Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 97 of 100
Found at i:19215686 original size:51 final size:51
Alignment explanation
Indices: 19215379--19215762 Score: 250
Period size: 51 Copynumber: 7.5 Consensus size: 51
19215369 CTCCTCTTAG
* * * * * * *
19215379 CAGAGACTCAATAA-TTTTAAAAT-TTTTATC-TGAAAAAGCTCCTCTCAG
1 CAGAGGCTCAACAACTTTAAAAATCTCTTATCTTGGAAAAGCTCATCTCAA
* * ** * * *
19215427 TAGAAGCTCAGTAACTTTAAGAATCT-TTCATCTTGGAAAAGCTCTTCTCAG
1 CAGAGGCTCAACAACTTTAAAAATCTCTT-ATCTTGGAAAAGCTCATCTCAA
* * *
19215478 CAGAGGCTCAACAACTTT-AAAAT-TCTTATATTGTAAAAGCTCCTCTCAA
1 CAGAGGCTCAACAACTTTAAAAATCTCTTATCTTGGAAAAGCTCATCTCAA
* * * *
19215527 CAGAGCCTCAACAACTTTAAAAATCT-TTCATTTTGAAAAAGCTCATCTCAG
1 CAGAGGCTCAACAACTTTAAAAATCTCTT-ATCTTGGAAAAGCTCATCTCAA
* * * *
19215578 CAGAAGCTCAACAACTTTAACTTTACAA-ATCTGATCTTGGAAAAGTTTC-TCTCAA
1 CAGAGGCTCAACAACTTTAA----A-AATCTCTTATCTTGGAAAAG-CTCATCTCAA
* * *
19215633 TAGAGGCTCAACAACTTTAAAAATCTCTTATCTTGGAGAAGCTCATATCAA
1 CAGAGGCTCAACAACTTTAAAAATCTCTTATCTTGGAAAAGCTCATCTCAA
* * * * * *
19215684 TAGAGGCTCAATAACTTTAACTTTAAAAAT-T-TGATTTTTGAAAAAGCTCCTCTCAG
1 CAGAGGCTC---AAC---AACTTTAAAAATCTCTTA-TCTTGGAAAAGCTCATCTCAA
19215740 CAGAGGCTCAACAACTTTAAAAA
1 CAGAGGCTCAACAACTTTAAAAA
19215763 ATTTTCATCT
Statistics
Matches: 267, Mismatches: 45, Indels: 46
0.75 0.13 0.13
Matches are distributed among these distances:
48 10 0.04
49 45 0.17
50 32 0.12
51 96 0.36
53 3 0.01
54 3 0.01
55 37 0.14
56 29 0.11
57 12 0.04
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (51 bp):
CAGAGGCTCAACAACTTTAAAAATCTCTTATCTTGGAAAAGCTCATCTCAA
Found at i:19226831 original size:20 final size:19
Alignment explanation
Indices: 19226806--19226849 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
19226796 GTGTGTGAAC
19226806 TTTTTTATTTTTTGATTTGT
1 TTTTTTATTTTTTGATTT-T
*
19226826 TTTTTTATTTTTTGCTTTT
1 TTTTTTATTTTTTGATTTT
19226845 TTTTT
1 TTTTT
19226850 GTTGAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (19 bp):
TTTTTTATTTTTTGATTTT
Found at i:19228019 original size:17 final size:17
Alignment explanation
Indices: 19227973--19228029 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
19227963 TTTTTATCAA
*
19227973 TATTATTATTATAAAGTTT
1 TATTA-TATTTTAAA-TTT
* * * *
19227992 CATTATTTTTTCATTTT
1 TATTATATTTTAAATTT
19228009 TATTATATTTTAAATTT
1 TATTATATTTTAAATTT
19228026 TATT
1 TATT
19228030 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 20 0.69
18 5 0.17
19 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTATATTTTAAATTT
Found at i:19229141 original size:17 final size:16
Alignment explanation
Indices: 19229105--19229152 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
19229095 AAATAAGGAA
19229105 AGAAAGAAGAAAAAAA-
1 AGAAA-AAGAAAAAAAT
*
19229121 A-AAAGAGAAAAAAAT
1 AGAAAAAGAAAAAAAT
*
19229136 AGAAAACGAAAAAAAT
1 AGAAAAAGAAAAAAAT
19229152 A
1 A
19229153 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 14 0.52
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAT
Found at i:19233805 original size:3 final size:3
Alignment explanation
Indices: 19233780--19233840 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
19233770 TGTAAACACC
* *
19233780 ATT ATT -TT ATT -TT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19233826 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
19233841 TATTTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:19233890 original size:12 final size:12
Alignment explanation
Indices: 19233873--19233915 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
19233863 GTTTTCTACG
19233873 TTTTTCTTCTTC
1 TTTTTCTTCTTC
19233885 TTTTTCTT-TTC
1 TTTTTCTTCTTC
19233896 TTTTTTCTTTCTTCC
1 -TTTTTC-TTCTT-C
19233911 TTTTT
1 TTTTT
19233916 TTTCCTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.11
12 14 0.52
13 2 0.07
14 7 0.26
15 1 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTCTTC
Found at i:19233901 original size:25 final size:24
Alignment explanation
Indices: 19233846--19233919 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
19233836 TTATTTATTT
* *
19233846 TTTTTCTCTTTCTTCCTGTTTTCTAC
1 TTTTT-TCTTTCTTCCT-TTTTTTTC
* *
19233872 GTTTTTC-TTCTTCTTTTTCTTTTC
1 TTTTTTCTTTCTTCCTTTT-TTTTC
19233896 TTTTTTCTTTCTTCCTTTTTTTTC
1 TTTTTTCTTTCTTCCTTTTTTTTC
19233920 CTGCTTCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 3 0.08
24 21 0.52
25 12 0.30
26 4 0.10
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTTTCTTTCTTCCTTTTTTTTC
Found at i:19234334 original size:12 final size:12
Alignment explanation
Indices: 19234291--19234338 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
19234281 AAAATATACC
19234291 TACAAAAACACACA
1 TACAAAAA-A-ACA
19234305 -ACAAAAAAACA
1 TACAAAAAAACA
*
19234316 GACCAAAAAAACA
1 TA-CAAAAAAACA
19234329 TACAAAAAAA
1 TACAAAAAAA
19234339 ATTTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 3 0.10
12 10 0.32
13 18 0.58
ACGTcount: A:0.73, C:0.21, G:0.02, T:0.04
Consensus pattern (12 bp):
TACAAAAAAACA
Found at i:19241395 original size:14 final size:14
Alignment explanation
Indices: 19241371--19241414 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
19241361 TTCATCTTCA
19241371 TTTTACTTTCCATTC
1 TTTT-CTTTCCATTC
19241386 TTTTCTTTCCA-TC
1 TTTTCTTTCCATTC
*
19241399 ATTTTCTTGCCATTC
1 -TTTTCTTTCCATTC
19241414 T
1 T
19241415 ATTTTTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.11, C:0.27, G:0.02, T:0.59
Consensus pattern (14 bp):
TTTTCTTTCCATTC
Found at i:19242492 original size:13 final size:13
Alignment explanation
Indices: 19242474--19242498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19242464 GTTGATCCAG
19242474 ATAAGATACAAGC
1 ATAAGATACAAGC
19242487 ATAAGATACAAG
1 ATAAGATACAAG
19242499 ACATCCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
ATAAGATACAAGC
Found at i:19245831 original size:92 final size:89
Alignment explanation
Indices: 19245719--19246304 Score: 670
Period size: 92 Copynumber: 6.3 Consensus size: 89
19245709 TAAATGAGAT
* * *
19245719 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAG---AGAATTTTAAAGTTGTTGAG
19245784 CCTCTGCTGAGAGGAGCTTTTTTAAGA
63 CCTCTGCTGAGAGGAGCTTTTTTAAGA
* *
19245811 TTTTAAAGTTGTTAAGCCTCTGTTGAGATGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAG---AGAATTTTAAAGTTGTTGAG
* *
19245876 CCTCTTCTGAGAAGAGCTTTTTTAAGA
63 CCTCTGCTGAGAGGAGCTTTTTTAAGA
*
19245903 TTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAG---AGAATTTTAAAGTTGTTGAG
* *
19245968 CCTCTGTTGAGAGGAGCTTTTTCAAGA
63 CCTCTGCTGAGAGGAGCTTTTTTAAGA
* * * * *
19245995 TTTTAAAGTTATTAAGCCTCTGCTAAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTATTGTGCCT
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAATTTTAAAGTTGTTGAGCCT
*
19246060 CTGCTGAGATGAGCTTTTTTAGATGAGA
66 CTGCTGAGAGGAGCTTTTTT--A--AGA
* * * *
19246088 TTTTAAAGTTGTTGAA-CCTCTGCTAAGAGGAGCTTTTTCAAGAGAATTTTAAAGATGTTGTGCC
1 TTTTAAAGTTGTT-AAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAATTTTAAAGTTGTTGAGCC
* * *
19246152 TCTACTGAGAGGAGCTTTTCCAAATGAGA
65 TCTGCTGAGAGGAGCTTTT----TTAAGA
** * *
19246181 TTTTAAAGTTGTCGAGCCTCTGCTGAGAGGATCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCT
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAATTTTAAAGTTGTTGAGCCT
* * ***
19246246 CTGCTAAGAAGAGCCCTTTCCAAGAGA
66 CTGCTGAGAGGAG--CTTTTTTA-AGA
*
19246273 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
1 -TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGA
19246305 ACCATGATAT
Statistics
Matches: 439, Mismatches: 41, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
89 38 0.09
91 1 0.00
92 215 0.49
93 178 0.41
94 2 0.00
95 4 0.01
97 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (89 bp):
TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAATTTTAAAGTTGTTGAGCCT
CTGCTGAGAGGAGCTTTTTTAAGA
Found at i:19245941 original size:184 final size:182
Alignment explanation
Indices: 19245714--19246304 Score: 742
Period size: 184 Copynumber: 3.2 Consensus size: 182
19245704 GAAAATAAAT
* * *
19245714 GAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTCCAAGATAAGAATTTTAAAGTTG
1 GAGA-TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTG
* *
19245779 TTGAGCCTCTGCTGAGAGGAGCTTTTTTAAGATTTTAAAGTTGTTAAGCCTCTGTTGAGATGAGC
65 TTGAGCCTCTGCTGAGAGGAGCTTTTTTAAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGC
* *
19245844 TTTTCCAAGATAAGAATTTTAAAGTTGTTGAGCCTCTTCTGAGAAGAGCTTTTTTA
130 TTTTTCAAG---AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTTA
*
19245900 -AGATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGT
1 GAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGT
* * * *
19245964 TGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATTTTAAAGTTATTAAGCCTCTGCTAAGAGGAGCT
66 TGAGCCTCTGCTGAGAGGAGCTTTTTTAAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
* * *
19246029 TTTTCAAGAGAATTTTAAAGTTATTGTGCCTCTGCTGAGATGAGCTTTTTTAGA
131 TTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTT--A
* * *
19246083 TGAGATTTTAAAGTTGTTGAA-CCTCTGCTAAGAGGAGCTTTTTCAAG---AGAATTTTAAAGAT
1 -GAGATTTTAAAGTTGTT-AAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTT
* * * * **
