Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 91
Found at i:6288352 original size:18 final size:17
Alignment explanation
Indices: 6288314--6288355 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6288304 TTTCTTCTTC
6288314 TATTTTT-T-ATTTTTT
1 TATTTTTCTAATTTTTT
6288329 TATTTTTCTAATTTTTAT
1 TATTTTTCTAATTTTT-T
*
6288347 TTTTTTTCT
1 TATTTTTCT
6288356 TTCTTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 6 0.26
18 9 0.39
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (17 bp):
TATTTTTCTAATTTTTT
Found at i:6288393 original size:22 final size:21
Alignment explanation
Indices: 6288346--6288386 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6288336 CTAATTTTTA
6288346 TTTTTTTTCTTTCTTTTCTCG
1 TTTTTTTTCTTTCTTTTCTCG
* *
6288367 CTTTTCTTTCTTTTTTTTCT
1 -TTTTTTTTCTTTCTTTTCT
6288387 TCTTTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTTTTCTTTCTTTTCTCG
Found at i:6289703 original size:14 final size:14
Alignment explanation
Indices: 6289680--6289715 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
6289670 ATATTATACA
*
6289680 ATGTATAATGTATAG
1 ATGTA-AATGTAAAG
6289695 ATGTAAATGTAAAG
1 ATGTAAATGTAAAG
6289709 ATGTAAA
1 ATGTAAA
6289716 GATGCACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (14 bp):
ATGTAAATGTAAAG
Found at i:6297948 original size:29 final size:29
Alignment explanation
Indices: 6297906--6297994 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
6297896 CAAAATAAAT
* * *
6297906 AACTTTTGAAAAATACACTTTGGTCCCTA
1 AACTTTTCAAAAATACATTTTGGTCACTA
* *
6297935 AACTTTTCCAAAATTTACATTTTGATCACTA
1 AACTTTT-CAAAA-ATACATTTTGGTCACTA
6297966 AAC-TTTCAAAAAATACATTTTGGTCACTA
1 AACTTTTC-AAAAATACATTTTGGTCACTA
6297995 GTCAAAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 23 0.46
30 11 0.22
31 16 0.32
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTTCAAAAATACATTTTGGTCACTA
Found at i:6304322 original size:22 final size:22
Alignment explanation
Indices: 6304279--6304329 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
6304269 TCTCATGAAG
*
6304279 TCTCATATCTTCTTGTCATGTA
1 TCTCATATCTTCATGTCATGTA
*
6304301 TCTCATATC-TCATGTTCTTGTA
1 TCTCATATCTTCATG-TCATGTA
6304323 T-TCATAT
1 TCTCATAT
6304330 AACATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.51
Consensus pattern (22 bp):
TCTCATATCTTCATGTCATGTA
Found at i:6308303 original size:21 final size:21
Alignment explanation
Indices: 6308278--6308345 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
6308268 TATTATATTT
6308278 TAAATTTTTTGTTTATAAATA
1 TAAATTTTTTGTTTATAAATA
* * * *
6308299 TAAATTATTT-ATTAT-ATTT
1 TAAATTTTTTGTTTATAAATA
* * *
6308318 TAAAATTGTTGTTTACAAATA
1 TAAATTTTTTGTTTATAAATA
6308339 TAAATTT
1 TAAATTT
6308346 ATTATTAATA
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
19 9 0.27
20 7 0.21
21 17 0.52
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (21 bp):
TAAATTTTTTGTTTATAAATA
Found at i:6308318 original size:40 final size:40
Alignment explanation
Indices: 6308265--6308352 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
6308255 TATGATTTCA
* * *
6308265 ATTTATTATATTTTAAATTTTTTGTTTATAAATATAAATT
1 ATTTATTATATTTTAAAATTGTTGTTTACAAATATAAATT
6308305 ATTTATTATATTTTAAAATTGTTGTTTACAAATATAAATT
1 ATTTATTATATTTTAAAATTGTTGTTTACAAATATAAATT
6308345 -TATTATTA
1 AT-TTATTA
6308353 ATACTAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (40 bp):
ATTTATTATATTTTAAAATTGTTGTTTACAAATATAAATT
Found at i:6308323 original size:20 final size:20
Alignment explanation
Indices: 6308265--6308324 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
6308255 TATGATTTCA
6308265 ATTTATTATATTTT-AAATT
1 ATTTATTATATTTTAAAATT
* * **
6308284 TTTTGTT-TATAAATATAAATT
1 ATTTATTATAT-TTTA-AAATT
6308305 ATTTATTATATTTTAAAATT
1 ATTTATTATATTTTAAAATT
6308325 GTTGTTTACA
Statistics
Matches: 29, Mismatches: 8, Indels: 7
0.66 0.18 0.16
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 5 0.17
21 12 0.41
22 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTATTATATTTTAAAATT
Found at i:6315236 original size:24 final size:23
Alignment explanation
Indices: 6315211--6315256 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6315201 TAGACCGATT
*
6315211 TTTTTA-CCGGATAAAAAACCGG
1 TTTTTATCCGGAAAAAAAACCGG
*
6315233 TTTTTATCCGGAAAAAAAATCGG
1 TTTTTATCCGGAAAAAAAACCGG
6315256 T
1 T
6315257 ATGGGTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (23 bp):
TTTTTATCCGGAAAAAAAACCGG
Found at i:6317542 original size:21 final size:21
Alignment explanation
Indices: 6317518--6317559 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6317508 TAGTTTATTT
6317518 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
6317539 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
6317560 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:6317607 original size:33 final size:33
Alignment explanation
Indices: 6317554--6317656 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
6317544 TTTGTTTCAA
6317554 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
6317586 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
6317619 TTATCAAACTTGGAAGTATTTAAGTATTTTAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
6317651 TTATCG
1 TTATCG
6317657 TAAACTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
32 16 0.24
33 50 0.76
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:6318867 original size:74 final size:73
Alignment explanation
Indices: 6318708--6319285 Score: 723
Period size: 74 Copynumber: 7.9 Consensus size: 73
6318698 GAAGACTTAT
* * * *
6318708 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCGTTTGAATCATCATATCGATC-GGTAATC
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTAAAACATCATATCGGTCTGGTAATC
6318772 ATCAAGAA
66 ATCAAGAA
* **
6318780 ACCTTTGAAAATCAAA-TTGGGATTCTTTAAAAATTCATTTAAAAACATCATATCGGTCAAGTAA
1 ACCTTTGAAAATCAAACTT-GGCTTCTTTAAAAATTCATTT-AAAACATCATATCGGTCTGGTAA
*
6318844 TCATCAATAA
64 TCATCAAGAA
* * * * *
6318854 ACCTTTGAAAATCAAACTTGGCTTCCTCACAAATTCATTTAAAAACATCATATCAGTTTGGTAAT
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTT-AAAACATCATATCGGTCTGGTAAT
6318919 CATCAAGAA
65 CATCAAGAA
* ** *
6318928 ACATTTGATTATCAAACTTGGATTCTTTAAAAATTCATTTGAAAACATCATATCGGTC-GAGTAA
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTT-AAAACATCATATCGGTCTG-GTAA
*
6318992 TCATCAAGAT
64 TCATCAAGAA
* * * *
6319002 ATCTTTGAAAATCAAACTTGGTTTCCTTAAAAATTCATTTGAAAACATCATATTGGTCTGGTAAT
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTT-AAAACATCATATCGGTCTGGTAAT
6319067 CATCAAGAA
65 CATCAAGAA
* * * * *
6319076 ACCTTTGAAAATCAAACTTGGATTCTTTAAAAAATCATTTGAAACATCATATAGGTTTGGTAATC
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTAAAACATCATATCGGTCTGGTAATC
6319141 ATCAAGAA
66 ATCAAGAA
* * *
6319149 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAATATCATATCGGTC-AGTAATC
1 ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTAAAACATCATATCGGTCTGGTAATC
*
6319213 ATTAAGAA
66 ATCAAGAA
* * * * * *
6319221 ACCTGTGAAAATAAAACTTGGCTTCTTCTAAAAATTTATTCGAAAACATCATATTGGTCGGGTAA
1 ACCTTTGAAAATCAAACTTGGCTTCTT-TAAAAATTCATT-TAAAACATCATATCGGTCTGGTAA
6319286 CATGCCCTAC
Statistics
Matches: 440, Mismatches: 57, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
71 2 0.00
72 73 0.17
73 108 0.25
74 250 0.57
75 7 0.02
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (73 bp):
ACCTTTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTAAAACATCATATCGGTCTGGTAATC
ATCAAGAA
Found at i:6323992 original size:459 final size:459
Alignment explanation
Indices: 6323134--6324041 Score: 1807
Period size: 459 Copynumber: 2.0 Consensus size: 459
6323124 CTTTTAAATC
6323134 ACCTTGGGACTGCTCTATTACTTCCAATCGCTTCTCCATGATGATGAACTTGGTGTTATTGCCAT
1 ACCTTGGGACTGCTCTATTACTTCCAATCGCTTCTCCATGATGATGAACTTGGTGTTATTGCCAT
6323199 GTAACCCTCCATGAATTATTTTCATAATTAATGCATGTAACATATTTAAATAAATGAATGTATTG
66 GTAACCCTCCATGAATTATTTTCATAATTAATGCATGTAACATATTTAAATAAATGAATGTATTG
*
6323264 CATGTATGCAAAAAAGGTGTCGCTTTACAGTAACCATTTTAAAACGATTTTCATTGAACACAAGG
131 CATGTATGCAAAAAAGGTGTCGCTTTACAGTAACCATCTTAAAACGATTTTCATTGAACACAAGG
6323329 CTTCAATACATCAAATAAACAAACTTTATAGATAAGGAACAACTTTAAATCCTAGCTTTTCTATC
196 CTTCAATACATCAAATAAACAAACTTTATAGATAAGGAACAACTTTAAATCCTAGCTTTTCTATC
6323394 TCTTTCAGGAGCCAATTTATCTTCCAAGCATGATCTGGTGTTGAGTTGTCATTCTTCTTCAAATC
261 TCTTTCAGGAGCCAATTTATCTTCCAAGCATGATCTGGTGTTGAGTTGTCATTCTTCTTCAAATC
6323459 TCTTGCAAAACTAGCGAAGTCAACCAACTTGTAAGCCACATCCATTCTTGAGTAATAGCATCCTT
326 TCTTGCAAAACTAGCGAAGTCAACCAACTTGTAAGCCACATCCATTCTTGAGTAATAGCATCCTT
6323524 TATTGCATTATCTTTTTTCTCCACCTTATGTTTCAATCCATGAAATTATAGACGATATTACTGCA
391 TATTGCATTATCTTTTTTCTCCACCTTATGTTTCAATCCATGAAATTATAGACGATATTACTGCA
6323589 TGTA
456 TGTA
6323593 ACCTTGGGACTGCTCTATTACTTCCAATCGCTTCTCCATGATGATGAACTTGGTGTTATTGCCAT
1 ACCTTGGGACTGCTCTATTACTTCCAATCGCTTCTCCATGATGATGAACTTGGTGTTATTGCCAT
6323658 GTAACCCTCCATGAATTATTTTCATAATTAATGCATGTAACATATTTAAATAAATGAATGTATTG
66 GTAACCCTCCATGAATTATTTTCATAATTAATGCATGTAACATATTTAAATAAATGAATGTATTG
6323723 CATGTATGCAAAAAAGGTGTCGCTTTACAGTAACCATCTTAAAACGATTTTCATTGAACACAAGG
131 CATGTATGCAAAAAAGGTGTCGCTTTACAGTAACCATCTTAAAACGATTTTCATTGAACACAAGG
6323788 CTTCAATACATCAAATAAACAAACTTTATAGATAAGGAACAACTTTAAATCCTAGCTTTTCTATC
196 CTTCAATACATCAAATAAACAAACTTTATAGATAAGGAACAACTTTAAATCCTAGCTTTTCTATC
6323853 TCTTTCAGGAGCCAATTTATCTTCCAAGCATGATCTGGTGTTGAGTTGTCATTCTTCTTCAAATC
261 TCTTTCAGGAGCCAATTTATCTTCCAAGCATGATCTGGTGTTGAGTTGTCATTCTTCTTCAAATC
6323918 TCTTGCAAAACTAGCGAAGTCAACCAACTTGTAAGCCACATCCATTCTTGAGTAATAGCATCCTT
326 TCTTGCAAAACTAGCGAAGTCAACCAACTTGTAAGCCACATCCATTCTTGAGTAATAGCATCCTT
6323983 TATTGCATTATCTTTTTTCTCCACCTTATGTTTCAATCCATGAAATTATAGACGATATT
391 TATTGCATTATCTTTTTTCTCCACCTTATGTTTCAATCCATGAAATTATAGACGATATT
6324042 GATCTTTTTC
Statistics
Matches: 448, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
459 448 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (459 bp):
ACCTTGGGACTGCTCTATTACTTCCAATCGCTTCTCCATGATGATGAACTTGGTGTTATTGCCAT
GTAACCCTCCATGAATTATTTTCATAATTAATGCATGTAACATATTTAAATAAATGAATGTATTG
CATGTATGCAAAAAAGGTGTCGCTTTACAGTAACCATCTTAAAACGATTTTCATTGAACACAAGG
CTTCAATACATCAAATAAACAAACTTTATAGATAAGGAACAACTTTAAATCCTAGCTTTTCTATC
TCTTTCAGGAGCCAATTTATCTTCCAAGCATGATCTGGTGTTGAGTTGTCATTCTTCTTCAAATC
TCTTGCAAAACTAGCGAAGTCAACCAACTTGTAAGCCACATCCATTCTTGAGTAATAGCATCCTT
TATTGCATTATCTTTTTTCTCCACCTTATGTTTCAATCCATGAAATTATAGACGATATTACTGCA
TGTA
Found at i:6332564 original size:77 final size:79
Alignment explanation
Indices: 6332423--6332575 Score: 199
Period size: 77 Copynumber: 2.0 Consensus size: 79
6332413 ATATAGTAAG
** *
6332423 TAAACATTAAAAGAATGTAATTTTGATTACAGCTCTTTTAATTGATATTTAATTCAGAATAATTA
1 TAAACATTAAAAGAATGTAATTCAGATTAAAGCTCTTTTAATTGATATTTAATTCAGAATAATTA
6332488 AATAAGATTTTAAA
66 AATAAGATTTTAAA
* *
6332502 TAAACATT-AAAGATTGTAATTCAGATTATAAG-TC-TTTAA-TGTATATTTAATT-TGAATTAA
1 TAAACATTAAAAGAATGTAATTCAGATTA-AAGCTCTTTTAATTG-ATATTTAATTCAGAA-TAA
6332562 TTAAATAAGATTTT
63 TTAAATAAGATTTT
6332576 TTATTAGTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
76 5 0.08
77 32 0.48
78 19 0.29
79 10 0.15
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTAAAGCTCTTTTAATTGATATTTAATTCAGAATAATTA
AATAAGATTTTAAA
Found at i:6340463 original size:126 final size:127
Alignment explanation
Indices: 6340333--6340638 Score: 413
Period size: 130 Copynumber: 2.4 Consensus size: 127
6340323 TAATCGGAGG
*
6340333 ATATAAAGAATAAAAGTGCCTTATTTAAAAATTTTAAAATATTAAGATTAAAATTGT-AAAAAGA
1 ATATAAAGAATAAAAGTGCCTTATTTAAAAATTTTAAAATATTAAGATTAAAATTGTAAAAAAAA
* * *
6340397 TAAAGACGCAATTCATAAATCAAAGGAATATTAAGGACTAATTATAATATTATGTCTTGAGA
66 AAAAAACGCAATTCAGAAATCAAAGGAATATTAAGGACTAATTATAATATTATGTCTTGAGA
** *
6340459 ATATAAAGAATAAAAGTGCCTTATTT-AATTTTTTTAAATATTAAGATTAAAATTGTAAAAAAAA
1 ATATAAAGAATAAAAGTGCCTTATTTAAAAATTTTAAAATATTAAGATTAAAATTGT----AAAA
* *
6340523 AAAAAAAAAACGCAATTGAGAAATCAAAGGAATATTAAGGACTAATTATAATATTATGTGTTGAG
62 AAAAAAAAAACGCAATTCAGAAATCAAAGGAATATTAAGGACTAATTATAATATTATGTCTTGAG
6340588 A
127 A
* * *
6340589 ATATAAAGAATGAGAAA--GACTTATTCTAGAAATTTTAAAATAATAAGATT
1 ATATAAAGAAT-A-AAAGTGCCTTATT-TAAAAATTTTAAAATATTAAGATT
6340639 GCTATGTAAA
Statistics
Matches: 156, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
125 27 0.17
126 26 0.17
130 81 0.52
131 2 0.01
132 20 0.13
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (127 bp):
ATATAAAGAATAAAAGTGCCTTATTTAAAAATTTTAAAATATTAAGATTAAAATTGTAAAAAAAA
AAAAAACGCAATTCAGAAATCAAAGGAATATTAAGGACTAATTATAATATTATGTCTTGAGA
Found at i:6354443 original size:27 final size:27
