGACAGTAAGCACG
1 GGATAGTCT-TCGGGACACTAAACACG
51961874 GGA
1 GGA
51961877 CCAGGTGAGT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.07
27 39 0.87
28 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (26 bp):
GGATAGTCTTCGGGACACTAAACACG
Found at i:51988452 original size:7 final size:7
Alignment explanation
Indices: 51988436--51988595 Score: 52
Period size: 7 Copynumber: 22.4 Consensus size: 7
51988426 ATCATTTTAT
*
51988436 TTTAGTG
1 TTTAGGG
51988443 TTTAGGG
1 TTTAGGG
*
51988450 TTTAGGA
1 TTTAGGG
*
51988457 TTTAAGG
1 TTTAGGG
**
51988464 TTTAAAG
1 TTTAGGG
*
51988471 TCTAGGG
1 TTTAGGG
51988478 TTTAGGG
1 TTTAGGG
*
51988485 TTTTAAGG
1 -TTTAGGG
* **
51988493 TATATAG
1 TTTAGGG
*
51988500 TTTAGTG
1 TTTAGGG
*
51988507 TTTTGAGG
1 TTTAG-GG
51988515 -TTAGGG
1 TTTAGGG
* *
51988521 TTTAATGT
1 TTT-AGGG
*
51988529 TTTTGGG
1 TTTAGGG
* *
51988536 TTTAAGA
1 TTTAGGG
*
51988543 TTTGGGG
1 TTTAGGG
*
51988550 TTTAGTGT
1 TTTAG-GG
**
51988558 TTTATAG
1 TTTAGGG
51988565 TTTAGGG
1 TTTAGGG
* *
51988572 TTTAAGA
1 TTTAGGG
*
51988579 TTTAGGA
1 TTTAGGG
*
51988586 TTTAGTG
1 TTTAGGG
51988593 TTT
1 TTT
51988596 TAAGATTTAG
Statistics
Matches: 106, Mismatches: 42, Indels: 10
0.67 0.27 0.06
Matches are distributed among these distances:
6 2 0.02
7 87 0.82
8 17 0.16
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:51988509 original size:29 final size:28
Alignment explanation
Indices: 51988442--51988509 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
51988432 TTATTTTAGT
*
51988442 GTTTAGGGTTTAGGATTTAAGGTTTAAA
1 GTTTAGGGTTTAGGATTTAAGGTATAAA
* * *
51988470 GTCTAGGGTTTAGGGTTTTAAGGTATATA
1 GTTTAGGGTTTA-GGATTTAAGGTATAAA
*
51988499 GTTTAGTGTTT
1 GTTTAGGGTTT
51988510 TGAGGTTAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (28 bp):
GTTTAGGGTTTAGGATTTAAGGTATAAA
Found at i:51988538 original size:15 final size:15
Alignment explanation
Indices: 51988518--51988560 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51988508 TTTGAGGTTA
*
51988518 GGGTTTAATGTTTTT
1 GGGTTTAATGTTTTG
*
51988533 GGGTTTAA-GATTTG
1 GGGTTTAATGTTTTG
*
51988547 GGGTTTAGTGTTTT
1 GGGTTTAATGTTTT
51988561 ATAGTTTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (15 bp):
GGGTTTAATGTTTTG
Found at i:51988573 original size:36 final size:36
Alignment explanation
Indices: 51988533--51988605 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
51988523 TAATGTTTTT
* *
51988533 GGGTTTAAGATTTGGGGTTTAGTGTTTTATAG-TTTA
1 GGGTTTAAGATTTAGGATTTAGTGTTTTA-AGATTTA
51988569 GGGTTTAAGATTTAGGATTTAGTGTTTTAAGATTTA
1 GGGTTTAAGATTTAGGATTTAGTGTTTTAAGATTTA
51988605 G
1 G
51988606 AATTTATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (36 bp):
GGGTTTAAGATTTAGGATTTAGTGTTTTAAGATTTA
Found at i:51988600 original size:22 final size:21
Alignment explanation
Indices: 51988572--51988618 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
51988562 TAGTTTAGGG
*
51988572 TTTAAGATTTAGGATTTAGTGT
1 TTTAAGATTTAGAATTTA-TGT
51988594 TTTAAGATTTAGAATTTATGT
1 TTTAAGATTTAGAATTTATGT
51988615 TTTA
1 TTTA
51988619 GGGTTAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (21 bp):
TTTAAGATTTAGAATTTATGT
Found at i:51988619 original size:36 final size:36
Alignment explanation
Indices: 51988536--51988620 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
51988526 TGTTTTTGGG
* * **
51988536 TTTAAGATTTGGGGTTTAGTGTTTTATAGTTTAGGG
1 TTTAAGATTTAGGATTTAGTGTTTTATAGTTTAGAA
51988572 TTTAAGATTTAGGATTTAGTGTTTTA-AGATTTAGAA
1 TTTAAGATTTAGGATTTAGTGTTTTATAG-TTTAGAA
* *
51988608 TTTATGTTTTAGG
1 TTTAAGATTTAGG
51988621 GTTAGGGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 40 0.95
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (36 bp):
TTTAAGATTTAGGATTTAGTGTTTTATAGTTTAGAA
Found at i:51989353 original size:113 final size:113
Alignment explanation
Indices: 51989223--51989451 Score: 305
Period size: 113 Copynumber: 2.0 Consensus size: 113
51989213 GTTTATGATT
* * * * ***
51989223 AAAACGCCGCAAAAAAACATTTTACTTTAAACAAAACGGTGCCATTTTTAGTGGCATTAATGGTG
1 AAAACGCCGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGACA
*
51989288 CTAGGTGAAAAACACCGCAATAGAGCGAGCATTAGTGGCGCTAGGTAA
66 CTAGGTGAAAAACACCGCAATAGAGCGAGCATTAGCGGCGCTAGGTAA
* * * * *
51989336 AAAACGCCGGAGAAAAACATTTTACTTTAAACAAAATGGCGACGTTTTTAATGGCATTAGCGACA
1 AAAACGCCGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGACA
* * * *
51989401 CTAGGTGAAAAACGCCTCAATAGATCGAGCATTAGCGGTGCTAGGTAA
66 CTAGGTGAAAAACACCGCAATAGAGCGAGCATTAGCGGCGCTAGGTAA
51989449 AAA
1 AAA
51989452 TCATCACAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 99 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (113 bp):
AAAACGCCGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGACA
CTAGGTGAAAAACACCGCAATAGAGCGAGCATTAGCGGCGCTAGGTAA
Found at i:51993687 original size:24 final size:24
Alignment explanation
Indices: 51993668--51993714 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51993658 CCAGAATTCT
51993668 ATACGAATTCTATACGAGAAGATC
1 ATACGAATTCTATACGAGAAGATC
*
51993692 ATCCGAATTCTATACGAGAAGAT
1 ATACGAATTCTATACGAGAAGAT
51993715 AATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
ATACGAATTCTATACGAGAAGATC
Found at i:51997077 original size:40 final size:40
Alignment explanation
Indices: 51997022--51997409 Score: 686
Period size: 40 Copynumber: 9.7 Consensus size: 40
51997012 GAGCATTGGA
51997022 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51997062 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51997102 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51997142 ATATATCCGGGCTAAGACCTGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51997182 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51997222 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
51997262 ATATATCCGGGCTAAGACCCGAAGGCGATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
51997302 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51997342 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
51997382 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
51997410 AGGTGTTTGC
Statistics
Matches: 331, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52014607 original size:115 final size:114
Alignment explanation
Indices: 52014410--52014725 Score: 496
Period size: 115 Copynumber: 2.8 Consensus size: 114
52014400 TGCCCGCCGC
52014410 CAAATCATCTTAACCAAAACACGCAGAG-TTT-GTC-TTAGGAGTATTAGAATTAGTGGCGCTTG
1 CAAATCATCTTAACC-AAA-ACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTG
* *
52014472 ATAAAAAACGCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCG
64 ATATAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCACCG
*
52014523 CAAATTCATCTTAACCAAAACGTAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTG
1 CAAA-TCATCTTAACCAAAACGCAGAGTTTTGGTCTTTA-GGAGTATTAGAATTAGTGGCGCTTG
*
52014588 AT-TAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
64 ATATAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCACCG
*
52014638 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGTTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGA-
*
52014703 TATAAAAACGCCGCTGAAGTATA
65 TAT-AAAACGCCGCTAAAGTATA
52014726 GTATTAGCGG
Statistics
Matches: 188, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
112 7 0.04
113 35 0.19
114 48 0.26
115 53 0.28
116 45 0.24
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (114 bp):
CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
ATAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCACCG
Found at i:52014790 original size:116 final size:113
Alignment explanation
Indices: 52014420--52014765 Score: 357
Period size: 115 Copynumber: 3.0 Consensus size: 113
52014410 CAAATCATCT
*
52014420 TAACCAAAACACGCAGAG-TTT-GTC-TTA-GGAGTATTAGAATTAGTGGCGCTTGATAAAAAAC
1 TAACC-AAA-ACGCAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTGAT-TAAAAC
* * ** * * * *
52014481 GCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCGCAAATTCATCT
63 GCCGCTAAAGTATATCATCAGCGGCGTTTGTCGAAAACGCCACAAA--CAACC
*
52014534 TAACCAAAACGTAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTGATTAAAACGCC
1 TAACCAAAACGCAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTGATTAAAACGCC
* ** * * *
52014599 GCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCGCAAATCATCT
66 GCTAAAGTATATCATCAGCGGCGTTTGTCGAAAACGCCACAAA-CAACC
*
52014648 TAACCAAAACGCAGAGTTTTGGTCTTTA-GGAGTATTAGAATTAGTGGCGTTTGATTATAAAAAC
1 TAACCAAAACGCAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTGA-T-T-AAAAC
* *
52014712 GCCGCTGAAGTATAGT-ATTAGCGGCGCTTT-TACGAAAACGCCACAAA-AACC
63 GCCGCTAAAGTATA-TCATCAGCGGCG-TTTGT-CGAAAACGCCACAAACAACC
52014763 TAA
1 TAA
52014766 GCAGACGGCA
Statistics
Matches: 208, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
112 7 0.03
113 31 0.15
114 42 0.20
115 58 0.28
116 55 0.26
117 15 0.07
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (113 bp):
TAACCAAAACGCAGAGTTTTGGTCTTTAGGGAGTATTAGAATTAGTGGCGCTTGATTAAAACGCC
GCTAAAGTATATCATCAGCGGCGTTTGTCGAAAACGCCACAAACAACC
Found at i:52014867 original size:18 final size:18
Alignment explanation
Indices: 52014846--52014881 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
52014836 TCATTTTATA
52014846 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
52014864 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
52014882 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:52015794 original size:7 final size:7
Alignment explanation
Indices: 52015773--52015852 Score: 106
Period size: 7 Copynumber: 11.3 Consensus size: 7
52015763 TTTATTGCTC
52015773 GGGGTTTT
1 GGGG-TTT
52015781 GGGGTTT
1 GGGGTTT
*
52015788 AGGGTTT
1 GGGGTTT
*
52015795 GGGATTT
1 GGGGTTT
52015802 GGGGTTT
1 GGGGTTT
*
52015809 AGGGTTT
1 GGGGTTT
52015816 GGGGTTT
1 GGGGTTT
52015823 GGGGTTT
1 GGGGTTT
52015830 GGGGTTT
1 GGGGTTT
*
52015837 GAGGTTT
1 GGGGTTT
*
52015844 GGGGATT
1 GGGGTTT
52015851 GG
1 GG
52015853 TTTTTGAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
7 59 0.94
8 4 0.06
ACGTcount: A:0.06, C:0.00, G:0.53, T:0.41
Consensus pattern (7 bp):
GGGGTTT
Found at i:52015852 original size:21 final size:21
Alignment explanation
Indices: 52015778--52015864 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
52015768 TGCTCGGGGT
52015778 TTTGGGGTTTAGGGTTTG-GG
1 TTTGGGGTTTAGGGTTTGAGG
*
52015798 ATTTGGGGTTTAGGGTTTGGGG
1 -TTTGGGGTTTAGGGTTTGAGG
*
52015820 TTTGGGGTTTGGGGTTTGAGG
1 TTTGGGGTTTAGGGTTTGAGG
* *
52015841 TTTGGGGATT-GGTTTTTGAGG
1 TTTGGGGTTTAGG-GTTTGAGG
52015862 TTT
1 TTT
52015865 AAGGATTAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.46
Consensus pattern (21 bp):
TTTGGGGTTTAGGGTTTGAGG
Found at i:52017435 original size:16 final size:16
Alignment explanation
Indices: 52017414--52017450 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52017404 GTATTTAGGG
*
52017414 TTTATCGATTTGCAAT
1 TTTATCGATTTACAAT
52017430 TTTATCGATTTACAAT
1 TTTATCGATTTACAAT
52017446 TTTAT
1 TTTAT
52017451 TTCAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTATCGATTTACAAT
Found at i:52017587 original size:67 final size:67
Alignment explanation
Indices: 52017510--52017648 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
52017500 ATTAATTGAT
*
52017510 TGAATGTCAATGAATTATCAATTTTGGTTA-TGTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
52017574 TAA
65 TAA
52017577 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
52017642 AA
66 AA
52017644 TGAAT
1 TGAAT
52017649 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:52017866 original size:76 final size:76
Alignment explanation
Indices: 52017772--52018228 Score: 868
Period size: 76 Copynumber: 6.1 Consensus size: 76
52017762 ATTTCATTTA
52017772 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52017837 TATTTTACATG
66 TATTTTACATG
52017848 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52017913 TA-TTTACATG
66 TATTTTACATG
52017923 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52017988 TATTTTACATG
66 TATTTTACATG
52017999 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
52018064 TATTTTACACG
66 TATTTTACATG
52018075 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52018140 TATTTTACATG
66 TATTTTACATG
52018151 ACTTATTAAT--ATAT-TATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
52018213 CATTTTACATG
66 TATTTTACATG
52018224 ACTTA
1 ACTTA
52018229 CATTACTTAC
Statistics
Matches: 377, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
73 63 0.17
74 4 0.01
75 75 0.20
76 235 0.62
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (76 bp):
ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
TATTTTACATG
Found at i:52018021 original size:151 final size:152
Alignment explanation
Indices: 52017772--52018228 Score: 868
Period size: 151 Copynumber: 3.0 Consensus size: 152
52017762 ATTTCATTTA
52017772 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52017837 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
66 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
52017902 ATTATTAAGTATA-TTTACATG
131 ATTATTAAGTATATTTTACATG
52017923 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52017988 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
