Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 12 of 295
Found at i:3775663 original size:16 final size:16
Alignment explanation
Indices: 3775638--3775689 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
3775628 AGTGAATTGG
3775638 AAAT-AAAAATATATT
1 AAATAAAAAATATATT
3775653 AAATAAAAAATA-ATTT
1 AAATAAAAAATATA-TT
*
3775669 ATTAATAAAATATATATT
1 A--AATAAAAAATATATT
3775687 AAA
1 AAA
3775690 ATGATTTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
18 13 0.42
19 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAAAAAATATATT
Found at i:3785139 original size:10 final size:10
Alignment explanation
Indices: 3785115--3785260 Score: 56
Period size: 10 Copynumber: 14.7 Consensus size: 10
3785105 TATATATTTG
3785115 ATTTTT-TAA
1 ATTTTTATAA
3785124 ATTTTTTATAA
1 A-TTTTTATAA
*
3785135 ATTTTTAAAA
1 ATTTTTATAA
* *
3785145 ATTATTA-GA
1 ATTTTTATAA
*
3785154 A--TTTATAT
1 ATTTTTATAA
*
3785162 ATTATTTATAT
1 ATT-TTTATAA
3785173 ATTTTTATAAA
1 ATTTTTAT-AA
*
3785184 AATTTTA-AA
1 ATTTTTATAA
**
3785193 TATATTTTATTG
1 -AT-TTTTATAA
*
3785205 A-TTTGATAA
1 ATTTTTATAA
3785214 ATTTTTA-ATA
1 ATTTTTATA-A
* *
3785224 ATTTAT-TAG
1 ATTTTTATAA
*
3785233 ATTTTTTTATA
1 ATTTTTATA-A
3785244 ATTTTTATAA
1 ATTTTTATAA
*
3785254 GTTTTTA
1 ATTTTTA
3785261 AGATTTTTTT
Statistics
Matches: 101, Mismatches: 21, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 17 0.17
10 45 0.45
11 35 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:3785247 original size:30 final size:30
Alignment explanation
Indices: 3785213--3785270 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
3785203 TGATTTGATA
3785213 AATTTTTAATAA-TTTATT-AGATTTTTTTAT
1 AATTTTT-ATAAGTTT-TTAAGATTTTTTTAT
3785243 AATTTTTATAAGTTTTTAAGATTTTTTT
1 AATTTTTATAAGTTTTTAAGATTTTTTT
3785271 TTATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (30 bp):
AATTTTTATAAGTTTTTAAGATTTTTTTAT
Found at i:3785312 original size:93 final size:95
Alignment explanation
Indices: 3785174--3785350 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 95
3785164 TATTTATATA
** * *
3785174 TTTTTATAAAAATTTTAAATATATTTTATTGATTTGATAAATTTTTAATA-AT-TTATTAGATTT
1 TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATATATATTATTA-AATT
**
3785237 TTTTATAATTTTTATAAGTTTTTAAGATTTT
65 TTTTATAATACTTATAAGTTTTTAAGATTTT
* * * *
3785268 TTTTTAT-AAAATTTTAAATAT-GCTTAGTTAATTTTATTATTTTTTAATATATATTTTTAAATT
1 TTTTTATAAAAATTTTAAATATAGCTTA-TTAATTTGATAAATTTTTAATATATATTATTAAATT
3785331 TTTTATAATACTTATAAGTT
65 TTTTATAATACTTATAAGTT
3785351 ATTATTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 3 0.04
93 32 0.46
94 30 0.43
95 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (95 bp):
TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATATATATTATTAAATTT
TTTATAATACTTATAAGTTTTTAAGATTTT
Found at i:3785362 original size:94 final size:94
Alignment explanation
Indices: 3785174--3785354 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 94
3785164 TATTTATATA
** * *
3785174 TTTTTATAAAAATTTTAAATATATTTTATTGATTTGATAAATTTTTAATAATTTATTAGATTTTT
1 TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATAATTTATTAGAATTTT
** *
3785239 TTATAATTTTTATAAGTTTTTAAGATTTT
66 TTATAATACTTATAAGTTATTAAGATTTT
* * * *
3785268 TTTTTAT-AAAATTTTAAATAT-GCTTAGTTAATTTTATTATTTTTTAATATATATTTTTA-AAT
1 TTTTTATAAAAATTTTAAATATAGCTTA-TTAATTTGATAAATTTTTAATA-AT-TTATTAGAAT
3785330 TTTTTATAATACTTATAAGTTATTA
63 TTTTTATAATACTTATAAGTTATTA
3785355 TTATTTTTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 3 0.04
93 32 0.44
94 33 0.45
95 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (94 bp):
TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATAATTTATTAGAATTTT
TTATAATACTTATAAGTTATTAAGATTTT
Found at i:3785364 original size:9 final size:9
Alignment explanation
Indices: 3785315--3785427 Score: 54
Period size: 9 Copynumber: 12.1 Consensus size: 9
3785305 TATTTTTTAA
3785315 TATATATTTT
1 TATA-ATTTT
3785325 TA-AATTTTT
1 TATAA-TTTT
**
3785334 TATAATACT
1 TATAATTTT
*
3785343 TATAAGTTAT
1 TATAA-TTTT
*
3785353 TATTATTTT
1 TATAATTTT
3785362 TATAATTTT
1 TATAATTTT
3785371 TATAAGTTTAT
1 TATAA-TTT-T
*
3785382 T-CAATTTT
1 TATAATTTT
*
3785390 AATACA--TT
1 TATA-ATTTT
3785398 TATAATTTT
1 TATAATTTT
* *
3785407 TTTTATTTT
1 TATAATTTT
3785416 TAAATAATTTT
1 T--ATAATTTT
3785427 T
1 T
3785428 TATGACTCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
7 1 0.01
8 7 0.09
9 44 0.57
10 16 0.21
11 9 0.12
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:3785425 original size:27 final size:27
Alignment explanation
Indices: 3785342--3785425 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
3785332 TTTATAATAC
*
3785342 TTATAAG-TTATTATTATTTTTATAAT-TT
1 TTATAAGTTTA-T-TTATTTTTA-AATAAT
* *
3785370 TTATAAGTTTATTCAATTTT-AATACAT
1 TTATAAGTTTATTTATTTTTAAATA-AT
* *
3785397 TTATAATTTTTTTTATTTTTAAATAAT
1 TTATAAGTTTATTTATTTTTAAATAAT
3785424 TT
1 TT
3785426 TTTATGACTC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
25 3 0.07
27 27 0.60
28 12 0.27
29 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTATAAGTTTATTTATTTTTAAATAAT
Found at i:3791439 original size:26 final size:25
Alignment explanation
Indices: 3791402--3791450 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
3791392 AGTTATAAAT
3791402 ATTTTAATTTTGAATATAATAATTC
1 ATTTTAATTTTGAATATAATAATTC
*
3791427 ATTTTATATTTTGAATTTAATAAT
1 ATTTTA-ATTTTGAATATAATAAT
3791451 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTAATTTTGAATATAATAATTC
Found at i:3791458 original size:26 final size:25
Alignment explanation
Indices: 3791396--3791464 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
3791386 TTTTCAAGTT
3791396 ATAA-ATATTTTAATTTTGAATATA
1 ATAATATATTTTAATTTTGAATATA
*
3791420 ATAAT-TCATTTTATATTTTGAATTTA
1 ATAATAT-ATTTTA-ATTTTGAATATA
* *
3791446 ATAATATAATTTAAATTTG
1 ATAATATATTTTAATTTTG
3791465 TCTTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.13
25 11 0.29
26 21 0.55
27 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
ATAATATATTTTAATTTTGAATATA
Found at i:3794635 original size:14 final size:12
Alignment explanation
Indices: 3794585--3794630 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
3794575 ATATACATAC
3794585 TTATATATATTT
1 TTATATATATTT
*
3794597 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
3794612 TTATATATATTT
1 TTATATATATTT
3794624 TTATATA
1 TTATATA
3794631 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:3796960 original size:19 final size:20
Alignment explanation
Indices: 3796920--3796963 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
3796910 GTCTCTTTAG
* *
3796920 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
3796939 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
3796958 GCATTA
1 GCATTA
3796964 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:3801900 original size:44 final size:43
Alignment explanation
Indices: 3801620--3802070 Score: 252
Period size: 44 Copynumber: 10.5 Consensus size: 43
3801610 ATTATACAGG
* *** * *
3801620 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* * * *
3801666 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
3801710 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
3801749 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* *** * *
3801790 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
3801836 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
3801880 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * **
3801923 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGCAGAGA
* * **
3801967 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* *
3802010 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAGAGA
* *
3802049 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
3802071 CAGAGTAGAT
Statistics
Matches: 314, Mismatches: 67, Indels: 55
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.01
39 44 0.14
40 1 0.00
41 28 0.09
42 12 0.04
43 59 0.19
44 99 0.32
45 7 0.02
46 61 0.19
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:3801930 original size:87 final size:83
Alignment explanation
Indices: 3801790--3802082 Score: 356
Period size: 87 Copynumber: 3.4 Consensus size: 83
3801780 TCACATCAGG
* * * * * * *
3801790 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TATCCTATCTCCCTGAAGTT
*
3801854 ACAGTGGAGCAGATTGAAGCCAGAGA
62 ACAGTGGAGCGGATT-AA---AGAGA
3801880 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
3801945 TGGAGCGGATTAAAATAAGAGA