Alignment explanation
Indices: 6354412--6354494 Score: 148
Period size: 27 Copynumber: 3.1 Consensus size: 27
6354402 AATTATAAGG
*
6354412 GTGCCCACAGGCCACATATATAAATTA
1 GTGCCCATAGGCCACATATATAAATTA
6354439 GTGCCCATAGGCCACATATATAAATTA
1 GTGCCCATAGGCCACATATATAAATTA
*
6354466 GTGCTCATAGGCCACATATATAAATTA
1 GTGCCCATAGGCCACATATATAAATTA
6354493 GT
1 GT
6354495 TCCACACAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (27 bp):
GTGCCCATAGGCCACATATATAAATTA
Found at i:6358669 original size:130 final size:129
Alignment explanation
Indices: 6358414--6358683 Score: 461
Period size: 130 Copynumber: 2.1 Consensus size: 129
6358404 ATGAAAGTTA
* *
6358414 TATGTGAAATAATGAATTTATGATATAAGTTCTTACCATGAAAGTTACATGTTATGATATGTTCT
1 TATGTTAACTAATGAATTTATGATATAAGTTCTTACCATGAAAGTTACATGTTATGATATGTTCT
6358479 TTATACGTCATTTGTCATTCAAACATGTTAAGGATAAGTTATGTTATATTCAATTGATTTTCAT
66 TTATACGTCATTTGTCATTCAAACATGTTAAGGATAAGTTATGTTATATTCAATTGATTTTCAT
*
6358543 TATTTTAACTAATGAATTTATGAATATAAGTTCTTACCATGAAAGTTACATGTTATGATATGTTC
1 TATGTTAACTAATGAATTTATG-ATATAAGTTCTTACCATGAAAGTTACATGTTATGATATGTTC
* * *
6358608 TTTATATGTCATTTGTCATT-AAAGTATGTTAAGGATAAGTTATGTTATATTTAATTGATTTTCA
65 TTTATACGTCATTTGTCATTCAAA-CATGTTAAGGATAAGTTATGTTATATTCAATTGATTTTCA
6358672 T
129 T
6358673 TATGTTAACTA
1 TATGTTAACTA
6358684 CCTCACTAAG
Statistics
Matches: 132, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
129 22 0.17
130 110 0.83
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.45
Consensus pattern (129 bp):
TATGTTAACTAATGAATTTATGATATAAGTTCTTACCATGAAAGTTACATGTTATGATATGTTCT
TTATACGTCATTTGTCATTCAAACATGTTAAGGATAAGTTATGTTATATTCAATTGATTTTCAT
Found at i:6361866 original size:13 final size:13
Alignment explanation
Indices: 6361848--6361873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6361838 GTCTTTAACT
6361848 CTCTCACAAAGAA
1 CTCTCACAAAGAA
6361861 CTCTCACAAAGAA
1 CTCTCACAAAGAA
6361874 ACACCGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (13 bp):
CTCTCACAAAGAA
Found at i:6369972 original size:32 final size:32
Alignment explanation
Indices: 6369935--6370068 Score: 108
Period size: 32 Copynumber: 4.4 Consensus size: 32
6369925 TGGTAGAAAT
6369935 ATATATTTTATATGTAGAAATTGAATATTGTC
1 ATATATTTTATATGTAGAAATTGAATATTGTC
*
6369967 ATATATATTAGTA-GTAGAAA-TG-ATA---TC
1 ATATATTTTA-TATGTAGAAATTGAATATTGTC
*
6369994 ---TATTTTATAGGTAGAAATTGAATATTGTC
1 ATATATTTTATATGTAGAAATTGAATATTGTC
* * * * *
6370023 ATACATATAAT-TAGTAGAAATTGAATTTTTTC
1 ATATATTTTATAT-GTAGAAATTGAATATTGTC
6370055 ATATATTATTATAT
1 ATATATT-TTATAT
6370069 AGTTATTTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
23 2 0.03
24 13 0.17
25 2 0.03
26 3 0.04
27 2 0.03
29 2 0.03
30 3 0.04
31 2 0.03
32 43 0.55
33 5 0.06
34 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (32 bp):
ATATATTTTATATGTAGAAATTGAATATTGTC
Found at i:6369998 original size:56 final size:56
Alignment explanation
Indices: 6369933--6370043 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
6369923 TCTGGTAGAA
* * *
6369933 ATATATATTTTATATGTAGAAATTGAATATTGTCATATATATTAGTAGTAGAAATG
1 ATATATATTTTATAGGTAGAAATTGAATATTGTCATACATATAAGTAGTAGAAATG
* *
6369989 ATATCTATTTTATAGGTAGAAATTGAATATTGTCATACATATAATTAGTAGAAAT
1 ATATATATTTTATAGGTAGAAATTGAATATTGTCATACATATAAGTAGTAGAAAT
6370044 TGAATTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (56 bp):
ATATATATTTTATAGGTAGAAATTGAATATTGTCATACATATAAGTAGTAGAAATG
Found at i:6377091 original size:20 final size:20
Alignment explanation
Indices: 6377066--6377107 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
6377056 GTTGTTCATC
*
6377066 TCGACATTCGTTTATGTTGT
1 TCGACAGTCGTTTATGTTGT
6377086 TCGACAGTCGTTTATGTTGT
1 TCGACAGTCGTTTATGTTGT
6377106 TC
1 TC
6377108 ATGGATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (20 bp):
TCGACAGTCGTTTATGTTGT
Found at i:6382430 original size:21 final size:21
Alignment explanation
Indices: 6382406--6382445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6382396 ACCTCAGGGA
* *
6382406 AAAGGATTAATCCTTTTTCAG
1 AAAGGATCAATCCCTTTTCAG
6382427 AAAGGATCAATCCCTTTTC
1 AAAGGATCAATCCCTTTTC
6382446 TGTGAATTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAGGATCAATCCCTTTTCAG
Found at i:6382734 original size:23 final size:23
Alignment explanation
Indices: 6382704--6382752 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
6382694 CTAAACTTGT
6382704 ATGATCAATTACGTGAGCATTTA
1 ATGATCAATTACGTGAGCATTTA
6382727 ATGATCAATTACGTGAGCATTTA
1 ATGATCAATTACGTGAGCATTTA
6382750 ATG
1 ATG
6382753 TTCGATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (23 bp):
ATGATCAATTACGTGAGCATTTA
Found at i:6385831 original size:96 final size:96
Alignment explanation
Indices: 6385656--6385839 Score: 215
Period size: 96 Copynumber: 1.9 Consensus size: 96
6385646 TAACCAATAG
* * * *
6385656 ATTCCCTGATCCATAAATCAGGAACAATCATATTTTCCATTGAAAACAGGAAACCATATAACACA
1 ATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAGTGAAAACAGGAAACCAGAGAACACA
**
6385721 TTTCAGGTAACCATAATTCATAAACAAGTAT
66 TACCAGGTAACCATAATTCATAAACAAGTAT
* * * * ** *
6385752 ATTCCATGATCCATAAATTAGGAACTATTATATTTTCCAGTGAAAATAGGTGACCAGAGAACATA
1 ATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAGTGAAAACAGGAAACCAGAGAACACA
** * *
6385817 TACCTTGTAGCCATAGTTCATAA
66 TACCAGGTAACCATAATTCATAA
6385840 GCCAGTAAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (96 bp):
ATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAGTGAAAACAGGAAACCAGAGAACACA
TACCAGGTAACCATAATTCATAAACAAGTAT
Found at i:6386907 original size:27 final size:26
Alignment explanation
Indices: 6386843--6386910 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
6386833 AGACTTCAAA
*
6386843 GTATTTTAGTTATTTTAGAGTTCAGG
1 GTATTTTAGTTATTTGAGAGTTCAGG
*
6386869 GTATTTTGGTTATTTGA-ACGTT-AGAG
1 GTATTTTAGTTATTTGAGA-GTTCAG-G
6386895 GTTATTTTAGTTATTT
1 G-TATTTTAGTTATTT
6386911 CATAGCTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 20 0.56
27 13 0.36
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (26 bp):
GTATTTTAGTTATTTGAGAGTTCAGG
Found at i:6391048 original size:21 final size:21
Alignment explanation
Indices: 6391022--6391069 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6391012 TGACACTTTG
6391022 CTCTCCTACCCACATCGTGAA
1 CTCTCCTACCCACATCGTGAA
*
6391043 CTCTCCTACCCGCATCGTGAA
1 CTCTCCTACCCACATCGTGAA
6391064 CTCTCC
1 CTCTCC
6391070 CTTATCGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.46, G:0.10, T:0.25
Consensus pattern (21 bp):
CTCTCCTACCCACATCGTGAA
Found at i:6397345 original size:15 final size:14
Alignment explanation
Indices: 6397325--6397375 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
6397315 AATTCATTAG
6397325 GTTGACTCAATCCA-A
1 GTTGACTCAA--CAGA
6397340 GTTGACTCAACAGA
1 GTTGACTCAACAGA
*
6397354 GTTGACTCAGC-GA
1 GTTGACTCAACAGA
6397367 GTTGACTCA
1 GTTGACTCA
6397376 GTTCAGGCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.38
14 11 0.32
15 10 0.29
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (14 bp):
GTTGACTCAACAGA
Found at i:6398164 original size:3 final size:3
Alignment explanation
Indices: 6398156--6398208 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6398146 CAAAATTTTC
6398156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6398204 TTA TT
1 TTA TT
6398209 TTCCCCAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6399232 original size:38 final size:36
Alignment explanation
Indices: 6399140--6399244 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
6399130 ATTAATCTTC
* *
6399140 AATAAG-AAAATACCTAATTTTCTTATGAAACTTTT
1 AATAAGAAAAATACCCAAATTTCTTATGAAACTTTT
*
6399175 AATAAGAAAAATACCCAAATTTCTTATTAAACTTTT
1 AATAAGAAAAATACCCAAATTTCTTATGAAACTTTT
6399211 AATAAGAAAAAAATACCCAAATTTCTTATGAAAC
1 AATAAG--AAAAATACCCAAATTTCTTATGAAAC
6399245 CTAAATTGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 6 0.10
36 32 0.51
38 25 0.40
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (36 bp):
AATAAGAAAAATACCCAAATTTCTTATGAAACTTTT
Found at i:6409000 original size:81 final size:81
Alignment explanation
Indices: 6408864--6409437 Score: 722
Period size: 81 Copynumber: 7.1 Consensus size: 81
6408854 CTATTTTAAA
* * * * ** * * *
6408864 TAAAAGATTAATTGTCTAGCTATGCATTTG-ACGAAAATATGTCAATTATGTCAGTTAAACGAAA
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAG-AAAGGTGTCAATTATGCCAGTTAGATGAAA
*
6408928 TGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
*
6408945 TAAAAGATTAATTGTCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6409010 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
6409026 TAAAAGATTAATTACCTAGTTGTGCATTTGACAGAAAGGAGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6409091 GTTAAATACTTTTGAG
66 GTTAAATACCTTTGAG
* * *
6409107 TAAAATATTAATTGCCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
6409172 TTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * * *
6409188 TAAAAGAATAATTGCCTAGCTGTGCATTTCACAA-AAAGGTGTTAGTTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGATGTGCATTTGA-AAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
6409252 TGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
6409269 TAAAAGATTAATTGCCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
** *
6409334 ACTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * ** * *
6409350 TTAAAGATTAAATGCCTAGATATGCATTTGGTAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
6409415 GCTAAATGA-CTTTGGG
66 GTTAAAT-ACCTTTGAG
6409431 TAAAAGA
1 TAAAAGA
6409438 CTAAATATTT
Statistics
Matches: 434, Mismatches: 55, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 430 0.99
82 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:6415732 original size:81 final size:81
Alignment explanation
Indices: 6414910--6415725 Score: 1199
Period size: 81 Copynumber: 10.1 Consensus size: 81
6414900 CTGTTTTAAA
* * * *
6414910 TAAAAGATTAATTGCCTAACGGTGTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6414975 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
6414991 TAAAAGATTAATTGCCTAGTTCTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAT
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415056 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
6415072 TAAAAGATTAATTGCCTAGCTGTACATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415136 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
6415152 TAAAAGCTTAATTGCCTAGCTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415217 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
6415233 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415298 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
6415314 TAAAAGATTAATTGTCTAGATGTGCATTTGGCAGACAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415379 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * **
6415395 TAAAAAATTAAGTGCCTA-CTTGTGCATTTGACAAAAAGGTGTCAATTATGGTAGTTAGAT-AAA
1 TAAAAGATTAATTGCCTAGC-TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
**
6415458 TGGTTAAATAAATTTGAG
65 -GGTTAAATACCTTTGAG
* *
6415476 TAAAAGAGTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATAAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6415541 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
6415557 TAAATGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGGCAGATAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
** * *
6415622 ACTAAATGCGTTTGAG
66 GTTAAATACCTTTGAG
* * * ** * *
6415638 TTAAATATTAAATGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
6415703 GCTAAATGA-CTTTGGG
66 GTTAAAT-ACCTTTGAG
6415719 TAAAAGA
1 TAAAAGA
6415726 CTAAATGTTT
Statistics
Matches: 659, Mismatches: 70, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
80 78 0.12
81 577 0.88
82 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:6417172 original size:19 final size:19
Alignment explanation
Indices: 6417148--6417187 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6417138 TTTAATAAAT
*
6417148 CGACGAGCCTTCACCACAC
1 CGACGAGCCTCCACCACAC
*
6417167 CGACGAGCGTCCACCACAC
1 CGACGAGCCTCCACCACAC
6417186 CG
1 CG
6417188 GCCAACACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.47, G:0.20, T:0.07
Consensus pattern (19 bp):
CGACGAGCCTCCACCACAC
Found at i:6418067 original size:54 final size:54
Alignment explanation
Indices: 6417940--6418267 Score: 426
Period size: 54 Copynumber: 6.1 Consensus size: 54
6417930 GGTGCGCACG
* * *
6417940 TAGTGCCGATACGGTCATCCATAAACATATTATGAA-TCCGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
* * *** * * * *
