Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 55 of 279
Found at i:18366417 original size:83 final size:84
Alignment explanation
Indices: 18366263--18366534 Score: 216
Period size: 84 Copynumber: 3.2 Consensus size: 84
18366253 TTGGAGGGAC
* ** * * * * *
18366263 AGTGGAGTTAGTGGCGCTAGGTCATAAACGCCGCTAAAAGTATGAGAAATTGTATTG-AAACGT-
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCG-AATGAAAAC-TA
*
18366326 CGTCGTTTTAT-TC-CGCGGGT
64 CATCGTTTTATGTCGCGC-GGT
* *
18366346 AGTGGATTTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACA
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACA
* * *
18366411 TTGTTTTATGTTGTGCGGT
66 TCGTTTTATGTCGCGCGGT
* * * *
18366430 -TTAGGAATTAGTGGCGCTATCGTATAAACACCACTAAGAATATGAGAAA-CTGAATGAAAACTA
1 AGT-GGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATC-GAATGAAAACTA
* * * * * *
18366493 CGTCATTTTATATGGCTCAGT
64 CATCGTTTTATGTCGCGCGGT
*
18366514 -TTAGGAATTAGTGGCGCTATC
1 AGT-GGAATTAGTGGCGCTATC
18366535 CTAGAAAAGT
Statistics
Matches: 156, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
82 4 0.03
83 59 0.38
84 91 0.58
85 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (84 bp):
AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACA
TCGTTTTATGTCGCGCGGT
Found at i:18366464 original size:84 final size:84
Alignment explanation
Indices: 18366353--18366534 Score: 242
Period size: 84 Copynumber: 2.2 Consensus size: 84
18366343 GGTAGTGGAT
* * * **
18366353 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAA-TCGAATGAAAACTACATTGTTT
1 TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACT-GAATGAAAACTACATCATTT
* * *
18366417 TATGTTG-TGCGGTTTAGGAA
65 TATATGGCT-CAGTTTAGGAA
* *
18366437 TTAGTGGCGCTATCGTATAAACACCACTAAGAATATGAGAAACTGAATGAAAACTACGTCATTTT
1 TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACTGAATGAAAACTACATCATTTT
18366502 ATATGGCTCAGTTTAGGAA
66 ATATGGCTCAGTTTAGGAA
18366521 TTAGTGGCGCTATC
1 TTAGTGGCGCTATC
18366535 CTAGAAAAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 84 0.98
85 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (84 bp):
TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACTGAATGAAAACTACATCATTTT
ATATGGCTCAGTTTAGGAA
Found at i:18366935 original size:16 final size:16
Alignment explanation
Indices: 18366910--18366942 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18366900 GGAATGTAGA
18366910 TTTCTATTGTTAATGC
1 TTTCTATTGTTAATGC
*
18366926 TTTCTGTTGTTAATGC
1 TTTCTATTGTTAATGC
18366942 T
1 T
18366943 CAGCACTCAA
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTCTATTGTTAATGC
Found at i:18368920 original size:50 final size:51
Alignment explanation
Indices: 18368859--18368965 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 51
18368849 AGATCTTAAG
* * *
18368859 TTTATATATTCTATCAATTT-GATCTTGATTTAACAAA-TTAAATCGTAATA
1 TTTATATATTCTATCAATTTAG-TCATAATTTAACAAATTTAAATCGTAACA
* **
18368909 TTTATATATTCTGTCAATTTAGTCATAATTTAACAAATTTAGCTCGTAACA
1 TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
18368960 TTTATA
1 TTTATA
18368966 CGTTATGTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
50 32 0.65
51 17 0.35
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (51 bp):
TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAACA
Found at i:18369845 original size:13 final size:13
Alignment explanation
Indices: 18369827--18369856 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18369817 CCACATAATA
18369827 CATAAATATATAT
1 CATAAATATATAT
18369840 CATAAATATATAT
1 CATAAATATATAT
18369853 CATA
1 CATA
18369857 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:18369870 original size:9 final size:9
Alignment explanation
Indices: 18369858--18369939 Score: 69
Period size: 9 Copynumber: 9.1 Consensus size: 9
18369848 TATATCATAT
*
18369858 CATAAGTTA
1 CATAACTTA
18369867 CATAACTTA
1 CATAACTTA
*
18369876 CATACCTTA
1 CATAACTTA
*
18369885 CATAAATGTA
1 CATAACT-TA
* * *
18369895 TATCA-TAA
1 CATAACTTA
18369903 CATAACTTA
1 CATAACTTA
18369912 CATAACTTA
1 CATAACTTA
18369921 CA-AAGCTTA
1 CATAA-CTTA
*
18369930 CTTAACTTA
1 CATAACTTA
18369939 C
1 C
18369940 GTAATACATA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
8 6 0.10
9 45 0.78
10 7 0.12
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:18369930 original size:45 final size:45
Alignment explanation
Indices: 18369840--18369930 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
18369830 AAATATATAT
* * *
18369840 CATAAATATATATCATATCATAAGTTACATAACTTACATACCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
* *
18369885 CATAAATGTATATCATAACATAACTTACATAACTTACAAAGCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
18369930 C
1 C
18369931 TTAACTTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (45 bp):
CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
Found at i:18374824 original size:21 final size:21
Alignment explanation
Indices: 18374794--18374840 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
18374784 CTTAGAGCGG
* *
18374794 AGCGAGGGAGGCAGTGGCAGC
1 AGCGAAGGAGGCAGAGGCAGC
18374815 AGCGAAGGAGGCAGAGGCAGC
1 AGCGAAGGAGGCAGAGGCAGC
18374836 AGCGA
1 AGCGA
18374841 TGACAGCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.49, T:0.02
Consensus pattern (21 bp):
AGCGAAGGAGGCAGAGGCAGC
Found at i:18375122 original size:33 final size:33
Alignment explanation
Indices: 18375072--18375153 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
18375062 TTAGAATTAA
*
18375072 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
* * *
18375105 TGTTTTTGGCTGCA--TTTTATGCTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
* *
18375136 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
18375154 AATGTAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.13, C:0.06, G:0.21, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
Found at i:18375294 original size:43 final size:43
Alignment explanation
Indices: 18375230--18375353 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
18375220 TGGGAAAAAG
* * * *
18375230 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTATTTTTTTAAA
1 CGCCACTAAAAGTCATGACTTTTAGCGGCACTT-TTTTTTCAAA
* *
18375274 CG-CTCTAAAAGTCATTACTTTTAGCGGCACTTTTTTTTCAAA
1 CGCCACTAAAAGTCATGACTTTTAGCGGCACTTTTTTTTCAAA
18375316 CGCCACTAAAAGTCATGACTTTTAGCGGCA-TTTTTTTT
1 CGCCACTAAAAGTCATGACTTTTAGCGGCACTTTTTTTT
18375354 AAATAAACGC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 19 0.26
43 51 0.71
44 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (43 bp):
CGCCACTAAAAGTCATGACTTTTAGCGGCACTTTTTTTTCAAA
Found at i:18375993 original size:6 final size:6
Alignment explanation
Indices: 18375982--18376016 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
18375972 TAATTACATG
18375982 AAAATT AAAATT AAAATT AAAATT AAAATTT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAA
18376017 GCAAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:18381800 original size:21 final size:22
Alignment explanation
Indices: 18381756--18381800 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
18381746 TGAAGGAAAC
* *
18381756 AAAATTAACGTAATTCTCTACA
1 AAAATCAACGTAATTATCTACA
*
18381778 AAAATCAACGTCATTATCT-CA
1 AAAATCAACGTAATTATCTACA
18381799 AA
1 AA
18381801 GGAAGCATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAATCAACGTAATTATCTACA
Found at i:18407237 original size:16 final size:16
Alignment explanation
Indices: 18407216--18407264 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
18407206 TATTGATGAT
*
18407216 AACTCTATTCTGTTAC
1 AACTCTATTCTATTAC
18407232 AACTCTATTAC-ATTAC
1 AACTCTATT-CTATTAC
*
18407248 AGCTCTATTCTATTAC
1 AACTCTATTCTATTAC
18407264 A
1 A
18407265 GTGAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (16 bp):
AACTCTATTCTATTAC
Found at i:18410952 original size:20 final size:20
Alignment explanation
Indices: 18410909--18410956 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18410899 ACTGTTTTGT
18410909 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
18410929 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
18410948 TAT-GGCCAA
1 TATGGGCCAA
18410957 GGCTCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:18411050 original size:60 final size:60
Alignment explanation
Indices: 18410982--18411095 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
18410972 GACTTGTAAT
* *
18410982 AGGGCTATGGCCCAGATTGATACTGATATGGGCT-AGGCCCAG-TATACTCTGATATTGTA
1 AGGGCTATGACCCAGATTAATACTGATATGGGCTAAGGCCCAGTTA-ACTCTGATATTGTA
*
18411041 AGGGCCTATGACCCAGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGAT
1 AGGG-CTATGACCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGAT
18411096 TTTTGAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 4 0.08
60 27 0.55
61 16 0.33
62 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (60 bp):
AGGGCTATGACCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATATTGTA
Found at i:18411083 original size:28 final size:28
Alignment explanation
Indices: 18410983--18411088 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 28
18410973 ACTTGTAATA
* * *
18410983 GGGCTATGGCCCAGATTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATATTGATAT
* *
18411011 GGGCT-AGGCCCAGTATACTCTGATATTG-TAA
1 GGGCTAAGGCCCAG---A-T-TAATATTGATAT
* *
18411042 GGGCCTATGACCCAGATTAATATTGATAT
1 GGG-CTAAGGCCCAGATTAATATTGATAT
18411071 GGGCTAAGGCCCAG-TTAA
1 GGGCTAAGGCCCAGATTAA
18411089 CTCTGATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
27 11 0.18
28 21 0.34
29 6 0.10
30 2 0.03
31 6 0.10
32 9 0.15
33 6 0.10
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATATTGATAT
Found at i:18411957 original size:43 final size:43