66 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
*
52018053 ATTATTAAGTATATTTTACACG
131 ATTATTAAGTATATTTTACATG
52018075 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
52018140 TATTTTACATGACTTATTAAT--ATAT-TATTTTAAAATTGATATCTTACATTACTTAAATATAT
66 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
*
52018202 ATTATTAAGTACATTTTACATG
131 ATTATTAAGTATATTTTACATG
52018224 ACTTA
1 ACTTA
52018229 CATTACTTAC
Statistics
Matches: 302, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
149 62 0.21
150 4 0.01
151 143 0.47
152 93 0.31
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (152 bp):
ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
ATTATTAAGTATATTTTACATG
Found at i:52018337 original size:16 final size:16
Alignment explanation
Indices: 52018316--52018358 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
52018306 ACACTTATTA
52018316 AACTTACATAATACAT
1 AACTTACATAATACAT
52018332 AACTTACATAATACAT
1 AACTTACATAATACAT
* *
52018348 GACTTATATAA
1 AACTTACATAA
52018359 AATTCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:52018340 original size:225 final size:222
Alignment explanation
Indices: 52017772--52018228 Score: 612
Period size: 227 Copynumber: 2.0 Consensus size: 222
52017762 ATTTCATTTA
* * *
52017772 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATAAATATATATTTTAAAATTGATATCTTACAATACTTAAATATATATTATTAACTA
*** * * ** *
52017837 TATTTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
66 TATCACACACGACTTATTAA-GAATATACA--TT-AAATACATAACTTACATTACTTAAATATAT
52017902 ATTATTAAGTATATTTACATGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTAC
127 ATTATTAAGTATATTTACATGACTTATTAAT-AATATATATTTTAAAATTGATATCTTACATTAC
*
52017967 TTAAATATATATTATTAAGTATATTTTACATG
191 TTAAATATATATTATTAAGTACATTTTACATG
* * *
52017999 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATAAATATATATTTTAAAATTGATATCTTACAATACTTAAATATATATTATTAACTA
*** * ** *
52018064 TATTTTACACGACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATAT
66 TATCACACACGACTTATTAA-GAATATACA--TT-AAATACATAACTTACATTACTTAAATATAT
52018129 ATTATTAAGTATATTTTACATGACTTATTAAT-ATAT-TATTTTAAAATTGATATCTTACATTAC
127 ATTATTAAGTATA-TTTACATGACTTATTAATAATATATATTTTAAAATTGATATCTTACATTAC
52018192 TTAAATATATATTATTAAGTACATTTTACATG
191 TTAAATATATATTATTAAGTACATTTTACATG
52018224 ACTTA
1 ACTTA
52018229 CATTACTTAC
Statistics
Matches: 227, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
225 63 0.28
226 4 0.02
227 142 0.63
228 18 0.08
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (222 bp):
ACTTATTAATAAATATATATTTTAAAATTGATATCTTACAATACTTAAATATATATTATTAACTA
TATCACACACGACTTATTAAGAATATACATTAAATACATAACTTACATTACTTAAATATATATTA
TTAAGTATATTTACATGACTTATTAATAATATATATTTTAAAATTGATATCTTACATTACTTAAA
TATATATTATTAAGTACATTTTACATG
Found at i:52018458 original size:9 final size:9
Alignment explanation
Indices: 52018399--52018606 Score: 130
Period size: 9 Copynumber: 23.8 Consensus size: 9
52018389 AGTTACATAT
*
52018399 TAACTTATA
1 TAACTTACA
52018408 TAAGCTTACA
1 TAA-CTTACA
*
52018418 TAA-TACACA
1 TAACT-TACA
*
52018427 TTACTTACA
1 TAACTTACA
* * *
52018436 TAGCATCCA
1 TAACTTACA
52018445 TAACTTACA
1 TAACTTACA
* *
52018454 CAACTTAAA
1 TAACTTACA
52018463 TAA--TACA
1 TAACTTACA
*
52018470 AAACTTACA
1 TAACTTACA
52018479 TAACTTACA
1 TAACTTACA
*
52018488 TAACCTACA
1 TAACTTACA
*
52018497 TAATACATA-A
1 T-A-ACTTACA
52018507 TAACTTAC-
1 TAACTTACA
52018515 -AACTTACA
1 TAACTTACA
*
52018523 TAACATACA
1 TAACTTACA
* **
52018532 TTACTTTGA
1 TAACTTACA
*
52018541 AAACTTACA
1 TAACTTACA
52018550 TAACTTACA
1 TAACTTACA
52018559 T-AC-TACA
1 TAACTTACA
* *
52018566 CAACTTAAA
1 TAACTTACA
* *
52018575 TAGCTTACT
1 TAACTTACA
52018584 TAA--TACA
1 TAACTTACA
52018591 TAACTTACA
1 TAACTTACA
52018600 TAACTTA
1 TAACTTA
52018607 TACACGTACA
Statistics
Matches: 147, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
7 22 0.15
8 9 0.06
9 100 0.68
10 12 0.08
11 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
TAACTTACA
Found at i:52018531 original size:62 final size:61
Alignment explanation
Indices: 52018444--52018565 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 61
52018434 CATAGCATCC
*
52018444 ATAACTTACACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATACATA
1 ATAACTTA-ACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
* ** ** * *
52018506 ATAACTT-ACAACTTACATAACATACATTACTTTGAAAACTTACATAACTTACATACTACA
1 ATAACTTAACAACTTAAAT-A-ATACAAAACTTACAAAACTTACATAACCTACATAATACA
52018566 CAACTTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 10 0.20
61 1 0.02
62 39 0.78
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (61 bp):
ATAACTTAACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
Found at i:52018581 original size:25 final size:25
Alignment explanation
Indices: 52018466--52018606 Score: 88
Period size: 25 Copynumber: 5.4 Consensus size: 25
52018456 ACTTAAATAA
* * *
52018466 TACAAAACTTACATAACTTACATAACC
1 TACATAACTTACATAA--TACACAACT
52018493 TACATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
52018519 TACATAACATACATTACTTTGAAAACT
1 TACATAACTTACA-TA-ATACACAACT
*
52018546 TACATAACTTACATACTACACAACT
1 TACATAACTTACATAATACACAACT
* * * *
52018571 TAAATAGCTTACTTAATACATAACT
1 TACATAACTTACATAATACACAACT
52018596 TACATAACTTA
1 TACATAACTTA
52018607 TACACGTACA
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 42 0.48
26 13 0.15
27 23 0.26
28 4 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:52024176 original size:20 final size:21
Alignment explanation
Indices: 52024150--52024200 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
52024140 GCGACAGCGC
*
52024150 GAGAAGCAGAAGCTGCAACGA
1 GAGAAGCAGAAGCTGCAACAA
52024171 -AGAAGCAGAAGCTGCAACAA
1 GAGAAGCAGAAGCTGCAACAA
52024191 GAGAAGCAGA
1 GAGAAGCAGA
52024201 GCAGGCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.47, C:0.18, G:0.31, T:0.04
Consensus pattern (21 bp):
GAGAAGCAGAAGCTGCAACAA
Found at i:52024656 original size:42 final size:42
Alignment explanation
Indices: 52024558--52024838 Score: 401
Period size: 42 Copynumber: 6.7 Consensus size: 42
52024548 AAGAATAAAT
*
52024558 GCCGCTAAAAGAGCAT-TGTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCT-AAAGAACATGT-TCTTTAGCGGCGTTTCTTTT-TAAGC
*
52024602 GTCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAGC
* *
52024644 GCCGCTAAAGAACATTTTCTTTAGTGGCGTTT-TTTTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAGC
* *
52024685 ACCGCTAAAGAACATTTTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTT-TAAGC
