Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 100 of 199
Found at i:28255342 original size:19 final size:19
Alignment explanation
Indices: 28255320--28255360 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
28255310 TTATTTTTAA
*
28255320 TTTTTATAATTTTTAAAAT
1 TTTTTACAATTTTTAAAAT
*
28255339 TTTTTACAATTTTTACAAT
1 TTTTTACAATTTTTAAAAT
28255358 TTT
1 TTT
28255361 AAATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTACAATTTTTAAAAT
Found at i:28255351 original size:9 final size:9
Alignment explanation
Indices: 28255318--28255360 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
28255308 TTTTATTTTT
*
28255318 AATTTTTAT
1 AATTTTTAC
*
28255327 AATTTTTAA
1 AATTTTTAC
28255336 AATTTTTTAC
1 AA-TTTTTAC
28255346 AATTTTTAC
1 AATTTTTAC
28255355 AATTTT
1 AATTTT
28255361 AAATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (9 bp):
AATTTTTAC
Found at i:28255772 original size:88 final size:89
Alignment explanation
Indices: 28255457--28255774 Score: 332
Period size: 90 Copynumber: 3.7 Consensus size: 89
28255447 TATAAAGAAC
** * * * *
28255457 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAA-C----CCTAA-CCTG-A
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
* * *
28255515 CCCCAAATCCCTAACCCCTAAACT
66 TCCCTAACCCCTAACCCCTAAACT
* * * * * **
28255539 TTATTTAATATATAAATTAAAAAGCACTAATTAATCTAACCCCTAAACCCTAAACCTAACCCCAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCAT-AACCCAATCCTGA
* *
28255604 AGCACTAACCCCTAACCCCTAAACT
65 ATCCCTAACCCCTAACCCCTAAACT
* * *
28255629 TTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
*
28255694 TCCCTAACCCCTAACTCCTAAA-T
66 TCCCTAACCCCTAACCCCTAAACT
*
28255717 CTTATTTAATATAT-AATTAAAATACACTAATTAATCTAAACCCTAAACTC-TAACCCAA
1 -TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC-CATAACCCAA
28255775 CATCAAATTT
Statistics
Matches: 198, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
82 42 0.21
83 1 0.01
88 44 0.22
89 45 0.23
90 66 0.33
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (89 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCAATCCTGAA
TCCCTAACCCCTAACCCCTAAACT
Found at i:28255794 original size:88 final size:89
Alignment explanation
Indices: 28255613--28255809 Score: 213
Period size: 88 Copynumber: 2.2 Consensus size: 89
28255603 AAGCACTAAC
* * * *
28255613 CCCTAACCCCTAAA-CTTTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCTAAAC
1 CCCTAACTCCTAAATC-TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC
* * * *
28255677 CATAACCCAATCCTGAATCCCTAAC
65 CATAACCCAATCATAAATCCATAAA
*
28255702 CCCTAACTCCTAAATCTTATTTAATATAT-AATTAAAATACACTAATTAATCTAAACCCTAAACT
1 CCCTAACTCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAC-
**
28255766 C-TAACCCAA-CATCAAATTTATAAA
65 CATAACCCAATCAT-AAATCCATAAA
* *
28255790 CCCTAAATCCCTAACTCTTA
1 CCCTAACT-CCTAAATCTTA
28255810 ACATCTAACC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.02
88 51 0.56
89 37 0.41
90 1 0.01
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (89 bp):
CCCTAACTCCTAAATCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
ATAACCCAATCATAAATCCATAAA
Found at i:28255852 original size:14 final size:14
Alignment explanation
Indices: 28255788--28255864 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
28255778 CAAATTTATA
* *
28255788 AACCCTAAATCCCT
1 AACCCTTAACCCCT
* **
28255802 AACTCTTAACATCT
1 AACCCTTAACCCCT
*
28255816 AACCCCTAA--CCT
1 AACCCTTAACCCCT
* *
28255828 CACCCCTAACCCCT
1 AACCCTTAACCCCT
*
28255842 AACCCTTAACCCAT
1 AACCCTTAACCCCT
*
28255856 AAACCTTAA
1 AACCCTTAA
28255865 ATCACATTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
12 10 0.21
14 38 0.79
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:28256678 original size:114 final size:114
Alignment explanation
Indices: 28256474--28256908 Score: 710
Period size: 114 Copynumber: 3.8 Consensus size: 114
28256464 TTTTAAATCT
*
28256474 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
*
28256539 TTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * *
28256588 CTGAGCATCAGCGACGCTTACTTAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
28256653 TTGGGCATAGGTATTTTTACAGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* *
28256702 CTGAGCATCAGCGGCGCTTACTGAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
28256767 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCTGCTAAAGAC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * * * *
28256816 CTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAAATCCCCGAAAGCTCCGAAAACGGCGCCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
*
28256881 TTGGGCTTAGGTA-TTTTGCGGCGCTTTC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTC
28256909 TGGAAAACAC
Statistics
Matches: 297, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
113 15 0.05
114 282 0.95
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (114 bp):
CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
Found at i:28261736 original size:46 final size:46
Alignment explanation
Indices: 28261669--28261756 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
28261659 AAAAGTGTAC
* * *
28261669 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAACCCAATACAGTGA-CAGAATCAGAAATAGAATACA
*
28261715 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAA
28261757 ATGCAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAACCCAATACAGTGACAGAATCAGAAATAGAATACA
Found at i:28261959 original size:22 final size:22
Alignment explanation
Indices: 28261907--28261980 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
28261897 CAGCAAAGCT
* *
28261907 GCCAGTAACCAGAATGGCTA-AGA
1 GCCA-TAAACAGAATAGCTACA-A
* * *
28261930 GCCGTAAACAGGATAGCTATAA
1 GCCATAAACAGAATAGCTACAA
* *
28261952 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATAGCTACAA
28261974 GCCATAA
1 GCCATAA
28261981 GTACAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (22 bp):
GCCATAAACAGAATAGCTACAA
Found at i:28262040 original size:32 final size:31
Alignment explanation
Indices: 28261970--28262081 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 31
28261960 CAGAATGGCT
* * **
28261970 ACAAGCCATAAGTA-CAGTAATATGATTGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
*
28262000 ACAAAACCATCAGTAGCAGTGATATGACCGGTAC
1 AC-AAACCATCAGTAGCAGTAATATGACC-G-AC
* * *
28262034 AC-AACCATCAATAACGGTAATATGACCGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
28262064 ACAAAGCCATCAGTAGCA
1 ACAAA-CCATCAGTAGCA
28262082 TCGCAGCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
30 6 0.09
31 13 0.20
32 40 0.62
33 1 0.02
34 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (31 bp):
ACAAACCATCAGTAGCAGTAATATGACCGAC
Found at i:28262290 original size:24 final size:24
Alignment explanation
Indices: 28262254--28262331 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
28262244 GCTTAGAAGT
*
28262254 AGTCATACAAATCACAGATAAATC
1 AGTCATACAAATCACAGACAAATC
*
28262278 AGTCATACCAATCACAGACAAATC
1 AGTCATACAAATCACAGACAAATC
** * *
28262302 AGTCATTTACATCACGGACAAATC
1 AGTCATACAAATCACAGACAAATC
*
28262326 AATCAT
1 AGTCAT
28262332 TTACACTCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATC
Found at i:28262332 original size:24 final size:24
Alignment explanation
Indices: 28262288--28262336 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
28262278 AGTCATACCA
*
28262288 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
28262312 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
28262336 A
1 A
28262337 CTCGAGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:28262409 original size:27 final size:27
Alignment explanation
Indices: 28262372--28262603 Score: 148
Period size: 27 Copynumber: 8.6 Consensus size: 27
28262362 CCTCATGAGA
** *
28262372 ATTACGGTCATTTTACTTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
** *
28262399 ATTTTGGTCATTTAACCCTATAAGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* *
28262426 ATTACGGTCATTTTACCCTA-CAGAGGC
1 ATTACGGTCATTTTACCCTATAAG-GGT
* **
28262453 ATTACGGTCATTTTATCCTATGGGGAGT
1 ATTACGGTCATTTTACCCTATAAGG-GT
* * * *
28262481 -TTTCGATTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* *** *
28262507 ATTACGGTTATTTTACCCTACGGGGGC
1 ATTACGGTCATTTTACCCTATAAGGGT
* * **
28262534 ATTGCAGAT-ATTTTACCCTATGGGGGGT
1 ATTAC-GGTCATTTTACCCTAT-AAGGGT
* **
28262562 TTTTTGGTCATTTTACCCTAT-AGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
*
28262588 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
28262604 AAATATTGGG
Statistics
Matches: 160, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
26 20 0.12
27 117 0.73
28 23 0.14
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAAGGGT
Found at i:28262460 original size:81 final size:80
Alignment explanation
Indices: 28262372--28262603 Score: 256
Period size: 81 Copynumber: 2.9 Consensus size: 80
28262362 CCTCATGAGA
* *
28262372 ATTACGGTCATTTTACTTTATAGGGGTATTTTGGTCATTTAACCCTATAAGGGTATTACGGTCAT
1 ATTACGGTCATTTTACTCTAT-GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTCAT
28262437 TTTACCCTACAGAGGC
65 TTTACCCTACAGAGGC
* * * *
28262453 ATTACGGTCATTTTA-TCCTATGGGG-AGTTTTCGATTATTTTACCCTATAGGGGTATTACGGTT
1 ATTACGGTCATTTTACT-CTATGGGGTA-TTTT-GGTCATTTTACCCTATAAGGGTATTACGGTC
* *
28262516 ATTTTACCCTACGGGGGC
63 ATTTTACCCTACAGAGGC
* * * * *
28262534 ATTGCAGAT-ATTTTACCCTATGGGGGGTTTTTTGGTCATTTTACCCTAT-AGGGTATTACGATC
1 ATTAC-GGTCATTTTACTCTAT--GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTC
28262597 ATTTTAC
63 ATTTTAC
28262604 AAATATTGGG
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
79 1 0.01
80 9 0.07
81 92 0.73
82 16 0.13
83 8 0.06
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (80 bp):
ATTACGGTCATTTTACTCTATGGGGTATTTTGGTCATTTTACCCTATAAGGGTATTACGGTCATT
