Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 210 of 226
Found at i:66161020 original size:22 final size:22
Alignment explanation
Indices: 66160994--66161035 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66160984 AATACGAGAA
66160994 AATATGGAACTAAAAAGAAATG
1 AATATGGAACTAAAAAGAAATG
* *
66161016 AATATGGAACTGAGAAGAAA
1 AATATGGAACTAAAAAGAAA
66161036 AGTTATCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (22 bp):
AATATGGAACTAAAAAGAAATG
Found at i:66161664 original size:22 final size:22
Alignment explanation
Indices: 66161636--66161681 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
66161626 CTTTCAAAAG
66161636 AATGATGATATAAACGTTTATC
1 AATGATGATATAAACGTTTATC
66161658 AATGATGATATAAACGTTTATC
1 AATGATGATATAAACGTTTATC
66161680 AA
1 AA
66161682 ACTCGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (22 bp):
AATGATGATATAAACGTTTATC
Found at i:66162847 original size:5 final size:5
Alignment explanation
Indices: 66162814--66162933 Score: 63
Period size: 5 Copynumber: 24.6 Consensus size: 5
66162804 AGAAGGAGAG
* * * *
66162814 GGAAA GGAGAA -GAAA -GAAA -GAAA GAAAA GGAAA GGAGA GGAGA GGGAA
1 GGAAA GGA-AA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * * * * *
66162862 -GAAA GAAAA AG-AA GGAAA GAAAA GGAAA GGAGAA GAAAAA AGAAA GAAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA GGAAA GGAAA
* *
66162912 AG-AA GGAAA GAAAA GGAAA GGA
1 GGAAA GGAAA GGAAA GGAAA GGA
66162934 GAAGAAAAAA
Statistics
Matches: 86, Mismatches: 22, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
4 19 0.22
5 59 0.69
6 7 0.08
7 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:66162855 original size:33 final size:33
Alignment explanation
Indices: 66162814--66162976 Score: 115
Period size: 31 Copynumber: 5.0 Consensus size: 33
66162804 AGAAGGAGAG
*
66162814 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
* * *
66162847 GGAGAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGA-A--AG-GAGAAGAAAGAAAGA-AAGAAAAGAAAA
*
66162885 GGAAAGGAGAAGAAA-AAAGAAAGAAAA-AGAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
* *
66162916 GGAAA-GAAAAGGAAAG-GAG-AAGAAAA-AAAA
1 GGAAAGGAGAA-GAAAGAAAGAAAGAAAAGAAAA
* * ** *
66162946 AGAAAGAAGAAG-AAGAGGGAAGGAAAAGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAA
66162977 GAAAAAAAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
29 3 0.03
30 21 0.20
31 23 0.22
32 9 0.09
33 7 0.07
34 9 0.09
35 2 0.02
36 2 0.02
37 14 0.14
38 13 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (33 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
Found at i:66162905 original size:41 final size:41
Alignment explanation
Indices: 66162821--66162983 Score: 197
Period size: 41 Copynumber: 3.9 Consensus size: 41
66162811 GAGGGAAAGG
* ***
66162821 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAGAGGGAAGAA
1 AGAA-AAAGAAGGAAAGAAAAGGAAAGGAGA--AGAAAAAAGAA
66162865 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
66162906 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAA-AA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
** *
66162946 AGAAAGAAGAA-GAAGAGGGAAGGAAAAGA-AAGAAAAAA
1 AGAAA-AAGAAGGAA-AGAAAAGGAAAGGAGAAGAAAAAA
66162984 AGATAATTTT
Statistics
Matches: 110, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
40 19 0.17
41 62 0.56
43 25 0.23
44 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (41 bp):
AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
Found at i:66162939 original size:71 final size:71
Alignment explanation
Indices: 66162814--66162982 Score: 195
Period size: 71 Copynumber: 2.4 Consensus size: 71
66162804 AGAAGGAGAG
* * * * * * *
66162814 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAGAGGGAAGAAAGAAAAAGAAGGAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAAGGAAAGAAAAGGAAAGAAAGAAAAAAAAAGAA
66162879 AGAA-AA
65 AGAAGAA
66162885 GGAAAGGAGAAGAAAAAAGAAAGAAAAAG-AAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAAAGA
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAAGGAAAGAAAAGGAAA-GA-AAGAAAAAAAAAGA
66162949 AAGAAGAA
64 AAGAAGAA
*
66162957 -GAAGAGG-GAAG-GAAAAGAAAGAAAAA
1 GGAA-AGGAGAAGAAAAAAGAAAGAAAAA
66162983 AAGATAATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
69 13 0.15
70 29 0.34
71 39 0.45
72 5 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (71 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAAGGAAAGAAAAGGAAAGAAAGAAAAAAAAAGAAA
GAAGAA
Found at i:66162958 original size:10 final size:10
Alignment explanation
Indices: 66162815--66162959 Score: 79
Period size: 10 Copynumber: 14.3 Consensus size: 10
66162805 GAAGGAGAGG
*
66162815 GAAAGGAGAA
1 GAAAGAAGAA
66162825 GAAAG-A-AA
1 GAAAGAAGAA
66162833 GAAAGAA-AA
1 GAAAGAAGAA
*
66162842 GGAAAGGAGAGGA
1 -GAAA-GA-AGAA
**
66162855 GAGGGAAGAAA
1 GAAAGAAG-AA
66162866 GAAA-AAGAA
1 GAAAGAAGAA
66162875 GGAAAGAA-AA
1 -GAAAGAAGAA
*
66162885 GGAAAGGAGAA
1 -GAAAGAAGAA
*
66162896 GAAAAAAGAAA
1 GAAAGAAG-AA
66162907 GAAA-AAGAA
1 GAAAGAAGAA
66162916 GGAAAGAA-AA
1 -GAAAGAAGAA
*
66162926 GGAAAGGAGAA
1 -GAAAGAAGAA
* *
66162937 GAAAAAAAAA
1 GAAAGAAGAA
66162947 GAAAGAAGAA
1 GAAAGAAGAA
66162957 GAA
1 GAA
66162960 GAGGGAAGGA
Statistics
Matches: 107, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.07
9 8 0.07
10 67 0.63
11 21 0.20
12 3 0.03
13 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:66162982 original size:10 final size:10
Alignment explanation
Indices: 66162860--66162982 Score: 72
Period size: 10 Copynumber: 12.2 Consensus size: 10
66162850 GAGGAGAGGG
66162860 AAGAAAGAAA
1 AAGAAAGAAA
*
66162870 AAGAAGGAAA
1 AAGAAAGAAA
* *
66162880 GA-AAAGGAA
1 AAGAAAGAAA
*
66162889 AGGAGAAGAAAA
1 AAGA-AAG-AAA
66162901 AAGAAAGAAA
1 AAGAAAGAAA
*
66162911 AAGAAGGAAA
1 AAGAAAGAAA
* *
66162921 GA-AAAGGAA
1 AAGAAAGAAA
*
66162930 AGGAGAAGAAA
1 AAGA-AAGAAA
*
66162941 AAAAAAGAAA
1 AAGAAAGAAA
*
66162951 GAAG-AAGAAG
1 -AAGAAAGAAA
* * *
66162961 AGGGAAGGAA
1 AAGAAAGAAA
66162971 AAGAAAGAAA
1 AAGAAAGAAA
66162981 AA
1 AA
66162983 AAGATAATTT
Statistics
Matches: 81, Mismatches: 25, Indels: 14
0.68 0.21 0.12
Matches are distributed among these distances:
9 12 0.15
10 49 0.60
11 15 0.19
12 5 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:66163086 original size:2 final size:2
Alignment explanation
Indices: 66163079--66163104 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66163069 TTTATTTAGC
66163079 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
66163105 TATGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66166485 original size:40 final size:42
Alignment explanation
Indices: 66166383--66166517 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 42
66166373 CCACTAACCC
* * *
66166383 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAATAACTAACAC-ATAATAATAAT-ATAGGTTTATACTAAAAA
*
66166427 TAAT-ACTAACTA-ACAATAATAAT-TAGGGTTT-TACTAAAAA
1 TAATAACTAAC-ACATAATAATAATATA-GGTTTATACTAAAAA
* *
66166467 TAATAACTAAC-CATAATAATAATACT-GGTTTTTTACTAACAA
1 TAATAACTAACACATAATAATAATA-TAGG-TTTATACTAAAAA
66166509 TAAT-ACTAA
1 TAATAACTAA
66166518 GTAACATCTA
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
40 26 0.34
41 18 0.23
42 22 0.29
43 6 0.08
44 5 0.06
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (42 bp):
TAATAACTAACACATAATAATAATATAGGTTTATACTAAAAA
Found at i:66166820 original size:27 final size:27
Alignment explanation
Indices: 66166782--66166846 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
66166772 ATAACACGAG
66166782 TGGTGCCGCCTATGGAAAAGGCACCTT
1 TGGTGCCGCCTATGGAAAAGGCACCTT
66166809 TGGTGCCGCCTATGGAAAAGGCACCTT
1 TGGTGCCGCCTATGGAAAAGGCACCTT
66166836 TGGTGCCGCCT
1 TGGTGCCGCCT
66166847 GTCCCATCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCTATGGAAAAGGCACCTT
Found at i:66167155 original size:22 final size:22
Alignment explanation
Indices: 66167123--66167170 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
66167113 TTAGGATGTG
66167123 TTTA-TTTTACA-GAAAATATTT
1 TTTATTTTTACAGGAAAA-ATTT
66167144 TTTATTTTTACAGGAAAAATTT
1 TTTATTTTTACAGGAAAAATTT
66167166 TTTAT
1 TTTAT
66167171 GAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 16 0.64
23 5 0.20
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTATTTTTACAGGAAAAATTT
Found at i:66174895 original size:22 final size:24
Alignment explanation
Indices: 66174851--66174895 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
66174841 TTATCATTGT
**
66174851 TATAAAAAAATATTTAATTATAAC
1 TATAAAAAAATATTTAAAAATAAC
66174875 TATAAAAAAA-A-TTAAAAATAA
1 TATAAAAAAATATTTAAAAATAA
66174896 TTATCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
TATAAAAAAATATTTAAAAATAAC
Found at i:66176826 original size:7 final size:7
Alignment explanation
Indices: 66176814--66176839 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
66176804 GGTATTTTGA
66176814 TTTTATT
1 TTTTATT
66176821 TTTTATT
1 TTTTATT
66176828 TTTTATT
1 TTTTATT
66176835 TTTTA
1 TTTTA
66176840 AAATTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:66178353 original size:16 final size:15
Alignment explanation
Indices: 66178322--66178351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66178312 ACTATTAATA
66178322 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
*
66178337 ATTTTTTTAATATTT
1 ATTTTTTAAATATTT
66178352 TACCATACTC
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:66180541 original size:19 final size:20
Alignment explanation
