Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 34 of 190
Found at i:5918123 original size:42 final size:42
Alignment explanation
Indices: 5918067--5918166 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
5918057 TTTAATGTTA
5918067 ATATATATATTTATTATTACTTAGCTATTTATATATTATTAT
1 ATATATATATTTATTATTACTTAGCTATTTATATATTATTAT
* * * *
5918109 ATATATGTATTTATTATTATTTATCTATTTATATATTATAAT
1 ATATATATATTTATTATTACTTAGCTATTTATATATTATTAT
* *
5918151 TTATCTATTATTTATT
1 ATATATA-TATTTATT
5918167 TTTATTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 42 0.84
43 8 0.16
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (42 bp):
ATATATATATTTATTATTACTTAGCTATTTATATATTATTAT
Found at i:5918225 original size:42 final size:40
Alignment explanation
Indices: 5918056--5918236 Score: 130
Period size: 42 Copynumber: 4.2 Consensus size: 40
5918046 ATATTTATTT
* * * *
5918056 TTTTAATGTTAATATATATATTTATTATTACTTAGCTATTTATA
1 TTTTAAT-TT-ATCTAT-TATTTATT-TTATTTATCTATTAATA
* *
5918100 TATT-ATTATATATATGTATTTATTATTATTTATCTATTTATATA
1 TTTTAATT-TATCTAT-TATTTATT-TTATTTATCTA-TTA-ATA
* * * *
5918144 TTATAATTTATCTATTATTTATTTTTATTTTTTTGTTAATA
1 TTTTAATTTATCTATTATTTA-TTTTATTTATCTATTAATA
* *
5918185 TTTTGATTTATCTGATTATTTTATTTTAATTATCTATTAATA
1 TTTTAATTTATCT-ATTA-TTTATTTTATTTATCTATTAATA
*
5918227 TTTTTATTTA
1 TTTTAATTTA
5918237 ATTTTTATTT
Statistics
Matches: 112, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
41 14 0.12
42 56 0.50
43 23 0.21
44 16 0.14
45 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (40 bp):
TTTTAATTTATCTATTATTTATTTTATTTATCTATTAATA
Found at i:5919142 original size:6 final size:6
Alignment explanation
Indices: 5919131--5919188 Score: 75
Period size: 6 Copynumber: 9.7 Consensus size: 6
5919121 GTTTAGTACT
*
5919131 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTTA -TTTTA TTGTATTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-T-TTA
5919180 -TTTTA TTTT
1 TTTTTA TTTT
5919189 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 8 0.17
6 33 0.72
7 2 0.04
8 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:5919267 original size:58 final size:57
Alignment explanation
Indices: 5919205--5919476 Score: 345
Period size: 58 Copynumber: 4.7 Consensus size: 57
5919195 ATAAAATTCA
*
5919205 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTCT
* * *
5919263 AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT-CT
*
5919322 AAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTGCTTAAAAATAAGTTT-T
1 AAAAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
* * * * * *
5919378 CAAAAGTGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAGTTTCT
1 AAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAGTTTCT
5919438 AAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
5919477 ATTGTACAAA
Statistics
Matches: 188, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
56 5 0.03
57 31 0.16
58 91 0.48
59 55 0.29
60 6 0.03
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
Found at i:5919358 original size:117 final size:115
Alignment explanation
Indices: 5919193--5919476 Score: 373
Period size: 117 Copynumber: 2.5 Consensus size: 115
5919183 TATTTTCTTT
* *
5919193 AAATAAA-ATTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG
1 AAATAAAGTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG
5919257 CTTTCTAAAAAAT-ATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTT-GA
66 -TTT-TAAAAAATGATTTTTGAGAAAAAGTTAAAAGTATCAATTTT-CTTCGA
*
5919308 AAAT-AAGCTTTCCAAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTGCTTAAAAAT
1 AAATAAAG-TTT-CAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * * * *
5919371 AAGTTTTCAAAAGTGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCGA
63 AAGTTTTAAAAAAT-GATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCTTCGA
* *
5919425 AATTAAAGTTTCTAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTC
1 AAATAAAGTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
5919477 ATTGTACAAA
Statistics
Matches: 149, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
114 2 0.01
115 38 0.26
116 19 0.13
117 87 0.58
118 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (115 bp):
AAATAAAGTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG
TTTTAAAAAATGATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCTTCGA
Found at i:5921235 original size:30 final size:30
Alignment explanation
Indices: 5921200--5921272 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
5921190 ATAATTTTTC
*
5921200 TTGAAATCAAATCATTTTGAATTTTGAA-CT
1 TTGAAAACAAATCATTTT-AATTTTGAATCT
* * *
5921230 TTGAAAACAAACCATTTTATTTTTGAATTT
1 TTGAAAACAAATCATTTTAATTTTGAATCT
5921260 TTGAAAACAAATC
1 TTGAAAACAAATC
5921273 TAATTGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.22
30 29 0.78
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (30 bp):
TTGAAAACAAATCATTTTAATTTTGAATCT
Found at i:5921735 original size:7 final size:7
Alignment explanation
Indices: 5921725--5921799 Score: 73
Period size: 7 Copynumber: 10.7 Consensus size: 7
5921715 TGGGTTTTTA
5921725 GTTTAGG
1 GTTTAGG
5921732 GTTT--G
1 GTTTAGG
*
5921737 GTTTAGC
1 GTTTAGG
* *
5921744 ATTTAAG
1 GTTTAGG
5921751 GTTTAGG
1 GTTTAGG
5921758 GTTTAGG
1 GTTTAGG
*
5921765 GTTTTAAG
1 G-TTTAGG
5921773 GTTTATGG
1 GTTTA-GG
*
5921781 TTTTAGG
1 GTTTAGG
5921788 GTTTAGG
1 GTTTAGG
5921795 GTTTA
1 GTTTA
5921800 AATGTAATTA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 5 0.09
7 38 0.70
8 11 0.20
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:5921773 original size:22 final size:22
Alignment explanation
Indices: 5921736--5921799 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
5921726 TTTAGGGTTT
**
5921736 GGTTTAGCATTTAAGGTTTA-G
1 GGTTTAGGGTTTAAGGTTTATG
5921757 GGTTTAGGGTTTTAAGGTTTATG
1 GGTTTAGGG-TTTAAGGTTTATG
* *
5921780 GTTTTAGGGTTTAGGGTTTA
1 GGTTTAGGGTTTAAGGTTTA
5921800 AATGTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 7 0.19
22 21 0.57
23 9 0.24
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (22 bp):
GGTTTAGGGTTTAAGGTTTATG
Found at i:5921775 original size:15 final size:15
Alignment explanation
Indices: 5921752--5921798 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
5921742 GCATTTAAGG
5921752 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
* *
5921767 TTTAAGGTTTATGGT
1 TTTAGGGTTTAGGGT
5921782 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
5921797 TT
1 TT
5921799 AAATGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:5927516 original size:44 final size:45
Alignment explanation
Indices: 5927438--5927525 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
5927428 ATAGTGAGTA
*
5927438 TATTATATTTATAATATTAACTTATTTTATTTAAAATTATAATAG
1 TATTATATTTATAATATAAACTTATTTTATTTAAAATTATAATAG
* *
5927483 TATTATATTTATAATA-AAACTTGTTTTATTTAAAATTGTAATA
1 TATTATATTTATAATATAAACTTATTTTATTTAAAATTATAATA
5927526 CTAACTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (45 bp):
TATTATATTTATAATATAAACTTATTTTATTTAAAATTATAATAG
Found at i:5928626 original size:144 final size:145
Alignment explanation
Indices: 5928308--5928631 Score: 329
Period size: 144 Copynumber: 2.2 Consensus size: 145
5928298 TAATGGTATT
** * *
5928308 TTTATAATTTAATTTTTTTGAAGTTGATTTTT--TGCAAAATCCTCCAGATTATGATTTTATATT
1 TTTATAATTTAACCTTTTTGAAGTTGATTTTTCATG-AAAATCCTCCAAATCATGATTTTATATT
* * * *
5928371 ATTTAGTGATTTTTAGTGCATTAAAAACCTTGGTCGCACCTTGTAAGGTGTAAAATTATTAAAAT
65 ATTTAGTGATTTTTAGTGCATTAAAAACCTTGATCGCACCTAGTAAGGTATAAAATTACTAAAAT
* * *
5928436 GTCTTTAAGGGGTAAC
130 GCCCTTAACGGGTAAC
** ** * *
5928452 TTTATAATTTAACCTTTTAAAAGTCAATTTTTCATG-AAATGCTCCAAATCATGTTTTTATATTA
1 TTTATAATTTAACCTTTTTGAAGTTGATTTTTCATGAAAATCCTCCAAATCATGATTTTATATTA
* * * *
5928516 TTT-GAT-ATTTTTTGGTGCATTAAGAACTTTGATCGCACCTCAG-AATGTATAAAATTACTAAA
66 TTTAG-TGA-TTTTTAGTGCATTAAAAACCTTGATCGCACCT-AGTAAGGTATAAAATTACTAAA
5928578 ATGCCCTTAACGGGTAA-
128 ATGCCCTTAACGGGTAAC
* * * *
5928595 TTTCGTAATTTGACCTTTTTGAGGTTGATTTTCCATG
1 TTT-ATAATTTAACCTTTTTGAAGTTGATTTTTCATG
5928632 GAAACTTTCA
Statistics
Matches: 145, Mismatches: 29, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
143 5 0.03
144 137 0.94
145 1 0.01
146 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (145 bp):
TTTATAATTTAACCTTTTTGAAGTTGATTTTTCATGAAAATCCTCCAAATCATGATTTTATATTA
TTTAGTGATTTTTAGTGCATTAAAAACCTTGATCGCACCTAGTAAGGTATAAAATTACTAAAATG
CCCTTAACGGGTAAC
Found at i:5929933 original size:11 final size:11
Alignment explanation
Indices: 5929919--5929952 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
5929909 TATATGTTAA
5929919 ATTTGTAATAT
1 ATTTGTAATAT
5929930 ATTTGTAATAT
1 ATTTGTAATAT
5929941 ATTTGTAA-AT
1 ATTTGTAATAT
5929951 AT
1 AT
5929953 GCCTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (11 bp):
ATTTGTAATAT
Found at i:5930144 original size:13 final size:13
Alignment explanation
Indices: 5930126--5930169 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
5930116 TACTAAAACA
5930126 AAACCTCAAATCC
1 AAACCTCAAATCC
* *
5930139 AAACCTTAAACCC
1 AAACCTCAAATCC
* *
5930152 AAACCCCAAATCT
1 AAACCTCAAATCC
5930165 AAACC
1 AAACC
5930170 CTAAACCCCG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACCTCAAATCC
Found at i:5930155 original size:26 final size:26
Alignment explanation
Indices: 5930126--5930177 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5930116 TACTAAAACA
* *
5930126 AAACCTCAAATCCAAACCTTAAACCC
1 AAACCCCAAATCCAAACCCTAAACCC
*
5930152 AAACCCCAAATCTAAACCCTAAACCC
1 AAACCCCAAATCCAAACCCTAAACCC
5930178 CGTATCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.13
Consensus pattern (26 bp):
AAACCCCAAATCCAAACCCTAAACCC
Found at i:5930160 original size:20 final size:20
Alignment explanation
Indices: 5930137--5930178 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5930127 AACCTCAAAT
5930137 CCAAACCTTAAACCC-AAACC
1 CCAAACC-TAAACCCTAAACC
*
5930157 CCAAATCTAAACCCTAAACC
1 CCAAACCTAAACCCTAAACC
5930177 CC
1 CC