*
52024728 GCCGCTAAAGAACATGTTCTTTAGCGGC-TTTC-TTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAGC
*
52024768 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTT-TTTCCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTT-TTAAGC
*
52024810 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
52024839 CTTTTATTTA
Statistics
Matches: 220, Mismatches: 11, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
40 33 0.15
41 46 0.21
42 76 0.35
43 59 0.27
44 6 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAGC
Found at i:52024691 original size:83 final size:83
Alignment explanation
Indices: 52024558--52024849 Score: 399
Period size: 83 Copynumber: 3.5 Consensus size: 83
52024548 AAGAATAAAT
* * *
52024558 GCCGCTAAAAGAGCATTGTCTTTAGCGGCGTTTCTTTTCTAAGCGTCGCTAAAGAACATGTTCTT
1 GCCGCT-AAAGAACATGGTCTTTAGCGGCGTTT-TTTT-TAAGCGCCGCTAAAGAACATGTTCTT
52024623 TAGCGGCGTTTCTTTTTAAGC
63 TAGCGGCGTTTCTTTTTAAGC
** * * *
52024644 GCCGCTAAAGAACATTTTCTTTAGTGGCGTTTTTTTTAAGCACCGCTAAAGAACATTTTCTTTAG
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGTTCTTTAG
52024709 CGGCGTTTCTTTTCTAAGC
66 CGGCGTTTCTTTT-TAAGC
* * *
52024728 GCCGCTAAAGAACATGTTCTTTAGCGGC-TTTCTTCTAAGCGCCGCTAAAGAACATGTTCTTTAG
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGTTCTTTAG
*
52024792 CGGCGTTT-TTTCCTAAGC
66 CGGCGTTTCTTT-TTAAGC
*
52024810 GCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTATTTAA
1 GCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTTTAA
52024850 AACGCTGCAA
Statistics
Matches: 185, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
82 35 0.19
83 79 0.43
84 42 0.23
85 23 0.12
86 6 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (83 bp):
GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGTTCTTTAG
CGGCGTTTCTTTTTAAGC
Found at i:52025064 original size:16 final size:15
Alignment explanation
Indices: 52025039--52025082 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 15
52025029 ATGTTGTAAT
52025039 ATTTTATTTTTTATA
1 ATTTTATTTTTTATA
52025054 ATTTCTATTTTTTATA
1 ATTT-TATTTTTTATA
52025070 ATTTTAATTTTTT
1 ATTTT-ATTTTTT
52025083 TTATTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTTTATA
Found at i:52025540 original size:72 final size:74
Alignment explanation
Indices: 52025421--52025569 Score: 284
Period size: 72 Copynumber: 2.0 Consensus size: 74
52025411 AATGTATACT
52025421 CTTTTAACACCAACAAAAATGTCTATCCAATTTCTCCTTATCCTATATGTTCATTAAAGTTTCTC
1 CTTTTAACACCAACAAAAATGTCTATCCAATTTCTCCTTATCCTATATGTTCATTAAAGTTTCTC
52025486 AACCTTTGA
66 AACCTTTGA
52025495 CTTTTAACACC-AC-AAAATGTCTATCCAATTTCTCCTTATCCTATATGTTCATTAAAGTTTCTC
1 CTTTTAACACCAACAAAAATGTCTATCCAATTTCTCCTTATCCTATATGTTCATTAAAGTTTCTC
52025558 AACCTTTGA
66 AACCTTTGA
52025567 CTT
1 CTT
52025570 CAAATAGGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 62 0.83
73 2 0.03
74 11 0.15
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (74 bp):
CTTTTAACACCAACAAAAATGTCTATCCAATTTCTCCTTATCCTATATGTTCATTAAAGTTTCTC
AACCTTTGA
Found at i:52033489 original size:44 final size:43
Alignment explanation
Indices: 52033440--52033543 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
52033430 GCATCGCTAA
* *
52033440 CTTTAGCGGCGTTTTTAGAAACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTT-CAAACAAACGCCGCTAAAGACCAAGAC
** *
52033484 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATACCAAGAC
1 CTTTAGCGGCGCTTTTCAAACAAACGCCGCTAAAGACCAAGAC
52033527 CTTTAGCGGCGCTTTTC
1 CTTTAGCGGCGCTTTTC
52033544 CCACAAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 40 0.73
44 15 0.27
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCAAACAAACGCCGCTAAAGACCAAGAC
Found at i:52033513 original size:43 final size:43
Alignment explanation
Indices: 52033460--52033550 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
52033450 GTTTTTAGAA
52033460 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
*
52033503 ACAAACGCCGCTAAATACCAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
52033546 ACAAA
1 ACAAA
52033551 ACAATGAGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:52033602 original size:22 final size:21
Alignment explanation
Indices: 52033548--52033594 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
52033538 CTTTTCCCAC
52033548 AAAACAATGAGCCTTAGAAAA
1 AAAACAATGAGCCTTAGAAAA
52033569 AAAACAATGAGCCTTAGAAAA
1 AAAACAATGAGCCTTAGAAAA
52033590 AAAAC
1 AAAAC
52033595 TTTTGAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.15, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAACAATGAGCCTTAGAAAA
Found at i:52038269 original size:7 final size:7
Alignment explanation
Indices: 52038220--52038275 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
52038210 CACTAAAATG
*
52038220 TAAACTC
1 TAAACCC
*
52038227 TAAACCT
1 TAAACCC
52038234 TAAACCC
1 TAAACCC
* *
52038241 CAATCCC
1 TAAACCC
* *
52038248 CAAGCCC
1 TAAACCC
52038255 TAAA-CC
1 TAAACCC
52038261 TAAACCC
1 TAAACCC
52038268 TAAACCC
1 TAAACCC
52038275 T
1 T
52038276 GAACTCAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:52039421 original size:41 final size:41
Alignment explanation
Indices: 52039359--52039474 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
52039349 AGATTTTATT
* * *
52039359 ATTAGCGGCGCATTTT-CAAAAACGCCACTAAAGGCCCGAGC
1 ATTAGCGGCGC-TTTTGAAAAAACGCCACTAAAAGACCGAGC
* *
52039400 ATTAGCGGCGCTTTTGAAAAAATGCCGCTAAAAGACCGAGC
1 ATTAGCGGCGCTTTTGAAAAAACGCCACTAAAAGACCGAGC
**
52039441 ATTAGCGGCGCTTTTGAAAAAACGCTGCTAAAAG
1 ATTAGCGGCGCTTTTGAAAAAACGCCACTAAAAG
52039475 CGTCGCTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.06
41 63 0.94
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTGAAAAAACGCCACTAAAAGACCGAGC
Found at i:52039942 original size:51 final size:51
Alignment explanation
Indices: 52039869--52039975 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
52039859 TATGGTAATG
* * *
52039869 AATTGTAGCTATTTCAAGTTTAATGAGTAATTAAAATATGTAAAATTGGGT
1 AATTATAGCTATTTCAAGTTTAATGAGTAAGTAAAATATGTAAAATCGGGT
*
52039920 AATTATAGCTATTTCAAGTTTAATGGGTAAGTAAAATATGTAAAATCGGGT
1 AATTATAGCTATTTCAAGTTTAATGAGTAAGTAAAATATGTAAAATCGGGT
52039971 AATTA
1 AATTA
52039976 AAATGAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (51 bp):
AATTATAGCTATTTCAAGTTTAATGAGTAAGTAAAATATGTAAAATCGGGT
Found at i:52039977 original size:23 final size:22
Alignment explanation
Indices: 52039890--52039979 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 22
52039880 TTTCAAGTTT
*
52039890 AATGAGTAATTAAAATATGTAA
1 AATGGGTAATTAAAATATGTAA
** *
52039912 AATTGGGTAATTATAGCTATTTCAA