66 TGGAGCGGATT---A-AAGAGA
3801967 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
3802032 TGGAGCGGATTAAAG-GA
66 TGGAGCGGATTAAAGAGA
* * * *
3802049 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
3802083 CATCAAGTCT
Statistics
Matches: 186, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
82 32 0.17
83 3 0.02
84 1 0.01
87 112 0.60
88 1 0.01
89 1 0.01
90 35 0.19
91 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (83 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAGAGA
Found at i:3803857 original size:14 final size:12
Alignment explanation
Indices: 3803807--3803852 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
3803797 ATATACATAC
3803807 TTATATATATTT
1 TTATATATATTT
*
3803819 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
3803834 TTATATATATTT
1 TTATATATATTT
3803846 TTATATA
1 TTATATA
3803853 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:3806166 original size:107 final size:107
Alignment explanation
Indices: 3805980--3806197 Score: 427
Period size: 107 Copynumber: 2.0 Consensus size: 107
3805970 AAAAGGTAAC
3805980 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
3806045 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
3806087 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
*
3806152 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAGAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
3806194 TTAT
1 TTAT
3806198 AACATATGTA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (107 bp):
TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
Found at i:3815722 original size:10 final size:10
Alignment explanation
Indices: 3815704--3815737 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
3815694 CATGTAATGC
*
3815704 ATGTGATTTT
1 ATGTAATTTT
3815714 ATGTAATTTT
1 ATGTAATTTT
3815724 ATGTAATTTT
1 ATGTAATTTT
3815734 ATGT
1 ATGT
3815738 GTTTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (10 bp):
ATGTAATTTT
Found at i:3815778 original size:27 final size:27
Alignment explanation
Indices: 3815747--3815804 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
3815737 TGTTTAATTT
*
3815747 TTAATTTAA-TAA-ATAATTATAAAGTAA
1 TTAATTAAAGTAATATAATT-TAAA-TAA
*
3815774 TTAATTAAAGTAATATTATTTAAATAA
1 TTAATTAAAGTAATATAATTTAAATAA
3815801 TTAA
1 TTAA
3815805 ATATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 15 0.56
28 7 0.26
29 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
TTAATTAAAGTAATATAATTTAAATAA
Found at i:3815780 original size:15 final size:14
Alignment explanation
Indices: 3815747--3815804 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 14
3815737 TGTTTAATTT
3815747 TTAATTT-AA-TAA
1 TTAATTTAAAGTAA
*
3815759 ATAATTATAAAGTAA
1 TTAATT-TAAAGTAA
3815774 TTAA-TTAAAGTAA
1 TTAATTTAAAGTAA
*
3815787 TATTATTTAAA-TAA
1 T-TAATTTAAAGTAA
3815801 TTAA
1 TTAA
3815805 ATATAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
12 5 0.14
13 12 0.32
14 9 0.24
15 11 0.30
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
TTAATTTAAAGTAA
Found at i:3822061 original size:74 final size:74
Alignment explanation
Indices: 3821983--3822136 Score: 168
Period size: 74 Copynumber: 2.1 Consensus size: 74
3821973 AAGTTCTATT
* * * * * * * *
3821983 TATCACATTCTAATGAATC-CTTCATACCTTTATGCTACCATAAGTCCCAAC-AAGACCCACTTG
1 TATCACATCCTAATAAATCTCTCCATA-CTTAATGCCACCACAAGTCCC-ACTAAAACCCACTCG
*
3822046 TAGGTCTCATC
64 GAGGTCTCATC
** *
3822057 TATCACATCCTAATAAATCTCTCCATACTTAATGCCATTACGAGTCCCACTAAAACCCACTCGGA
1 TATCACATCCTAATAAATCTCTCCATACTTAATGCCACCACAAGTCCCACTAAAACCCACTCGGA
3822122 GGTCTCATC
66 GGTCTCATC
3822131 TATCAC
1 TATCAC
3822137 GTCATAGTGA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
73 2 0.03
74 58 0.88
75 6 0.09
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (74 bp):
TATCACATCCTAATAAATCTCTCCATACTTAATGCCACCACAAGTCCCACTAAAACCCACTCGGA
GGTCTCATC
Found at i:3831256 original size:22 final size:22
Alignment explanation
Indices: 3831231--3831300 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
3831221 ACATAATAGT
* *
3831231 GAAAACAACAAGAAAGTAGCGA
1 GAAAACAACAAGAAAATAGCAA
3831253 GAAAACAACAAGAAAATAGCAA
1 GAAAACAACAAGAAAATAGCAA
* ** *
3831275 CAAAACAGTAA-AAAATAGTAA
1 GAAAACAACAAGAAAATAGCAA
3831296 GAAAA
1 GAAAA
3831301 TAGGAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 13 0.32
22 28 0.68
ACGTcount: A:0.66, C:0.11, G:0.16, T:0.07
Consensus pattern (22 bp):
GAAAACAACAAGAAAATAGCAA
Found at i:3831291 original size:21 final size:22
Alignment explanation
Indices: 3831265--3831315 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
3831255 AAACAACAAG
*
3831265 AAAATAGCAACAAAACA-GTAA
1 AAAATAGCAACAAAACAGGAAA
* * *
3831286 AAAATAGTAAGAAAATAGGAAA
1 AAAATAGCAACAAAACAGGAAA
3831308 AAAATAGC
1 AAAATAGC
3831316 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.67, C:0.08, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAATAGCAACAAAACAGGAAA
Found at i:3841308 original size:21 final size:21
Alignment explanation
Indices: 3841283--3841324 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3841273 TATTTTTTAA
* *
3841283 TTTAAATTTTAAATCCTGAAC
1 TTTAAATATTAAATACTGAAC
*
3841304 TTTAAATATTAGATACTGAAC
1 TTTAAATATTAAATACTGAAC
3841325 CTGAACACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTAAATATTAAATACTGAAC
Found at i:3841909 original size:13 final size:13
Alignment explanation
Indices: 3841885--3841928 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
3841875 TAATACAAAA
3841885 AAAATT-AATTTT
1 AAAATTGAATTTT
*
3841897 AAAGTTGAATTTT
1 AAAATTGAATTTT
3841910 AAAATTGAATTTT
1 AAAATTGAATTTT
3841923 AAAATT
1 AAAATT
3841929 TCAAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 5 0.17
13 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAAATTGAATTTT
Found at i:3854849 original size:21 final size:19
Alignment explanation
Indices: 3854806--3854851 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3854796 AAATAAAAAT
*
3854806 AAAAATATAAAAAATTTAG
1 AAAAATATAAAAAATCTAG
* *
3854825 AAATATATATAAAATCTAG
1 AAAAATATAAAAAATCTAG
3854844 AAAAATAT
1 AAAAATAT
3854852 GAATTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAAAATCTAG
Found at i:3856543 original size:132 final size:132
Alignment explanation
Indices: 3856383--3856646 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
3856373 TTACTGATTT
3856383 TGGTATTTGACTTGCATTATTTGAATGGTATACTGCGGTGCTTTAGGTTATTTTAGGTTGTTTTA
1 TGGTATTTGACTTGCATTATTTGAATGGTATACTGCGGTGCTTTAGGTTATTTTAGGTTGTTTTA
3856448 CTTGAGATCTGTTGTCTGGAATAAGTATTGTGTGAAAGGAAATGGGTTTAAACTAAAAGTTTGGT
66 CTTGAGATCTGTTGTCTGGAATAAGTATTGTGTGAAAGGAAATGGGTTTAAACTAAAAGTTTGGT
3856513 TC
131 TC
3856515 TGGTATTTGACTTGCATTATTTGAATGGTATACTGCGGTGCTTTAGGTTATTTTAGGTTGTTTTA
1 TGGTATTTGACTTGCATTATTTGAATGGTATACTGCGGTGCTTTAGGTTATTTTAGGTTGTTTTA
3856580 CTTGAGATCTGTTGTCTGGAATAAGTATTGTGTGAAAGGAAATGGGTTTAAACTAAAAGTTTGGT
66 CTTGAGATCTGTTGTCTGGAATAAGTATTGTGTGAAAGGAAATGGGTTTAAACTAAAAGTTTGGT
3856645 TC
131 TC
3856647 GATGTCGGTC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (132 bp):
TGGTATTTGACTTGCATTATTTGAATGGTATACTGCGGTGCTTTAGGTTATTTTAGGTTGTTTTA
CTTGAGATCTGTTGTCTGGAATAAGTATTGTGTGAAAGGAAATGGGTTTAAACTAAAAGTTTGGT
TC
Found at i:3862600 original size:21 final size:20
Alignment explanation
Indices: 3862560--3862602 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
3862550 AATTTTATTG
*
3862560 TTTTATATTTAACTATTTAA
1 TTTTATATTTAACTAATTAA
*
3862580 TTTTATATTTTAATTAATTAA
1 TTTTATA-TTTAACTAATTAA
3862601 TT
1 TT
3862603 AATTGAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATATTTAACTAATTAA
Found at i:3863201 original size:19 final size:19
Alignment explanation
Indices: 3863163--3863203 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3863153 TTTGAGTTTT
*
3863163 TTTATATATATTTTTCTAG
1 TTTATATATATTCTTCTAG
3863182 TTTATTATATATTCTT-TAG
1 TTTA-TATATATTCTTCTAG
3863201 TTT
1 TTT
3863204 TTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATATATTCTTCTAG
Found at i:3863214 original size:22 final size:22
Alignment explanation
Indices: 3863157--3863214 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
3863147 TAGGATTTTG
*
3863157 AGTTTTTTTATATATATTTTTCT
1 AGTTTTTTTAT-TATATTCTTCT
*
3863180 AG-TTTATTA-TATATTCTT-T
1 AGTTTTTTTATTATATTCTTCT
3863199 AGTTTTTTTTATTATA
1 AG-TTTTTTTATTATA
3863215 AAATTTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 3 0.10
20 8 0.28
21 6 0.21
22 10 0.34
23 2 0.07
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (22 bp):