5930179 GTATCCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.12
Consensus pattern (20 bp):
CCAAACCTAAACCCTAAACC
Found at i:5930188 original size:20 final size:19
Alignment explanation
Indices: 5930146--5930188 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
5930136 TCCAAACCTT
*
5930146 AAACCCAAACCCCAAATCT
1 AAACCCAAACCCCAAATCC
**
5930165 AAACCCTAAACCCCGTATCC
1 AAACCC-AAACCCCAAATCC
5930185 AAAC
1 AAAC
5930189 ATTAAAGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.44, C:0.42, G:0.02, T:0.12
Consensus pattern (19 bp):
AAACCCAAACCCCAAATCC
Found at i:5930206 original size:39 final size:38
Alignment explanation
Indices: 5930157--5930246 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
5930147 AACCCAAACC
* ** *
5930157 CCAAATCTAAACCCTAAACCCCGTATCCAAACATTAAAG
1 CCAAACCTAAACCCTAAACCCCAAATCCAAAC-TCAAAG
* * * *
5930196 CTAAACCTAAATCTTAAACCCCAAATCCAAACTCCAAG
1 CCAAACCTAAACCCTAAACCCCAAATCCAAACTCAAAG
5930234 CCAAACCTAAACC
1 CCAAACCTAAACC
5930247 AAAACCCTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
38 15 0.37
39 26 0.63
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.17
Consensus pattern (38 bp):
CCAAACCTAAACCCTAAACCCCAAATCCAAACTCAAAG
Found at i:5932011 original size:26 final size:23
Alignment explanation
Indices: 5931968--5932021 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 23
5931958 TTGTGTTTTT
5931968 AAAAAAAGGAAAACAATGAAAGAGA
1 AAAAAAAGGAAAACAATGAAA-A-A
5931993 AAAAAAAGAGACAAA-AATGAAAAA
1 AAAAAAAG-GA-AAACAATGAAAAA
5932017 AAAAA
1 AAAAA
5932022 TGAAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.22
25 9 0.33
26 9 0.33
27 3 0.11
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAAAAGGAAAACAATGAAAAA
Found at i:5932020 original size:12 final size:12
Alignment explanation
Indices: 5932005--5932029 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5931995 AAAAAGAGAC
5932005 AAAAATGAAAAA
1 AAAAATGAAAAA
5932017 AAAAATGAAAAA
1 AAAAATGAAAAA
5932029 A
1 A
5932030 CATAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAATGAAAAA
Found at i:5932029 original size:21 final size:21
Alignment explanation
Indices: 5931991--5932040 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
5931981 CAATGAAAGA
* *
5931991 GAAAAAAAAGAGACAAAA-AT
1 GAAAAAAAAAAGAAAAAACAT
5932011 GAAAAAAAAAATGAAAAAACAT
1 GAAAAAAAAAA-GAAAAAACAT
5932033 -AAAAAAAA
1 GAAAAAAAA
5932041 TTATTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (21 bp):
GAAAAAAAAAAGAAAAAACAT
Found at i:5948758 original size:17 final size:18
Alignment explanation
Indices: 5948720--5948760 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
5948710 AATTTATCTT
* *
5948720 TTAAGTATATTTATCGCA
1 TTAAGTATATTTATAGAA
5948738 -TAAGTATATTTA-AGAA
1 TTAAGTATATTTATAGAA
5948754 TTAAGTA
1 TTAAGTA
5948761 ATTCTTATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (18 bp):
TTAAGTATATTTATAGAA
Found at i:5948873 original size:21 final size:19
Alignment explanation
Indices: 5948834--5948884 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
5948824 ATCCAACAAT
5948834 TATATTATTTTTATGTAAA
1 TATATTATTTTTATGTAAA
*
5948853 TATATTTATTTATTTTGTAAAA
1 TATA-TTATTT-TTATGT-AAA
5948875 TTATATTATT
1 -TATATTATT
5948885 CTTAGAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 5 0.19
22 8 0.30
23 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TATATTATTTTTATGTAAA
Found at i:5948879 original size:23 final size:21
Alignment explanation
Indices: 5948831--5948881 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
5948821 AATATCCAAC
5948831 AATTATA-TTATTTTTATGTA
1 AATTATATTTATTTTTATGTA
*
5948851 AA-TATATTTATTTATTTTGTAA
1 AATTATATTTATTT-TTATGT-A
5948873 AATTATATT
1 AATTATATT
5948882 ATTCTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 5 0.19
22 3 0.12
23 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTATATTTATTTTTATGTA
Found at i:5949008 original size:12 final size:13
Alignment explanation
Indices: 5948986--5949022 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5948976 TAATCTTTTG
*
5948986 TAAAAAATAATAA
1 TAAACAATAATAA
5948999 T-AACAATAATAA
1 TAAACAATAATAA
5949011 TAAACAA-AATAA
1 TAAACAATAATAA
5949023 AATCTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACAATAATAA
Found at i:5951345 original size:18 final size:18
Alignment explanation
Indices: 5951322--5951356 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5951312 TTTCATTTCT
*
5951322 TGGTTGTAGATGATCAAA
1 TGGTTGTAGAAGATCAAA
5951340 TGGTTGTAGAAGATCAA
1 TGGTTGTAGAAGATCAA
5951357 GTCTCGGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (18 bp):
TGGTTGTAGAAGATCAAA
Found at i:5953165 original size:11 final size:11
Alignment explanation
Indices: 5953145--5953221 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
5953135 TATTCAACAG
*
5953145 TAAAAGTTTTA
1 TAAAAATTTTA
5953156 TAAAAATTTTTA
1 TAAAAA-TTTTA
*
5953168 TTAAAAATAATTA
1 -TAAAAAT-TTTA
* *
5953181 TAAAAAATATA
1 TAAAAATTTTA
*
5953192 TTAAAA-TTTA
1 TAAAAATTTTA
5953202 TTAAAAATTTT-
1 -TAAAAATTTTA
*
5953213 TGAAAATTT
1 TAAAAATTT
5953222 ATACACTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
10 11 0.21
11 17 0.33
12 15 0.29
13 9 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAAAATTTTA
Found at i:5953166 original size:12 final size:12
Alignment explanation
Indices: 5953146--5953213 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
5953136 ATTCAACAGT
*
5953146 AAAAGTTTTATA
1 AAAATTTTTATA
5953158 AAAATTTTTATTA
1 AAAATTTTTA-TA
**
5953171 AAAATAATTATA
1 AAAATTTTTATA
* * *
5953183 AAAA-ATATATT
1 AAAATTTTTATA
*
5953194 AAAATTTAT-TA
1 AAAATTTTTATA
5953205 AAAATTTTT
1 AAAATTTTT
5953214 GAAAATTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
11 17 0.38
12 18 0.40
13 10 0.22
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (12 bp):
AAAATTTTTATA
Found at i:5953207 original size:21 final size:21
Alignment explanation
Indices: 5953178--5953224 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5953168 TTAAAAATAA
5953178 TTATAAAAAATATATT-AAAAT
1 TTATAAAAAAT-TATTGAAAAT
* *
5953199 TTATTAAAAATTTTTGAAAAT
1 TTATAAAAAATTATTGAAAAT
5953220 TTATA
1 TTATA
5953225 CACTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATAAAAAATTATTGAAAAT
Found at i:5953218 original size:10 final size:11
Alignment explanation
Indices: 5953164--5953223 Score: 61
Period size: 10 Copynumber: 5.5 Consensus size: 11
5953154 TATAAAAATT
5953164 TTTATTAAAAA
1 TTTATTAAAAA
*
5953175 TAATTATAAAAAA
1 T--TTATTAAAAA
*
5953188 TATATT-AAAA
1 TTTATTAAAAA
5953198 TTTATTAAAAA
1 TTTATTAAAAA
*
5953209 TTT-TTGAAAA
1 TTTATTAAAAA
5953219 TTTAT
1 TTTAT
5953224 ACACTTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
10 18 0.45
11 12 0.30
13 10 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TTTATTAAAAA
Found at i:5956645 original size:18 final size:17
Alignment explanation
Indices: 5956604--5956645 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
5956594 ATTTTTATTA
*
5956604 AAAAATATTATTTAACT
1 AAAAATATTATTTAAAT
*
5956621 -AATATATTATATTAAAT
1 AAAAATATTAT-TTAAAT
5956638 AAAAATAT
1 AAAAATAT
5956646 AAAAATCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATATTATTTAAAT
Found at i:5959858 original size:20 final size:20
Alignment explanation
Indices: 5959833--5959872 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5959823 AATTATAATC
5959833 ATTAAAAAATCAA-TAAATAA
1 ATTAAAAAAT-AATTAAATAA
*
5959853 ATTAAAATATAATTAAATAA
1 ATTAAAAAATAATTAAATAA
5959873 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTAAAAAATAATTAAATAA
Found at i:5960282 original size:24 final size:23
Alignment explanation
Indices: 5960239--5960295 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
5960229 TATAATATAA
*
5960239 TAAAAATAATATAATTTAAAATTT
1 TAAAAATAATATAATAT-AAATTT
5960263 TAAAAATAAT-TATATATAAATTT
1 TAAAAATAATATA-ATATAAATTT
*
5960286 AATAAAATAA
1 TA-AAAATAA
5960296 AAAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAATAATATAATATAAATTT
Found at i:5960607 original size:17 final size:16
Alignment explanation
Indices: 5960585--5960628 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
5960575 TTATTTTCAC
5960585 TTAAAATAAATTAAAAA
1 TTAAAATAAA-TAAAAA
*
5960602 TTAAAATAAATAAAAT
1 TTAAAATAAATAAAAA
5960618 TTGAAAATAAA
1 TT-AAAATAAA
5960629 CAATTATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
TTAAAATAAATAAAAA
Found at i:5978437 original size:21 final size:20
Alignment explanation
Indices: 5978399--5978437 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5978389 GAAAGAGTAC
**
5978399 TTGGACAAGTGCTTTCACTA
1 TTGGACAAGTGCCATCACTA
5978419 TTGGATCAAGTGCCATCAC
1 TTGGA-CAAGTGCCATCAC
5978438 ATGAAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
TTGGACAAGTGCCATCACTA
Found at i:5979496 original size:65 final size:65
Alignment explanation
Indices: 5979419--5979540 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 65
5979409 TCTGATTCTA
*
5979419 TTTTTTGTTTCTTTTAAAAGCAAGATTGTTGGGATATCATCCCTTTCATCAATTTCTTGATTATG
1 TTTTTTGTTTCTTTTAAAAGCAAGATTGTTGGGATATCATCCCCTTCATCAATTTCTTGATTATG
* * *
5979484 TTTTTT-TCTTCTTTTGAAAGCATGATTGTTGGGATATCTTCCCCTTCATCAATTTCT
1 TTTTTTGT-TTCTTTTAAAAGCAAGATTGTTGGGATATCATCCCCTTCATCAATTTCT
5979541 CTATCCAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.02
65 51 0.98
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (65 bp):
TTTTTTGTTTCTTTTAAAAGCAAGATTGTTGGGATATCATCCCCTTCATCAATTTCTTGATTATG
Found at i:5987585 original size:14 final size:14
Alignment explanation
Indices: 5987566--5987610 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
5987556 AACAGCTCTA
*
5987566 TAACTTGACTAAAG
1 TAACTTTACTAAAG
*
5987580 TAACTTTAATAAAG
1 TAACTTTACTAAAG
*
5987594 TATCTTTACTAAAG
1 TAACTTTACTAAAG
5987608 TAA
1 TAA
5987611 ATGTAAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (14 bp):
TAACTTTACTAAAG
Found at i:5990546 original size:125 final size:125
Alignment explanation
Indices: 5990319--5990569 Score: 457
