Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 226 of 255
Found at i:75033791 original size:11 final size:9
Alignment explanation
Indices: 75033743--75033907 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
75033733 AATTGCAATG
75033743 GTAAGTTAT
1 GTAAGTTAT
75033752 GTAAGTTAT
1 GTAAGTTAT
75033761 GTAAGTTAAAT
1 GTAAGTT--AT
75033772 GT-A-TTAT
1 GTAAGTTAT
75033779 GTAAGTTAAAT
1 GTAAGTT--AT
75033790 GTAAG-T-T
1 GTAAGTTAT
75033797 GTAAGTTAT
1 GTAAGTTAT
*
75033806 -TATGTATTAT
1 GTAAG--TTAT
75033816 GTAAG-T-T
1 GTAAGTTAT
75033823 GTAAGTTAAAT
1 GTAAGTT--AT
*
75033834 GT-A-TTGT
1 GTAAGTTAT
75033841 GTAAG-T-T
1 GTAAGTTAT
75033848 GTAAGTTAAAT
1 GTAAGTT--AT
75033859 GT-A-TTAT
1 GTAAGTTAT
75033866 GTAAG-T-T
1 GTAAGTTAT
75033873 GTAAGTTAT
1 GTAAGTTAT
*
75033882 -TATGTATTAT
1 GTAAG--TTAT
75033892 GTAAG-T-T
1 GTAAGTTAT
75033899 GTAAGTTAT
1 GTAAGTTAT
75033908 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:75033818 original size:19 final size:19
Alignment explanation
Indices: 75033757--75034174 Score: 82
Period size: 18 Copynumber: 21.6 Consensus size: 19
75033747 GTTATGTAAG
*
75033757 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
75033775 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
75033794 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
75033812 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
75033837 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
75033862 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
75033878 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
75033896 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
75033914 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
75033939 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
75033955 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
75033973 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
75033991 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
75034007 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
75034025 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
75034043 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* * *
75034068 TTATGTCAGTCA-AATGTA
1 TTATGTAAGTTATTATGTA
75034086 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
75034111 TTATGTAAGTT-GTAAGTTA
1 TTATGTAAGTTATTATG-TA
*
75034130 TTATGT-A-TTATGTAAGTA
1 TTATGTAAGTTAT-TATGTA
*
75034148 --ATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
75034164 TTATGTAAGTT
1 TTATGTAAGTT
75034175 GTAAGTTATT
Statistics
Matches: 301, Mismatches: 43, Indels: 112
0.66 0.09 0.25
Matches are distributed among these distances:
14 3 0.01
15 18 0.06
16 19 0.06
17 6 0.02
18 83 0.28
19 71 0.24
20 5 0.02
21 3 0.01
22 4 0.01
23 8 0.03
24 3 0.01
25 78 0.26
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:75033822 original size:26 final size:26
Alignment explanation
Indices: 75033788--75034193 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
75033778 TGTAAGTTAA
75033788 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
75033814 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
75033839 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75033864 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75033890 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
75033916 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75033941 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75033967 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
75033993 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75034019 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
75034045 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
75034070 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
75034088 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75034113 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
75034139 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
75034166 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
75034192 AT
1 AT
75034194 TTAATAAAAT
Statistics
Matches: 345, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 113 0.33
26 188 0.54
27 15 0.04
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:75034163 original size:53 final size:51
Alignment explanation
Indices: 75033788--75034193 Score: 571
Period size: 51 Copynumber: 8.0 Consensus size: 51
75033778 TGTAAGTTAA
* *
75033788 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
75033839 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
75033890 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
75033941 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
75033993 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
75034045 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
75034088 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
75034139 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
75034192 AT
1 AT
75034194 TTAATAAAAT
Statistics
Matches: 324, Mismatches: 18, Indels: 24
0.89 0.05 0.07
Matches are distributed among these distances:
43 36 0.11
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.07
51 114 0.35
52 97 0.30