6417993 CAGTGTCGATAAAATTGTTCATAAACATATTATGAATTCCGTGGGTTGTACATT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
* * * *
6418047 TAGCGCCGATACGATCGTTCATAAACAAATTATAAATTCCTTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
* *
6418101 TAGTGCCGATAAGGTCGTTCATAAAGAAATTATGAATTCCGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
* *
6418155 TAGTACCGATACGGTCATTCATAAA-ACAATTATGAATTCCGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACA-AATTATGAATTCCGTGGGTTGCACACT
* * *
6418209 TAGTGCTGATACGGTAGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
6418263 TAGTG
1 TAGTG
6418268 TCGTTAGTAC
Statistics
Matches: 237, Mismatches: 35, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
53 29 0.12
54 207 0.87
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (54 bp):
TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
Found at i:6418628 original size:20 final size:20
Alignment explanation
Indices: 6418599--6418672 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
6418589 GACTCAATAT
* * *
6418599 TATCGGTACCCCTACCATGG
1 TATCGATACCCCTACTATAG
*
6418619 TATCGATACCTCTACTATAG
1 TATCGATACCCCTACTATAG
*
6418639 TATCGATACCTCTACTATAG
1 TATCGATACCCCTACTATAG
6418659 TATCGATACTCCCT
1 TATCGATAC-CCCT
6418673 TCAGTATCGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 45 0.94
21 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (20 bp):
TATCGATACCCCTACTATAG
Found at i:6424819 original size:54 final size:54
Alignment explanation
Indices: 6424382--6424818 Score: 545
Period size: 54 Copynumber: 8.1 Consensus size: 54
6424372 GGTGCCCACG
* * * * * *
6424382 TAGTACCGATACAGTCGTTCATAAATATATTATAAATTGC-GTTGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATT-CTGTGGGTTGCACACT
* * * * *
6424436 TAGTGCTGATACGATCGTTCATAAGCATATTATGAATTCTGTGGGTTGTACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
* * *
6424490 TAGTGCAGATATGGTCGTTCGTAAACAAATTATGAATTCTGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
* ** * *
6424544 TAGTGCCTATACATTCGTTCATAAACAAATTATGAATTCTATGGGTTACACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
* * *
6424598 TAGTGCCGATACAGTCATTCATAAACAAATTATGAATT-TCGTAGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCT-GTGGGTTGCACACT
* * **
6424652 TATTGACGATACGGTCGTTCATAAACAAATTATGAATTCCATGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
* * *
6424706 TAGTGTCGATACGATCGTTCATAAACAAATTATGAATTCCGTGGGTTGCACACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
** * *
6424760 TAGTGTTGATATGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCGCACT
1 TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
6424814 TAGTG
1 TAGTG
6424819 TCGACAGTAC
Statistics
Matches: 334, Mismatches: 46, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 332 0.99
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (54 bp):
TAGTGCCGATACGGTCGTTCATAAACAAATTATGAATTCTGTGGGTTGCACACT
Found at i:6425369 original size:20 final size:20
Alignment explanation
Indices: 6425344--6425394 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
6425334 TTAAACCTAT
*
6425344 AGTATCGATATTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
6425364 AGTATCGATACTGTTCTTCC
1 AGTATCGATACTGTTCTTCC
6425384 AGTATCGATAC
1 AGTATCGATAC
6425395 CCTTACCCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
AGTATCGATACTGTTCTTCC
Found at i:6426162 original size:6 final size:6
Alignment explanation
Indices: 6426151--6426193 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
6426141 AGTAATATCA
* * *
6426151 TAAAAT TAAAAT TAAAAT ACAAAAT TAAAAA TAAAAT AAAAAT
1 TAAAAT TAAAAT TAAAAT -TAAAAT TAAAAT TAAAAT TAAAAT
6426194 AGGAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:6426174 original size:19 final size:18
Alignment explanation
Indices: 6426152--6426193 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
6426142 GTAATATCAT
*
6426152 AAAATTAAAATTAAAATA
1 AAAATTAAAAATAAAATA
6426170 CAAAATTAAAAATAAAATA
1 -AAAATTAAAAATAAAATA
6426189 AAAAT
1 AAAAT
6426194 AGGAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTAAAAATAAAATA
Found at i:6432309 original size:21 final size:22
Alignment explanation
Indices: 6432255--6432319 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
6432245 GATCATTGGA
* *
6432255 ATAGGGGGTTTTGAAACCAGGT
1 ATAGGGGGTTTCGAAACCAGGC
*
6432277 ATAGGAGGTTTCGAAACCAGGC
1 ATAGGGGGTTTCGAAACCAGGC
*
6432299 A-AGGGGGTTTCAAAACCAGGC
1 ATAGGGGGTTTCGAAACCAGGC
6432320 TGAAATTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (22 bp):
ATAGGGGGTTTCGAAACCAGGC
Found at i:6434932 original size:21 final size:21
Alignment explanation
Indices: 6434906--6434958 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
6434896 TTAGCTAAGT
6434906 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
6434927 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
6434948 AGTATCGATAC
1 AGTATCGATAC
6434959 CGACGAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (21 bp):
AGTATCGATACTGATTCAATC
Found at i:6434992 original size:20 final size:20
Alignment explanation
Indices: 6434969--6435020 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6434959 CGACGAGGTA
6434969 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
6434989 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
6435009 GTATCGATACCA
1 GTATCGATACCA
6435021 AGCATCATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:6435522 original size:59 final size:59
Alignment explanation
Indices: 6435440--6435606 Score: 246
Period size: 59 Copynumber: 2.8 Consensus size: 59
6435430 ATGGCAATAA
* * *
6435440 GTGTGC-AAAATTTTAATAAATTCATACTAGGTGTATGAATTTCCGTATGGGGCACTTT
1 GTGTGCTAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCATATGGGGCACTTT
** *
6435498 GTGTGCTAAAATGTTAGGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTT
1 GTGTGCTAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCATATGGGGCACTTT
* * *
6435557 GTGTGCTAAAATGTTAATAGATGCATACTAAATGTATGAATTTCCATATG
1 GTGTGCTAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCATATG
6435607 AGAAATATGA
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
58 6 0.06
59 90 0.94
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAATAAATTCATACTAAGTGTATGAATTTCCATATGGGGCACTTT
Found at i:6436090 original size:46 final size:46
Alignment explanation
Indices: 6436038--6438344 Score: 2281
Period size: 46 Copynumber: 49.1 Consensus size: 46
6436028 AATGTTGTAC
* *
6436038 AAAATGCGTGAATGGATGCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6436084 AAAATGCATGAAAT-GATGCATTAAGGCATGAAATGATGCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6436130 AAAATGCATGAACGGATGCA-T-AGGCATGAAAGGGTGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
6436174 AAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6436220 AAAATGCATGAACGGATGCATTAAGGCATGAATA-GATG-CATTAAGGCAT
1 AAAATGCATGAATGGATGCATTAAGGCATGAA-AGGATGCCA-TAA--C-T
* *
6436269 GAAAGTATGTCATAACTAATATGCATGAAAGGGTGCATTAAGGCATGAAAGGATGCCATAACT
1 -AAA--ATG-C---A-TGA-ATGGA--------TGCATTAAGGCATGAAAGGATGCCATAACT
* *
6436332 AAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * *
6436378 AAAATACATGAATGGATGGATGCATT-AGGGATGAAAGGATGACATAACT
1 AAAATGCATG-A---ATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * *
6436427 AAAATGCGTGAAAGGATGCATTAAGGCATAAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6436473 AAAATGCATGAACGGTTGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6436519 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATACCATAATT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6436565 AAAATGCATGAAAGGATGCATTAAGGC----AAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
6436607 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6436653 AAAATGCATGAAATGG-TGCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
** *
6436699 AAAATGCATGAACAGATGCATTAAGGGATGAAATGG-TGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAA-GGATGCCATAACT
*
6436745 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * *
6436791 AAAATGCATGAAAGGGTGCATTAAGGCATGAAATGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * *
6436837 AAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATTCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6436883 AAAATGCATGAATTGATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
6436929 AAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * * **
6436975 AAAATGCATGAACGGATACATTAAGGCGTGTAAGGATAACATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6437021 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6437067 AAAATGCATGAAAGGATGCATTAAGGC----AAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
** * *
6437109 AAAATGCATGAACAGATTCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
6437155 AAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6437201 AAAATGCATGAACGGATGCATTAAGGCATAAAAGGATG-CAT---T
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * *
6437243 --AAGGCATGAAAGGATGCCATAACTAATATGCATGAAATGG-TG-CGT---T
1 AAAATGCATGAATGGATG-CAT---T-A-AGGCATGAAA-GGATGCCATAACT
* * *
6437289 --AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CATTAAGGCAT
1 AAAATGCATGAATGGATG-CAT---T--AAGGCATGAAAGGATGCCA-TAA--C-T
** * *
6437342 AAAAGGATGCCAT-AACTAAAATGCATGAATGGATGGATGCATTAGGGATGAAAGGATGCCATAA
1 -AAA--ATG-CATGAA-T-GGATGCATTAA--G--GCATG-A--A---A-----GGATGCCATAA
6437406 CT
45 CT
* * * * *
6437408 AAAATGCGTGAAAGGATGCAATAAGACATAAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * * *
6437454 ATAATGAATGAACGGTTGCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * *
6437500 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAATT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6437546 AAAATGCATGAAAGGATGCATTAAGGC----AAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6437588 AAAATGCATGAATGGATGCATTAAGGCATTAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6437634 AAAATGCATGAAATGG-TGCATTAAGGCATGAAATGACG-CAT---T
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * *
6437676 --AAGGCATGAAAGGATGTCATAACTAAAATGCATGAACA-GATG-CATTAAGGGAT
1 AAAATGCATGAATGGATG-CAT---T--AAGGCATGAA-AGGATGCCA-TAA---CT
* * *
6437729 GAAATTATGCCATAACTAAAATGCATGAACGGATGCATTAAGGTATGAAAGGATGCCATAACT
1 -AAA--ATG-C---A-T-GAATGG--------ATGCATTAAGGCATGAAAGGATGCCATAACT
* * *
6437792 AAAATGCATGAAAGGGTGCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
6437838 AAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6437884 AAAATGCATGAACGGATGCATTAAGGCATTAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6437930 AAAATGCATGAAAT-GATGAATTAAGGCATGAAAGGATTCCATAACT
1 AAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * *
6437976 AAAATGCATGAACGGATGCATTAAGGTATGTAAGGATGACATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6438022 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCTATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6438068 AAAATGCATGAAAGGATGCATTAAGGC----AAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * *
6438110 AAAATTCATGAACGGATTCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6438156 AAAATGCATGAAAGGATGCATTAATGCATGAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
6438202 AAAATGCATGAACGGATGCATTAAGGCATAAAAGGATGCCATAACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * * *
6438248 AAAATGCATGAACGGATGCATTAAGGCATGAAAGGGTGCAATGATT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * * * *
6438294 AAAATGCATGAACGGATGTATTAATGCATGAAAAGATACCATTACT
1 AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
6438340 GAAAT
1 AAAAT
6438345 TAATGAATAA
Statistics
Matches: 1932, Mismatches: 188, Indels: 282
0.80 0.08 0.12
Matches are distributed among these distances:
39 4 0.00
40 23 0.01
41 6 0.00
42 157 0.08
44 39 0.02
45 42 0.02
46 1426 0.74
47 33 0.02
48 2 0.00
49 29 0.02
50 13 0.01
51 1 0.00
52 3 0.00
53 3 0.00
54 9 0.00
55 3 0.00
56 6 0.00
57 4 0.00
58 13 0.01
59 11 0.01
60 9 0.00
61 8 0.00
62 9 0.00
63 8 0.00
64 5 0.00
65 5 0.00
66 39 0.02
67 5 0.00
68 1 0.00
69 8 0.00
70 2 0.00
71 3 0.00
72 3 0.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
AAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACT
Found at i:6436101 original size:26 final size:25
Alignment explanation
Indices: 6436063--6437221 Score: 320
Period size: 26 Copynumber: 50.6 Consensus size: 25
6436053 ATGCATTAAG
6436063 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436089 GCATGAAATGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
*
6436109 GCATGAAATGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436135 GCATGAACGGATGC---A-T---AG