19246144 GTTGTGCCTCTACTGAGAGGAGCTTTTCCAAATGAGATTTTAAAGTTGTCGAGCCTCTGCTGAGA
64 GTTGAGCCTCTGCTGAGAGGAGCTTTT----TTAAGATTTTAAAGTTGTTAAGCCTCTGCTGAGA
* * ***
19246209 GGATCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTAAGAAGAGCCCTTTCCAA
125 GGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG--CTTTTTTA
*
19246269 GAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
1 GAGA-TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGA
19246305 ACCATGATAT
Statistics
Matches: 353, Mismatches: 39, Indels: 26
0.84 0.09 0.06
Matches are distributed among these distances:
181 39 0.11
182 37 0.10
183 1 0.00
184 123 0.35
185 47 0.13
186 102 0.29
188 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (182 bp):
GAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGT
TGAGCCTCTGCTGAGAGGAGCTTTTTTAAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCT
TTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTTA
Found at i:19246684 original size:10 final size:10
Alignment explanation
Indices: 19246664--19246721 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
19246654 TTTTTACGTT
19246664 TTTCTTCTTC
1 TTTCTTCTTC
* *
19246674 TTTTTTTTTC
1 TTTCTTCTTC
*
19246684 TTTCTTTCCTAC
1 TTTC-TT-CTTC
*
19246696 TTTCTTTTTC
1 TTTCTTCTTC
19246706 TTTCTTCTTC
1 TTTCTTCTTC
19246716 TTTCTT
1 TTTCTT
19246722 ATCCGATTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 28 0.74
11 4 0.11
12 6 0.16
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:19246684 original size:13 final size:14
Alignment explanation
Indices: 19246663--19246721 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
19246653 TTTTTTACGT
19246663 TTTTCTTCTTCTTT-
1 TTTT-TTCTTCTTTC
19246677 TTTTTTCTTTCTTTCC
1 TTTTTTC-TTCTTT-C
**
19246693 TACTTTCTT-TTTC
1 TTTTTTCTTCTTTC
*
19246706 TTTCTTCTTCTTTC
1 TTTTTTCTTCTTTC
19246720 TT
1 TT
19246722 ATCCGATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 10 0.28
14 19 0.53
15 2 0.06
16 5 0.14
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTTCTTCTTTC
Found at i:19247091 original size:13 final size:13
Alignment explanation
Indices: 19247075--19247121 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
19247065 AAATATACCT
*
19247075 ACAAAAACACACA
1 ACAAAAAAACACA
19247088 ACAAAAAAACA-A
1 ACAAAAAAACACA
19247100 ACCAAAAAAACAC-
1 A-CAAAAAAACACA
19247113 ACAAAAAAA
1 ACAAAAAAA
19247122 TTTATTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAACACA
Found at i:19247329 original size:16 final size:17
Alignment explanation
Indices: 19247308--19247350 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
19247298 GAAGAAAAAC
*
19247308 AAAAAAAAAAAAT-TTG
1 AAAAAAAAAAAATACTG
*
19247324 AAAAAAGAAAAATGACTG
1 AAAAAAAAAAAAT-ACTG
19247342 AAAAAAAAA
1 AAAAAAAAA
19247351 TTTGGTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 12 0.55
18 10 0.45
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAAAATACTG
Found at i:19248917 original size:13 final size:13
Alignment explanation
Indices: 19248879--19248917 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
19248869 TTATTTCATA
19248879 AAAAAGATATTTTT
1 AAAAA-ATATTTTT
*
19248893 GAAAAATAATTTTT
1 AAAAAAT-ATTTTT
19248907 AAAAAATATTT
1 AAAAAATATTT
19248918 ATATTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:19249050 original size:16 final size:16
Alignment explanation
Indices: 19249031--19249081 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
19249021 ATTAATATTA
19249031 AAAATTATTTATTGTT
1 AAAATTATTTATTGTT
19249047 AAAA-TA--TATTG--
1 AAAATTATTTATTGTT
*
19249058 -AAATTATTTATTATT
1 AAAATTATTTATTGTT
19249073 AAAATTATT
1 AAAATTATT
19249082 AATATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
10 3 0.11
11 2 0.07
13 9 0.32
15 2 0.07
16 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
AAAATTATTTATTGTT
Found at i:19249062 original size:26 final size:25
Alignment explanation
Indices: 19249032--19249081 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
19249022 TTAATATTAA
*
19249032 AAATTATTTATTGTTAAAATATATTG
1 AAATTATTTATTATTAAAAT-TATTG
19249058 AAATTATTTATTATTAAAATTATT
1 AAATTATTTATTATTAAAATTATT
19249082 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
AAATTATTTATTATTAAAATTATTG
Found at i:19249092 original size:16 final size:16
Alignment explanation
Indices: 19249052--19249091 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
19249042 TTGTTAAAAT
*
19249052 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
19249068 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
19249083 ATATTAAAA
1 ATATTAAAA
19249092 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:19249219 original size:26 final size:27
Alignment explanation
Indices: 19249179--19249253 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 27
19249169 ATTATTCTTT
19249179 ATATTATTTA-T--TAATATACTA-TA
1 ATATTATTTATTAATAATATACTATTA
*
19249202 ATATTATTTATTAATAATAT-TTATTA
1 ATATTATTTATTAATAATATACTATTA
* *
19249228 ATA-TATTATATTAATAGTATATTATT
1 ATATTATT-TATTAATAATATACTATT
19249254 TATTAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 10 0.23
24 1 0.02
25 6 0.14
26 22 0.50
27 5 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATATTATTTATTAATAATATACTATTA
Found at i:19249257 original size:18 final size:17
Alignment explanation
Indices: 19249178--19249419 Score: 141
Period size: 18 Copynumber: 14.2 Consensus size: 17
19249168 TATTATTCTT
19249178 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
19249195 TACTATAATATTATTTAT-
1 TA-TATTAT-TTATTAATA
*
19249213 TAATAATATTTATT-A-A
1 T-ATATTATTTATTAATA
19249229 TATATTA--TATTAATA
1 TATATTATTTATTAATA
19249244 GTATATTATTTATTAATA
1 -TATATTATTTATTAATA
*
19249262 -ATA-TA-TCATT-ATA
1 TATATTATTTATTAATA
* *
19249275 GTAT-TAATTAATTAA-A
1 -TATATTATTTATTAATA
19249291 TTAATATTATTTATT-AT-
1 -T-ATATTATTTATTAATA
*
19249308 TATATTATTTATTAATGG
1 TATATTATTTATTAAT-A
19249326 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
19249343 TATCATAATGTTATTTATTAA
1 TAT-ATTAT-TTA-TTAAT-A
* *
19249364 TATATGATTTATTCATA
1 TATATTATTTATTAATA
*
19249381 TAATATTATTTATTCATA
1 T-ATATTATTTATTAATA
* *
19249399 TAATTTTACTTATTAATA
1 T-ATATTATTTATTAATA
19249417 TAT
1 TAT
19249420 TATAATGTTA
Statistics
Matches: 179, Mismatches: 21, Indels: 50
0.72 0.08 0.20
Matches are distributed among these distances:
13 7 0.04
14 5 0.03
15 23 0.13
16 21 0.12
17 18 0.10
18 79 0.44
19 14 0.08
20 8 0.04
21 4 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:19249334 original size:26 final size:25
Alignment explanation
Indices: 19249177--19249321 Score: 97
Period size: 23 Copynumber: 6.3 Consensus size: 25
19249167 TTATTATTCT
19249177 TTATATTATTTATTAATATACTA-TA
1 TTATATTATTTATTAATATA-TATTA
19249202 --ATATTATTTATTAATA-ATATTTA
1 TTATATTATTTATTAATATATA-TTA
*
19249225 TTA-A-TA--TATT-ATAT-TAATA
1 TTATATTATTTATTAATATATATTA
* *
19249244 GTATATTATTTATTAATAATATATCA
1 TTATATTATTTATTAAT-ATATATTA
* * *
19249270 TTATAGTATTAATTAAT-TAAATTA
1 TTATATTATTTATTAATATATATTA
19249294 --ATATTATTTATT-AT-TATATTA
1 TTATATTATTTATTAATATATATTA
19249315 TT-TATTA
1 TTATATTA
19249322 ATGGTATATT
Statistics
Matches: 94, Mismatches: 12, Indels: 31
0.69 0.09 0.23
Matches are distributed among these distances:
19 4 0.04
20 6 0.06
21 16 0.17
22 16 0.17
23 24 0.26
24 8 0.09
25 3 0.03
26 17 0.18
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
TTATATTATTTATTAATATATATTA
Found at i:19249360 original size:56 final size:56
Alignment explanation
Indices: 19249292--19249400 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
19249282 TTAATTAAAT
* * *
19249292 TAATATTATTTATTATTATATTATTTATTAATGGT-ATATTATTTATTAATATATCA
1 TAATATTATTTATTAATATATGATTTATTAAT-ATAATATTATTTATTAATATATCA
* * *
19249348 TAATGTTATTTATTAATATATGATTTATTCATATAATATTATTTATTCATATA
1 TAATATTATTTATTAATATATGATTTATTAATATAATATTATTTATTAATATA
19249401 ATTTTACTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 45 0.98
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (56 bp):
TAATATTATTTATTAATATATGATTTATTAATATAATATTATTTATTAATATATCA
Found at i:19249387 original size:74 final size:70
Alignment explanation
Indices: 19249290--19249454 Score: 201
Period size: 74 Copynumber: 2.3 Consensus size: 70
19249280 AATTAATTAA
* *
19249290 ATTAATATTATTTATTATTATATTATTTATTAATGGT-ATATTATTTATTAATATATCATAATGT
1 ATTAATATTATTTATTATTATATTATTTATTAAT-ATAATATTACTTATTAATATATCATAATGT
19249354 TAT-TT
65 TATATT
* * *
19249359 ATTAATATATGATTTATTCATATAATATTATTTATTCATATAATTTTACTTATTAATATATTATA
1 ATTAATAT-T-ATTTATT-AT-T-ATATTATTTATTAATATAATATTACTTATTAATATATCATA
19249424 ATGTTATATT
61 ATGTTATATT
*
19249434 ATTTAT-TTATTTATTATTATA
1 ATTAATATTATTTATTATTATA
19249455 ATACTTTTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
69 11 0.13
70 2 0.02
71 9 0.11
72 9 0.11
73 3 0.04
74 42 0.51
75 7 0.08
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (70 bp):
ATTAATATTATTTATTATTATATTATTTATTAATATAATATTACTTATTAATATATCATAATGTT
ATATT
Found at i:19249453 original size:18 final size:18
Alignment explanation
Indices: 19249285--19249449 Score: 65
Period size: 18 Copynumber: 9.2 Consensus size: 18
19249275 GTATTAATTA