53 45 0.14
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:75034186 original size:19 final size:19
Alignment explanation
Indices: 75033963--75034189 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
75033953 AGTTATTATG
75033963 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
75033982 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
75033997 AAGT-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
75034014 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
75034034 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
75034049 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
75034065 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
75034083 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
75034108 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
75034128 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
75034146 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
75034161 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
75034181 TATTATGTA
1 TATTATGTA
75034190 TTATTTAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
14 10 0.06
15 12 0.08
16 10 0.06
17 12 0.08
18 36 0.23
19 51 0.32
20 8 0.05
25 20 0.13
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:75034373 original size:35 final size:35
Alignment explanation
Indices: 75034261--75034373 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
75034251 ATAAAATAAC
75034261 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
75034296 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
75034334 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
75034369 ATTTT
1 ATTTT
75034374 TTATATTTTA
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:75034385 original size:73 final size:73
Alignment explanation
Indices: 75034230--75034375 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
75034220 ACATTACTAA
75034230 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
75034295 TATTTTTT
66 TATTTTTT
75034303 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
75034368 TATTTTTT
66 TATTTTTT
75034376 ATATTTTATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:75036345 original size:115 final size:114
Alignment explanation
Indices: 75036207--75036523 Score: 544
Period size: 115 Copynumber: 2.8 Consensus size: 114
75036197 AATAAACACC
75036207 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
75036272 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
75036322 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * * *
75036387 ATAACATTTTTGTGGCATTTTAAAAGAAGCGTCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
75036437 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
75036502 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
75036524 TAAAAACGCC
Statistics
Matches: 189, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
114 50 0.26
115 104 0.55
116 35 0.19
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:75036350 original size:40 final size:40
Alignment explanation
Indices: 75036272--75036350 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
75036262 AAACACAAAA
* * * * * *
75036272 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
75036312 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
75036351 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:75036614 original size:75 final size:74
Alignment explanation
Indices: 75036427--75036598 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
75036417 GTCGCTAAAG
75036427 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
75036492 AAACACAAAA
65 AAACACAAAA
*
75036502 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
75036567 AAACACAAAA
65 AAACACAAAA
*
75036577 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
75036599 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:75036639 original size:189 final size:189
Alignment explanation
Indices: 75036312--75036690 Score: 580
Period size: 189 Copynumber: 2.0 Consensus size: 189
75036302 GCCGCTAAAG
75036312 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * * *
75036377 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGTCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
75036442 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
75036502 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
75036566 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
75036631 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
75036690 T
1 T
75036691 CCAACAAAAC
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 26 0.15
189 139 0.81
190 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:75036887 original size:113 final size:115
Alignment explanation
Indices: 75036687--75036971 Score: 324
Period size: 114 Copynumber: 2.5 Consensus size: 115
75036677 GGTCAACACA
* * ** * * * * *** **
75036687 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACAAAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
75036752 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
** * *
75036801 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACAAAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