Indices: 66180485--66180541 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
66180475 ATTAAACTGC
*
66180485 ATTATTATT-GTATTATGGT
1 ATTATTATTAGTATTATGAT
*
66180504 ATTATCTATTATTTATTAT-AT
1 ATTAT-TATTA-GTATTATGAT
66180525 ATTATTATTAGTATTAT
1 ATTATTATTAGTATTAT
66180542 TACTTCCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.34
20 9 0.28
21 6 0.19
22 6 0.19
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTATTATTAGTATTATGAT
Found at i:66180990 original size:12 final size:12
Alignment explanation
Indices: 66180973--66181024 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
66180963 GTACACATGC
66180973 TTGTATATTTAT
1 TTGTATATTTAT
*
66180985 TTGTATATTTTAC
1 TTGTATA-TTTAT
*
66180998 TTGTATATATAT
1 TTGTATATTTAT
66181010 TTGTAAATATTTAT
1 TTGT--ATATTTAT
66181024 T
1 T
66181025 CATATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 14 0.42
13 11 0.33
14 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (12 bp):
TTGTATATTTAT
Found at i:66181001 original size:13 final size:13
Alignment explanation
Indices: 66180972--66181005 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
66180962 CGTACACATG
66180972 CTTGTATA-TTTA
1 CTTGTATATTTTA
*
66180984 TTTGTATATTTTA
1 CTTGTATATTTTA
66180997 CTTGTATAT
1 CTTGTATAT
66181006 ATATTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (13 bp):
CTTGTATATTTTA
Found at i:66181019 original size:27 final size:25
Alignment explanation
Indices: 66180972--66181035 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
66180962 CGTACACATG
*
66180972 CTTGTATATTTATTTGTATATTTTA
1 CTTGTATATATATTTGTATATTTTA
*
66180997 CTTGTATATATATTTGTAAATATTTA
1 CTTGTATATATATTTGTATAT-TTTA
*
66181023 -TT-CATATATATTT
1 CTTGTATATATATTT
66181036 TGAATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.29
25 21 0.60
26 4 0.11
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
CTTGTATATATATTTGTATATTTTA
Found at i:66187218 original size:9 final size:9
Alignment explanation
Indices: 66187204--66187271 Score: 118
Period size: 9 Copynumber: 7.6 Consensus size: 9
66187194 TTTGGTTAAA
66187204 AATTACCCG
1 AATTACCCG
66187213 AATTACCCG
1 AATTACCCG
*
66187222 ATTTACCCG
1 AATTACCCG
66187231 AATTACCCG
1 AATTACCCG
66187240 AATTACCCG
1 AATTACCCG
*
66187249 ATTTACCCG
1 AATTACCCG
66187258 AATTACCCG
1 AATTACCCG
66187267 AATTA
1 AATTA
66187272 AATCACTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:66187242 original size:27 final size:27
Alignment explanation
Indices: 66187204--66187271 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
66187194 TTTGGTTAAA
66187204 AATTACCCGAATTACCCGATTTACCCG
1 AATTACCCGAATTACCCGATTTACCCG
66187231 AATTACCCGAATTACCCGATTTACCCG
1 AATTACCCGAATTACCCGATTTACCCG
66187258 AATTACCCGAATTA
1 AATTACCCGAATTA
66187272 AATCACTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.26
Consensus pattern (27 bp):
AATTACCCGAATTACCCGATTTACCCG
Found at i:66187300 original size:17 final size:17
Alignment explanation
Indices: 66187278--66187412 Score: 67
Period size: 17 Copynumber: 7.4 Consensus size: 17
66187268 ATTAAATCAC
*
66187278 TACATAATTAAAAGCAT
1 TACATAATTAAAAACAT
* * *
66187295 TACATAAATCTTTAAATCAC
1 TACAT-AA--TTAAAAACAT
*
66187315 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
66187332 TACATAAGTCCTTGAATCAC
1 TACATAA-T--TAAAAACAT
66187352 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
*
66187369 TACATAAGTCTTGAATTAAC--
1 TACATAA---TT-AA-AAACAT
66187389 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
66187406 TACATAA
1 TACATAA
66187413 GTCTAGAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
15 3 0.03
16 2 0.02
17 39 0.45
18 3 0.03
19 3 0.03
20 32 0.37
21 2 0.02
22 3 0.03
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:66187310 original size:37 final size:37
Alignment explanation
Indices: 66187269--66187416 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
66187259 ATTACCCGAA
* *
66187269 TTAAATCACTACATAATTAAAAGCATTACATAAATCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
* *
66187306 TTAAATCACTACATAATTAAAAATATTACATAAGTCC
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
*
66187343 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
* * *
66187380 TGAATTAACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
66187417 AGAATTAACA
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (37 bp):
TTAAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:66187320 original size:20 final size:18
Alignment explanation
Indices: 66187269--66187321 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
66187259 ATTACCCGAA
66187269 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
66187286 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
66187306 TTAAATCACTACATAA
1 TTAAATCACTACATAA
66187322 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:66187422 original size:37 final size:37
Alignment explanation
Indices: 66187276--66187433 Score: 221
Period size: 37 Copynumber: 4.3 Consensus size: 37
66187266 GAATTAAATC
* * * * *
66187276 ACTACATAATTAAAAGCATTACATAAATCTTTAAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
* *
66187313 ACTACATAATTAAAAATATTACATAAGTCCTTGAA-TC
1 ACTACATAATTAAAAACATTACATAAGT-CTTGAATTA
66187350 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
*
66187387 ACTACATAATTAAAAACATTACATAAGTCTAGAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
66187424 AC-ACATAATT
1 ACTACATAATT
66187434 GACATGTAAG
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
36 14 0.12
37 93 0.83
38 5 0.04
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTGAATTA
Found at i:66189934 original size:20 final size:20
Alignment explanation
Indices: 66189909--66189950 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
66189899 TCTGCAAGAA
66189909 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
66189929 AAAAAAGTATATAATAAATT
1 AAAAAAGTATATAATAAATT
66189949 AA
1 AA
66189951 TCAGCATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAAGTATATAATAAATT
Found at i:66190205 original size:22 final size:22
Alignment explanation
Indices: 66190179--66190224 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
66190169 ATCAGTAATT
*
66190179 ATTTGTATGACTTTAGAACCTA
1 ATTTGCATGACTTTAGAACCTA
66190201 ATTTGCATGACTTTAGAACCTA
1 ATTTGCATGACTTTAGAACCTA
66190223 AT
1 AT
66190225 AATAATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (22 bp):
ATTTGCATGACTTTAGAACCTA
Found at i:66190227 original size:25 final size:25
Alignment explanation
Indices: 66190174--66190227 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 25
66190164 AATTCATCAG
* *
66190174 TAATTATTTGTATGACTTTAGAACC
1 TAATAATTTGCATGACTTTAGAACC
66190199 ---TAATTTGCATGACTTTAGAACC
1 TAATAATTTGCATGACTTTAGAACC
66190221 TAATAAT
1 TAATAAT
66190228 AATGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
22 20 0.83
25 4 0.17
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (25 bp):
TAATAATTTGCATGACTTTAGAACC
Found at i:66190476 original size:25 final size:25
Alignment explanation
Indices: 66190431--66190484 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
66190421 GGTTTTTTAT
* *
66190431 TTTTATTTATTTAATTTATTACATA-
1 TTTTATTTATTAAATTAATTA-ATAG
66190456 TTTTATTT-TTAAATTAAATTAATAG
1 TTTTATTTATTAAATT-AATTAATAG
66190481 TTTT
1 TTTT
66190485 TACCTGCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATTTATTAAATTAATTAATAG
Found at i:66191220 original size:17 final size:17
Alignment explanation
Indices: 66191179--66191222 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
66191169 CAGCCAGCAA
* *
66191179 GTTTAAAATTGGGTTGG
1 GTTTAAATTTGGGCTGG
66191196 GTTTAAATTTGGGCTGG
1 GTTTAAATTTGGGCTGG
66191213 GTTTAAATTT
1 GTTTAAATTT
66191223 AACTGGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (17 bp):
GTTTAAATTTGGGCTGG
Found at i:66193596 original size:14 final size:14
Alignment explanation
Indices: 66193559--66193596 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
66193549 TGCAAAAATT
66193559 GAATTTTTT-TTAA
1 GAATTTTTTATTAA
*
66193572 -AATTTTATATTAA
1 GAATTTTTTATTAA
66193585 GAATTTTTTATT
1 GAATTTTTTATT
66193597 TATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 4 0.19
14 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
GAATTTTTTATTAA
Found at i:66195774 original size:19 final size:19
Alignment explanation
Indices: 66195750--66195786 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
66195740 ATTAATGTGA
66195750 TTAATA-TGTTAGTATATTG
1 TTAATATTGTTA-TATATTG
66195769 TTAATATTGTTATATATT
1 TTAATATTGTTATATATT
66195787 AAGGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TTAATATTGTTATATATTG
Found at i:66198677 original size:50 final size:46
Alignment explanation
Indices: 66198569--66198683 Score: 113
Period size: 50 Copynumber: 2.4 Consensus size: 46
66198559 GCTCCTAGGG
* * *
66198569 GCATAGGGAGAGTCTTATGAAAGGTAATAAAAGCCCTACTCTCAAAT
1 GCATAGGG-GAGACTTATGAAAGGTAATAAAAACCCTACTCCCAAAT
* * *
66198616 GAATGGGGGGAGACTTATGAAAGGTAATAATAATAACCTTACTCCCAAAT
1 GCAT-AGGGGAGACTTATGAAAGGTAAT-A-AA-AACCCTACTCCCAAAT
*
66198666 GCATAGAGGGAGGCTTAT
1 GCATAG-GGGAGACTTAT
66198684 AGAAGGTGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
47 21 0.39
48 4 0.07
49 3 0.06
50 26 0.48
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
GCATAGGGGAGACTTATGAAAGGTAATAAAAACCCTACTCCCAAAT
Found at i:66198690 original size:50 final size:49
Alignment explanation
Indices: 66198622--66198738 Score: 112
Period size: 50 Copynumber: 2.3 Consensus size: 49