AGTTTTTTTATTATATTCTTCT
Found at i:3863712 original size:19 final size:18
Alignment explanation
Indices: 3863676--3863718 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
3863666 ATTTAGGAGG
*
3863676 GAATTGAGAGAAATTTGA
1 GAATTGAGAGAAAGTTGA
*
3863694 GAATATGAGAGAGAGTTGA
1 GAAT-TGAGAGAAAGTTGA
3863713 G-ATTGA
1 GAATTGA
3863719 ATTGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
GAATTGAGAGAAAGTTGA
Found at i:3867328 original size:53 final size:52
Alignment explanation
Indices: 3867209--3867412 Score: 233
Period size: 52 Copynumber: 4.0 Consensus size: 52
3867199 TCACATATCA
* * * * * *
3867209 CACATCGAAGCCATAGCCCTGCCATGGTCTTACAC-GGATCACATAT-A-AT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
* *
3867258 ---ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACAT
* *
3867308 CACACCGACGCCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
* *
3867360 TACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGCACACATATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
3867412 C
1 C
3867413 TTTTCCGTCA
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
46 28 0.22
47 4 0.03
48 3 0.02
49 1 0.01
50 2 0.02
52 56 0.43
53 32 0.25
54 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (52 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
Found at i:3872979 original size:14 final size:15
Alignment explanation
Indices: 3872942--3872980 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
3872932 AATTCAGTTT
3872942 TTAAATTTTCAATAC
1 TTAAATTTTCAATAC
*
3872957 TTAAATTTTCAGTAC
1 TTAAATTTTCAATAC
3872972 TT-AATTTTC
1 TTAAATTTTC
3872981 TGCATGGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAAATTTTCAATAC
Found at i:3883421 original size:24 final size:24
Alignment explanation
Indices: 3883394--3883468 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
3883384 TAGAATCAAG
3883394 ATTAAATTGATACAATGTATAAAT
1 ATTAAATTGATACAATGTATAAAT
* *** * * *
3883418 ATTAAATT-TTTTTA-GAATCAAG
1 ATTAAATTGATACAATGTATAAAT
*
3883440 ATTAAACTGATACAATGTATAAAT
1 ATTAAATTGATACAATGTATAAAT
3883464 ATTAA
1 ATTAA
3883469 GGGTTAAAAT
Statistics
Matches: 34, Mismatches: 15, Indels: 4
0.64 0.28 0.08
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 18 0.53
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (24 bp):
ATTAAATTGATACAATGTATAAAT
Found at i:3883443 original size:46 final size:46
Alignment explanation
Indices: 3883376--3883468 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
3883366 ATTGAGGGTT
*
3883376 AATTTTTTTAGAATCAAGATTAAATTGATACAATGTATAAATATTA
1 AATTTTTTTAGAATCAAGATTAAACTGATACAATGTATAAATATTA
3883422 AATTTTTTTAGAATCAAGATTAAACTGATACAATGTATAAATATTA
1 AATTTTTTTAGAATCAAGATTAAACTGATACAATGTATAAATATTA
3883468 A
1 A
3883469 GGGTTAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (46 bp):
AATTTTTTTAGAATCAAGATTAAACTGATACAATGTATAAATATTA
Found at i:3889460 original size:28 final size:28
Alignment explanation
Indices: 3889407--3889461 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
3889397 AACGAATCTT
* * *
3889407 ATTATTTAACTAGTAAACGAAGTATAAG
1 ATTATTTAACTAATAAACAAAATATAAG
3889435 ATTATTTAACTACATAAA-AAAATATAA
1 ATTATTTAACTA-ATAAACAAAATATAA
3889462 TAACTTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (28 bp):
ATTATTTAACTAATAAACAAAATATAAG
Found at i:3892805 original size:21 final size:21
Alignment explanation
Indices: 3892781--3892823 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3892771 TGTTACATAT
*
3892781 GATATTAGTAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
3892802 GATATTAATAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
3892823 G
1 G
3892824 TTGTCCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GATATTAATAGTGCAGACTTA
Found at i:3894301 original size:17 final size:17
Alignment explanation
Indices: 3894273--3894311 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
3894263 AATTTTATTT
3894273 ATTTTATTAATTAAATTA
1 ATTTTATTAATT-AATTA
3894291 ATTTT-TTAATTAATTA
1 ATTTTATTAATTAATTA
3894307 ATTTT
1 ATTTT
3894312 CTCAACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 6 0.29
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTAATTAATTA
Found at i:3894446 original size:23 final size:23
Alignment explanation
Indices: 3894420--3894467 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3894410 TGATAAAAGC
3894420 TAATTCCATTTCAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
* *
3894443 TAATTCCGTTTTAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
3894466 TA
1 TA
3894468 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (23 bp):
TAATTCCATTTCAGAACTTTAAT
Found at i:3898635 original size:23 final size:23
Alignment explanation
Indices: 3898601--3898644 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
3898591 TGATTGAATA
* *
3898601 TGAATATGAAATTAACTTAAATG
1 TGAATATGAAATAAAATTAAATG
3898624 TGAAT-TGTAAATAAAATTAAA
1 TGAATATG-AAATAAAATTAAA
3898645 ATTTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (23 bp):
TGAATATGAAATAAAATTAAATG
Found at i:3901847 original size:24 final size:23
Alignment explanation
Indices: 3901815--3901861 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3901805 TAGGTCTTCC
3901815 AATATTATTGGTT-TTTATTTTAA
1 AATATTATT-GTTATTTATTTTAA
*
3901838 AATATATATTTTTATTTATTTTAA
1 AATAT-TATTGTTATTTATTTTAA
3901862 TATTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
AATATTATTGTTATTTATTTTAA
Found at i:3902005 original size:22 final size:21
Alignment explanation
Indices: 3901980--3902031 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
3901970 TATGTGTTAT
*
3901980 AAATTATATAATATAATATATA
1 AAATTACATAATATAATATA-A
*
3902002 AAATAACATAATATAATATAA
1 AAATTACATAATATAATATAA
3902023 AACATTACA
1 AA-ATTACA
3902032 AACTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTACATAATATAATATAA
Found at i:3909546 original size:23 final size:23
Alignment explanation
Indices: 3909517--3909574 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
3909507 TTTATTTTTA
3909517 TATAAAATATATAAAAATATATTT
1 TATAAAATA-ATAAAAATATATTT
* *
3909541 T-TAAAATAAT-ATAATTTATTT
1 TATAAAATAATAAAAATATATTT
3909562 TATAAAATAATAA
1 TATAAAATAATAA
3909575 TATTTTAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 8 0.27
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAAAATAATAAAAATATATTT
Found at i:3909579 original size:22 final size:22
Alignment explanation
Indices: 3909509--3909579 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
3909499 CGCTTATTTT
*
3909509 TATTT-TTATATAAAATATATAAA
1 TATTTATTTTATAAAATA-AT-AA
* *
3909532 AATATATTTT-TAAAATAAT-A
1 TATTTATTTTATAAAATAATAA
3909552 TAATTTATTTTATAAAATAATAA
1 T-ATTTATTTTATAAAATAATAA
3909575 TATTT
1 TATTT
3909580 TAGTCATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.03
21 8 0.21
22 15 0.38
23 12 0.31
24 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTATTTTATAAAATAATAA
Found at i:3914769 original size:18 final size:18
Alignment explanation
Indices: 3914746--3914838 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3914736 CCCAACTACT
*
3914746 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
3914764 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
3914782 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* *
3914800 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
3914818 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3914836 GTA
1 GTA
3914839 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3914798 original size:36 final size:36
Alignment explanation
Indices: 3914746--3914838 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
3914736 CCCAACTACT
* *
3914746 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
* *
3914782 GTATACGTAAATAGTACTGTATACATGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
3914818 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
3914839 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCC
Found at i:3915947 original size:22 final size:21
Alignment explanation
Indices: 3915894--3915953 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
3915884 TAGATAGATG
3915894 AAATTCTT-AAAAATAAAACT
1 AAATTCTTAAAAAATAAAACT
*
3915914 AAATGT-TCAAAAAATAATAA-T
1 AAAT-TCTTAAAAAATAA-AACT
3915935 AAATTCTTAAAAACATAAA
1 AAATTCTTAAAAA-ATAAA
3915954 TTCTTCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 6 0.18
21 21 0.64
22 6 0.18
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATTCTTAAAAAATAAAACT
Found at i:3917123 original size:109 final size:109
Alignment explanation
Indices: 3916987--3917193 Score: 344
Period size: 109 Copynumber: 1.9 Consensus size: 109
3916977 TAAATTCAAT
*
3916987 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
3917052 TTTCCAAACGCAAAACATTGCCTTATTTTGAAAAGTTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTGGAAAAGTTTTTTAAA
* * *
3917096 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCTAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
3917160 ATTTCCAAACGCAAAATATTGCCTTATTTGGAAA
65 ATTTCCAAACGCAAAACATTGCCTTATTTGGAAA
3917194 TATTCCCCTT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 1 0.01
109 90 0.99
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTGGAAAAGTTTTTTAAA
Found at i:3917831 original size:18 final size:18
Alignment explanation
Indices: 3917810--3917871 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
3917800 ATATATAGAT
3917810 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
3917828 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
3917847 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
3917862 ATA-ATAATAA
1 ATATATAATAA
3917872 TAGGACAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:3917862 original size:35 final size:33
Alignment explanation
Indices: 3917807--3917871 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
3917797 GGGATATATA
3917807 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
3917842 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
3917872 TAGGACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:3919809 original size:88 final size:87
Alignment explanation
Indices: 3919700--3920356 Score: 800
Period size: 88 Copynumber: 7.5 Consensus size: 87
3919690 ATCTTCAGTT
* * * *
3919700 TGCTCCGCTGTCAATACAGGAAGGCAAGATCTGTTATCTTTCACCTGCTCGA-CTACAACCGAGG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATC-TTCACCTGCTCCATC-ACAACCGAGA
* *
3919764 GAGGCAAGGCTTGTGTCTTCGATT
64 GAGGCAAGGTTTGTGTCTTCGATC
* * * * * * *
3919788 TGCTTCGCTATCAATGTAGGAAGGCAAGATCTGCTATTTTTACCTGCTCGA-CTACAACCGAGGG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCACCTGCTCCATC-ACAACCGAGAG
* *
3919852 AGGCAAGGCTTGTGTCTTCGATT
65 AGGCAAGGTTTGTGTCTTCGATC
* * * * * * *
3919875 TGCTTCGCTATCAATGTAGGAAGGCAAGATCTGCTATTTTTTTACCTGCTCC-CCTACAACCAAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG-T-TATCTTCACCTGCTCCATC-ACAACCGAG
*
3919939 GGAGGCAAGGTTTGTGTCTTCGATC
63 AGAGGCAAGGTTTGTGTCTTCGATC
* * * * *
3919964 TGCTTCACTGTCAATGCAGGAAGACAAGATCTGTTATCTTCAACCAGATCCATCATAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3920029 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * *
3920052 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAATCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3920117 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * * * *
3920140 TGCTTCGCTGTCAATGCAGGAAGGTAAGAACTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3920205 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * *
3920228 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCATCATAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCACCT-GCTCCATCACAACCGAGAG
3920293 AGGCAAGGTTTGTGTCTTCGATC
65 AGGCAAGGTTTGTGTCTTCGATC
* *
3920316 TGCTTCGCTGTCAATGTAGGAAGGCAAGATCT-TTGTCTTCA
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCA
3920357 TTGATCTGTC
Statistics
Matches: 518, Mismatches: 45, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
87 96 0.19
88 345 0.67
89 77 0.15
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (87 bp):
TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCACCTGCTCCATCACAACCGAGAGA
GGCAAGGTTTGTGTCTTCGATC
Found at i:3919813 original size:44 final size:44
Alignment explanation
Indices: 3919765--3919902 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
3919755 CAACCGAGGG
3919765 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
1 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
* * ** ** * *
3919809 AGGCAA-GATCTGCTAT-TTTTACCTGC-TCGACTA-CAACCG-AGGG
1 AGGCAAGGCT-TG-TGTCTTCGATTTGCTTCG-CTATCAA-TGTAGGA
3919852 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
1 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
3919896 AGGCAAG
1 AGGCAAG
3919903 ATCTGCTATT
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
42 2 0.03
43 29 0.42
44 36 0.52
45 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
Found at i:3919858 original size:43 final size:43
Alignment explanation
Indices: 3919721--3919858 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
3919711 CAATACAGGA
3919721 AGGCAAGATCTGTTATCTTTCACCTGCTCGACTACAACCGAGGG
1 AGGCAAGATCTG-TATCTTTCACCTGCTCGACTACAACCGAGGG
* * ** * *
3919765 AGGCAAG-GCTTGTGTC-TTCGATTTGCTTCG-CTATCAA-TGTAGGA
1 AGGCAAGATC-TGTATCTTTC-ACCTGC-TCGACTA-CAACCG-AGGG
*
3919809 AGGCAAGATCTGCTAT-TTTTACCTGCTCGACTACAACCGAGGG
1 AGGCAAGATCTG-TATCTTTCACCTGCTCGACTACAACCGAGGG
3919852 AGGCAAG
1 AGGCAAG
3919859 GCTTGTGTCT
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
42 3 0.04
43 28 0.39
44 35 0.49
45 5 0.07
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (43 bp):
AGGCAAGATCTGTATCTTTCACCTGCTCGACTACAACCGAGGG
Found at i:3925178 original size:19 final size:20
Alignment explanation
Indices: 3925149--3925197 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
3925139 CACTTCGTGA
* *
3925149 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
3925168 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
3925188 AAATG-AATGC
1 AAATGTAATGC
3925198 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:3926769 original size:110 final size:110
Alignment explanation
Indices: 3926574--3926776 Score: 354
Period size: 110 Copynumber: 1.8 Consensus size: 110
3926564 TAAATTCAAT
*
3926574 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
3926639 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
* *
3926684 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
3926748 ATTTCCAAACGCAAAATATTGCCTTATTT
65 ATTTCCAAACGCAAAACATTGCCTTATTT
3926777 GGAAATATTC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.01
110 87 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (110 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
Found at i:3927425 original size:18 final size:18
Alignment explanation
Indices: 3927404--3927465 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
3927394 ATATATAGAT
3927404 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
3927422 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
3927441 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
3927456 ATA-ATAATAA
1 ATATATAATAA
3927466 TAGGACAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:3927456 original size:35 final size:33
Alignment explanation
Indices: 3927401--3927465 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
3927391 GGGATATATA
3927401 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
3927436 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
3927466 TAGGACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:3929402 original size:88 final size:87
Alignment explanation
Indices: 3929293--3929951 Score: 793
Period size: 88 Copynumber: 7.5 Consensus size: 87
3929283 ATCTTCAGTT
* * * *
3929293 TGCTCCGCTGTCAATACAGGAAGGCAAGATCTGTTATCTTTCACCTGCTCGA-CTACAACCGAGG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATC-TTCACCTGCTCCATC-ACAACCGAGA
* *
3929357 GAGGCAAGGCTTGTGTCTTCGATT
64 GAGGCAAGGTTTGTGTCTTCGATC
* * * * * * *
3929381 TGCTTCGCTATCAATGTAGGAAGGCAAGATCTGCTATTTTTTACCTGCTCGA-CTACAACCGAGG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTA-TCTTCACCTGCTCCATC-ACAACCGAGA
* *
3929445 GAGGCAAGGCTTGTGTCTTCGATT
64 GAGGCAAGGTTTGTGTCTTCGATC
* * * * * * *
3929469 TGCTTCGCTATCAATGTAGGAAGGCAAGATCTGCTATTTTTTTACCTGCTCC-CCTACAACCAAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG-T-TATCTTCACCTGCTCCATC-ACAACCGAG
*
3929533 GGAGGCAAGGTTTGTGTCTTCGATC
63 AGAGGCAAGGTTTGTGTCTTCGATC
* * * * *
3929558 TGCTTCACTGTCAATGCAGGAAGACAAGATCTGTTATCTTCAACCAGATCCATCATAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3929623 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * *
3929646 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAATCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3929711 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * * * *
3929734 TGCTTCGCTGTCAATGCAGGAAGGTAAGAACTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTC-ACCTGCTCCATCACAACCGAGAG