75036865 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
75036915 AAATCTTACAAAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACAAAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
75036972 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACAAAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:75037488 original size:7 final size:7
Alignment explanation
Indices: 75037476--75037649 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
75037466 ACTAATCAAT
75037476 CTAAACC
1 CTAAACC
*
75037483 CTAAACA
1 CTAAACC
75037490 C-ATAACC
1 CTA-AACC
75037497 CTTAAATCC
1 C-TAAA-CC
75037506 CTTAAACC
1 C-TAAACC
75037514 CTAAACC
1 CTAAACC
*
75037521 C-AAATC
1 CTAAACC
* *
75037527 ATAATCC
1 CTAAACC
75037534 CTAAA-C
1 CTAAACC
*
75037540 CT--AGC
1 CTAAACC
*
75037545 CTAGACC
1 CTAAACC
*
75037552 CTGAACC
1 CTAAACC
*
75037559 C-CAACC
1 CTAAACC
75037565 CGTAAACC
1 C-TAAACC
*
75037573 TTAAACC
1 CTAAACC
*
75037580 C-CAACC
1 CTAAACC
*
75037586 C-CAACC
1 CTAAACC
75037592 CGTAAACC
1 C-TAAACC
*
75037600 TTAAACC
1 CTAAACC
*
75037607 C-CAACTC
1 CTAAAC-C
*
75037614 GTAAACC
1 CTAAACC
*
75037621 CTAAACT
1 CTAAACC
*
75037628 GTAAACC
1 CTAAACC
* * *
75037635 ATAATCA
1 CTAAACC
75037642 CTAAACC
1 CTAAACC
75037649 C
1 C
75037650 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 65 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:75037579 original size:21 final size:21
Alignment explanation
Indices: 75037555--75037626 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
75037545 CTAGACCCTG
75037555 AACCCCAACCCGTAAACCTTAA
1 AACCCCAACCCGTAAACCTT-A
75037577 ACCCCAACCCCAACCCGTAAACCTTA
1 A-----ACCCCAACCCGTAAACCTTA
* *
75037603 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
75037624 AAC
1 AAC
75037627 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 21 0.49
22 1 0.02
26 2 0.05
27 19 0.44
ACGTcount: A:0.39, C:0.44, G:0.04, T:0.12
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:75037585 original size:27 final size:27
Alignment explanation
Indices: 75037555--75037611 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
75037545 CTAGACCCTG
75037555 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
75037582 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
75037609 AAC
1 AAC
75037612 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:75038176 original size:73 final size:72
Alignment explanation
Indices: 75038081--75038218 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
75038071 AAAGACTCGA
75038081 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
75038145 AGCCTCCC
65 AGCCTCCC
* * * * * *
75038153 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
75038218 A
65 A
75038219 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:75038272 original size:114 final size:114
Alignment explanation
Indices: 75038118--75038444 Score: 408
Period size: 113 Copynumber: 2.9 Consensus size: 114
75038108 TAGGCTTTTT
** * ** *
75038118 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * * *
75038183 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* *
75038232 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
75038296 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
75038345 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
*
75038408 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
75038445 TGCTCATTAT
Statistics
Matches: 183, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
112 4 0.02
113 93 0.51
114 86 0.47
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:75038537 original size:41 final size:40
Alignment explanation
Indices: 75038412--75038564 Score: 141
Period size: 39 Copynumber: 3.9 Consensus size: 40
75038402 TTGGTTTAGG
* * *
75038412 TTTTTAGCGGCG-CTTTT-TAAGAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTGTAA-AATCGCCGCTAATGCTAA
* * * * *
75038451 TTATTAGCGGCG-TTTTTGTAAAAGCGCCGGTAATACTGA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
* * *
75038490 TATTTAGCGGCGTTTTTTTTTAAATCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGC-TAA
* **
75038531 TTTTTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAA
75038565 AAGCGCCGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 39 0.42
40 22 0.24
41 31 0.34
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
Found at i:75041457 original size:15 final size:16
Alignment explanation
Indices: 75041432--75041464 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
75041422 ATTTAAGTTT
75041432 AAATAAAATTCGAGTC
1 AAATAAAATTCGAGTC
75041448 AAAT-AAATTCGAGTC
1 AAATAAAATTCGAGTC
75041463 AA
1 AA
75041465 GTCGAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (16 bp):
AAATAAAATTCGAGTC
Found at i:75042736 original size:4 final size:4
Alignment explanation
Indices: 75042727--75042761 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
75042717 GAGCAAACGT
75042727 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
75042762 GGAAATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:75043722 original size:22 final size:23
Alignment explanation
Indices: 75043696--75043740 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
75043686 AGGAAGAGAA