* *
19249285 ATTAAATTAATATTATTT
1 ATTAATTTATTATTATTT
19249303 ATT-A-TTA-TATTATTT
1 ATTAATTTATTATTATTT
*
19249318 ATTAATGGTA-TATTATTT
1 ATTAAT-TTATTATTATTT
* * *
19249336 ATTAATATATCATAATGTT
1 ATTAATTTATTATTAT-TT
* * *
19249355 ATTTATTAATATATGATTT
1 ATTAATTTAT-TATTATTT
* * *
19249374 ATTCATATAATATTATTT
1 ATTAATTTATTATTATTT
* * *
19249392 ATTCATATAATT-TTACTT
1 ATTAAT-TTATTATTATTT
* *
19249410 ATTAATATATTATAATGTT
1 ATTAATTTATTATTAT-TT
*
19249429 ATATTATTTA-T-TTATTT
1 AT-TAATTTATTATTATTT
19249446 ATTA
1 ATTA
19249450 TTATAATACT
Statistics
Matches: 110, Mismatches: 27, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
15 11 0.10
16 5 0.05
17 10 0.09
18 51 0.46
19 24 0.22
20 9 0.08
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTAATTTATTATTATTT
Found at i:19249833 original size:15 final size:18
Alignment explanation
Indices: 19249801--19249835 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19249791 GTTTTAGTTG
19249801 TAAATAATATTATAATAA
1 TAAATAATATTATAATAA
19249819 TAAATAATATTATAATA
1 TAAATAATATTATAATA
19249836 TATTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAATATTATAATAA
Found at i:19249921 original size:18 final size:17
Alignment explanation
Indices: 19249867--19249921 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
19249857 ATAATAAATA
* *
19249867 ATTTTATTTTAAGTATT
1 ATTTTATATTAAATATT
*
19249884 -TTTTATATTAACATAAT
1 ATTTTATATTAA-ATATT
19249901 ATTTTAATATTAAATATT
1 ATTTT-ATATTAAATATT
19249919 ATT
1 ATT
19249922 ATTTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 10 0.32
17 3 0.10
18 11 0.35
19 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTATATTAAATATT
Found at i:19249967 original size:26 final size:25
Alignment explanation
Indices: 19249938--19249999 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
19249928 TAATATTAAA
19249938 ATTTTAATAATAAATAATTTCAATAT
1 ATTTTAATAATAAATAATTTCAA-AT
* * **
19249964 ATTTTAATTATAATTAATTTTTAAT
1 ATTTTAATAATAAATAATTTCAAAT
19249989 ATTTTAATAAT
1 ATTTTAATAAT
19250000 TATATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTTAATAATAAATAATTTCAAAT
Found at i:19251794 original size:11 final size:10
Alignment explanation
Indices: 19251766--19251814 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
19251756 TGATTTACAT
19251766 TTTTGAAAA-C
1 TTTT-AAAAGC
19251776 TTTTAAAAGC
1 TTTTAAAAGC
19251786 TTTTGAAAAGC
1 TTTT-AAAAGC
19251797 TTTTAAAAG-
1 TTTTAAAAGC
19251806 TTTCTAAAA
1 TTT-TAAAA
19251815 ATGTAAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.19
10 19 0.53
11 10 0.28
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (10 bp):
TTTTAAAAGC
Found at i:19251799 original size:21 final size:20
Alignment explanation
Indices: 19251766--19251805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
19251756 TGATTTACAT
19251766 TTTTGAAAACTTTTAAAAGC
1 TTTTGAAAACTTTTAAAAGC
19251786 TTTTGAAAAGCTTTTAAAAG
1 TTTTGAAAA-CTTTTAAAAG
19251806 TTTCTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTGAAAACTTTTAAAAGC
Found at i:19251815 original size:21 final size:20
Alignment explanation
Indices: 19251766--19251815 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
19251756 TGATTTACAT
*
19251766 TTTTGAAAACTTTTAAAAGC
1 TTTTAAAAACTTTTAAAAGC
*
19251786 TTTTGAAAAGCTTTTAAAAG-
1 TTTT-AAAAACTTTTAAAAGC
19251806 TTTCTAAAAA
1 TTT-TAAAAA
19251816 TGTAAATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTAAAAACTTTTAAAAGC
Found at i:19254112 original size:16 final size:16
Alignment explanation
Indices: 19254091--19254130 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
19254081 AGTTTCTTTA
*
19254091 TTTTTTATTTTA-ACT
1 TTTTTTTTTTTATACT
19254106 TTTTTTTTTTTATACT
1 TTTTTTTTTTTATACT
19254122 TTATTTTTT
1 TT-TTTTTT
19254131 AAAACCAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 5 0.23
17 6 0.27
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTTTATACT
Found at i:19254178 original size:33 final size:35
Alignment explanation
Indices: 19254113--19254180 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
19254103 ACTTTTTTTT
19254113 TTTTATACTTTATTTTTTAAAACCAAAGTTTATAA
1 TTTTATACTTTATTTTTTAAAACCAAAGTTTATAA
* *
19254148 TTTTATATTTTATTTTTT-CAA-CAAAGTTTATAA
1 TTTTATACTTTATTTTTTAAAACCAAAGTTTATAA
19254181 GTATTTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 12 0.39
34 2 0.06
35 17 0.55
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTTATACTTTATTTTTTAAAACCAAAGTTTATAA
Found at i:19254197 original size:33 final size:33
Alignment explanation
Indices: 19254113--19254199 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 33
19254103 ACTTTTTTTT
* *
19254113 TTTTATACTTTATTTTTTAAAACCAAAGTTTATAA
1 TTTTATAGTTTATTTTTT-CAA-CAAAGTTTATAA
*
19254148 TTTTATATTTTATTTTTTCAACAAAGTTTATAA
1 TTTTATAGTTTATTTTTTCAACAAAGTTTATAA
*
19254181 GTATTT-TAGTTTTTTTTTT
1 -T-TTTATAGTTTATTTTTT
19254200 TAAGAAAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 12 0.26
34 14 0.30
35 20 0.43
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (33 bp):
TTTTATAGTTTATTTTTTCAACAAAGTTTATAA
Found at i:19256695 original size:22 final size:22
Alignment explanation
Indices: 19256654--19256696 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19256644 ATATCAAGAG
*
19256654 TATTTAAAAATATCTGATTGTT
1 TATTTAAAAATATCTCATTGTT
* *
19256676 TATTTGAAAATATTTCATTGT
1 TATTTAAAAATATCTCATTGT
19256697 CAGATTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (22 bp):
TATTTAAAAATATCTCATTGTT
Found at i:19256955 original size:11 final size:11
Alignment explanation
Indices: 19256899--19256956 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 11
19256889 TAAAATAATT
19256899 AAAATAAAATAG
1 AAAA-AAAATAG
*
19256911 AAAAAGAATAG
1 AAAAAAAATAG
*
19256922 AAACAAAAATAATT
1 AAA-AAAAAT-A-G
19256936 AACAAAAAATAG
1 AA-AAAAAATAG
19256948 AAAAAAAAT
1 AAAAAAAAT
19256957 TAAAAAAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 16 0.42
12 11 0.29
13 2 0.05
14 8 0.21
15 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAAAAAATAG
Found at i:19276683 original size:13 final size:13
Alignment explanation
Indices: 19276665--19276707 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
19276655 AATCTAATTT
19276665 CAAATTAATTATA
1 CAAATTAATTATA
*
19276678 CAAATTAATTACA
1 CAAATTAATTATA
* *
19276691 AAAAATAATTATA
1 CAAATTAATTATA
19276704 CAAA
1 CAAA
19276708 GAACAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (13 bp):
CAAATTAATTATA
Found at i:19278691 original size:23 final size:23
Alignment explanation
Indices: 19278629--19278694 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
19278619 TTCAAAAAGA
* *
19278629 GATATCCAGAGGTTTTGAAAAAT
1 GATACCCAGAGGTTTTTAAAAAT
* ** *
19278652 AATACTTAGAGGTTTTTAAATAT
1 GATACCCAGAGGTTTTTAAAAAT
19278675 GATACCCAGAGGTTTTTAAA
1 GATACCCAGAGGTTTTTAAA
19278695 GATGTGATAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (23 bp):
GATACCCAGAGGTTTTTAAAAAT
Found at i:19278712 original size:25 final size:24
Alignment explanation
Indices: 19278659--19278723 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
19278649 AATAATACTT
*
19278659 AGAGGTTTTTAA-ATATGATACCC
1 AGAGGTTTTTAAGATGTGATACCC
19278682 AGAGGTTTTTAAAGATGTGATACCC
1 AGAGGTTTTT-AAGATGTGATACCC
*
19278707 -GAAGGTTTTCAAGATGT
1 AG-AGGTTTTTAAGATGT
19278724 ACTCAGAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 10 0.27
24 10 0.27
25 17 0.46
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (24 bp):
AGAGGTTTTTAAGATGTGATACCC
Found at i:19278720 original size:24 final size:24
Alignment explanation
Indices: 19278659--19278723 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
19278649 AATAATACTT
* *
19278659 AGAGGTTTTTAA-ATATGATACCC
1 AGAGGTTTTAAAGATGTGATACCC
19278682 AGAGGTTTTTAAAGATGTGATACCC
1 AGAGG-TTTTAAAGATGTGATACCC
*
19278707 -GAAGGTTTTCAAGATGT
1 AG-AGGTTTTAAAGATGT
19278724 ACTCAGAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.14
24 18 0.50
25 13 0.36
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (24 bp):
AGAGGTTTTAAAGATGTGATACCC
Found at i:19278906 original size:45 final size:45
Alignment explanation
Indices: 19278801--19278928 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
19278791 AAGATACTCG
* * *
19278801 AAAGTTTTAAAAATGATATTTAAAGG-TTTTAAAAATGATATTTA
1 AAAGTTTTAAAAATGATATTTAAAGGTTTTTAAAGATGACATCTA
*
19278845 AAGGTTTTAAAAATGATATTTAAAGGTTTTTAAAGATGACA-CTA
1 AAAGTTTTAAAAATGATATTTAAAGGTTTTTAAAGATGACATCTA
* * * *
19278889 AGAAG-TTTATAATATGATACTTGAAGGTTTTTATAGATGA
1 A-AAGTTTTA-AAAATGATATTTAAAGGTTTTTAAAGATGA
19278929 TATTCAAAGG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 32 0.44
45 40 0.56
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (45 bp):
AAAGTTTTAAAAATGATATTTAAAGGTTTTTAAAGATGACATCTA
Found at i:19278950 original size:22 final size:22
Alignment explanation
Indices: 19278804--19278952 Score: 147
Period size: 22 Copynumber: 6.7 Consensus size: 22
19278794 ATACTCGAAA
*
19278804 GTTTTAAAAATGATATTTAAAG
1 GTTTTTAAAATGATATTTAAAG
*
19278826 GTTTTAAAAATGATATTTAAAG
1 GTTTTTAAAATGATATTTAAAG
*
19278848 GTTTTAAAAATGATATTTAAAG
1 GTTTTTAAAATGATATTTAAAG
* * *