*
3929799 AGGCAAGGTTTGTGTCTTCGACC
65 AGGCAAGGTTTGTGTCTTCGATC
* * *
3929822 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCATCATAACCGAGAG
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCACCT-GCTCCATCACAACCGAGAG
3929887 AGGCAAGGTTTGTGTCTTCGATC
65 AGGCAAGGTTTGTGTCTTCGATC
* * *
3929910 TGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCA
1 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCA
3929952 TTGATCTGTC
Statistics
Matches: 518, Mismatches: 46, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
87 6 0.01
88 434 0.84
89 77 0.15
90 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (87 bp):
TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCACCTGCTCCATCACAACCGAGAGA
GGCAAGGTTTGTGTCTTCGATC
Found at i:3929406 original size:44 final size:44
Alignment explanation
Indices: 3929358--3929496 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
3929348 CAACCGAGGG
3929358 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
1 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
* * * ** ** * *
3929402 AGGCAA-GATCTGCTATTTTTTACCTGC-TCGACTA-CAACCG-AGGG
1 AGGCAAGGCT-TG-TGTCTTCGATTTGCTTCG-CTATCAA-TGTAGGA
3929446 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
1 AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
3929490 AGGCAAG
1 AGGCAAG
3929497 ATCTGCTATT
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
43 14 0.20
44 41 0.59
45 14 0.20
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTCGATTTGCTTCGCTATCAATGTAGGA
Found at i:3934773 original size:19 final size:20
Alignment explanation
Indices: 3934744--3934792 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
3934734 CACTTCGTGA
* *
3934744 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
3934763 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
3934783 AAATG-AATGC
1 AAATGTAATGC
3934793 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:3936363 original size:110 final size:110
Alignment explanation
Indices: 3936168--3936370 Score: 354
Period size: 110 Copynumber: 1.8 Consensus size: 110
3936158 TAAATTCAAT
*
3936168 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
3936233 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
* *
3936278 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
3936342 ATTTCCAAACGCAAAATATTGCCTTATTT
65 ATTTCCAAACGCAAAACATTGCCTTATTT
3936371 GGAAATATTC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.01
110 87 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (110 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
Found at i:3937018 original size:18 final size:18
Alignment explanation
Indices: 3936997--3937058 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
3936987 ATATATAGAT
3936997 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
3937015 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
3937034 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
3937049 ATA-ATAATAA
1 ATATATAATAA
3937059 TAGGACAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:3937049 original size:35 final size:33
Alignment explanation
Indices: 3936994--3937058 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
3936984 GGGATATATA
3936994 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
3937029 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
3937059 TAGGACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:3939337 original size:183 final size:183
Alignment explanation
Indices: 3939029--3939396 Score: 736
Period size: 183 Copynumber: 2.0 Consensus size: 183
3939019 TTTCTCTCAA
3939029 ACTGATACTTATGGTTTTTTTCCCCAAGTTAGTACTTGAATTTTCAATTCGTCAAAAGTTCTAAT
1 ACTGATACTTATGGTTTTTTTCCCCAAGTTAGTACTTGAATTTTCAATTCGTCAAAAGTTCTAAT
3939094 ACTTTATTGTAACGGTATTAAAATTAGACACGTGTCATTTTTAGATTACGAGACGTGGTAACAAT
66 ACTTTATTGTAACGGTATTAAAATTAGACACGTGTCATTTTTAGATTACGAGACGTGGTAACAAT
3939159 GACATCATAATGATGGCATACTTCAATTTTAGATTGAATGATGATACATATAC
131 GACATCATAATGATGGCATACTTCAATTTTAGATTGAATGATGATACATATAC
3939212 ACTGATACTTATGGTTTTTTTCCCCAAGTTAGTACTTGAATTTTCAATTCGTCAAAAGTTCTAAT
1 ACTGATACTTATGGTTTTTTTCCCCAAGTTAGTACTTGAATTTTCAATTCGTCAAAAGTTCTAAT
3939277 ACTTTATTGTAACGGTATTAAAATTAGACACGTGTCATTTTTAGATTACGAGACGTGGTAACAAT
66 ACTTTATTGTAACGGTATTAAAATTAGACACGTGTCATTTTTAGATTACGAGACGTGGTAACAAT
3939342 GACATCATAATGATGGCATACTTCAATTTTAGATTGAATGATGATACATATAC
131 GACATCATAATGATGGCATACTTCAATTTTAGATTGAATGATGATACATATAC
3939395 AC
1 AC
3939397 ATAATGAACA
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (183 bp):
ACTGATACTTATGGTTTTTTTCCCCAAGTTAGTACTTGAATTTTCAATTCGTCAAAAGTTCTAAT
ACTTTATTGTAACGGTATTAAAATTAGACACGTGTCATTTTTAGATTACGAGACGTGGTAACAAT
GACATCATAATGATGGCATACTTCAATTTTAGATTGAATGATGATACATATAC
Found at i:3940056 original size:14 final size:15
Alignment explanation
Indices: 3940024--3940056 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3940014 TTAAGAATAT
3940024 TTATAATTTTAAGAA
1 TTATAATTTTAAGAA
*
3940039 TTATTATTTTAA-AA
1 TTATAATTTTAAGAA
3940053 TTAT
1 TTAT
3940057 GATTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTTTAAGAA
Found at i:3949884 original size:25 final size:25
Alignment explanation
Indices: 3949854--3949904 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3949844 CACAAAAGAC
3949854 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
3949879 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
3949904 A
1 A
3949905 CTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (25 bp):
ATAATAATGAAGTATTGTGAAATGA
Found at i:3951348 original size:40 final size:40
Alignment explanation
Indices: 3951301--3951432 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
3951291 TTTTCAGGTT
* * *
3951301 AAATCCTATCCACCTTAAGTTACTGTAGTGAATCAGGAAT
1 AAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAAC
* * * *
3951341 AAATCCTATTCACTTTAAATTACCATAATGAATCAGGAAC
1 AAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAAC
* * * *
3951381 AAATCCTATCTACTTTGAGGTATTATAGTGAATCAGGAAC
1 AAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAAC
*
3951421 GAATCCTATCCA
1 AAATCCTATCCA
3951433 AATTATATTC
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (40 bp):
AAATCCTATCCACTTTAAGTTACTATAGTGAATCAGGAAC
Found at i:3952761 original size:40 final size:39
Alignment explanation
Indices: 3952669--3952763 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
3952659 ACCAACTCCG
* * *
3952669 TCCAACCCAACACACC-ATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
* * * * *
3952707 CCCATCCTTGCACACCAAATATAGGGATAATATCGACCCA
1 TCCAACCCTACACACC-AATATAGGGATAAAATCGACCCA
3952747 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
3952764 TAAGGTATCG
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
38 11 0.26
39 1 0.02
40 31 0.72
ACGTcount: A:0.36, C:0.37, G:0.12, T:0.16
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
Found at i:3954744 original size:29 final size:29
Alignment explanation
Indices: 3954691--3954746 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
3954681 AAAATCATAT
*
3954691 TTTTACAAATTTTCATTTTGACCCCAAAC
1 TTTTACAAATTTGCATTTTGACCCCAAAC
*
3954720 TTTTACATATTTGCACTTTTG-CCCCAA
1 TTTTACAAATTTGCA-TTTTGACCCCAA
3954747 TGCTCGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (29 bp):
TTTTACAAATTTGCATTTTGACCCCAAAC
Found at i:3954860 original size:20 final size:18
Alignment explanation
Indices: 3954826--3954862 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
3954816 GCAACTCATA
3954826 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
3954844 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
3954863 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:3957609 original size:46 final size:46
Alignment explanation
Indices: 3957534--3957990 Score: 713
Period size: 46 Copynumber: 10.0 Consensus size: 46
3957524 TTATCTTTGA
* * * * * * *
3957534 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
3957580 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
3957626 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
3957672 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** *
3957718 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
3957763 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
3957809 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
3957855 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
3957901 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-AT