75043696 GGGAAAATAAA-GAAAATAAAAG
1 GGGAAAATAAAGGAAAATAAAAG
**
75043718 GGGAAGTTAAAGGAAAATAAAAG
1 GGGAAAATAAAGGAAAATAAAAG
75043741 AAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.11
Consensus pattern (23 bp):
GGGAAAATAAAGGAAAATAAAAG
Found at i:75043983 original size:11 final size:11
Alignment explanation
Indices: 75043967--75044000 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
75043957 GGCCCAGCCG
75043967 TATTATTTTTA
1 TATTATTTTTA
75043978 TATTATTTTTTA
1 TATTA-TTTTTA
*
75043990 TATAATTTTTA
1 TATTATTTTTA
75044001 AAAAACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:75043989 original size:12 final size:12
Alignment explanation
Indices: 75043967--75043999 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
75043957 GGCCCAGCCG
75043967 TATTA-TTTTTA
1 TATTATTTTTTA
75043978 TATTATTTTTTA
1 TATTATTTTTTA
*
75043990 TATAATTTTT
1 TATTATTTTT
75044000 AAAAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:75056347 original size:37 final size:37
Alignment explanation
Indices: 75056306--75056418 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
75056296 TGTTATAATA
75056306 ATTTGATTTTATTTTATAATTATTCAAAAATATGTAT
1 ATTTGATTTTATTTTATAATTATTCAAAAATATGTAT
* * * *** *
75056343 ATTTG-TAATTATATTATAATTGTGT--GTTATA-ATA-
1 ATTTGAT-TTTATTTTATAATTAT-TCAAAAATATGTAT
*
75056377 ATTTGATTTTATTTTATAATTATTCAAAAACATGTAT
1 ATTTGATTTTATTTTATAATTATTCAAAAATATGTAT
75056414 ATTTG
1 ATTTG
75056419 TAATTGTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 14
0.65 0.18 0.17
Matches are distributed among these distances:
33 1 0.02
34 18 0.33
35 5 0.09
36 6 0.11
37 23 0.43
38 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (37 bp):
ATTTGATTTTATTTTATAATTATTCAAAAATATGTAT
Found at i:75056364 original size:71 final size:71
Alignment explanation
Indices: 75056283--75056434 Score: 277
Period size: 71 Copynumber: 2.1 Consensus size: 71
75056273 TGTACGAGAT
* *
75056283 TATTTTAATTGTGTGTTATAATAATTTGATTTTATTTTATAATTATTCAAAAATATGTATATTTG
1 TATTATAATTGTGTGTTATAATAATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTG
75056348 TAATTA
66 TAATTA
75056354 TATTATAATTGTGTGTTATAATAATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTG
1 TATTATAATTGTGTGTTATAATAATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTG
*
75056419 TAATTG
66 TAATTA
75056425 TATTATAATT
1 TATTATAATT
75056435 ATATTAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (71 bp):
TATTATAATTGTGTGTTATAATAATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTG
TAATTA
Found at i:75056394 original size:34 final size:34
Alignment explanation
Indices: 75056288--75056397 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 34
75056278 GAGATTATTT
75056288 TAATTGTGTGTTATAATAATTTGATTTTATTTTA
1 TAATTGTGTGTTATAATAATTTGATTTTATTTTA
* *** * * *
75056322 TAATTAT-TCAAAAATATGTATATTTG-TAATTATATTA
1 TAATTGTGT--GTTATA-ATA-ATTTGAT-TTTATTTTA
75056359 TAATTGTGTGTTATAATAATTTGATTTTATTTTA
1 TAATTGTGTGTTATAATAATTTGATTTTATTTTA
75056393 TAATT
1 TAATT
75056398 ATTCAAAAAC
Statistics
Matches: 55, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
33 1 0.02
34 23 0.42
35 6 0.11
36 6 0.11
37 18 0.33
38 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (34 bp):
TAATTGTGTGTTATAATAATTTGATTTTATTTTA
Found at i:75056431 original size:37 final size:38
Alignment explanation
Indices: 75056314--75056445 Score: 98
Period size: 37 Copynumber: 3.6 Consensus size: 38
75056304 TAATTTGATT
* *
75056314 TTATTTTATAATTAT-TCAAAAATATGTATATTTGTAA
1 TTATATTATAATTATATCAAAAACATGTATATTTGTAA
* * *** * *
75056351 TTATATTATAATTGTGTGTTATA-A--TA-ATTTG-ATT
1 TTATATTATAATTATATCAAAAACATGTATATTTGTA-A
*
75056385 TTATTTTATAATTAT-TCAAAAACATGTATATTTGTAA
1 TTATATTATAATTATATCAAAAACATGTATATTTGTAA
* *
75056422 TTGTATTATAATTATATTAAAAAC
1 TTATATTATAATTATATCAAAAAC
75056446 GATCCATGAA
Statistics
Matches: 70, Mismatches: 17, Indels: 15
0.69 0.17 0.15
Matches are distributed among these distances:
33 4 0.06
34 19 0.27
35 2 0.03
36 2 0.03
37 32 0.46
38 11 0.16
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (38 bp):
TTATATTATAATTATATCAAAAACATGTATATTTGTAA
Found at i:75060601 original size:3 final size:3
Alignment explanation
Indices: 75060593--75060628 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
75060583 TCTCAAACCC
* *
75060593 CTT CTT CTT CTT CTT CTT CTC CTT CTT CGT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
75060629 TATCAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.36, G:0.03, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:75062925 original size:20 final size:20
Alignment explanation
Indices: 75062880--75062925 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
75062870 TTTAAAAATT
75062880 AAAAAATTTCAAATAAATAA
1 AAAAAATTTCAAATAAATAA
* *
75062900 ATAAAATTTTAAA-AAATTAA
1 AAAAAATTTCAAATAAA-TAA
75062920 AAAAAA
1 AAAAAA
75062926 AACCACATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATTTCAAATAAATAA
Found at i:75063441 original size:27 final size:25
Alignment explanation
Indices: 75063404--75063480 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 25
75063394 TTTTAAAATA
75063404 TTTTATCAATTTTTAATAATTTTAATT
1 TTTTAT-AATTTTT-ATAATTTTAATT