19278870 GTTTTTAAAGATGACA-CTAAGAA
1 GTTTTTAAA-ATGATATTTAA-AG
* * * *
19278893 GTTTATAATATGATACTTGAAG
1 GTTTTTAAAATGATATTTAAAG
* *
19278915 GTTTTTATAGATGATATTCAAAG
1 GTTTTTA-AAATGATATTTAAAG
*
19278938 GTTTTTAGAATGATA
1 GTTTTTAAAATGATA
19278953 ACCAGAGGTT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
22 73 0.69
23 33 0.31
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (22 bp):
GTTTTTAAAATGATATTTAAAG
Found at i:19278951 original size:45 final size:43
Alignment explanation
Indices: 19278811--19278952 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 43
19278801 AAAGTTTTAA
* *
19278811 AAATGATATTTAAAGG-TTTTAAAAATGATATTTAAAGGTTTTAA
1 AAATGATATTTAAAGGTTTTTAAAGATGATA-TTAAAGGTTTT-T
* * * *
19278855 AAATGATATTTAAAGGTTTTTAAAGATGACACTAAGAAGTTTAT
1 AAATGATATTTAAAGGTTTTTAAAGATGATATTAA-AGGTTTTT
* * *
19278899 AATATGATACTTGAAGGTTTTTATAGATGATATTCAAAGGTTTTT
1 AA-ATGATATTTAAAGGTTTTTAAAGATGATATT-AAAGGTTTTT
19278944 AGAATGATA
1 A-AATGATA
19278953 ACCAGAGGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
44 21 0.26
45 56 0.70
46 3 0.04
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (43 bp):
AAATGATATTTAAAGGTTTTTAAAGATGATATTAAAGGTTTTT
Found at i:19278961 original size:22 final size:22
Alignment explanation
Indices: 19278912--19278974 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
19278902 ATGATACTTG
* **
19278912 AAGGTTTTTATAGATGATATTCA
1 AAGGTTTTTAGA-ATGATAACCA
19278935 AAGGTTTTTAGAATGATAACCA
1 AAGGTTTTTAGAATGATAACCA
*
19278957 GAGGTTTTTAGAATGATA
1 AAGGTTTTTAGAATGATA
19278975 CCTGAAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 25 0.69
23 11 0.31
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
AAGGTTTTTAGAATGATAACCA
Found at i:19278985 original size:22 final size:22
Alignment explanation
Indices: 19278902--19278986 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 22
19278892 AGTTTATAAT
* * *
19278902 ATGATACTTGAAGGTTTTTATA
1 ATGATACCTGAAAGTTTTTAGA
* *
19278924 GATGATA-TTCAAAGGTTTTTAGA
1 -ATGATACCTGAAA-GTTTTTAGA
* *
19278947 ATGATAACCAG-AGGTTTTTAGA
1 ATGAT-ACCTGAAAGTTTTTAGA
19278969 ATGATACCTGAAAGTTTT
1 ATGATACCTGAAAGTTTT
19278987 AAAGATGATA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.08
22 29 0.59
23 16 0.33
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (22 bp):
ATGATACCTGAAAGTTTTTAGA
Found at i:19279042 original size:22 final size:21
Alignment explanation
Indices: 19278979--19279043 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
19278969 ATGATACCTG
*
19278979 AAAGTTTTAAAGATGATACCA
1 AAAGTTTTAAAGATGATGCCA
* *
19279000 AGAGTATTCAAAAGATGATGCTCA
1 AAAGT-TT-TAAAGATGATGC-CA
*
19279024 AAAGTTTTAAAGATCATGCC
1 AAAGTTTTAAAGATGATGCC
19279044 CTAAGGCCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.14
22 12 0.34
23 12 0.34
24 6 0.17
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
AAAGTTTTAAAGATGATGCCA
Found at i:19279131 original size:22 final size:22
Alignment explanation
Indices: 19279106--19279175 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
19279096 TTGGTTCATG
*
19279106 CCTTGAAATCTTTTAGAACATC
1 CCTTGAAGTCTTTTAGAACATC
* * *
19279128 CCTTGAAGTCTTATAAAACATG
1 CCTTGAAGTCTTTTAGAACATC
*
19279150 CCTTGAAGTCTTTTAGATCATGC
1 CCTTGAAGTCTTTTAGAACAT-C
19279173 CCT
1 CCT
19279176 GAGGTTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 36 0.92
23 3 0.08
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (22 bp):
CCTTGAAGTCTTTTAGAACATC
Found at i:19279189 original size:22 final size:22
Alignment explanation
Indices: 19279091--19279177 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
19279081 TCACCAGAAG
* * *
19279091 GTCTTTTGGTTCATGCCTTGAA
1 GTCTTTTAGATCATGCCCTGAA
* *
19279113 ATCTTTTAGAACAT-CCCTTGAA
1 GTCTTTTAGATCATGCCC-TGAA
* * * *
19279135 GTCTTATAAAACATGCCTTGAA
1 GTCTTTTAGATCATGCCCTGAA
19279157 GTCTTTTAGATCATGCCCTGA
1 GTCTTTTAGATCATGCCCTGA
19279178 GGTTTTATAG
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 2 0.04
22 46 0.92
23 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
GTCTTTTAGATCATGCCCTGAA
Found at i:19286707 original size:345 final size:339
Alignment explanation
Indices: 19285902--19286717 Score: 957
Period size: 343 Copynumber: 2.4 Consensus size: 339
19285892 TAATCCCTTT
* * * * * *
19285902 TAAAAAATTGGAGGGGATTATTGAAGGTGTTTTTAACCAAATATACCTTCAATAATCCAGAAATT
1 TAAAAAATTGGA-GGGATTATTAAAGGTCTTTTTAGCCAAAAAT-CCTTTAATAATCTAG-AATT
* * * ** * *
19285967 ATTCAAGGTA-TTTTTGGCCAAAAAAACCTTCAATAA-CCCATTTAATATTTTGTTAGGGATTAT
63 ATTCAAGGCATTTTTTTGTCAAAAACGCCTTCAATAACCCCATTCAATATTTTGTTAGGAATTAT
* ** * ** *
19286030 TTAAGGCATTTGTTTAAAAAAATACCTTCAATAATCTTTTCATAAACACCTAAAGGTGATTATTC
128 TAAAAACATTTGTCTAAAAAAATACCTTCAATAATCTCCTCATAAACACCTAAAGGAGATTATTC
* * **
19286095 AAGGCATTTTTGACCATAAATGCCTTGACTAACTCCAAATGATTATTCAAGGTGTTTTATCACAA
193 AAGGCATTTTTGACCATAAATGCCTTGACTAACCCCAAAGGATTATTCAAGGCATTTTATCACAA
* *
19286160 AACACCTTAAATGATCCAAAAAAAAAAATGGGAGGGGATTATTAAGGCACTTTTAGGAGAAAACG
258 AACACCTTAAATGATCCAAAAAAAAAAATGGGAGGGGATTATTAAGGCACTTTTAGGAAAAAACA
*
19286225 CCTCTAATAATCTCCTC
323 CCTCGAATAATCTCCTC
* *
19286242 TAAAAAATTGGAGGTGATTATTAAAGGTGC-TTTAAGCTAAAAA-CACTTTCAATAATCTAGGAA
1 TAAAAAATTGGAGG-GATTATTAAAGGT-CTTTTTAGCCAAAAATC-CTTT-AATAATCTA-GAA
19286305 TTATTCAAGGCATTTTTTTGTCAAAAACGCCTTCAATAACCCCATTCAATATTTTGTTAGGAATT
61 TTATTCAAGGCATTTTTTTGTCAAAAACGCCTTCAATAACCCCATTCAATATTTTGTTAGGAATT
* * * * * *
19286370 ATTAAAAACGTTT-TCTAGGTAAAAATGCCTTCAATAATCTCCTCATAAACGCTTGAAGGAGATT
126 ATTAAAAACATTTGTCTA--AAAAAATACCTTCAATAATCTCCTCATAAACACCTAAAGGAGATT
* *
19286434 ATTTAAGGCATTTTT-AGCCATAAATGCCTTGACTAACCCCAAGGGATTATTCAAGGCATTTTAT
189 ATTCAAGGCATTTTTGA-CCATAAATGCCTTGACTAACCCCAAAGGATTATTCAAGGCATTTTAT
* * * * * *
19286498 CACAAAATCGCCTTGAATGGTCC-CAAAAAAAAATGGGAGGGGATTATTGAAGGC-TTTTTTGGC
253 CACAAAA-CACCTTAAATGATCCAAAAAAAAAAATGGGAGGGGATTATT-AAGGCACTTTTAGG-
*
19286561 AAAAAAATACCTCGAATAATCTCCTC
315 -AAAAAACACCTCGAATAATCTCCTC
* * *
19286587 TAAAAAATTGCATGGGATTATTAAAAGTCTTTTTGGCCAAAAATGCCTTTAATAATCTAGAATTT
1 TAAAAAATTGGA-GGGATTATTAAAGGTCTTTTTAGCCAAAAAT-CCTTTAATAATCTAGAA-TT
* *
19286652 ATTCAAGGCATTTTTTTGTGAGAAACGCCTTCAATAACCCCATTCAATATTTTGTTA-GAGATTA
63 ATTCAAGGCATTTTTTTGTCAAAAACGCCTTCAATAACCCCATTCAATATTTTGTTAGGA-ATTA
19286716 TT
127 TT
19286718 CAAGGTAAAT
Statistics
Matches: 405, Mismatches: 51, Indels: 35
0.82 0.10 0.07
Matches are distributed among these distances:
338 1 0.00
339 5 0.01
340 54 0.13
341 26 0.06
342 33 0.08
343 130 0.32
344 23 0.06
345 126 0.31
346 6 0.01
347 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (339 bp):
TAAAAAATTGGAGGGATTATTAAAGGTCTTTTTAGCCAAAAATCCTTTAATAATCTAGAATTATT
CAAGGCATTTTTTTGTCAAAAACGCCTTCAATAACCCCATTCAATATTTTGTTAGGAATTATTAA
AAACATTTGTCTAAAAAAATACCTTCAATAATCTCCTCATAAACACCTAAAGGAGATTATTCAAG
GCATTTTTGACCATAAATGCCTTGACTAACCCCAAAGGATTATTCAAGGCATTTTATCACAAAAC
ACCTTAAATGATCCAAAAAAAAAAATGGGAGGGGATTATTAAGGCACTTTTAGGAAAAAACACCT
CGAATAATCTCCTC
Found at i:19286924 original size:63 final size:63
Alignment explanation
Indices: 19286807--19286926 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
19286797 GAATGATCCC
* * ** *
19286807 AAAAAAATAGAAAGGGATTATTGAAGGTATTTTTGGCAGAAATCATCTTGAATAATCCCCTCT
1 AAAAAAATAGAAAGGGATTATTAAAGGTATTTTTGGCAAAAATCAAATTCAATAATCCCCTCT
* * * *
19286870 AAAAAAATTGAAGGGGATTATTAAAGGTTTTTTTGGTTAAAAAT-AAATTCAATAATC
1 AAAAAAATAGAAAGGGATTATTAAAGGTATTTTTGG-CAAAAATCAAATTCAATAATC
19286927 TAAGAATTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 42 0.89
64 5 0.11
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (63 bp):
AAAAAAATAGAAAGGGATTATTAAAGGTATTTTTGGCAAAAATCAAATTCAATAATCCCCTCT
Found at i:19287417 original size:63 final size:62
Alignment explanation
Indices: 19287263--19287423 Score: 164
Period size: 62 Copynumber: 2.6 Consensus size: 62
19287253 AATCCTTGAT
* ** * * *
19287263 TAATCCCCTCATAAAAAATGAAGGGGATTATGAAAGGTGTTTTTGGCAGAAAACATCTTCAA
1 TAATCCCCTCATAAAAATTGAAGGGGATTATTCAAGATGTTTTTAGCAGAAAAAATCTTCAA
* * ***
19287325 TAAT-CTCTTATAAAAACTTTTGGGGGATTATTCAAGATGTTTTTAGCA-AAAAAATACCTTCAA
1 TAATCCCCTCATAAAAA-TTGAAGGGGATTATTCAAGATGTTTTTAGCAGAAAAAAT--CTTCAA
* *
19287388 TAATCCCCTCATAAAAATTGAAAGAGATTATTCAAG
1 TAATCCCCTCATAAAAATTGAAGGGGATTATTCAAG
19287424 GAATTTTTTG
Statistics
Matches: 77, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
61 16 0.21
62 27 0.35
63 24 0.31
64 10 0.13
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (62 bp):
TAATCCCCTCATAAAAATTGAAGGGGATTATTCAAGATGTTTTTAGCAGAAAAAATCTTCAA
Found at i:19290984 original size:36 final size:36
Alignment explanation
Indices: 19290944--19291015 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
19290934 TTTTTAGAGT
19290944 TAGATTATTATTTTAACCAAAGATGAAATTAGATAG
1 TAGATTATTATTTTAACCAAAGATGAAATTAGATAG
* *
19290980 TAGATTATTATTTTAACCAAATATGAAATTGGATAG
1 TAGATTATTATTTTAACCAAAGATGAAATTAGATAG
19291016 GTCACCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (36 bp):
TAGATTATTATTTTAACCAAAGATGAAATTAGATAG
Found at i:19295207 original size:54 final size:55
Alignment explanation
Indices: 19295141--19295277 Score: 170
Period size: 54 Copynumber: 2.5 Consensus size: 55