Period size: 125 Copynumber: 2.0 Consensus size: 125
5990309 GACTATCATT
* *
5990319 ATGAAGTGGTTTGGAAAGTTTTTTCAAGGCTCAAAATAACTTTCAAACTTGATACCTTTCTCACT
1 ATGAAGTGATTTGGAAAGTTTTTTCAACGCTCAAAATAACTTTCAAACTTGATACCTTTCTCACT
* *
5990384 AATCTTTAAACCTAGTATACTGATAATAACATCAAAACCAAAAACTAGGTCTTTTTGTGG
66 AATCTTTAAACCTAGTATACTGATAATAACATAAAAACAAAAAACTAGGTCTTTTTGTGG
*
5990444 ATGAAGTGATTTGGAAAGTTTTTTCAACGCTCAAAATAACTTTCAAACTTGATACCTTTTTCACT
1 ATGAAGTGATTTGGAAAGTTTTTTCAACGCTCAAAATAACTTTCAAACTTGATACCTTTCTCACT
5990509 AATCTTTAAACCTAGTATACTGATAATAACATAAAAACAAAAAACTAGGTCTTTTTGTGG
66 AATCTTTAAACCTAGTATACTGATAATAACATAAAAACAAAAAACTAGGTCTTTTTGTGG
5990569 A
1 A
5990570 AATGACGATC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (125 bp):
ATGAAGTGATTTGGAAAGTTTTTTCAACGCTCAAAATAACTTTCAAACTTGATACCTTTCTCACT
AATCTTTAAACCTAGTATACTGATAATAACATAAAAACAAAAAACTAGGTCTTTTTGTGG
Found at i:5996224 original size:16 final size:16
Alignment explanation
Indices: 5996203--5996239 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
5996193 AATCAAATGT
5996203 TTTTCGCATTCAGATG
1 TTTTCGCATTCAGATG
5996219 TTTTCGCATTCAGATG
1 TTTTCGCATTCAGATG
5996235 TTTTC
1 TTTTC
5996240 TTGCTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTTCGCATTCAGATG
Found at i:5998933 original size:34 final size:35
Alignment explanation
Indices: 5998867--5998935 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
5998857 TAACTTGTTT
* *
5998867 TTTTATATTTTATTTTTTCAAACTAAAGTTTATAA
1 TTTTATATTTTATTTTTTCAAACCAAAATTTATAA
5998902 TTTTATATTTTATTTTTT-AAACCAAAATTTATAA
1 TTTTATATTTTATTTTTTCAAACCAAAATTTATAA
5998936 ATATTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (35 bp):
TTTTATATTTTATTTTTTCAAACCAAAATTTATAA
Found at i:6000864 original size:19 final size:19
Alignment explanation
Indices: 6000840--6000878 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6000830 TTCATGTTTA
*
6000840 AATTTTAAGACCAAGTCCC
1 AATTTTAAGACCAAGCCCC
6000859 AATTTTAAGACCAAGCCCC
1 AATTTTAAGACCAAGCCCC
6000878 A
1 A
6000879 TCCAACATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.23
Consensus pattern (19 bp):
AATTTTAAGACCAAGCCCC
Found at i:6002527 original size:23 final size:25
Alignment explanation
Indices: 6002485--6002530 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
6002475 CATTTTTTAT
*
6002485 TATTGATTGTTATCTATTGCTTCTG
1 TATTGATTGTGATCTATTGCTTCTG
6002510 TATTG-TTGTGAT-TATTGCTTC
1 TATTGATTGTGATCTATTGCTTC
6002531 AGGCACAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (25 bp):
TATTGATTGTGATCTATTGCTTCTG
Found at i:6004499 original size:400 final size:400
Alignment explanation
Indices: 6003759--6004561 Score: 1588
Period size: 400 Copynumber: 2.0 Consensus size: 400
6003749 AGAATGGACA
6003759 GTGAAAGCTTTTCAAAAGATCTATGGTAGTTACAAAGAAAAAATTATGTTGCACAATATATAAGA
1 GTGAAAGCTTTTCAAAAGATCTATGGTAGTTACAAAGAAAAAATTATGTTGCACAATATATAAGA
*
6003824 CATGGATGCAATTGAACGGTAATCAGGTAAATACCGTTAAAAATGATGCTTCAGCAAACTTATGG
66 CATGGATGCAATTGAACGGTAATCAGGCAAATACCGTTAAAAATGATGCTTCAGCAAACTTATGG
6003889 CACAGGAGGTTGGCACACATAAGTGAAAAAGGGTTACAGGTTTTGACAAGGCAATCTCTCATTCC
131 CACAGGAGGTTGGCACACATAAGTGAAAAAGGGTTACAGGTTTTGACAAGGCAATCTCTCATTCC
6003954 CTTGACCAAAGGTATGTCTCTCGATTCATGTGATTATTATTTGTTTGATAAGCATCATAGAGTTT
196 CTTGACCAAAGGTATGTCTCTCGATTCATGTGATTATTATTTGTTTGATAAGCATCATAGAGTTT
*
6004019 CTTTTCGTAAACGTTCTTAGAGAAAAGAAAATAGATTGAAATTAATTTATTTTGATGTATGTGGT
261 CTTTTCGTAAAAGTTCTTAGAGAAAAGAAAATAGATTGAAATTAATTTATTTTGATGTATGTGGT
6004084 CCCATTGAAGTTGAGTCATTAGGTGATAGCAGATATTTTGTTACTTTTATTGATAATGCTTCATG
326 CCCATTGAAGTTGAGTCATTAGGTGATAGCAGATATTTTGTTACTTTTATTGATAATGCTTCATG
6004149 TAAGACTTGG
391 TAAGACTTGG
6004159 GTGAAAGCTTTTCAAAAGATCTATGGTAGTTACAAAGAAAAAATTATGTTGCACAATATATAAGA
1 GTGAAAGCTTTTCAAAAGATCTATGGTAGTTACAAAGAAAAAATTATGTTGCACAATATATAAGA
6004224 CATGGATGCAATTGAACGGTAATCAGGCAAATACCGTTAAAAATGATGCTTCAGCAAACTTATGG
66 CATGGATGCAATTGAACGGTAATCAGGCAAATACCGTTAAAAATGATGCTTCAGCAAACTTATGG
6004289 CACAGGAGGTTGGCACACATAAGTGAAAAAGGGTTACAGGTTTTGACAAGGCAATCTCTCATTCC
131 CACAGGAGGTTGGCACACATAAGTGAAAAAGGGTTACAGGTTTTGACAAGGCAATCTCTCATTCC
6004354 CTTGACCAAAGGTATGTCTCTCGATTCATGTGATTATTATTTGTTTGATAAGCATCATAGAGTTT
196 CTTGACCAAAGGTATGTCTCTCGATTCATGTGATTATTATTTGTTTGATAAGCATCATAGAGTTT
6004419 CTTTTCGTAAAAGTTCTTAGAGAAAAGAAAATAGATTGAAATTAATTTATTTTGATGTATGTGGT
261 CTTTTCGTAAAAGTTCTTAGAGAAAAGAAAATAGATTGAAATTAATTTATTTTGATGTATGTGGT
6004484 CCCATTGAAGTTGAGTCATTAGGTGATAGCAGATATTTTGTTACTTTTATTGATAATGCTTCATG
326 CCCATTGAAGTTGAGTCATTAGGTGATAGCAGATATTTTGTTACTTTTATTGATAATGCTTCATG
6004549 TAAGACTTGG
391 TAAGACTTGG
6004559 GTG
1 GTG
6004562 TATATGTTGA
Statistics
Matches: 401, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
400 401 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (400 bp):
GTGAAAGCTTTTCAAAAGATCTATGGTAGTTACAAAGAAAAAATTATGTTGCACAATATATAAGA
CATGGATGCAATTGAACGGTAATCAGGCAAATACCGTTAAAAATGATGCTTCAGCAAACTTATGG
CACAGGAGGTTGGCACACATAAGTGAAAAAGGGTTACAGGTTTTGACAAGGCAATCTCTCATTCC
CTTGACCAAAGGTATGTCTCTCGATTCATGTGATTATTATTTGTTTGATAAGCATCATAGAGTTT
CTTTTCGTAAAAGTTCTTAGAGAAAAGAAAATAGATTGAAATTAATTTATTTTGATGTATGTGGT
CCCATTGAAGTTGAGTCATTAGGTGATAGCAGATATTTTGTTACTTTTATTGATAATGCTTCATG
TAAGACTTGG
Found at i:6009001 original size:24 final size:25
Alignment explanation
Indices: 6008974--6009023 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
6008964 AAAATGAGAC
6008974 ATTTTT-AGAAAAAAAAAAGATAAT
1 ATTTTTAAGAAAAAAAAAAGATAAT
*
6008998 ATTTTTAAGTAAAAAAAAAGATAAT
1 ATTTTTAAGAAAAAAAAAAGATAAT
6009023 A
1 A
6009024 AATCTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (25 bp):
ATTTTTAAGAAAAAAAAAAGATAAT
Found at i:6012622 original size:55 final size:49
Alignment explanation
Indices: 6012561--6012717 Score: 143
Period size: 49 Copynumber: 3.1 Consensus size: 49
6012551 TGATTTCACT
*
6012561 ATTTGGGCCAAATTAGAAATATCTTCTTTTTCTTTTAATTTCTAAATTCTCCACC
1 ATTTGGGCCAAATTAG-AA-A--TT-TTTTT-TTTGAATTTCTAAATTCTCCACC
* * * *
6012616 ATTTGGGTCTATTTAGAAATTTTTTTTTTGAATTTCTAAATTCTTCACC
1 ATTTGGGCCAAATTAGAAATTTTTTTTTTGAATTTCTAAATTCTCCACC
* * * * * * * *
6012665 ATTTTGACCTATTTAGAAAATTGTTTTTTGAATTTTTGAATTCTCCACC
1 ATTTGGGCCAAATTAGAAATTTTTTTTTTGAATTTCTAAATTCTCCACC
6012714 ATTT
1 ATTT
6012718 TGACCTCTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
49 66 0.74
50 5 0.06
51 2 0.02
53 1 0.01
54 2 0.02
55 13 0.15
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (49 bp):
ATTTGGGCCAAATTAGAAATTTTTTTTTTGAATTTCTAAATTCTCCACC
Found at i:6012640 original size:49 final size:49
Alignment explanation
Indices: 6012587--6012741 Score: 186
Period size: 49 Copynumber: 3.2 Consensus size: 49
6012577 AAATATCTTC
* **
6012587 TTTTTCTTTTAATTTCTAAATTCTCCACCATTTGGGTCTATTTAG-AAA
1 TTTTTTTTTTAATTTCTAAATTCTCCACCATTTGGACCTATTTAGAAAA
* *
6012635 TTTTTTTTTTGAATTTCTAAATTCTTCACCATTTTGACCTATTTAGAAAA
1 TTTTTTTTTT-AATTTCTAAATTCTCCACCATTTGGACCTATTTAGAAAA
* * * * * * *
6012685 TTGTTTTTTGAATTTTTGAATTCTCCACCATTTTGACCTCTTTAAAAAA
1 TTTTTTTTTTAATTTCTAAATTCTCCACCATTTGGACCTATTTAGAAAA
6012734 TTTTTTTT
1 TTTTTTTT
6012742 ATTATTTTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 9 0.10
49 72 0.78
50 11 0.12
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (49 bp):
TTTTTTTTTTAATTTCTAAATTCTCCACCATTTGGACCTATTTAGAAAA
Found at i:6014718 original size:43 final size:43
Alignment explanation
Indices: 6014647--6014926 Score: 262
Period size: 43 Copynumber: 6.4 Consensus size: 43
6014637 GTAGAGGCTC
* * *
6014647 ACAACTTTTGAAAAAATAAACAAGGCTCCTCTAATCAAAGGTTTA
1 ACAAC-TTTG-AAAAATAAACAAAGCTCTTCTAATCAAAGGCTTA
** * * *
6014692 ATGACTTTGAAAAATAAACAAAGCTCCTCTAAACAAAGGCTCA
1 ACAACTTTGAAAAATAAACAAAGCTCTTCTAATCAAAGGCTTA
* *
6014735 ACAACTTTGAAAAATAAACAAAACTCTTATAATCAGAA-GCTTA
1 ACAACTTTGAAAAATAAACAAAGCTCTTCTAATCA-AAGGCTTA
* *
6014778 ACAACTTTGAAAAATAAATAATA-CTCTTCTAAAT-AGAGGCTTA
1 ACAACTTTGAAAAATAAACAA-AGCTCTTCT-AATCAAAGGCTTA
* * * * *
6014821 ACCACTTTGAAAAATAAATAATGCTTTTCTAATCAAAGGCTCA
1 ACAACTTTGAAAAATAAACAAAGCTCTTCTAATCAAAGGCTTA
** * *
6014864 ATGACTTTGAAAAAATAAATAAAGCTCATCTAAT-AAGAGGCTTA
1 ACAACTTTG-AAAAATAAACAAAGCTCTTCTAATCAA-AGGCTTA
*
6014908 AAAACTTTTGAAAAATAAA
1 ACAAC-TTTGAAAAATAAA
6014927 TCTTCGTGAT
Statistics
Matches: 197, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
42 4 0.02
43 137 0.70
44 49 0.25
45 7 0.04
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (43 bp):
ACAACTTTGAAAAATAAACAAAGCTCTTCTAATCAAAGGCTTA
Found at i:6014785 original size:86 final size:86
Alignment explanation
Indices: 6014639--6014926 Score: 307
Period size: 86 Copynumber: 3.3 Consensus size: 86
6014629 TCCCCTAAGT
* * *
6014639 AGAGGCTC-ACAACTTTTGAAAAAATAAACAAGGCTCCTCTAATCAAAGGTTTAATGACTTTGAA
1 AGAGGCTCAACAACTTTTG-AAAAATAAACAAAGCTCTTCTAATCAAAGGCTTAATGACTTTGAA
* *
6014703 AAATAAACAAAGCTCCTCTAAA
65 AAATAAATAAAGCTCATCTAAA
* * * **
6014725 CAAAGGCTCAACAAC-TTTGAAAAATAAACAAAACTCTTATAATCAGAA-GCTTAACAACTTTGA
1 -AGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCTTCTAATCA-AAGGCTTAATGACTTTGA
*
6014788 AAAATAAATAATA-CTCTTCTAAA
64 AAAATAAATAA-AGCTCATCTAAA
* * * * * *
6014811 TAGAGGCTTAACCAC-TTTGAAAAATAAATAATGCTTTTCTAATCAAAGGCTCAATGACTTTGAA
1 -AGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCTTCTAATCAAAGGCTTAATGACTTTG-A
6014875 AAAATAAATAAAGCTCATCTAATA
64 AAAATAAATAAAGCTCATCTAA-A
* *
6014899 AGAGGCTTAAAAACTTTTGAAAAATAAA
1 AGAGGCTCAACAACTTTTGAAAAATAAA
6014927 TCTTCGTGAT
Statistics
Matches: 168, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
85 2 0.01
86 101 0.60
87 46 0.27
88 19 0.11
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (86 bp):
AGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCTTCTAATCAAAGGCTTAATGACTTTGAAA
AATAAATAAAGCTCATCTAAA
Found at i:6015217 original size:93 final size:93
Alignment explanation
Indices: 6015104--6015336 Score: 358
Period size: 93 Copynumber: 2.5 Consensus size: 93
6015094 AAAGATTTTG
* * *
6015104 ATTCAATAAATTTTAGAGTTTCACTTCTAAGTTCAAAGGTTATCATTAAAAAATTTAGAGATTCA