*
75063431 TTTTAATAATTTCTTATAAAATTTAATT
1 TTTT-ATAATTT-TTAT-AATTTTAATT
*
75063459 TTTTCTATATTTTTATAATTTT
1 TTTTATA-ATTTTTATAATTTT
75063481 TGTAATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
26 5 0.12
27 17 0.40
28 21 0.49
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTATAATTTTTATAATTTTAATT
Found at i:75063479 original size:9 final size:9
Alignment explanation
Indices: 75063394--75063487 Score: 50
Period size: 10 Copynumber: 10.1 Consensus size: 9
75063384 TTGAATATTA
*
75063394 TTTTAAAAT
1 TTTTATAAT
75063403 ATTTTATCAAT
1 -TTTTAT-AAT
75063414 TTTTAATAA-
1 TTTT-ATAAT
*
75063423 TTTTA-ATT
1 TTTTATAAT
75063431 TTTTAATAAT
1 TTTT-ATAAT
*
75063441 TTCTTATAAA
1 TT-TTATAAT
* *
75063451 ATTTA-ATT
1 TTTTATAAT
*
75063459 TTTTCTATAT
1 TTTTATA-AT
75063469 TTTTATAAT
1 TTTTATAAT
*
75063478 TTTTGTAAT
1 TTTTATAAT
75063487 T
1 T
75063488 AAATGAAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.02
8 9 0.14
9 20 0.31
10 27 0.42
11 7 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:75067284 original size:18 final size:18
Alignment explanation
Indices: 75067245--75067284 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
75067235 ATATTTTAAT
* *
75067245 ATATTATGTATATTTTAT
1 ATATTATGTATATATTAC
*
75067263 ATATTGTGTATATATTAC
1 ATATTATGTATATATTAC
75067281 ATAT
1 ATAT
75067285 ATACTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (18 bp):
ATATTATGTATATATTAC
Found at i:75067315 original size:23 final size:23
Alignment explanation
Indices: 75067274--75067336 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
75067264 TATTGTGTAT
*
75067274 ATATTA-CATATA--TACTTTTA
1 ATATTATCATATATTTATTTTTA
75067294 ATATTATCATATATTTATTTTTA
1 ATATTATCATATATTTATTTTTA
*
75067317 ATATATATGTATATATTTAT
1 ATAT-TAT-CATATATTTAT
75067337 GAAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 6 0.17
23 11 0.31
24 3 0.08
25 10 0.28
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTATCATATATTTATTTTTA
Found at i:75067436 original size:47 final size:45
Alignment explanation
Indices: 75067383--75067471 Score: 142
Period size: 47 Copynumber: 1.9 Consensus size: 45
75067373 TCATTATTAT
*
75067383 TGTATTATTACTATTATTATTATTATACCTTTTATTATTATTACTAC
1 TGTATTATTACTATTATTATTA-T-TACATTTTATTATTATTACTAC
*
75067430 TGTATTATTACTATTATTATTATTACATTTTCTTATTATTAC
1 TGTATTATTACTATTATTATTATTACATTTTATTATTATTAC
75067472 ATTTTCTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 17 0.43
46 1 0.03
47 22 0.55
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (45 bp):
TGTATTATTACTATTATTATTATTACATTTTATTATTATTACTAC
Found at i:75067470 original size:3 final size:3
Alignment explanation
Indices: 75067370--75067454 Score: 68
Period size: 3 Copynumber: 28.0 Consensus size: 3
75067360 TTTTACAATG
* * *
75067370 TTA TCA TTA TTA TT- GTA TTA TTA CTA TTA TTA TTA TTA -TA CCTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA
* *
75067414 TTA TTA TTA TTA CTA CTGTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA
75067455 CATTTTCTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 5 0.08
3 56 0.86
4 1 0.02
5 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:75067887 original size:14 final size:14
Alignment explanation
Indices: 75067870--75067900 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75067860 ATAATATAGT
75067870 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
75067884 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
75067898 ATA
1 ATA
75067901 GAAAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:75067934 original size:4 final size:4
Alignment explanation
Indices: 75067925--75068007 Score: 60
Period size: 4 Copynumber: 20.2 Consensus size: 4
75067915 AGCAAACGTG
* * * * *
75067925 AGAA AGAA AGAA AGAA AGAA ATAA AGAT AGAA AGACT A-AC AGAG AGCAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AG-AA
** *
75067974 ACGTG AGAA AGAA AGAA GGAA AGAA AGAA AGAA A
1 A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
75068008 TAAAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
3 1 0.02
4 55 0.90
5 4 0.07
6 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.25, T:0.05
Consensus pattern (4 bp):
AGAA
Found at i:75070234 original size:9 final size:9
Alignment explanation
Indices: 75070209--75070275 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
75070199 TCATGACAAT
75070209 TATTATTAC
1 TATTATTAC
* *
75070218 TATCATTAG
1 TATTATTAC
75070227 TATTATTAC
1 TATTATTAC
75070236 -ATT-TTAC
1 TATTATTAC
** *
75070243 TACCATTAT
1 TATTATTAC
75070252 TATTATTTA-
1 TATTA-TTAC
*
75070261 TATTATTAT
1 TATTATTAC
75070270 TATTAT
1 TATTAT
75070276 CGTTTTCGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
7 4 0.09
8 7 0.16
9 31 0.69
10 3 0.07
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (9 bp):
TATTATTAC
Found at i:75073034 original size:21 final size:21
Alignment explanation
Indices: 75073008--75073050 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
75072998 AAATGAATAA
75073008 AAAAAGTTTGGAAACCATCAT
1 AAAAAGTTTGGAAACCATCAT
75073029 AAAAAGTTTGGAAACCATCAT
1 AAAAAGTTTGGAAACCATCAT
75073050 A
1 A
75073051 CAAGTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAAGTTTGGAAACCATCAT
Found at i:75074525 original size:15 final size:15
Alignment explanation
Indices: 75074485--75074526 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
75074475 AAAAATAATA
75074485 AAGAAATAATAAAAT
1 AAGAAATAATAAAAT
* *
75074500 AACAAAAAATAAAAT
1 AAGAAATAATAAAAT
*
75074515 ATGAAATAATAA
1 AAGAAATAATAA
75074527 TGACAATATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (15 bp):
AAGAAATAATAAAAT
Found at i:75076376 original size:13 final size:13
Alignment explanation
Indices: 75076344--75076368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75076334 CAATTCCTGT
75076344 AAACATTTCATAC
1 AAACATTTCATAC
75076357 AAACATTTCATA
1 AAACATTTCATA
75076369 TAACCATTCC
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAACATTTCATAC
Found at i:75076539 original size:46 final size:46
Alignment explanation
Indices: 75076470--75076690 Score: 327
Period size: 46 Copynumber: 4.8 Consensus size: 46
75076460 TGATGTCATA
* * * * *
75076470 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
*
75076516 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
75076562 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
75076608 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
75076654 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
75076691 AGAGCACACT
Statistics
Matches: 163, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 159 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:75080586 original size:20 final size:22
Alignment explanation
Indices: 75080563--75080602 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
75080553 AAAAAAAATC
*
75080563 AAAATTAA-TAATG-TATATAA
1 AAAATAAAGTAATGCTATATAA
75080583 AAAATAAAGTAATGCTATAT
1 AAAATAAAGTAATGCTATAT
75080603 GAGTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAATAAAGTAATGCTATATAA
Found at i:75082818 original size:18 final size:18
Alignment explanation
Indices: 75082786--75082821 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
75082776 CTTTCTAATT
75082786 AAATTTTTATAATATAAA
1 AAATTTTTATAATATAAA
75082804 AAATATTTTAT-ATATAAA
1 AAAT-TTTTATAATATAAA
75082822 TGATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTTTATAATATAAA
Found at i:75084981 original size:11 final size:11
Alignment explanation
Indices: 75084965--75084991 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
75084955 GGTTGCTATA
75084965 AACATGTCATC
1 AACATGTCATC
75084976 AACATGTCATC
1 AACATGTCATC
75084987 AACAT
1 AACAT
75084992 AAAGGAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (11 bp):
AACATGTCATC
Found at i:75089724 original size:44 final size:44
Alignment explanation
Indices: 75089656--75089746 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
75089646 ATTATATGTA
*
75089656 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
* *
75089700 TCGCATCCGTAATGAACTCAGACCAACTCAATGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
75089744 TCG
1 TCG
75089747 GATGCCTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
Found at i:75091197 original size:24 final size:24
Alignment explanation
Indices: 75091169--75091215 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
75091159 TTTTTCTTTC
*
75091169 TTTCTCAGGTAAAGGCAAATCTCA
1 TTTCTCAGGCAAAGGCAAATCTCA
75091193 TTTCTCAGGCAAAGGCAAATCTC
1 TTTCTCAGGCAAAGGCAAATCTC
75091216 TCTTTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (24 bp):
TTTCTCAGGCAAAGGCAAATCTCA
Found at i:75095728 original size:32 final size:32
Alignment explanation
Indices: 75095688--75095771 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
75095678 TTGAAATTTT
*
75095688 AGTTTGTTGGATTTTGAAATTATTATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TTGA
* * *
75095721 A-TTTGTTGCATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTGA
*
75095752 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
75095772 GATTGAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTGA
Found at i:75097051 original size:17 final size:16
Alignment explanation
Indices: 75097021--75097062 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
75097011 TAAAAACAAT
*
75097021 TTAAAATATAAATTAA
1 TTAATATATAAATTAA
*
75097037 TTAATATATATAATTTA
1 TTAATATATA-AATTAA
75097054 TTAATATAT
1 TTAATATAT
75097063 TTAAAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATATAAATTAA
Found at i:75097172 original size:14 final size:14
Alignment explanation
Indices: 75097153--75097183 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75097143 CCAGAAAAGC
75097153 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
75097167 AAATCATTTTCCGG
1 AAATCATTTTCCAG
75097181 AAA
1 AAA
75097184 ATATTGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:75099721 original size:20 final size:20
Alignment explanation
Indices: 75099683--75099728 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
75099673 TGTTCAATGT
*
75099683 TGTTTTTGATAAGTTTGTAA
1 TGTTTTTGATAAGTGTGTAA
* *
75099703 TGTTTTTGTTATGTGTGTAA
1 TGTTTTTGATAAGTGTGTAA
*
75099723 AGTTTT
1 TGTTTT
75099729 GGATCAATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.59
Consensus pattern (20 bp):
TGTTTTTGATAAGTGTGTAA
Found at i:75102423 original size:20 final size:20