66198612 AAATGAATGG
*
66198622 GGGGAGACTTAT-GAAAGGTAATAAT-AATAACCTTACTCCCAAATGCATA
1 GGGGAGGCTTATAG-AAGGTAATAATAAAT-ACCTTACTCCCAAATGCATA
** * * * *
66198671 GAGGGAGGCTTATAGAAGGTGGTAATAAATGCCTTATTCCCAGACGCATA
1 G-GGGAGGCTTATAGAAGGTAATAATAAATACCTTACTCCCAAATGCATA
*
66198721 GGGAAAGGCTTATAGAAG
1 GGG-GAGGCTTATAGAAG
66198739 ATGGTGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
49 3 0.05
50 49 0.88
51 4 0.07
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (49 bp):
GGGGAGGCTTATAGAAGGTAATAATAAATACCTTACTCCCAAATGCATA
Found at i:66198780 original size:50 final size:50
Alignment explanation
Indices: 66198666--66198782 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
66198656 ACTCCCAAAT
* * *
66198666 GCATAGAGGGAGGCTTATAGAAGGTGGTAATAAATGCCTTATTCCCAGAC
1 GCATAGGGGGAGGCTTATAGAAGATGGTAATAAATGCCCTATTCCCAGAC
** ** * *
66198716 GCATAGGGAAAGGCTTATAGAAGATGGTGGTAAATTCCCTACTT-CTAGAC
1 GCATAGGGGGAGGCTTATAGAAGATGGTAATAAATGCCCTA-TTCCCAGAC
*
66198766 GCATGGGGGGAGGCTTA
1 GCATAGGGGGAGGCTTA
66198783 CAATAAAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 52 0.96
51 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (50 bp):
GCATAGGGGGAGGCTTATAGAAGATGGTAATAAATGCCCTATTCCCAGAC
Found at i:66199891 original size:17 final size:16
Alignment explanation
Indices: 66199869--66199903 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
66199859 CATGAATCGC
66199869 TGGTCTAATATACATCA
1 TGGTCTAATATAC-TCA
66199886 TGGTCTAATATACTCA
1 TGGTCTAATATACTCA
66199902 TG
1 TG
66199904 AACAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (16 bp):
TGGTCTAATATACTCA
Found at i:66201669 original size:43 final size:43
Alignment explanation
Indices: 66201608--66201694 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
66201598 ATTCGATGTA
66201608 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
1 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
*
66201651 TGATCACCCGATTAAGCCATGATTGTGTATGCCAATATAAATG
1 TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
66201694 T
1 T
66201695 ATGAAATGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (43 bp):
TGATCACCCGATTAAGCCATGATTGTATATGCCAATATAAATG
Found at i:66221087 original size:18 final size:18
Alignment explanation
Indices: 66221066--66221139 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
66221056 CCACTCTTAT
*
66221066 ATTGTCCACCATATTTGG
1 ATTGTCCGCCATATTTGG
66221084 ATTGTTCGCCGCCATATTTGG
1 ATTG-T--CCGCCATATTTGG
* *
66221105 ATTGCCCGTCATATTTGG
1 ATTGTCCGCCATATTTGG
*
66221123 ACTGTCCGCCATATTTG
1 ATTGTCCGCCATATTTG
66221140 ATAGTTTGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 30 0.64
19 1 0.02
21 16 0.34
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (18 bp):
ATTGTCCGCCATATTTGG
Found at i:66222454 original size:22 final size:22
Alignment explanation
Indices: 66222426--66222544 Score: 166
Period size: 22 Copynumber: 5.4 Consensus size: 22
66222416 TTTATTGTTC
*
66222426 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
66222448 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
66222470 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
66222492 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
66222514 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
66222536 AAACATGAG
1 AAACATGAG
66222545 TAAAACGACA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 86 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:66223297 original size:51 final size:50
Alignment explanation
Indices: 66223211--66223587 Score: 328
Period size: 51 Copynumber: 7.4 Consensus size: 50
66223201 TACCTATGAA
* * * *
66223211 CACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATC-GATAGATAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCT--TGGT
* * *
66223262 CACATGTGTAGTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-CTTGGT
* * * * * * **
66223313 CACGTGTATAGTACTATGTGTAGGCTACTACGTGAACCGAAAAGCTTGAA
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCTTGGT
* * * * *
66223363 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATAGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCT--TGGT
* * *
66223414 CACATGTCTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-CTTGGT
* * * ** * *
66223465 CACGTGTGTAGTACTATGTGCAGGCTATTACGTGAACCAAAAAGCTTGAT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCTTGGT
* * * * *
66223515 CACATGTGTAGTACTATGTGTAGGCTAATATGTGTATCGGAT-GACAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-C-TTGGT
* *
66223566 CACATGGGTGGTACTATGTGCA
1 CACATGTGTAGTACTATGTGCA
66223588 AACCACCGAA
Statistics
Matches: 257, Mismatches: 61, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
49 5 0.02
50 76 0.30
51 166 0.65
52 8 0.03
53 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCTTGGT
Found at i:66223398 original size:101 final size:100
Alignment explanation
Indices: 66223266--66223541 Score: 293
Period size: 101 Copynumber: 2.7 Consensus size: 100
66223256 AATGGTCACA
* * * *
66223266 TGTGTAGTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGTCACGTGTATAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAG-CTTGGTCACATGTATAGTACTATG
66223331 TGTAGGCTACTACGTGAACCGAAAAG-CTTGAACACG
64 TGTAGGCTACTACGTGAACCGAAAAGCCTTGAACACG
* * * * *
66223367 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATAGTCACATGTCTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATAGCT--TGGTCACATGTATAGTACTATG
* * * * ** **
66223432 TGCAGGCTACTATGTGTACCGGATGGCCTTGGTCACG
64 TGTAGGCTACTACGTGAACCGAAAAGCCTTGAACACG
* * * * * *
66223469 TGTGTAGTACTATGTGCAGGCTATTACGTGAACCAAAAAGCTTGATCACATGTGTAGTACTATGT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GATAGCTTGGTCACATGTATAGTACTATGT
66223534 GTAGGCTA
65 GTAGGCTA
66223542 ATATGTGTAT
Statistics
Matches: 143, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
99 1 0.01
100 4 0.03
101 96 0.67
102 38 0.27
103 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATAGCTTGGTCACATGTATAGTACTATGTG
TAGGCTACTACGTGAACCGAAAAGCCTTGAACACG
Found at i:66223483 original size:152 final size:152
Alignment explanation
Indices: 66223207--66223587 Score: 602
Period size: 152 Copynumber: 2.5 Consensus size: 152
66223197 AAAGTACCTA
66223207 TGAACACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATCGATAGATAATGGTCACATGTGTA
1 TGAACACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATCGATAGATAATGGTCACATGTGTA
*
66223272 GTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGTCACGTGTATAGTACTATGTGTAGG
66 GTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGTCACGTGTATAGTACTATGTGCAGG
*
66223337 CTACTACGTGAACCGAAAAGCT
131 CTACTACGTGAACCAAAAAGCT
* * * *
66223359 TGAACACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATAGTCACATGTCTA
1 TGAACACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATCGATAGATAATGGTCACATGTGTA
* *
66223424 GTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGTCACGTGTGTAGTACTATGTGCAGG
66 GTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGTCACGTGTATAGTACTATGTGCAGG
*
66223489 CTATTACGTGAACCAAAAAGCT
131 CTACTACGTGAACCAAAAAGCT
* * * * * *
66223511 TGATCACATGTGTAGTACTATGTGTAGGCTAATATGTGTATCGGAT-GACAATGGTCACATGGGT
1 TGAACACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATC-GATAGATAATGGTCACATGTGT
*
66223575 GGTACTATGTGCA
65 AGTACTATGTGCA
66223588 AACCACCGAA
Statistics
Matches: 208, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
152 205 0.99
153 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (152 bp):
TGAACACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATCGATAGATAATGGTCACATGTGTA
GTACTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGTCACGTGTATAGTACTATGTGCAGG
CTACTACGTGAACCAAAAAGCT
Found at i:66223548 original size:101 final size:99
Alignment explanation
Indices: 66223211--66223587 Score: 292
Period size: 101 Copynumber: 3.7 Consensus size: 99
66223201 TACCTATGAA
* *
66223211 CACATGTGTAGTACTAAGTGCAGGCTAATACGTGTATC-GATAGATAATGGTCACATGTGTAGTA
1 CACATGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGATAGAT--TGGTCACATGTGTAGTA
* * * ** **
66223275 CTATGTGCAGCCTACTATGTGTACCGGATGGCCTTGGT
64 CTATGTGCAGGCTACTACGTGAACCAAAAAG-CTT-GT
* * * * * * * * ** *
66223313 CACGTGTATAGTACTATGTGTAGGCTACTACGTGAACCGAAAAGCTTGAACACGTGTGTAGTACT
1 CACATGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGATAGATTGGTCACATGTGTAGTACT
* * * *
66223378 AAGTGCAGGCTACTACGTGTATCGATAGATAA--TAGT
66 ATGTGCAGGCTACTACGTG-AACCA-A-A-AAGCTTGT
* * * * * *
66223414 CACATGTCTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGTCACGTGTGTAGTAC
1 CACATGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGATAG-ATTGGTCACATGTGTAGTAC
*
66223479 TATGTGCAGGCTATTACGTGAACCAAAAAGCTTGAT
65 TATGTGCAGGCTACTACGTGAACCAAAAAGCTTG-T
* * * * * * *
66223515 CACATGTGTAGTACTATGTGTAGGCTAATATGTGTATCGGATGACAATGGTCACATGGGTGGTAC
1 CACATGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGAT-AGATTGGTCACATGTGTAGTAC
66223580 TATGTGCA
65 TATGTGCA
66223588 AACCACCGAA
Statistics
Matches: 215, Mismatches: 50, Indels: 21
0.75 0.17 0.07
Matches are distributed among these distances:
98 2 0.01
99 1 0.00
100 3 0.01
101 135 0.63
102 69 0.32
103 4 0.02
104 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
CACATGTGTAGTACTATGTGCAGGCTAATACGTGTACCGGATAGATTGGTCACATGTGTAGTACT
ATGTGCAGGCTACTACGTGAACCAAAAAGCTTGT
Found at i:66225404 original size:25 final size:25
Alignment explanation
Indices: 66225374--66225422 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