Alignment explanation
Indices: 18411645--18411939 Score: 472
Period size: 43 Copynumber: 7.0 Consensus size: 43
18411635 GGCGTTTATT
*
18411645 AAAAAAAGCGCCGCTAAAAGTCATAGCCTTTAGCGGCGTTT-G
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
* *
18411687 AAAAAAAGCGCCGTTAAAAGTCATGTCCTTTAGCGGCGTTT--
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
18411728 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
** * *
18411771 -AGCAAAGTGCTGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
* *
18411813 AAAAGAAGCGCCGCTAAAAGTCATGTCCTTTAGCGGCGTTTGG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
18411856 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
18411899 AAAAAAAGCGCCGCTAGAAGTCATGGCCTTTAGCGGCGTTT
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
18411940 TTCCCACAAA
Statistics
Matches: 232, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
41 39 0.17
42 76 0.33
43 117 0.50
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (43 bp):
AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
Found at i:18412789 original size:13 final size:14
Alignment explanation
Indices: 18412764--18412792 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18412754 TGATGAATTG
18412764 AATTAAACAATTAT
1 AATTAAACAATTAT
18412778 AATTAAAC-ATTAT
1 AATTAAACAATTAT
18412791 AA
1 AA
18412793 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:18418011 original size:9 final size:9
Alignment explanation
Indices: 18417997--18418222 Score: 134
Period size: 9 Copynumber: 24.6 Consensus size: 9
18417987 TATTTAAGTA
18417997 TTATGTAAG
1 TTATGTAAG
*
18418006 TTATGTAAT
1 TTATGTAAG
*
18418015 TTATGATATG
1 TTATG-TAAG
* * *
18418025 ATATAT-AT
1 TTATGTAAG
*
18418033 TTATGTAAA
1 TTATGTAAG
* *
18418042 TTATAT-AT
1 TTATGTAAG
*
18418050 TTATCTAAG
1 TTATGTAAG
*
18418059 TTATCTAAG
1 TTATGTAAG
18418068 TTATGTAAG
1 TTATGTAAG
*
18418077 TTATGTAAA
1 TTATGTAAG
*
18418086 TTATGATATAAAA
1 TTATG---T-AAG
*
18418099 TATATTTAAG
1 T-TATGTAAG
18418109 TATTATGTAAG
1 --TTATGTAAG
*
18418120 TTATGCAAG
1 TTATGTAAG
* *
18418129 TTATAT-AT
1 TTATGTAAG
*
18418137 TTATCTAAG
1 TTATGTAAG
*
18418146 TTATATAAG
1 TTATGTAAG
*
18418155 TTATATAAG
1 TTATGTAAG
*
18418164 TTATGTATG
1 TTATGTAAG
*
18418173 TTATATAAG
1 TTATGTAAG
18418182 TTATGTAAG
1 TTATGTAAG
* *
18418191 TTATATATG
1 TTATGTAAG
*
18418200 TTATATAAG
1 TTATGTAAG
*
18418209 TTATGTAAA
1 TTATGTAAG
18418218 TTATG
1 TTATG
18418223 ATATCAAATA
Statistics
Matches: 170, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
8 16 0.09
9 130 0.76
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18418062 original size:17 final size:17
Alignment explanation
Indices: 18418026--18418062 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18418016 TATGATATGA
*
18418026 TATATATTTATGTAAAT
1 TATATATTTATCTAAAT
*
18418043 TATATATTTATCTAAGT
1 TATATATTTATCTAAAT
18418060 TAT
1 TAT
18418063 CTAAGTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATTTATCTAAAT
Found at i:18418107 original size:114 final size:114
Alignment explanation
Indices: 18417973--18418194 Score: 295
Period size: 114 Copynumber: 1.9 Consensus size: 114
18417963 ACTAGTTATG
* * * * *
18417973 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTAT-ATAT-ATATATAAGTTAT
* * *
18418037 GTAAATTATAT-ATTTATCTAAGTTATCTAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
18418087 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTATATATATATATAAGTTATAT
* * *
18418152 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
18418195 ATATGTTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 71 0.76
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:18418347 original size:15 final size:15
Alignment explanation
Indices: 18418327--18418382 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
18418317 AAGTAGCGGG
18418327 ATTAAATAATATTTA
1 ATTAAATAATATTTA
18418342 ATTAAATAATATTT-
1 ATTAAATAATATTTA
18418356 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
18418371 ATTAAATAATAT
1 ATTAAATAATAT
18418383 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:18418591 original size:24 final size:24
Alignment explanation
Indices: 18418559--18418626 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
18418549 ACTTAAATGG
18418559 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
18418583 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
* *
18418607 TAAAACGGACAAGAATATTT
1 TAAAACGGACGATAATATTT
18418627 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 39 0.98
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:18423208 original size:15 final size:15
Alignment explanation
Indices: 18423188--18423219 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18423178 AAATAATAAT
*
18423188 TTATATATATTTATC
1 TTATATACATTTATC
18423203 TTATATACATTTATC
1 TTATATACATTTATC
18423218 TT
1 TT
18423220 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:18423644 original size:18 final size:18
Alignment explanation
Indices: 18423621--18423670 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
18423611 TTACACCCTA
18423621 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
18423639 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
18423657 AATATATATATATA
1 AATATATAT-TATA
18423671 TATATAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:18424030 original size:41 final size:41
Alignment explanation
Indices: 18423984--18424623 Score: 1055
Period size: 41 Copynumber: 15.6 Consensus size: 41
18423974 TACTTTTTTA
* *
18423984 CGGCGTTTTTCCAAAAGTGCCACTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424025 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424066 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424107 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424148 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424189 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424230 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424271 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424312 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424353 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424394 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424435 CGGCGTTTTTCCAAAAGCGTCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
*
18424476 CGGCATTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
* *
18424517 CGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
* * * * **
18424558 CAGCGTTTTTCCAGAAGCGCCACTAAAACCTCAACCTATAG
1 CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
* * *
18424599 CGGCATTTTTCGAAAAGCACCGCTA
1 CGGCGTTTTTCCAAAAGCGCCGCTA
18424624 TTGTTTAGTT
Statistics
Matches: 561, Mismatches: 38, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 561 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
CGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAG
Found at i:18424665 original size:41 final size:41
Alignment explanation
Indices: 18424618--18424728 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
18424608 TCGAAAAGCA
* * * * *
18424618 CCGCTATTGTTTAGTTTTTAGCGGCGTTTGGGCCAAAAACG
1 CCGCTATTGCTCAGTTTTTAGCCGCGTTTGGACAAAAAACG
*
18424659 CCGCTATTGCTCAGTTTTTAGCCGCGTTTGGATAAAAAACG
1 CCGCTATTGCTCAGTTTTTAGCCGCGTTTGGACAAAAAACG
* *
18424700 CCGCTATTGCTCTGCTTTTT-GCGGCGTTT
1 CCGCTATTGCTCAG-TTTTTAGCCGCGTTT
18424729 TATTACAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (41 bp):
CCGCTATTGCTCAGTTTTTAGCCGCGTTTGGACAAAAAACG
Found at i:18425618 original size:8 final size:8
Alignment explanation
Indices: 18425605--18425631 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18425595 CTGTAAACCT
18425605 TAATAAAA
1 TAATAAAA
18425613 TAATAAAA
1 TAATAAAA
18425621 TAATAAAA
1 TAATAAAA
18425629 TAA
1 TAA
18425632 ATATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:18431970 original size:25 final size:25
Alignment explanation
Indices: 18431942--18431999 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
18431932 TAATAAAATC
*
18431942 CATGTAATTCATGTAG-T-TTATAATT
1 CATGTAATTCATATAGCTCTTAT-A-T
*
18431967 CATGTAAATCATATAGCTCTTATAT
1 CATGTAATTCATATAGCTCTTATAT
18431992 CATGTAAT
1 CATGTAAT
18432000 CTTCATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 22 0.79
26 2 0.07
27 4 0.14
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (25 bp):
CATGTAATTCATATAGCTCTTATAT
Found at i:18432202 original size:23 final size:23
Alignment explanation
Indices: 18432155--18432213 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
18432145 CTGAGCTAAT
* *
18432155 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCGAAGAGATG
* *
18432178 AAATGGTAAGCTCCGAAGGGATG
1 AAACGGTAAGCTCCGAAGAGATG
*
18432201 AAACAGTAAGCTC
1 AAACGGTAAGCTC
18432214 ATATGAGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGATG
Found at i:18437933 original size:27 final size:27
Alignment explanation
Indices: 18437895--18437947 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
18437885 GACCTCTAAT
18437895 TGATAAAATGACTATTATGCCCCTATG
1 TGATAAAATGACTATTATGCCCCTATG
*
18437922 TGATAAAATGACTGTTATGCCCCTAT
1 TGATAAAATGACTATTATGCCCCTAT
18437948 ACGATGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (27 bp):
TGATAAAATGACTATTATGCCCCTATG
Found at i:18442342 original size:49 final size:49
Alignment explanation
Indices: 18442289--18442470 Score: 224
Period size: 49 Copynumber: 3.7 Consensus size: 49
18442279 CTGGTACGCA
*
18442289 TAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
* * ** *
18442338 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTA-TCGG-GCACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTCGGTACACG
* * *