Alignment explanation
Indices: 75102394--75102432 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75102384 ATTTATCCAT
*
75102394 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATA
*
75102414 TTTTTGTTTTTAATTTAAT
1 TTTTTATTTTTAATTTAAT
75102433 TGTTACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATA
Found at i:75110642 original size:14 final size:14
Alignment explanation
Indices: 75110625--75110655 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75110615 ATTTCAAAAA
75110625 AAAAAAACTATTTT
1 AAAAAAACTATTTT
*
75110639 AAAAAAGCTATTTT
1 AAAAAAACTATTTT
75110653 AAA
1 AAA
75110656 TGAAACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAAAAACTATTTT
Found at i:75111227 original size:84 final size:84
Alignment explanation
Indices: 75111133--75111304 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
75111123 TATTGCCAAC
* *
75111133 AAAATCAAAATGAAGATGCAAAACTAGTTCATATTTGAACCATCTTCTTTGGCATCAGCTGAATT
1 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTGAATT
*
75111198 ACATTACATCTATATTAAT
66 ACAGTACATCTATATTAAT
75111217 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTGAATT
1 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTGAATT
75111282 ACAGTACATCTATATTAAT
66 ACAGTACATCTATATTAAT
75111301 AAAA
1 AAAA
75111305 CCTGCAACAA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (84 bp):
AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTGAATT
ACAGTACATCTATATTAAT
Found at i:75113165 original size:31 final size:31
Alignment explanation
Indices: 75113119--75113202 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 31
75113109 ATCTAAAAGT
75113119 TACATATAAGTTTTGATTTAATGTATAATATTA
1 TACATA-AA-TTTTGATTTAATGTATAATATTA
* *
75113152 TACATAAATTTTGATTT--TTTATAATTTTA
1 TACATAAATTTTGATTTAATGTATAATATTA
75113181 TACAATAAAATTTTGATTTAAT
1 TAC-AT-AAATTTTGATTTAAT
75113203 TCAATATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 13 0.29
30 2 0.04
31 21 0.47
32 2 0.04
33 7 0.16
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (31 bp):
TACATAAATTTTGATTTAATGTATAATATTA
Found at i:75113367 original size:29 final size:31
Alignment explanation
Indices: 75113319--75113386 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
75113309 TTAAATTAGT
75113319 AATAAT-AAAATTATACTTTGATC-CCTAAA
1 AATAATAAAAATTATACTTTGATCTCCTAAA
*
75113348 AATAATAAAAATT-TGA-TTTGATCTTCTAAA
1 AATAATAAAAATTAT-ACTTTGATCTCCTAAA
*
75113378 AATTATAAA
1 AATAATAAA
75113387 GATATAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (31 bp):
AATAATAAAAATTATACTTTGATCTCCTAAA
Found at i:75113541 original size:24 final size:23
Alignment explanation
Indices: 75113509--75113561 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
75113499 AAATATTACA
*
75113509 TATACAAAT-AATTATATTTATCTT
1 TATAAAAATAAATT-TATTTAT-TT
75113533 TATAAAAATAAATTTATTTATTT
1 TATAAAAATAAATTTATTTATTT
*
75113556 TTTAAA
1 TATAAA
75113562 TATGTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 15 0.58
25 4 0.15
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TATAAAAATAAATTTATTTATTT
Found at i:75114258 original size:6 final size:7
Alignment explanation
Indices: 75114242--75114270 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
75114232 ATGTGTAAGC
75114242 AAAAAGA
1 AAAAAGA
75114249 AAAAAGA
1 AAAAAGA
75114256 AAAAAGA
1 AAAAAGA
75114263 AAAAAGA
1 AAAAAGA
75114270 A
1 A
75114271 GAAGGGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:75116675 original size:43 final size:43
Alignment explanation
Indices: 75116601--75116752 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
75116591 ATATCCCAAA
* * * * *
75116601 TATGGTCTTACATGTTATCACATATCAATGCCGATAG-CCCAGC
1 TATGGTCTTACACGTAATCACATAACGATGCCAAT-GTCCCAGC
* * **
75116644 TATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAA
1 TATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGC
*
75116687 TATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 TATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAG-C
*
75116731 -ATGGTCTTACACATAATCACAT
1 TATGGTCTTACACGTAATCACAT
75116753 CTCGTTAATC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 91 0.99
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
TATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGC
Found at i:75116749 original size:86 final size:85
Alignment explanation
Indices: 75116586--75116742 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
75116576 AGCTCGTACA
* * *
75116586 ATGCCATATCCCAAATATGGTCTTACATGTTATCACATATCAATGCCGATAGCCCAGCTATGGTC
1 ATGCCATATCCCAAATATGGTCTTACACGTAATCACATATCAATGCCAATAGCCCAGCTATGGTC
75116651 TTACACGAAATCAAATAACG
66 TTACACGAAATCAAATAACG
* *
75116671 ATGCCAATGTCCCAAATATGGTCTTACACGTAATCACATAAT-GATGCCAAT-GTCCCAGAC-AT
1 ATGCC-ATATCCCAAATATGGTCTTACACGTAATCACAT-ATCAATGCCAATAG-CCCAG-CTAT
75116733 GGTCTTACAC
62 GGTCTTACAC
75116743 ATAATCACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 6 0.10
86 54 0.86
87 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (85 bp):
ATGCCATATCCCAAATATGGTCTTACACGTAATCACATATCAATGCCAATAGCCCAGCTATGGTC
TTACACGAAATCAAATAACG
Found at i:75117335 original size:32 final size:32
Alignment explanation