3957947 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
3957991 TTCAGAGAGC
Statistics
Matches: 382, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
45 46 0.12
46 335 0.88
47 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:3957917 original size:229 final size:229
Alignment explanation
Indices: 3957539--3957980 Score: 735
Period size: 229 Copynumber: 1.9 Consensus size: 229
3957529 TTTGACATGA
* * * * *
3957539 TGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAAC
*** *
3957604 CATGGTCTTGTTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCA
*
3957669 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTC-ATATCATGTTGCCATGGTA
131 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTA-ATCATGTTGCCATGGTA
3957733 TCTTTCAACCATGGTCTTATTCTTTCATGTCACGT
195 TCTTTCAACCATGGTCTTATTCTTTCATGTCACGT
*
3957768 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATCTTTCAA
*
3957832 CCATGGTCTTACACATTTCATATCATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTC
*
3957897 ATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAATCATGTTGCCATGGTA
130 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAATCATGTTGCCATGGTA
3957962 TCTTTCAACCATGGTCTTA
195 TCTTTCAACCATGGTCTTA
3957981 CACATTTCAT
Statistics
Matches: 198, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
228 4 0.02
229 193 0.97
230 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (229 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAATCATGTTGCCATGGTAT
CTTTCAACCATGGTCTTATTCTTTCATGTCACGT
Found at i:3960141 original size:3 final size:3
Alignment explanation
Indices: 3960127--3960175 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
3960117 TTTTATACTA
*
3960127 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3960170 AA- AAT A
1 AAT AAT A
3960176 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3960149 original size:11 final size:11
Alignment explanation
Indices: 3960133--3960171 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
3960123 ACTAAATAAT
3960133 TAATAATAAAA
1 TAATAATAAAA
*
3960144 TAATAATGAAA
1 TAATAATAAAA
3960155 TAATAATAAAA
1 TAATAATAAAA
3960166 TAATAA
1 TAATAA
3960172 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:3960158 original size:19 final size:19
Alignment explanation
Indices: 3960134--3960175 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3960124 CTAAATAATT
*
3960134 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
3960153 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
3960172 AATA
1 AATA
3960176 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:3960198 original size:20 final size:21
Alignment explanation
Indices: 3960145--3960220 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
3960135 ATAATAAAAT
* *
3960145 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
3960164 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
3960185 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
3960206 TAATCATAAAATATC
1 -AATAATAAAATATC
3960221 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:3965258 original size:18 final size:18
Alignment explanation
Indices: 3965235--3965272 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3965225 GTTGTTATGA
3965235 TTTTATAAATTATATTTT
1 TTTTATAAATTATATTTT
3965253 TTTTATAAATTATATTTT
1 TTTTATAAATTATATTTT
3965271 TT
1 TT
3965273 GGTATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATAAATTATATTTT
Found at i:3965514 original size:7 final size:7
Alignment explanation
Indices: 3965502--3965551 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
3965492 AAAATTTTAA
3965502 TATATTT
1 TATATTT
3965509 TATATTT
1 TATATTT
3965516 TAT-TTT
1 TATATTT
*
3965522 TATTTTT
1 TATATTT
3965529 TATAATTT
1 TAT-ATTT
*
3965537 TA-AGTT
1 TATATTT
3965543 TATGATTT
1 TAT-ATTT
3965551 T
1 T
3965552 TTAATTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
6 11 0.31
7 16 0.44
8 9 0.25
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (7 bp):
TATATTT
Found at i:3965570 original size:16 final size:16
Alignment explanation
Indices: 3965517--3965570 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
3965507 TTTATATTTT
*
3965517 ATTTTTATTTTTTATA
1 ATTTTTAATTTTTATA
*
3965533 A-TTTTAA-GTTTATGA
1 ATTTTTAATTTTTAT-A
*
3965548 TTTTTTAATTTTTATA
1 ATTTTTAATTTTTATA
3965564 ATTTTTA
1 ATTTTTA
3965571 GCTGATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 14 0.47
17 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
ATTTTTAATTTTTATA
Found at i:3967140 original size:11 final size:11
Alignment explanation
Indices: 3967124--3967153 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
3967114 AATCTCACTT
3967124 ACAAAATAGAA
1 ACAAAATAGAA
3967135 ACAAAATAGAA
1 ACAAAATAGAA
3967146 ACAAAATA
1 ACAAAATA
3967154 TAATAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (11 bp):
ACAAAATAGAA
Found at i:3967565 original size:18 final size:17
Alignment explanation
Indices: 3967528--3967570 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
3967518 TAAGCCCCCC
3967528 AAAAAAACCTAACCCAA
1 AAAAAAACCTAACCCAA
**
3967545 AAAAAAACCTAACCCCT
1 AAAAAAACCTAACCCAA
3967562 AAAAAAACC
1 AAAAAAACC
3967571 AAGAAACCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAAACCTAACCCAA
Found at i:3967877 original size:17 final size:17
Alignment explanation
Indices: 3967855--3967893 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
3967845 CCTAAAGATG
*
3967855 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
3967872 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
3967889 ATTTT
1 ATTTT
3967894 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:3967953 original size:13 final size:13
Alignment explanation
Indices: 3967935--3967986 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
3967925 TATATACATC
3967935 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
3967948 ATAATAAAAATAT
1 ATAATAAAAAAAT
* *
3967961 ATATACAAAAAAAA
1 ATA-ATAAAAAAAT
*
3967975 ATATTAAAAAAA
1 ATAATAAAAAAA
3967987 AATTACGCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:3968087 original size:11 final size:11
Alignment explanation
Indices: 3968071--3968104 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
3968061 CCTTTCCCCT
3968071 TCCCTTCTCTC
1 TCCCTTCTCTC
3968082 TCCCTTCTCTC
1 TCCCTTCTCTC
3968093 TTCCC-TCTCTC
1 -TCCCTTCTCTC
3968104 T
1 T
3968105 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 17 0.77
12 4 0.18
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:3968653 original size:11 final size:11
Alignment explanation
Indices: 3968629--3968673 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
3968619 TTCTAATACG
*
3968629 TATATATATAT
1 TATATATATTT
*
3968640 TATATGTATTT
1 TATATATATTT
*
3968651 TATATATATTA
1 TATATATATTT
*
3968662 TGTATATATTT
1 TATATATATTT
3968673 T
1 T
3968674 TTTAATGCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:3976493 original size:20 final size:18
Alignment explanation
Indices: 3976468--3976504 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
3976458 ATTGCTAAGT
3976468 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
3976488 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
3976505 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:3984561 original size:12 final size:12
Alignment explanation
Indices: 3984544--3984570 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3984534 CCTTCTTCTC
3984544 CCCTTTCCCCTT
1 CCCTTTCCCCTT
3984556 CCCTTTCCCCTT
1 CCCTTTCCCCTT
3984568 CCC
1 CCC
3984571 CTTGGGTTGC
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:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:3984866 original size:15 final size:12
Alignment explanation
Indices: 3984831--3984862 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3984821 CGTTCTCACT
*
3984831 AAAATTGGTAAA
1 AAAATCGGTAAA
3984843 AAAATCGGTAAA
1 AAAATCGGTAAA
3984855 AAAATCGG
1 AAAATCGG
3984863 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:3988620 original size:21 final size:21
Alignment explanation
Indices: 3988594--3988646 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3988584 CGCTGTTTCT
*
3988594 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
3988615 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
3988636 AATCTCACCGC
1 AATCTCACCGC
3988647 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:4000176 original size:29 final size:28
Alignment explanation