18442387 CATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 --TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
*
18442438 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
18442471 TCACAATAGA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
49 66 0.59
50 11 0.10
51 34 0.31
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
Found at i:18442416 original size:100 final size:100
Alignment explanation
Indices: 18442284--18442468 Score: 325
Period size: 100 Copynumber: 1.9 Consensus size: 100
18442274 GCTATCTGGT
* *
18442284 ACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTGC
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGC
18442349 ACTTAGTACTACACACGTGATTGAAGTTATCGGGC
66 ACTTAGTACTACACACGTGATTGAAGTTATCGGGC
* *
18442384 ACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGC
1 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGC
*
18442449 ACTTAGTACTACACATGTGA
66 ACTTAGTACTACACACGTGA
18442469 CCTCACAATA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGC
ACTTAGTACTACACACGTGATTGAAGTTATCGGGC
Found at i:18459774 original size:10 final size:10
Alignment explanation
Indices: 18459759--18459786 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
18459749 ATTAGAGAAA
18459759 AAAGTAAAAC
1 AAAGTAAAAC
18459769 AAAGTAAAAC
1 AAAGTAAAAC
18459779 AAAGTAAA
1 AAAGTAAA
18459787 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:18462008 original size:22 final size:22
Alignment explanation
Indices: 18461983--18462030 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18461973 CTCTTAGTTC
* *
18461983 TTTAAG-TATTATCTTTATGGGT
1 TTTAAGCTATT-TCTTAACGGGT
*
18462005 TTTAGGCTATTTCTTAACGGGT
1 TTTAAGCTATTTCTTAACGGGT
18462027 TTTA
1 TTTA
18462031 TCTCTTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (22 bp):
TTTAAGCTATTTCTTAACGGGT
Found at i:18463070 original size:27 final size:27
Alignment explanation
Indices: 18463040--18463145 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
18463030 GGGTTGTAAA
*
18463040 ATTATCGAAATACCCCTATAGGGTAGG
1 ATTACCGAAATACCCCTATAGGGTAGG
* *
18463067 ATTACCAAAATACCCCTATAGGGTAAG
1 ATTACCGAAATACCCCTATAGGGTAGG
* *
18463094 ATTACCGAAATACTCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTATAGGGTAGG
* * *
18463121 ATTATCGAAATACCCTTGTAGGGTA
1 ATTACCGAAATACCCCTATAGGGTA
18463146 AAATGATCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
ATTACCGAAATACCCCTATAGGGTAGG
Found at i:18463143 original size:54 final size:54
Alignment explanation
Indices: 18463035--18463149 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
18463025 CCCCCGGGTT
*
18463035 GTAAAATTATCGAAATACCCCTATAGGGTAGGATTACCAAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTATAGGGTAGGATTACCAAAATACCCCTATAGG
* * * * * * *
18463089 GTAAGATTACCGAAATACTCCTGTAGGGTAGGATTATCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCCTATAGGGTAGGATTACCAAAATACCCCTATAGG
18463143 GTAAAAT
1 GTAAAAT
18463150 GATCATTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCCTATAGGGTAGGATTACCAAAATACCCCTATAGG
Found at i:18463163 original size:27 final size:27
Alignment explanation
Indices: 18463133--18463204 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
18463123 TATCGAAATA
*
18463133 CCCTTGTAGGGTAAAATGA-TCATTTTG
1 CCCTTATAGGGTAAAATGACT-ATTTTG
* *
18463160 CCC-TAAAGAGTAAAATGACTATTTTG
1 CCCTTATAGGGTAAAATGACTATTTTG
*
18463186 CCCTTCT-GGGT-AAATGACT
1 CCCTTATAGGGTAAAATGACT
18463205 GACTTAGGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 8 0.22
26 24 0.65
27 5 0.14
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (27 bp):
CCCTTATAGGGTAAAATGACTATTTTG
Found at i:18463199 original size:26 final size:27
Alignment explanation
Indices: 18463140--18463189 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
18463130 ATACCCTTGT
18463140 AGGGTAAAATGA-TCATTTTGCCCTAA
1 AGGGTAAAATGACTCATTTTGCCCTAA
*
18463166 AGAGTAAAATGACT-ATTTTGCCCT
1 AGGGTAAAATGACTCATTTTGCCCT
18463190 TCTGGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (27 bp):
AGGGTAAAATGACTCATTTTGCCCTAA
Found at i:18465181 original size:93 final size:93
Alignment explanation
Indices: 18465069--18465240 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18465059 GCCCATAAGT
* *
18465069 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18465134 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
18465162 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
18465227 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
18465241 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:18465236 original size:46 final size:46
Alignment explanation
Indices: 18465061--18465236 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
18465051 TGTAACCCGC
* *
18465061 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
18465107 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
18465157 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
18465200 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18465237 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:18467109 original size:18 final size:18
Alignment explanation
Indices: 18467088--18467130 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
18467078 AAATAAGAAG
*
18467088 GGTTTTTAATGAAAACAT
1 GGTTTTCAATGAAAACAT
*
18467106 GGTTTTCAATGGAAACAT
1 GGTTTTCAATGAAAACAT
18467124 GGTTTTC
1 GGTTTTC
18467131 GAAAAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAT
Found at i:18468543 original size:22 final size:22
Alignment explanation
Indices: 18468478--18468546 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
18468468 TATGCACTAT
*
18468478 TAAACAGAGAGCACTAAAGTGT
1 TAAACAGAGAGCACTAAAGTGC
* * *
18468500 TATACAGATAGCAC-ATATGTGC
1 TAAACAGAGAGCACTA-AAGTGC
* *
18468522 TAAACGGAGAGCACTAACGTGC
1 TAAACAGAGAGCACTAAAGTGC
18468544 TAA
1 TAA
18468547 TAATCAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:18469229 original size:6 final size:6
Alignment explanation
Indices: 18469203--18469254 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
18469193 TGGTTCAAGC
* *
18469203 TTTCAA TCTCATA TCTCAA TTTCAA TTTCAA TTTCAA -TTCAAA TTTCAA
1 TTTCAA TTTCA-A TTTCAA TTTCAA TTTCAA TTTCAA TTTC-AA TTTCAA
18469252 TTT
1 TTT
18469255 ATAATTCCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 3 0.07
6 29 0.71
7 9 0.22
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTCAA
Found at i:18469457 original size:20 final size:22
Alignment explanation
Indices: 18469430--18469483 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
18469420 TGATCAGTAG
18469430 ACGACACATAAGTGCCTGAAA-
1 ACGACACATAAGTGCCTGAAAT
* *
18469451 A-GACACACGAGGTGCCTGAAAT
1 ACGACACA-TAAGTGCCTGAAAT
18469473 ACGACACATAA
1 ACGACACATAA
18469484 TATAACAGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 2 0.08
23 6 0.23
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (22 bp):
ACGACACATAAGTGCCTGAAAT
Found at i:18470771 original size:47 final size:45
Alignment explanation
Indices: 18470700--18470920 Score: 223
Period size: 47 Copynumber: 4.7 Consensus size: 45
18470690 TTATTTGTAC
18470700 GCCAGTGTAAGACATGTCTGGGACATGC-TCCGACCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCAT-CGACCACA-TATGAGA
* *
18470746 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-A-ACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-A-CCACATATGAGA
* * * *
18470794 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACA-TATGAGA
* * * * *
18470840 GCCAGTGTAAGACATATCTGGGACATGACATCGGCACAGAGATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATG-CATCGAC-CACATATGAGA
18470887 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGA
18470921 TAATATATCC
Statistics
Matches: 146, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
46 45 0.31
47 67 0.46
48 22 0.15
49 2 0.01
50 2 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATATGAGA
Found at i:18486718 original size:29 final size:29
Alignment explanation
Indices: 18486684--18486757 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18486674 TAATCAACCG
*
18486684 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
18486713 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
18486742 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
18486758 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:18494112 original size:5 final size:5
Alignment explanation
Indices: 18494102--18494127 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18494092 GATACCAACC
18494102 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
18494128 CTTTTGGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:18498233 original size:20 final size:20
Alignment explanation
Indices: 18498210--18498313 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
18498200 AGGGGTGCCA
18498210 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
* * * *
18498230 AAGTGCAATCAGGGGTAC-C
1 AAGTACAAACAGGGGCACGT
* *
18498249 AGAGTACAAACAAGGGCATGT
1 A-AGTACAAACAGGGGCACGT
** *
18498270 AAGTGTAATA-AGGGGTATCG-
1 AAGTACAA-ACAGGGGCA-CGT
* *
18498290 AATTACAAATAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
18498310 AAGT
1 AAGT
18498314 GCAATCATTC
Statistics
Matches: 58, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 4 0.07
20 51 0.88
21 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.17
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACGT
Found at i:18498234 original size:40 final size:40
Alignment explanation
Indices: 18498190--18498314 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
18498180 CAGGGCACCA
* *
18498190 AAGTGTAATTAGGGGTGCCAAAGTACAAACAGGGGCACGT
1 AAGTGTAATAAGGGGTACCAAAGTACAAACAGGGGCACGT