TTACCCTACAGAGGC
Found at i:28262473 original size:54 final size:55
Alignment explanation
Indices: 28262372--28262603 Score: 170
Period size: 54 Copynumber: 4.3 Consensus size: 55
28262362 CCTCATGAGA
** ** *
28262372 ATTACGGTCATTTTACTTTATAGGGGTATTTTGGTCATTTAACCCTATAAGG-GT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * **
28262426 ATTACGGTCATTTTACCCTACAGAGGCATTACGGTCATTTTATCCTATGGGGAGT
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * ** * *
28262481 -TTTCGATTATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTA-CGGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
* * * * **
28262534 ATTGCAGAT-ATTTTACCCTATGGGGGGTTTTTTGGTCATTTTACCCTAT-AGG-GT
1 ATTAC-GGTCATTTTACCCTAT-AGGGGTATTACGGTCATTTTACCCTATAAGGAGT
*
28262588 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
28262604 AAATATTGGG
Statistics
Matches: 141, Mismatches: 31, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
53 7 0.05
54 106 0.75
55 28 0.20
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (55 bp):
ATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTATAAGGAGT
Found at i:28262853 original size:17 final size:18
Alignment explanation
Indices: 28262831--28262866 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
28262821 TTTACCCGTG
*
28262831 TGGGCCCATA-AGCCTAT
1 TGGGCCCACACAGCCTAT
28262848 TGGGCCCACACAGCCTAT
1 TGGGCCCACACAGCCTAT
28262866 T
1 T
28262867 TCGACCTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (18 bp):
TGGGCCCACACAGCCTAT
Found at i:28267245 original size:34 final size:34
Alignment explanation
Indices: 28267207--28267280 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
28267197 GCCATTTGCC
28267207 ACTGTTACCG-TAATGGGCTAAGGCCCACACTGAT
1 ACTGTTACCGTTAA-GGGCTAAGGCCCACACTGAT
* * * *
28267241 ACTGTTACTGTTAAGGGCTCAGGCCTAGACTGAT
1 ACTGTTACCGTTAAGGGCTAAGGCCCACACTGAT
*
28267275 TCTGTT
1 ACTGTT
28267281 TATTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (34 bp):
ACTGTTACCGTTAAGGGCTAAGGCCCACACTGAT
Found at i:28268353 original size:22 final size:24
Alignment explanation
Indices: 28268319--28268366 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
28268309 TGTGAAACTG
*
28268319 TTATAAAATAAAAAT-AA-TATTT
1 TTATAAAACAAAAATAAAGTATTT
*
28268341 TTATTAAACAAAAATAAAGTATTT
1 TTATAAAACAAAAATAAAGTATTT
28268365 TT
1 TT
28268367 TTTCCGCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 2 0.09
24 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TTATAAAACAAAAATAAAGTATTT
Found at i:28274260 original size:66 final size:66
Alignment explanation
Indices: 28274179--28274331 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 66
28274169 GTTATACCAA
* * * * *
28274179 TGAGGCACTAGGTGTCAAACTATGTGATAAGCA-TTCGACGCAACTATTTGCTTCGGATTTATCT
1 TGAGGCATTGGGTGTCAAACTATGTGATAAG-AGTTCGACGCAACTATTTACTTCGAATTTATCC
*
28274243 GG
65 GC
* * *
28274245 TGAGGCTTTGGGTGTCAAACTATTTGATAAGAGTTCGATGCAACTATTTACTTCGAATTTATCCG
1 TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTACTTCGAATTTATCCG
28274310 C
66 C
*
28274311 TGAGGCATTGGGTGCCAAACT
1 TGAGGCATTGGGTGTCAAACT
28274332 GGTGTATTGG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 74 0.99
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (66 bp):
TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTACTTCGAATTTATCCG
C
Found at i:28276929 original size:34 final size:35
Alignment explanation
Indices: 28276889--28276969 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
28276879 TCTGATATGG
28276889 TATGACATTTTGATATG-A-TATATGTTTCTGAAAA
1 TATGACATTTTGATATGTAGTATATGTTT-TGAAAA
* *
28276923 TATGACATTAT-A-ATGTAGTATATGTTTTGGAAA
1 TATGACATTTTGATATGTAGTATATGTTTTGAAAA
28276956 TATGACATTTTGAT
1 TATGACATTTTGAT
28276970 CTGACATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 3 0.08
33 17 0.43
34 20 0.50
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (35 bp):
TATGACATTTTGATATGTAGTATATGTTTTGAAAA
Found at i:28281202 original size:21 final size:20
Alignment explanation
Indices: 28281178--28281221 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
28281168 TATTTTTATC
28281178 ATTTTAATCA-AAATTTTATTT
1 ATTTTAAT-ATAAA-TTTATTT
*
28281199 ATTTTTATATAAATTTATTT
1 ATTTTAATATAAATTTATTT
28281219 ATT
1 ATT
28281222 ACATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATATAAATTTATTT
Found at i:28285278 original size:21 final size:21
Alignment explanation
Indices: 28285249--28285305 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
28285239 TATTTTCGTT
28285249 TTTTCATATATAATT-TATTTA
1 TTTT-ATATATAATTATATTTA
**
28285270 CTTTTATAT-TCTTTATATTTA
1 -TTTTATATATAATTATATTTA
28285291 TTTTATGATATAATT
1 TTTTAT-ATATAATT
28285306 CGGCATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 9 0.32
21 12 0.43
22 7 0.25
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATATATAATTATATTTA
Found at i:28285590 original size:23 final size:22
Alignment explanation
Indices: 28285537--28285579 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
28285527 AAAATATATT
*
28285537 AAATAT-ATATTTTTATTTTTA
1 AAATATAATAGTTTTATTTTTA
*
28285558 AAATATAATAGTTTTAGTTTTA
1 AAATATAATAGTTTTATTTTTA
28285580 TACAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
AAATATAATAGTTTTATTTTTA
Found at i:28286077 original size:16 final size:16
Alignment explanation
Indices: 28286056--28286095 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
28286046 TAATTTGATG
*
28286056 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
28286072 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
28286088 GTTTTAAT
1 ATTTTAAT
28286096 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:28286096 original size:22 final size:23
Alignment explanation
Indices: 28286069--28286130 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
28286059 TTACTAACAA
* *
28286069 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
28286091 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
28286114 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
28286131 CGGGCTGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:28293278 original size:17 final size:18
Alignment explanation
Indices: 28293255--28293299 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
28293245 TTTATTTTTG
28293255 ATTTTTTCTTTTA-AATT
1 ATTTTTTCTTTTATAATT
* * *
28293272 GTTTTTTCTATTATTATT
1 ATTTTTTCTTTTATAATT
28293290 ATTTTTTCTT
1 ATTTTTTCTT
28293300 ATTTGTTTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTCTTTTATAATT
Found at i:28298994 original size:6 final size:6
Alignment explanation
Indices: 28298983--28299027 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
28298973 AAAACAAACA
* *
28298983 AAAAAG AAAAAG AAAAAG --AAGG AAAAAG GAAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
28299028 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 3 0.09
5 5 0.15
6 25 0.76
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:28299024 original size:17 final size:17
Alignment explanation
Indices: 28298984--28299029 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
28298974 AAACAAACAA
*
28298984 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGGAAAAG
*
28299001 -AAGGAAAAAGGAAAAG
1 AAAAGAAAAAGGAAAAG
28299017 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
28299030 GAGGCCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGGAAAAG
Found at i:28299025 original size:16 final size:15
Alignment explanation
Indices: 28298982--28299027 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
28298972 AAAAACAAAC
28298982 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
*
28298997 AAAGAAGGAAAAAGGAA
1 AAA-AAAGAAAAA-GAA
28299014 AAGAAAAGAAAAAG
1 AA-AAAAGAAAAAG
28299028 GAGAGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 13 0.50
18 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:28299499 original size:108 final size:106
Alignment explanation
Indices: 28299291--28299509 Score: 296
Period size: 108 Copynumber: 2.0 Consensus size: 106
28299281 GGGCACCTCA
* * ** * *
28299291 TTTCATCTTATTCATTTTGTATCTTAGCAAATTTGCTATCTTGATTATTTATTTATTTCGAGCTT
1 TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
*
28299356 TGTTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
66 TGCTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
* *
28299397 TTTCATCTTATTCATTTTGAATCTTAGCAAAATTCGCTATCCCGATTAATTTGTTTGTTTAGAGC
1 TTTCATCTTATTCATTTTGAATCTTAGC-AAATTCGCTATCCCGATT-ATTTATTTATTTAGAGC
* * *
28299462 TCTGCTCTTAATAAAATTTCATCTT-TCCCATTGTGATAATCTT
64 TCTGCTCTCAATAAAATTTCATCTTAT-CCATTATGATAATCCT
28299505 TTTCA
1 TTTCA
28299510 AGAATTTTCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
106 27 0.28
107 16 0.16
108 55 0.56
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (106 bp):
TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
TGCTCTCAATAAAATTTCATCTTATCCATTATGATAATCCT
Found at i:28300511 original size:45 final size:45
Alignment explanation
Indices: 28300417--28300511 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
28300407 TTGTATCTTC
* **
28300417 CTGTATTGGCAGCGAAGTAGAACGAAGTTAGCAAGTCTTGTCTTA
1 CTGTATTGGCAGCGAAGTAGAACGAAGATAGCAAGTCTTACCTTA
* * *
28300462 CTGTATTGGCAGTGAAGTAG-ACTGAAGATGGC-AGATCTTACCTTT
1 CTGTATTGGCAGCGAAGTAGAAC-GAAGATAGCAAG-TCTTACCTTA
28300507 CTGTA
1 CTGTA
28300512 CTGGAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
CTGTATTGGCAGCGAAGTAGAACGAAGATAGCAAGTCTTACCTTA
Found at i:28300658 original size:89 final size:89
Alignment explanation
Indices: 28300485--28300765 Score: 395
Period size: 89 Copynumber: 3.2 Consensus size: 89
28300475 GAAGTAGACT
* * * * * *
28300485 GAAGATGGCAGATCTTACCTTTCTGTACTGGAAATGAAGCAGATTAG-AAG-CACTAGCCTTATC
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGA-TCGTAAGCCACTAGCCTTATC