Indices: 4000139--4000224 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 28
4000129 TCTCCTTAAT
* *
4000139 TTAATTAAATCAAAATTTCGTGTATAAAA
1 TTAAATAAATCAAAATTT-ATGTATAAAA
*
4000168 TTAAATAAAATTAAAATTTATGTATAAAA
1 TTAAAT-AAATCAAAATTTATGTATAAAA
*
4000197 TTATACATTAAATCATAATTTATGTATA
1 TTA-A-A-TAAATCAAAATTTATGTATA
4000225 GTTTTGAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 17 0.35
30 12 0.25
31 18 0.38
32 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (28 bp):
TTAAATAAATCAAAATTTATGTATAAAA
Found at i:4000220 original size:31 final size:29
Alignment explanation
Indices: 4000136--4000224 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
4000126 ATTTCTCCTT
* *
4000136 AATTTAATTAAATCAAAATTTCGTGTATAA
1 AATTAAATTAAATCAAAATTT-ATGTATAA
* *
4000166 AATTAAATAAAATTAAAATTTATGTATAA
1 AATTAAATTAAATCAAAATTTATGTATAA
*
4000195 AATTATACATTAAATCATAATTTATGTATA
1 AATTA-A-ATTAAATCAAAATTTATGTATA
4000225 GTTTTGAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 12 0.24
30 19 0.38
31 19 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
AATTAAATTAAATCAAAATTTATGTATAA
Found at i:4002139 original size:17 final size:17
Alignment explanation
Indices: 4002110--4002143 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4002100 TTGTGGGTTT
4002110 TTTAAAAACTTATTTTA
1 TTTAAAAACTTATTTTA
4002127 TTTATAAAA-TTATTTTA
1 TTTA-AAAACTTATTTTA
4002144 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAAAACTTATTTTA
Found at i:4023250 original size:41 final size:42
Alignment explanation
Indices: 4023139--4023359 Score: 211
Period size: 42 Copynumber: 5.4 Consensus size: 42
4023129 CGTCAGAAGT
* ***
4023139 ATCCTAATTGAGGAG-GATTAAATGAAATTGTAAAAACATAA
1 ATCCTAATTGAGGTGAGATTAAATGAAAAACTAAAAACATAA
* * *
4023180 ATCTTATTTGATGT-AGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGA-GATTAAATGAAAAACTAAAAACATAA
* * *
4023222 ATCCT-ATTGACGTGAGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGAGATTAAATGAAAAACTAAAAACATAA
* * * *
4023263 ATCCTAATTGAGGTGGGATT-AATAAAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGAGATTAAAT-GAAAAACTAAAAACATAA
* * * *
4023305 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAATA-AA
1 ATCCTAATTGAGGTGAGATTAAATGAAAAACTAAAAACATAA
*
4023346 ATCTTAA-TGAGGTG
1 ATCCTAATTGAGGTG
4023360 GGTTGTGGGG
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
40 7 0.05
41 55 0.37
42 85 0.57
43 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (42 bp):
ATCCTAATTGAGGTGAGATTAAATGAAAAACTAAAAACATAA
Found at i:4023282 original size:83 final size:84
Alignment explanation
Indices: 4023139--4023361 Score: 235
Period size: 83 Copynumber: 2.7 Consensus size: 84
4023129 CGTCAGAAGT
* * * *
4023139 ATCCTAATTGA-G-GAGGATTAAATG-AAATTGTAAAAACATAAATCTTATTTGATGTAGGATTA
1 ATCCTAATTGACGTGA-GATTAAATGAAAAAT-TAAAAACATAAATCTTAATTGAGGTGGGATTA
*
4023201 A-ATGAAAAACTAAAAACATAA
64 ATA-AAAAAACTAAAAACATAA
* *
4023222 ATCCT-ATTGACGTGAGATTAAATGAAAAATTAAAAAGATAAATCCTAATTGAGGTGGGATTAAT
1 ATCCTAATTGACGTGAGATTAAATGAAAAATTAAAAACATAAATCTTAATTGAGGTGGGATTAAT
* *
4023286 AAAAAAACTACAAAGATAA
66 AAAAAAACTAAAAACATAA
* * * ** *
4023305 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAATA-AAATCTTAA-TGAGGTGGG
1 ATCCTAATTGACGTGAGATTAAATGAAAAATTAAAAACATAAATCTTAATTGAGGTGGG
4023362 TTGTGGGGCT
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
82 14 0.12
83 70 0.59
84 35 0.29
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.27
Consensus pattern (84 bp):
ATCCTAATTGACGTGAGATTAAATGAAAAATTAAAAACATAAATCTTAATTGAGGTGGGATTAAT
AAAAAAACTAAAAACATAA
Found at i:4025487 original size:23 final size:20
Alignment explanation
Indices: 4025429--4025491 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
4025419 TAATCAGTAT
4025429 ACGACACATAAAGTGCCTAA
1 ACGACACATAAAGTGCCTAA
** *
4025449 ACGACACACGACGTGCCTGAA
1 ACGACACATAAAGTGCCT-AA
4025470 ATGCGACACATAAAGTGCCTAA
1 A--CGACACATAAAGTGCCTAA
4025492 TCGGTAAGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 15 0.44
21 3 0.09
22 2 0.06
23 14 0.41
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (20 bp):
ACGACACATAAAGTGCCTAA
Found at i:4026906 original size:21 final size:20
Alignment explanation
Indices: 4026882--4026921 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4026872 ATCCTCTCTG
*
4026882 TTTCGTTTCATTCTGCTTCTA
1 TTTCCTTTCATT-TGCTTCTA
4026903 TTTCCTTTCATTTGCTTCT
1 TTTCCTTTCATTTGCTTCT
4026922 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTCCTTTCATTTGCTTCTA
Found at i:4026941 original size:5 final size:5
Alignment explanation
Indices: 4026928--4026959 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
4026918 TTCTTTAGTT
4026928 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
4026960 TAAATCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:4026953 original size:15 final size:16
Alignment explanation
Indices: 4026928--4027009 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 16
4026918 TTCTTTAGTT
4026928 TATATATATAATATAA
1 TATATATATAATATAA
4026944 TATA-ATATAATATAA
1 TATATATATAATATAA
* **
4026959 T-TAAATCATAAGTATCTT
1 TATATAT-ATAA-TAT-AA
4026977 TATTATATAATAATATAA
1 TA-TATAT-ATAATATAA
4026995 TA-ATATAATAATATA
1 TATATAT-ATAATATA
4027010 CTAAACATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 2 0.04
15 14 0.26
16 21 0.39
17 3 0.06
18 3 0.06
19 3 0.06
20 8 0.15
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (16 bp):
TATATATATAATATAA
Found at i:4026994 original size:8 final size:8
Alignment explanation
Indices: 4026981--4027009 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4026971 TATCTTTATT
4026981 ATATAATA
1 ATATAATA
4026989 ATATAATA
1 ATATAATA
4026997 ATATAATA
1 ATATAATA
4027005 ATATA
1 ATATA
4027010 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:4031020 original size:21 final size:21
Alignment explanation
Indices: 4030996--4031036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4030986 GTTGCTACCT
*
4030996 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
4031017 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
4031037 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:4036827 original size:5 final size:5
Alignment explanation
Indices: 4036817--4036843 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4036807 AGAAAGAAAG
4036817 AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AA
4036844 ATGAGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:4038239 original size:13 final size:13
Alignment explanation
Indices: 4038218--4038252 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4038208 GATAGTTTGG
4038218 TATGAATTTATATA
1 TATG-ATTTATATA
*
4038232 TATGATTTATATG
1 TATGATTTATATA
4038245 TATGATTT
1 TATGATTT
4038253 GATAATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (13 bp):
TATGATTTATATA
Found at i:4039987 original size:19 final size:19
Alignment explanation
Indices: 4039963--4040002 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4039953 ATTAATTTTG
4039963 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
4039982 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
4040001 AT
1 AT
4040003 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:4048891 original size:14 final size:15
Alignment explanation
Indices: 4048854--4048895 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
4048844 AAATTATTTT
4048854 TTATATAAAATA-AA
1 TTATATAAAATATAA
* *
4048868 TTTTAAAAAATATAA
1 TTATATAAAATATAA
4048883 -TATATAAAATATA
1 TTATATAAAATATA
4048896 CTAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATATAAAATATAA
Found at i:4059419 original size:5 final size:5
Alignment explanation
Indices: 4059409--4059433 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4059399 TTTCTTATAC
4059409 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
4059434 TTTTGGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:4065444 original size:10 final size:10
Alignment explanation
Indices: 4065421--4065476 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
4065411 TTCTAGACTT
*
4065421 TTTTTATTAA
1 TTTTTAATAA
4065431 -TTTTAATAA
1 TTTTTAATAA
* *
4065440 TTTTTAACAT
1 TTTTTAATAA
*
4065450 TTTTTTATAA
1 TTTTTAATAA
* *
4065460 TTCTTAGTAA
1 TTTTTAATAA
4065470 TTTTTAA
1 TTTTTAA
4065477 ATAAATTTAT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:4065455 original size:30 final size:30
Alignment explanation
Indices: 4065419--4065476 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
4065409 CATTCTAGAC
4065419 TTTTTTTATTAATT-TTAATAATTTTTAACA