* * * * *
18498230 AAGTGCAATCAGGGGTACCAGAGTACAAACAAGGGCATGT
1 AAGTGTAATAAGGGGTACCAAAGTACAAACAGGGGCACGT
* * * *
18498270 AAGTGTAATAAGGGGTATCGAATTACAAATAGGGGCACGT
1 AAGTGTAATAAGGGGTACCAAAGTACAAACAGGGGCACGT
18498310 AAGTG
1 AAGTG
18498315 CAATCATTCA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.18
Consensus pattern (40 bp):
AAGTGTAATAAGGGGTACCAAAGTACAAACAGGGGCACGT
Found at i:18499900 original size:33 final size:33
Alignment explanation
Indices: 18499819--18499903 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
18499809 ATAGAGTCAT
* * *
18499819 TCTGCAGGGACAATAAACATGGAATAGAGTAAG
1 TCTGCTGGGACAGTAAACATGGAACAGAGTAAG
** *
18499852 T-TTTTCGGGATAGTAAACATGGAACAGAG-ATAG
1 TCTGCT-GGGACAGTAAACATGGAACAGAGTA-AG
18499885 TCTGCTGGGACAGTAAACA
1 TCTGCTGGGACAGTAAACA
18499904 CAGACCAGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
32 2 0.05
33 36 0.90
34 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (33 bp):
TCTGCTGGGACAGTAAACATGGAACAGAGTAAG
Found at i:18500537 original size:34 final size:33
Alignment explanation
Indices: 18500499--18500591 Score: 105
Period size: 34 Copynumber: 2.8 Consensus size: 33
18500489 TCTAGGCTTA
* *
18500499 AGCCCTTTTCAGTGGCAATATCAGTGTGGGCCTT
1 AGCCCATTTCAGT-ACAATATCAGTGTGGGCCTT
** * *
18500533 AGCCCATCACAATAACAGTATCAGTGTGGGCCTT
1 AGCCCATTTCAGT-ACAATATCAGTGTGGGCCTT
*
18500567 AGCCCAATTCAGTACAATATCAGTG
1 AGCCCATTTCAGTACAATATCAGTG
18500592 ATGCATACAG
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 11 0.23
34 36 0.77
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
AGCCCATTTCAGTACAATATCAGTGTGGGCCTT
Found at i:18514585 original size:39 final size:39
Alignment explanation
Indices: 18514485--18514708 Score: 238
Period size: 39 Copynumber: 5.6 Consensus size: 39
18514475 TTGAATGATG
* * *
18514485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGAT-ACTAAT
* *
18514524 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
18514565 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
18514604 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18514643 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18514682 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
18514709 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 74 0.46
40 74 0.46
41 12 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18514660 original size:79 final size:80
Alignment explanation
Indices: 18514485--18514708 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 80
18514475 TTGAATGATG
* * * * *
18514485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAT-ACTATATCCGGGCTAAGACCCGAAGGCATT
*
18514549 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
18514565 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
18514627 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * * *
18514643 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
18514708 G
66 G
18514709 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 35 0.28
79 55 0.44
80 34 0.27
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:18514715 original size:40 final size:40
Alignment explanation
Indices: 18514485--18514708 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
18514475 TTGAATGATG
* * * *
18514485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
18514525 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
18514565 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18514604 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18514643 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18514684 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18514709 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 73 0.45
40 77 0.48
41 11 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18514730 original size:79 final size:79
Alignment explanation
Indices: 18514485--18514741 Score: 211
Period size: 79 Copynumber: 3.3 Consensus size: 79
18514475 TTGAATGATG
* * * * * * *
18514485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGAC-CATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGAT-ACTAATA-CCGGGCTAAG-CCCGAAGGCAT
** * *
18514548 TTGTGCGAGATACTAAT
63 TTGAACGAGTTACTAAA
* * * *
18514565 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
**
18514629 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* * *
18514643 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
18514707 TGAACGAG-TAGCTATA
64 TGAACGAGTTA-CTAAA
* *
18514723 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
18514742 TACGTGATTT
Statistics
Matches: 150, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 36 0.24
79 68 0.45
80 46 0.31
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTTACTAAA
Found at i:18522580 original size:39 final size:40
Alignment explanation
Indices: 18522485--18522746 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18522475 TTGAATGATG
*
18522485 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
18522523 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
18522564 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
18522603 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
18522642 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
18522681 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
18522720 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18522747 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18531917 original size:28 final size:29
Alignment explanation
Indices: 18531885--18531941 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
18531875 CATACATGCC
*
18531885 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
18531913 TATGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
18531942 CAGTCATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCA
Found at i:18532197 original size:15 final size:16
Alignment explanation
Indices: 18532155--18532198 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
18532145 CGTAGACAAA
18532155 ATTTTAGCTTTTCGAC
1 ATTTTAGCTTTTCGAC
* *
18532171 ATTTCAGCTTTTTG-C
1 ATTTTAGCTTTTCGAC
*
18532186 ATTTTAGTTTTTC
1 ATTTTAGCTTTTC
18532199 AGGATTTGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (16 bp):
ATTTTAGCTTTTCGAC
Found at i:18538988 original size:43 final size:42
Alignment explanation
Indices: 18538845--18539011 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
18538835 GGTTATCTAG
* *
18538845 ATGTGATTACATGTAAGACCATGTCTAGGACATTGG-ACTTGT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCA-TCGT
* * * *
18538887 ATTGAGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
1 A-TGTGATTACATGTAAGACCATATCTAGGACATTGGCATCGT
** * *
18538930 -TAGTTGATTTTATGTAAGACCCTATCTAGGACAGTGGCATCGAT
1 AT-G-TGATTACATGTAAGACCATATCTAGGACATTGGCATCG-T
* * *
18538974 ATGTGATAACATGTAAGACCATATTTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCAT
18539012 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 88 0.87
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCGT
Found at i:18562575 original size:39 final size:39
Alignment explanation
Indices: 18562521--18562622 Score: 186
Period size: 39 Copynumber: 2.6 Consensus size: 39
18562511 TTACCAGCGA
* *
18562521 GACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGG
1 GACTTTAGCCCGGATACATTTCCAACAAGAAGCCTGTGG
18562560 GACTTTAGCCCGGATACATTTCCAACAAGAAGCCTGTGG
1 GACTTTAGCCCGGATACATTTCCAACAAGAAGCCTGTGG
18562599 GACTTTAGCCCGGATACATTTCCA
1 GACTTTAGCCCGGATACATTTCCA
18562623 CTGTCTTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GACTTTAGCCCGGATACATTTCCAACAAGAAGCCTGTGG
Found at i:18565128 original size:53 final size:53
Alignment explanation
Indices: 18565048--18565151 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
18565038 GATTTTCGTC
18565048 CCCGAAAATCTTACCGGTGAATAGGTTAGGGTGACGTTCTCTCATTGAGTTCT
1 CCCGAAAATCTTACCGGTGAATAGGTTAGGGTGACGTTCTCTCATTGAGTTCT
18565101 CCCGAAAATCTTACCGGTGAATAGGTTAGGGTGACGTTCTCTCATTGAGTT
1 CCCGAAAATCTTACCGGTGAATAGGTTAGGGTGACGTTCTCTCATTGAGTT
18565152 TTCTAGATCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (53 bp):
CCCGAAAATCTTACCGGTGAATAGGTTAGGGTGACGTTCTCTCATTGAGTTCT
Found at i:18565819 original size:30 final size:28
Alignment explanation
Indices: 18565759--18565826 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
18565749 ATCGATCTCG
*
18565759 CACACACAGTGCTCGGTTACAGAACTCA
1 CACACACAGTGCTCAGTTACAGAACTCA
* *
18565787 CACACACAGTGCTCAGTTACGGAACTCG
1 CACACACAGTGCTCAGTTACAGAACTCA
18565815 CACACACAGTGC
1 CACACACAGTGC
18565827 CTATGTTCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (28 bp):
CACACACAGTGCTCAGTTACAGAACTCA
Found at i:18567878 original size:39 final size:39
Alignment explanation
Indices: 18567834--18567992 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
18567824 AATTATATTA
* * *
18567834 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
18567873 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
* *
18567912 CCAACATGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
* *
18567951 CCATCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
18567990 CCA
1 CCA
18567993 CTGTCTTGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
Found at i:18568464 original size:50 final size:50
Alignment explanation
Indices: 18568409--18568507 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
18568399 CTTTCGGCCA
18568409 CATTATATACATAAATCATCCATTTCATAATCGGCATTATAGCCTAAATT
1 CATTATATACATAAATCATCCATTTCATAATCGGCATTATAGCCTAAATT
*
18568459 CATTATATACATAAATCATCCATTTCATATTCGGCATTATAGCCTAAAT
1 CATTATATACATAAATCATCCATTTCATAATCGGCATTATAGCCTAAAT
18568508 CCAATATACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.36