1 AA-TGGGTAATTA-AAATATGT-AA
*
52039937 GTTTAATGGGTAAGTAAAATATGTAA
1 ----AATGGGTAATTAAAATATGTAA
52039963 AATCGGGTAATTAAAAT
1 AAT-GGGTAATTAAAAT
52039980 GAATTTTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
22 5 0.10
23 21 0.41
24 5 0.10
25 2 0.04
26 2 0.04
27 5 0.10
28 9 0.18
29 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.34
Consensus pattern (22 bp):
AATGGGTAATTAAAATATGTAA
Found at i:52049157 original size:40 final size:40
Alignment explanation
Indices: 52049113--52049188 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
52049103 GTTGTCACAT
* **
52049113 TGCTCCTAAGCACGAGCTTAAATTGTTCATCCAAAATAGA
1 TGCTCCTAAGCACAAGCTTAAATTGCACATCCAAAATAGA
* *
52049153 TGCTCTTAAGTACAAGCTTAAATTGCACATCCAAAA
1 TGCTCCTAAGCACAAGCTTAAATTGCACATCCAAAA
52049189 AGAAATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (40 bp):
TGCTCCTAAGCACAAGCTTAAATTGCACATCCAAAATAGA
Found at i:52050506 original size:19 final size:18
Alignment explanation
Indices: 52050456--52050512 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
52050446 TACAAATATT
* *
52050456 TTTATAAAAAATTAT-AA
1 TTTATATAAAATTTTAAA
**
52050473 TTTATATAAGGTTTTACAA
1 TTTATATAAAATTTTA-AA
52050492 TTTATATAAAATTTTAAA
1 TTTATATAAAATTTTAAA
52050510 TTT
1 TTT
52050513 TTTTATAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 11 0.34
18 5 0.16
19 16 0.50
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTTATATAAAATTTTAAA
Found at i:52051093 original size:19 final size:19
Alignment explanation
Indices: 52051069--52051105 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
52051059 AGTCTAAAGT
52051069 CTTCTTCAACAATTTTTTC
1 CTTCTTCAACAATTTTTTC
52051088 CTTCTTCAACAATTTTTT
1 CTTCTTCAACAATTTTTT
52051106 TGGTTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (19 bp):
CTTCTTCAACAATTTTTTC
Found at i:52062345 original size:7 final size:7
Alignment explanation
Indices: 52062329--52062380 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
52062319 ATCATTTTAT
*
52062329 TTTAGTG
1 TTTAGGG
52062336 TTTAGGG
1 TTTAGGG
*
52062343 TTTAGGA
1 TTTAGGG
*
52062350 TTTAAGG
1 TTTAGGG
**
52062357 TTTAAAG
1 TTTAGGG
*
52062364 TCTAGGG
1 TTTAGGG
52062371 TTTAGGG
1 TTTAGGG
52062378 TTT
1 TTT
52062381 TAAGGTATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:52062402 original size:29 final size:28
Alignment explanation
Indices: 52062335--52062402 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
52062325 TTATTTTAGT
*
52062335 GTTTAGGGTTTAGGATTTAAGGTTTAAA
1 GTTTAGGGTTTAGGATTTAAGGTATAAA
* * *
52062363 GTCTAGGGTTTAGGGTTTTAAGGTATATA
1 GTTTAGGGTTTA-GGATTTAAGGTATAAA
*
52062392 GTTTAGTGTTT
1 GTTTAGGGTTT
52062403 TGAGGTTAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (28 bp):
GTTTAGGGTTTAGGATTTAAGGTATAAA
Found at i:52062481 original size:21 final size:21
Alignment explanation
Indices: 52062457--52062502 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52062447 GATTTTATAG
*
52062457 TTTAG-GGTTTAAGATTTAGGA
1 TTTAGTGGTTTAAGA-TTAGAA
*
52062478 TTTAGTGTTTTAAGATTAGAA
1 TTTAGTGGTTTAAGATTAGAA
52062499 TTTA
1 TTTA
52062503 TGTTTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
TTTAGTGGTTTAAGATTAGAA
Found at i:52062516 original size:20 final size:21
Alignment explanation
Indices: 52062464--52062509 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
52062454 TAGTTTAGGG
*
52062464 TTTAAGATTTAGGATTTAGTGT
1 TTTAAGA-TTAGAATTTAGTGT
52062486 TTTAAGATTAGAATTTA-TGT
1 TTTAAGATTAGAATTTAGTGT
52062506 TTTA
1 TTTA
52062510 GGGTTAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTAAGATTAGAATTTAGTGT
Found at i:52067337 original size:24 final size:24
Alignment explanation
Indices: 52067318--52067364 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
52067308 CCAGAATTCT
52067318 ATACGAATTCTATACGAGAAGATC
1 ATACGAATTCTATACGAGAAGATC
*
52067342 ATCCGAATTCTATACGAGAAGAT
1 ATACGAATTCTATACGAGAAGAT
52067365 AATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
ATACGAATTCTATACGAGAAGATC
Found at i:52067691 original size:18 final size:18
Alignment explanation
Indices: 52067670--52067708 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52067660 AAGGCCATTT
52067670 GGGTCATGTGGG-CCACAC
1 GGGT-ATGTGGGCCCACAC
*
52067688 GGGTGTGTGGGCCCACAC
1 GGGTATGTGGGCCCACAC
52067706 GGG
1 GGG
52067709 CTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.13, C:0.26, G:0.46, T:0.15
Consensus pattern (18 bp):
GGGTATGTGGGCCCACAC
Found at i:52070713 original size:40 final size:40
Alignment explanation
Indices: 52070658--52071036 Score: 632
Period size: 40 Copynumber: 9.7 Consensus size: 40
52070648 GAGCATTGGA
52070658 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52070698 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52070738 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52070778 ATATATCCGGGCTAAGACCTGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52070818 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52070858 ATATATCCGGGCT-AGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52070897 ATATATCCGGGCTAAGACCCGAAGGCGATTATGCGAG-T-
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52070935 -TATATCC-GGCT-AGACCCGAA-G-AATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52070970 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52071009 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
52071037 AGGTGTTTGC
Statistics
Matches: 320, Mismatches: 10, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
33 10 0.03
34 2 0.01
35 9 0.03
36 11 0.03
37 16 0.05
38 4 0.01
39 67 0.21
40 201 0.63
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52079663 original size:40 final size:40
Alignment explanation
Indices: 52079608--52080075 Score: 855
Period size: 40 Copynumber: 11.7 Consensus size: 40
52079598 GAGCATTGGA
52079608 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52079648 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079688 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079728 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079768 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079808 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079848 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52079888 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52079928 ATATATCCGGGCTAAGACCCGAAGGCGATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
52079968 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52080008 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52080048 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