1 TTTTTTTA-TAATTCTTAATAATTTTTAACA
*
4065449 TTTTTTTATAATTCTTAGTAATTTTTAA
1 TTTTTTTATAATTCTTAATAATTTTTAA
4065477 ATAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTTTTATAATTCTTAATAATTTTTAACA
Found at i:4071766 original size:17 final size:18
Alignment explanation
Indices: 4071740--4071784 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4071730 ACAGAATTAG
*
4071740 AATTTGATT-GAAAAAAT
1 AATTTAATTGGAAAAAAT
*
4071757 AATTTAATTGGAAAAATT
1 AATTTAATTGGAAAAAAT
4071775 AATTTGAATT
1 AATTT-AATT
4071785 AATTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
AATTTAATTGGAAAAAAT
Found at i:4074040 original size:17 final size:18
Alignment explanation
Indices: 4074006--4074042 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4073996 TATTTTGTTG
4074006 TAGTTTTTGCTTCAAATT
1 TAGTTTTTGCTTCAAATT
*
4074024 TAGTTTTTG-TTCCAATT
1 TAGTTTTTGCTTCAAATT
4074041 TA
1 TA
4074043 ATCCCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TAGTTTTTGCTTCAAATT
Found at i:4074455 original size:26 final size:26
Alignment explanation
Indices: 4074388--4074467 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
4074378 TTTAAACGGT
* *
4074388 TTTTATACATTATTTATTTCAAATTTCTC
1 TTTTATATATTATTTATTTTAAA---CTC
* *
4074417 TTTTACATGTTATTTATTTTAAACTC
1 TTTTATATATTATTTATTTTAAACTC
4074443 TTTTATATATTATTTATTTTAAACT
1 TTTTATATATTATTTATTTTAAACT
4074468 ATTTCATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.58
29 19 0.42
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAACTC
Found at i:4074478 original size:30 final size:29
Alignment explanation
Indices: 4074388--4074489 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 29
4074378 TTTAAACGGT
* *
4074388 TTTTATACATTATTTATTTCAAA-TTTCTC
1 TTTTATATATTATTTATTTTAAACTTT-TC
* *
4074417 TTTTACATGTTATTTATTTTAAAC---TC
1 TTTTATATATTATTTATTTTAAACTTTTC
4074443 TTTTATATATTATTTATTTTAAACTATTTC
1 TTTTATATATTATTTATTTTAAACT-TTTC
* * *
4074473 ATTTATTTATTTTTTAT
1 TTTTATATATTATTTAT
4074490 ATACTACCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
26 24 0.41
29 19 0.32
30 16 0.27
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTATATATTATTTATTTTAAACTTTTC
Found at i:4077209 original size:42 final size:43
Alignment explanation
Indices: 4077134--4077216 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
4077124 GAATTGAGTA
* **
4077134 CTTCGTTTACTCGATGTCATAGTTCAACAATGGTCTTACACAT
1 CTTCATTTACTCGATGTCATAGCCCAACAATGGTCTTACACAT
* *
4077177 CTTCATTTA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATTTACTCGATGTCATAGCCCAACAATGGTCTTACAC
4077217 GAATCACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (43 bp):
CTTCATTTACTCGATGTCATAGCCCAACAATGGTCTTACACAT
Found at i:4077256 original size:46 final size:47
Alignment explanation
Indices: 4077193--4077306 Score: 126
Period size: 47 Copynumber: 2.4 Consensus size: 47
4077183 TTATCGATGT
* * * *
4077193 CATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCA-A-TGATAC
1 CATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCATACCGATAC
* * *
4077239 CATATCCCAGATATGGTCTTATACAGTAGCATATATCATACCGATGC
1 CATATCCCAGATATGGTCTTACACAATAGCATATATCATACCGATAC
4077286 CATATCCCAGATATGGTCTTA
1 CATATCCCAGATATGGTCTTA
4077307 TACGGAAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 1 0.02
45 10 0.17
46 22 0.38
47 25 0.43
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (47 bp):
CATATCCCAGATATGGTCTTACACAATAGCATATATCATACCGATAC
Found at i:4077363 original size:31 final size:31
Alignment explanation
Indices: 4077328--4077538 Score: 289
Period size: 31 Copynumber: 6.8 Consensus size: 31
4077318 CTTGTCACTT
* *
4077328 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4077359 GTAG-CTAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* * * *
4077390 GTAGTCGGAGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4077421 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4077452 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
4077483 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4077514 GTAGCCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4077539 TGTCATTTGT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 2 0.01
31 159 0.98
32 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4077612 original size:50 final size:51
Alignment explanation
Indices: 4077514--4077642 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
4077504 CACTGATCAG
* * * * *
4077514 GTAGCCGAAACTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
4077565 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
4077615 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4077643 TGCTATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:4087921 original size:53 final size:53
Alignment explanation
Indices: 4087856--4087958 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
4087846 TCTATGCCTA
* *
4087856 ATCCAGCCGAGCTTCCTATTGGAACTAAGTATTCTCATATCTACCACCCCAAT
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAT
*
4087909 ATCCAACCGAGCTTCCTATTGAAATTAAGTATTCTCATATCTACCACCCC
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCC
4087959 GAAGTATTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (53 bp):
ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAT
Found at i:4091621 original size:34 final size:34
Alignment explanation
Indices: 4091583--4091651 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4091573 TAAAATACTC
*
4091583 AAGGAAGTGAGATTCTTTCGTAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4091617 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4091651 A
1 A
4091652 CCTGACATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (34 bp):
AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
Found at i:4095588 original size:46 final size:47
Alignment explanation
Indices: 4095527--4095645 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 47
4095517 CTTCACATAA
* * * *
4095527 TGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * *
4095573 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* *
4095620 CGATGACATATCCCAGATATGGTCTT
1 TGATGCCATATCCCAGATATGGTCTT
4095646 GTACGAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 27 0.43
47 36 0.57
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:4095731 original size:31 final size:31
Alignment explanation
Indices: 4095668--4095846 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
4095658 CTTGTCACTT
* * *
4095668 GTAGCCGAAGCTACCACTATTCA-TAATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
4095698 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG
4095729 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
4095760 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
4095791 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
4095822 GTAGCCGAAGTTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
4095847 TGTCATTTGT
Statistics
Matches: 141, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
30 20 0.14
31 121 0.86
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:4095995 original size:50 final size:50
Alignment explanation
Indices: 4095822--4096003 Score: 240
Period size: 55 Copynumber: 3.5 Consensus size: 50
4095812 CACTGATCAG
* * * *
4095822 GTAGCCGAAGTTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
* *
4095873 ATAGCCGAAGCTATCACTTATCACTTTCACTTTCCCTTGATCAGATAAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATC-----AGATAAGT
4095928 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
4095978 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
4096004 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
50 44 0.38
51 25 0.21
55 48 0.41
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:4102543 original size:18 final size:18
Alignment explanation
Indices: 4102520--4102557 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4102510 TGAAAAAAAT
**
4102520 AATTTTAATTTTTTTTAA
1 AATTTTAAGGTTTTTTAA
4102538 AATTTTAAGGTTTTTTAA
1 AATTTTAAGGTTTTTTAA
4102556 AA
1 AA
4102558 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTAAGGTTTTTTAA
Found at i:4102553 original size:19 final size:18
Alignment explanation
Indices: 4102520--4102559 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4102510 TGAAAAAAAT
* *
4102520 AATTTTAATTTTTTTTAA
1 AATTTTAAGTTTTTTAAA
4102538 AATTTTAAGGTTTTTTAAA
1 AATTTTAA-GTTTTTTAAA
4102557 AAT
1 AAT
4102560 ATTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTTTAAGTTTTTTAAA
Done.