19295131 CAAAATATAA
19295141 TAAAAAAATTAAAACATATAAGTCTATATTGACAATCTCTAACCATCAAT-AAGG
1 TAAAAAAATTAAAACATATAAGTCTATATTGACAATCTCTAACCATCAATGAAGG
* * * * * * *
19295195 TAAAAAAATTAAAGCATACAATTCTATATTGACAGTCTCTAACCGTCAGTGTAGG
1 TAAAAAAATTAAAACATATAAGTCTATATTGACAATCTCTAACCATCAATGAAGG
* *
19295250 TAAGAAAATTAAGAA-ATATAAGTTTATA
1 TAAAAAAATTAA-AACATATAAGTCTATA
19295278 CTAATGAATG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 44 0.64
55 24 0.35
56 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (55 bp):
TAAAAAAATTAAAACATATAAGTCTATATTGACAATCTCTAACCATCAATGAAGG
Found at i:19295382 original size:56 final size:55
Alignment explanation
Indices: 19295314--19295450 Score: 175
Period size: 56 Copynumber: 2.5 Consensus size: 55
19295304 AAAGAAAAAT
* *
19295314 TACAAATCTATATTGACAGGCGTTAACCATCGATATAAGTCAGAAAAATTAAAACA
1 TACAAATCTATATTGACGGGCATTAACCATCGATATAAGTCAG-AAAATTAAAACA
* * * * * *
19295370 TACAAGTCTATATTGATGGGCACTAGCCATCGGTATATGTCAGAAAATTAAAACA
1 TACAAATCTATATTGACGGGCATTAACCATCGATATAAGTCAGAAAATTAAAACA
* *
19295425 TACAAATCTATACTGACGGGCTTTAA
1 TACAAATCTATATTGACGGGCATTAA
19295451 GTGTCAATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
55 32 0.48
56 35 0.52
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (55 bp):
TACAAATCTATATTGACGGGCATTAACCATCGATATAAGTCAGAAAATTAAAACA
Found at i:19295483 original size:48 final size:49
Alignment explanation
Indices: 19295431--19295526 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 49
19295421 AACATACAAA
* * * * *
19295431 TCTATACTGACGGGCTTTAAGTGTCAATATAGGTAA-AAAAATTAAAAG
1 TCTATACTGACGAGCATTAACTATCAATATAGGCAAGAAAAATTAAAAG
*
19295479 TCTATACTGACGATCATTAACTATCAATATAGGCAAGAAAAATTAAAA
1 TCTATACTGACGAGCATTAACTATCAATATAGGCAAGAAAAATTAAAA
19295527 CATACAAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
48 30 0.73
49 11 0.27
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (49 bp):
TCTATACTGACGAGCATTAACTATCAATATAGGCAAGAAAAATTAAAAG
Found at i:19298006 original size:13 final size:13
Alignment explanation
Indices: 19297985--19298055 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
19297975 AATTTAATTT
*
19297985 CAAATTAATTATA
1 CAAAATAATTATA
*
19297998 CAAAATAATTACA
1 CAAAATAATTATA
19298011 -AAAATAATTATA
1 CAAAATAATTATA
*
19298023 CAAAAAACAATTATA
1 C--AAAATAATTATA
* * *
19298038 CAGAGTAATTTTA
1 CAAAATAATTATA
19298051 CAAAA
1 CAAAA
19298056 AAAAATTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 11 0.24
13 22 0.49
15 12 0.27
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
CAAAATAATTATA
Found at i:19298034 original size:15 final size:15
Alignment explanation
Indices: 19298010--19298039 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19298000 AAATAATTAC
*
19298010 AAAAATAATTATACA
1 AAAAACAATTATACA
19298025 AAAAACAATTATACA
1 AAAAACAATTATACA
19298040 GAGTAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAACAATTATACA
Found at i:19299550 original size:5 final size:5
Alignment explanation
Indices: 19299535--19299576 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
19299525 TTTTTGACCA
*
19299535 AAAATT AAAAT AAAATT AAAAT TAAA- AAAAT AAAAT AAAAT A
1 AAAA-T AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT A
19299577 CATAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 3 0.09
5 20 0.62
6 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:19313573 original size:18 final size:18
Alignment explanation
Indices: 19313550--19313585 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19313540 AGGGATTACT
19313550 ATTTATAATCTATATATA
1 ATTTATAATCTATATATA
19313568 ATTTATAATCTATATATA
1 ATTTATAATCTATATATA
19313586 TTAAAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATAATCTATATATA
Found at i:19314068 original size:26 final size:27
Alignment explanation
Indices: 19314039--19314102 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
19314029 ATTTTTATCT
* *
19314039 TATATATTTATATAATTTTT-TATAAA
1 TATATATTAATATAATTTTTCAATAAA
*
19314065 TATATATTAATATTATTTTTCAATAAA
1 TATATATTAATATAATTTTTCAATAAA
*
19314092 AATATATTAAT
1 TATATATTAAT
19314103 TCTAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TATATATTAATATAATTTTTCAATAAA
Found at i:19314917 original size:61 final size:62
Alignment explanation
Indices: 19314801--19314933 Score: 166
Period size: 62 Copynumber: 2.2 Consensus size: 62
19314791 AATACGATAT
* * *
19314801 GATTATTTAAGATATTTTTGATCCAAAAATGCCTTAAATAATCTCTAATA-TTTTTTAAAGG
1 GATTATTTAAGATATTTTTGATCCAAAAATCCCTTAAATAATCTCTAATAGTTTTTGAAAGA
*
19314862 GATTATTTAAGGTATTTTTTG-T-CAAAAATCCCTTAAATAATACTCTACA-AGTTTTTGAAAGA
1 GATTATTTAAGATA-TTTTTGATCCAAAAATCCCTTAAATAAT-CTCTA-ATAGTTTTTGAAAGA
*
19314924 TATTATTTAA
1 GATTATTTAA
19314934 AACCAAAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 18 0.29
61 20 0.32
62 25 0.40
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (62 bp):
GATTATTTAAGATATTTTTGATCCAAAAATCCCTTAAATAATCTCTAATAGTTTTTGAAAGA
Found at i:19315308 original size:62 final size:61
Alignment explanation
Indices: 19315209--19315375 Score: 169
Period size: 62 Copynumber: 2.7 Consensus size: 61
19315199 TTTTTTTTTG
* * * *
19315209 GATTATTTAATGCATTTTTTTGTCAGAAAACATCTTAAATAATGCTGA-TCAATT-TTTTTAAAA
1 GATTATTTAA-GCAATTTTTTGTCAAAAAATATCTTAAATAATCCT-ATTCAATTATTTTT--AA
* * *
19315272 GATTATTTAAGGAATTTTTTGTCAAAAAATACCTTAAATAATCCTATTCAATTATTTTTAG
1 GATTATTTAAGCAATTTTTTGTCAAAAAATATCTTAAATAATCCTATTCAATTATTTTTAA
* * * *
19315333 GATTATTTAAGTTACTTTTTAG-CCAAAAATATCTTAAATAATC
1 GATTATTTAAG-CAATTTTTTGTCAAAAAATATCTTAAATAATC
19315376 TTTTTTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
61 32 0.36
62 42 0.47
63 15 0.17
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (61 bp):
GATTATTTAAGCAATTTTTTGTCAAAAAATATCTTAAATAATCCTATTCAATTATTTTTAA
Found at i:19315369 original size:61 final size:59
Alignment explanation
Indices: 19315202--19315437 Score: 154
Period size: 62 Copynumber: 3.8 Consensus size: 59
19315192 GGATTACTTT
* * * * *
19315202 TTTTTTGGATTATTTAATGCATTTTTTTGTCAGAAAACATCTTAAATAATGCTGA-TCAATT-
1 TTTTTAGGATTATTTAA-GTA-TTTTTAGCCA-AAAACATCTTAAATAATCCT-ATTCAATTA
* * * *
19315263 TTTTTAAAAGATTATTTAAGGAATTTTTTGTCAAAAA-ATACCTTAAATAATCCTATTCAATTA
1 TTTTT--AGGATTATTTAA-GTATTTTTAGCCAAAAACAT--CTTAAATAATCCTATTCAATTA
* * * * **
19315326 TTTTTAGGATTATTTAAGTTACTTTTTAGCCAAAAATATCTTAAATAATCTTTTTTAAAAAA
1 TTTTTAGGATTATTTAAG-TA-TTTTTAGCCAAAAACATCTTAAATAATC-CTATTCAATTA
***
19315388 TTGAACAGGATTATTTAAGGTATTTTTAGCCAGAAAACATCTTAAATAAT
1 TT-TTTAGGATTATTTAA-GTATTTTTAGCCA-AAAACATCTTAAATAAT
19315438 TCTAAAAAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
60 3 0.02
61 33 0.23
62 58 0.40
63 49 0.34
64 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (59 bp):
TTTTTAGGATTATTTAAGTATTTTTAGCCAAAAACATCTTAAATAATCCTATTCAATTA
Found at i:19315430 original size:63 final size:59
Alignment explanation
Indices: 19315331--19315474 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
19315321 AATTATTTTT
* * * *
19315331 AGGATTATTTAAGTTACTTTTTAGCCAAAAATATCTTAAATAATCTTTTTTAAAAAATTGAAC
1 AGGATTATTTAAGGTA-TTTTTAGCCAAAAACATCTTAAATAA---TTCTAAAAAAATTGAAC
19315394 AGGATTATTTAAGGTATTTTTAGCCAGAAAACATCTTAAATAATTCTAAAAAAATTGAAC
1 AGGATTATTTAAGGTATTTTTAGCCA-AAAACATCTTAAATAATTCTAAAAAAATTGAAC
** *
19315454 ATAATTATTTAAGGCATTTTT
1 AGGATTATTTAAGGTATTTTT
19315475 CATGTCAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 33 0.45
62 10 0.14
63 30 0.41
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (59 bp):
AGGATTATTTAAGGTATTTTTAGCCAAAAACATCTTAAATAATTCTAAAAAAATTGAAC
Found at i:19316372 original size:22 final size:21
Alignment explanation
Indices: 19316347--19316405 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
19316337 TTTAAAATTT
19316347 TTCAATAAGAAAATTAATTAAA
1 TTCAATAAGAAAA-TAATTAAA
*
19316369 TTCATATTAGAATAA-AATTAAA
1 TTCA-ATAAGAA-AATAATTAAA
*
19316391 TTAAATAA-AAAATAA
1 TTCAATAAGAAAATAA
19316406 AACTAAAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 3 0.10
22 14 0.45
23 6 0.19
24 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
TTCAATAAGAAAATAATTAAA
Found at i:19317043 original size:7 final size:7
Alignment explanation
Indices: 19317031--19317072 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
19317021 ATGCCTATTA
19317031 AATCTAT
1 AATCTAT
19317038 AATCTAT
1 AATCTAT
* *
19317045 AATTTTT
1 AATCTAT
*
19317052 AATATAT
1 AATCTAT
19317059 AATCTAT
1 AATCTAT
19317066 AAT-TAT
1 AATCTAT
19317072 A
1 A
19317073 TATTAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (7 bp):
AATCTAT
Found at i:19317275 original size:6 final size:6
Alignment explanation
Indices: 19317264--19317288 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19317254 GTTAGTTTAG
19317264 TTATAA TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA T
19317289 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:19318058 original size:16 final size:17
Alignment explanation
Indices: 19318026--19318059 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19318016 ATATTAAAAT
19318026 ATAAAAATACAACTAAA
1 ATAAAAATACAACTAAA
*
19318043 ATAAAAAT-CAATTAAA
1 ATAAAAATACAACTAAA