1 ATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCATTAAAAAATTTAGAGATTCA
* *
6015169 CATCCAAAAGTTGAGTTCAAAAATTCAT
66 CATCCAAAAATTGAGTTCAAAAATTCAC
* * * * * *
6015197 ATTCGATAAATCTTAAAGTTTCACATCTAAGCTCAAAGGTTCTCATTCAAAATTTTAGAGATTCC
1 ATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCATTAAAAAATTTAGAGATTCA
*
6015262 CATCCAAAAATTGAGTTCAAATATTCAC
66 CATCCAAAAATTGAGTTCAAAAATTCAC
6015290 ATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCATT
1 ATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCATT
6015337 GGAAAACTTC
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 125 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (93 bp):
ATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCATTAAAAAATTTAGAGATTCA
CATCCAAAAATTGAGTTCAAAAATTCAC
Found at i:6015362 original size:45 final size:45
Alignment explanation
Indices: 6015329--6015427 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
6015319 AGTTCAAAGG
6015329 TTCTCATTGGAAAACTTCTTAAAAATTATCATCTAAGACTCAAAAA
1 TTCTCATT-GAAAACTTCTTAAAAATTATCATCTAAGACTCAAAAA
* * * * * **
6015375 TTCTCATTGAAGATTTCTTAAAGATTCTCATCTAATACTCAATGA
1 TTCTCATTGAAAACTTCTTAAAAATTATCATCTAAGACTCAAAAA
6015420 TTCTCATT
1 TTCTCATT
6015428 TGAGGATTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 38 0.83
46 8 0.17
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.38
Consensus pattern (45 bp):
TTCTCATTGAAAACTTCTTAAAAATTATCATCTAAGACTCAAAAA
Found at i:6015454 original size:35 final size:35
Alignment explanation
Indices: 6015397--6015470 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
6015387 ATTTCTTAAA
* *
6015397 GATTCTCATCTAATACTCAATGATTCTCATTTGAG
1 GATTCTCAACTAAGACTCAATGATTCTCATTTGAG
*
6015432 GATTCTCAACTAAGACTGAATGATTCTCATTTGAG
1 GATTCTCAACTAAGACTCAATGATTCTCATTTGAG
6015467 GATT
1 GATT
6015471 TCTTAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (35 bp):
GATTCTCAACTAAGACTCAATGATTCTCATTTGAG
Found at i:6015487 original size:25 final size:24
Alignment explanation
Indices: 6015453--6015563 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 24
6015443 AAGACTGAAT
6015453 GATTCTCATTTGAGGATTTCTTAAA
1 GATTCTCATTTGAGGA-TTCTTAAA
* *
6015478 GATTCTCATTT-AAGA--CTAAAA
1 GATTCTCATTTGAGGATTCTTAAA
* * *
6015499 AATTCTCATTGGAGGATTTTTTAAA
1 GATTCTCATTTGAGGA-TTCTTAAA
* * *
6015524 CATTCTCATTT-AAGA--CTCAAA
1 GATTCTCATTTGAGGATTCTTAAA
*
6015545 GATTTTCATTTGAGGATTC
1 GATTCTCATTTGAGGATTC
6015564 ATAATGTTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
21 27 0.42
22 6 0.09
24 7 0.11
25 24 0.38
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (24 bp):
GATTCTCATTTGAGGATTCTTAAA
Found at i:6015504 original size:46 final size:46
Alignment explanation
Indices: 6015454--6015562 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 46
6015444 AGACTGAATG
*
6015454 ATTCTCATTTGAGGATTTCTTAAAGATTCTCATTTAAGACTAAAAA
1 ATTCTCATTTGAGGATTTCTTAAACATTCTCATTTAAGACTAAAAA
* * * *
6015500 ATTCTCATTGGAGGATTTTTTAAACATTCTCATTTAAGACTCAAAG
1 ATTCTCATTTGAGGATTTCTTAAACATTCTCATTTAAGACTAAAAA
*
6015546 ATTTTCATTTGAGGATT
1 ATTCTCATTTGAGGATT
6015563 CATAATGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (46 bp):
ATTCTCATTTGAGGATTTCTTAAACATTCTCATTTAAGACTAAAAA
Found at i:6017585 original size:12 final size:12
Alignment explanation
Indices: 6017568--6017602 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6017558 ATTCTTAAAA
6017568 TTTATTTTATTT
1 TTTATTTTATTT
6017580 TTTATTTTA-TT
1 TTTATTTTATTT
*
6017591 ATTATTTTATTT
1 TTTATTTTATTT
6017603 AATATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:6018243 original size:11 final size:11
Alignment explanation
Indices: 6018229--6018254 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6018219 TTTTTTCATT
6018229 TTTTATTTTTA
1 TTTTATTTTTA
6018240 TTTTATTTTTA
1 TTTTATTTTTA
6018251 TTTT
1 TTTT
6018255 TTAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:6018487 original size:42 final size:41
Alignment explanation
Indices: 6018428--6018911 Score: 334
Period size: 42 Copynumber: 11.9 Consensus size: 41
6018418 AGTAAACAAA
*
6018428 GCTCCTCTAAACAGAGGCTCAACG-ACTTTGAAAGAATAAAAT
1 GCTCCTCTAAATAGAGGC-CAACGAACTTTGAAA-AATAAAAT
*
6018470 GCTCCTCTAAATAGAGG-CAACCACAACTTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAGGCCAA-C-GAACTTTGAAAAATAAAAT
* * *
6018512 GCTCTTCTAAATAAAGG-CAACCACAACTTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAGGCCAA-C-GAACTTTGAAAAATAAAAT
* * *
6018554 TCTCCTCTAAATAAAGG-CAACCATAACTTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAGGCCAA-C-GAACTTTGAAAAATAAAAT
** **
6018596 GCTTTTCTAAATAGA-GATAACCGAACTTTGGAAAAAT-AAAT
1 GCTCCTCTAAATAGAGGCCAA-CGAACTTT-GAAAAATAAAAT
* * *
6018637 --TGCTC---ATAGAGG-CAATAGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCCAA-CGAACTTTG-AAAAATAAAAT
* * *
6018674 GCTCCTATGAGTAGAGG-CAACGGAACTTTTGAAAAAT-AAAT
1 GCTCCTCTAAATAGAGGCCAAC-GAAC-TTTGAAAAATAAAAT
* *
6018715 --TGCT-T--ATAGAGG-CAACAGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCCAAC-GAACTTTG-AAAAATAAAAT
* * *
6018752 GCTCCTTTAAATAGAGG-CAATGAAACTTTTGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCCAACG-AAC-TTTGAAAAATAAAAT
* * *
6018794 ACTCCTCTAAATAGAAG-CAACGAAACTTTAGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCCAACG-AACTTT-GAAAAATAAAAT
6018836 GCTCCTCTAAATAGA-GCCAACAGAACTTTAGAAAAAT-AAAT
1 GCTCCTCTAAATAGAGGCCAAC-GAACTTT-GAAAAATAAAAT
* *
6018877 TCTCCTCTAAATAGAGG-CAACAAAACTTTGAAAAA
1 GCTCCTCTAAATAGAGGCCAAC-GAACTTTGAAAAA
6018912 GAATAATTGC
Statistics
Matches: 376, Mismatches: 38, Indels: 58
0.80 0.08 0.12
Matches are distributed among these distances:
35 5 0.01
36 40 0.11
37 7 0.02
38 1 0.00
39 12 0.03
40 10 0.03
41 48 0.13
42 235 0.62
43 18 0.05
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAATAGAGGCCAACGAACTTTGAAAAATAAAAT
Found at i:6018559 original size:84 final size:81
Alignment explanation
Indices: 6018452--6018925 Score: 443
Period size: 84 Copynumber: 5.8 Consensus size: 81
6018442 AGGCTCAACG
* *
6018452 ACTTTGAAAGAATAAAATGCTCCTCTAAATAGAGGCAACCACAACTTTGAAAAATAAAATGCTCT
1 ACTTTGAAA-AAT-AAATTCTCCTCTAAATAGAGGCAA-CAGAACTTTGAAAAATAAAATGCTCT
* *
6018517 TCTAAATAAAGGCAACCACA
63 TCTAAATAGAGGCAA-CAGA
* * *
6018537 ACTTTGAAAAATAAAATTCTCCTCTAAATAAAGGCAACCATAACTTTGAAAAATAAAATGCTTTT
1 ACTTTGAAAAAT-AAATTCTCCTCTAAATAGAGGCAA-CAGAACTTTGAAAAATAAAATGCTCTT
** *
6018602 CTAAATAGAGATAACCGA
64 CTAAATAGAGGCAACAGA
* * * *
6018620 ACTTTGGAAAAATAAA-T-TGCTC---ATAGAGGCAATAGAACTTTGAAAAAATAAATTGCTCCT
1 ACTTT-GAAAAATAAATTCTCCTCTAAATAGAGGCAACAGAACTTTG-AAAAATAAAATGCTCTT
* * * *
6018680 ATGAGTAGAGGCAACGGA
64 CTAAATAGAGGCAACAGA
* *
6018698 ACTTTTGAAAAATAAA-T-TGCT-T--ATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCCT
1 AC-TTTGAAAAATAAATTCTCCTCTAAATAGAGGCAACAGAACTTTG-AAAAATAAAATGCT-CT
*
6018758 T-TAAATAGAGGCAA-TGAA
63 TCTAAATAGAGGCAACAG-A
* *
6018776 ACTTTTGAAAAATAAATTACTCCTCTAAATAGAAGCAAC-GAAACTTTAGAAAAATAAATTGCTC
1 AC-TTTGAAAAATAAATT-CTCCTCTAAATAGAGGCAACAG-AACTTT-GAAAAATAAAATGCTC
* *
6018840 CTCTAAATAGAGCCAACAGA
62 TTCTAAATAGAGGCAACAGA
* *
6018860 ACTTTAGAAAAATAAATTCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAAGAATAATTGCTCT
1 ACTTT-GAAAAATAAATTCTCCTCTAAATAGAGGCAACAGAACTTTGAAAAATAA-AA-TGCTCT
6018925 T
63 T
6018926 GGACAATCAT
Statistics
Matches: 332, Mismatches: 37, Indels: 41
0.81 0.09 0.10
Matches are distributed among these distances:
77 9 0.03
78 114 0.34
79 6 0.02
81 7 0.02
82 10 0.03
83 42 0.13
84 133 0.40
85 11 0.03
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (81 bp):
ACTTTGAAAAATAAATTCTCCTCTAAATAGAGGCAACAGAACTTTGAAAAATAAAATGCTCTTCT
AAATAGAGGCAACAGA
Found at i:6018646 original size:36 final size:36
Alignment explanation
Indices: 6018606--6018755 Score: 158
Period size: 36 Copynumber: 4.0 Consensus size: 36
6018596 GCTTTTCTAA
* * *
6018606 ATAGAGATAACCGAACTTTGGAAAAATAAATTGCTC
1 ATAGAGACAACAGAACTTTGAAAAAATAAATTGCTC
* *
6018642 ATAGAGGCAATAGAACTTTGAAAAAATAAATTGCTCC
1 ATAGAGACAACAGAACTTTGAAAAAATAAATTGCT-C
* *
6018679 TATGAGTAGAGGCAACGGAACTTTTG-AAAAATAAATTGCTT
1 -AT-AG-AGA--CAACAGAAC-TTTGAAAAAATAAATTGCTC
*
6018720 ATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTC
1 ATAGAGACAACAGAACTTTGAAAAAATAAATTGCTC
6018756 CTTTAAATAG
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
35 4 0.04
36 52 0.55
37 1 0.01
38 4 0.04
39 4 0.04
40 4 0.04
42 21 0.22
43 4 0.04
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (36 bp):
ATAGAGACAACAGAACTTTGAAAAAATAAATTGCTC
Found at i:6018689 original size:78 final size:78
Alignment explanation
Indices: 6018607--6018911 Score: 265
Period size: 78 Copynumber: 3.8 Consensus size: 78
6018597 CTTTTCTAAA
* *
6018607 TAGAGATAACCGAACTTTGGAAAAATAAATTGCTCATAGAGGCAATAGAACTTTGAAAAAATAAA
1 TAGAGACAACCGAACTTTGGAAAAATAAATTGCTCATAGAGGCAACAGAACTTTGAAAAAATAAA
6018672 TTGCTCCTATGAG
66 TTGCTCCTATGAG
* * * *
6018685 TAGAGGCAACGGAACTTTTGAAAAATAAATTGCTTATAGAGGCAACAGAACTTTGAAAAAATAAA
1 TAGAGACAACCGAACTTTGGAAAAATAAATTGCTCATAGAGGCAACAGAACTTTGAAAAAATAAA
* * *
6018750 TTGCTCCTTTAAA
66 TTGCTCCTATGAG
* * * * *
6018763 TAGAGGCAA-TGAAACTTTTGAAAAATAAATTACTCCTCTAAATAGAAGCAAC-GAAACTTT-AG
1 TAGAGACAACCG-AACTTTGGAAAAATAAA-T--TGCTC---ATAGAGGCAACAG-AACTTTGA-
* * *
6018825 AAAAATAAATTGCTCCTCTAAA
57 AAAAATAAATTGCTCCTATGAG
* * * * *
6018847 TAGAGCCAACAGAACTTTAGAAAAATAAATTCTCCTCTAAATAGAGGCAACAAAACTTTGAAAAA
1 TAGAGACAACCGAACTTTGGAAAAATAAA-T-TGCTC---ATAGAGGCAACAGAACTTTGAAAAA
6018912 GAATAATTGC
Statistics
Matches: 196, Mismatches: 19, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 95 0.48
79 1 0.01
81 3 0.02
83 31 0.16
84 64 0.33
85 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (78 bp):
TAGAGACAACCGAACTTTGGAAAAATAAATTGCTCATAGAGGCAACAGAACTTTGAAAAAATAAA
TTGCTCCTATGAG
Found at i:6018710 original size:120 final size:120
Alignment explanation
Indices: 6018454--6018882 Score: 355
Period size: 120 Copynumber: 3.5 Consensus size: 120
6018444 GCTCAACGAC