52080076 AGGTGTTTGC
Statistics
Matches: 413, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 413 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52084673 original size:12 final size:12
Alignment explanation
Indices: 52084656--52084681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52084646 TAGCTCCTCA
52084656 TAGTCTCTTTGT
1 TAGTCTCTTTGT
52084668 TAGTCTCTTTGT
1 TAGTCTCTTTGT
52084680 TA
1 TA
52084682 TCTTTCTCTC
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:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (12 bp):
TAGTCTCTTTGT
Found at i:52084873 original size:85 final size:85
Alignment explanation
Indices: 52084771--52084940 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
52084761 TGTAAAGAAA
*
52084771 GAAAATTTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTGGTTC
1 GAAAAATTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTGGTTC
52084836 CTTTTCATCTTTCTTTCCAC
66 CTTTTCATCTTTCTTTCCAC
52084856 GAAAAATTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTGGTTC
1 GAAAAATTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTGGTTC
52084921 CTTTTCATCTTTCTTTCCAC
66 CTTTTCATCTTTCTTTCCAC
52084941 TTATATATAC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.44
Consensus pattern (85 bp):
GAAAAATTTTCTTTCTTCTCTTCTCTTCTAACGTGAATTGCATGGAAAAGATGGTGGGTTGGTTC
CTTTTCATCTTTCTTTCCAC
Found at i:52085679 original size:66 final size:66
Alignment explanation
Indices: 52085608--52085769 Score: 288
Period size: 66 Copynumber: 2.5 Consensus size: 66
52085598 AGAGGCTCAA
* * * *
52085608 AGAAAATATGAAGAACTCCAGCTACAGCTTAAAGCGGAGGAAACAGCGAGGGAAGCAGAGCAAAG
1 AGAAAATATGATGTACTCCAGTTATAGCTTAAAGCGGAGGAAACAGCGAGGGAAGCAGAGCAAAG
52085673 C
66 C
52085674 AGAAAATATGATGTACTCCAGTTATAGCTTAAAGCGGAGGAAACAGCGAGGGAAGCAGAGCAAAG
1 AGAAAATATGATGTACTCCAGTTATAGCTTAAAGCGGAGGAAACAGCGAGGGAAGCAGAGCAAAG
52085739 C
66 C
52085740 AGAAAATATGATGTACTCCAGTTATAGCTT
1 AGAAAATATGATGTACTCCAGTTATAGCTT
52085770 CAGAATATGA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 92 1.00
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (66 bp):
AGAAAATATGATGTACTCCAGTTATAGCTTAAAGCGGAGGAAACAGCGAGGGAAGCAGAGCAAAG
C
Found at i:52086157 original size:42 final size:42
Alignment explanation
Indices: 52086100--52086212 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
52086090 TTAGTAAAAT
* * * * *
52086100 CGCCGCTAAAGGTCATGTTCTTTAGTGGTGTTTTTGGGGAAG
1 CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
*
52086142 CGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
1 CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
*
52086184 CGCCGCTAAAGGTCATGTTCTATAACGGC
1 CGCCGCTAAAGGTCATGTTCTATAGCGGC
52086213 ATTTTTCCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
Found at i:52087736 original size:27 final size:27
Alignment explanation
Indices: 52087689--52087752 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
52087679 AAATATTCTC
*
52087689 TAAAATAAT-AAATGTTAATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
* * *
52087715 TAAATTAATAAAATATTTATTTATTGA
1 TAAAATAATAAAATATTAATTTATCGA
*
52087742 TAAACTAATAA
1 TAAAATAATAA
52087753 TCTCAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (27 bp):
TAAAATAATAAAATATTAATTTATCGA
Found at i:52092224 original size:25 final size:25
Alignment explanation
Indices: 52092163--52092257 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 25
52092153 GCCAACACAC
* * *
52092163 CAGTATCGCAGCAGAGCTGCCAGTAA
1 CAGTAACGCAGCAAAGCTACCAGT-A
*
52092189 TAGTAACGCAGCAAAGCTACCAGTA
1 CAGTAACGCAGCAAAGCTACCAGTA
* *
52092214 CAGTAATGCAGTAAAGCTACCAGTA
1 CAGTAACGCAGCAAAGCTACCAGTA
* *
52092239 TCAGTAACACAACAAAGCT
1 -CAGTAACGCAGCAAAGCT
52092258 GCTAGTAACA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 23 0.40
26 34 0.60
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (25 bp):
CAGTAACGCAGCAAAGCTACCAGTA
Found at i:52092758 original size:27 final size:27
Alignment explanation
Indices: 52092461--52092757 Score: 357
Period size: 27 Copynumber: 11.0 Consensus size: 27
52092451 AGGGGTATAA
* *
52092461 CGGTCATTTTACCCTATAGA-GGTATTT
1 CGGTAATTTTACCC-ATCGAGGGTATTT
* *
52092488 TGGTAACTTTACCCATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
** *
52092515 TAGTAATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
* * *
52092542 CAGTTATTTTACCCTTCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
* *
52092569 CGGTTATTTTACCTATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
* *
52092596 AGATAATTTTACCCATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
*
52092623 CGATAATTTTACCCATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
*
52092650 CGGT-ATCTTTACCCATCGAAGGTATTT
1 CGGTAAT-TTTACCCATCGAGGGTATTT
52092677 CGGT-ATCTTTACCCATCGAGGGTATTT
1 CGGTAAT-TTTACCCATCGAGGGTATTT
*
52092704 CGATAATTTTACCCATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
* * **
52092731 TGGTCATTTTACCCATTAAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
52092758 TAGTCATTTG
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 6 0.02
27 233 0.97
28 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
CGGTAATTTTACCCATCGAGGGTATTT
Found at i:52094757 original size:5 final size:5
Alignment explanation
Indices: 52094747--52094783 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
52094737 TTCAAACAAT
*
52094747 AATTA AATTA AATTA AATTA AATTA AATCA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AA
52094784 GTTAGAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:52097030 original size:6 final size:6
Alignment explanation
Indices: 52097019--52097063 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
52097009 AAGTTAGTTA
* * *
52097019 TTTATT TTTATT TTTTAT -TTAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
52097064 GAAAACTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTAAT
Found at i:52097049 original size:18 final size:17
Alignment explanation
Indices: 52097016--52097063 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
52097006 CAAAAGTTAG
* *
52097016 TTATTTATTTTTATTTT
1 TTATTTAATTTTAATTT
52097033 TTATTTAATTTTAATTT
1 TTATTTAATTTTAATTT
*
52097050 TAATTTTAATTTTA
1 TTA-TTTAATTTTA
52097064 GAAAACTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTAATTTTAATTT
Found at i:52100674 original size:17 final size:17
Alignment explanation
Indices: 52100652--52100685 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
52100642 TCAAAAGTCA
52100652 GTTA-TTTATTTTTAATT
1 GTTATTTTA-TTTTAATT