Consensus pattern (50 bp):
CATTATATACATAAATCATCCATTTCATAATCGGCATTATAGCCTAAATT
Found at i:18568485 original size:25 final size:25
Alignment explanation
Indices: 18568409--18568486 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
18568399 CTTTCGGCCA
18568409 CATTATATACATAAATCATCCATTT
1 CATTATATACATAAATCATCCATTT
* *** * * *
18568434 CATAATCGGCAT-TAT-AGCCTAAATT
1 CATTATATACATAAATCATCC--ATTT
18568459 CATTATATACATAAATCATCCATTT
1 CATTATATACATAAATCATCCATTT
18568484 CAT
1 CAT
18568487 ATTCGGCATT
Statistics
Matches: 35, Mismatches: 14, Indels: 8
0.61 0.25 0.14
Matches are distributed among these distances:
23 3 0.09
24 2 0.06
25 25 0.71
26 2 0.06
27 3 0.09
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (25 bp):
CATTATATACATAAATCATCCATTT
Found at i:18569860 original size:110 final size:110
Alignment explanation
Indices: 18569667--18569885 Score: 411
Period size: 110 Copynumber: 2.0 Consensus size: 110
18569657 ACTCAATTAG
*
18569667 AAACATTTCTCCTTACAAATTATCAAAACATACACAATGTAACCCATTGAGCTCATGACCGAATG
1 AAACATTTCTCCTTACAAATTATCAAAACATACACAATGTAACCCATTGAGCTCATAACCGAATG
*
18569732 CTTCATGCATCACAAACACAAAATCATACACATGGGTCATGTTAT
66 CTTCATGCATCAAAAACACAAAATCATACACATGGGTCATGTTAT
*
18569777 AAACATTTCTCCTTACAAATTATCAAAACATACACAATTTAACCCATTGAGCTCATAACCGAATG
1 AAACATTTCTCCTTACAAATTATCAAAACATACACAATGTAACCCATTGAGCTCATAACCGAATG
18569842 CTTCATGCATCAAAAACACAAAATCATACACATGGGTCATGTTA
66 CTTCATGCATCAAAAACACAAAATCATACACATGGGTCATGTTA
18569886 GGAGCTTCAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.26
Consensus pattern (110 bp):
AAACATTTCTCCTTACAAATTATCAAAACATACACAATGTAACCCATTGAGCTCATAACCGAATG
CTTCATGCATCAAAAACACAAAATCATACACATGGGTCATGTTAT
Found at i:18570061 original size:30 final size:30
Alignment explanation
Indices: 18570025--18570084 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18570015 AAAGGGGAGA
18570025 AAAAAATGAGAAACTTTGTTCTTATCACCC
1 AAAAAATGAGAAACTTTGTTCTTATCACCC
18570055 AAAAAATGAGAAACTTTGTTCTTATCACCC
1 AAAAAATGAGAAACTTTGTTCTTATCACCC
18570085 TTTTTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (30 bp):
AAAAAATGAGAAACTTTGTTCTTATCACCC
Found at i:18571666 original size:14 final size:14
Alignment explanation
Indices: 18571647--18571680 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18571637 TCTGTGTTTA
18571647 TTATGTGTGAAATT
1 TTATGTGTGAAATT
18571661 TTATGTGTGAAATT
1 TTATGTGTGAAATT
18571675 TT-TGTG
1 TTATGTG
18571681 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (14 bp):
TTATGTGTGAAATT
Found at i:18577674 original size:47 final size:46
Alignment explanation
Indices: 18577600--18577717 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 46
18577590 ATGAGAGCCA
* * * * *
18577600 ATGTAAGACATGTCTGGGACATAGCATCGGCATTGATACGTGTGCC
1 ATGTAAGCCATATCTGGGATATGGCATCGGCATTGATACGTATGCC
* * * **
18577646 AGTGTAAGCCATATCTGGGATATGGCATCGGTATTGGTATGTATTTC
1 A-TGTAAGCCATATCTGGGATATGGCATCGGCATTGATACGTATGCC
18577693 ATGTAAGACCATATCTGGGATATGG
1 ATGTAAG-CCATATCTGGGATATGG
18577718 TGTTGATATG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 7 0.12
47 53 0.88
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
ATGTAAGCCATATCTGGGATATGGCATCGGCATTGATACGTATGCC
Found at i:18579321 original size:27 final size:26
Alignment explanation
Indices: 18579285--18579380 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
18579275 CAGCATGGCT
**
18579285 ACCAGAACAGATAATGTGATAGATTC
1 ACCAGAACAGATAATGTGATAGAGCC
* *
18579311 ACCAGATACAGATGATCGTGCTAGAGCC
1 ACCAGA-ACAGATAAT-GTGATAGAGCC
**
18579339 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGATAGAGCC
*
18579366 ACCAGATCAGATAAT
1 ACCAGAACAGATAAT
18579381 TGTGGCATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.14
27 35 0.59
28 16 0.27
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGATAGAGCC
Found at i:18579384 original size:27 final size:26
Alignment explanation
Indices: 18579310--18579397 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 26
18579300 GTGATAGATT
*
18579310 CACCAGATACAGATGATCGT-GCTAGAGC
1 CACCAGAT-CAGAT-ATTGTGGC-AGAGC
*
18579338 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAT-TGTGGCAGAGC
*
18579365 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
18579392 CACCAG
1 CACCAG
18579398 GACGCTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.04
27 40 0.75
28 11 0.21
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (26 bp):
CACCAGATCAGATATTGTGGCAGAGC
Found at i:18579393 original size:54 final size:54
Alignment explanation
Indices: 18579285--18579397 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
18579275 CAGCATGGCT
* ** *
18579285 ACCAGAACAGATAATGTGATAGATTCACCAGATACAGATGATCGTGCTAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGCTAGAGCC
* * *
18579339 ACCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGC-ATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGT-GCTAGAGCC
18579393 ACCAG
1 ACCAG
18579398 GACGCTTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGCTAGAGCC
Found at i:18587174 original size:28 final size:28
Alignment explanation
Indices: 18587126--18587266 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
18587116 CAGCATGGCT
*
18587126 ACCAGA-ACAGATAAT-GTGGCAGAGTC
1 ACCAGATACAGATAATCGTGGCAGAGCC
*
18587152 ACCAGATACAGATGATCGTGGCAGAGCC
1 ACCAGATACAGATAATCGTGGCAGAGCC
*
18587180 ACCAGATACAGATGATCGTGGCAGAGCC
1 ACCAGATACAGATAATCGTGGCAGAGCC
18587208 ACCAGA-ACAGATATAT-GTGGCAGAGCC
1 ACCAGATACAGATA-ATCGTGGCAGAGCC
* * *
18587235 ACCAGAT-CAGATAATTGTGGCATATCC
1 ACCAGATACAGATAATCGTGGCAGAGCC
18587262 ACCAG
1 ACCAG
18587267 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.08
27 51 0.49
28 46 0.44
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (28 bp):
ACCAGATACAGATAATCGTGGCAGAGCC
Found at i:18587185 original size:22 final size:24
Alignment explanation
Indices: 18587159--18587238 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
18587149 GTCACCAGAT
18587159 ACAGATGATCGTGGCAGAGCCACC
1 ACAGATGATCGTGGCAGAGCCACC
18587183 AGATACAGATGATCGTGGCAGAGCCACC
1 ----ACAGATGATCGTGGCAGAGCCACC
*
18587211 AGAACAGAT-ATATGTGGCAGAGCCACC
1 ---ACAGATGAT-CGTGGCAGAGCCACC
18587238 A
1 A
18587239 GATCAGATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.02
26 2 0.04
27 20 0.43
28 24 0.51
ACGTcount: A:0.34, C:0.25, G:0.28, T:0.14
Consensus pattern (24 bp):
ACAGATGATCGTGGCAGAGCCACC
Found at i:18597714 original size:42 final size:45
Alignment explanation
Indices: 18597613--18597714 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 45
18597603 ACGTGTGCCA
* *
18597613 GTGTAAGACCATATCTGGGATATGGCATCAGCATTGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGG-AT-AG-ATTGATATGAGATTTC
* *
18597661 ATGTAAGACCATATCTGGGTTATGG-T-G-TTGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGATAGATTGATATGAGATTTC
18597703 GTGTAAGACCAT
1 GTGTAAGACCAT
18597715 GTAACACCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 24 0.49
44 1 0.02
46 1 0.02
48 23 0.47
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (45 bp):
GTGTAAGACCATATCTGGGATATGGATAGATTGATATGAGATTTC
Found at i:18599682 original size:19 final size:18
Alignment explanation
Indices: 18599653--18599688 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
18599643 TTTAATATAA
18599653 AAATTTACATAAATAAAC
1 AAATTTACATAAATAAAC
18599671 AAATTATACATAAATAAA
1 AAATT-TACATAAATAAA
18599689 TTTAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTTACATAAATAAAC
Found at i:18601459 original size:22 final size:22
Alignment explanation
Indices: 18601422--18601466 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18601412 GGTTGGTGAT
18601422 TTGGGTTAGGGGTTTATTTAGTAA
1 TTGGGTTA-GGGTTTATTT-GTAA
18601446 TTGGGTT-GGGTTTATTTGTAA
1 TTGGGTTAGGGTTTATTTGTAA
18601467 AAATGTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
24 7 0.33
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (22 bp):
TTGGGTTAGGGTTTATTTGTAA
Found at i:18601977 original size:177 final size:176
Alignment explanation
Indices: 18601674--18602334 Score: 825
Period size: 177 Copynumber: 3.7 Consensus size: 176
18601664 AATAGGACTG
* * * * ** * * *
18601674 GTGGCTCAAATCTGCTCCATTGCCAATAGATGGAGATAAGATTCATAATCCTCAATCTCCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * *
18601739 AACTGCTTA-GGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCA-AGAAGATAAG
66 AGCTGCTTAGGGGATA-AGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGA-AAGATAAG
18601802 ACTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
129 ACTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* **
18601850 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGTTAAGATTTGCCATCTTCGATCTGC-CTCA
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTC-CA
18601914 CAGCTGCTTAAGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAG
65 CAGCTGCTT-AGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAG
* ** *
18601979 ACTATAAACGCCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTA
129 ACTACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* *
18602027 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCA-
* * * * * * *
18602092 CA-CTGCTTAGGAAGATAAGATCGTCAATCTTCGATCTCCTTCCTTGCTACTTTAGGAAGATAAG
65 CAGCTGCTTAGG-GGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAG
* *
18602156 ACT-C-ATT-CTTCAACCTGCTCTCCTACTACCTCAGAGAGATAAGGCTA
129 ACTACAATTGC--CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
* * *
18602203 GTGG-TAAAATCTGTTTCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* ** * * *
18602267 TGCAACTTCAGGGCGATAAGATCTTCAACCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
66 AGCTGCTT-AGGG-GATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAG
18602332 ACT
129 ACT
18602335 TGTTTATTGA
Statistics
Matches: 422, Mismatches: 51, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
174 2 0.00
175 60 0.14
176 149 0.35
177 202 0.48
178 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
AGCTGCTTAGGGGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGAC
TACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA
Found at i:18602330 original size:353 final size:353
Alignment explanation
Indices: 18601674--18602334 Score: 922
Period size: 353 Copynumber: 1.9 Consensus size: 353
18601664 AATAGGACTG
* * *
18601674 GTGGCTCAAATCTGCTCCATTGCCAATAGATGGAGATAAGATTCATAATCCTCAATCTCCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
* *
18601739 AACTGCTTAGGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGAC
66 AACTGCTTAGGGAAATAGATCGTCAATCTTCAGTCTCCTTCCTTGCTACCTCAAGAAGATAAGAC
* *
18601804 TACAATTGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCA
131 TACAATTGCCAACCTGCTCTCCTACTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCA
* * ** **
18601869 TTGTCGATACATGGAGTTAAGATTTGCCATCTTCGATCTGCCTCACAGCTGCTTAAGGGGATAAG
196 TTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCTCACAGCAACTTAAGGGGATAAG
*
18601934 ATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
261 ATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
18601999 CTCTTGCTACCTTAGAGAGATAAGGCTA
326 CTCTTGCTACCTTAGAGAGATAAGGCTA
* * * * * ** *
18602027 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
* * * *
18602092 CACTGCTTA-GGAAGATAAGATCGTCAATCTTC-GATCTCCTTCCTTGCTACTTTAGGAAGATAA
66 AACTGCTTAGGGAA-AT-AGATCGTCAATCTTCAG-TCTCCTTCCTTGCTACCTCAAGAAGATAA
18602155 GACT-C-ATT-CTTCAACCTGCTCTCCTACTACCTCAGAGAGATAAGGCTAGTGG-TAAAATCTG
128 GACTACAATTGC--CAACCTGCTCTCCTACTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTG
* * * *
18602216 TTTCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTG-CTCCACTGCAACTTCAGGG
191 CTCCATTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCT-CACAGCAACTTAAGGG
* *
18602280 CGATAAGATCTTCAACCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
255 -GATAAGATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACT
18602335 TGTTTATTGA
Statistics
Matches: 269, Mismatches: 32, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
351 3 0.01
352 67 0.25
353 156 0.58
354 43 0.16
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (353 bp):
GTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACAATCCTCAATCTCCTCCAC
AACTGCTTAGGGAAATAGATCGTCAATCTTCAGTCTCCTTCCTTGCTACCTCAAGAAGATAAGAC
TACAATTGCCAACCTGCTCTCCTACTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCA
TTATCGATACATGGAGATAAGATTCACCATCTTCGATCTGCCTCACAGCAACTTAAGGGGATAAG
ATCTTCAACCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTATAAACGCCAACCTGCT
CTCTTGCTACCTTAGAGAGATAAGGCTA
Found at i:18602591 original size:64 final size:64
Alignment explanation
Indices: 18602490--18602681 Score: 348
Period size: 64 Copynumber: 3.0 Consensus size: 64
18602480 TTCATGTATC
* *
18602490 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAGATTTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
18602554 ATGCTTATGTAAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
18602618 ATGCTTATGTCAAATAATTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
18602682 TTATGAATGA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 123 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:18609187 original size:19 final size:18
Alignment explanation
Indices: 18609158--18609193 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
18609148 TTTAATATAA
18609158 AAATTTACATAAATAAAC
1 AAATTTACATAAATAAAC
18609176 AAATTATACATAAATAAA
1 AAATT-TACATAAATAAA
18609194 TTTAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTTACATAAATAAAC
Found at i:18611766 original size:40 final size:40
Alignment explanation
Indices: 18611685--18611902 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
18611675 CAACCAAGTA
* * * *
18611685 CCTTCGGGATTTAG-CCAGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
18611724 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18611764 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18611804 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * *
18611844 CCTTCGGGACTTAGCCCGGA-ATTAGTCTCTAGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
18611884 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
18611903 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18613909 original size:17 final size:16
Alignment explanation
Indices: 18613883--18613917 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18613873 AAACTGGAGC
18613883 TTGGGACATTTGGGCTA
1 TTGGGACA-TTGGGCTA
*
18613900 TTGGGTCATTGGGCTA
1 TTGGGACATTGGGCTA
18613916 TT
1 TT
18613918 TTAGAGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.40
Consensus pattern (16 bp):
TTGGGACATTGGGCTA
Found at i:18619555 original size:17 final size:17
Alignment explanation
Indices: 18619535--18619591 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
18619525 CACACATCAT
18619535 TCACATGCTACCATTTA
1 TCACATGCTACCATTTA
* * *
18619552 TCACATACAAACA-TTA
1 TCACATGCTACCATTTA
18619568 TTCACATGCTACCATTTA
1 -TCACATGCTACCATTTA
18619586 TCACAT
1 TCACAT
18619592 ACAAACATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 3 0.09
17 26 0.81
18 3 0.09
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (17 bp):
TCACATGCTACCATTTA
Found at i:18619576 original size:34 final size:34
Alignment explanation
Indices: 18619528--18619601 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
18619518 GGACATCCAC
18619528 ACATCATTCACATGCTACCATTTATCACATACAA
1 ACATCATTCACATGCTACCATTTATCACATACAA
*
18619562 ACATTATTCACATGCTACCATTTATCACATACAA
1 ACATCATTCACATGCTACCATTTATCACATACAA
18619596 ACATCA
1 ACATCA
18619602 CATACTTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.30
Consensus pattern (34 bp):
ACATCATTCACATGCTACCATTTATCACATACAA
Found at i:18626942 original size:16 final size:16
Alignment explanation
Indices: 18626917--18626947 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18626907 TGGCATTTTG
18626917 ATAGTGAATTGAAATT
1 ATAGTGAATTGAAATT
*
18626933 ATAGTTAATTGAAAT
1 ATAGTGAATTGAAAT
18626948 GGATTGAATT
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:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (16 bp):
ATAGTGAATTGAAATT
Found at i:18630054 original size:27 final size:27
Alignment explanation
Indices: 18630024--18630109 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
18630014 CAAAGTAAGG
18630024 TTTAGGTATGTCAAGTGTGAGAGTGAT
1 TTTAGGTATGTCAAGTGTGAGAGTGAT
* * **
18630051 TTTAGGTCATTTTGAAGTGCTTTTGCAG-G--
1 TTTAGGT-A-TGTCAAGTG--TGAG-AGTGAT
18630080 TTTAGGTATGTCAAGTGTGAGAGTGAT
1 TTTAGGTATGTCAAGTGTGAGAGTGAT
18630107 TTT
1 TTT
18630110 GGGTCATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
27 17 0.40
28 2 0.05
29 14 0.33
31 3 0.07
32 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.42
Consensus pattern (27 bp):
TTTAGGTATGTCAAGTGTGAGAGTGAT
Found at i:18630088 original size:56 final size:56
Alignment explanation
Indices: 18630021--18630131 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
18630011 CTTCAAAGTA
18630021 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGC
1 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGC
*
18630077 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTGGGTCATTTTGAAGTGCTTTTG
1 AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTG
18630132 GATCATCTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.21, C:0.06, G:0.32, T:0.41
Consensus pattern (56 bp):
AGGTTTAGGTATGTCAAGTGTGAGAGTGATTTTAGGTCATTTTGAAGTGCTTTTGC
Found at i:18636242 original size:15 final size:15
Alignment explanation
Indices: 18636219--18636250 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18636209 GTGGTAAGAA
18636219 TTTAATACTTAATTT
1 TTTAATACTTAATTT
*
18636234 TTTAGTACTTAATTT
1 TTTAATACTTAATTT
18636249 TT
1 TT
18636251 AATTGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:18644013 original size:47 final size:47
Alignment explanation
Indices: 18643947--18644326 Score: 715
Period size: 47 Copynumber: 8.1 Consensus size: 47
18643937 GAAATGATAG
18643947 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18643994 TAAGGCCTAATGGCCGATGTGATGAATTTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18644041 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18644088 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18644135 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18644182 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18644229 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
18644276 TAATGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18644323 TAAG
1 TAAG
18644327 TCCCGAAGGG
Statistics
Matches: 325, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 325 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18644501 original size:37 final size:37
Alignment explanation
Indices: 18644445--18644523 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18644435 CCGAGCTGTA
* * *
18644445 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18644482 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18644519 AAGAC
1 AAGAC
18644524 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18645715 original size:77 final size:77
Alignment explanation
Indices: 18645588--18645741 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
18645578 AATTTTGAAA
18645588 GAGTATTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTTGAATGGTCGATA
1 GAGTATTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTTGAATGGTCGATA
18645653 AGCATGTTGTGT
66 AGCATGTTGTGT
*
18645665 GAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTTGAATGGTCGATA
1 GAGTATTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTTGAATGGTCGATA
18645730 AGCATGTTGTGT
66 AGCATGTTGTGT
18645742 TTGCATTCAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.38
Consensus pattern (77 bp):
GAGTATTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAACTGGAAGTTGAATGGTCGATA
AGCATGTTGTGT
Found at i:18646735 original size:40 final size:40
Alignment explanation
Indices: 18645812--18646717 Score: 1706
Period size: 40 Copynumber: 22.6 Consensus size: 40
18645802 GAGAATTGAG
18645812 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18645852 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18645892 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18645932 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18645972 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646012 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646052 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646092 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646132 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646172 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646212 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646252 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646292 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646332 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646372 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646412 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646452 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646492 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646532 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
18646572 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
18646612 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
18646652 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
18646692 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
18646718 AGAGTAATCA
Statistics
Matches: 850, Mismatches: 14, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 847 1.00
41 2 0.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:18648364 original size:47 final size:47
Alignment explanation
Indices: 18648298--18648724 Score: 836
Period size: 47 Copynumber: 9.1 Consensus size: 47
18648288 GAAATGATAG
18648298 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648345 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648392 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648439 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648486 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648533 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648580 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648627 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
18648674 TAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18648721 TAAG
1 TAAG
18648725 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 378 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18648899 original size:37 final size:37
Alignment explanation
Indices: 18648843--18648921 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18648833 CCGAGCTCTA
* * *
18648843 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18648880 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18648917 AAGAC
1 AAGAC
18648922 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18652087 original size:41 final size:41
Alignment explanation
Indices: 18652030--18652179 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
18652020 TCGGGGTTTA
18652030 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
18652071 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
18652112 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
18652152 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
18652180 TGAGTCAGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:18658650 original size:39 final size:40
Alignment explanation
Indices: 18658549--18658766 Score: 216
Period size: 39 Copynumber: 5.5 Consensus size: 40
18658539 TTGAATGATG
* * *
18658549 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
18658588 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
18658629 TCCGGGCTAAG-CCCGAAGGCATTTGTGGGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18658668 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18658707 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
18658746 AACCGGGCTATGTCCCGAAGG
1 -TCCGGGCTAAGTCCCGAAGG
18658767 TGTTTGAACG
Statistics
Matches: 152, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 71 0.47
40 69 0.45
41 11 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18666902 original size:39 final size:38
Alignment explanation
Indices: 18666855--18666997 Score: 196
Period size: 39 Copynumber: 3.7 Consensus size: 38
18666845 GGACTAAGAT
18666855 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCC-GGCTAAGC
18666894 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCC-GGCTAAGC
* * *
18666933 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGCT-AAG-C
* * *
18666973 CCAAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTA
18666998 TAACCGGGCT
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 3 0.03
39 69 0.72
40 24 0.25
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGCTAAGC
Found at i:18671860 original size:41 final size:41
Alignment explanation
Indices: 18671803--18671952 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
18671793 TCGGGGTTTA
*
18671803 AATCCGAGTTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
18671844 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
18671885 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
18671925 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
18671953 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:18675430 original size:8 final size:8
Alignment explanation
Indices: 18675413--18675450 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
18675403 AGTCAAGCAT
18675413 AGAA-AAG
1 AGAAGAAG
18675420 AGAAGAAG
1 AGAAGAAG
*
18675428 AGAAGATG
1 AGAAGAAG
18675436 AGAAGAAG
1 AGAAGAAG
18675444 AGAAGAA
1 AGAAGAA
18675451 CGGTATCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (8 bp):
AGAAGAAG
Found at i:18678091 original size:19 final size:21
Alignment explanation
Indices: 18678050--18678093 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
18678040 TATATATGCC
*
18678050 AAATCAAGTAATAAAGTGATT
1 AAATCAAGTAATAAAATGATT
*
18678071 AAAT-AAGT-ATAAAATGGTT
1 AAATCAAGTAATAAAATGATT
18678090 AAAT
1 AAAT
18678094 GGTGCAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.30
Consensus pattern (21 bp):
AAATCAAGTAATAAAATGATT
Found at i:18678130 original size:62 final size:62
Alignment explanation
Indices: 18678028--18678152 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
18678018 TATGATATGC
*
18678028 AAATTGTGCAAGTATATATGCCAAATCAAGTAATAAAGTGATTAAATAAGTATAAAATGGTT
1 AAATGGTGCAAGTATATATGCCAAATCAAGTAATAAAGTGATTAAATAAGTATAAAATGGTT
*
18678090 AAATGGTGCAAGTATATATGCCAAATCAAGTAATAAAGTGATTGAATAAGTATAAAATGGTT
1 AAATGGTGCAAGTATATATGCCAAATCAAGTAATAAAGTGATTAAATAAGTATAAAATGGTT
18678152 A
1 A
18678153 GGTTATTATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (62 bp):
AAATGGTGCAAGTATATATGCCAAATCAAGTAATAAAGTGATTAAATAAGTATAAAATGGTT
Found at i:18685222 original size:43 final size:43
Alignment explanation
Indices: 18685110--18685279 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 43
18685100 ATAAAGCTCG
* * * *
18685110 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACAA
* * * * * * *
18685151 TATCGATGCCACTATCCCAGACAGGGTCTTATACG-AATTCA-TA
1 TA-CAATGCCAATGTCCCAGAAATGGTCTTACACGTAA-TCACAA
* *
18685194 TAACAATGCCAATGTCCTAGAGATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACAA
* * * *
18685238 TACAATGTCAATGTCCCAGAAATGGTCCTCCATGTAATCACA
1 TACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
18685280 TATTGGTAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 87 0.86
44 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACAA
Found at i:18685467 original size:29 final size:29
Alignment explanation
Indices: 18685434--18685491 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
18685424 ATAAATCAAT
*
18685434 TTAAAGGTATTTATTTGCATATGAACTTA
1 TTAAAGGTATTTATTTGCATATCAACTTA
18685463 TTAAAGGTATTTATTTGCATATCAACTTA
1 TTAAAGGTATTTATTTGCATATCAACTTA
18685492 CCTCGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAAAGGTATTTATTTGCATATCAACTTA
Found at i:18689691 original size:44 final size:45
Alignment explanation
Indices: 18689602--18689692 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 45
18689592 GCTTCGTGAT
* * * *
18689602 ATACGAGGCATTCGAACTCATTGAGTTGCTCTGGGCTCATTATGG
1 ATACGAGGCATTCGAACTCATTGAATTGCTCCGAGCTCATAATGG
* *
18689647 ATACGA-GCA-TCTGAACTCGTTGAATTGCTCCGAGTTCATAATGG
1 ATACGAGGCATTC-GAACTCATTGAATTGCTCCGAGCTCATAATGG
18689691 AT
1 AT
18689693 GCGATACATG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
43 2 0.05
44 31 0.79
45 6 0.15
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (45 bp):
ATACGAGGCATTCGAACTCATTGAATTGCTCCGAGCTCATAATGG
Found at i:18689718 original size:52 final size:52
Alignment explanation
Indices: 18689653--18689756 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
18689643 ATGGATACGA
* *
18689653 GCATCTGAACTCGTTGAATTGCTCCGAGTTCATAATGGATGCGATACATGTG
1 GCATCCGAACTCGTTGAATTGCTCCGAGTTCATAATGGATCCGATACATGTG