1 GCATGAAAGGATGCATAACTAAAAT
*
6436153 GCATGAAAGGGTGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436179 GCATGAAATGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436199 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436225 GCATGAACGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
*
6436245 GCATGAATA-GATGCAT---T--AAG
1 GCATGAA-AGGATGCATAACTAAAAT
* *
6436265 GCATGAAAGTATGTCATAACTAATAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436291 GCATGAAAGGGTGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436311 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6436337 GCATGAAAGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * ****
6436357 GCATAAAAGGATGCCATAACTAAAAT
1 GCAT-GAAAGGATGCATAACTAAAAT
* * * * ** *
6436383 ACATGAATGGATGGAT-GC-ATTAG
1 GCATGAAAGGATGCATAACTAAAAT
*
6436406 GGATGAAAGGATGACATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436432 GCGTGAAAGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * ****
6436452 GCATAAAAGGATGCCATAACTAAAAT
1 GCAT-GAAAGGATGCATAACTAAAAT
* * *
6436478 GCATGAACGGTTGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436498 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436524 GCATGAATGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* *
6436544 GCATGAAAGGATACCATAATTAAAAT
1 GCATGAAAGGAT-GCATAACTAAAAT
*
6436570 GCATGAAAGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * * *
6436590 GCAAG-GATG--CCATAACTAAAAT
1 GCATGAAAGGATGCATAACTAAAAT
* *
6436612 GCATGAATGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436632 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6436658 GCATGAAATGG-TGCAT---T--AAG
1 GCATGAAA-GGATGCATAACTAAAAT
6436678 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6436704 GCATGAACA-GATGCAT---T--AAG
1 GCATGAA-AGGATGCATAACTAAAAT
*
6436724 GGATGAAATGG-TGCCATAACTAAAAT
1 GCATGAAA-GGATG-CATAACTAAAAT
* *
6436750 GCATGAACGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436770 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436796 GCATGAAAGGGTGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
*
6436816 GCATGAAATGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6436842 GCATGAAAGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * ** *
6436862 GCATAAAAGGATTCCATAACTAAAAT
1 GCAT-GAAAGGATGCATAACTAAAAT
** *
6436888 GCATGAATTGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436908 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6436934 GCATGAAATGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6436954 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* * *
6436980 GCATGAACGGATACAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * *
6437000 GCGTGTAAGGATAACATAACTAAAAT
1 GCATGAAAGGAT-GCATAACTAAAAT
* *
6437026 GCATGAACGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6437046 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6437072 GCATGAAAGGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
* * * *
6437092 GCAAG-GATG--CCATAACTAAAAT
1 GCATGAAAGGATGCATAACTAAAAT
* *
6437114 GCATGAACA-GATTCAT---T--AAG
1 GCATGAA-AGGATGCATAACTAAAAT
6437134 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
* *
6437160 GCATGAAATGATGCAT---T--AAG
1 GCATGAAAGGATGCATAACTAAAAT
6437180 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CATAACTAAAAT
*
6437206 GCATGAACGGATGCAT
1 GCATGAAAGGATGCAT
6437222 TAAGGCATAA
Statistics
Matches: 814, Mismatches: 162, Indels: 315
0.63 0.13 0.24
Matches are distributed among these distances:
17 6 0.01
18 12 0.01
19 10 0.01
20 270 0.33
21 73 0.09
22 36 0.04
23 15 0.02
24 24 0.03
25 85 0.10
26 280 0.34
27 3 0.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (25 bp):
GCATGAAAGGATGCATAACTAAAAT
Found at i:6436260 original size:66 final size:66
Alignment explanation
Indices: 6436052--6438240 Score: 439
Period size: 66 Copynumber: 32.1 Consensus size: 66
6436042 TGCGTGAATG
* *
6436052 GATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
6436117 T
66 T
* * * *
6436118 GATGCCA-TAA--C-T-AAA--ATG-CATGAACGGATGCATAGGCATGAAAGGGTGCCATAACTA
1 GATG-CATTAAGGCATGAAAGGATGCCAT-AAC---T-AAAATGCATGAAAGGATG-CAT---T-
*
6436175 AAATGCATGAAAT
55 -AAGGCATGAAAT
*
6436188 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATG-AA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
6436252 T
66 T
* * * *
6436253 AGATGCATTAAGGCATGAAAGTATGTCATAACTAATATGCATGAAAGGGTGCATTAAGGCATGAA
1 -GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAA
*
6436318 AG
65 AT
* * *
6436320 GATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATAAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
**
6436379 AAATACATGAATGGAT
55 -AAGGCATGAA---AT
* * * *
6436395 GGATGCATT-AGGGATGAAAGGATGACATAACTAAAATGCGTGAAAGGATGCATTAAGGCATAAA
1 -GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAA
*
6436459 AG
65 AT
* * * *
6436461 GATGCCATAACTAAAATGCATGAACGGTTG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
*
6436520 AAATGCATG-AAT
55 -AAGGCATGAAAT
* * * *
6436532 GGATGCATTAAGGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCAAG-G
1 -GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAA
6436596 AT
65 AT
* * * * *
6436598 GCCAT-AACTAAAATGCATGAATGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAA
1 G--ATGCA-T-TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--A
*
6436656 ATGCATGAAAT
56 AGGCATGAAAT
* * *
6436667 GGTGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAACA-GATGCATTAAGGGATGAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAA-AGGATGCATTAAGGCATGAA
6436731 AT
65 AT
* * * *
6436733 GGTGCCATAACTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* *
6436792 AAATGCATGAAAG
55 -AAGGCATGAAAT
* * * *
6436805 GGTGCATTAAGGCATGAAATGATGTCATAACTAAAATGCATGAAAGGATGCATTAAGGCATAAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6436870 G
66 T
* * ** *
6436871 GATTCCATAACTAAAATGCATGAATTGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GA-TGCAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
*
6436930 AAATGCATGAAAT
55 -AAGGCATGAAAT
* * * *
6436943 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAAGGCGTGTAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437008 G
66 T
* * * *
6437009 GATAACATAACTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GAT-GCAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* *
6437068 AAATGCATGAAAG
55 -AAGGCATGAAAT
*
6437081 GATGCATTAAGGC----AAGGATGCCATAACTAAAATGCATGAACA-GATTCATTAAGGCATGAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAA-AGGATGCATTAAGGCATGAA
*
6437141 AG
65 AT
* * *
6437143 GATGTCATAACTAAAATGCATGAAATGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* **
6437202 AAATGCATGAACG
55 -AAGGCATGAAAT
* * *
6437215 GATGCATTAAGGCATAAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAATATGC
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-A-AGGC
6437274 ATGAAAT
60 ATGAAAT
* * *
6437281 GGTGCGTTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATAAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437346 G
66 T
* * * * ** * *
6437347 GATGCCATAACTAAAATGCATGAATGGATG-GAT-GC-ATTAGGGATGAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* * *
6437409 AAATGCGTGAAAG
55 -AAGGCATGAAAT
* * * * * * *
6437422 GATGCAATAAGACATAAAAGGATGCCATAACTATAATGAATGAACGGTTGCATTAAGGCATGAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437487 G
66 T
* * * *
6437488 GATGTCATAACTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGATACCATAATTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGAT-GC---ATT-
* *
6437547 AAATGCATGAAAG
55 -AAGGCATGAAAT
* *
6437560 GATGCATTAAGGC----AAGGATGCCATAACTAAAATGCATGAATGGATGCATTAAGGCATTAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437621 G
66 T
* * * *
6437622 GATGCCATAACTAAAATGCATGAAATGG-TG-CAT---T--AAGGCATGAAATGACGCATTAAGG
1 GATG-CAT---T--AAGGCATGAAA-GGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGG
*
6437680 CATGAAAG
59 CATGAAAT
* * * **
6437688 GATGTCATAACTAAAATGCATGAACA-GATG-CAT---T--AAGGGATGAAATTATGCCATAACT
1 GATG-CAT---T--AAGGCATGAA-AGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T
* **
6437746 AAAATGCATGAACG
55 --AAGGCATGAAAT
* *
6437760 GATGCATTAAGGTATGAAAGGATGCCATAACTAAAATGCATGAAAGGGTGCATTAAGGCATGAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437825 G
66 T
* * *
6437826 GATGTCATAACTAAAATGCATGAAATGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTA
1 GATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* **
6437885 AAATGCATGAACG
55 -AAGGCATGAAAT
* * *
6437898 GATGCATTAAGGCATTAAAGGATGCCATAACTAAAATGCATGAAATGATGAATTAAGGCATGAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6437963 G
66 T
* * * * * *
6437964 GATTCCATAACTAAAATGCATGAACGGATG-CAT---T--AAGGTATGTAAGGATGACATAACTA
1 GA-TGCAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T-
* **
6438023 AAATGCATGAACG
55 -AAGGCATGAAAT
* * *
6438036 GATGCATTAAGGCATGAAAGGATGCTATAACTAAAATGCATGAAAGGATGCATTAAGGCAAG-GA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
6438100 T
66 T
* * ** * * *
6438101 GCCAT-AACTAAAATTCATGAACGGAT-TCAT---T--AAGGCATGAAAGGATGTCATAACTAAA
1 G--ATGCA-T-TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--A
* *
6438159 ATGCATGAAAG
56 AGGCATGAAAT
* * *
6438170 GATGCATTAATGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATAAAA
1 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
6438235 G
66 T
6438236 GATGC
1 GATGC
6438241 CATAACTAAA
Statistics
Matches: 1588, Mismatches: 259, Indels: 552
0.66 0.11 0.23
Matches are distributed among these distances:
59 3 0.00
60 6 0.00
62 74 0.05
63 20 0.01
64 20 0.01
65 18 0.01
66 571 0.36
67 103 0.06
68 103 0.06
69 55 0.03
70 56 0.04
71 98 0.06
72 403 0.25
73 7 0.00
74 8 0.01
75 30 0.02
76 10 0.01
77 3 0.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (66 bp):
GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
T
Found at i:6436367 original size:20 final size:20
Alignment explanation
Indices: 6436046--6438287 Score: 481
Period size: 20 Copynumber: 98.6 Consensus size: 20
6436036 ACAAAATGCG
*
6436046 TGAATGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436066 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436092 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6436112 TGAAATGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436138 TGAACGGATGCA-T-AGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6436156 TGAAAGGGTGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436182 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436202 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436228 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
6436248 TGAATA-GATGCATTAAGGCA
1 TGAA-AGGATGCATTAAGGCA
* *
6436268 TGAAAGTATGTCATAACTAATATGCA
1 TGAAAGGATG-CAT---T-A-AGGCA
*
6436294 TGAAAGGGTGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436314 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6436340 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* **
6436360 TAAAAGGATGCCATAACTAAAATACA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436386 TGAATGGATGGATGCATT-AGGGA
1 TGAA---A-GGATGCATTAAGGCA
* *
6436409 TGAAAGGATGACATAACTAAAATGCG
1 TGAAAGGATG-CAT---T--AAGGCA
6436435 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6436455 TAAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
* *
6436481 TGAACGGTTGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436501 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436527 TGAATGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6436547 TGAAAGGATACCATAATTAAAATGCA
1 TGAAAGGAT-GC---ATT--AAGGCA
6436573 TGAAAGGATGCATTAAGGC-
1 TGAAAGGATGCATTAAGGCA
*
6436592 ---AAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436615 TGAATGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436635 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6436661 TGAAATGG-TGCATTAAGGCA
1 TGAAA-GGATGCATTAAGGCA
*
6436681 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436707 TGAACA-GATGCATTAAGGGA
1 TGAA-AGGATGCATTAAGGCA
*
6436727 TGAAATGG-TGCCATAACTAAAATGCA
1 TGAAA-GGATG-CAT---T--AAGGCA
*
6436753 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436773 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436799 TGAAAGGGTGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6436819 TGAAATGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6436845 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* * *
6436865 TAAAAGGATTCCATAACTAAAATGCA
1 TGAAAGGA-TGCAT---T--AAGGCA