19318059 A
1 A
19318060 ATAACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAAATACAACTAAA
Found at i:19318060 original size:17 final size:18
Alignment explanation
Indices: 19318013--19318063 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
19318003 ACATATCAAT
19318013 TACATATTAAAATATAAAAA
1 TACA-ATTAAAA-ATAAAAA
*
19318033 TACAACT-AAAATAAAAA
1 TACAATTAAAAATAAAAA
19318050 T-CAATTAAAAATAA
1 TACAATTAAAAATAA
19318064 CTAATACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 4 0.14
17 15 0.54
18 3 0.11
19 2 0.07
20 4 0.14
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
TACAATTAAAAATAAAAA
Found at i:19318551 original size:22 final size:23
Alignment explanation
Indices: 19318508--19318551 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19318498 GACATATGTT
* *
19318508 TTCAAAAAAATACATCTTAATAA
1 TTCAAAAAAATAAATCTAAATAA
*
19318531 TTCAAAAAACTAAAT-TAAATA
1 TTCAAAAAAATAAATCTAAATA
19318552 TATTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (23 bp):
TTCAAAAAAATAAATCTAAATAA
Found at i:19318833 original size:238 final size:239
Alignment explanation
Indices: 19318413--19318879 Score: 735
Period size: 238 Copynumber: 2.0 Consensus size: 239
19318403 TAAATAAAAC
* *
19318413 ATATAAAAGTCAAAATCTTTAATAAAAAAGAAATAATTTGATGTGGATAATCTATATTTTTTACA
1 ATATAAAAGTCAAAATCTTTAATAAAAAAGAAATAATTTGATGTAGATAATCTATATTTCTTACA
*
19318478 TATAGACAATCTAAAAAATTGACATATGTTTTCAAAAAAATACATCTTAATAATTCAAAAAACTA
66 TATAGACAA-CTAAAAAATTGACATATGTTCTCAAAAAAATACATCTTAATAATTCAAAAAACTA
* *
19318543 AATTAAATATATTTATTTTTATTTCTCTTAAATCATTCTCAATTAAATTTATAAAGAAGGTAATA
130 AATTAAATATATTTATTTTTATTTCTCTTAAATAATTCTCAATTAAATTTATAAAGAAAGTAATA
19318608 AAAATTTAATTACCATCATTAATATATAGAATATCTTATTTAAAT
195 AAAATTTAATTACCATCATTAATATATAGAATATCTTATTTAAAT
* *
19318653 ATATAAAGGTCAAAA-CATTTAAT-AAAAAGAAAATAATTTGATGTAGATAGTCTATATTTCTTA
1 ATATAAAAGTCAAAATC-TTTAATAAAAAAG-AAATAATTTGATGTAGATAATCTATATTTCTTA
* * * *
19318716 CATAT-GACAA-TAAAAAATTGACATGTGTTCTCTAATAAATACATTTTAATAATTCAAAAAAAC
64 CATATAGACAACTAAAAAATTGACATATGTTCTCAAAAAAATACATCTTAATAATTC-AAAAAAC
* *
19318779 TAAATTAAATATATTTATTTTTATTTGTCTTAAATAATTTTCAATTAAATTTATAAAGAAAGTAA
128 TAAATTAAATATATTTATTTTTATTTCTCTTAAATAATTCTCAATTAAATTTATAAAGAAAGTAA
**
19318844 TAAAAATTTAATTGTCATCATTAATATATAGAATAT
193 TAAAAATTTAATTACCATCATTAATATATAGAATAT
19318880 TTTTGTTAAG
Statistics
Matches: 209, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
237 40 0.19
238 102 0.49
239 12 0.06
240 55 0.26
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (239 bp):
ATATAAAAGTCAAAATCTTTAATAAAAAAGAAATAATTTGATGTAGATAATCTATATTTCTTACA
TATAGACAACTAAAAAATTGACATATGTTCTCAAAAAAATACATCTTAATAATTCAAAAAACTAA
ATTAAATATATTTATTTTTATTTCTCTTAAATAATTCTCAATTAAATTTATAAAGAAAGTAATAA
AAATTTAATTACCATCATTAATATATAGAATATCTTATTTAAAT
Found at i:19325371 original size:24 final size:24
Alignment explanation
Indices: 19325334--19325382 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19325324 AACAAATATA
*
19325334 TATATATATGGTTTTATTCTATTG
1 TATATATATGGTTTAATTCTATTG
* * *
19325358 TATATATTTTGTTTAATTCTTTTG
1 TATATATATGGTTTAATTCTATTG
19325382 T
1 T
19325383 GAATTTTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (24 bp):
TATATATATGGTTTAATTCTATTG
Found at i:19326441 original size:12 final size:12
Alignment explanation
Indices: 19326426--19326452 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19326416 CATGATACAT
19326426 ACATACACACAC
1 ACATACACACAC
19326438 ACATACACACAC
1 ACATACACACAC
19326450 ACA
1 ACA
19326453 CATATATATA
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:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (12 bp):
ACATACACACAC
Found at i:19326441 original size:16 final size:16
Alignment explanation
Indices: 19326422--19326454 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19326412 ATACCATGAT
*
19326422 ACATACATACACACAC
1 ACATACACACACACAC
19326438 ACATACACACACACAC
1 ACATACACACACACAC
19326454 A
1 A
19326455 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (16 bp):
ACATACACACACACAC
Found at i:19326449 original size:14 final size:14
Alignment explanation
Indices: 19326430--19326456 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19326420 ATACATACAT
19326430 ACACACACACATAC
1 ACACACACACATAC
19326444 ACACACACACATA
1 ACACACACACATA
19326457 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (14 bp):
ACACACACACATAC
Found at i:19333757 original size:2 final size:2
Alignment explanation
Indices: 19333750--19333778 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19333740 ACGACATGAA
19333750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19333779 AAGTGATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19334674 original size:2 final size:2
Alignment explanation
Indices: 19334667--19334698 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19334657 ATCATGGATA
19334667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19334699 GTGCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19341712 original size:32 final size:32
Alignment explanation
Indices: 19341671--19341734 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
19341661 AATAAAAAAA
* *
19341671 ATATATTAAAATATAAAAGTTCGATTAGGTTC
1 ATATATTAAAATATAAAAATTCGATTAAGTTC
19341703 ATATATTAAAATATAAAAATTCGATTAAGTTC
1 ATATATTAAAATATAAAAATTCGATTAAGTTC
19341735 GTGAGTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (32 bp):
ATATATTAAAATATAAAAATTCGATTAAGTTC
Found at i:19343947 original size:25 final size:24
Alignment explanation
Indices: 19343909--19343961 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
19343899 TTTTAAAATT
19343909 AAAAATAAAAAATAGAAAA-AATAA
1 AAAAATAAAAAATA-AAAATAATAA
**
19343933 CAAAAATAATTAATAAAAATAATAA
1 -AAAAATAAAAAATAAAAATAATAA
19343958 AAAA
1 AAAA
19343962 TGACAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAAATAAAAAATAAAAATAATAA
Found at i:19351254 original size:2 final size:2
Alignment explanation
Indices: 19351247--19351294 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
19351237 GACATCACGG
*
19351247 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19351289 TC TC TC
1 TC TC TC
19351295 CCCCTTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19358861 original size:52 final size:54
Alignment explanation
Indices: 19358795--19358899 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 54
19358785 GAAGTTGAGA
* * *
19358795 TATTTGATGTTTGCCCAAGGTGCTGAAAAAC-CCAGTAAAGAAAATAGGGCTTT
1 TATTTCATGTTTGCCAAAGGTGCTGAAAAACACCAGCAAAGAAAATAGGGCTTT
*
19358848 TATTTCAT-TTTGCCAAAGGTGCTGAAAAGCACCAGCAAAGAAAATAGGGCTT
1 TATTTCATGTTTGCCAAAGGTGCTGAAAAACACCAGCAAAGAAAATAGGGCTT
19358900 CTAATCTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 20 0.43
53 27 0.57
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (54 bp):
TATTTCATGTTTGCCAAAGGTGCTGAAAAACACCAGCAAAGAAAATAGGGCTTT
Found at i:19359927 original size:31 final size:31
Alignment explanation
Indices: 19359892--19359983 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 31
19359882 CAAATAGTCT
19359892 TTATATTCATACGAAATTTGAAATTTAATCC
1 TTATATTCATACGAAATTTGAAATTTAATCC
** **
19359923 TTATATTTGTGTGAAATTTGAAATTTAATCC
1 TTATATTCATACGAAATTTGAAATTTAATCC
* * ** * *
19359954 ATGTACACATACGAAATTTAAAATGTAATC
1 TTATATTCATACGAAATTTGAAATTTAATC
19359984 TTTCTAATAT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (31 bp):
TTATATTCATACGAAATTTGAAATTTAATCC
Found at i:19360642 original size:20 final size:18
Alignment explanation
Indices: 19360593--19360693 Score: 53
Period size: 20 Copynumber: 5.2 Consensus size: 18
19360583 TCTTAAATCT
19360593 TAAACCAAAACCTAAACCC
1 TAAA-CAAAACCTAAACCC
19360612 TAAACATAAACTCTAAA-CC
1 TAAACA-AAAC-CTAAACCC
* * *
19360631 TCAAATCAAAACCCAAGCTC
1 T-AAA-CAAAACCTAAACCC
*
19360651 TAAACCGAAACCTTAAA-CC
1 TAAA-CAAAACC-TAAACCC
*
19360670 TAAAACCTAAAACTTAAACCC
1 T-AAA-C-AAAACCTAAACCC
19360691 TAA
1 TAA
19360694 GTCAAACTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
18 2 0.03
19 25 0.40
20 27 0.43
21 9 0.14
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (18 bp):
TAAACAAAACCTAAACCC
Found at i:19360680 original size:13 final size:12
Alignment explanation
Indices: 19360593--19360822 Score: 67
Period size: 13 Copynumber: 18.0 Consensus size: 12
19360583 TCTTAAATCT
*
19360593 TAAACCAAAACC
1 TAAACCTAAACC
*
19360605 TAAACCCTAAACA
1 TAAA-CCTAAACC
19360618 TAAACTCTAAACC
1 TAAAC-CTAAACC
* *
19360631 TCAAATCAAAACC
1 T-AAACCTAAACC
* *
19360644 CAAGCTCTAAACC
1 TAAAC-CTAAACC
*
19360657 GAAACCTTAAACC
1 TAAACC-TAAACC
*
19360670 TAAAACCTAAAACT
1 T-AAACCT-AAACC
**
19360684 TAAACCCTAAGTC
1 TAAA-CCTAAACC
*
19360697 -AAACTCTAAACTT
1 TAAAC-CTAAAC-C
***
19360710 TAAA--TGAATGG
1 TAAACCT-AAACC
19360721 TAAACCTTAAACC
1 TAAACC-TAAACC
* *
19360734 -AAACCCAATATC
1 TAAACCTAA-ACC
*
19360746 TAAATCTAAACC
1 TAAACCTAAACC
* *
19360758 TTAAACTTAAAACA
1 -TAAACCT-AAACC
19360772 TAAACCCTAAACC
1 TAAA-CCTAAACC
19360785 TTAAACCCTAAA-C
1 -TAAA-CCTAAACC
19360798 TAAACCTTAAACC
1 TAAACC-TAAACC
19360811 -AAACTCTAAACC
1 TAAAC-CTAAACC
19360823 CCAAATCCCA
Statistics
Matches: 159, Mismatches: 35, Indels: 48