* * * *
18689705 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTTATAATGGATCCGATACATGTG
1 GCATCCGAACTCGTTGAATTGCTCCGAGTTCATAATGGATCCGATACATGTG
18689757 ATTGAGTCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (52 bp):
GCATCCGAACTCGTTGAATTGCTCCGAGTTCATAATGGATCCGATACATGTG
Found at i:18690160 original size:6 final size:6
Alignment explanation
Indices: 18690149--18690175 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18690139 TGAGAAAGTT
18690149 TATGTA TATGTA TATGTA TATGTA TAT
1 TATGTA TATGTA TATGTA TATGTA TAT
18690176 ATATGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATGTA
Found at i:18698577 original size:125 final size:125
Alignment explanation
Indices: 18698355--18698598 Score: 364
Period size: 125 Copynumber: 2.0 Consensus size: 125
18698345 ATTTAAAAAT
* ** *
18698355 GATTGACTTGTGAATGCAAGGTTCGTAGAACAAGGAACTCGAGTTTGGACTGAGCCAGATCGTGT
1 GATTGAATTGTGAATGCAAGGTTCGTAGAACAAGGAACTCGAGTGAGGACTGAGCCAGATCATGT
* *
18698420 CAAGAAAAGGTGAAAATTAAGGAAAGTGACATGCACATAGGTCAGGGGTCACTTACAAAC
66 CAAGAAAAGGAGAAAATTAAGGAAAGAGACATGCACATAGGTCAGGGGTCACTTACAAAC
* * * *
18698480 GATTGAATTGTGAATGCAGGGTTCGTAGAATAAGGAATTCGAGTGAGGA-TCGAGCCATATCATG
1 GATTGAATTGTGAATGCAAGGTTCGTAGAACAAGGAACTCGAGTGAGGACT-GAGCCAGATCATG
* *
18698544 TCGAGAAAAGGAGAAAATTAAGGAACGAGACATGCACATAGGTCAGGGGTCACTT
65 TCAAGAAAAGGAGAAAATTAAGGAAAGAGACATGCACATAGGTCAGGGGTCACTT
18698599 CTAGGGACTT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.01
125 105 0.99
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (125 bp):
GATTGAATTGTGAATGCAAGGTTCGTAGAACAAGGAACTCGAGTGAGGACTGAGCCAGATCATGT
CAAGAAAAGGAGAAAATTAAGGAAAGAGACATGCACATAGGTCAGGGGTCACTTACAAAC
Found at i:18700448 original size:322 final size:322
Alignment explanation
Indices: 18699846--18700478 Score: 1081
Period size: 322 Copynumber: 2.0 Consensus size: 322
18699836 TGTTCTATTT
*
18699846 TCTTTTCTTTTTCCACTTGATTTCTTATATATATACATAATTAGTGATTTTTAATTAAGGTTTAA
1 TCTTTTC-TTTTCCACTTGATTTCTTATATATATACATAATTAGTAATTTTTAATTAAGGTTTAA
*
18699911 TTATACATTTTAATTATCATATTAAAACTAAGTGGGAAACCATCATCTTCCACTATCTCATGACA
65 CTATACATTTTAATTATCATATTAAAACTAAGTGGGAAACCATCATCTTCCACTATCTCATGACA
* * * * * *
18699976 AATAATGGTTAATTAACTATTTTAGTCCTTTAGATAATTGCTTTCTATGTCTTCAGGTATTTTTT
130 AAAAATGGTTAATTAACCATTTTAGTCCTTTAGATAATTGCTTTCTAAGTCCTCAAGCA-TTTTT
* * *
18700041 TTAAATTAAAATTTAATAGCGATTGGACTTTTACAATTTAGTCTATGAGCTTTAATTAGCTTTTT
194 TCAAATTAAAATTTAATAGCGATTGGACTTTTACAATTTAGTCCATGAGCTTTAAATAGCTTTTT
18700106 CTTGGTTAAATTACTAACCAAATTTCAATATATTTTCATAACAACTTCATTGAAGATGATGTTC
259 CTTGGTTAAATTACTAACCAAATTTCAATATATTTTCATAACAACTTCATTGAAGATGATGTTC
* *
18700170 TCTTTTC-TTTCCACTTGATTTCTTATATATATACATCATTAGTAATTTTTAGTTAAGGTTTAAC
1 TCTTTTCTTTTCCACTTGATTTCTTATATATATACATAATTAGTAATTTTTAATTAAGGTTTAAC
*
18700234 TATACATTTTAATTATCATATTAAAACTAAGTGGGAAACCATCATCTTCTACTATCTCATGACAA
66 TATACATTTTAATTATCATATTAAAACTAAGTGGGAAACCATCATCTTCCACTATCTCATGACAA
*
18700299 AAAATGGTTAATTAACCATTTTAGTCCTTTGGATAATTGCTTTCTAAGTCCTCAAGCA-TTTTTC
131 AAAATGGTTAATTAACCATTTTAGTCCTTTAGATAATTGCTTTCTAAGTCCTCAAGCATTTTTTC
18700363 AAATTAAAATTTAATAGCGATTGGACTTTTACAATTTAGTCCATGAGCTTTAAATAGCTATTTTC
196 AAATTAAAATTTAATAGCGATTGGACTTTTACAATTTAGTCCATGAGCTTTAAATAGCT-TTTTC
18700428 TTGGTTAAATTACTTAACCAAATTTCAATATATTTTCATAACAACTTCATT
260 TTGGTTAAATTAC-TAACCAAATTTCAATATATTTTCATAACAACTTCATT
18700479 AATCTTTATA
Statistics
Matches: 292, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
320 62 0.21
321 18 0.06
322 205 0.70
324 7 0.02
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (322 bp):
TCTTTTCTTTTCCACTTGATTTCTTATATATATACATAATTAGTAATTTTTAATTAAGGTTTAAC
TATACATTTTAATTATCATATTAAAACTAAGTGGGAAACCATCATCTTCCACTATCTCATGACAA
AAAATGGTTAATTAACCATTTTAGTCCTTTAGATAATTGCTTTCTAAGTCCTCAAGCATTTTTTC
AAATTAAAATTTAATAGCGATTGGACTTTTACAATTTAGTCCATGAGCTTTAAATAGCTTTTTCT
TGGTTAAATTACTAACCAAATTTCAATATATTTTCATAACAACTTCATTGAAGATGATGTTC
Found at i:18702459 original size:22 final size:22
Alignment explanation
Indices: 18702406--18702469 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
18702396 CGGATTTTTG
* *
18702406 AAAATTATATTTAATATTTAAA
1 AAAATAATATTTAAAATTTAAA
18702428 AAAATAATATTTAAAATTTTAAA
1 AAAATAATATTTAAAA-TTTAAA
*
18702451 AAAACATATATTATAAAAT
1 AAAATA-ATATT-TAAAAT
18702470 ATTTCAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 14 0.39
23 11 0.31
24 6 0.17
25 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATAATATTTAAAATTTAAA
Found at i:18702461 original size:24 final size:25
Alignment explanation
Indices: 18702411--18702469 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
18702401 TTTTGAAAAT
*
18702411 TATATTTAATA-TTTAAAAAAATA-
1 TATATTTAAAATTTTAAAAAAATAA
*
18702434 -ATATTTAAAATTTTAAAAAAA-CA
1 TATATTTAAAATTTTAAAAAAATAA
18702457 TATATTATAAAAT
1 TATATT-TAAAAT
18702470 ATTTCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.30
23 10 0.33
24 5 0.17
25 6 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TATATTTAAAATTTTAAAAAAATAA
Found at i:18702564 original size:19 final size:20
Alignment explanation
Indices: 18702508--18702567 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
18702498 AAATCAATAA
*
18702508 AAAAATAAATAAGGACAAA-T
1 AAAAA-AAATAAGAACAAAGT
*
18702528 AAAAAAATTAAGAA-AAAGT
1 AAAAAAAATAAGAACAAAGT
18702547 AAAAAAAAT-AGAACAAAGT
1 AAAAAAAATAAGAACAAAGT
18702566 AA
1 AA
18702568 TATAGGACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.20
19 23 0.66
20 5 0.14
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (20 bp):
AAAAAAAATAAGAACAAAGT
Found at i:18704899 original size:19 final size:18
Alignment explanation
Indices: 18704877--18704916 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18704867 TGAATAAAAC
18704877 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
18704896 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
18704914 TTA
1 TTA
18704917 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:18706456 original size:49 final size:49
Alignment explanation
Indices: 18706382--18706479 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
18706372 TAATTCCATT
*
18706382 GTTTCCCATGTACCTGTTTTTTCAAGAGCACGCATCTCCTCTAAAATAG
1 GTTTCCCATGTACCTGTTTTTTCAAGAACACGCATCTCCTCTAAAATAG
*
18706431 GTTTTCCATGTACCTGTTTTTTCAAGAACACGCATCTCCTCTAAAATAG
1 GTTTCCCATGTACCTGTTTTTTCAAGAACACGCATCTCCTCTAAAATAG
18706480 CCTCTTTCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (49 bp):
GTTTCCCATGTACCTGTTTTTTCAAGAACACGCATCTCCTCTAAAATAG
Found at i:18709639 original size:19 final size:18
Alignment explanation
Indices: 18709617--18709656 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18709607 TGAATAAAAC
18709617 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
18709636 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
18709654 TTA
1 TTA
18709657 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:18723335 original size:27 final size:27
Alignment explanation
Indices: 18723304--18723481 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
18723294 TAAATTGTAC
18723304 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18723331 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
18723357 ATGCACTAAGTGTGCAAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18723385 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18723413 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18723440 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18723467 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18723482 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18723472 original size:82 final size:81
Alignment explanation
Indices: 18723301--18723481 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18723291 GATTAAATTG
* *
18723301 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18723366 GTGTGCAAATTGACCA
66 GTGTGCAAATTGACCA
* * ** *
18723382 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
18723446 AAGTGTGCGAGTTGATTA
64 AAGTGTGCAAATTGACCA
* *
18723464 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18723482 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCAAATTGACCA
Found at i:18723839 original size:119 final size:118
Alignment explanation
Indices: 18723677--18723907 Score: 318
Period size: 119 Copynumber: 1.9 Consensus size: 118
18723667 TTATCATAGA
* *
18723677 ATGGGTGAAAGGCCGTTTAGTTGTATGTTTGTAACGAAAATAAAATGATTTATGAAAATGCCTCG
1 ATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGATTTATGAAAATGCCTC-
* * * *
18723742 AATATCCTATTGATGAGTAGGTGGATTGTGAATACATAAATTGGTATGCGTAGG
65 AATATCCTATTGATAAGTAGATGGAATGTGAATACATAAATTGATATGCGTAGG
* * * * *
18723796 ATGGGTGAAAGGCCGTTTAGTCGTTTGATTGTAACGGAGATAAATTGATTTATGAAAATGCTTCA
1 ATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGATTTATGAAAATGCCTCA
* * * *
18723861 ATGTCCTATTGATAAGTATATGGAATGTGAATGCATGAATTGATATG
66 ATATCCTATTGATAAGTAGATGGAATGTGAATACATAAATTGATATG
18723908 AAATTGAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
118 40 0.41
119 57 0.59
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (118 bp):
ATGGGTGAAAGGCCGTTTAGTCGTATGATTGTAACGAAAATAAAATGATTTATGAAAATGCCTCA
ATATCCTATTGATAAGTAGATGGAATGTGAATACATAAATTGATATGCGTAGG
Found at i:18735986 original size:23 final size:23
Alignment explanation
Indices: 18735960--18736004 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
18735950 ATTTTAACCT
18735960 ATTATAAAAATATAAATATTTTA
1 ATTATAAAAATATAAATATTTTA
* * *
18735983 ATTATATAAATATGAGTATTTT
1 ATTATAAAAATATAAATATTTT
18736005 TTTAAATAAT
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:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTATAAAAATATAAATATTTTA
Done.