**
6436891 TGAATTGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436911 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6436937 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6436957 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
* * *
6436983 TGAACGGATACATTAAGGCG
1 TGAAAGGATGCATTAAGGCA
* * *
6437003 TGTAAGGATAACATAACTAAAATGCA
1 TGAAAGGAT-GCAT---T--AAGGCA
*
6437029 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437049 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6437075 TGAAAGGATGCATTAAGGC-
1 TGAAAGGATGCATTAAGGCA
*
6437094 ---AAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437117 TGAACA-GATTCATTAAGGCA
1 TGAA-AGGATGCATTAAGGCA
*
6437137 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437163 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437183 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437209 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437229 TAAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437249 TGAAAGGATGCCATAACTAATATGCA
1 TGAAAGGATG-CAT---T-A-AGGCA
*
6437275 TGAAATGG-TGCGTTAAGGCA
1 TGAAA-GGATGCATTAAGGCA
*
6437295 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6437321 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6437341 TAAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437367 TGAATGGATGGATGCATT-AGGGA
1 TGAA---A-GGATGCATTAAGGCA
* *
6437390 TGAAAGGATGCCATAACTAAAATGCG
1 TGAAAGGATG-CAT---T--AAGGCA
* *
6437416 TGAAAGGATGCAATAAGACA
1 TGAAAGGATGCATTAAGGCA
* * *
6437436 TAAAAGGATGCCATAACTATAATGAA
1 TGAAAGGATG-C---A-T-TAAGGCA
* *
6437462 TGAACGGTTGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437482 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437508 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6437528 TGAAAGGATACCATAATTAAAATGCA
1 TGAAAGGAT-GC---ATT--AAGGCA
6437554 TGAAAGGATGCATTAAGGC-
1 TGAAAGGATGCATTAAGGCA
*
6437573 ---AAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437596 TGAATGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6437616 TTAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
6437642 TGAAATGG-TGCATTAAGGCA
1 TGAAA-GGATGCATTAAGGCA
* *
6437662 TGAAATGACGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437682 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437708 TGAACA-GATGCATTAAGGGA
1 TGAA-AGGATGCATTAAGGCA
** *
6437728 TGAAATTATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
* *
6437754 TGAACGGATGCATTAAGGTA
1 TGAAAGGATGCATTAAGGCA
*
6437774 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437800 TGAAAGGGTGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437820 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437846 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6437866 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6437892 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6437912 TTAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
* *
6437938 TGAAATGATGAATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6437958 TGAAAGGATTCCATAACTAAAATGCA
1 TGAAAGGA-TGCAT---T--AAGGCA
* *
6437984 TGAACGGATGCATTAAGGTA
1 TGAAAGGATGCATTAAGGCA
* *
6438004 TGTAAGGATGACATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6438030 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6438050 TGAAAGGATGCTATAACTAAAATGCA
1 TGAAAGGATGC-AT---T--AAGGCA
6438076 TGAAAGGATGCATTAAGGC-
1 TGAAAGGATGCATTAAGGCA
**
6438095 ---AAGGATGCCATAACTAAAATTCA
1 TGAAAGGATG-CAT---T--AAGGCA
* *
6438118 TGAACGGATTCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6438138 TGAAAGGATGTCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6438164 TGAAAGGATGCATTAATGCA
1 TGAAAGGATGCATTAAGGCA
*
6438184 TGAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6438210 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
6438230 TAAAAGGATGCCATAACTAAAATGCA
1 TGAAAGGATG-CAT---T--AAGGCA
*
6438256 TGAACGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
6438276 TGAAAGGGTGCA
1 TGAAAGGATGCA
6438288 ATGATTAAAA
Statistics
Matches: 1657, Mismatches: 239, Indels: 652
0.65 0.09 0.26
Matches are distributed among these distances:
16 28 0.02
17 12 0.01
18 12 0.01
19 21 0.01
20 612 0.37
21 119 0.07
22 63 0.04
23 16 0.01
24 44 0.03
25 130 0.08
26 573 0.35
27 9 0.01
29 8 0.00
30 10 0.01
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (20 bp):
TGAAAGGATGCATTAAGGCA
Found at i:6437902 original size:26 final size:26
Alignment explanation
Indices: 6437679--6437902 Score: 138
Period size: 26 Copynumber: 9.5 Consensus size: 26
6437669 ACGCATTAAG
*
6437679 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
6437705 GCATGAACA-GATG-CAT---T--AAG
1 GCATGAA-AGGATGCCATAACTAAAAT
* **
6437725 GGATGAAATTATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
6437751 GCATGAACGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
6437771 GTATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
6437797 GCATGAAAGGGTG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
6437817 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
6437843 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
6437863 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
6437889 GCATGAACGGATGC
1 GCATGAAAGGATGC
6437903 ATTAAGGCAT
Statistics
Matches: 150, Mismatches: 22, Indels: 52
0.67 0.10 0.23
Matches are distributed among these distances:
19 1 0.01
20 52 0.35
21 12 0.08
22 4 0.03
24 4 0.03
25 12 0.08
26 64 0.43
27 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:6438038 original size:26 final size:25
Alignment explanation
Indices: 6437773--6438222 Score: 168
Period size: 26 Copynumber: 18.6 Consensus size: 25
6437763 GCATTAAGGT
6437773 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
* *
6437799 ATGAAAGGGTGCAT---T--AAGGC
1 ATGAAAGGATGCATAACTAAAATGC
6437819 ATGAAAGGATGTCATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
* *
6437845 ATGAAATGATGCAT---T--AAGGC
1 ATGAAAGGATGCATAACTAAAATGC
6437865 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
*
6437891 ATGAACGGATGCATTAAGGCATTAAAGGATGCC
1 ATGAAAGGATGCA-TAA--C--TAAA--ATG-C
** * *
6437924 AT-AACTAAAATGCATGAAATGATGAATTAAGGC
1 ATGAA--AGGATGCAT--AA--CT-AA--AATGC
*
6437957 ATGAAAGGATTCCATAACTAAAATGC
1 ATGAAAGGA-TGCATAACTAAAATGC
* * *
6437983 ATGAACGGATGCAT---T--AAGGT
1 ATGAAAGGATGCATAACTAAAATGC
*
6438003 ATGTAAGGATGACATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
* *
6438029 ATGAACGGATGCAT---T--AAGGC
1 ATGAAAGGATGCATAACTAAAATGC
6438049 ATGAAAGGATGCTATAACTAAAATGC
1 ATGAAAGGATGC-ATAACTAAAATGC
*
6438075 ATGAAAGGATGCAT---T--AAGGC
1 ATGAAAGGATGCATAACTAAAATGC
* * * * *
6438095 AAG-GATG--CCATAACTAAAATTC
1 ATGAAAGGATGCATAACTAAAATGC
* * *
6438117 ATGAACGGATTCAT---T--AAGGC
1 ATGAAAGGATGCATAACTAAAATGC
6438137 ATGAAAGGATGTCATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
6438163 ATGAAAGGATGCAT---T--AATGC
1 ATGAAAGGATGCATAACTAAAATGC
6438183 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CATAACTAAAATGC
*
6438209 ATGAACGGATGCAT
1 ATGAAAGGATGCAT
6438223 TAAGGCATAA
Statistics
Matches: 312, Mismatches: 51, Indels: 123
0.64 0.10 0.25
Matches are distributed among these distances:
17 3 0.01
19 2 0.01
20 90 0.29
21 17 0.05
22 12 0.04
23 1 0.00
24 6 0.02
25 26 0.08
26 111 0.36
28 3 0.01
29 1 0.00
30 4 0.01
31 2 0.01
32 7 0.02
33 12 0.04
34 11 0.04
35 3 0.01
36 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (25 bp):
ATGAAAGGATGCATAACTAAAATGC
Found at i:6438321 original size:20 final size:20
Alignment explanation
Indices: 6438250--6438325 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
6438240 CCATAACTAA
*
6438250 AATGCATGAACGGATGCATT
1 AATGCATGAACGGATGTATT
* * *
6438270 AAGGCATGAAAGGGTGCAATGATT
1 AATGCATGAACGGATG---T-ATT
6438294 AAAATGCATGAACGGATGTATT
1 --AATGCATGAACGGATGTATT
6438316 AATGCATGAA
1 AATGCATGAA
6438326 AAGATACCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 23 0.53
22 3 0.07
23 1 0.02
24 3 0.07
26 13 0.30
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
AATGCATGAACGGATGTATT
Found at i:6445999 original size:25 final size:25
Alignment explanation
Indices: 6445965--6446044 Score: 160
Period size: 25 Copynumber: 3.2 Consensus size: 25
6445955 CAAATGATAG
6445965 TGAAAGATACATTTTTTGTGGGCGA
1 TGAAAGATACATTTTTTGTGGGCGA
6445990 TGAAAGATACATTTTTTGTGGGCGA
1 TGAAAGATACATTTTTTGTGGGCGA
6446015 TGAAAGATACATTTTTTGTGGGCGA
1 TGAAAGATACATTTTTTGTGGGCGA
6446040 TGAAA
1 TGAAA
6446045 AATCGGTAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (25 bp):
TGAAAGATACATTTTTTGTGGGCGA
Found at i:6451990 original size:55 final size:55
Alignment explanation
Indices: 6451915--6452525 Score: 846
Period size: 55 Copynumber: 11.1 Consensus size: 55
6451905 TATTGGACTA
** * *
6451915 AATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
6451970 AATCTTCAACAATAGTGTCTGCTCCCTATTTCTTCAGAGTGTATAAGACTTGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
6452025 AATTTTCAACATTTGTGTCTGCTCCCTGTTTCTTCAGAGAGTATGAGACTCGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
6452080 AATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
6452135 AATTTTCAACATTCGTTTCTGCTCCTTATTTCTTCAGAGAGTATTAGACTTGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
6452190 AATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGAGTA-AGAGACTCAAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATA-AGACTCGAAC
* *
6452245 AATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
6452300 AATCTTCAACAATCGTGTCTGCTCCCTATTTCATCAAAGAGTATAAGACTCAAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
6452355 AATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCATAGAGTGTTAGACTCGAAA
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
6452410 AATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * *
6452465 AATCTTCAACAATCGTGTATGCTCTCTATTTCTTCAGAGAGTATAAGGCTCGAAC
1 AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
6452520 AATCTT
1 AATCTT
6452526 TATTTGCTTC
Statistics
Matches: 495, Mismatches: 59, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
55 495 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (55 bp):
AATCTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:6452065 original size:110 final size:110
Alignment explanation
Indices: 6451829--6452525 Score: 886
Period size: 110 Copynumber: 6.4 Consensus size: 110
6451819 TATTGGGTTC
* * * * * * * * *
6451829 GCTCCCTCTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACATGTAC-GTTCTCTA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGTGT-CTGCTCCCTA
* ** * **
6451892 TTCCTTCAGAGAGTATTGGACT---A-AATCTTCAACAAACGTGTCT
64 TTTCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
* * *
6451935 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATAGTGTCTGCTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
* ** *
6452000 TCTTCAGAGTGTATAAGACTTGAACAATTTTCAACATTTGTGTCT
66 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
* *
6452045 GCTCCCTGTTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
*
6452110 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTTTCT
66 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
* * * * * *
6452155 GCTCCTTATTTCTTCAGAGAGTATTAGACTTGAACAATTTTCAACATTCGTGTATGCTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
6452220 TCTTCAGAGAGTA-AGAGACTCAAACAATTTTCAACATTCGTGTCT
66 TCTTCAGAGAGTATA-AGACTCAAACAATTTTCAACATTCGTGTCT
*
6452265 GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
* *
6452330 TCATCAAAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
66 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
* * * * * * *
6452375 GCTCCCTATTTCTTCATAGAGTGTTAGACTCGAAAAATTTTCAACATTCGTGTATGCTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
* * * * *
6452440 TCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTAT
66 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
* *
6452485 GCTCTCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTT
6452526 TATTTGCTTC
Statistics
Matches: 517, Mismatches: 66, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
105 2 0.00
106 66 0.13
109 2 0.00
110 446 0.86
111 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (110 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTCT
Found at i:6453839 original size:16 final size:17
Alignment explanation
Indices: 6453809--6453843 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
6453799 TTTCTTTTTC
6453809 TTTTTCTTTTTTTTCCT
1 TTTTTCTTTTTTTTCCT
6453826 TTTTTC-TTTTTTTCCT
1 TTTTTCTTTTTTTTCCT