0.66 0.14 0.20
Matches are distributed among these distances:
11 10 0.06
12 44 0.28
13 68 0.43
14 37 0.23
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.20
Consensus pattern (12 bp):
TAAACCTAAACC
Found at i:19360797 original size:27 final size:26
Alignment explanation
Indices: 19360751--19360810 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
19360741 ATATCTAAAT
*
19360751 CTAAACCTTAAACTTAAAACATAAACC
1 CTAAACCTTAAACCTAAAAC-TAAACC
19360778 CTAAACCTTAAACCCT-AAACTAAACC
1 CTAAACCTTAAA-CCTAAAACTAAACC
*
19360804 TTAAACC
1 CTAAACC
19360811 AAACTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 12 0.40
27 16 0.53
28 2 0.07
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (26 bp):
CTAAACCTTAAACCTAAAACTAAACC
Found at i:19360814 original size:12 final size:12
Alignment explanation
Indices: 19360773--19360822 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
19360763 CTTAAAACAT
19360773 AAACCCTAAACC
1 AAACCCTAAACC
*
19360785 TTAAACCCTAAACT
1 --AAACCCTAAACC
*
19360799 AAACCTTAAACC
1 AAACCCTAAACC
*
19360811 AAACTCTAAACC
1 AAACCCTAAACC
19360823 CCAAATCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 20 0.65
14 11 0.35
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:19360819 original size:19 final size:20
Alignment explanation
Indices: 19360751--19360822 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 20
19360741 ATATCTAAAT
*
19360751 CTAAACCTTAAA-CTTAAAAC
1 CTAAACC-TAAACCTTAAACC
*
19360771 ATAAACCCTAAACCTTAAACC
1 CTAAA-CCTAAACCTTAAACC
19360792 CTAAA-CTAAACCTTAAA-C
1 CTAAACCTAAACCTTAAACC
19360810 C-AAACTCTAAACC
1 CTAAAC-CTAAACC
19360823 CCAAATCCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 3 0.07
18 2 0.04
19 19 0.42
20 8 0.18
21 13 0.29
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (20 bp):
CTAAACCTAAACCTTAAACC
Found at i:19360821 original size:7 final size:6
Alignment explanation
Indices: 19360593--19360822 Score: 67
Period size: 7 Copynumber: 36.0 Consensus size: 6
19360583 TCTTAAATCT
* * * *
19360593 TAAACC AAAACC TAAACCC TAAACA TAAACTC TAAACC TCAAATC AAAACC
1 TAAACC TAAACC TAAA-CC TAAACC TAAAC-C TAAACC T-AAACC TAAACC
* * * * **
19360644 CAAGCTC TAAACC GAAACC TTAAACC TAAAACC TAAAACT TAAACCC TAAGTC
1 TAAAC-C TAAACC TAAACC -TAAACC T-AAACC T-AAACC TAAA-CC TAAACC
* *** * *
19360697 -AAACTC TAAACTT TAAA-- TGAATGG TAAACC TTAAACC -AAACC CAATATC
1 TAAAC-C TAAAC-C TAAACC T-AAACC TAAACC -TAAACC TAAACC TAA-ACC
* * *
19360746 TAAATC TAAACC TTAAACT TAAAACA TAAACCC TAAACC TTAAACCC TAAA-C
1 TAAACC TAAACC -TAAACC T-AAACC TAAA-CC TAAACC -TAAA-CC TAAACC
19360798 TAAACC TTAAACC -AAACTC TAAACC
1 TAAACC -TAAACC TAAAC-C TAAACC
19360823 CCAAATCCCA
Statistics
Matches: 170, Mismatches: 30, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
4 1 0.01
5 18 0.11
6 56 0.33
7 93 0.55
8 2 0.01
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.20
Consensus pattern (6 bp):
TAAACC
Found at i:19361522 original size:3 final size:3
Alignment explanation
Indices: 19361514--19361563 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
19361504 CTTGCATTTA
19361514 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19361562 TA
1 TA
19361564 CTATGCATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19362147 original size:20 final size:19
Alignment explanation
Indices: 19362122--19362166 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19362112 GTTATGTTAT
19362122 TTTTAACAAATTTTTACTTA
1 TTTTAACAAATTTTTA-TTA
* *
19362142 TTTTAATATATTTTTATTA
1 TTTTAACAAATTTTTATTA
*
19362161 TATTAA
1 TTTTAA
19362167 TTTCATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAACAAATTTTTATTA
Found at i:19362357 original size:20 final size:18
Alignment explanation
Indices: 19362322--19362387 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 18
19362312 ATTAATTTAA
* *
19362322 ATTATTAATATTATAATT
1 ATTAATAATATGATAATT
19362340 GATTAATATATATGATAATATT
1 -ATTAATA-ATATGAT-A-ATT
*
19362362 ATTATTAATATGAT-ATT
1 ATTAATAATATGATAATT
19362379 ATTAATAAT
1 ATTAATAAT
19362388 TAATTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.28
19 6 0.15
20 13 0.32
21 7 0.17
22 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTAATAATATGATAATT
Found at i:19362415 original size:15 final size:16
Alignment explanation
Indices: 19362395--19362426 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
19362385 AATTAATTAT
19362395 ATATAATAAA-AACTA
1 ATATAATAAAGAACTA
19362410 ATATAATAAAGAACTA
1 ATATAATAAAGAACTA
19362426 A
1 A
19362427 AATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (16 bp):
ATATAATAAAGAACTA
Found at i:19362445 original size:18 final size:18
Alignment explanation
Indices: 19362424--19362473 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
19362414 AATAAAGAAC
19362424 TAAAATATTTTTAAAATT
1 TAAAATATTTTTAAAATT
** *
19362442 TAAAAT-TTTGAAAAAAT
1 TAAAATATTTTTAAAATT
19362459 TAAAA-A-TTTTAAAAT
1 TAAAATATTTTTAAAAT
19362474 ATCTTTTTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAATATTTTTAAAATT
Found at i:19362461 original size:17 final size:17
Alignment explanation
Indices: 19362436--19362472 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19362426 AAATATTTTT
*
19362436 AAAATTTAAAATTTTGAA
1 AAAATTAAAAATTTT-AA
19362454 AAAATTAAAAATTTTAA
1 AAAATTAAAAATTTTAA
19362471 AA
1 AA
19362473 TATCTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAATTAAAAATTTTAA
Found at i:19362546 original size:31 final size:31
Alignment explanation
Indices: 19362511--19362589 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
19362501 TTAAATTTTA
* *
19362511 TGTGAGTATAGAGACTAAATTTCATATTTCT
1 TGTGAGTATAGAGACTAAATTTCAAATTTCG
* * *
19362542 TGTGAATATAGAGATTAAATTTTAAATTTCG
1 TGTGAGTATAGAGACTAAATTTCAAATTTCG
* *
19362573 TATGAGTATAGAAACTA
1 TGTGAGTATAGAGACTA
19362590 TTTATATAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.39
Consensus pattern (31 bp):
TGTGAGTATAGAGACTAAATTTCAAATTTCG
Found at i:19363085 original size:39 final size:39
Alignment explanation
Indices: 19363041--19363152 Score: 97
Period size: 39 Copynumber: 2.9 Consensus size: 39
19363031 AAAAATCTTT
*
19363041 AAATTTAGAGACCAAATTTTAAA-TTTTCAAAAATT-CATA
1 AAATTT-GAGACCAAATTTCAAATTTTTCAAAAATTCCA-A
* ** *
19363080 AAATTTTAGATTAAATTTCAAATTTTTCGAAAATTCCAA
1 AAATTTGAGACCAAATTTCAAATTTTTCAAAAATTCCAA
* *
19363119 AAATTTG-GGCCTAAATTTCAAGACTTTT-AAAAAT
1 AAATTTGAGACC-AAATTTCAA-ATTTTTCAAAAAT
19363153 CCCTAAAGTC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
38 13 0.22
39 38 0.66
40 7 0.12
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.38
Consensus pattern (39 bp):
AAATTTGAGACCAAATTTCAAATTTTTCAAAAATTCCAA
Found at i:19365364 original size:38 final size:38
Alignment explanation
Indices: 19365309--19365385 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
19365299 TAAACAATGC
* *
19365309 ATGGCAAAACTCTCCCTCAATTTGTGCACCCTAATCCA
1 ATGGCAAAACTCCCCCTCAATTTATGCACCCTAATCCA
* * *
19365347 ATGGCAAGACTCCCCCTCATTTTATGCATCCTAATCCA
1 ATGGCAAAACTCCCCCTCAATTTATGCACCCTAATCCA
19365385 A
1 A
19365386 CACAAGTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (38 bp):
ATGGCAAAACTCCCCCTCAATTTATGCACCCTAATCCA
Found at i:19366021 original size:16 final size:16
Alignment explanation
Indices: 19366000--19366034 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
19365990 ATACAAGCTC
19366000 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
19366016 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
19366032 ATA
1 ATA
19366035 TGTTATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:19373464 original size:13 final size:13
Alignment explanation
Indices: 19373446--19373473 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19373436 GTCCTTCAAC
19373446 ACCACTGCCATTA
1 ACCACTGCCATTA
19373459 ACCACTGCCATTA
1 ACCACTGCCATTA
19373472 AC
1 AC
19373474 ATTTTTAGGA
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:0.32, C:0.39, G:0.07, T:0.21
Consensus pattern (13 bp):
ACCACTGCCATTA
Found at i:19381033 original size:32 final size:31
Alignment explanation
Indices: 19380973--19381039 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
19380963 TTAAAAATTT
*
19380973 TTAATGTAATATTTAAATTATAAATTTATTAA
1 TTAATGTAATATTTAAA-TAAAAATTTATTAA
*
19381005 TTAATGTAATATTTAAA-AAAATATTTTATTTA
1 TTAATGTAATATTTAAATAAAA-A-TTTATTAA
19381037 TTA
1 TTA
19381040 TATATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 3 0.10
31 1 0.03
32 27 0.87
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
TTAATGTAATATTTAAATAAAAATTTATTAA
Found at i:19381544 original size:14 final size:15
Alignment explanation
Indices: 19381527--19381559 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19381517 TTATTTAATA
19381527 ATTTTTA-AAAAATT
1 ATTTTTATAAAAATT
*
19381541 ATTTTTATTAAAATT
1 ATTTTTATAAAAATT
19381556 ATTT
1 ATTT
19381560 ATACTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTATAAAAATT
Found at i:19382502 original size:18 final size:19
Alignment explanation
Indices: 19382466--19382505 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
19382456 AATATCAATA
*