*
28300548 TCCCTGAGCAGTAGTGGAGTAGGTC
65 TCCCTGAGCAGCAGTGGAGTAGGTC
*
28300573 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGTAAGCCACTAGCCTTATCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
*
28300638 CCCTGAGCAGCAATGGAGTAGGTC
66 CCCTGAGCAGCAGTGGAGTAGGTC
* * * *
28300662 GAAGATTGTAGATCTTGCCTTCCTATACTGGCAATGAAGCAAATCGTAAGCCACCAGCCTTGTCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
* * *
28300727 CCCTGAGCAACAGTAGAGTAGGTT
66 CCCTGAGCAGCAGTGGAGTAGGTC
28300751 GAAGATTGTAGATCT
1 GAAGATTGTAGATCT
28300766 CATCTTCCTA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 40 0.23
89 131 0.76
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
CCCTGAGCAGCAGTGGAGTAGGTC
Found at i:28301217 original size:130 final size:130
Alignment explanation
Indices: 28300980--28301719 Score: 1112
Period size: 130 Copynumber: 5.7 Consensus size: 130
28300970 AGATTGTAGA
*
28300980 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
28301045 GTAGAA-CGGATTAAAAACCATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
66 GT-GAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
28301109 G
130 G
* * * ** * * **
28301110 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
28301175 GTGAAGCGGATTAAAAACCACTGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
28301240 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * *
28301305 GTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
28301370 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
28301435 GTGGAA-CGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
66 GT-GAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
28301499 G
130 G
* * * * ** * *
28301500 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * * *
28301565 GTGGAGCGGATTAAAAA-CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAG
66 GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
* *
28301629 TCTTATCTCCCTGAAGTTGCAATGGATCAGA-AAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAA-AAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
28301693 AGTGGAGCGGATT-AAAACCACAAATCT
65 AGTGAAGCGGATTAAAAACCACAGATCT
28301720 CATCCCCATG
Statistics
Matches: 549, Mismatches: 56, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
128 5 0.01
129 121 0.22
130 421 0.77
131 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTGAAGCGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
Found at i:28301575 original size:390 final size:389
Alignment explanation
Indices: 28300980--28301709 Score: 1309
Period size: 390 Copynumber: 1.9 Consensus size: 389
28300970 AGATTGTAGA
*
28300980 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
28301045 GTAGAACGGATTAAAAACCATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
66 GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
* *
28301110 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTATA
131 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
* *
28301175 GTGAAGCGGATTAAAAACCACTGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCCAG
196 GTGAAGCGGATTAAAAA-CACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAG
*
28301240 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAA-AAGAAACCAATCCTATCTCCCTGAAGTTGC
260 TCTTATCTCCCTGAAGTTGCAATGGAGCAGA-AAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
28301304 AGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCA
324 AGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCA
28301369 G
389 G
28301370 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * *
28301435 GTGGAACGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
66 GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
*
28301500 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTACA
131 TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
* *
28301565 GTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCAGT
196 GTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAGT
*
28301630 CTTATCTCCCTGAAGTTGCAATGGATCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
261 CTTATCTCCCTGAAGTTGCAATGGAGCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
28301695 TGGAGCGGATTAAAA
326 TGGAGCGGATTAAAA
28301710 CCACAAATCT
Statistics
Matches: 325, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
388 2 0.01
389 120 0.37
390 203 0.62
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (389 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTAGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
TCTCATCTCCCTGAAGTTACAGTGGAGAAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTACA
GTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCCAGT
CTTATCTCCCTGAAGTTGCAATGGAGCAGAAAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCAG
Found at i:28303955 original size:21 final size:21
Alignment explanation
Indices: 28303922--28303961 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
28303912 TAATTCATTT
* * *
28303922 ATTCGCTTTCATATCATTGGC
1 ATTCACTTGCATAACATTGGC
28303943 ATTCACTTGCATAACATTG
1 ATTCACTTGCATAACATTG
28303962 TATTCGTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTCACTTGCATAACATTGGC
Found at i:28308721 original size:29 final size:29
Alignment explanation
Indices: 28308666--28308723 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
28308656 TGTCTTTGAA
* * *
28308666 AATATTTACAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGACACACCAAATTTT
28308695 AATATTTACAAAAAGATCA-ACCAAATTTT
1 AATATTTACAAAAAGA-CACACCAAATTTT
28308724 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGACACACCAAATTTT
Found at i:28311297 original size:40 final size:40
Alignment explanation
Indices: 28311206--28311377 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
28311196 GCTCCTCGTT
* * *
28311206 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
28311246 C-AATGCCTTCGGGGCATAACCCGGATTTAATAACTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
28311285 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
28311325 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
28311365 CAAATGCCTTCGG
1 CAAATGCCTTCGG
28311378 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:28311390 original size:80 final size:79
Alignment explanation
Indices: 28311206--28311430 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
28311196 GCTCCTCGTT
* * * * *
28311206 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGGCATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGGCTTAACCCGGA
*
28311270 ATTTAATAACTTGCA
65 ATTTAATAACTCGCA
* *
28311285 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGGCTTAACCCGG
* *
28311350 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * * *
28311365 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGGCTTAACCCG
28311429 GA
63 GA
28311431 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGGCTTAACCCGGAA
TTTAATAACTCGCA
Found at i:28311439 original size:41 final size:41
Alignment explanation
Indices: 28311362--28311439 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
28311352 TTTGTATCTC
* * *
28311362 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
28311403 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
28311440 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:28321331 original size:91 final size:91
Alignment explanation
Indices: 28321017--28321321 Score: 501
Period size: 91 Copynumber: 3.4 Consensus size: 91
28321007 TGATTTTAGT
* *
28321017 AAATTCATAT-A-AAAATATTATTTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 AAATTCATATAAGAAAAT-TTA-TTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTAT
28321080 ATTTAATAATAATTATTTTAAATTATAC
64 ATTTAATAATAATTATTTTAAATTATAC
28321108 AAATTCATATAAGAAAATTTATTA-TCAAGAATTTTATGAAATTA-ATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
28321171 TTTAATAATATTTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
**
28321198 AAATTCATATAAGAAAATTTATTAGTAAGAGCTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
28321263 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
*
28321289 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT
28321322 ATTTTAAATT
Statistics
Matches: 201, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
90 85 0.42
91 107 0.53
92 4 0.02
93 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:28321453 original size:38 final size:39
Alignment explanation
Indices: 28321411--28322066 Score: 120
Period size: 38 Copynumber: 16.5 Consensus size: 39
28321401 ATATATTATG
28321411 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
* * * * * *
28321449 ATTTTATTAAATTATATATTTTAATTAAAATAT-ATTTAATAATA
1 ATTTTAGTAAATT-CATA---TAA-GAATATATGA-TTATTAAGA
** * *
28321493 ATTATT--TCAAATT-ATATTTG-ATAGTATCATATATTATG-
1 ATT-TTAGT-AAATTCATATAAGAATA-TATGAT-TATTAAGA
28321531 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
* ** ** *
28321569 ATTTTATTAAA-TCATATATTTTAAT-TAAAATATATTTAATA
1 ATTTTAGTAAATTCATATA--AGAATATATGAT-TA-TTAAGA
* * *** * *
28321610 ATAATTATTTCAAATT-ATAT-TTTATAGTATCATATATTATG-
1 AT-TTTA-GT-AAATTCATATAAGAATA-TATGAT-TATTAAGA
28321651 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
* ** ** *
28321689 ATTTTATTAAATT-ATATATTTTAAT-TAAAATATATGTAATA
1 ATTTTAGTAAATTCATATA--AGAATATATGAT-TAT-TAAGA
* ** * *
28321730 ATTATTATTTCAAATT-ATATTTG-ATAGTATCATATATTATG-
1 ATT-TTA-GT-AAATTCATATAAGAATA-TATGAT-TATTAAGA
28321771 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
* ** ** *
28321809 ATTTTATTAAA-TCATATATTTTAAT-TAAAATATATTTAATA
1 ATTTTAGTAAATTCATATA--AGAATATATGAT-TA-TTAAGA
* * *** * *
28321850 ATAATTATTTCAAATT-ATAT-TTTATAGTATCATATATTATG-
1 AT-TTTA-GT-AAATTCATATAAGAATA-TATGAT-TATTAAGA
28321891 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