6453842 TT
1 TT
6453844 ATTTTTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCCT
Found at i:6453849 original size:30 final size:29
Alignment explanation
Indices: 6453796--6453858 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
6453786 AACCCTTATT
* **
6453796 TTTTTTCTTTTTCTTTTTCTTTTTTTTCC
1 TTTTTTCTTTTTCTTTTTATTTTTCATCC
6453825 TTTTTTCTTTTT-TTCCTTTATTTTTCATCC
1 TTTTTTCTTTTTCTT--TTTATTTTTCATCC
6453855 TTTT
1 TTTT
6453859 CATCTTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 12 0.41
30 15 0.52
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTTCTTTTTCTTTTTATTTTTCATCC
Found at i:6458315 original size:19 final size:19
Alignment explanation
Indices: 6458287--6458328 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
6458277 ATCGATGGAC
6458287 CAAT-AGTCAGAGAAATAT
1 CAATCAGTCAGAGAAATAT
6458305 CAATCAGTCAGAGAAATAT
1 CAATCAGTCAGAGAAATAT
6458324 CAATC
1 CAATC
6458329 TTCCCTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (19 bp):
CAATCAGTCAGAGAAATAT
Found at i:6463272 original size:50 final size:50
Alignment explanation
Indices: 6463153--6463276 Score: 203
Period size: 50 Copynumber: 2.5 Consensus size: 50
6463143 ACATTAAAAC
*
6463153 CCTAACCACATGATATCTAATTCAACTTAACCACATGATATATAATTCAA
1 CCTAACCACATGATATCTAGTTCAACTTAACCACATGATATATAATTCAA
* *
6463203 CCTAACCACATGATATCTAGTTCAACTTAACCGCATGATATCTAATTCAA
1 CCTAACCACATGATATCTAGTTCAACTTAACCACATGATATATAATTCAA
* *
6463253 CCTAACCACATTATCTCTAGTTCA
1 CCTAACCACATGATATCTAGTTCA
6463277 CATGCATTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (50 bp):
CCTAACCACATGATATCTAGTTCAACTTAACCACATGATATATAATTCAA
Found at i:6463276 original size:25 final size:25
Alignment explanation
Indices: 6463153--6463263 Score: 177
Period size: 25 Copynumber: 4.4 Consensus size: 25
6463143 ACATTAAAAC
6463153 CCTAACCACATGATATCTAATTCAA
1 CCTAACCACATGATATCTAATTCAA
* *
6463178 CTTAACCACATGATATATAATTCAA
1 CCTAACCACATGATATCTAATTCAA
*
6463203 CCTAACCACATGATATCTAGTTCAA
1 CCTAACCACATGATATCTAATTCAA
* *
6463228 CTTAACCGCATGATATCTAATTCAA
1 CCTAACCACATGATATCTAATTCAA
6463253 CCTAACCACAT
1 CCTAACCACAT
6463264 TATCTCTAGT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (25 bp):
CCTAACCACATGATATCTAATTCAA
Found at i:6464865 original size:2 final size:2
Alignment explanation
Indices: 6464858--6464947 Score: 173
Period size: 2 Copynumber: 45.5 Consensus size: 2
6464848 GTATTATTCC
6464858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6464899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6464941 AT AT AT A
1 AT AT AT A
6464948 CATCAATGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 86 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6469079 original size:23 final size:23
Alignment explanation
Indices: 6469052--6469104 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
6469042 TATGTGGTTC
*
6469052 TTCGGGACAACTCTACGTGATCT
1 TTCGGGACAACTCTACGCGATCT
** *
6469075 TTCGGGACATTTCTATGCGATCT
1 TTCGGGACAACTCTACGCGATCT
6469098 TTCGGGA
1 TTCGGGA
6469105 TATTCTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
TTCGGGACAACTCTACGCGATCT
Found at i:6473498 original size:19 final size:19
Alignment explanation
Indices: 6473471--6473512 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
6473461 TTGAAATGGG
* *
6473471 GTATTGATACTATAGTATA
1 GTATCGATACCATAGTATA
6473490 GTATCGATACCATAGTATA
1 GTATCGATACCATAGTATA
6473509 GTAT
1 GTAT
6473513 TATCGCTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GTATCGATACCATAGTATA
Found at i:6475761 original size:20 final size:20
Alignment explanation
Indices: 6475724--6475762 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6475714 ATTTCACCAC
* *
6475724 ATGCAACTATGTGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
6475744 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
6475763 TATGAGCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:6484305 original size:20 final size:20
Alignment explanation
Indices: 6484276--6484314 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6484266 AATTCACCAC
*
6484276 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
6484296 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
6484315 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:6484881 original size:21 final size:21
Alignment explanation
Indices: 6484857--6484896 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6484847 TCGAGGGTTC
6484857 TATGCGGTCCTTCGAGACATA
1 TATGCGGTCCTTCGAGACATA
*
6484878 TATGTGGTCCTTCGAGACA
1 TATGCGGTCCTTCGAGACA
6484897 ATTCTACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
TATGCGGTCCTTCGAGACATA
Found at i:6490667 original size:17 final size:18
Alignment explanation
Indices: 6490628--6490674 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
6490618 TGTTTATGAG
6490628 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
6490646 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
6490663 GGAATTGGAATC
1 GGAATTGGAATC
6490675 CAATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:6497023 original size:31 final size:33
Alignment explanation
Indices: 6496977--6497063 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 33
6496967 ATTAAGTTTA
*
6496977 ATATTTTCA-TTTATTTATATTTTACT-ACTAT
1 ATATTTTAATTTTATTTATATTTTACTCACTAT
*
6497008 AT-TTTTAATTTTA-TT-TATTTTAGTCACTAT
1 ATATTTTAATTTTATTTATATTTTACTCACTAT
* *
6497038 TTATTTTAATTTAATTTATTATTTTA
1 ATATTTTAATTTTATTTA-TATTTTA
6497064 ATTTATATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 8 0.17
30 13 0.28
31 16 0.35
32 2 0.04
34 7 0.15
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (33 bp):
ATATTTTAATTTTATTTATATTTTACTCACTAT
Found at i:6497028 original size:16 final size:15
Alignment explanation
Indices: 6497010--6497057 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6497000 ACTACTATAT
6497010 TTTTAATTTTATTTA
1 TTTTAATTTTATTTA
* **
6497025 TTTTAGTCACTATTTA
1 TTTTAAT-TTTATTTA
*
6497041 TTTTAATTTAATTTA
1 TTTTAATTTTATTTA
6497056 TT
1 TT
6497058 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTAATTTTATTTA
Found at i:6497077 original size:18 final size:17
Alignment explanation
Indices: 6497037--6497080 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6497027 TTAGTCACTA
*
6497037 TTTATTTTAATTTAATT
1 TTTATTTTAATTTAATG
6497054 TATTATTTTAATTTATATG
1 T-TTATTTTAATTTA-ATG
6497073 TTTATTTT
1 TTTATTTT
6497081 CAATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTTAATTTAATG
Found at i:6497079 original size:12 final size:13
Alignment explanation
Indices: 6497047--6497117 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 13
6497037 TTTATTTTAA
6497047 TTTAATTTATTAT
1 TTTAATTTATTAT
6497060 TTTAATTTA-TAT
1 TTTAATTTATTAT
* *
6497072 GTTTATTTTCAATAT
1 -TTTAATTT-ATTAT
6497087 ATTTAA-TTATTAT
1 -TTTAATTTATTAT
6497100 TATTAAGTATTATTAT
1 T-TTAA-T-TTATTAT
6497116 TT
1 TT
6497118 AGTCATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.09
13 24 0.51
14 3 0.06
15 8 0.17
16 8 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (13 bp):
TTTAATTTATTAT
Found at i:6497839 original size:20 final size:22
Alignment explanation
Indices: 6497803--6497842 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6497793 TTAGAAATTT
6497803 AAAATTCATATATTTTATTAAA
1 AAAATTCATATATTTTATTAAA
6497825 AAAATT-ATATA-TTTATTA
1 AAAATTCATATATTTTATTA
6497843 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATTCATATATTTTATTAAA
Found at i:6497872 original size:20 final size:21
Alignment explanation
Indices: 6497838--6497887 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6497828 ATTATATATT
6497838 TATTATTTTCATAAT-ATTTA
1 TATTATTTTCATAATGATTTA
*
6497858 TATTATTTT-ATTAATGTTTTA
1 TATTATTTTCA-TAATGATTTA
*
6497879 TTTTATTTT
1 TATTATTTT
6497888 TCAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTCATAATGATTTA
Found at i:6498349 original size:4 final size:4
Alignment explanation
Indices: 6498340--6498366 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6498330 ATTTTTCCTT
6498340 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6498367 TCTTAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6504957 original size:9 final size:9
Alignment explanation
Indices: 6504943--6504974 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
6504933 AAATGGCAAT
6504943 CATTCTTTA
1 CATTCTTTA
6504952 CATTCTTTA
1 CATTCTTTA
*
6504961 CATTTTTTA
1 CATTCTTTA
6504970 CATTC
1 CATTC
6504975 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
CATTCTTTA
Found at i:6508532 original size:7 final size:6
Alignment explanation
Indices: 6508505--6508589 Score: 57
Period size: 7 Copynumber: 13.3 Consensus size: 6
6508495 TGGTTGAAGA
* *
6508505 AAAAATG AAATAAA AAAAAG AGAAAAG AAAAATG AAAAA- AAAGAG -AAAAG
1 AAAAA-G AAA-AAG AAAAAG A-AAAAG AAAAA-G AAAAAG AAAAAG AAAAAG
* *
6508555 AAAAATG AAAAAA AAAGAAG AAAAAT ATAAAAG AA
1 AAAAA-G AAAAAG AAA-AAG AAAAAG A-AAAAG AA
6508590 GAAAATATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
5 8 0.13
6 18 0.29
7 34 0.55
8 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:6508542 original size:23 final size:23
Alignment explanation
Indices: 6508512--6508580 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
6508502 AGAAAAAATG
6508512 AAAT-AAAAAAAAGAGAAAAGAA
1 AAATGAAAAAAAAGAGAAAAGAA
6508534 AAATGAAAAAAAAGAGAAAAGAA
1 AAATGAAAAAAAAGAGAAAAGAA
6508557 AAATGAAAAAAAA-AG--AAGAA
1 AAATGAAAAAAAAGAGAAAAGAA
6508577 AAAT
1 AAAT
6508581 ATAAAAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.20
22 6 0.13
23 31 0.67
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (23 bp):
AAATGAAAAAAAAGAGAAAAGAA
Found at i:6508569 original size:16 final size:16
Alignment explanation
Indices: 6508527--6508559 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6508517 AAAAAAAGAG
6508527 AAAAGA-AAAATGAAAA
1 AAAAGAGAAAA-GAAAA
6508543 AAAAGAGAAAAGAAAA
1 AAAAGAGAAAAGAAAA
6508559 A
1 A
6508560 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAGAAAAGAAAA
Found at i:6508578 original size:12 final size:12
Alignment explanation
Indices: 6508516--6508579 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
6508506 AAAATGAAAT
6508516 AAAAAAAAG-AG
1 AAAAAAAAGAAG
*
6508527 AAAAGAAAA-ATG
1 AAAA-AAAAGAAG
6508539 AAAAAAAAG-AG
1 AAAAAAAAGAAG
*
6508550 AAAAGAAAA-ATG
1 AAAA-AAAAGAAG
6508562 AAAAAAAAAGAAG
1 -AAAAAAAAGAAG
6508575 AAAAA
1 AAAAA
6508580 TATAAAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
11 13 0.31
12 23 0.55
13 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:6508596 original size:15 final size:16
Alignment explanation
Indices: 6508567--6508602 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
6508557 AAATGAAAAA
6508567 AAAAGAAGAAAAATAT
1 AAAAGAAGAAAAATAT
6508583 AAAAGAAG-AAAATAT
1 AAAAGAAGAAAAATAT
6508598 AAAAG
1 AAAAG
6508603 GAGGGTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAGAAGAAAAATAT
Found at i:6509012 original size:21 final size:20
Alignment explanation
Indices: 6508933--6509012 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 20
6508923 ATTTATTAAT
*
6508933 AAATTCTAAGTTTATTTTCTCT-
1 AAATTC-AA-TTTATTTT-TTTG
* *
6508955 AAATTTAATTTATTTTTTTTT
1 AAATTCAATTTA-TTTTTTTG
*
6508976 AGATTCAATTTA--TTTTTG
1 AAATTCAATTTATTTTTTTG
*
6508994 AAATTCAATTTATTCTTTT
1 AAATTCAATTTATTTTTTT
6509013 ATTTTGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 16 0.34
20 10 0.21
21 16 0.34
22 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (20 bp):
AAATTCAATTTATTTTTTTG
Found at i:6510586 original size:122 final size:119
Alignment explanation
Indices: 6510318--6510829 Score: 465
Period size: 122 Copynumber: 4.4 Consensus size: 119
6510308 CATTCGATAG
* * *
6510318 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* * * * *** *
6510383 AATGAGAAGAATTTATTCAACTTTTTGTTTGAA--T-TCATCA-TTTA-ATGGATCAGC
64 AATGAGAAGAACTTGTTCAAC-CTTTG-CTGAATCTATCA-CAGAAAAGATAGATCAGC
* * *
6510437 ATTACCA----GAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
6510497 TGAGAAGAACTTGTTCAACCTTCTGCATGACTCTATCACAGAAGAAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTT-TGC-TGAATCTATCACAGAA-AAGATAGATCAGC
*
6510554 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATA
* *
6510618 ATGAGAAGAACTTGTTCAACCTTTTGCTCGAAT-TCATCAC-------TTA-AT--GG
65 ATGAGAAGAACTTGTTCAACC-TTTGCT-GAATCT-ATCACAGAAAAGATAGATCAGC
* *
6510665 ATCGACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* ** * * *
6510730 ATGAGAAGAGCTTGTTCAACCTTTATTTGATTCTATCATAGAAAGAGATAGATCAGT
65 ATGAGAAGAACTTGTTCAACCTTT-GCTGAATCTATCACAGAAA-AGATAGATCAGC