66225364 ATATAAATAT
66225374 GAAAATATTCATTAAAAAAATATAG
1 GAAAATATTCATTAAAAAAATATAG
* * *
66225399 GAAAATATTCGTTTAAAATATATA
1 GAAAATATTCATTAAAAAAATATA
66225423 TATATATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCATTAAAAAAATATAG
Found at i:66225597 original size:39 final size:39
Alignment explanation
Indices: 66225543--66225621 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
66225533 GAACTCTTGG
*
66225543 TTTGAAAATAATCTCTTTTTTATTGATTTCAGTTTTTTT
1 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
*
66225582 TTTGAAAATAATCTCTTTTTTATTGGTTTCAGATTTTTT
1 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
66225621 T
1 T
66225622 GGCCCCTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.08, G:0.09, T:0.61
Consensus pattern (39 bp):
TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
Found at i:66226376 original size:132 final size:132
Alignment explanation
Indices: 66226151--66227045 Score: 1601
Period size: 132 Copynumber: 6.8 Consensus size: 132
66226141 TAAAACTTAC
* * *
66226151 AATCTTCAATCTATTTCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
66226216 AACCACAGGGAGGTAAAATCCGCAATCTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226281 GA
131 GA
66226283 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
66226348 AACCACTGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226413 GA
131 GA
* * * *
66226415 AATCTTAAATCTATTCCATTGTTGTCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
66226480 AACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226545 GA
131 GA
* *
66226547 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
66226612 AACCACAGGGAGGTAAAATCCGCCATCTCCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226677 GA
131 GA
* * * *
66226679 AATCTTCAATCTATTCCATTGTTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
66226744 AACGACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226809 GA
131 GA
66226811 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
66226876 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66226941 GA
131 GA
66226943 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
66227008 AACCACAGGGAGGTAAAATCTGCCATCTTCGATTTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66227046 TCGCTGTCAA
Statistics
Matches: 732, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 732 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:66226974 original size:44 final size:44
Alignment explanation
Indices: 66226197--66226974 Score: 202
Period size: 44 Copynumber: 17.7 Consensus size: 44
66226187 GAATTACTGG
* * ** * * * *
66226197 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAAAT
* * * **
66226242 CTTCGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* * *
66226286 CTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAAAT
* ** * * * * **
66226329 CTTCAATGTACTCCACTATAACCACTGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAAAT
* * * **
66226374 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* * * * * * *
66226418 CTTAAATCTATTCCATTGTTGTCCAGGGA-AGT-AGAAT-T-ACTAG
1 CTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-ATCTGA-AAT
* ** * * * *
66226461 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC-CACCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGA-AAT
* * * **
66226506 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* * *
66226550 CTTCAATCTATTCCACTATTGTCCAGGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAAAT
* ** * * * **
66226593 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAAAT
* * * * **
66226638 CTCCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* * * * * *
66226682 CTTCAATCTATTCCATTGTTGTCCAAGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAAAT
* * ** * * * * **
66226725 CTTCAATGTACTCCACTGTAACGACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTATTGC-CCAGGGAGATAAGATCTGAAAT
* * * **
66226770 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* * *
66226814 CTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAAAT
* ** * * * **
66226857 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAAAT
* * * **
66226902 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
* *
66226946 CTTCAATCTATTCCACTGTTGCCCAGGGA
1 CTTCAATCTACTCCACTATTGCCCAGGGA
66226975 AGTAGAATTA
Statistics
Matches: 497, Mismatches: 187, Indels: 99
0.63 0.24 0.13
Matches are distributed among these distances:
42 9 0.02
43 106 0.21
44 264 0.53
45 106 0.21
46 12 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAAAT
Found at i:66228418 original size:20 final size:19
Alignment explanation
Indices: 66228391--66228438 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
66228381 CCATTTTTCC
*
66228391 TTTTTTTTTCATTT-TTTG
1 TTTTTTTTTTATTTGTTTG
*
66228409 TTTTTGTTTTTGTTTGTTTG
1 TTTTT-TTTTTATTTGTTTG
66228429 TTTTTTTTTT
1 TTTTTTTTTT
66228439 GAATCTGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 9 0.35
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTATTTGTTTG
Found at i:66228419 original size:14 final size:13
Alignment explanation
Indices: 66228391--66228438 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
66228381 CCATTTTTCC
**
66228391 TTTTTTTTTCATT
1 TTTTTTTTTTGTT
*
66228404 TTTTGTTTTTGTT
1 TTTTTTTTTTGTT
*
66228417 TTTGTTTGTTTGTT
1 TTT-TTTTTTTGTT
66228431 TTTTTTTT
1 TTTTTTTT
66228439 GAATCTGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:66233210 original size:23 final size:24
Alignment explanation
Indices: 66233182--66233236 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
66233172 ATATACATAT
66233182 AAATAT-GAAAATATTCATTAAAA
1 AAATATAGAAAATATTCATTAAAA
* *
66233205 AAATATAGGAAAATATTCGTTTAAA
1 AAATATA-GAAAATATTCATTAAAA
66233230 AAATATA
1 AAATATA
66233237 TATGTGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 6 0.21
25 22 0.79
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (24 bp):
AAATATAGAAAATATTCATTAAAA
Found at i:66233218 original size:25 final size:25
Alignment explanation
Indices: 66233188--66233236 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
66233178 ATATAAATAT
66233188 GAAAATATTCATTAAAAAAATATAG
1 GAAAATATTCATTAAAAAAATATAG
* *
66233213 GAAAATATTCGTTTAAAAAATATA
1 GAAAATATTCATTAAAAAAATATA
66233237 TATGTGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
GAAAATATTCATTAAAAAAATATAG
Found at i:66234190 original size:39 final size:39
Alignment explanation
Indices: 66234136--66234214 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
66234126 GAACTCTTGG
66234136 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
1 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
66234175 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
1 TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
66234214 T
1 T
66234215 GGCCCCTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (39 bp):
TTTGAAAATAATCTCTTTTTTATTGATTTCAGATTTTTT
Found at i:66236476 original size:67 final size:67
Alignment explanation
Indices: 66236368--66236498 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
66236358 TTTTCAATTC
* *
66236368 AGAGAGCACACTCCCGTGAACCTTATTTCTTACAGCGGGATTACCAGTCTAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
66236433 CA
66 CA
66236435 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
66236499 ATAATATAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:66244604 original size:24 final size:20
Alignment explanation
Indices: 66244575--66244629 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
66244565 CTTATATTTA
66244575 AATTAAATTTTAACTACTTAATT
1 AATTAAA-TTTAAC--CTTAATT
66244598 AACTT-AATTTAACCTTAATT
1 AA-TTAAATTTAACCTTAATT
*
66244618 AATTAAAATTAA
1 AATTAAATTTAA
66244630 TCACCATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
22 6 0.21
23 4 0.14
24 2 0.07
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAAATTTAACCTTAATT
Found at i:66247099 original size:38 final size:38
Alignment explanation
Indices: 66247057--66247158 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 38
66247047 TGAATATAAT
* * *
66247057 AATTAAAATTACCATAATTATAATAATGTTTGATAAAA
1 AATTAAAATTACAATAATTATAACAATATTTGATAAAA
* * * ***
66247095 AATTACAATTATAGTAATTATAACAATATTTGATCCTA
1 AATTAAAATTACAATAATTATAACAATATTTGATAAAA
*
66247133 AATTATAATTACAATAATTATAACAA
1 AATTAAAATTACAATAATTATAACAA
66247159 GGATTTGGGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTAAAATTACAATAATTATAACAATATTTGATAAAA
Found at i:66248847 original size:14 final size:14
Alignment explanation
Indices: 66248828--66248854 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66248818 AAAAGAGAGG
66248828 AAATCAGTGTAAAA
1 AAATCAGTGTAAAA
66248842 AAATCAGTGTAAA
1 AAATCAGTGTAAA
66248855 GAGAAAAAAG
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:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
AAATCAGTGTAAAA
Found at i:66248863 original size:20 final size:20
Alignment explanation
Indices: 66248838--66248875 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66248828 AAATCAGTGT
66248838 AAAAAAATCAGTGTAAAGAG
1 AAAAAAATCAGTGTAAAGAG
*
66248858 AAAAAAGTCAGTGTAAAG
1 AAAAAAATCAGTGTAAAG
66248876 GGAGGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (20 bp):
AAAAAAATCAGTGTAAAGAG
Found at i:66249716 original size:24 final size:24
Alignment explanation
Indices: 66249688--66249911 Score: 132
Period size: 24 Copynumber: 9.7 Consensus size: 24
66249678 ATTTTATATC
* **