* * * * * *
28321929 ATTTTATTAAATTATATATTTTAATTAAAATAT-ATTTAATAATA
1 ATTTTAGTAAATT-CATA---TAA-GAATATATGA-TTATTAAGA
*** * *
28321973 ATTATT--TCAAA-TCATAT-TTTATAGTATCATATATTATG-
1 ATT-TTAGT-AAATTCATATAAGAATA-TATGAT-TATTAAGA
28322011 ATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGA
1 ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
*
28322049 ATTTTATTAAATT-ATATA
1 ATTTTAGTAAATTCATATA
28322067 TTTTAATTAA
Statistics
Matches: 452, Mismatches: 91, Indels: 151
0.65 0.13 0.22
Matches are distributed among these distances:
37 63 0.14
38 123 0.27
39 67 0.15
40 31 0.07
41 38 0.08
42 30 0.07
43 41 0.09
44 53 0.12
45 6 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (39 bp):
ATTTTAGTAAATTCATATAAGAATATATGATTATTAAGA
Found at i:28321474 original size:120 final size:120
Alignment explanation
Indices: 28321328--28322097 Score: 1459
Period size: 120 Copynumber: 6.4 Consensus size: 120
28321318 AATTATTTTA
* *
28321328 AATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321393 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
28321448 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTG
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321513 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
28321568 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321633 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
28321688 AATTTTATTAAATTATATATTTTAATTAAAATATATGTAATAATTATTATTTCAAATTATATTTG
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321753 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
28321808 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321873 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
28321928 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATCATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
28321993 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
28322048 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
28322098 GTTAAAATAT
Statistics
Matches: 635, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 635 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:28321477 original size:18 final size:17
Alignment explanation
Indices: 28321449--28321483 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28321439 ATTATTAAGA
*
28321449 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28321466 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28321484 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28321717 original size:18 final size:17
Alignment explanation
Indices: 28321689--28321723 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28321679 ATTATTAAGA
*
28321689 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28321706 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28321724 GTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28321957 original size:18 final size:17
Alignment explanation
Indices: 28321929--28321963 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28321919 ATTATTAAGA
*
28321929 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28321946 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28321964 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28322077 original size:18 final size:17
Alignment explanation
Indices: 28322049--28322083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28322039 ATTATTAAGA
*
28322049 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28322066 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28322084 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28322303 original size:44 final size:46
Alignment explanation
Indices: 28322240--28322335 Score: 160
Period size: 44 Copynumber: 2.1 Consensus size: 46
28322230 CTATTACACC
* *
28322240 TCCATTCCATTCAACCAAACACAAGAA-TA-CTATTACGCCTCTAT
1 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACGCCTCTAT
28322284 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACGCCTCTAT
1 TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACGCCTCTAT
28322330 TCCATT
1 TCCATT
28322336 ACACCTCTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 25 0.52
45 2 0.04
46 21 0.44
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
TCCATTCCATTCAAACAAACAAAAGAATTACCTATTACGCCTCTAT
Found at i:28322342 original size:16 final size:16
Alignment explanation
Indices: 28322317--28322354 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
28322307 AGAATTACCT
* *
28322317 ATTACGCCTCTATTCC
1 ATTACACCTCTATCCC
28322333 ATTACACCTCTATCCC
1 ATTACACCTCTATCCC
28322349 ATTACA
1 ATTACA
28322355 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATCCC
Found at i:28327463 original size:21 final size:21
Alignment explanation
Indices: 28327424--28327463 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28327414 TTGTTTCTAA
*
28327424 AGAAAAATCCAGTTTCACAGC
1 AGAAAAATCCAGTTCCACAGC
28327445 AGAAAAAT-CAGTGTCCACA
1 AGAAAAATCCAGT-TCCACA
28327464 ACCATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (21 bp):
AGAAAAATCCAGTTCCACAGC
Found at i:28328123 original size:65 final size:65
Alignment explanation
Indices: 28328045--28328186 Score: 171
Period size: 65 Copynumber: 2.2 Consensus size: 65
28328035 ATTGAAAATG
** *
28328045 AGCTACCGGTAATATAGATGAGCCACCAGAA-ATGCAGATAAACTGCCAATAACAATTTGCAGAA
1 AGCTACCAATAATATAGACGAGCCACCA-AATATGCAGATAAACTGCCAATAACAATTTGCAGAA
28328109 A
65 A
* * * * * **
28328110 AGCTACCAATAATATGGACGAGCCTCTAAATATGCAGATAAACTGCCAATTACAATTTGCGGTCA
1 AGCTACCAATAATATAGACGAGCCACCAAATATGCAGATAAACTGCCAATAACAATTTGCAGAAA
28328175 A-CTACCAATAAT
1 AGCTACCAATAAT
28328187 GCAGACAAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
64 13 0.20
65 53 0.80
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (65 bp):
AGCTACCAATAATATAGACGAGCCACCAAATATGCAGATAAACTGCCAATAACAATTTGCAGAAA
Found at i:28329386 original size:25 final size:25
Alignment explanation
Indices: 28329356--28329437 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
28329346 CTGTAATTGA
*
28329356 TAAGCTCATATGAGCTGAATAACGG
1 TAAGCTCATACGAGCTGAATAACGG
*
28329381 TAAGCTCATACGA-CTTGAATAACAG
1 TAAGCTCATACGAGC-TGAATAACGG
* * *
28329406 TAAGCTTATACGAGTTGAATATCGG
1 TAAGCTCATACGAGCTGAATAACGG
28329431 TAAGCTC
1 TAAGCTC
28329438 TCTCGAGCTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAACGG
Found at i:28336653 original size:20 final size:20
Alignment explanation
Indices: 28336611--28336657 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
28336601 TTTTCTACCT
* * *
28336611 AAAAAACATGAGGGAGTACA
1 AAAAAATATGAGGAAATACA
*
28336631 AAAAAATATGAGGAAATATA
1 AAAAAATATGAGGAAATACA
28336651 AAAAAAT
1 AAAAAAT
28336658 TGTGAGAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATATGAGGAAATACA
Found at i:28342114 original size:44 final size:44
Alignment explanation
Indices: 28342051--28342139 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
28342041 GCCAGAAAGT
28342051 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
*
28342095 AAACATATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
28342139 A
1 A
28342140 GTTTTAAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.15
Consensus pattern (44 bp):
AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
Found at i:28348402 original size:30 final size:31
Alignment explanation
Indices: 28348348--28348466 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 31
28348338 CATTAAAATT
*
28348348 GTTAATTAAACTTAAATTTAATTAAACTTAG
1 GTTAATTAAAGTTAAATTTAATTAAACTTAG
*** *
28348379 GTTAATT-AAGTT-AATTCTAATTAATTAAAAAA
1 GTTAATTAAAGTTAAATT-TAATTAA--ACTTAG
** *
28348411 ACTAATTAAAATATAAATTTAATTAAACTTAG
1 GTTAATTAAAGT-TAAATTTAATTAAACTTAG
28348443 GTTAATT-AAGTT-AATTCTAATTAA
1 GTTAATTAAAGTTAAATT-TAATTAA
28348467 TTAAAAAAAC
Statistics
Matches: 66, Mismatches: 15, Indels: 15
0.69 0.16 0.16
Matches are distributed among these distances:
29 8 0.12
30 19 0.29
31 10 0.15
32 14 0.21
33 3 0.05
34 8 0.12
35 4 0.06
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (31 bp):
GTTAATTAAAGTTAAATTTAATTAAACTTAG
Found at i:28348438 original size:64 final size:64
Alignment explanation
Indices: 28348350--28348489 Score: 264
Period size: 64 Copynumber: 2.2 Consensus size: 64
28348340 TTAAAATTGT
*
28348350 TAATTAAACT-TAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
1 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
28348413 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
1 TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
28348477 TAATTAAAATATA
1 TAATTAAAATATA
28348490 TAAACAAATA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 9 0.12
64 66 0.88
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (64 bp):
TAATTAAAATATAAATTTAATTAAACTTAGGTTAATTAAGTTAATTCTAATTAATTAAAAAAAC
Found at i:28348638 original size:24 final size:25
Alignment explanation
Indices: 28348611--28348661 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
28348601 GGTGAGTTCG
28348611 ATTTAGTCTTTTT-TTATAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
*
28348635 ATTTAGTCTTTTTCTTGTAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
28348660 AT
1 AT
28348662 GTTTTTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
ATTTAGTCTTTTTCTTATAATTTTT
Found at i:28357420 original size:39 final size:39
Alignment explanation
Indices: 28357380--28357517 Score: 231
Period size: 39 Copynumber: 3.5 Consensus size: 39
28357370 ATTCATTTTT
* * * *
28357380 AAGCATATATCGCATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
28357419 AAGCATGTATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
28357458 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
28357497 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