* * *
6510787 ATCAGCATTTCCAAAAGGAGTTCATAATGAGAAGAACTAATCT
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCT
6510830 CAAAAAAAAT
Statistics
Matches: 325, Mismatches: 35, Indels: 63
0.77 0.08 0.15
Matches are distributed among these distances:
111 30 0.09
112 105 0.32
113 31 0.10
114 6 0.02
115 6 0.02
116 1 0.00
117 14 0.04
119 6 0.02
120 2 0.01
121 7 0.02
122 112 0.34
123 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (119 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTGCTGAATCTATCACAGAAAAGATAGATCAGC
Found at i:6510664 original size:234 final size:234
Alignment explanation
Indices: 6510318--6510829 Score: 751
Period size: 234 Copynumber: 2.2 Consensus size: 234
6510308 CATTCGATAG
* *
6510318 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
* * * * *
6510383 AATGAGAAGAATTTATTCAACTTTTTGTTTGAATTCATCATTTAATGGATC-AGCATTACCAGAG
65 AATGAGAAGAACTTATTCAACCTTTTGCTCGAATTCATCACTTAATGGATCGA-CATTACCAGAG
*
6510447 AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
129 AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
*
6510512 CAACCTTCTGCATGACTCTATCACAG-AAGAAGATAGATCAGC
194 CAACCTT-TACATGACTCTATCACAGAAAG-AGATAGATCAGC
* *
6510554 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* * *
6510618 ATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTAATGGATCGACATTTCCAGAGAG
66 ATGAGAAGAACTTATTCAACCTTTTGCTCGAATTCATCACTTAATGGATCGACATTACCAGAGAA
*
6510683 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCA
131 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
** * * *
6510748 ACCTTTATTTGATTCTATCATAGAAAGAGATAGATCAGT
196 ACCTTTACATGACTCTATCACAGAAAGAGATAGATCAGC
* * *
6510787 ATCAGCATTTCCAAAAGGAGTTCATAATGAGAAGAACTAATCT
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCT
6510830 CAAAAAAAAT
Statistics
Matches: 249, Mismatches: 24, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
233 38 0.15
234 163 0.65
235 34 0.14
236 14 0.06
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (234 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
ATGAGAAGAACTTATTCAACCTTTTGCTCGAATTCATCACTTAATGGATCGACATTACCAGAGAA
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTACATGACTCTATCACAGAAAGAGATAGATCAGC
Found at i:6512343 original size:31 final size:29
Alignment explanation
Indices: 6512292--6512355 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
6512282 ATTTATTTTA
* *
6512292 TATTTTACTACTATATTTTTAATTTTATT
1 TATTTTACCACTATATTTTTAATTTAATT
*
6512321 TATTTTAGCCACTATTTATTTTAATTTAATT
1 TATTTTA-CCACTATAT-TTTTAATTTAATT
6512352 TATT
1 TATT
6512356 ATTTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 16 0.53
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTTTACCACTATATTTTTAATTTAATT
Found at i:6512375 original size:18 final size:17
Alignment explanation
Indices: 6512335--6512377 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
6512325 TTAGCCACTA
*
6512335 TTTATTTTAATTTAATT
1 TTTATTTTAATTTAATG
6512352 TATTATTTTAATTTATATG
1 T-TTATTTTAATTTA-ATG
6512371 TTTATTT
1 TTTATTT
6512378 GCAATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTTAATTTAATG
Found at i:6512499 original size:37 final size:33
Alignment explanation
Indices: 6512426--6512499 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 33
6512416 AGTCATATAA
* *
6512426 ATATATATTAAATAATATTTTTATTATTATTTT
1 ATATATATTAAATAATATTTTTATTATAATTAT
6512459 ATATATATTAAATAAATATCCTATTT-TTATAAATTAT
1 ATATATATTAAAT-AATAT--T-TTTATTAT-AATTAT
6512496 ATAT
1 ATAT
6512500 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
33 13 0.38
34 5 0.15
36 5 0.15
37 11 0.32
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (33 bp):
ATATATATTAAATAATATTTTTATTATAATTAT
Found at i:6518229 original size:44 final size:44
Alignment explanation
Indices: 6518179--6518273 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
6518169 TAATAGTAAT
* *
6518179 ATTTAATATTGATGTAATAATTAGATAAATTTATATAACTACAC
1 ATTTAATATTGATGTAATAATTAAATAAATTTATATAACAACAC
*
6518223 ATTTAATATTGATGTAATAGTTAAATAAATTTATATAACAACAC
1 ATTTAATATTGATGTAATAATTAAATAAATTTATATAACAACAC
6518267 ATTTAAT
1 ATTTAAT
6518274 TTTTCTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (44 bp):
ATTTAATATTGATGTAATAATTAAATAAATTTATATAACAACAC
Found at i:6518311 original size:20 final size:20
Alignment explanation
Indices: 6518286--6518328 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6518276 TTCTTATTTA
*
6518286 TAAATTTTAA-TAATTTAATT
1 TAAA-TTTAACTAACTTAATT
6518306 TAAATTTAACTAACTTAATT
1 TAAATTTAACTAACTTAATT
6518326 TAA
1 TAA
6518329 TTCTCCGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTTAACTAACTTAATT
Found at i:6520814 original size:2 final size:2
Alignment explanation
Indices: 6520807--6520838 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6520797 TTTACCCTAA
6520807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6520839 GGGGCAGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6521348 original size:19 final size:19
Alignment explanation
Indices: 6521310--6521348 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6521300 AAGTTTGACT
**
6521310 TCTCCGACGACGCTTGGGC
1 TCTCCGACGACGCTAAGGC
*
6521329 TCTCCGACGACGGTAAGGC
1 TCTCCGACGACGCTAAGGC
6521348 T
1 T
6521349 TTCATCACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (19 bp):
TCTCCGACGACGCTAAGGC
Found at i:6532976 original size:6 final size:6
Alignment explanation
Indices: 6532965--6533016 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
6532955 AAACCTATAA
* *
6532965 AATTAT AATTATT AATTAT AATAAT AA-TAT AATAAT AATAATAT AATTAT
1 AATTAT AATTA-T AATTAT AATTAT AATTAT AATTAT AAT--TAT AATTAT
6533015 AA
1 AA
6533017 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.11
6 23 0.61
7 6 0.16
8 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTAT
Found at i:6533001 original size:14 final size:14
Alignment explanation
Indices: 6532982--6533016 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6532972 ATTATTAATT
6532982 ATAATAATAATATA
1 ATAATAATAATATA
6532996 ATAATAATAATATA
1 ATAATAATAATATA
*
6533010 ATTATAA
1 ATAATAA
6533017 CGAAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:6533244 original size:2 final size:2
Alignment explanation
Indices: 6533219--6533263 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
6533209 TTTTATTACA
*
6533219 AT AT TT AT AT -T AT -T AT AT AGT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
6533259 AT AT A
1 AT AT A
6533264 ATAATTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 3 0.08
2 32 0.86
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6533257 original size:22 final size:22
Alignment explanation
Indices: 6533224--6533268 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
6533214 TTACAATATT
6533224 TATATTATTATATAGTAT-ATAA
1 TATATTATTATATA-TATAATAA
6533246 TATA-TATATATATATATAATAA
1 TATATTAT-TATATATATAATAA
6533268 T
1 T
6533269 TTCAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATTATTATATATATAATAA
Found at i:6533401 original size:20 final size:21
Alignment explanation
Indices: 6533368--6533417 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
6533358 AATATATATA
6533368 ATATATATAATTTTTGAAAAC
1 ATATATATAATTTTTGAAAAC
* *
6533389 ATAT-TATAGTTTTTGAAAAT
1 ATATATATAATTTTTGAAAAC
6533409 ATAATATAT
1 AT-ATATAT
6533418 GTTATATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 6 0.24
22 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (21 bp):
ATATATATAATTTTTGAAAAC
Found at i:6533468 original size:12 final size:12
Alignment explanation
Indices: 6533451--6533550 Score: 84
Period size: 12 Copynumber: 8.2 Consensus size: 12
6533441 TATAGTGTAC
*
6533451 ATATTATTTATT
1 ATATTATATATT
6533463 ATATTATATATAT
1 ATATTATATAT-T
6533476 ATATATATATATAT
1 ATAT-TATATAT-T
*
6533490 ATATTATTTA-T
1 ATATTATATATT
6533501 AGTATTATATATT
1 A-TATTATATATT
6533514 AT-TCTATAT-TT
1 ATAT-TATATATT
6533525 A-ATATATTATATT
1 ATAT-TA-TATATT
6533538 ATATTA-ATATT
1 ATATTATATATT
6533549 AT
1 AT
6533551 TTGTTTGTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
11 16 0.21
12 27 0.36
13 17 0.23
14 15 0.20
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (12 bp):
ATATTATATATT
Found at i:6533474 original size:2 final size:2
Alignment explanation
Indices: 6533462--6533541 Score: 68
Period size: 2 Copynumber: 43.5 Consensus size: 2
6533452 TATTATTTAT
*
6533462 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
6533502 GTA T- TA TA TA T- TA T- TC TA TA TT TA -A TA TA T- TA TA T- TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6533539 TA T
1 TA T
6533542 TAATATTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
1 8 0.12
2 54 0.84
3 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:6533482 original size:10 final size:10
Alignment explanation
Indices: 6533462--6533541 Score: 68
Period size: 9 Copynumber: 8.7 Consensus size: 10
6533452 TATTATTTAT
6533462 TATAT-TATA
1 TATATATATA
6533471 TATATATATA
1 TATATATATA
6533481 TATATATATA
1 TATATATATA
*
6533491 TAT-TATTTA
1 TATATATATA
6533500 TAGTAT-TATA
1 TA-TATATATA
*
6533510 TAT-TAT-TC
1 TATATATATA
*
6533518 TATATTTA-A
1 TATATATATA
6533527 TATAT-TATA
1 TATATATATA
6533536 T-TATAT
1 TATATAT
6533542 TAATATTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
8 10 0.17
9 24 0.41
10 23 0.40
11 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TATATATATA
Found at i:6533484 original size:19 final size:18
Alignment explanation
Indices: 6533451--6533550 Score: 98
Period size: 19 Copynumber: 5.4 Consensus size: 18
6533441 TATAGTGTAC
*
6533451 ATATTATTTATTATATTAT
1 ATATTATATA-TATATTAT
6533470 ATATATATATATATATATAT
1 ATAT-TATATATATAT-TAT
*
6533490 ATATTATTTATAGTATTAT
1 ATATTATATATA-TATTAT
*
6533509 ATATTAT-TCTATATTTAAT
1 ATATTATATATATA-TT-AT
6533528 ATATTATAT-TATATTA-
1 ATATTATATATATATTAT
6533544 ATATTAT
1 ATATTAT
6533551 TTGTTTGTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.10
17 3 0.04
18 7 0.10
19 39 0.54
20 16 0.22
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
ATATTATATATATATTAT
Found at i:6533500 original size:39 final size:36
Alignment explanation
Indices: 6533451--6533551 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 36
6533441 TATAGTGTAC
6533451 ATATTATTTATTATATTATATATATATATATATATATA
1 ATATTATTTATTATATTATATAT-TAT-TATATATATA
* *
6533489 TATATTATTTA-TAGTATTATATATTATTCTATATTTA
1 -ATATTATTTATTA-TATTATATATTATTATATATATA
6533526 ATA-TATTATATTATATTA-ATATTATT
1 ATATTATT-TATTATATTATATATTATT
6533552 TGTTTGTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
35 12 0.21
36 10 0.18
37 10 0.18
38 5 0.09
39 20 0.35
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
ATATTATTTATTATATTATATATTATTATATATATA
Found at i:6533542 original size:10 final size:10
Alignment explanation
Indices: 6533455--6533550 Score: 78
Period size: 10 Copynumber: 9.6 Consensus size: 10
6533445 GTGTACATAT
6533455 TATT-TATTA
1 TATTATATTA
6533464 TATTATA-TA
1 TATTATATTA
6533473 TATATATATATA
1 TAT-TATAT-TA
6533485 TATATATATTA
1 TAT-TATATTA
*
6533496 T-TTATAGTA
1 TATTATATTA
6533505 T-TATATATTA
1 TAT-TATATTA
6533515 T-TCTATATT-
1 TAT-TATATTA
*
6533524 TAATATATTA
1 TATTATATTA
6533534 TATTATATTAA
1 TATTATATT-A
6533545 TATTAT
1 TATTAT
6533551 TTGTTTGTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
9 24 0.32
10 29 0.39
11 10 0.14
12 11 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (10 bp):
TATTATATTA
Found at i:6542480 original size:15 final size:15
Alignment explanation
Indices: 6542442--6542487 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6542432 TTTTAGTACA
* *
6542442 ATATTTATAT-TATT
1 ATATATATATATAAT
6542456 ATATAGTATATATAAT
1 ATATA-TATATATAAT
6542472 ATATATATATATAAT
1 ATATATATATATAAT
6542487 A
1 A
6542488 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 16 0.57
16 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATATATATATAAT
Found at i:6542554 original size:16 final size:17
Alignment explanation
Indices: 6542517--6542559 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
6542507 TAATATATGG
6542517 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
6542534 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
6542551 -TTTTGAAAA
1 TTTTTGAAAA
6542560 CATAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TTTTTGAAAATATATAA
Found at i:6542638 original size:19 final size:21
Alignment explanation
Indices: 6542606--6542654 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
6542596 AATATATATA
6542606 ATATATATAA-TTTTGAAAAC