* * * *
6018454 TTTGAAAGAATAAAATGCTCCTCTAAATAGAGGCAACCACAACTTT-GAAAAATAAAATGCTCTT
1 TTTGAAA-AATAAATTGCT--TCTAAATAGAGACAA-CAGAACTTTGGAAAAATAAATTGCTC--
* ** * *
6018518 CTAAATAAAGGCAACCACAAC-TTTGAAAAATAAAATT-CTCCTCTAAATA-AAGGCAACCATAA
60 CT--ATAGAGGCAATGA-AACTTTTGAAAAAT-AAATTACTCCTATAAATAGAA-GCAACGA-AA
6018580 C-
119 CT
* * *
6018581 TTTGAAAAATAAAATGCTTTTCTAAATAGAGATAACCGAACTTTGGAAAAATAAATTGCT-C-AT
1 TTTGAAAAATAAATTGC--TTCTAAATAGAGACAACAGAACTTTGGAAAAATAAATTGCTCCTAT
* * * * *
6018644 AGAGGCAAT-AGAAC-TTTGAAAAAATAAATTGCTCCTATGAGTAGAGGCAACGGAACT
64 AGAGGCAATGA-AACTTTTG-AAAAATAAATTACTCCTATAAATAGAAGCAACGAAACT
* *
6018701 TTTGAAAAATAAATTGC-T-T--ATAGAGGCAACAGAACTTTGAAAAAATAAATTGCTCCTTTAA
1 TTTGAAAAATAAATTGCTTCTAAATAGAGACAACAGAACTTTGGAAAAATAAATTGCTCC--T--
*
6018762 ATAGAGGCAATGAAACTTTTGAAAAATAAATTACTCCTCTAAATAGAAGCAACGAAACT
62 ATAGAGGCAATGAAACTTTTGAAAAATAAATTACTCCTATAAATAGAAGCAACGAAACT
* * *
6018821 TTAGAAAAATAAATTGCTCCTCTAAATAGAGCCAACAGAACTTTAGAAAAATAAATT-CTCCT
1 TTTGAAAAATAAATTGCT--TCTAAATAGAGACAACAGAACTTTGGAAAAATAAATTGCTCCT
6018883 CTAAATAGAG
Statistics
Matches: 252, Mismatches: 29, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
114 31 0.12
115 1 0.00
116 1 0.00
117 1 0.00
119 16 0.06
120 107 0.42
121 6 0.02
123 3 0.01
124 1 0.00
125 11 0.04
126 66 0.26
127 7 0.03
128 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (120 bp):
TTTGAAAAATAAATTGCTTCTAAATAGAGACAACAGAACTTTGGAAAAATAAATTGCTCCTATAG
AGGCAATGAAACTTTTGAAAAATAAATTACTCCTATAAATAGAAGCAACGAAACT
Found at i:6019296 original size:21 final size:21
Alignment explanation
Indices: 6019270--6019316 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6019260 GTTTCACAAC
*
6019270 TCAAAGATCCTCGTTTGAAAT
1 TCAAAGATCCTCATTTGAAAT
*
6019291 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATCCTCATTTGAAAT
6019312 TCAAA
1 TCAAA
6019317 TATTCGCATT
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:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (21 bp):
TCAAAGATCCTCATTTGAAAT
Found at i:6019321 original size:21 final size:21
Alignment explanation
Indices: 6019283--6019329 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6019273 AAGATCCTCG
*
6019283 TTTGAAATTCAAAGATTCTCA
1 TTTGAAATTCAAAGATTCGCA
*
6019304 TTTGAAATTCAAATATTCGCA
1 TTTGAAATTCAAAGATTCGCA
6019325 TTTGA
1 TTTGA
6019330 GATCACAAAA
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:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTGAAATTCAAAGATTCGCA
Found at i:6020525 original size:20 final size:20
Alignment explanation
Indices: 6020502--6020560 Score: 91
Period size: 21 Copynumber: 2.9 Consensus size: 20
6020492 CTCATTTCCA
6020502 TTTTTCTCTTTTTCTTTCTTT
1 TTTTTCTCTTTTT-TTTCTTT
*
6020523 TTTTCTCTTTTTTTTTTCTTT
1 TTTT-TCTCTTTTTTTTCTTT
6020544 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
6020561 CTTCCTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 12 0.34
21 15 0.43
22 8 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTCTTTTTTTTCTTT
Found at i:6020545 original size:22 final size:21
Alignment explanation
Indices: 6020502--6020559 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 21
6020492 CTCATTTCCA
*
6020502 TTTTTCTC-TTTTTCTTTCTT
1 TTTTTCTCTTTTTTTTTTCTT
6020522 TTTTTCTCTTTTTTTTTTCTTT
1 TTTTTCTCTTTTTTTTTTC-TT
6020544 TTTTTCTCTTTTTTTT
1 TTTTTCTCTTTTTTTT
6020560 CCTTCCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 8 0.23
21 9 0.26
22 18 0.51
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTCTTTTTTTTTTCTT
Found at i:6021476 original size:22 final size:23
Alignment explanation
Indices: 6021451--6021494 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6021441 ATGAAATCTT
6021451 ATTGC-ATAAAAGAAATCCTAAC
1 ATTGCTATAAAAGAAATCCTAAC
*
6021473 ATTGCTATGAAAGAAATCCTAA
1 ATTGCTATAAAAGAAATCCTAA
6021495 GATGACAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (23 bp):
ATTGCTATAAAAGAAATCCTAAC
Found at i:6023534 original size:23 final size:23
Alignment explanation
Indices: 6023487--6023542 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
6023477 AAACATGAGT
* *
6023487 ATGAAAATGATGCATTGAATGAA
1 ATGATAATGATGCATTGAATAAA
6023510 ATGATAATGATGCA-TGAAATAAA
1 ATGATAATGATGCATTG-AATAAA
6023533 ATGAT-ATGAT
1 ATGATAATGAT
6023543 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 7 0.23
23 23 0.77
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.29
Consensus pattern (23 bp):
ATGATAATGATGCATTGAATAAA
Found at i:6025066 original size:12 final size:12
Alignment explanation
Indices: 6025049--6025083 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6025039 ATTCTCGAAA
6025049 TTTATTTTATTT
1 TTTATTTTATTT
6025061 TTTATTTTA-TT
1 TTTATTTTATTT
*
6025072 ATTATTTTATTT
1 TTTATTTTATTT
6025084 AATATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:6025168 original size:29 final size:30
Alignment explanation
Indices: 6025106--6025162 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
6025096 TGAAAATCAT
* *
6025106 AAAACAAAGTGAATAAATAAACAATTATGC
1 AAAACAAAGTGAATAAACAAACAATTAAGC
*
6025136 AAAACAAA-TGAATAAACAATCAATTAA
1 AAAACAAAGTGAATAAACAAACAATTAA
6025163 AGAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (30 bp):
AAAACAAAGTGAATAAACAAACAATTAAGC
Found at i:6030761 original size:40 final size:44
Alignment explanation
Indices: 6030679--6030760 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
6030669 AATAATCAGC
*
6030679 ATAAGATAAAACCAAAAAAAATAATATAATATGAAATAAAAATGG
1 ATAAGATAAAACCAAAAAAAATAATAGAATA-GAAATAAAAATGG
**
6030724 ATAA-ATAAAACC-AAAAAAATTGTAGAATA-AAATAAAA
1 ATAAGATAAAACCAAAAAAAATAATAGAATAGAAATAAAA
6030761 TAATATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 8 0.24
43 14 0.41
44 8 0.24
45 4 0.12
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (44 bp):
ATAAGATAAAACCAAAAAAAATAATAGAATAGAAATAAAAATGG
Found at i:6031089 original size:2 final size:2
Alignment explanation
Indices: 6031082--6031169 Score: 76
Period size: 2 Copynumber: 45.5 Consensus size: 2
6031072 TGAAATCATG
* *
6031082 TA TA TA TA TA TA TA -A TA TT TGA TA TA T- TG TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
** * * *
6031122 TA TA GG TA TA TA TA GA TA CA TA TA TA TA TA T- TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6031163 TA TA TA T
1 TA TA TA T
6031170 TTGGTTTGCT
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
1 4 0.06
2 63 0.93
3 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6039454 original size:13 final size:13
Alignment explanation
Indices: 6039426--6039464 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6039416 AATTAAAAGA
6039426 AAAAAGATAAAAAT
1 AAAAA-ATAAAAAT
* *
6039440 AATAAATAAATAT
1 AAAAAATAAAAAT
6039453 AAAAAATAAAAA
1 AAAAAATAAAAA
6039465 GACCAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:6041659 original size:13 final size:13
Alignment explanation
Indices: 6041641--6041665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6041631 GTTGTCTGCA
6041641 TCTTTTTTTTTGT
1 TCTTTTTTTTTGT
6041654 TCTTTTTTTTTG
1 TCTTTTTTTTTG
6041666 CACTTCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (13 bp):
TCTTTTTTTTTGT
Found at i:6043842 original size:2 final size:2
Alignment explanation
Indices: 6043835--6043864 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6043825 TAACAAACAC
6043835 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6043865 AGACAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6046912 original size:4 final size:4
Alignment explanation
Indices: 6046870--6046894 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6046860 CTTGAGTCAT
6046870 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
6046895 AGATGTGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6048543 original size:20 final size:20
Alignment explanation
Indices: 6048520--6048568 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
6048510 GTGTATTCAC
6048520 TCATTCATTTGTGCAGTCAT
1 TCATTCATTTGTGCAGTCAT
* *
6048540 TCATTCATTTTTGCATTCAT
1 TCATTCATTTGTGCAGTCAT
6048560 TCATTCATT
1 TCATTCATT
6048569 CATTTAGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (20 bp):
TCATTCATTTGTGCAGTCAT
Found at i:6048547 original size:24 final size:23
Alignment explanation
Indices: 6048514--6048573 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
6048504 TCAGTTGTGT
*
6048514 ATTCACTCATTCATTTGTGCAGTC
1 ATTCATTCATTCATTT-TGCAGTC
*
6048538 ATTCATTCA-T--TTTTGCATTC
1 ATTCATTCATTCATTTTGCAGTC
6048558 ATTCATTCATTCATTT
1 ATTCATTCATTCATTT
6048574 AGGTATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 15 0.48
21 4 0.13
23 4 0.13
24 8 0.26
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTCATTCATTCATTTTGCAGTC
Found at i:6048581 original size:24 final size:24
Alignment explanation
Indices: 6048536--6048586 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6048526 ATTTGTGCAG
**
6048536 TCATTCATTCATTTTTGCATTCAT
1 TCATTCATTCATTTAGGCATTCAT
*
6048560 TCATTCATTCATTTAGGTATTCAT
1 TCATTCATTCATTTAGGCATTCAT
6048584 TCA
1 TCA
6048587 ATATAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.06, T:0.51
Consensus pattern (24 bp):
TCATTCATTCATTTAGGCATTCAT
Found at i:6050259 original size:10 final size:10
Alignment explanation
Indices: 6050235--6050285 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
6050225 GCAATGCCTT
*
6050235 AAAAAAAACA
1 AAAAAAAAGA
*
6050245 CAAAAAAAG-
1 AAAAAAAAGA
* *
6050254 CAAAAAAGGA
1 AAAAAAAAGA
6050264 AAAAAAAGAGA
1 AAAAAAA-AGA
6050275 AAAAAAAAGA
1 AAAAAAAAGA
6050285 A
1 A
6050286 GCAAGAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:6050861 original size:25 final size:25
Alignment explanation
Indices: 6050814--6050864 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6050804 TAGTTTCAAC
*
6050814 CCATATAATCCTTTTCTAATTCATT
1 CCATATAATCCTTCTCTAATTCATT
* **
6050839 CCATATGATCCTTCTCTTGTTCATT
1 CCATATAATCCTTCTCTAATTCATT
6050864 C
1 C
6050865 TACATAACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.04, T:0.47