19382466 TTATCATTAGTAGTTAATT
1 TTATCATTACTAGTTAATT
19382485 TTATCATTACTA-TTAATT
1 TTATCATTACTAGTTAATT
19382503 TTA
1 TTA
19382506 ATGTCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATCATTACTAGTTAATT
Found at i:19386685 original size:16 final size:16
Alignment explanation
Indices: 19386660--19386690 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19386650 TCTTCTTGTT
*
19386660 TTCTTTAGTTTTCTAA
1 TTCTTAAGTTTTCTAA
19386676 TTCTTAAGTTTTCTA
1 TTCTTAAGTTTTCTA
19386691 TATGTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (16 bp):
TTCTTAAGTTTTCTAA
Found at i:19411165 original size:21 final size:22
Alignment explanation
Indices: 19411136--19411178 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19411126 AAATCAGCAT
19411136 AATTGAAATAATTTGAATTTAA
1 AATTGAAATAATTTGAATTTAA
* *
19411158 AATT-AAATCATTTGGATTTAA
1 AATTGAAATAATTTGAATTTAA
19411179 TTCAATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
AATTGAAATAATTTGAATTTAA
Found at i:19427139 original size:97 final size:98
Alignment explanation
Indices: 19426957--19427149 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 98
19426947 GTTCTAATAC
19426957 CAATTACAGGTGAAAGACAATTTACAAGTGAGAAAGGTAAGAAAGAAAAAAAGAAGATGTAGAAA
1 CAATTACAGGTGAAAGACAATTTACAAGTGAGAAAGGTAAGAAAGAAAAAAAGAAGATGTAGAAA
* * **
19427022 GAGTAGAAGAAGAAGCAAAGTGGGGAAGGGAAT
66 AAGTAGAAGAAAAAGCAAAGTAAGGAAGGGAAT
* * * **
19427055 CAATTAGA-GTGAAAGATAATTTACAAGTGAGAAGGGTAAGAAA-AATGAAAGAAAGATGTAGAA
1 CAATTACAGGTGAAAGACAATTTACAAGTGAGAAAGGTAAGAAAGAAAAAAAG-AAGATGTAGAA
* *
19427118 AAAGTATAAGAAAAAGTAAAGTAAGGAAGGGA
65 AAAGTAGAAGAAAAAGCAAAGTAAGGAAGGGA
19427150 GTCTCTACCT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 6 0.07
97 70 0.84
98 7 0.08
ACGTcount: A:0.53, C:0.04, G:0.28, T:0.15
Consensus pattern (98 bp):
CAATTACAGGTGAAAGACAATTTACAAGTGAGAAAGGTAAGAAAGAAAAAAAGAAGATGTAGAAA
AAGTAGAAGAAAAAGCAAAGTAAGGAAGGGAAT
Found at i:19433678 original size:14 final size:14
Alignment explanation
Indices: 19433659--19433689 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19433649 AACAACAATT
19433659 TATACTGTAATGAA
1 TATACTGTAATGAA
19433673 TATACTGTAATGAA
1 TATACTGTAATGAA
19433687 TAT
1 TAT
19433690 TTCTACCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (14 bp):
TATACTGTAATGAA
Found at i:19437710 original size:2 final size:2
Alignment explanation
Indices: 19437703--19437738 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19437693 TTTTGTGTTT
19437703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19437739 AGGCCTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19437937 original size:21 final size:20
Alignment explanation
Indices: 19437913--19437966 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
19437903 AATAAATAAA
*
19437913 AAATAAAATAAAAATTTTATT
1 AAATAAAATAAAAAGTTT-TT
* *
19437934 AAATTAAATCAAAAGTTTTT
1 AAATAAAATAAAAAGTTTTT
*
19437954 AAGTGAAAATAAA
1 AAAT-AAAATAAA
19437967 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATAAAATAAAAAGTTTTT
Found at i:19439764 original size:2 final size:2
Alignment explanation
Indices: 19439757--19439786 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19439747 TAATAAACGA
*
19439757 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19439787 CCAAATCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19440320 original size:12 final size:13
Alignment explanation
Indices: 19440292--19440328 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
19440282 TTCATTCCAT
19440292 TTAT-TTTATATA
1 TTATATTTATATA
19440304 TTATATTTATATA
1 TTATATTTATATA
*
19440317 -TATATTTTTATA
1 TTATATTTATATA
19440329 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATTTATATA
Found at i:19441058 original size:18 final size:18
Alignment explanation
Indices: 19441035--19441073 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19441025 CAAGCCTTAG
*
19441035 CAGCTGGGGT-GGCTTCAA
1 CAGCTGGGCTGGGC-TCAA
19441053 CAGCTGGGCTGGGCTCAA
1 CAGCTGGGCTGGGCTCAA
19441071 CAG
1 CAG
19441074 GCTTGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (18 bp):
CAGCTGGGCTGGGCTCAA
Found at i:19442616 original size:23 final size:23
Alignment explanation
Indices: 19442585--19442629 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19442575 AATTTTTTAC
19442585 ATTAAATATATCTATATCATATT
1 ATTAAATATATCTATATCATATT
* * *
19442608 ATTAGATATATTTATATTATAT
1 ATTAAATATATCTATATCATAT
19442630 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTAAATATATCTATATCATATT
Found at i:19443965 original size:146 final size:145
Alignment explanation
Indices: 19443653--19444072 Score: 517
Period size: 145 Copynumber: 2.9 Consensus size: 145
19443643 TTGTACCAAA
* **
19443653 AAAAGTATAAAATTATCAAAATATCCTTATAAAAGTATTTTCGTAATTTAACCTTTTT-GAGCTT
1 AAAAGTATAAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAA-CTTTTTCGAGCTT
* * * *
19443717 GGA-TCTTCATGAAACTTTTCATATCTTAATTTTTTTAATATTTCATGA-TTTTAGTGTATTTGA
65 GGATTTTTCATGAAACTTTTCATATCTTAA-TTTTATAATATTTCATGATTTTTGGTG-ATTTAA
*
19443780 AATAATAACTGTACCTTG
128 AATAATAACTGTACCCTG
* * * * **
19443798 AAAAATATAAAATTATCAAAATACCCTTATAAGGGTATTTTCATAATTCATCTTTTTCGAGCTCA
1 AAAAGTATAAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAACTTTTTCGAGCTTG
*
19443863 GATTTTTCATGAAACTTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAA
66 GATTTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTG-ATTTAAAA
* *
19443928 TTAT-AGTAGTACCCTG
130 TAATAACT-GTACCCTG
* * * * * * *
19443944 AAAAGTATGAAATTACCAAAATACCCTTTTAAGGGTATTTTTGTAATTTGACCTTCTCGAGCTTG
1 AAAAGTATAAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAACTTTTTCGAGCTTG
* * *
19444009 GATTTTT-ATGAAAATTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGTTTTAAAAT
66 GATTTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTGATTTAAAAT
19444073 CGAAAAAATG
Statistics
Matches: 236, Mismatches: 35, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
144 14 0.06
145 114 0.48
146 108 0.46
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (145 bp):
AAAAGTATAAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAACTTTTTCGAGCTTG
GATTTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTGATTTAAAAT
AATAACTGTACCCTG
Found at i:19445762 original size:3 final size:3
Alignment explanation
Indices: 19445756--19445786 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19445746 AATAATAATA
*
19445756 ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
19445787 AGACATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:19447114 original size:12 final size:12
Alignment explanation
Indices: 19447097--19447135 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19447087 AATTTTTCAA
19447097 AAAAAATAAAAT
1 AAAAAATAAAAT
**
19447109 AAAAAATAAGTT
1 AAAAAATAAAAT
*
19447121 AATAAATAAAAT
1 AAAAAATAAAAT
19447133 AAA
1 AAA
19447136 TTGTATGTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:19447225 original size:36 final size:37
Alignment explanation
Indices: 19447147--19447238 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
19447137 TGTATGTTAG
* *
19447147 TTAGTTAGTACTTTATTTTGATAAAATAAATTGCATG
1 TTAGTTAGTACTTTATTTTAATAAAATAAATTGCATA
* * *
19447184 CTAGTTGGTACTTTATTTTAATAAAA-AAATTGCTTA
1 TTAGTTAGTACTTTATTTTAATAAAATAAATTGCATA
* *
19447220 TTAGTTATTACTTTGTTTT
1 TTAGTTAGTACTTTATTTT
19447239 GGTTTTATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 23 0.50
37 23 0.50
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.50
Consensus pattern (37 bp):
TTAGTTAGTACTTTATTTTAATAAAATAAATTGCATA
Found at i:19453395 original size:42 final size:41
Alignment explanation
Indices: 19453259--19453395 Score: 108
Period size: 42 Copynumber: 3.4 Consensus size: 41
19453249 AAAGAATTTG
* * *
19453259 CATTCACATTTATATCACAAAAAAGG-A--GACATTTGCAT
1 CATTCACATCTATATCATAAAAAAGGAATTCACATTTGCAT
*
19453297 CATTCACACCTATATCA-ATAAAAA--AATTCACATTTGCAT
1 CATTCACATCTATATCATA-AAAAAGGAATTCACATTTGCAT
** **
19453336 CACTT-GTATCTGCATCATAAAAAAGGACATTCACATTTGCAT
1 CA-TTCACATCTATATCATAAAAAAGGA-ATTCACATTTGCAT
* *
19453378 CATTCACATTTGTATCAT
1 CATTCACATCTATATCAT
19453396 TCATATTTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
37 2 0.03
38 20 0.26
39 24 0.31
40 3 0.04
41 3 0.04
42 25 0.32
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (41 bp):
CATTCACATCTATATCATAAAAAAGGAATTCACATTTGCAT
Found at i:19453405 original size:15 final size:15
Alignment explanation
Indices: 19453363--19453406 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
19453353 TAAAAAAGGA
*
19453363 CATTCACATTTGCAT
1 CATTCACATTTGTAT
19453378 CATTCACATTTGTAT
1 CATTCACATTTGTAT
*
19453393 CATTCATATTTGTA
1 CATTCACATTTGTA
19453407 CTTGTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
CATTCACATTTGTAT
Found at i:19453537 original size:21 final size:23
Alignment explanation
Indices: 19453512--19453556 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
19453502 AAATATATAT
*
19453512 ATTCACATTTACAT-CAC-TCAC
1 ATTCACACTTACATGCACATCAC
*
19453533 ATTCATACTTACATGCACATCAC
1 ATTCACACTTACATGCACATCAC
19453556 A
1 A
19453557 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTCACACTTACATGCACATCAC
Done.