66249688 ATTATTTTAGATTTATCATGTTTT
1 ATTATTTTAAATTTATCATGTAAT
* *
66249712 ATTATTTGT-AATTTATCA-ATATT
1 ATTATTT-TAAATTTATCATGTAAT
* * *
66249735 ATTATTTTAAATTCATCGT-TAAC
1 ATTATTTTAAATTTATCATGTAAT
66249758 ATTATTTTAAATTTATCATGT-AT
1 ATTATTTTAAATTTATCATGTAAT
*
66249781 ATCTATTTCAAATTTATCAT-TAAT
1 AT-TATTTTAAATTTATCATGTAAT
* * *
66249805 A-T-TTTTAAATTTATTATATACT
1 ATTATTTTAAATTTATCATGTAAT
** *
66249827 ATTATTTTGGATTTATCACGT-AT
1 ATTATTTTAAATTTATCATGTAAT
* *
66249850 GATTATTCTAGAA-TTATCAT-CAA-
1 -ATTATTTTA-AATTTATCATGTAAT
* *
66249873 AAT-TTTTAAATTTTAT-ATGTATT
1 ATTATTTTAAA-TTTATCATGTAAT
*
66249896 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
66249912 TATATATTAT
Statistics
Matches: 152, Mismatches: 31, Indels: 35
0.70 0.14 0.16
Matches are distributed among these distances:
20 2 0.01
21 19 0.12
22 13 0.09
23 49 0.32
24 67 0.44
25 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (24 bp):
ATTATTTTAAATTTATCATGTAAT
Found at i:66249771 original size:46 final size:46
Alignment explanation
Indices: 66249712--66249834 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 46
66249702 ATCATGTTTT
*
66249712 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTT-TAAATTTATCAATATTATTATTTTAAATTCATCATTAAC
* * * *
66249758 ATTATTTTAAATTTATC-ATGTATATCTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCAATAT-TAT-TATTTTAAATTCATCATTAAC
* *
66249805 A-T-TTTTAAATTTATTATATACTATTATTTT
1 ATTATTTTAAATTTATCA-ATATTATTATTTT
66249835 GGATTTATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 21 0.33
46 22 0.35
47 20 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTTAAATTCATCATTAAC
Found at i:66249788 original size:70 final size:68
Alignment explanation
Indices: 66249687--66249815 Score: 170
Period size: 70 Copynumber: 1.9 Consensus size: 68
66249677 TATTTTATAT
* * ** *
66249687 CATTATTTTAGATTTATCATGTTTTATTATTTGTAATTTATCAATATTATTATTTTAAATTCATC
1 CATTATTTTAAATTTATCATGTTATATTATTTCAAATTTATCAATAATA-T-TTTTAAATTCATC
66249752 GTTAA
64 GTTAA
*
66249757 CATTATTTTAAATTTATCATG-TATATCTATTTCAAATTTATCATTAATATTTTTAAATT
1 CATTATTTTAAATTTATCATGTTATAT-TATTTCAAATTTATCAATAATATTTTTAAATT
66249816 TATTATATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 9 0.17
69 5 0.10
70 38 0.73
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (68 bp):
CATTATTTTAAATTTATCATGTTATATTATTTCAAATTTATCAATAATATTTTTAAATTCATCGT
TAA
Found at i:66249910 original size:69 final size:69
Alignment explanation
Indices: 66249758--66249911 Score: 172
Period size: 69 Copynumber: 2.2 Consensus size: 69
66249748 CATCGTTAAC
* * *
66249758 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTATA
1 ATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATA
66249823 TACT
66 TACT
**
66249827 ATTATTTTGGATTTATCACGTATGAT-TA-TTCTAGAA-TTATCATCAAAATTTTTAAATTT-TA
1 ATTATTTTAAATTTATCACGTAT-ATCTATTTC-A-AATTTATCATCAAAATTTTTAAATTTAT-
* *
66249888 TATGTATT
62 TATATACT
*
66249896 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
66249912 TATATATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
68 4 0.06
69 63 0.89
70 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATA
TACT
Found at i:66249935 original size:24 final size:23
Alignment explanation
Indices: 66249877--66249935 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
66249867 CATCAAAATT
66249877 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
66249900 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
66249925 TTGTAAATTAT
1 TT-TAAATTAT
66249936 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:66263199 original size:19 final size:18
Alignment explanation
Indices: 66263165--66263210 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
66263155 TAAGTATGAT
*
66263165 TTTTTATT-T-TATCTTA
1 TTTTTATTATGTACCTTA
66263181 GTTTTTATTATGTACCTTA
1 -TTTTTATTATGTACCTTA
66263200 TTTTT-TTATGT
1 TTTTTATTATGT
66263211 TATCTCAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 14 0.54
18 6 0.23
19 6 0.23
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTTATTATGTACCTTA
Found at i:66266419 original size:45 final size:45
Alignment explanation
Indices: 66266344--66266429 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
66266334 TATACGCCTA
* *
66266344 AAATGAGTAGGACCATAGCTAAAAGATGCTATTACATCATGATAT
1 AAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAT
*
66266389 AAATGAGTAAGACCATGGCTGAAAAG-TGCTATGACATCATG
1 AAATGAGTAAGACCATAGCT-AAAAGATGCTATGACATCATG
66266430 TGAAAGTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 32 0.86
46 5 0.14
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATAT
Found at i:66269716 original size:11 final size:11
Alignment explanation
Indices: 66269700--66269725 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66269690 CCAAATTTTA
66269700 ATTTTCACCCT
1 ATTTTCACCCT
66269711 ATTTTCACCCT
1 ATTTTCACCCT
66269722 ATTT
1 ATTT
66269726 CCCCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTCACCCT
Found at i:66274121 original size:27 final size:27
Alignment explanation
Indices: 66274086--66274193 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 27
66274076 ACGACATCAT
*
66274086 AGATTGTCCGATAGGACATTAAACACG
1 AGATAGTCCGATAGGACATTAAACACG
** *
66274113 AGATAGTCCGACGGGA-AGTTAAACATG
1 AGATAGTCCGATAGGACA-TTAAACACG
* * * *
66274140 -GCATAGTCTGATGGGACGTTAAACACA
1 AG-ATAGTCCGATAGGACATTAAACACG
* * * *
66274167 AGGTAGTCCGTTAGGACAGTAACCACG
1 AGATAGTCCGATAGGACATTAAACACG
66274194 GGTGGTCAAC
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (27 bp):
AGATAGTCCGATAGGACATTAAACACG
Found at i:66277310 original size:9 final size:10
Alignment explanation
Indices: 66277290--66277318 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
66277280 CATTTATGTT
66277290 TTTCTATTCA
1 TTTCTATTCA
66277300 TTTCT-TTCA
1 TTTCTATTCA
66277309 TTTCTATTCA
1 TTTCTATTCA
66277319 AACACGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:66279116 original size:31 final size:31
Alignment explanation
Indices: 66279073--66279193 Score: 152
Period size: 31 Copynumber: 3.9 Consensus size: 31
66279063 TATGTGATAG
* *
66279073 TACATGGTATAAATATGCTATTATGAATGAT
1 TACAGGGTATAAATATGCAATTATGAATGAT
* * *
66279104 TACAGGGTATAAATATGTAGTTATGAATGGT
1 TACAGGGTATAAATATGCAATTATGAATGAT
* **
66279135 TGCAGGGTATAAATATAAAATTATGAATGAT
1 TACAGGGTATAAATATGCAATTATGAATGAT
* *
66279166 TACAGGGTATGAATATGCAAATATGAAT
1 TACAGGGTATAAATATGCAATTATGAAT
66279194 AGTTGATGGC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (31 bp):
TACAGGGTATAAATATGCAATTATGAATGAT
Found at i:66279191 original size:62 final size:62
Alignment explanation
Indices: 66279078--66279198 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 62
66279068 GATAGTACAT
*** * ** *
66279078 GGTATAAATATGCTATTATGAATGATTACAGGGTATAAATATGTAGTTATGAATGGTTGCAG
1 GGTATAAATATAAAATTATGAATGATTACAGGGTATAAATATGCAAATATGAATAGTTGCAG
*
66279140 GGTATAAATATAAAATTATGAATGATTACAGGGTATGAATATGCAAATATGAATAGTTG
1 GGTATAAATATAAAATTATGAATGATTACAGGGTATAAATATGCAAATATGAATAGTTG
66279199 ATGGCCATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (62 bp):
GGTATAAATATAAAATTATGAATGATTACAGGGTATAAATATGCAAATATGAATAGTTGCAG
Found at i:66281759 original size:9 final size:9
Alignment explanation
Indices: 66281745--66281781 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
66281735 CAACTAATTA
66281745 TAACAATAT
1 TAACAATAT
*
66281754 TAACAACATT
1 TAACAATA-T
66281764 TAACAATAT
1 TAACAATAT
66281773 TAACAATAT
1 TAACAATAT
66281782 CACTAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (9 bp):
TAACAATAT
Found at i:66283634 original size:24 final size:23
Alignment explanation
Indices: 66283613--66283657 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
66283603 TTACAAATAG
*
66283613 AAAATAAAGTTAAGTAAGAAATGA
1 AAAATAAAATTAAGTAA-AAATGA
66283637 AAAATAAAATTAAGTAAAAAT
1 AAAATAAAATTAAGTAAAAAT
66283658 TGTCCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (23 bp):
AAAATAAAATTAAGTAAAAATGA
Found at i:66288785 original size:45 final size:45
Alignment explanation
Indices: 66288721--66288808 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
66288711 ATAGATACTT
* *
66288721 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
*
66288766 GGTGGAATCAGCACATAGCAACTACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
66288809 TCTGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:66288874 original size:51 final size:50
Alignment explanation
Indices: 66288819--66289005 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
66288809 TCTGTTCACA
* **
66288819 TAGTAGCCTGCACATAGTACTACACAAGTGACCATTACCATCCACTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * * * *
66288870 TAGTAGCCTACACATGGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * *
66288921 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
66288971 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
66289006 CACTTTCACT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.37
51 66 0.59
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:66288994 original size:101 final size:101
Alignment explanation
Indices: 66288817--66289001 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
66288807 GTTCTGTTCA
*
66288817 CATAGTAGCCTGCACATAGTACTACACAAGTGACCATTACCATCCACTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCA-TACCATCCACTACACGTAGTAGCCTACA
*
66288882 CATGGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * ** *