Consensus pattern (25 bp):
CCATATAATCCTTCTCTAATTCATT
Found at i:6050989 original size:14 final size:14
Alignment explanation
Indices: 6050970--6051008 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6050960 TAGGGCATGC
6050970 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
**
6050984 AAAAAAGCAAAGAA
1 AAAAAAAAAAAGAA
6050998 AAAAATAAAAA
1 AAAAA-AAAAA
6051009 TGGTTATGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:6052891 original size:33 final size:33
Alignment explanation
Indices: 6052852--6053030 Score: 127
Period size: 33 Copynumber: 5.5 Consensus size: 33
6052842 ACCAATAAAG
*
6052852 TTTTAAGTCCAGTTTAGCTAGCCCTTAAAGAAA
1 TTTTAAGCCCAGTTTAGCTAGCCCTTAAAGAAA
* * * * * * *
6052885 TCTTAAGCCCAGTTTA-TTTGACCATCAATGAAG
1 TTTTAAGCCCAGTTTAGCTAG-CCCTTAAAGAAA
*
6052918 TTTTAAGCCCAGTTTACCTAG-CCTTCAAAGAATA
1 TTTTAAGCCCAGTTTAGCTAGCCCTT-AAAGAA-A
* * * * *
6052952 TTTTAAGTCCAGTTTATCAAGCCATCAATA-AAA
1 TTTTAAGCCCAGTTTAGCTAGCCCTTAA-AGAAA
* *
6052985 TTTTAAGCCCAGTTTAGCT-GGCCTCTAAGGAAA
1 TTTTAAGCCCAGTTTAGCTAGCCCT-TAAAGAAA
6053018 -TTTAAG-CCAGTTT
1 TTTTAAGCCCAGTTT
6053031 CTATTTAAGC
Statistics
Matches: 111, Mismatches: 27, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
31 7 0.06
32 13 0.12
33 64 0.58
34 24 0.22
35 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (33 bp):
TTTTAAGCCCAGTTTAGCTAGCCCTTAAAGAAA
Found at i:6052893 original size:66 final size:65
Alignment explanation
Indices: 6052812--6053030 Score: 248
Period size: 66 Copynumber: 3.3 Consensus size: 65
6052802 ACCGGCCATC
* * *
6052812 AAAGAAGATTTAAGCCCAATTTATCTTGCCACCAATAAAGTTTTAAGTCCAGTTTAGCTAGCCCT
1 AAAGAAGATTTAAGCCCAGTTTATCTTGCCATCAATAAAGTTTTAAGCCCAGTTTAGCTAG-CCT
6052877 T
65 T
* *
6052878 AAAGAA-ATCTTAAGCCCAGTTTAT-TTGACCATCAATGAAGTTTTAAGCCCAGTTTACCTAGCC
1 AAAGAAGAT-TTAAGCCCAGTTTATCTTG-CCATCAATAAAGTTTTAAGCCCAGTTTAGCTAGCC
6052941 TT
64 TT
* * ** * *
6052943 CAAAGAATATTTTAAGTCCAGTTTATCAAGCCATCAATAAAATTTTAAGCCCAGTTTAGCTGGCC
1 -AAAGAAGA-TTTAAGCCCAGTTTATCTTGCCATCAATAAAGTTTTAAGCCCAGTTTAGCTAGCC
6053008 TCT
64 T-T
*
6053011 AAGGAA-ATTTAAG-CCAGTTT
1 AAAGAAGATTTAAGCCCAGTTT
6053031 CTATTTAAGC
Statistics
Matches: 133, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
64 7 0.05
65 15 0.11
66 56 0.42
67 52 0.39
68 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (65 bp):
AAAGAAGATTTAAGCCCAGTTTATCTTGCCATCAATAAAGTTTTAAGCCCAGTTTAGCTAGCCTT
Found at i:6052990 original size:67 final size:66
Alignment explanation
Indices: 6052784--6053030 Score: 247
Period size: 66 Copynumber: 3.8 Consensus size: 66
6052774 AAATCTACGT
* * * * *
6052784 AAATTTTAAGCCTAGTTTACC-GGCCATCAAAGAAGA-TTTAAGCCCAATTTATCTTGCCACCAA
1 AAATTTTAAGCCCAGTTTACCTAGCCTTCAAAGAA-ATTTTAAGCCCAGTTTATCTTGCCATCAA
6052847 TA
65 TA
* * * *
6052849 AAGTTTTAAGTCCAGTTTAGCTAGCCCTT-AAAGAAATCTTAAGCCCAGTTTAT-TTGACCATCA
1 AAATTTTAAGCCCAGTTTACCTAG-CCTTCAAAGAAATTTTAAGCCCAGTTTATCTTG-CCATCA
*
6052912 ATG
64 ATA
* * **
6052915 AAGTTTTAAGCCCAGTTTACCTAGCCTTCAAAGAATATTTTAAGTCCAGTTTATCAAGCCATCAA
1 AAATTTTAAGCCCAGTTTACCTAGCCTTCAAAGAA-ATTTTAAGCCCAGTTTATCTTGCCATCAA
6052980 TA
65 TA
* * *
6052982 AAATTTTAAGCCCAGTTTAGCTGGCC-TCTAAGGAAA-TTTAAG-CCAGTTT
1 AAATTTTAAGCCCAGTTTACCTAGCCTTC-AAAGAAATTTTAAGCCCAGTTT
6053031 CTATTTAAGC
Statistics
Matches: 153, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
64 7 0.05
65 31 0.20
66 59 0.39
67 55 0.36
68 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (66 bp):
AAATTTTAAGCCCAGTTTACCTAGCCTTCAAAGAAATTTTAAGCCCAGTTTATCTTGCCATCAAT
A
Found at i:6053036 original size:133 final size:131
Alignment explanation
Indices: 6052787--6053030 Score: 323
Period size: 133 Copynumber: 1.9 Consensus size: 131
6052777 TCTACGTAAA
* * ** *
6052787 TTTTAAGCCTAGTTTACCGGCCATCAAAGAAGATTTAAGCCCAATTTATCTTGCCACCAATAAAG
1 TTTTAAGCCCAGTTTACCAGCCATCAAAGAAGATTTAAGCCCAATTTATCAAGCCACCAATAAAA
*
6052852 TTTTAAGTCCAGTTTAGCTAGCCCTTAAAGAAATCTTAAGCCCAGTTTATTTGACCATCAATGAA
66 TTTTAAGCCCAGTTTAGCTAGCCCTTAAAGAAATCTTAAGCCCAGTTTATTTGACCATCAATGAA
6052917 G
131 G
* * * * *
6052918 TTTTAAGCCCAGTTTACCTAGCCTTCAAAGAATATTTTAAGTCCAGTTTATCAAGCCATCAATAA
1 TTTTAAGCCCAGTTTACC-AGCCATCAAAGAAGA-TTTAAGCCCAATTTATCAAGCCACCAATAA
* *
6052983 AATTTTAAGCCCAGTTTAGCT-GGCCTCTAAGGAAAT-TTAAG-CCAGTTT
64 AATTTTAAGCCCAGTTTAGCTAGCCCT-TAAAGAAATCTTAAGCCCAGTTT
6053031 CTATTTAAGC
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
131 24 0.25
132 21 0.22
133 52 0.54
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (131 bp):
TTTTAAGCCCAGTTTACCAGCCATCAAAGAAGATTTAAGCCCAATTTATCAAGCCACCAATAAAA
TTTTAAGCCCAGTTTAGCTAGCCCTTAAAGAAATCTTAAGCCCAGTTTATTTGACCATCAATGAA
G
Found at i:6053614 original size:12 final size:12
Alignment explanation
Indices: 6053593--6053626 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6053583 TCTTGTGTTG
6053593 GCATTAACATTT
1 GCATTAACATTT
*
6053605 GCATTGACATTT
1 GCATTAACATTT
*
6053617 CCATTAACAT
1 GCATTAACAT
6053627 CATTTGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (12 bp):
GCATTAACATTT
Found at i:6054051 original size:129 final size:128
Alignment explanation
Indices: 6053821--6054101 Score: 363
Period size: 129 Copynumber: 2.2 Consensus size: 128
6053811 GCCATGTTTA
6053821 AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTAGGAAGAGCATTCAAAAATTTTGAG
1 AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTAGGAAGAGCATTCAAAAATTTTGAG
* **
6053886 ATTTGTAAGACCTCCGGGCATAATCTCTAATACTTCTAGGCACAACTTTCAAGACCTTCGG-G
66 ATTCGTAAGACCTCCAAGCATAATCTCTAATACTTCTAGGCACAACTTTCAAGACCTTCGGTG
* * * *
6053948 CAAAAGATTTTTAAATTTTTAAAAGTTTCATTGCTTCT-AGTTAGGAGGGGCATTCAAATATTTT
1 -AAAAGATTTTTAAATTTTT-AAAGTTTCATTGCCTCTGA-TTAGGAAGAGCATTCAAAAATTTT
* * * * * **
6054012 GAGATTCGTAAGACCTCTAAGCGTAATCTCTAA-AGCTTCTGGGCATAACTTTTAAGATTTTCGG
63 GAGATTCGTAAGACCTCCAAGCATAATCTCTAATA-CTTCTAGGCACAACTTTCAAGACCTTCGG
6054076 TG
127 TG
*
6054078 -AAAGATTTTTAAATTTTCAAAGTT
1 AAAAGATTTTTAAATTTTTAAAGTT
6054102 CACAGACCTC
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
127 6 0.04
128 38 0.28
129 89 0.66
130 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (128 bp):
AAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTAGGAAGAGCATTCAAAAATTTTGAG
ATTCGTAAGACCTCCAAGCATAATCTCTAATACTTCTAGGCACAACTTTCAAGACCTTCGGTG
Found at i:6054287 original size:36 final size:36
Alignment explanation
Indices: 6054206--6054337 Score: 120
Period size: 36 Copynumber: 3.6 Consensus size: 36
6054196 GTGTTATCTC
* * * *
6054206 GATCAATTCTTTAATTTTGATTCACAGTGTTGTCCC
1 GATCGATTCTTTAATTTTGACTCACGGTGTTGTCCT
* * *
6054242 GATCAATTCTTTAATTTTGACTCATGGAGTTGTCCT
1 GATCGATTCTTTAATTTTGACTCACGGTGTTGTCCT
* * * * * *
6054278 AATCGATTCTCTATTTTTCAATTCACGGTGTTATCCT
1 GATCGATTCTTTAATTTT-GACTCACGGTGTTGTCCT
*
6054315 GATCGATTCTTTATTTCTTGACT
1 GATCGATTCTTTAATT-TTGACT
6054338 TGCGGTATTG
Statistics
Matches: 76, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
36 45 0.59
37 29 0.38
38 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (36 bp):
GATCGATTCTTTAATTTTGACTCACGGTGTTGTCCT
Found at i:6054455 original size:88 final size:88
Alignment explanation
Indices: 6054293--6054560 Score: 288
Period size: 88 Copynumber: 3.0 Consensus size: 88
6054283 ATTCTCTATT
** * * * *
6054293 TTTCAATTCACGGTGTTATCCTGATCGATTCTTTATTTCTTGACTTGCGGTATTGTCCCAATCAA
1 TTTCAATTCACAATGTTATCCTGATCGATTCTTTATTTCTTGACTTGTGGTGTTATCCCAGTCAA
* * *
6054358 TTTTATAAGACTTCCGGGCATAA
66 TTCTGTAAGACTTCTGGGCATAA
* * * * ** *
6054381 TTTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTCTCAACTTGTGGTGTTATCCCAGTCGA
1 TTTCAATTCACAATGTTATCCTGATCGATTCTTTATTTCTTGACTTGTGGTGTTATCCCAGTCAA
* *
6054446 TTCTGTAAGACCTCTGGGTATAA
66 TTCTGTAAGACTTCTGGGCATAA
* * * * *
6054469 TTTCAATTCACAATGTTGTCCTAATCGATTCTTTATTTTTTGACTTATGGTGTTATCTC-GATCA
1 TTTCAATTCACAATGTTATCCTGATCGATTCTTTATTTCTTGACTTGTGGTGTTATCCCAG-TCA
*
6054533 ATTCTGTAATACGTT-TGGGCATAA
65 ATTCTGTAAGAC-TTCTGGGCATAA
6054557 TTTC
1 TTTC
6054561 TAAGTCCTCT
Statistics
Matches: 147, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
87 1 0.01
88 145 0.99
89 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (88 bp):
TTTCAATTCACAATGTTATCCTGATCGATTCTTTATTTCTTGACTTGTGGTGTTATCCCAGTCAA
TTCTGTAAGACTTCTGGGCATAA
Found at i:6054799 original size:109 final size:109
Alignment explanation
Indices: 6054455--6054799 Score: 327
Period size: 111 Copynumber: 3.1 Consensus size: 109
6054445 ATTCTGTAAG
* * ** * ** *
6054455 ACCTCTGGGTATAATTTCAATTCACAATGTTGTCCTAATCGATTCTTTATTTTT-TGACTTATGG
1 ACCTCTGGGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTAT--CTTACGG
* * * * *
6054519 TGTTATCTCGATCAATTCTGTAATACGTTTGGGCATAATTTCTAAG
64 TGTTATCTCGATCAATTCTGTAAGACCTCTGGGCATGATTTCTAAA
* * * * *
6054565 TCCTCTGGGCATAATTTTGATTCGCGGTGTTATCGCCTGATCAATTTTTTATTTTTGA-CTTACG
1 ACCTCTGGGCATAATTTCGATTCACGGTGTTATC-CC-GATCGATTCTTTATTTTT-ATCTTACG
* * *
6054629 GTGTTATC-CTGGTTAATTTTGTAAGACCTCTGGGCATGATTTCTAAA
63 GTGTTATCTC-GATCAATTCTGTAAGACCTCTGGGCATGATTTCTAAA
* * * * * *
6054676 AGCTTTGGACATAATTTCGATTCATGGTGTTATCCCGATTGGTTCTTTATTTTTATCTTACGGTG
1 ACCTCTGGGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTATCTTACGGTG
* * * *
6054741 TTGTCTCGATCGATTCTGTAAGACCTCCGGACATGATTTCTAAA
66 TTATCTCGATCAATTCTGTAAGACCTCTGGGCATGATTTCTAAA
*
6054785 ACCTCTGGGTATAAT
1 ACCTCTGGGCATAAT
6054800 CTTTAAGATC
Statistics
Matches: 185, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
108 1 0.01
109 69 0.37
110 30 0.16
111 70 0.38
112 15 0.08
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.42
Consensus pattern (109 bp):
ACCTCTGGGCATAATTTCGATTCACGGTGTTATCCCGATCGATTCTTTATTTTTATCTTACGGTG
TTATCTCGATCAATTCTGTAAGACCTCTGGGCATGATTTCTAAA
Found at i:6055042 original size:36 final size:36
Alignment explanation
Indices: 6054928--6055064 Score: 148
Period size: 36 Copynumber: 3.8 Consensus size: 36
6054918 CTTTCGGGCA
* * *
6054928 TAATTTTGATTCACGGTGTTGTCCTGATTGATTCTT
1 TAATTTTGATTCGCAGTGTTGTCCTGATCGATTCTT