28357518 AAAACATGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:28357449 original size:17 final size:17
Alignment explanation
Indices: 28357427--28357488 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
28357417 TTAAGCATGT
28357427 ATCACAATACTCATATA
1 ATCACAATACTCATATA
*
28357444 ATCAC-ATAACATTCAAGCATA
1 ATCACAAT-AC--TC-A-TATA
28357465 TATCACAATACTCATATA
1 -ATCACAATACTCATATA
28357483 ATCACA
1 ATCACA
28357489 TAACATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 13 0.36
18 3 0.08
19 3 0.08
20 3 0.08
21 3 0.08
22 7 0.19
23 2 0.06
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (17 bp):
ATCACAATACTCATATA
Found at i:28360704 original size:20 final size:20
Alignment explanation
Indices: 28360676--28360716 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
28360666 TTACTATTTG
* *
28360676 AATCGATTCTTTTTTGTTTA
1 AATCAATTCTTTGTTGTTTA
28360696 AATCAATTCTTTGTTGTTTA
1 AATCAATTCTTTGTTGTTTA
28360716 A
1 A
28360717 CTCGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
AATCAATTCTTTGTTGTTTA
Found at i:28363759 original size:18 final size:18
Alignment explanation
Indices: 28363736--28363772 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
28363726 ATTGAATAGT
*
28363736 CAAAATAAGTACATGTGA
1 CAAAATAAGTAAATGTGA
28363754 CAAAATAAGTAAATGTGA
1 CAAAATAAGTAAATGTGA
28363772 C
1 C
28363773 GAGTGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (18 bp):
CAAAATAAGTAAATGTGA
Found at i:28365134 original size:13 final size:13
Alignment explanation
Indices: 28365116--28365143 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28365106 CCAAGATGGC
28365116 TAGTTAGAATAGT
1 TAGTTAGAATAGT
28365129 TAGTTAGAATAGT
1 TAGTTAGAATAGT
28365142 TA
1 TA
28365144 ACAGTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TAGTTAGAATAGT
Found at i:28373184 original size:16 final size:16
Alignment explanation
Indices: 28373163--28373229 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
28373153 TTTGATTTGC
*
28373163 TGTAATGGAATAAATG
1 TGTAATAGAATAAATG
28373179 TGTAATAGAATAAATACG
1 TGTAATAGAATAAAT--G
* * *
28373197 TAATGAATGGAATAAAGG
1 T-GT-AATAGAATAAATG
28373215 TGTAATAGAATAAAT
1 TGTAATAGAATAAAT
28373230 ACGTAATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
16 24 0.60
17 1 0.03
18 4 0.10
19 1 0.03
20 10 0.25
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.28
Consensus pattern (16 bp):
TGTAATAGAATAAATG
Found at i:28373207 original size:36 final size:36
Alignment explanation
Indices: 28373166--28373239 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
28373156 GATTTGCTGT
*
28373166 AATGGAATAAATGTGTAATAGAATAAATACGTAATG
1 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
28373202 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
1 AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
28373238 AA
1 AA
28373240 ATAGAGGCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (36 bp):
AATGGAATAAAGGTGTAATAGAATAAATACGTAATG
Found at i:28373467 original size:24 final size:23
Alignment explanation
Indices: 28373435--28373512 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
28373425 ATAAGGTTAT
*
28373435 TAATA-TAAATAATAAATATTTAA
1 TAATATTAAATAAT-AATATATAA
*
28373458 TAATATTAAAATCATAATATATAA
1 TAATATT-AAATAATAATATATAA
* * * *
28373482 TACTATAAAAT-ATAATTTAAAA
1 TAATATTAAATAATAATATATAA
28373504 TAATTATTA
1 TAA-TATTA
28373513 TTAAATATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 11 0.25
23 13 0.30
24 14 0.32
25 6 0.14
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATATTAAATAATAATATATAA
Found at i:28373505 original size:22 final size:21
Alignment explanation
Indices: 28373452--28373505 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
28373442 AATAATAAAT
28373452 ATTTAATAATATTAAAATCATA
1 ATTTAA-AATATTAAAATCATA
* *
28373474 ATATATAATACTATAAAAT-ATA
1 ATTTAAAATA-T-TAAAATCATA
28373496 ATTTAAAATA
1 ATTTAAAATA
28373506 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTAAAATATTAAAATCATA
Found at i:28373562 original size:18 final size:19
Alignment explanation
Indices: 28373522--28373562 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
28373512 ATTAAATATA
28373522 ATTAATAAAAATATATAAT
1 ATTAATAAAAATATATAAT
* *
28373541 -TTAATAAAATTCT-TAAT
1 ATTAATAAAAATATATAAT
28373558 ATTAA
1 ATTAA
28373563 ATATTCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATAAAAATATATAAT
Found at i:28379557 original size:92 final size:91
Alignment explanation
Indices: 28379400--28379608 Score: 251
Period size: 92 Copynumber: 2.3 Consensus size: 91
28379390 TTGATTTTAG
** *
28379400 TAAATTCATATAAGAACAATTTATTATTGAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
28379465 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ACTATTTTAAATTATA
* *
28379492 TAAATTCATATAAGAAAATTTATTATCAAGTATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
28379556 TATGTAATAATTACTATTTTAGATTATA
64 TATGTAATAATTACTATTTTAAATTATA
* * * *
28379584 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
28379609 GTTATAATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.28
92 69 0.68
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTACTATTTTAAATTATA
Found at i:28379770 original size:120 final size:120
Alignment explanation
Indices: 28379631--28380276 Score: 1181
Period size: 120 Copynumber: 5.4 Consensus size: 120
28379621 TTAAATTATT
* * * *
28379631 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
* *
28379693 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
28379751 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
28379816 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
28379871 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
*
28379936 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
28379991 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
28380056 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
28380111 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
28380176 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
28380231 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
28380277 TAAATATGAT
Statistics
Matches: 515, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
119 6 0.01
120 507 0.98
121 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
Found at i:28379773 original size:18 final size:17
Alignment explanation
Indices: 28379745--28379779 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28379735 ATTATTAAGA
*
28379745 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28379762 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28379780 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28379893 original size:18 final size:17
Alignment explanation
Indices: 28379865--28379899 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28379855 ATTATTAAGA
*
28379865 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28379882 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28379900 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28380133 original size:18 final size:17
Alignment explanation
Indices: 28380105--28380139 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28380095 ATTATTAAGA
*
28380105 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28380122 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28380140 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28380253 original size:18 final size:17
Alignment explanation
Indices: 28380225--28380259 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28380215 ATTATTAAGA
*
28380225 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
28380242 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
28380260 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:28380516 original size:16 final size:16
Alignment explanation
Indices: 28380495--28380563 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
28380485 GATTAGCTAT
28380495 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
28380511 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
28380528 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
28380544 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
28380560 TACA
1 TACA
28380564 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:28380537 original size:33 final size:32
Alignment explanation
Indices: 28380495--28380563 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
28380485 GATTAGCTAT
28380495 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
28380528 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
28380560 TACA
1 TACA
28380564 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:28383038 original size:18 final size:18
Alignment explanation
Indices: 28382998--28383040 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
28382988 TTAATACTTG
28382998 ATTTA-TTATTTTAATTT
1 ATTTATTTATTTTAATTT
*
28383015 AGTTATTTATTTTAATTGT
1 ATTTATTTATTTTAATT-T
28383034 -TTTATTT
1 ATTTATTT
28383041 GACTTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTATTTATTTTAATTT
Found at i:28385183 original size:120 final size:119
Alignment explanation
Indices: 28385039--28385280 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 119
28385029 AAGAAAAAGA
*
28385039 TGAAAAAAGAAAAGAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
*
28385104 AAACATAATCCTAATGTAATTAGGGGGGAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTA-GGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
28385159 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
28385224 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
28385278 TGA
1 TGA
28385281 TAATTTGCCC
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 34 0.28
120 86 0.72
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.19