52100669 GTTATTTTATTTTAATT
1 GTTATTTTATTTTAATT
52100686 TTAGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
GTTATTTTATTTTAATT
Found at i:52107774 original size:14 final size:14
Alignment explanation
Indices: 52107742--52107775 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
52107732 TTTTAATTTA
*
52107742 AAAAATAAAAATTG
1 AAAAATAAAAAATG
52107756 AAAAATAAAAAAATG
1 AAAAAT-AAAAAATG
52107771 AAAAA
1 AAAAA
52107776 GCTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:52115547 original size:32 final size:29
Alignment explanation
Indices: 52115489--52115548 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
52115479 ATTTTTTATA
* *
52115489 TATATTTTTTATTTTAAAGTGTTTTTTTC
1 TATATTTTTTATTTTAAAATGATTTTTTC
52115518 TATATTTTTTATTATTAAATTATGATTTTTT
1 TATATTTTTTATT-TTAAA--ATGATTTTTT
52115549 ATTTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 5 0.19
32 8 0.31
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (29 bp):
TATATTTTTTATTTTAAAATGATTTTTTC
Found at i:52115560 original size:19 final size:19
Alignment explanation
Indices: 52115524--52115561 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52115514 TTTCTATATT
52115524 TTTTATTATTAAATTATGA
1 TTTTATTATTAAATTATGA
*
52115543 TTTT-TTATTTAATATATGA
1 TTTTATTATTAAAT-TATGA
52115562 AAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTATTATTAAATTATGA
Found at i:52115709 original size:22 final size:22
Alignment explanation
Indices: 52115681--52115754 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
52115671 AATTCTTTAA
52115681 AAAAAAATAAATATTTTTAAAT
1 AAAAAAATAAATATTTTTAAAT
52115703 AAAAAAATAAA-A---TTAAAT
1 AAAAAAATAAATATTTTTAAAT
* * *
52115721 GGATAAAAT-AATATTTTAAAAT
1 -AAAAAAATAAATATTTTTAAAT
52115743 AAAAAATATAAA
1 AAAAAA-ATAAA
52115755 AATTGAAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
18 8 0.20
19 7 0.17
21 5 0.12
22 18 0.45
23 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAAAAATAAATATTTTTAAAT
Found at i:52119425 original size:10 final size:10
Alignment explanation
Indices: 52119395--52119545 Score: 88
Period size: 10 Copynumber: 15.4 Consensus size: 10
52119385 TGGGTGGGGG
*
52119395 GAAGAGAAGGA
1 GAAGA-AAGAA
52119406 GAAGGAAAGAA
1 GAA-GAAAGAA
52119417 GAAGAAAG-A
1 GAAGAAAGAA
52119426 -AAGAAAGAA
1 GAAGAAAGAA
*
52119435 -AAGGAAAGGA
1 GAA-GAAAGAA
*
52119445 GAGGAAAG-A
1 GAAGAAAGAA
52119454 -AAGAAA-AA
1 GAAGAAAGAA
52119462 GAAGGAAAGAA
1 GAA-GAAAGAA
*
52119473 -AAGGAAAGGA
1 GAA-GAAAGAA
*
52119483 GAAGAAAAAA
1 GAAGAAAGAA
*
52119493 AAAGAAAGAA
1 GAAGAAAGAA
**
52119503 GAAGATGGAA
1 GAAGAAAGAA
52119513 GGAAGGAAA-AA
1 -GAA-GAAAGAA
52119524 GAA-AAAGAA
1 GAAGAAAGAA
*
52119533 AAAGAAA-AA
1 GAAGAAAGAA
52119542 GAAG
1 GAAG
52119546 GTCATTTTTG
Statistics
Matches: 111, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
8 16 0.14
9 16 0.14
10 55 0.50
11 20 0.18
12 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:52119438 original size:28 final size:28
Alignment explanation
Indices: 52119407--52119539 Score: 121
Period size: 28 Copynumber: 4.8 Consensus size: 28
52119397 AGAGAAGGAG
52119407 AAGGAAAGAAGAAGAAAGAAAGAAAGAA
1 AAGGAAAGAAGAAGAAAGAAAGAAAGAA
* *
52119435 AAGGAAAGGAGAGGAAAGAAAGAAA-AA
1 AAGGAAAGAAGAAGAAAGAAAGAAAGAA
*
52119462 GAAGGAAAGAA-AAGGAAAGGAGAAGAAAAAA
1 -AAGGAAAGAAGAA-GAAA-GA-AAGAAAGAA
* ** * *
52119493 AAAGAAAGAAGAAGATGGAAGGAAGGAA
1 AAGGAAAGAAGAAGAAAGAAAGAAAGAA
*
52119521 AAAGAAA-AAGAA-AAAGAAA
1 AAGGAAAGAAGAAGAAAGAAA
52119540 AAGAAGGTCA
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.05
27 8 0.09
28 49 0.57
29 4 0.05
30 17 0.20
31 4 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (28 bp):
AAGGAAAGAAGAAGAAAGAAAGAAAGAA
Found at i:52119503 original size:38 final size:38
Alignment explanation
Indices: 52119401--52119503 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 38
52119391 GGGGGAAGAG
* *
52119401 AAGGAGAAGGAAAGAAGAAGAAAGAAAGAAAGAAAAGGA
1 AAGGAGAA-GAAAAAAGAAGAAAGAAGGAAAGAAAAGGA
*
52119440 AAGGAGAGGAAAGAAAGAA-AAAGAAGGAAAGAAAAGGA
1 AAGGAGAAGAAA-AAAGAAGAAAGAAGGAAAGAAAAGGA
*
52119478 AAGGAGAAGAAAAAAAAAGAAAGAAG
1 AAGGAGAAGAAAAAAGAAGAAAGAAG
52119504 AAGATGGAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 5 0.09
38 40 0.70
39 12 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (38 bp):
AAGGAGAAGAAAAAAGAAGAAAGAAGGAAAGAAAAGGA
Found at i:52119534 original size:5 final size:6
Alignment explanation
Indices: 52119453--52119544 Score: 58
Period size: 6 Copynumber: 14.0 Consensus size: 6
52119443 GAGAGGAAAG
* * *
52119453 AAAGAA AAAGAA GGAAAGAA AAGGAA AGGAGAA GAAAAAA AAAGAA AGAAGAA
1 AAAGAA AAAGAA --AAAGAA AAAGAA A-AAGAA -AAAGAA AAAGAA A-AAGAA
** *
52119506 GATGGAA GGAAGGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 -AAAGAA --AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
52119545 GGTCATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
6 41 0.59
7 14 0.20
8 14 0.20
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:52120104 original size:16 final size:15
Alignment explanation
Indices: 52120078--52120107 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52120068 ATACTGAAAT
52120078 AATATAAAATAATAA
1 AATATAAAATAATAA
52120093 AATATGAAAATAATA
1 AATAT-AAAATAATA
52120108 TATTTTTATT
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:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:52120686 original size:316 final size:317
Alignment explanation
Indices: 52119870--52120668 Score: 1323
Period size: 317 Copynumber: 2.5 Consensus size: 317
52119860 AAAATGGTAT
* * * * * * *
52119870 ATTTAAAAAACACACTAAATTAATAAATTTCAACCATAATGTACTAAAATATTGTAAAATAATAA
1 ATTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* *
52119935 AATTATAAATTATGATATTTTTTAAAGTAATAAAAACCGGAGAAAAAAATACGAACAAATGGCCG
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAA-GGCCG
*
52120000 AAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAA
130 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAA
* *
52120065 AATATACTGAAATAATATAAAATAATAAAATATGAAAATAATATATTTTTATTAAAAGTAATAAA
195 AATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAA
*
52120130 ATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGGTTTTTTTACACTAAATTA
260 ATTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGGTTTTTTTACACTAAATTA
*
52120188 A-TTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATATAAAATTATAA
1 ATTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
52120252 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGCCGA
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGCCGA
**
52120317 AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTTTGAAATAATTAATACAAATATTTCAAACAAA
131 AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAA
* * * *
52120382 ATGTACTAAAATGATATAAAATAATAAAATACGAAAATGATATATTTTTATTGAAAGTAATAAAA
196 ATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAA
52120447 TTCAGGAAAATAATACGAGCAAAGGGCAGGAAT-AAGGGTTTTTTTTACACTAAATTA
261 TTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGG-TTTTTTTACACTAAATTA
*
52120504 ATTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTAGAA
1 ATTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* * * * *
52120569 AATTAGAAAATATGATATTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAAAAAAGGGTCG
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAA-GGCCG
52120634 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTC
130 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTC
52120669 GGGAAAATAG
Statistics
Matches: 450, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
315 5 0.01
316 178 0.40
317 228 0.51
318 39 0.09
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (317 bp):
ATTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGCCGA
AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAA
ATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAA
TTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGGTTTTTTTACACTAAATTA
Found at i:52126042 original size:42 final size:40
Alignment explanation
Indices: 52125914--52126048 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
52125904 CCACTAACCC
*
52125914 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAAT-ACTAAC-C-ATAACAATAATAATAGTTTTTTACT-AAAA
**
52125958 TAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATACTAACCATAACAATAATAA-TAGTTTTTTACT-AAAA
* *
52125998 TAATAACTAACCATAATAATAATACTAGTTTTTTACTAACAA
1 TAAT-ACTAACCATAACAATAATAATAGTTTTTTACTAA-AA
52126040 TAATACTAA
1 TAATACTAA
52126049 GTAACATCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 12 0.15
40 17 0.22
41 13 0.17
42 17 0.22
43 15 0.19
44 4 0.05
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATACTAACCATAACAATAATAATAGTTTTTTACTAAAA
Found at i:52134120 original size:12 final size:12
Alignment explanation
Indices: 52134099--52134128 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52134089 TGTTAGGATT
*
52134099 TTTGGTTATTGG
1 TTTGGGTATTGG
52134111 TTTGGGTATTGG
1 TTTGGGTATTGG
52134123 TTTGGG
1 TTTGGG
52134129 CCTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.40, T:0.53
Consensus pattern (12 bp):
TTTGGGTATTGG
Found at i:52135113 original size:111 final size:115
Alignment explanation
Indices: 52134906--52135120 Score: 341
Period size: 111 Copynumber: 1.9 Consensus size: 115
52134896 TCATTCATCC
*
52134906 CTACACACCATGTTGTGGATGAACCATTAGTAATTACAGATGAACTGAACTACCAGTAATAAAAG
1 CTACACACCATGTTGTGGATGAACCATTAGTAATTACA-ATGAACTGAACTACCAGTAATAAAAA
*
52134971 TTATGGATGAACCATAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAAT
65 TTATGGATGAACCACAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAAT
*
52135022 CTACACACCATGTTGTGGATGAATCATTAGTAATTAC-A-G-A-TGAACTACCAGTAATAAAAAT
1 CTACACACCATGTTGTGGATGAACCATTAGTAATTACAATGAACTGAACTACCAGTAATAAAAAT
*
52135083 TGTGGATGAACCACAAAAATTT-TCAGATAAAAAGTTTG
66 TATGGATGAACCACAAAAATTTAT-AGATAAAAAGTTTG
52135121 TAGACAAGCT
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
110 1 0.01
111 54 0.57
112 1 0.01
113 1 0.01
114 1 0.01
116 36 0.38
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (115 bp):
CTACACACCATGTTGTGGATGAACCATTAGTAATTACAATGAACTGAACTACCAGTAATAAAAAT
TATGGATGAACCACAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAAT
Found at i:52138519 original size:20 final size:21
Alignment explanation
Indices: 52138494--52138540 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
52138484 ACCAAAAAAT
*
52138494 CTTTTTCATAATTTTTG-AAA
1 CTTTTTCATAATGTTTGTAAA
*
52138514 CTTTTTTATAATGTTTGTAAA
1 CTTTTTCATAATGTTTGTAAA
*
52138535 TTTTTT
1 CTTTTT
52138541 TCTTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (21 bp):
CTTTTTCATAATGTTTGTAAA
Found at i:52138556 original size:16 final size:16
Alignment explanation
Indices: 52138535--52138568 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
52138525 TGTTTGTAAA
52138535 TTTTTTTCT-TTTTATT
1 TTTTTTTCTATTTT-TT
52138551 TTTTTTTCTATTTTTT
1 TTTTTTTCTATTTTTT
52138567 TT
1 TT
52138569 AATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTCTATTTTTT
Found at i:52140915 original size:67 final size:68
Alignment explanation
Indices: 52140844--52140980 Score: 267
Period size: 67 Copynumber: 2.0 Consensus size: 68
52140834 TTTAGAAAAA
52140844 TTTAACTTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTT-AAAAATATAA
1 TTTAACTTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAAATATAA
52140908 ATT
66 ATT
52140911 TTTAACTTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAAATATAA
1 TTTAACTTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAAATATAA
52140976 ATT
66 ATT
52140979 TT
1 TT
52140981 GAAAATTTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 54 0.78
68 15 0.22
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (68 bp):
TTTAACTTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAAATATAA
ATT
Found at i:52140992 original size:18 final size:18
Alignment explanation
Indices: 52140948--52140995 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
52140938 TTTTTTTTCC
* *
52140948 AAATTTTATAATTTTTTA
1 AAATTTTATAAATTTTGA
**
52140966 AAA-AATATAAATTTTGA
1 AAATTTTATAAATTTTGA
52140983 AAATTTTATAAAT
1 AAATTTTATAAAT
52140996 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTTTATAAATTTTGA
Found at i:52140998 original size:68 final size:67
Alignment explanation
Indices: 52140850--52141000 Score: 223
Period size: 67 Copynumber: 2.2 Consensus size: 67
52140840 AAAATTTAAC
* * *
52140850 TTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAATATAAATTTTTA
1 TTTCTATAAATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAATATAAATTTTAA
*
52140915 AC
66 AA
* *
52140917 TTTCTTTATATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAAATATAAATTTTG
1 TTTCTATAAATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTT-AAAAATATAAATTTT-
52140982 AAAA
64 AAAA
52140986 TTT-TATAAATATTTT
1 TTTCTATAAATATTTT
52141001 GAATTTAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
67 48 0.62
68 25 0.32
69 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (67 bp):
TTTCTATAAATATTTTTTAGATTTTTTTTCCAAATTTTATAATTTTTTAAAAATATAAATTTTAA
AA
Done.