** * *
6054964 TAATTTCAACTCGCAATGTTGTCCTGATCGATTCTT
1 TAATTTTGATTCGCAGTGTTGTCCTGATCGATTCTT
* * *
6055000 TAATTTTGATTCGCTGTGTTATCCTAATCGATTCTT
1 TAATTTTGATTCGCAGTGTTGTCCTGATCGATTCTT
* * * *
6055036 TAATTTTGACTCACGGTGTTGTCCCGATC
1 TAATTTTGATTCGCAGTGTTGTCCTGATC
6055065 AACTTTTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 81 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (36 bp):
TAATTTTGATTCGCAGTGTTGTCCTGATCGATTCTT
Found at i:6055056 original size:72 final size:72
Alignment explanation
Indices: 6054928--6055064 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 72
6054918 CTTTCGGGCA
* * * * *
6054928 TAATTTTGATTCACGGTGTTGTCCTGATTGATTCTTTAATTTCAACTCGCAATGTTGTCCTGATC
1 TAATTTTGATTCACGGTGTTATCCTAATCGATTCTTTAATTTCAACTCACAATGTTGTCCCGATC
6054993 GATTCTT
66 GATTCTT
* * ** **
6055000 TAATTTTGATTCGCTGTGTTATCCTAATCGATTCTTTAATTTTGACTCACGGTGTTGTCCCGATC
1 TAATTTTGATTCACGGTGTTATCCTAATCGATTCTTTAATTTCAACTCACAATGTTGTCCCGATC
6055065 AACTTTTTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (72 bp):
TAATTTTGATTCACGGTGTTATCCTAATCGATTCTTTAATTTCAACTCACAATGTTGTCCCGATC
GATTCTT
Found at i:6055299 original size:15 final size:15
Alignment explanation
Indices: 6055276--6055307 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6055266 AATTCTTGTT
6055276 TAATATTAATAATAA
1 TAATATTAATAATAA
*
6055291 TAATCTTAATAATAA
1 TAATATTAATAATAA
6055306 TA
1 TA
6055308 TTGGTTTAAT
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:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATATTAATAATAA
Found at i:6056420 original size:18 final size:18
Alignment explanation
Indices: 6056399--6056449 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
6056389 GAATTTTCTA
*
6056399 ATTTTTTTATATATT-ATT
1 ATTTTTTT-TATATTGAGT
*
6056417 ATTTTTTGTTATTTTGAGT
1 ATTTTTT-TTATATTGAGT
6056436 ATTTTTTTTATATT
1 ATTTTTTTTATATT
6056450 TATGCATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (18 bp):
ATTTTTTTTATATTGAGT
Found at i:6056423 original size:20 final size:18
Alignment explanation
Indices: 6056400--6056452 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
6056390 AATTTTCTAA
6056400 TTTTTTTATATATTATTAT
1 TTTTTTTATAT-TTATTAT
*
6056419 TTTTTGTTAT-TTTGAGTAT
1 TTTTT-TTATATTT-ATTAT
6056438 TTTTTTTATATTTAT
1 TTTTTTTATATTTAT
6056453 GCATGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 7 0.24
19 18 0.62
20 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTTTATATTTATTAT
Found at i:6056961 original size:29 final size:28
Alignment explanation
Indices: 6056929--6057059 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 28
6056919 CCAAAAATTG
*
6056929 AAACGCTAAAATCAAACCTCAAACACTTC
1 AAACCCTAAAATCAAACCTCAAAC-CTTC
** *
6056958 AAACTTTAAAATCAAAACTCCAAACCTTC
1 AAACCCTAAAATCAAACCT-CAAACCTTC
* *
6056987 AAACCCTAAAA-CTAAACCTCGAACCTCC
1 AAACCCTAAAATC-AAACCTCAAACCTTC
* * *
6057015 AAACCTTAAAA-CAAAACCTTAAATCCTCC
1 AAACCCTAAAATC-AAACCTCAAA-CCTTC
6057044 AAA-CCTAAAATTCAAA
1 AAACCCTAAAA-TCAAA
6057060 ACCTTAACCC
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
28 33 0.39
29 45 0.54
30 6 0.07
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACCCTAAAATCAAACCTCAAACCTTC
Found at i:6057049 original size:16 final size:14
Alignment explanation
Indices: 6057015--6057066 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
6057005 TCGAACCTCC
*
6057015 AAACCTTAAA-ACA
1 AAACCTTAAATTCA
*
6057028 AAACCTTAAATCCTCC
1 AAACCTTAAAT--TCA
*
6057044 AAACCTAAAATTCA
1 AAACCTTAAATTCA
6057058 AAACCTTAA
1 AAACCTTAA
6057067 CCCTAAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
16 11 0.35
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTTAAATTCA
Found at i:6057061 original size:30 final size:29
Alignment explanation
Indices: 6056986--6057066 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
6056976 TCCAAACCTT
* * **
6056986 CAAACCCTAAAACTAAACCTCGAA-CCTC
1 CAAACCTTAAAACAAAACCTTAAATCCTC
6057014 CAAACCTTAAAACAAAACCTTAAATCCTC
1 CAAACCTTAAAACAAAACCTTAAATCCTC
6057043 CAAACC-TAAAATTCAAAACCTTAA
1 CAAACCTTAAAA--CAAAACCTTAA
6057067 CCCTAAAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 25 0.54
29 10 0.22
30 11 0.24
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (29 bp):
CAAACCTTAAAACAAAACCTTAAATCCTC
Found at i:6057082 original size:14 final size:14
Alignment explanation
Indices: 6057065--6057205 Score: 77
Period size: 14 Copynumber: 9.1 Consensus size: 14
6057055 TCAAAACCTT
6057065 AACCCTAAAATCCA
1 AACCCTAAAATCCA
* * *
6057079 AACCTTTAAATTCAA
1 AACC-CTAAAATCCA
6057094 AACCCTAAAATCCA
1 AACCCTAAAATCCA
6057108 AACCCTAAAACTTTCGAAACCTA
1 AACCCTAAAA---T-----CC-A
**
6057131 AACCC-AAAATTTTA
1 AACCCTAAAA-TCCA
6057145 AAACCCTAAAAATCCA
1 -AACCCT-AAAATCCA
*
6057161 AACCCTTAAATCCA
1 AACCCTAAAATCCA
*
6057175 AATCCTAAAATCCAA
1 AACCCTAAAATCC-A
*
6057190 AACCTTAAAATCCA
1 AACCCTAAAATCCA
6057204 AA
1 AA
6057206 ATTATGAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
14 43 0.44
15 34 0.35
16 2 0.02
17 5 0.05
20 2 0.02
22 6 0.06
23 6 0.06
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.21
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:6057104 original size:15 final size:15
Alignment explanation
Indices: 6057065--6057206 Score: 58
Period size: 15 Copynumber: 9.1 Consensus size: 15
6057055 TCAAAACCTT
*
6057065 AACCCTAAAA-TCCA
1 AACCCTAAAATTCAA
* *
6057079 AACCTTTAAATTCAA
1 AACCCTAAAATTCAA
*
6057094 AACCCTAAAA-TCCA
1 AACCCTAAAATTCAA
6057108 AACCCTAAAACTTTCGAAACCTA
1 AACCCTAAAA--TTC---A---A
*
6057131 AACCC-AAAATTTTAA
1 AACCCTAAAA-TTCAA
* *
6057146 AACCCTAAAAATCCA
1 AACCCTAAAATTCAA
* *
6057161 AACCCTTAAA-TCCA
1 AACCCTAAAATTCAA
* *
6057175 AATCCTAAAATCCAA
1 AACCCTAAAATTCAA
* *
6057190 AACCTTAAAATCCAA
1 AACCCTAAAATTCAA
6057205 AA
1 AA
6057207 TTATGAAAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 23
0.71 0.13 0.17
Matches are distributed among these distances:
14 33 0.34
15 45 0.46
16 4 0.04
17 2 0.02
18 1 0.01
21 3 0.03
22 4 0.04
23 6 0.06
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (15 bp):
AACCCTAAAATTCAA
Found at i:6057107 original size:29 final size:29
Alignment explanation
Indices: 6057065--6057198 Score: 106
Period size: 29 Copynumber: 4.8 Consensus size: 29
6057055 TCAAAACCTT
*
6057065 AACCCTAAAATCCAAACCTTTAAATTCAA
1 AACCCTAAAATCCAAACCCTTAAATTCAA
* *
6057094 AACCCTAAAATCCAAACCCTAAAACTTTCGA
1 AACCCTAAAATCCAAACCCTTAAA--TTCAA
* *
6057125 AA-CCT-AAACCCAAA--ATT---TT-AA
1 AACCCTAAAATCCAAACCCTTAAATTCAA
*
6057146 AACCCTAAAAATCCAAACCCTTAAA-TCCA
1 AACCCT-AAAATCCAAACCCTTAAATTCAA
* *
6057175 AATCCTAAAATCCAAAACCTTAAA
1 AACCCTAAAATCCAAACCCTTAAA
6057199 ATCCAAAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
21 3 0.04
22 5 0.06
24 8 0.10
26 2 0.02
27 1 0.01
28 18 0.22
29 36 0.44
30 3 0.04
31 6 0.07
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (29 bp):
AACCCTAAAATCCAAACCCTTAAATTCAA
Found at i:6057198 original size:52 final size:50
Alignment explanation
Indices: 6057092--6057207 Score: 119
Period size: 52 Copynumber: 2.3 Consensus size: 50
6057082 CTTTAAATTC
* **
6057092 AAAACCCTAAAATCCAAACCCTAAAACTTTCGAAACCTAAACCCAAAATTTT
1 AAAACCCTAAAATCCAAACCCTAAAA--TTCCAAACCTAAACCCAAAACCTT
* *
6057144 AAAACCCTAAAAATCCAAACCCTTAAA-TCCAAATCCTAAAATCCAAAACCTT
1 AAAACCCT-AAAATCCAAACCCTAAAATTCCAAA-CCT-AAACCCAAAACCTT
*
6057196 AAAATCC-AAAAT
1 AAAACCCTAAAAT
6057208 TATGAAAACC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
50 10 0.18
51 3 0.05
52 25 0.45
53 17 0.31
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (50 bp):
AAAACCCTAAAATCCAAACCCTAAAATTCCAAACCTAAACCCAAAACCTT
Found at i:6062198 original size:23 final size:23
Alignment explanation
Indices: 6062170--6062215 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6062160 GATAAGAGAT
* *
6062170 AAAATATAGTTCGCATGACAATA
1 AAAATATAGTCCCCATGACAATA
6062193 AAAATATAGTCCCCATGACAATA
1 AAAATATAGTCCCCATGACAATA
6062216 GTTTTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (23 bp):
AAAATATAGTCCCCATGACAATA
Found at i:6063912 original size:19 final size:19
Alignment explanation
Indices: 6063870--6063920 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
6063860 CTCTTTGGTT
* *
6063870 GTTTTACCAATTCTTAAGG
1 GTTTTACCTATTCTTAAGA
6063889 GTTTTACCTATTCTTAAGA
1 GTTTTACCTATTCTTAAGA
* *
6063908 TTTTTACTTATTC
1 GTTTTACCTATTC
6063921 CTTCTAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.51
Consensus pattern (19 bp):
GTTTTACCTATTCTTAAGA
Found at i:6079071 original size:19 final size:19
Alignment explanation
Indices: 6079047--6079085 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6079037 ACCTAAAAAT
*
6079047 TTTCTAAGTATTATTTCTA
1 TTTCTAAGTATGATTTCTA
6079066 TTTCTAAGTATGATTTCTA
1 TTTCTAAGTATGATTTCTA
6079085 T
1 T
6079086 AACTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTCTAAGTATGATTTCTA
Found at i:6079258 original size:30 final size:30
Alignment explanation
Indices: 6079222--6079291 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
6079212 TAGAGAATAG
*
6079222 ATAATTTTGACTTTTGTCAATATCTTAAAA
1 ATAATTTTGACTTTTATCAATATCTTAAAA
*
6079252 ATAATTTTGACTTTTATTAATATCTTAAAA
1 ATAATTTTGACTTTTATCAATATCTTAAAA
6079282 ACTAAATTTT
1 A-T-AATTTT
6079292 TCATAATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 29 0.81
31 1 0.03
32 6 0.17
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (30 bp):
ATAATTTTGACTTTTATCAATATCTTAAAA
Found at i:6088534 original size:77 final size:77
Alignment explanation
Indices: 6088407--6088561 Score: 208
Period size: 77 Copynumber: 2.0 Consensus size: 77
6088397 TATTAGTATT
* * *
6088407 TTGCTTAGCTATTCCTTTGAACAGTTACAACATTTGCAAATACTTGGTTGGAATAGATGATCT-C
1 TTGCTTAGCAATTCCTTTGAAAAGTTACAACATTTGCAAATAATTGGTTGGAATAGATGAT-TGC
6088471 GA-AATAGGTGATA
65 -ATAATAGGTGATA
* * *
6088484 TTGCTTAGCAATTCCTTTGAAAAAGTTACAACTTTTGCAAATAATT-GTTGGGATAGGTGATTGC
1 TTGCTTAGCAATTCCTTTG-AAAAGTTACAACATTTGCAAATAATTGGTTGGAATAGATGATTGC
6088548 ATAATAGGTGATA
65 ATAATAGGTGATA