Consensus pattern (119 bp):
TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
Found at i:28386382 original size:34 final size:33
Alignment explanation
Indices: 28386344--28386481 Score: 102
Period size: 34 Copynumber: 4.0 Consensus size: 33
28386334 TAAGAATTTT
28386344 AAAAAATAAATTAGGGTTTAGAGTTTTTTTTAAAA
1 AAAAAATAAATTAGGGTTTAGAG-TTTTTTT-AAA
* * * ** **
28386379 AAAATTAATTATATTAGGTTTTTG-GGGTTTAAAATA
1 AAAA--AA-TAAATTAGGGTTTAGAGTTTTTTTAA-A
28386415 AAAAAATTAAATTAGGGTTTAGAGTTTTTTTAAA
1 AAAAAA-TAAATTAGGGTTTAGAGTTTTTTTAAA
* *
28386449 AATTAATTAAATTAGGGTTT--AGTTTTTTTAAA
1 AA-AAAATAAATTAGGGTTTAGAGTTTTTTTAAA
28386481 A
1 A
28386482 TAATTTTGTG
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
32 13 0.16
34 31 0.38
35 14 0.17
36 8 0.10
37 3 0.04
38 12 0.15
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (33 bp):
AAAAAATAAATTAGGGTTTAGAGTTTTTTTAAA
Found at i:28386473 original size:32 final size:33
Alignment explanation
Indices: 28386419--28386481 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
28386409 AAAATAAAAA
28386419 AATTAAATTAGGGTTTAGAGTTTTTTTAAAAATT
1 AATTAAATTAGGGTTTA-AGTTTTTTTAAAAATT
28386453 AATTAAATTAGGGTTT-AGTTTTTTTAAAA
1 AATTAAATTAGGGTTTAAGTTTTTTTAAAA
28386482 TAATTTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAAGTTTTTTTAAAAATT
Found at i:28386486 original size:30 final size:31
Alignment explanation
Indices: 28386413--28386486 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 31
28386403 GGGTTTAAAA
*
28386413 TAAAAAAATTAAATTAGGGTTTAGAGTTTTTT
1 TAAAATAATTAAATTAGGGTTTA-AGTTTTTT
28386445 TAAAAATTAATTAAATTAGGGTTT-AGTTTTTT
1 T-AAAA-TAATTAAATTAGGGTTTAAGTTTTTT
28386477 TAAAATAATT
1 TAAAATAATT
28386487 TTGTGTTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 5 0.13
31 4 0.10
32 10 0.26
33 4 0.10
34 16 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (31 bp):
TAAAATAATTAAATTAGGGTTTAAGTTTTTT
Found at i:28386608 original size:12 final size:12
Alignment explanation
Indices: 28386591--28386617 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28386581 ACAGTTCTGA
28386591 AAAGATAATGTC
1 AAAGATAATGTC
28386603 AAAGATAATGTC
1 AAAGATAATGTC
28386615 AAA
1 AAA
28386618 ATAGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (12 bp):
AAAGATAATGTC
Found at i:28386733 original size:24 final size:23
Alignment explanation
Indices: 28386677--28386733 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
28386667 AAGAACTTCT
28386677 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
*
28386700 ATTTACTATT-CAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
28386725 ACTTTTATT
1 A-TTTTATT
28386734 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 9 0.31
25 13 0.45
26 3 0.10
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:28398757 original size:12 final size:11
Alignment explanation
Indices: 28398719--28398762 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
28398709 AACAAATTCG
28398719 AAAATAATATT
1 AAAATAATATT
**
28398730 AAGCTGAATATT
1 AAAAT-AATATT
28398742 AAAATAATATT
1 AAAATAATATT
28398753 AAAAATAATA
1 -AAAATAATA
28398763 AATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:28401410 original size:108 final size:109
Alignment explanation
Indices: 28401298--28401552 Score: 282
Period size: 108 Copynumber: 2.3 Consensus size: 109
28401288 TTGAACAATT
* * *
28401298 AATTGTATAATTCAATT-GATTACGTTCGTAATTAGAGAT-AAGCATAAACGAGTAATGTCATTA
1 AATTGTATAATTC-ATTCGATCACGTTCATAATTAAAG-TCAAGCATAAACGAGTAATGTCATTA
* *
28401361 CATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTATTTATC
64 CATTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * ** ** *
28401406 AATTGTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTTACGAGTAATGTCATTATA
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
** * *
28401471 TTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACC
66 TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * * * *
28401515 AATTGTATAATTCCTCCAATTACGTTCATAATAAAAGT
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGT
28401553 TGCGCGTTGA
Statistics
Matches: 122, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
107 4 0.03
108 59 0.48
109 59 0.48
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (109 bp):
AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
Found at i:28401542 original size:109 final size:108
Alignment explanation
Indices: 28401345--28401552 Score: 290
Period size: 109 Copynumber: 1.9 Consensus size: 108
28401335 ATAAGCATAA
* *
28401345 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTATTTATCAATT
1 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
* * * *
28401410 GTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTT
66 GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
* ** * *
28401453 ACGAGTAATGTCATTATATTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACCAAT
1 ACGAGTAATGTCATTACATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTACTTACCAAT
* *
28401518 TGTATAATTCCTCCAATTACGTTCATAATAAAAGT
65 TGTATAATTCATCCAATCACGTTCATAATAAAAGT
28401553 TGCGCGTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 27 0.31
109 59 0.69
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (108 bp):
ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
Found at i:28403484 original size:51 final size:51
Alignment explanation
Indices: 28403427--28403763 Score: 426
Period size: 51 Copynumber: 6.6 Consensus size: 51
28403417 CATATAATAT
* * * *
28403427 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * *
28403478 TATACATAATCAGTACGTACACACTTTGCATAGACAGTTCACACATAGAAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* *
28403529 TTTACATAATCAGTACGCTCACACTTTGCATAGATAGTTCACACATA-AAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * *
28403579 CTTTACATAATCAGTTCGCACGCACTTTGCATGGATAGTTCACACATA-AAA
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * * * *
28403630 CTTTACAAAATCATTATGCACACACTTTGCATGGACAATTCACACATAGAAC
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * *
28403682 TTTACATAATCAGTATGCACATACTTTGCATAGACAGTTCACACATAGGAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
*
28403733 TTTACATAATCAATACGCACACACTTTGCAT
1 TTTACATAATCAGTACGCACACACTTTGCAT
28403764 TGATAGTTAT
Statistics
Matches: 251, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
50 2 0.01
51 247 0.98
52 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (51 bp):
TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
Found at i:28403688 original size:153 final size:153
Alignment explanation
Indices: 28403427--28403771 Score: 476
Period size: 153 Copynumber: 2.3 Consensus size: 153
28403417 CATATAATAT
* * * * *
28403427 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAATATACATAATCAGT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
* * *
28403492 ACGTACACACTTTGCATAGACAGTTCACACATAGAACTTTACATAATCAGTACGCTCACACTTTG
66 ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
*
28403557 CATAGATAGTTCACACATAAAAC
131 CATAGACAGTTCACACATAAAAC
* * * * * *
28403580 TTTACATAATCAGTTCGCACGCACTTTGCATGGATAGTTCACACATA-AAACTTTACAAAATCAT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAA-TATACAAAATCAG
* * * *
28403644 TATGCACACACTTTGCATGGACAATTCACACATAGAACTTTACATAATCAGTATGCACATACTTT
65 TACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTT
**
28403709 GCATAGACAGTTCACACATAGGAC
130 GCATAGACAGTTCACACATAAAAC
*
28403733 TTTACATAATCAATACGCACACACTTTGCATTGATAGTT
1 TTTACATAATCAATACGCACACACTTTGCATAGATAGTT
28403772 ATGTTGGATC
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
152 3 0.02
153 163 0.98
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (153 bp):
TTTACATAATCAATACGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
CATAGACAGTTCACACATAAAAC
Found at i:28403753 original size:27 final size:26
Alignment explanation
Indices: 28403672--28403753 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
28403662 GGACAATTCA
*
28403672 CACATAGAACTTTACATAATCAGTATG
1 CACATAG-ACTTTACATAATCAGTACG
* * *
28403699 CACAT--ACTTTGCATAGA-CAGTTCA
1 CACATAGACTTTACATA-ATCAGTACG
*
28403723 CACATAGGACTTTACATAATCAATACG
1 CACATA-GACTTTACATAATCAGTACG
28403750 CACA
1 CACA
28403754 CACTTTGCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
24 18 0.43
25 1 0.02
26 1 0.02
27 22 0.52
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (26 bp):
CACATAGACTTTACATAATCAGTACG
Found at i:28405475 original size:15 final size:15
Alignment explanation
Indices: 28405455--28405483 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
28405445 GCAGGCTAAG
28405455 TGCCGGTGAACTGAC
1 TGCCGGTGAACTGAC
28405470 TGCCGGTGAACTGA
1 TGCCGGTGAACTGA
28405484 ATCAGGCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (15 bp):
TGCCGGTGAACTGAC
Found at i:28405530 original size:41 final size:41
Alignment explanation
Indices: 28405483--28405602 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
28405473 CGGTGAACTG
28405483 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* * * * *
28405524 AATCAGGTTATAAGCCTAGCAAGCTAAGTGTCGGTGATCTG
1 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
* * *
28405565 AATCAAGCTTTAAGCCTAACAGGGCTAAGTGCCAGTGA
1 AATCAGGCTATAAGCCTAGCA-GGCTAAGTGCCAGTGA
28405603 ATCAGTTTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 53 0.80
42 13 0.20
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (41 bp):
AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATCTA
Found at i:28407187 original size:253 final size:252
Alignment explanation
Indices: 28406715--28407194 Score: 716
Period size: 253 Copynumber: 1.9 Consensus size: 252
28406705 GGGTGTTACA
28406715 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