66288919 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCATACCA-TCCACTACACGTAGTAGCCTACA
66288983 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
66289002 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACAAGCGACCATACCATCCACTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:66291347 original size:19 final size:19
Alignment explanation
Indices: 66291319--66291359 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
66291309 TAAAATTTAA
66291319 ATTTAACCCT-TAAAATGC
1 ATTTAACCCTATAAAATGC
66291337 ATTTCAACCCTCATAAAATGC
1 ATTT-AACCCT-ATAAAATGC
66291358 AT
1 AT
66291360 AACTTAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
21 10 0.50
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTTAACCCTATAAAATGC
Found at i:66300241 original size:42 final size:42
Alignment explanation
Indices: 66300177--66300260 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
66300167 AAACACTCTC
*
66300177 CAACACACCAACATATCCCGATGAATGGAGCTTAGCTCGACA
1 CAACACACCAACATATCCCGATGAATGAAGCTTAGCTCGACA
* *
66300219 CAACACACCAACATATCTCGATGAATGAAGCTTAGCTTGACA
1 CAACACACCAACATATCCCGATGAATGAAGCTTAGCTCGACA
66300261 TTCCCTTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (42 bp):
CAACACACCAACATATCCCGATGAATGAAGCTTAGCTCGACA
Found at i:66305952 original size:21 final size:21
Alignment explanation
Indices: 66305906--66305952 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
66305896 AATTTTCAAT
*
66305906 ATTATTAAATATATATTTATA
1 ATTAATAAATATATATTTATA
* *
66305927 TTTAATAAATTATGTATTT-TA
1 ATTAATAAA-TATATATTTATA
66305948 ATTAA
1 ATTAA
66305953 ATCATTTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTAATAAATATATATTTATA
Found at i:66312693 original size:41 final size:40
Alignment explanation
Indices: 66312646--66312728 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 40
66312636 ATTTTTTAGT
** *
66312646 TTAGGGTTTTGTTAAAATAATTTAGGTTTAGGGTTGTAGGG
1 TTAGGGTTTCATTAAAATAATTTAGGTTTAGGATT-TAGGG
66312687 TTAGGGTTTCATTAAAATAATTTAGGTTTAGGATTTAGGG
1 TTAGGGTTTCATTAAAATAATTTAGGTTTAGGATTTAGGG
66312727 TT
1 TT
66312729 TAAGAATTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 7 0.18
41 32 0.82
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.45
Consensus pattern (40 bp):
TTAGGGTTTCATTAAAATAATTTAGGTTTAGGATTTAGGG
Found at i:66312747 original size:41 final size:41
Alignment explanation
Indices: 66312659--66312743 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
66312649 GGGTTTTGTT
* * ** *
66312659 AAAATAATTTAGGTTTAGGGTTGTAGGGTTAGGGTTTCATT
1 AAAATAATTTAGGTTTAGGATTGTAGGGTTAAGAATTCATA
66312700 AAAATAATTTAGGTTTAGGATT-TAGGGTTTAAGAATTC-TA
1 AAAATAATTTAGGTTTAGGATTGTAGGG-TTAAGAATTCATA
66312740 AAAA
1 AAAA
66312744 ATAAATCAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
40 10 0.26
41 28 0.74
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (41 bp):
AAAATAATTTAGGTTTAGGATTGTAGGGTTAAGAATTCATA
Found at i:66312870 original size:34 final size:34
Alignment explanation
Indices: 66312745--66312862 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
66312735 TTCTAAAAAA
* *
66312745 TAAATCAAGGTTTAGAGTTATTTTTAAA-AATTTAAT
1 TAAATTAAGGTTTAGAG---TTTTTAAATAAATTAAT
* *
66312781 TAAACT-AGGTTTTCAG-GGTTTTAAATAAATTAAT
1 TAAATTAAGG-TTT-AGAGTTTTTAAATAAATTAAT
*
66312815 TAATTTAAGGTTTAGAGTTTTTAAGA-AAATTAAT
1 TAAATTAAGGTTTAGAGTTTTTAA-ATAAATTAAT
*
66312849 TAAATTAGGGTTTA
1 TAAATTAAGGTTTA
66312863 ATTTTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
33 9 0.13
34 41 0.61
35 7 0.10
36 8 0.12
37 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (34 bp):
TAAATTAAGGTTTAGAGTTTTTAAATAAATTAAT
Found at i:66312963 original size:16 final size:16
Alignment explanation
Indices: 66312942--66312996 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
66312932 CTCTGGTTCA
*
66312942 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
66312958 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
66312974 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
66312990 CTGTAAT
1 CTGTAAT
66312997 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:66313070 original size:44 final size:46
Alignment explanation
Indices: 66312978--66313071 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
66312968 ATAGAGCTGT
*
66312978 AATGGAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
*
66313024 AATGGAATAGAACTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
66313068 AATG
1 AATG
66313072 ATGTTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 3 0.07
46 18 0.40
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:66313157 original size:6 final size:6
Alignment explanation
Indices: 66313146--66313174 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
66313136 AGGTAGATGA
66313146 TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATT
66313175 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:66313267 original size:58 final size:57
Alignment explanation
Indices: 66313177--66313285 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
66313167 TTGTTATTAA
*
66313177 ATTTTAATAAGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTGACCAT
1 ATTTTAACAAGATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTGACCAT
* * * *
66313235 ATTTTAACATGATTATTATTAAATATAATTTAATATAATAATATATAATTT
1 ATTTTAACAAGATTATTATTAAAAATAATTTAATAAAATAATAAATAATTT
66313286 AATAAAATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 15 0.33
58 31 0.67
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (57 bp):
ATTTTAACAAGATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTGACCAT
Found at i:66313309 original size:58 final size:58
Alignment explanation
Indices: 66313175--66313313 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
66313165 TATTGTTATT
* * * *
66313175 AAATTTTAATAAGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTGACC
1 AAATTTTAACATGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
* * * * *
66313233 ATATTTTAACATGATTATTATTAAATATAATTTAAT-ATAATAATATATAATTTAATA
1 AAATTTTAACATGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
*
66313290 AAATTCTTAATAT-ATTTATTATTA
1 AAATT-TTAACATGA-TTATTATTA
66313314 TATGAATTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 21 0.31
58 47 0.69
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (58 bp):
AAATTTTAACATGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
Found at i:66315909 original size:126 final size:126
Alignment explanation
Indices: 66315685--66315937 Score: 321
Period size: 126 Copynumber: 2.0 Consensus size: 126
66315675 AGTAGTTTTA
* * *
66315685 GAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATATAAAAAACGCTTCAAACAGGATGCA
1 GAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATATAAAAAACGCTTCAAACAGGATGCA
* * *
66315750 CTGTTAACAAAACTACTAAAAAAAGCTCTCACGTAGACACTCTTTTTATATAGTAGTTCCT
66 CTGTTAACAAAACTACTAAAAAAAGCTCCCACGTAGACACTCTTTTTATACAGTAATTCCT
* * * * *
66315811 GAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
1 GAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATATAAAAAACGCTTCAAACAGGATGCA
* * * ** *
66315876 CTGTTAGCAAAATTGA-TGAAAAAAA-CTCCCACGTGGATGCTCTTTTTCTACAGTAATTCCT
66 CTGTTAACAAAACT-ACT-AAAAAAAGCTCCCACGTAGACACTCTTTTTATACAGTAATTCCT
66315937 G
1 G
66315938 TTTGGCCTTA
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
126 100 0.93
127 8 0.07
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (126 bp):
GAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATATAAAAAACGCTTCAAACAGGATGCA
CTGTTAACAAAACTACTAAAAAAAGCTCCCACGTAGACACTCTTTTTATACAGTAATTCCT
Found at i:66329228 original size:24 final size:25
Alignment explanation
Indices: 66329200--66329246 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66329190 GGTTAATGTG
* *
66329200 TTAGAG-TTAGGGTTTGGGGTTTAA
1 TTAGAGTTTAGAGTTTAGGGTTTAA
66329224 TTAGAGTTTAGAGTTTAGGGTTT
1 TTAGAGTTTAGAGTTTAGGGTTT
66329247 GGGATATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (25 bp):
TTAGAGTTTAGAGTTTAGGGTTTAA
Found at i:66329340 original size:21 final size:20
Alignment explanation
Indices: 66329322--66329360 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
66329312 TGGTGGTTGG
*
66329322 TGTTTGTGGTTTACGGGTTAA
1 TGTTTATGGTTTA-GGGTTAA
66329343 TGTTTATGGTTTAGGGTT
1 TGTTTATGGTTTAGGGTT
66329361 TAGGGATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (20 bp):
TGTTTATGGTTTAGGGTTAA
Found at i:66329360 original size:7 final size:7
Alignment explanation
Indices: 66329344--66329389 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
66329334 ACGGGTTAAT
*
66329344 GTTTATG
1 GTTTAGG
66329351 GTTTAGG
1 GTTTAGG
66329358 GTTTAGG
1 GTTTAGG
* *
66329365 G-ATAGT
1 GTTTAGG
66329371 GTTTAGG
1 GTTTAGG
66329378 GTTTAGG
1 GTTTAGG
66329385 GTTTA
1 GTTTA
66329390 ATTTAAGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:66329380 original size:27 final size:28
Alignment explanation
Indices: 66329329--66329389 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
66329319 TGGTGTTTGT
* *
66329329 GGTTTACGGGTTAATGTTTATGGTTTAG
1 GGTTTACGGGATAATGTTTAGGGTTTAG
*
66329357 GGTTTA-GGGATAGTGTTTAGGGTTTAG
1 GGTTTACGGGATAATGTTTAGGGTTTAG
66329384 GGTTTA
1 GGTTTA
66329390 ATTTAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (28 bp):
GGTTTACGGGATAATGTTTAGGGTTTAG
Found at i:66330067 original size:147 final size:146
Alignment explanation
Indices: 66329695--66330475 Score: 512
Period size: 147 Copynumber: 5.3 Consensus size: 146
66329685 TTTTTCAAAA
* * * * * **