6088561 T
1 T
6088562 ACTTCTTACC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
76 2 0.03
77 44 0.64
78 23 0.33
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (77 bp):
TTGCTTAGCAATTCCTTTGAAAAGTTACAACATTTGCAAATAATTGGTTGGAATAGATGATTGCA
TAATAGGTGATA
Found at i:6089136 original size:44 final size:43
Alignment explanation
Indices: 6088958--6089426 Score: 224
Period size: 43 Copynumber: 10.9 Consensus size: 43
6088948 AATGTTTGCG
* ** *
6088958 TCTTCTAACGAGGTCTTATATATCATTCATGAGAATGC-CTACA
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTC-ACC
* * * ** * *
6089001 TCTTTTTATGTGGTCTTCCATAATTGTTCATAAGAATGTTCACC
1 TCTTCTTACGAGGTCTTCCAT-ATCATTCATGAGAATGCTCACC
* * * *
6089045 TCTTTTTACGAGGTCTTCCACATCATTCGTGAGAATGTTCACC
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
** * *
6089088 TCTTCTTACGAGGTCCTTTTATATTATTCATGAGAATGCTCACT
1 TCTTCTTACGAGGT-CTTCCATATCATTCATGAGAATGCTCACC
* * * * * * * * *
6089132 TCTTCTAACAAGTTATTTCATATCATTCTTGAGAATGATTACA
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * * * * * **
6089175 TCGTT-TTATGAAGTATTACATATCATTTATGAAAATGTTCGTC
1 TC-TTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * ** * * * *
6089218 TCTTTTTACAAAGTCTTTTATATCTTTTATGAGAATACTTACC
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * *** * *
6089261 TCTTCTAATGGGGTCTTTTGTATCATTCATGATAATGTTCACC
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * *
6089304 TCTTCTTACAAGGTCTTTCATATCATTCTTGAGAATGCTCAAC
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * * * * * * **
6089347 TTTTC-CATCAAGGTCTTTCATGTCATTTATGAAAATGTTCATG
1 TCTTCTTA-CGAGGTCTTCCATATCATTCATGAGAATGCTCACC
* * * *
6089390 TCTTCTTATGAGGTTTTCCATATCACTCATGATAATG
1 TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATG
6089427 TTTTGCCTCT
Statistics
Matches: 315, Mismatches: 104, Indels: 14
0.73 0.24 0.03
Matches are distributed among these distances:
42 3 0.01
43 242 0.77
44 69 0.22
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (43 bp):
TCTTCTTACGAGGTCTTCCATATCATTCATGAGAATGCTCACC
Found at i:6089319 original size:43 final size:43
Alignment explanation
Indices: 6089027--6089428 Score: 249
Period size: 43 Copynumber: 9.3 Consensus size: 43
6089017 TCCATAATTG
* * * * *
6089027 TTCATAAGAATGTTCACCTCTTTTTACGAGGTCTTCCACATCA
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
* * * *
6089070 TTCGTGAGAATGTTCACCTCTTCTTACGAGGTCCTTTTATATTA
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGT-CTTTCATATCA
* * * * *
6089114 TTCATGAGAATGCTCACTTCTTCTAACAAGTTATTTCATATCA
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
* * * * *
6089157 TTCTTGAGAATGATT-ACATCGTT-TTATGAA-GTATTACATATCA
1 TTCATGAGAATG-TTCACCTC-TTCTTA-CAAGGTCTTTCATATCA
* * ** * * * *
6089200 TTTATGAAAATGTTCGTCTCTTTTTACAAAGTCTTTTATATCT
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
* * * *** **
6089243 TTTATGAGAATACTT-ACCTCTTCTAATGGGGTCTTTTGTATCA
1 TTCATGAGAAT-GTTCACCTCTTCTTACAAGGTCTTTCATATCA
*
6089286 TTCATGATAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
* * * * * *
6089329 TTCTTGAGAATGCTCAACTTTTC-CATCAAGGTCTTTCATGTCA
1 TTCATGAGAATGTTCACCTCTTCTTA-CAAGGTCTTTCATATCA
* * ** **
6089372 TTTATGAAAATGTTCATGTCTTCTTATGAGGT-TTTCCATATCA
1 TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTT-CATATCA
* *
6089415 CTCATGATAATGTT
1 TTCATGAGAATGTT
6089429 TTGCCTCTTC
Statistics
Matches: 271, Mismatches: 76, Indels: 24
0.73 0.20 0.06
Matches are distributed among these distances:
42 12 0.04
43 218 0.80
44 41 0.15
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (43 bp):
TTCATGAGAATGTTCACCTCTTCTTACAAGGTCTTTCATATCA
Found at i:6090131 original size:78 final size:76
Alignment explanation
Indices: 6090012--6090173 Score: 218
Period size: 78 Copynumber: 2.1 Consensus size: 76
6090002 ATTTAAGTAG
**
6090012 GCAATTTCATCATGATAAGCATTTTTTAGGTAACTTTACCAAGTTGAGCTCTCTTACCAAGCTAA
1 GCAATTTCATCATGATAAGCATTTTGAAGGTAACTTTACCAAGTTGAGCTCTCTTACCAAGCTAA
6090077 GCT-TTTAAAAAA
66 G-TATTT-AAAAA
* * * * *
6090089 GCAATTTCATCATGGTGAGCTATTTTGAAGGTAACTTTACCAAGTTGAGCTTTTTTATCAAGCTA
1 GCAATTTCATCATGATAAGC-ATTTTGAAGGTAACTTTACCAAGTTGAGCTCTCTTACCAAGCTA
6090154 AGTATTTAAAAA
65 AGTATTTAAAAA
6090166 GACAATTT
1 G-CAATTT
6090174 TGATTGAGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
77 25 0.33
78 50 0.67
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (76 bp):
GCAATTTCATCATGATAAGCATTTTGAAGGTAACTTTACCAAGTTGAGCTCTCTTACCAAGCTAA
GTATTTAAAAA
Found at i:6092954 original size:11 final size:11
Alignment explanation
Indices: 6092938--6092962 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6092928 TTTATCCAGT
6092938 TTTGTTTTATA
1 TTTGTTTTATA
6092949 TTTGTTTTATA
1 TTTGTTTTATA
6092960 TTT
1 TTT
6092963 ATTTATTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTGTTTTATA
Found at i:6093987 original size:16 final size:17
Alignment explanation
Indices: 6093966--6094002 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6093956 ATAGTTTTTT
6093966 TTTTGTT-TTTGTCTTA
1 TTTTGTTATTTGTCTTA
*
6093982 TTTTGTTATTTGTTTTA
1 TTTTGTTATTTGTCTTA
6093999 TTTT
1 TTTT
6094003 AATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.08, C:0.03, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTTGTTATTTGTCTTA
Found at i:6094008 original size:17 final size:17
Alignment explanation
Indices: 6093973--6094016 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6093963 TTTTTTTGTT
* **
6093973 TTTGTCTTATTTTGTTA
1 TTTGTTTTATTTTAATA
6093990 TTTGTTTTATTTTAATA
1 TTTGTTTTATTTTAATA
*
6094007 TTTTTTTTAT
1 TTTGTTTTAT
6094017 ATAATGGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (17 bp):
TTTGTTTTATTTTAATA
Found at i:6107481 original size:17 final size:17
Alignment explanation
Indices: 6107461--6107498 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
6107451 TTTTTTTACT
*
6107461 TTTTTTTGTTTGTTTTA
1 TTTTGTTGTTTGTTTTA
6107478 TTTTGTTGTTTGTTTTA
1 TTTTGTTGTTTGTTTTA
6107495 TTTT
1 TTTT
6107499 AATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (17 bp):
TTTTGTTGTTTGTTTTA
Found at i:6107833 original size:23 final size:22
Alignment explanation
Indices: 6107797--6107839 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
6107787 TGTTAGAAAA
6107797 TATTTTTAAAAATTAATTTTTT
1 TATTTTTAAAAATTAATTTTTT
*
6107819 TATTTTATAAAAATTGATTTT
1 TATTTT-TAAAAATTAATTTT
6107840 GAATATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTTTAAAAATTAATTTTTT
Found at i:6107846 original size:24 final size:23
Alignment explanation
Indices: 6107795--6107852 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
6107785 CGTGTTAGAA
6107795 AATATTTT-TAAAAATTAATTTT
1 AATATTTTATAAAAATTAATTTT
** *
6107817 TTTATTTTATAAAAATTGATTTT
1 AATATTTTATAAAAATTAATTTT
*
6107840 GAATATTTGATAA
1 -AATATTTTATAA
6107853 TGAAATTACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 6 0.21
23 13 0.46
24 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
AATATTTTATAAAAATTAATTTT
Found at i:6113220 original size:26 final size:26
Alignment explanation
Indices: 6113192--6113241 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
6113182 TATTAAAATT
*
6113192 TTTTA-ATTGAATTAT-ATTTTATATA
1 TTTTATATT-AATTATCATGTTATATA
6113217 TTTTATATTAATTATCATGTTATAT
1 TTTTATATTAATTATCATGTTATAT
6113242 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTATATTAATTATCATGTTATATA
Found at i:6116252 original size:42 final size:46
Alignment explanation
Indices: 6116165--6116254 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 46
6116155 AATAAAAACT
*
6116165 AATCTTTTCTTTACTAGAAAAGAAAGGAAGAGATAGAGATAGAGAAC
1 AATCTTTTCTTTACTAGAAAAGAAA-GAAGAGATAGAGACAGAGAAC
6116212 AATCTTTTCTTTACTA-AAAA-AAA-AA-AGAT-GAAGACAGAGAAC
1 AATCTTTTCTTTACTAGAAAAGAAAGAAGAGATAG-AGACAGAGAAC
6116254 A
1 A
6116255 GAGATTCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
41 1 0.02
42 15 0.37
43 2 0.05
45 3 0.07
46 4 0.10
47 16 0.39
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (46 bp):
AATCTTTTCTTTACTAGAAAAGAAAGAAGAGATAGAGACAGAGAAC
Found at i:6117034 original size:19 final size:19
Alignment explanation
Indices: 6117012--6117078 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
6117002 TAATAAATAT
6117012 AAAATCATGCAATATATTA
1 AAAATCATGCAATATATTA
6117031 AAAATCATGCAA-ATATATA
1 AAAATCATGCAATATAT-TA
* *
6117050 ACAATTATGCAAT-TAGTTA
1 AAAATCATGCAATATA-TTA
*
6117069 ACAATCATGC
1 AAAATCATGC
6117079 GATTATACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.10
19 37 0.88
20 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATCATGCAATATATTA
Found at i:6117121 original size:19 final size:19
Alignment explanation
Indices: 6117090--6117136 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
6117080 ATTATACAAA
6117090 TAAATATATAAATAATCACG
1 TAAATA-ATAAATAATCACG
*
6117110 TAAATAATAAATAATCATG
1 TAAATAATAAATAATCACG
*
6117129 CAAATAAT
1 TAAATAAT
6117137 CATTCATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (19 bp):
TAAATAATAAATAATCACG
Found at i:6118464 original size:22 final size:22
Alignment explanation
Indices: 6118415--6118472 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
6118405 TGATGTATCG
*
6118415 TGATTGCTTCTTTGATTGCTGCT
1 TGATTGCTTC-TTGATTGATGCT
* *
6118438 GGATTGCTTCTTGGTTGATGCT
1 TGATTGCTTCTTGATTGATGCT
6118460 TGATTGCTTCTTG
1 TGATTGCTTCTTG
6118473 CGTCCTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (22 bp):
TGATTGCTTCTTGATTGATGCT
Found at i:6118472 original size:11 final size:11
Alignment explanation
Indices: 6118415--6118472 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
6118405 TGATGTATCG
6118415 TGATTGCTTCTT
1 TGATTGCTTC-T
*
6118427 TGATTGCTGCT
1 TGATTGCTTCT
*
6118438 GGATTGCTTCT
1 TGATTGCTTCT
* * *
6118449 TGGTTGATGCT
1 TGATTGCTTCT
6118460 TGATTGCTTCT
1 TGATTGCTTCT
6118471 TG
1 TG
6118473 CGTCCTTGTT
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
11 27 0.75
12 9 0.25
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (11 bp):
TGATTGCTTCT
Done.