1 CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
* *
28406780 ATTCATGAATTACATTAATACTTTGTATTATTGTTCTCAAATAATTTTTGTACACAAAGCAAAAT
66 ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAAAT
* * * *
28406845 GAAAGCAAATGTTGCTCAATGGTTGTTTAATGTTTAACTAATATTAAGCAGTATTACGTGATTGG
131 GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
28406910 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
196 ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
* *
28406967 CCTTAAGTGTAGTATGTTT-GTCTAAGTACACTTGTAATTATTTCGAACAGATTGATTAATAAAA
1 CCTTAAGTGTAGTAT-TTTGGTATAAGTACACCTGTAATT-TTTCGAACAGATTGATTAATAAAA
* * * * ** *
28407031 TTATTCATGAATTGCATCAATATTTTGTA-TATTTTTCTCACATGGTTTTTGCACGCAAAGCAAA
64 TTATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAA
* * *
28407095 ATGGAAA-CAAATGTCGTTCACTGGTTGTCTAATGTTTAACTAATTAGTAAGCAGTATTACATGG
129 AT-GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAA-TAGTAAGCAGTATTACATGA
*
28407159 TTGG-TTCGTAATATAGAAAGACAACTTATATTAGTA
192 TTGGATT-GTAATACAGAAAGACAACTTATATTAGTA
28407195 AACAAACGTA
Statistics
Matches: 204, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
252 98 0.48
253 106 0.52
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (252 bp):
CCTTAAGTGTAGTATTTTGGTATAAGTACACCTGTAATTTTTCGAACAGATTGATTAATAAAATT
ATTCATGAATTACATCAATACTTTGTATTATTGTTCTCAAATAATTTTTGCACACAAAGCAAAAT
GAAAGCAAATGTCGCTCAATGGTTGTCTAATGTTTAACTAATAGTAAGCAGTATTACATGATTGG
ATTGTAATACAGAAAGACAACTTATATTAGTAGACGAGTCTAATGTTGGATTTGGTG
Found at i:28410436 original size:21 final size:21
Alignment explanation
Indices: 28410411--28410456 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
28410401 CAAACAAACG
*
28410411 AAAATATTAAAATATTAAAAT
1 AAAATATTAAAAAATTAAAAT
* *
28410432 AAAATTTTAAAAAATTAAATT
1 AAAATATTAAAAAATTAAAAT
28410453 AAAA
1 AAAA
28410457 AATGGCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAAAAAATTAAAAT
Found at i:28431924 original size:9 final size:9
Alignment explanation
Indices: 28431866--28431923 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
28431856 GTAGTGATTC
*
28431866 AATTTGGTT
1 AATTCGGTT
28431875 AATTCGGTT
1 AATTCGGTT
*
28431884 AATTCGGGT
1 AATTCGGTT
*
28431893 AATTCGGGT
1 AATTCGGTT
28431902 AATTCGGTT
1 AATTCGGTT
*
28431911 AATTTGGTT
1 AATTCGGTT
28431920 AATT
1 AATT
28431924 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:28441708 original size:13 final size:13
Alignment explanation
Indices: 28441690--28441719 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
28441680 AGCCCAAACT
28441690 CAATTACCCAACC
1 CAATTACCCAACC
28441703 CAATTACCCAACC
1 CAATTACCCAACC
28441716 CAAT
1 CAAT
28441720 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:28441877 original size:9 final size:9
Alignment explanation
Indices: 28441861--28441899 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
28441851 AATAAAAAAA
28441861 AATT-GGGT
1 AATTCGGGT
28441869 AATTCGGGT
1 AATTCGGGT
*
28441878 AATTCAGGT
1 AATTCGGGT
*
28441887 AATTCGAGT
1 AATTCGGGT
28441896 AATT
1 AATT
28441900 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.36
Consensus pattern (9 bp):
AATTCGGGT
Found at i:28453101 original size:17 final size:17
Alignment explanation
Indices: 28453079--28453115 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
28453069 TGGAACTTAC
28453079 GGTGGTAGGTCAGTTGG
1 GGTGGTAGGTCAGTTGG
28453096 GGTGGTAGGTCAGTTGG
1 GGTGGTAGGTCAGTTGG
28453113 GGT
1 GGT
28453116 TCAAATGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.05, G:0.54, T:0.30
Consensus pattern (17 bp):
GGTGGTAGGTCAGTTGG
Found at i:28461665 original size:41 final size:37
Alignment explanation
Indices: 28461563--28461668 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
28461553 AATTCGAAAT
* **
28461563 AGTAAATTGACACCCTGTGTCTCATCGGTTAAACCGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
* * * * *
28461600 AGTAAGTTGGCACTCAGTGCCTCATTGAATAAACCTGA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACC-GA
28461638 AGTAATAAATTGACACCCAGTGTCTCATCGA
1 AG---TAAATTGACACCCAGTGTCTCATCGA
28461669 CTCGAAGTCG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 27 0.52
38 4 0.08
41 21 0.40
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCGA
Found at i:28465772 original size:34 final size:34
Alignment explanation
Indices: 28465734--28465801 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
28465724 TCAATTGACA
*
28465734 AAGTTGGAAATATCAAATGTCATGGCCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
*
28465768 AAGTTGGAAATATCAAATGCCATGGTCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
28465802 GCAATCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AAGTTGGAAATATCAAATGCCATGGCCTTGACTT
Found at i:28466135 original size:15 final size:15
Alignment explanation
Indices: 28466107--28466142 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
28466097 GAGAAAAAAT
28466107 AAATATAAATTATAA
1 AAATATAAATTATAA
28466122 AAATAGTAAA-TATAA
1 AAATA-TAAATTATAA
28466137 AAATAT
1 AAATAT
28466143 TTTAAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 15 0.75
16 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAATATAAATTATAA
Found at i:28466176 original size:10 final size:11
Alignment explanation
Indices: 28466142--28466168 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
28466132 TATAAAAATA
28466142 TTTTAAAGATT
1 TTTTAAAGATT
28466153 TTTTAAAGATT
1 TTTTAAAGATT
28466164 TTTTA
1 TTTTA
28466169 TAATTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (11 bp):
TTTTAAAGATT
Found at i:28466360 original size:29 final size:30
Alignment explanation
Indices: 28466312--28466390 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
28466302 ATATTTAATT
* * *
28466312 TTGAAAAGTTGAATGACTAAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAATAGAAAAAA
*
28466342 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACT-AAATAGAAAAAA
28466372 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
28466391 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.30
30 15 0.35
31 15 0.35
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
TTGAATAGTTGAGTGACTAAATAGAAAAAA
Found at i:28466382 original size:31 final size:31
Alignment explanation
Indices: 28466312--28466390 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
28466302 ATATTTAATT
* * *
28466312 TTGAAAAGTTGAATGACT-AAATCGAAAAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
*
28466342 TT-AATAGTTGAGTGACTAAAATAGAACAAA
1 TTGAATAGTTGAGTGACTAAAATAGAAAAAA
28466372 TTGAATAGTTGAGTGACTA
1 TTGAATAGTTGAGTGACTA
28466391 TTCTTGTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 13 0.30
30 14 0.33
31 16 0.37
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (31 bp):
TTGAATAGTTGAGTGACTAAAATAGAAAAAA
Found at i:28476646 original size:25 final size:25
Alignment explanation
Indices: 28476612--28476665 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
28476602 ATTCAGCGGT
* *
28476612 GTTTCTAGAGGTTCTTCTTTTAGGG
1 GTTTCTAGAGGTTCTTCTTCTAGGC
28476637 GTTTCTAGAGGTTCTTCTTCTAGGC
1 GTTTCTAGAGGTTCTTCTTCTAGGC
28476662 GTTT
1 GTTT
28476666 TTGGTTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (25 bp):
GTTTCTAGAGGTTCTTCTTCTAGGC
Found at i:28476717 original size:3 final size:3
Alignment explanation
Indices: 28476709--28476734 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
28476699 AATCTATCCT
28476709 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
28476735 TAACTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:28479044 original size:103 final size:101
Alignment explanation
Indices: 28478911--28479137 Score: 391
Period size: 103 Copynumber: 2.2 Consensus size: 101
28478901 TTGCATATAA
** *
28478911 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCATATTT
28478976 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAA-GGGGTTGCTAAGTGCTGATT-CCCCG
* *
28479014 AGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCATATTT
28479079 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
28479115 AGGGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC
28479138 ACCGCATCTG
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 28 0.24
102 20 0.17
103 71 0.60
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAATGCTGATTCCACCATATTT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:28479162 original size:68 final size:69
Alignment explanation
Indices: 28479014--28479206 Score: 226
Period size: 68 Copynumber: 2.7 Consensus size: 69
28479004 GATTCCCCCG
* * * * *
28479014 AGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAATGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTAATTCCCC----CA-AGG-GGTTGCTAAGTGCTGATTCCACCGCATCT
*
28479079 TAAATGTGAA
60 GAAATGTGAA
* *
28479089 AGGGGTTGCTAAGTGCTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATG
1 AGGGGTTGCTAAGTGCTAATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATG
28479153 TGAA
66 TGAA
* **
28479157 GGGGGTTGCTAAGTGCTAATTCCCCCAAGGGGTTGCTGTGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTAATTCCCCCAAGGGGTTGCTAAGTGCTGATTCC
28479207 CCGATTCATT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
68 54 0.51
69 27 0.25
70 1 0.01
74 3 0.03
75 21 0.20
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (69 bp):
AGGGGTTGCTAAGTGCTAATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATG
TGAA
Found at i:28483923 original size:24 final size:24
Alignment explanation
Indices: 28483895--28483941 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
28483885 ATATTTATGA
28483895 AATATTAA-AAATTTTTAATAATAT
1 AATA-TAATAAATTTTTAATAATAT
* *
28483919 AATATAATATATTTTTATTAATA
1 AATATAATAAATTTTTAATAATA
28483942 CACACAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATAATAAATTTTTAATAATAT
Found at i:28496865 original size:61 final size:64
Alignment explanation
Indices: 28496757--28496877 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 64
28496747 TCAATTTTTA
* * ** *
28496757 TTAGATATTATAATTATTTAACTTTATTTTTTTACTTAATTAATATTTAGATAC-CATTTATAC
1 TTAGATATTATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTTATAC
28496820 TTAGATATTGA-AATT-TTTAAATTT-TATTTTTACCAAATTAATATTTAAATACTCATTT
1 TTAGATATT-ATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTT
28496878 GTATTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 24 0.47
62 13 0.25
63 13 0.25
64 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (64 bp):
TTAGATATTATAATTATTTAAATTTATATTTTTACCAAATTAATATTTAAATACTCATTTATAC
Found at i:28500919 original size:30 final size:31
Alignment explanation
Indices: 28500880--28500939 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
28500870 GGAGGTGGGA
*
28500880 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGAGGAAAAG
*
28500911 TGGG-AGGGAGTAAAAATTTTGGAGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGAGGAAAA
28500940 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGAGGAAAAG
Found at i:28501167 original size:9 final size:9
Alignment explanation
Indices: 28501153--28501189 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
28501143 TATAGTTTGA
28501153 TATTCGAAT
1 TATTCGAAT
28501162 TATTCGAAT
1 TATTCGAAT
*
28501171 TATTCGAGT
1 TATTCGAAT
28501180 TATTCGAAT
1 TATTCGAAT
28501189 T
1 T
28501190 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:28501259 original size:9 final size:9
Alignment explanation
Indices: 28501242--28501272 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
28501232 TCGAGTTGAT
28501242 TCGAATAAC
1 TCGAATAAC
*
28501251 TCGATTAAC
1 TCGAATAAC
28501260 TCGAATAAC
1 TCGAATAAC
28501269 TCGA
1 TCGA
28501273 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:28503982 original size:25 final size:25
Alignment explanation
Indices: 28503954--28504015 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
28503944 TACAATACAG
* * *
28503954 CACAAGGGTTTTTCACAAGATTAGA
1 CACAAAGGCTTTTCACAAGAATAGA
* *
28503979 CACAAAGGCTTTTCATAAGAATAGC
1 CACAAAGGCTTTTCACAAGAATAGA
28504004 CACAAAGGCTTT
1 CACAAAGGCTTT
28504016 CCATATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (25 bp):
CACAAAGGCTTTTCACAAGAATAGA
Found at i:28504020 original size:25 final size:25
Alignment explanation
Indices: 28503970--28504143 Score: 120
Period size: 25 Copynumber: 7.0 Consensus size: 25
28503960 GGTTTTTCAC
* * *
28503970 AAGATTAGACACAAAGGCTTTTCAT
1 AAGAATAGCCACAAAGGCTTTCCAT
28503995 AAGAATAGCCACAAAGGCTTTCCAT
1 AAGAATAGCCACAAAGGCTTTCCAT
* ** *
28504020 -ATAATATGCCACAAAGAATTTCCAG
1 AAGAATA-GCCACAAAGGCTTTCCAT
* * **
28504045 AA-AATACACCACAAAAGCTTTTGAT
1 AAGAATA-GCCACAAAGGCTTTCCAT
*
28504070 AAGATTAGCCACAAAGGCTTTCCA-
1 AAGAATAGCCACAAAGGCTTTCCAT
* * * *
28504094 GATAATATGCCAAAAAGGCTTTTCAT
1 AAGAATA-GCCACAAAGGCTTTCCAT
* * * *
28504120 AAGATTATCCATAAAGGTTTTCCA
1 AAGAATAGCCACAAAGGCTTTCCA
28504144 GATAATCCTT
Statistics
Matches: 112, Mismatches: 32, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
24 9 0.08
25 95 0.85
26 8 0.07
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (25 bp):
AAGAATAGCCACAAAGGCTTTCCAT
Found at i:28504146 original size:50 final size:50
Alignment explanation
Indices: 28503963--28504149 Score: 157
Period size: 50 Copynumber: 3.7 Consensus size: 50
28503953 GCACAAGGGT
* * * * * * *
28503963 TTTTCACAAGATTAGACACAAAGGCTTTTCATAAGAATA-GCCACAAAGGC
1 TTTTCATAAGATTAGCCACAAAGGCTTTCCA-GATAATACACCACAAAAGC
* ** *
28504013 TTTCCATATA-A-TATGCCACAAAGAATTTCCAGAAAATACACCACAAAAGC
1 TTTTCATA-AGATTA-GCCACAAAGGCTTTCCAGATAATACACCACAAAAGC
* **
28504063 TTTTGATAAGATTAGCCACAAAGGCTTTCCAGATAATATGCCA-AAAAGGC
1 TTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACACCACAAAA-GC
* * *
28504113 TTTTCATAAGATTATCCATAAAGGTTTTCCAGATAAT
1 TTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAAT
28504150 CCTTTTTTAC
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 12 0.11
50 95 0.86
51 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (50 bp):
TTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACACCACAAAAGC
Found at i:28517060 original size:25 final size:25
Alignment explanation
Indices: 28516949--28517143 Score: 95
Period size: 25 Copynumber: 7.9 Consensus size: 25
28516939 CATAAGATTA
* **
28516949 GCCACAAAGGCTTCCCCGATAATAC
1 GCCACAAAGGCTTTCTAGATAATAC
*
28516974 GCCACAACA-GCTTTCTAGATAATAT
1 GCCACAA-AGGCTTTCTAGATAATAC
* **
28516999 GTCAC-AAGTTTTTCATAAGAT--TA-
1 GCCACAAAGGCTTTC-T-AGATAATAC
* *
28517022 GCCATAAAAGCTTTCTAGATAATAC
1 GCCACAAAGGCTTTCTAGATAATAC
*
28517047 GTCACAAAGGCTTTTCATAAGAT--TA-
1 GCCACAAAGGC-TTTC-T-AGATAATAC
* * *
28517072 ACCACAAA-GTTTTCTAGATAATAT
1 GCCACAAAGGCTTTCTAGATAATAC
* * * *
28517096 GCCACAAAGGTTTTTTATAAAATTA-
1 GCCACAAAGGCTTTCTAGATAA-TAC
*
28517121 GCCACAAAGGCTTTCCAGATAAT
1 GCCACAAAGGCTTTCTAGATAAT
28517144 TCATTTTTAC
Statistics
Matches: 127, Mismatches: 27, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
21 4 0.03
22 5 0.04
23 11 0.09
24 24 0.19
25 65 0.51
26 13 0.10
27 1 0.01
28 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (25 bp):
GCCACAAAGGCTTTCTAGATAATAC
Found at i:28517102 original size:49 final size:49
Alignment explanation
Indices: 28516974--28517143 Score: 218
Period size: 49 Copynumber: 3.4 Consensus size: 49
28516964 CCGATAATAC
28516974 GCCACAACAGCTTTCTAGATAATATGTCAC-AA-GTTTTTCATAAGATTA
1 GCCACAA-AGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
* * *
28517022 GCCATAAAAGCTTTCTAGATAATACGTCACAAAGGCTTTTCATAAGATTA
1 GCCA-CAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
* * * * *
28517072 ACCACAAAGTTTTCTAGATAATATGCCACAAAGGTTTTTTATAAAATTA
1 GCCACAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
*
28517121 GCCACAAAGGCTTTCCAGATAAT
1 GCCACAAA-GCTTTCTAGATAAT
28517144 TCATTTTTAC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 25 0.24
49 49 0.47
50 30 0.29
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (49 bp):
GCCACAAAGCTTTCTAGATAATATGTCACAAAGGTTTTTCATAAGATTA
Found at i:28517144 original size:25 final size:26
Alignment explanation
Indices: 28516911--28517144 Score: 70
Period size: 25 Copynumber: 9.5 Consensus size: 26
28516901 TACCACAGGT
* *
28516911 TTTCCAGACAA-TACGCCATAAA-GC
1 TTTCCAGATAATTACGCCACAAAGGC
* *
28516935 TTTTCATA-AGATTA-GCCACAAAGGC
1 TTTCCAGATA-ATTACGCCACAAAGGC
* *
28516960 TTCCCCGATAA-TACGCCACAACA-GC
1 TTTCCAGATAATTACGCCACAA-AGGC
* * * *
28516985 TTTCTAGATAA-TATGTCAC-AA-GT
1 TTTCCAGATAATTACGCCACAAAGGC
* * * *
28517008 TTTTCATA-AGATTA-GCCATAAAAGC
1 TTTCCAGATA-ATTACGCCACAAAGGC
* *
28517033 TTTCTAGATAA-TACGTCACAAAGGC
1 TTTCCAGATAATTACGCCACAAAGGC
* * * *
28517058 TTTTCATA-AGATTA-ACCACAAA-GT
1 TTTCCAGATA-ATTACGCCACAAAGGC
* * *
28517082 TTTCTAGATAA-TATGCCACAAAGGT
1 TTTCCAGATAATTACGCCACAAAGGC
** * *
28517107 TTTTTATAAAATTA-GCCACAAAGGC
1 TTTCCAGATAATTACGCCACAAAGGC
28517132 TTTCCAGATAATT
1 TTTCCAGATAATT
28517145 CATTTTTACT
Statistics
Matches: 149, Mismatches: 43, Indels: 35
0.66 0.19 0.15
Matches are distributed among these distances:
22 1 0.01
23 14 0.09
24 38 0.26
25 89 0.60
26 7 0.05
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (26 bp):
TTTCCAGATAATTACGCCACAAAGGC
Found at i:28519157 original size:16 final size:16
Alignment explanation
Indices: 28519115--28519159 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
28519105 AACTAAAGCC
*
28519115 TTGTTCTGAAC-ATAG
1 TTGTTCTGAACAATAA
*
28519130 TTATTCTCGAACAATAA
1 TTGTTCT-GAACAATAA
28519147 TTGTTCTGAACAA
1 TTGTTCTGAACAA
28519160 CAACAATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (16 bp):
TTGTTCTGAACAATAA
Found at i:28521044 original size:18 final size:17
Alignment explanation
Indices: 28521011--28521043 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
28521001 TAAAATTAAA
28521011 AATAAAAATCCTAAAAC
1 AATAAAAATCCTAAAAC
28521028 AATAATAAAT-CTAAAA
1 AATAA-AAATCCTAAAA
28521044 AAAAAGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAATCCTAAAAC
Found at i:28521170 original size:7 final size:7
Alignment explanation
Indices: 28521158--28521187 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
28521148 AAATTATAAA
28521158 AATTATT
1 AATTATT
28521165 AATTATT
1 AATTATT
28521172 AATTATT
1 AATTATT
28521179 AATTATT
1 AATTATT
28521186 AA
1 AA
28521188 AAATTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTATT
Found at i:28524941 original size:24 final size:25
Alignment explanation
Indices: 28524914--28525004 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 25
28524904 AAGCTTAAAA
28524914 ATATATATAT-TAAAAAAAATGCAT
1 ATATATATATATAAAAAAAATGCAT
*
28524938 ATATAT-TATATATAAAAATATG--T
1 ATATATATATATA-AAAAAAATGCAT
* * *
28524961 GTATGTACTATATGAAAAAAATGCAT
1 ATATATA-TATATAAAAAAAATGCAT
*
28524987 ATATATATTATGTAAAAA
1 ATATATA-TATATAAAAA
28525005 CCATGCGTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
23 8 0.16
24 16 0.31
25 13 0.25
26 14 0.27
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (25 bp):
ATATATATATATAAAAAAAATGCAT
Found at i:28524947 original size:25 final size:24
Alignment explanation
Indices: 28524914--28524992 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 24
28524904 AAGCTTAAAA
28524914 ATATATA-TAT-TAAAAAAAATGC
1 ATATATATTATATAAAAAAAATGC
* *
28524936 ATATATATTATATATAAAAATATGT
1 ATATATATTATATA-AAAAAAATGC
* * * *
28524961 GTATGTACTATATGAAAAAAATGC
1 ATATATATTATATAAAAAAAATGC
28524985 ATATATAT
1 ATATATAT
28524993 ATTATGTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
22 7 0.16
23 3 0.07
24 15 0.35
25 18 0.42
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (24 bp):
ATATATATTATATAAAAAAAATGC
Done.