1 ATATATATAATTTTTGAAAAC
* *
6542626 ATAT-TATAGTTTTTGAAAAT
1 ATATATATAATTTTTGAAAAC
6542646 ATAATATAT
1 AT-ATATAT
6542655 GTTATATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 2 0.08
22 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAATTTTTGAAAAC
Found at i:6542653 original size:20 final size:20
Alignment explanation
Indices: 6542616--6542653 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6542606 ATATATATAA
*
6542616 TTTTGAAAACATATTATAGT
1 TTTTGAAAACATAATATAGT
*
6542636 TTTTGAAAATATAATATA
1 TTTTGAAAACATAATATA
6542654 TGTTATATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (20 bp):
TTTTGAAAACATAATATAGT
Found at i:6542690 original size:29 final size:29
Alignment explanation
Indices: 6542630--6542691 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
6542620 GAAAACATAT
*
6542630 TATAGTTTTTGAAAATATAATATATGTTA
1 TATAGTTTTTGAAAATATAATATATGTCA
6542659 TATAGTTTTT-AAAATA-AATATAGTGTACA
1 TATAGTTTTTGAAAATATAATATA-TGT-CA
6542688 TATA
1 TATA
6542692 TTTATTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.20
28 9 0.30
29 15 0.50
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (29 bp):
TATAGTTTTTGAAAATATAATATATGTCA
Found at i:6542708 original size:16 final size:16
Alignment explanation
Indices: 6542687--6542754 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 16
6542677 TATAGTGTAC
6542687 ATATATTTATTATATT
1 ATATATTTATTATATT
6542703 ATATA-TTATT-TA-T
1 ATATATTTATTATATT
6542716 A-ATA-TTATTAT-TT
1 ATATATTTATTATATT
6542729 -TAT-TTTATTAATATT
1 ATATATTTATT-ATATT
*
6542744 ATTTATTTATT
1 ATATATTTATT
6542755 TTTAATAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
12 8 0.19
13 11 0.26
14 4 0.09
15 7 0.16
16 7 0.16
17 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATATTTATTATATT
Found at i:6542714 original size:19 final size:19
Alignment explanation
Indices: 6542690--6542754 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
6542680 AGTGTACATA
6542690 TATTTATTATATTATATAT
1 TATTTATTATATTATATAT
*
6542709 TATTTATAATATTAT-TA-
1 TATTTATTATATTATATAT
*
6542726 T-TTTATTTTATTA-ATAT
1 TATTTATTATATTATATAT
6542743 TATTTATT-TATT
1 TATTTATTATATT
6542755 TTTAATAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 12 0.30
17 6 0.15
18 8 0.20
19 14 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTATTATATTATATAT
Found at i:6542740 original size:22 final size:22
Alignment explanation
Indices: 6542692--6542756 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
6542682 TGTACATATA
*
6542692 TTTATT-ATATTA-TATATTA-
1 TTTATTAATATTATTATTTTAT
6542711 TTTA-TAATATTATTATTTTAT
1 TTTATTAATATTATTATTTTAT
6542732 TTTATTAATATTATT-TATTTAT
1 TTTATTAATATTATTAT-TTTAT
6542754 TTT
1 TTT
6542757 TAATAATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.25
20 6 0.15
21 5 0.12
22 18 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTATTAATATTATTATTTTAT
Found at i:6542771 original size:23 final size:22
Alignment explanation
Indices: 6542698--6542763 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 22
6542688 TATATTTATT
*
6542698 ATATTATATA-TTATTTATAATA
1 ATATTATTTATTTATTT-TAATA
* *
6542720 TTATTAT---TTTATTTTATTA
1 ATATTATTTATTTATTTTAATA
6542739 ATATTATTTATTTATTTTTAATA
1 ATATTATTTATTTA-TTTTAATA
6542762 AT
1 AT
6542764 GTTTTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 10 0.29
20 6 0.17
22 10 0.29
23 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTATTTATTTATTTTAATA
Found at i:6546513 original size:25 final size:25
Alignment explanation
Indices: 6546485--6546533 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6546475 ATAGAATTAA
*
6546485 TATATATAAAATAATATATTTATAT
1 TATAAATAAAATAATATATTTATAT
* **
6546510 TATAAATAATATTTTATATTTATA
1 TATAAATAAAATAATATATTTATA
6546534 AAGTAAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATAAATAAAATAATATATTTATAT
Found at i:6546516 original size:20 final size:20
Alignment explanation
Indices: 6546493--6546535 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
6546483 AATATATATA
6546493 AAATAATATATTTATA-TTAT
1 AAATAATAT-TTTATATTTAT
6546513 AAATAATATTTTATATTTAT
1 AAATAATATTTTATATTTAT
6546533 AAA
1 AAA
6546536 GTAAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATAATATTTTATATTTAT
Found at i:6546821 original size:21 final size:22
Alignment explanation
Indices: 6546791--6546841 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6546781 TTAAAATTTC
*
6546791 AAAAAAATAAGTA-TA-AAAAT
1 AAAAATATAAGTATTAGAAAAT
*
6546811 ATAAAATATAATTATTAGAAAAT
1 A-AAAATATAAGTATTAGAAAAT
6546834 AAAAATAT
1 AAAAATAT
6546842 TGAAATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 10 0.38
22 9 0.35
23 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATATAAGTATTAGAAAAT
Found at i:6549405 original size:160 final size:160
Alignment explanation
Indices: 6549218--6549739 Score: 706
Period size: 160 Copynumber: 3.3 Consensus size: 160
6549208 CGATTTTTAT
*
6549218 TATTTAAATTGGTTATGAATGTCTTTTGTTTTGACAATGTGTGGTAGACCATGCTCTTGCTTTCA
1 TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTGTGGTAGACCATGCTCTTGCTTTCA
* * *
6549283 AGGTAAATCTGAGTTTTCATATGATACACACAAATTCGATCATCGAAACTATGTTATTTAGACTC
66 AGGTAAATTTGAGTTTTCATATGATACACACGAATTCGATCATCGAAGCTATGTTATTTAGACTC
*
6549348 GAGTGTGAGTGTTGGATACGATTTTTCAAC
131 GAGTGTGAGTGTCGGATACGATTTTTCAAC
* * * * * *
6549378 GATTTAAATTGGTTATGAATGTCTTTTGTTTTGACAACGTGTGGTAGATCATCCTCTTGCTTCCA
1 TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTGTGGTAGACCATGCTCTTGCTTTCA
** * * *
6549443 AGGTAAATTTGAGTTTTCATTATGATAC-GTCGAATTCGGTCATCGAAGTTATCTTATTTAGACT
66 AGGTAAATTTGAGTTTTCA-TATGATACACACGAATTCGATCATCGAAGCTATGTTATTTAGACT
* * ** * * *
6549507 CGAGAGTGAGCGTCAAATATGAGTTTTCCAC
130 CGAGTGTGAGTGTCGGATACGATTTTTCAAC
* *
6549538 TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTGTTGTAGATCC-TGCTCTTCCTTTC
1 TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTGTGGTAGA-CCATGCTCTTGCTTTC
* *
6549602 AAGGTAAATTTGAGTTTTCATAATGATACACATGAATTCGATCATCGAAGCTATGTTATTTAGAT
65 AAGGTAAATTTGAGTTTTCAT-ATGATACACACGAATTCGATCATCGAAGCTATGTTATTTAGAC
* * **
6549667 TCGATTATGAGTGTCGGATACGATTTTTCGGC
129 TCGAGTGTGAGTGTCGGATACGATTTTTCAAC
* *
6549699 TATTTAAATCGGTTATCAATGTCTTTTCTTTTGACAATGTG
1 TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTG
6549740 CATTGTTTCT
Statistics
Matches: 310, Mismatches: 48, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
159 1 0.00
160 211 0.68
161 98 0.32
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (160 bp):
TATTTAAATCGGTTATGAATGTCTTTTGTTTTGACAATGTGTGGTAGACCATGCTCTTGCTTTCA
AGGTAAATTTGAGTTTTCATATGATACACACGAATTCGATCATCGAAGCTATGTTATTTAGACTC
GAGTGTGAGTGTCGGATACGATTTTTCAAC
Found at i:6551823 original size:23 final size:24
Alignment explanation
Indices: 6551779--6551827 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
6551769 ATTTATCTTT
*
6551779 TAAATTTTATAAAAAAATTATATA
1 TAAATTTTATAAAAAAAGTATATA
*
6551803 TAAATTTTAT-TAAAAAGTATATA
1 TAAATTTTATAAAAAAAGTATATA
6551826 TA
1 TA
6551828 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATTTTATAAAAAAAGTATATA
Found at i:6551825 original size:25 final size:24
Alignment explanation
Indices: 6551779--6551828 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6551769 ATTTATCTTT
6551779 TAAATTTTATAAAAAAATTATATA
1 TAAATTTTATAAAAAAATTATATA
* *
6551803 TAAATTTTATTAAAAAGTATATATA
1 TAAATTTTATAAAAAAAT-TATATA
6551828 T
1 T
6551829 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAAATTTTATAAAAAAATTATATA
Found at i:6551879 original size:14 final size:14
Alignment explanation
Indices: 6551860--6551891 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6551850 TTCTCAATGA
6551860 ATTTTTATATAAAT
1 ATTTTTATATAAAT
*
6551874 ATTTTTATTTAAAT
1 ATTTTTATATAAAT
6551888 ATTT
1 ATTT
6551892 AGAATTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTATATAAAT
Found at i:6552153 original size:28 final size:26
Alignment explanation
Indices: 6552115--6552174 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
6552105 ACCCTAATAG
*
6552115 TTTTTAAAATTTAATAGTATTTATTAT
1 TTTTTAAAATTTAATAATATTTATT-T
**
6552142 TTTTTAATAATTTTTTAATATTTATTT
1 TTTTTAA-AATTTAATAATATTTATTT
6552169 TTTTTA
1 TTTTTA
6552175 TTATAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTAAAATTTAATAATATTTATTT
Found at i:6552405 original size:3 final size:3
Alignment explanation
Indices: 6552397--6552439 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
6552387 CATATCAGGC
*
6552397 TAT TAT TAT TAT TAT TAT TAT TA- TAT CTTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T
6552440 TAATTTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6555302 original size:36 final size:35
Alignment explanation
Indices: 6555239--6555465 Score: 213
Period size: 36 Copynumber: 6.3 Consensus size: 35
6555229 TTTTCCCTAG
* * * * *
6555239 TCTTCCTTAAGATTTTTTTTCCT-GAAACTAACCTAG
1 TCTT-CTTAAGA-TTATTTCCCTAGAAACCAACATAA
*
6555275 TCTCTCTTAAGACTATTTCCCTAGAAACCAACATAA
1 TCT-TCTTAAGATTATTTCCCTAGAAACCAACATAA
* *
6555311 TCTTCGTTAAGGTTGTTTCCCTAGAAACCAACATAA
1 TCTTC-TTAAGATTATTTCCCTAGAAACCAACATAA
6555347 TCTTCCTTAAGATTATTTCCCTAGAAACCAACATAA
1 TCTT-CTTAAGATTATTTCCCTAGAAACCAACATAA
* * ** *
6555383 TCTTCCTTAAGATTGTTTCCCTAGAAATCAAGTTAG
1 TCTT-CTTAAGATTATTTCCCTAGAAACCAACATAA
* * * * *
6555419 CCTTTCTTAAAATCATTTCCCTAGAAACCAACCTAG
1 TC-TTCTTAAGATTATTTCCCTAGAAACCAACATAA
*
6555455 TCTCCTTAAGA
1 TCTTCTTAAGA
6555466 CCTATTACTC
Statistics
Matches: 160, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
35 16 0.10
36 140 0.88
37 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (35 bp):
TCTTCTTAAGATTATTTCCCTAGAAACCAACATAA
Found at i:6555356 original size:72 final size:72
Alignment explanation
Indices: 6555280--6555465 Score: 241
Period size: 72 Copynumber: 2.6 Consensus size: 72
6555270 CCTAGTCTCT
* * *
6555280 CTTAAGACTATTTCCCTAGAAACCAACATAATCTTCGTTAAGGTTGTTTCCCTAGAAACCAACAT
1 CTTAAGAATATTTCCCTAGAAACCAACATAATCTTCCTTAAGATTGTTTCCCTAGAAACCAACAT
*
6555345 AATCTTC
66 AACCTTC
* * **
6555352 CTTAAGATTATTTCCCTAGAAACCAACATAATCTTCCTTAAGATTGTTTCCCTAGAAATCAAGTT
1 CTTAAGAATATTTCCCTAGAAACCAACATAATCTTCCTTAAGATTGTTTCCCTAGAAACCAACAT
* *
6555417 AGCCTTT
66 AACCTTC
* *
6555424 CTTAA-AATCATTTCCCTAGAAACCAACCTAGTC-TCCTTAAGA
1 CTTAAGAAT-ATTTCCCTAGAAACCAACATAATCTTCCTTAAGA
6555466 CCTATTACTC
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 11 0.11
72 90 0.89
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (72 bp):
CTTAAGAATATTTCCCTAGAAACCAACATAATCTTCCTTAAGATTGTTTCCCTAGAAACCAACAT
AACCTTC
Found at i:6555479 original size:72 final size:71
Alignment explanation
Indices: 6555289--6555487 Score: 193
Period size: 72 Copynumber: 2.8 Consensus size: 71
6555279 TCTTAAGACT
* ** * * * ** ** *
6555289 ATTTCCCTAGAAACCAACATAATCTTCGTTAAGGTTGTTTCCCTAGAAACCAACATAATCTTCCT
1 ATTTCCCTAGAAACCAACATAATCTTCCTTAAGACTATTACCCTAGAAA-TAAGTTAGCCTTTCT
* *
6555354 TAAGATT
65 TAAAATC
* * *
6555361 ATTTCCCTAGAAACCAACATAATCTTCCTTAAGATTGTTTCCCTAGAAATCAAGTTAGCCTTTCT
1 ATTTCCCTAGAAACCAACATAATCTTCCTTAAGACTATTACCCTAGAAAT-AAGTTAGCCTTTCT
6555426 TAAAATC
65 TAAAATC
* * *
6555433 ATTTCCCTAGAAACCAACCTAGTC-TCCTTAAGACCTATTACTCTAGAAATAAGTT
1 ATTTCCCTAGAAACCAACATAATCTTCCTTAAGA-CTATTACCCTAGAAATAAGTT
6555488 TCTAATTTTA
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 14 0.13
72 95 0.87
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (71 bp):
ATTTCCCTAGAAACCAACATAATCTTCCTTAAGACTATTACCCTAGAAATAAGTTAGCCTTTCTT
AAAATC
Found at i:6555959 original size:71 final size:70
Alignment explanation
Indices: 6555859--6556092 Score: 265
Period size: 71 Copynumber: 3.3 Consensus size: 70
6555849 ACACACTCCA
*
6555859 TTAGTAGGTGAATCCTCAACCATAAAGGAAGCCGAATGCAACCAT-GAGCCTAAGTCATAGAGGA
1 TTAGTAGGTGAATCCTCAACCATAGAGGAAGCCGAATGCAACC-TCGAGCCTAA-TCATAGAGGA
*
6555923 CACCTTG
64 CACCATG
* * * * *
6555930 TTATTAGGTTAATCCTCAACTATGGAGGAAGCCGAACGCAACCTCGAGCCTCAATCATAGAGGAC
1 TTAGTAGGTGAATCCTCAACCATAGAGGAAGCCGAATGCAACCTCGAGCCT-AATCATAGAGGAC
6555995 ACCATG
65 ACCATG
* * * * * *
6556001 TTAGTAGGTGAA-CCTCAACCATAGAGAAAGTCAAATACAACTTCGAGCCTAATCATGGAGGACA
1 TTAGTAGGTGAATCCTCAACCATAGAGGAAGCCGAATGCAACCTCGAGCCTAATCATAGAGGACA
*
6556065 CCCTG
66 CCATG
* ** *
6556070 TTGGTAGACGAACCCTCAACCAT
1 TTAGTAGGTGAATCCTCAACCAT
6556093 CAAGGAATTC
Statistics
Matches: 138, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
69 26 0.19
70 41 0.30
71 69 0.50
72 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (70 bp):
TTAGTAGGTGAATCCTCAACCATAGAGGAAGCCGAATGCAACCTCGAGCCTAATCATAGAGGACA
CCATG
Done.