66329695 TTTCCATGTTCTTAGTGGCGGCGTTTTATGCAAAAACGCCACAAAATTGTCATAATTATCAGGGA
1 TTTCCATGTTCTTAGT---GGCGTTTTATACCAAAACGCCAGAAAATTGTCATAACTGTTTGGGA
* * ** * * * *
66329760 AACGAC-TGCGTTT-TACGGTTATTTAGTGGCACAT-ACATATAAACGTCACAGACGGTTTAATT
63 AACGACAT-CGTTTCTACTGTTATTTAGTGGCGC-TGATGTATAAACGCCGCA-ATGGTTTCATT
* * * * *
66329822 TAATCCCA-AAAAACGACATCGTT
125 TAGT--CATGAATACGTCGTCGTT
* * * * * * * *
66329845 TTACTATGTTCTTAGTGGTGCTTTATGCCAAAACGCCAGAACATT-TACATAATTGTGTGGGAAA
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAAATTGT-CATAACTGTTTGGGAAA
* * * * *
66329909 CGACGTCGTTTCTACGGTTATTTAGTGGCACAAGAT-TATAAATGCCGCGAATGGTTTCATTTAG
65 CGACATCGTTTCTACTGTTATTTAGTGGCGC-TGATGTATAAACGCCGC-AATGGTTTCATTTAG
* *
66329973 TGATTAATACGTCGTCGTT
128 TCATGAATACGTCGTCGTT
* *
66329992 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAAATTGTCCTAATTGTTTGGGAAAC
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAAATTGTCATAACTGTTTGGGAAAC
*** * ** * * * * *
66330057 GGTTTTGTTTCCGCTGTTAATTTAGTGGCGCTTATGTGTAAACGCCGCAAAGTTCTTCGTTTAGT
66 GACATCGTTTCTACTGTT-ATTTAGTGGCGCTGATGTATAAACGCCGCAATGGT-TTCATTTAGT
*
66330122 CATGGAAAACGTCGTCGTT
129 CAT-GAATACGTCGTCGTT
* * * ** * * *
66330141 TTTCCATG-TCTTGAGTGGCGTTTTATGCCTAAACGCCACAATTTTGAC-TAACTGGTTGTGAAA
1 TTTCCATGTTCTT-AGTGGCGTTTTATACCAAAACGCCAGAAAATTGTCATAACTGTTTGGGAAA
* * * * *
66330204 CGACAGCGTTTCTACTTTTAGTTT-GTGGCGCTTG-TGTATAAACGCCACAAATGGGTTAATTTA
65 CGACATCGTTTCTACTGTTA-TTTAGTGGCGC-TGATGTATAAACGCCGC-AATGGTTTCATTTA
*
66330267 GTCAGGAATACGTCGTCGTT
127 GTCATGAATACGTCGTCGTT
* * ** * *
66330287 TATCCAGGTTAATAGTGGTGTTTTATACCAAAACGCCAGAAATTTGTCATAACTGTTTGGGAAAC
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAAATTGTCATAACTGTTTGGGAAAC
* * * * *
66330352 GACATCGTTTC--CGGGTTTATTTAGTGGCGCTTATGTAGAAACGCCTCGAAT--TTGTTAGTTT
66 GACATCGTTTCTAC-TG-TTATTTAGTGGCGCTGATGTATAAACGCCGC-AATGGTT-TCA-TTT
*
66330413 AGTCATGGAA-AAGTCGTCGTT
126 AGTCAT-GAATACGTCGTCGTT
* * * * * *
66330434 TTTCAATGTTATGAGTGGCATTTTATGCCAAAACGCAAGAAA
1 TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAA
66330476 TAAGACTGTT
Statistics
Matches: 499, Mismatches: 108, Indels: 51
0.76 0.16 0.08
Matches are distributed among these distances:
145 2 0.00
146 57 0.11
147 262 0.53
148 112 0.22
149 52 0.10
150 14 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (146 bp):
TTTCCATGTTCTTAGTGGCGTTTTATACCAAAACGCCAGAAAATTGTCATAACTGTTTGGGAAAC
GACATCGTTTCTACTGTTATTTAGTGGCGCTGATGTATAAACGCCGCAATGGTTTCATTTAGTCA
TGAATACGTCGTCGTT
Found at i:66330736 original size:18 final size:18
Alignment explanation
Indices: 66330709--66330755 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
66330699 ACCGTGACCG
* *
66330709 TCACCGTCGCCTGCTGCA
1 TCACCATCGCCTACTGCA
66330727 TCACCATCGCCTACTGCA
1 TCACCATCGCCTACTGCA
66330745 TCACCATCGCC
1 TCACCATCGCC
66330756 GTCTCATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.47, G:0.15, T:0.21
Consensus pattern (18 bp):
TCACCATCGCCTACTGCA
Found at i:66331018 original size:14 final size:14
Alignment explanation
Indices: 66330999--66331033 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
66330989 GTAGTGTTGA
66330999 GTTATTCAAATTTT
1 GTTATTCAAATTTT
**
66331013 GTTATTCGGATTTT
1 GTTATTCAAATTTT
66331027 GTTATTC
1 GTTATTC
66331034 GCTTTTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (14 bp):
GTTATTCAAATTTT
Found at i:66331034 original size:14 final size:14
Alignment explanation
Indices: 66331008--66331034 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66330998 AGTTATTCAA
66331008 ATTTTGTTATTCGG
1 ATTTTGTTATTCGG
66331022 ATTTTGTTATTCG
1 ATTTTGTTATTCG
66331035 CTTTTCTGTT
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:0.15, C:0.07, G:0.19, T:0.59
Consensus pattern (14 bp):
ATTTTGTTATTCGG
Found at i:66332136 original size:9 final size:9
Alignment explanation
Indices: 66332119--66332163 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
66332109 TAAATTTCAC
66332119 AACTTACAT
1 AACTTACAT
*
66332128 AATTTACAT
1 AACTTACAT
66332137 AACTTACAT
1 AACTTACAT
66332146 AA--TACAT
1 AACTTACAT
*
66332153 AACGTACAT
1 AACTTACAT
66332162 AA
1 AA
66332164 TTTAAAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
9 25 0.78
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:66332153 original size:16 final size:16
Alignment explanation
Indices: 66332119--66332164 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
66332109 TAAATTTCAC
66332119 AACTTACATAATTTACAT
1 AACTTACATAA--TACAT
66332137 AACTTACATAATACAT
1 AACTTACATAATACAT
*
66332153 AACGTACATAAT
1 AACTTACATAAT
66332165 TTAAAGATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.59
18 11 0.41
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:66334272 original size:43 final size:43
Alignment explanation
Indices: 66334179--66334471 Score: 336
Period size: 43 Copynumber: 6.8 Consensus size: 43
66334169 CGTTTATAGA
** * * *
66334179 AAAAGCGCCGCTAAAAGTCACCAAACAATAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCA-TGATCTATAGCGGCGTTTGTGGG
*
66334223 AAAAGCGCTGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* *
66334266 AAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGAG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * * *
66334309 ATAAGCGTCGCTAAAAGTCATGATCTATAGCGGCGTTTGAGGA
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* *
66334352 AAAATCGCCGCTAAAAGTCATGATCTATAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * ** * * *
66334395 AAAAGCGCCGCTAAAGGTTATGGCCTTTAGTGGCGTTT-TTGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * * * *
66334437 AAAAGCGCTGCTAAAGGTCCTGAACTTTAGCGGCG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCG
66334472 CTTATTTCTA
Statistics
Matches: 213, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 32 0.15
43 162 0.76
44 19 0.09
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
Found at i:66334430 original size:129 final size:128
Alignment explanation
Indices: 66334162--66334471 Score: 372
Period size: 129 Copynumber: 2.4 Consensus size: 128
66334152 TATCCCAAAA
** * * * *
66334162 TTAGTGGCGTTTAT-AGAAAAAGCGCCGCTAAAAGTCACCAAACAATAGTGGCGTTTGTGGGAAA
1 TTAGTGGCGTTTATGAG-AAAAGCG-CGCTAAAAGTCA-TGAACTATAGCGGCGTTTGAGGAAAA
* *
66334226 AGCGCTGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
63 AGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
66334291 T
128 T
* * * * * *
66334292 ATAGCGGCGTTTGTGAGATAAGCGTCGCTAAAAGTCATGATCTATAGCGGCGTTTGAGGAAAAAT
1 TTAGTGGCGTTTATGAGAAAAGCG-CGCTAAAAGTCATGAACTATAGCGGCGTTTGAGGAAAAAG
* * *
66334357 CGCCGCTAAAAGTCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTTATGGCCT
65 CGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCT
* * * *
66334421 TTAGTGGCGTTTTTG-GAAAAGCGCTGCTAAAGGTCCTGAACTTTAGCGGCG
1 TTAGTGGCGTTTATGAGAAAAGCGC-GCTAAAAGTCATGAACTATAGCGGCG
66334472 CTTATTTCTA
Statistics
Matches: 152, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
127 1 0.01
128 29 0.19
129 91 0.60
130 29 0.19
131 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (128 bp):
TTAGTGGCGTTTATGAGAAAAGCGCGCTAAAAGTCATGAACTATAGCGGCGTTTGAGGAAAAAGC
GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCT
Found at i:66348639 original size:18 final size:17
Alignment explanation
Indices: 66348618--66348653 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
66348608 AAATAGATTG
66348618 ATGAGATAAAAATAAATA
1 ATGAGA-AAAAATAAATA
*
66348636 ATGAGAATAAATAAATA
1 ATGAGAAAAAATAAATA
66348653 A
1 A
66348654 GTAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (17 bp):
ATGAGAAAAAATAAATA
Found at i:66351364 original size:19 final size:18
Alignment explanation
Indices: 66351335--66351386 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
66351325 GAATGACACA
66351335 TTAACAAATATTAATATT-T
1 TTAA-AAATATTAA-ATTAT
66351354 TTCAAAAATATTCAAATTAT
1 TT-AAAAATATT-AAATTAT
66351374 TTAAAAA-ATTAAA
1 TTAAAAATATTAAA
66351387 AAGTTATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 17 0.57
20 7 0.23
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAATATTAAATTAT
Found at i:66352854 original size:30 final size:31
Alignment explanation
Indices: 66352815--66352897 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 31
66352805 GCTTTTGTTA
*
66352815 GTAAGTTTGAGGATCAAATTGATATAATT-T
1 GTAAATTTGAGGATCAAATTGATATAATTAT
* * * *
66352845 GTAAATTTGAAGGGTTAAATTTATTTAATTAT
1 GTAAATTTG-AGGATCAAATTGATATAATTAT
*
66352877 TTAGAA-TT-AGGATCAAATTGA
1 GTA-AATTTGAGGATCAAATTGA
66352898 GAGAATAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
30 18 0.44
31 16 0.39
32 5 0.12
33 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (31 bp):
GTAAATTTGAGGATCAAATTGATATAATTAT
Found at i:66356702 original size:41 final size:41
Alignment explanation
Indices: 66356657--66356770 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 41
66356647 AGGCTCGAAC
*
66356657 CCTGATATAACACACCAGCATAAAGCCTACTAGGCACAAAG
1 CCTGATATAACACACCAGCACAAAGCCTACTAGGCACAAAG
* * * *
66356698 CCTGATATAATACACCAGCACGAAGCCTGCTAGGCACATAG
1 CCTGATATAACACACCAGCACAAAGCCTACTAGGCACAAAG
* * *
66356739 CCTGA-AT-A-TCACCGGCACAAAGCCTGCTAGGC
1 CCTGATATAACACACCAGCACAAAGCCTACTAGGC
66356771 GTAGAGACCG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
38 21 0.32
39 1 0.02
40 2 0.03
41 41 0.63
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.16
Consensus pattern (41 bp):
CCTGATATAACACACCAGCACAAAGCCTACTAGGCACAAAG
Found at i:66356784 original size:38 final size:38
Alignment explanation
Indices: 66356669--66356801 Score: 142
Period size: 38 Copynumber: 3.4 Consensus size: 38
66356659 TGATATAACA
* * * *
66356669 CACCAGCATAAAGCCTACTAGGCACAAAGCCTGATATAAT
1 CACCGGCACAAAGCCTGCTAGGCACAGAGCCTGA-AT-AT
* * *
66356709 ACACCAGCACGAAGCCTGCTAGGCACATAGCCTGAATAT
1 -CACCGGCACAAAGCCTGCTAGGCACAGAGCCTGAATAT
**
66356748 CACCGGCACAAAGCCTGCTAGGCGTAGAGACC-GAATAT
1 CACCGGCACAAAGCCTGCTAGGCACAGAG-CCTGAATAT
66356786 CACCGGCACAAAGCCT
1 CACCGGCACAAAGCCT
66356802 AAATAACAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
38 46 0.56
39 4 0.05
40 2 0.02
41 30 0.37
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.14
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACAGAGCCTGAATAT
Found at i:66358228 original size:3 final size:3
Alignment explanation
Indices: 66358220--66358280 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
66358210 GCTCCTCTTA
* *
66358220 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTA TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
66358268 TTG TTG TTA TTG T
1 TTG TTG TTG TTG T
66358281 GATTTTTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:66361999 original size:18 final size:18
Alignment explanation
Indices: 66361969--66362019 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
66361959 TTTTTAGTGG
*
66361969 TTTTTACTA-TTTAATAA
1 TTTTTATTATTTTAATAA
*
66361986 TTTTTATTATTTTAAAAA
1 TTTTTATTATTTTAATAA
*
66362004 ATTTTATT-TTTTAATA
1 TTTTTATTATTTTAATA
66362020 TTTGTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATTATTTTAATAA
Found at i:66362944 original size:26 final size:27
Alignment explanation
Indices: 66362888--66362954 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
66362878 TTTGTGATTT
* *
66362888 TTTAAATTATTT-TATTTATGTTCTTA
1 TTTATATTATTTATATTTATATTCTTA
*
66362914 ATTATATTATTTATATTTATATT-TTA
1 TTTATATTATTTATATTTATATTCTTA
66362940 TTTATTATTGATTTA
1 TTTA-TATT-ATTTA
66362955 GGGAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 16 0.47
27 13 0.38
28 5 0.15
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTATATTATTTATATTTATATTCTTA
Found at i:66373481 original size:9 final size:9
Alignment explanation
Indices: 66373464--66373500 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
66373454 TGAGTTTTCG
66373464 AATTCGAAT
1 AATTCGAAT
*
66373473 AACTCGAAT
1 AATTCGAAT
66373482 AATTCGAAT
1 AATTCGAAT
66373491 AATTCGAAT
1 AATTCGAAT
66373500 A
1 A
66373501 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:66382693 original size:19 final size:19
Alignment explanation
Indices: 66382678--66382725 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
66382668 ATTGTGGAAG
66382678 CATTCAAACTTTGTGGATT
1 CATTCAAACTTTGTGGATT
66382697 CATTCAAACTTTGTGGATT
1 CATTCAAACTTTGTGGATT
66382716 CATTCAAACT
1 CATTCAAACT
66382726 CTATGAGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (19 bp):
CATTCAAACTTTGTGGATT
Found at i:66389187 original size:15 final size:16
Alignment explanation
Indices: 66389158--66389187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66389148 CAAACATGCT
66389158 TTAACACATTATCAAA
1 TTAACACATTATCAAA
66389174 TTAACACA-TATCAA
1 TTAACACATTATCAA
66389188 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:66405191 original size:18 final size:18
Alignment explanation
Indices: 66405168--66405202 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66405158 CTTGGATGTT
66405168 TAAACCCTCATATTACCC
1 TAAACCCTCATATTACCC
*
66405186 TAAACCTTCATATTACC
1 TAAACCCTCATATTACC
66405203 TAGTCATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAACCCTCATATTACCC
Found at i:66409806 original size:88 final size:88
Alignment explanation
Indices: 66409657--66409834 Score: 295
Period size: 88 Copynumber: 2.0 Consensus size: 88
66409647 TCCTCGGACT
* *
66409657 ACTCACCTACTCCTTTGTAACTATATTACAACTAGGCCTGTATACTTGCTGATACCACCTCATTC
1 ACTCACCTACTCCGTTGTAACTATATTACAACTAGACCTGTATACTTGCTGATACCACCTCATTC
66409722 ATATATCTTTTACTACAGTATTC
66 ATATATCTTTTACTACAGTATTC
* *
66409745 ACTCACCTACTCCGTTGTAACTATATTACAACTCGA-CTCGTATACTTGCTGATACCGCCTCATT
1 ACTCACCTACTCCGTTGTAACTATATTACAACTAGACCT-GTATACTTGCTGATACCACCTCATT
*
66409809 GATATATCTTTTACTACAGTATTC
65 CATATATCTTTTACTACAGTATTC
66409833 AC
1 AC
66409835 ATTCTGGACG
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
87 2 0.02
88 82 0.98
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.37
Consensus pattern (88 bp):
ACTCACCTACTCCGTTGTAACTATATTACAACTAGACCTGTATACTTGCTGATACCACCTCATTC
ATATATCTTTTACTACAGTATTC
Found at i:66414092 original size:10 final size:10
Alignment explanation
Indices: 66414077--66414115 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
66414067 TTAGCCCTTA
66414077 AATTAATTAC
1 AATTAATTAC
66414087 AATTAATTAC
1 AATTAATTAC
66414097 AATTAATTAC
1 AATTAATTAC
*
66414107 AATAAATTA
1 AATTAATTA
66414116 GCCCTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTAATTAC
Found at i:66415994 original size:15 final size:15
Alignment explanation
Indices: 66415974--66416013 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
66415964 TTTCATTTAG
66415974 TTCACGATTCTCATT
1 TTCACGATTCTCATT
66415989 TTCACGATTCTCATT
1 TTCACGATTCTCATT
66416004 TTCACGATTC
1 TTCACGATTC
66416014 AATTCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
TTCACGATTCTCATT
Found at i:66417691 original size:51 final size:50
Alignment explanation
Indices: 66417630--66417815 Score: 230
Period size: 51 Copynumber: 3.7 Consensus size: 50
66417620 TTGGTTCACA
*
66417630 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACG
* * * * * *
66417681 TAGTATCCTGCACATAGTACTACACACGTGATCGAAACTATCCGATACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGATACACG
* * * *
66417732 TGGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACG
*
66417782 TAGTAGTCTGCACATAGTACTACACATGTGACCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA
66417816 CCACTTTCAC
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.36
51 68 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACG
Found at i:66417755 original size:102 final size:101
Alignment explanation
Indices: 66417626--66417812 Score: 279
Period size: 101 Copynumber: 1.8 Consensus size: 101
66417616 ATGTTTGGTT
* *
66417626 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCTGATACACGTAGTA-TCC
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACC--TACCATTCCGATACACGTAGTAGT-C
66417689 TGCACATAGTACTACACACGTGATCGAAACTATCCGATA
63 TGCACATAGTACTACACACGTGATCGAAACTATCCGATA
* * *
66417728 CACATGGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGTCTGC
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTACCATTCCGATACACGTAGTAGTCTGC
*
66417793 ACATAGTACTACACATGTGA
66 ACATAGTACTACACACGTGA
66417813 CCACCACTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.48
102 36 0.47
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCTACCATTCCGATACACGTAGTAGTCTGC
ACATAGTACTACACACGTGATCGAAACTATCCGATA
Found at i:66420248 original size:12 final size:13
Alignment explanation
Indices: 66420231--66420259 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66420221 GTTTTATCTG
66420231 CTTCCAC-TTTCC
1 CTTCCACATTTCC
66420243 CTTCCACATTTCC
1 CTTCCACATTTCC
66420256 CTTC
1 CTTC
66420260 TTCTTGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (13 bp):
CTTCCACATTTCC
Found at i:66423569 original size:26 final size:26
Alignment explanation
Indices: 66423487--66423555 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
66423477 ATAGGATTGC
66423487 AAAATCATCAAAATTTTACCAGGGGT
1 AAAATCATCAAAATTTTACCAGGGGT
66423513 AAAATCATCAAAATTTTACCAGGGGT
1 AAAATCATCAAAATTTTACCAGGGGT
66423539 AAAATCATCAAAATTTT
1 AAAATCATCAAAATTTT
66423556 GTTAATGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAATCATCAAAATTTTACCAGGGGT
Found at i:66424793 original size:4 final size:4
Alignment explanation
Indices: 66424784--66424951 Score: 336
Period size: 4 Copynumber: 42.0 Consensus size: 4
66424774 ATAATTGTGA
66424784 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
66424832 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
66424880 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
66424928 TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG
66424952 AGATGATCCA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 164 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:66431553 original size:37 final size:40
Alignment explanation
Indices: 66431458--66431558 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
66431448 GCACATTAGT
* *
66431458 TTGGCACCCAGTGCCTCATCGAATAATTCGAAGTAATAAG
1 TTGGCACCCAGTGCCTCATCGAATAAATAGAAGTAATAAG
* * * **
66431498 TTGACACCCAGTGTCTCATTGGCTAAATAGAAGT-A-AA-
1 TTGGCACCCAGTGCCTCATCGAATAAATAGAAGTAATAAG
66431535 TTGGCACCCAGTGCCTCATCGAAT
1 TTGGCACCCAGTGCCTCATCGAAT
66431559 TAATCCAAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
37 19 0.39
38 2 0.04
39 1 0.02
40 27 0.55
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (40 bp):
TTGGCACCCAGTGCCTCATCGAATAAATAGAAGTAATAAG
Found at i:66434054 original size:26 final size:26
Alignment explanation
Indices: 66434001--66434057 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
66433991 TACCAGGGCC
*
66434001 AAAATCATCAAAATTTTTCTAGATGT
1 AAAATCATCAAAATTTTTCTAGAGGT
* *
66434027 AAAATCGTCAAAATTTTGT-TAGGGGT
1 AAAATCATCAAAATTTT-TCTAGAGGT
66434053 AAAAT
1 AAAAT
66434058 AGGGATGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (26 bp):
AAAATCATCAAAATTTTTCTAGAGGT
Done.