Indices: 75117294--75117369 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 32
75117284 AAACTTGTGT
* * *
75117294 AACTATCAAAAAATATTCATTTTTCATC-ATCA
1 AACT-TCAAAAAATATTAAGTATTCATCAATCA
*
75117326 AACATTC--AAAATATTAAGTATTCATCAATGA
1 AAC-TTCAAAAAATATTAAGTATTCATCAATCA
75117357 AACTTCAAAAAAT
1 AACTTCAAAAAAT
75117370 CATGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
30 19 0.53
31 6 0.17
32 10 0.28
33 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (32 bp):
AACTTCAAAAAATATTAAGTATTCATCAATCA
Found at i:75123785 original size:19 final size:19
Alignment explanation
Indices: 75123761--75123872 Score: 156
Period size: 19 Copynumber: 5.8 Consensus size: 19
75123751 AATCTTTAAG
75123761 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
75123780 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
75123799 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
75123816 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
75123835 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
75123856 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
75123873 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.20
19 47 0.56
20 3 0.04
21 9 0.11
22 8 0.10
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:75123791 original size:36 final size:35
Alignment explanation
Indices: 75123751--75123858 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
75123741 ATGGAAATAT
75123751 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
75123787 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
* *
75123823 AGTCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
75123859 CTTGTAATCT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.45
37 1 0.02
38 7 0.12
40 10 0.17
41 6 0.10
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:75126563 original size:3 final size:3
Alignment explanation
Indices: 75126555--75126608 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
75126545 CTTCCCGTTC
* *
75126555 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TGT TCT TCT TCT TCT TAT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
75126603 TCT TCT
1 TCT TCT
75126609 GTTTTGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:75126895 original size:22 final size:22
Alignment explanation
Indices: 75126864--75126905 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75126854 GGGTTCCACT
75126864 TTGGTAGTATTCGAGTTGGGGG
1 TTGGTAGTATTCGAGTTGGGGG
* *
75126886 TTGGTTGTATTCGGGTTGGG
1 TTGGTAGTATTCGAGTTGGG
75126906 TAATAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.05, G:0.45, T:0.40
Consensus pattern (22 bp):
TTGGTAGTATTCGAGTTGGGGG
Found at i:75128074 original size:92 final size:92
Alignment explanation
Indices: 75127917--75128100 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
75127907 CTAAGAAGGG
75127917 AAGAGCAAGGGATGGTTTCATGCAATATTAACCAAGCCAAGAAACCTATATGAATCAATTTCAAC
1 AAGAGCAAGGGATGGTTTCATGCAATATTAACCAAGCCAAGAAACCTATATGAATCAATTTCAAC
75127982 AAAAATTACAGATAATGAAGATGATAA
66 AAAAATTACAGATAATGAAGATGATAA
75128009 AAGAGCAAGGGATGGTTTCATGCAATATTAACCAAGCCAAGAAACCTATATGAATCAATTTCAAC
1 AAGAGCAAGGGATGGTTTCATGCAATATTAACCAAGCCAAGAAACCTATATGAATCAATTTCAAC
75128074 AAAAATTACAGATAATGAAGATGATAA
66 AAAAATTACAGATAATGAAGATGATAA
75128101 TTCTTATACA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (92 bp):
AAGAGCAAGGGATGGTTTCATGCAATATTAACCAAGCCAAGAAACCTATATGAATCAATTTCAAC
AAAAATTACAGATAATGAAGATGATAA
Found at i:75128239 original size:20 final size:20
Alignment explanation
Indices: 75128183--75128240 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
75128173 TATTGTAATA
75128183 GATTCTTTGTTGTTTTAAATC
1 GATTCTTTGTT-TTTTAAATC
* * *
75128204 GATTCATTATTTTTTAAATT
1 GATTCTTTGTTTTTTAAATC
*
75128224 GATTCTTTGTTATTTAA
1 GATTCTTTGTTTTTTAA
75128241 CTCAATTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (20 bp):
GATTCTTTGTTTTTTAAATC
Found at i:75128615 original size:21 final size:21
Alignment explanation
Indices: 75128492--75128625 Score: 103
Period size: 21 Copynumber: 6.3 Consensus size: 21
75128482 TCTTTACTTC
* *
75128492 TTTGAATCAATTGTTTGTTGT
1 TTTGAATCGATTGTTTGTTTT
* *
75128513 TTTGAATCGATTGTTTATTGT
1 TTTGAATCGATTGTTTGTTTT
*
75128534 TTTAAATCGATT-TTT-TTCTT
1 TTTGAATCGATTGTTTGTT-TT
* * *
75128554 CTTGAATCGATT-TTTGCTTC
1 TTTGAATCGATTGTTTGTTTT
* *
75128574 TTTGAATTGATTCATTATTGTTTT
1 TTTGAATCGATT--GT-TTGTTTT
* *
75128598 TTTAAATCGATTGTTTGTTTC
1 TTTGAATCGATTGTTTGTTTT
75128619 TTTGAAT
1 TTTGAAT
75128626 TAATTTATTG
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.02
20 28 0.31
21 43 0.48
22 1 0.01
23 1 0.01
24 15 0.17
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTGAATCGATTGTTTGTTTT
Found at i:75128623 original size:45 final size:44
Alignment explanation
Indices: 75128558--75128659 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 44
75128548 TTTCTTCTTG
* **
75128558 AATCGATTTTTGCTTCTTTGAATTGATTCATTATTGTTTTTTTA
1 AATCGATTTTTGCTTCTTTGAATTAATTCATTATTGTTGATTTA
* * *
75128602 AATCGATTGTTTGTTTCTTTGAATTAATTTATTGTTGTTGATTTA
1 AATCGATT-TTTGCTTCTTTGAATTAATTCATTATTGTTGATTTA
*
75128647 AATAGATTATTTG
1 AATCGATT-TTTG
75128660 ATGTTTAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 8 0.16
45 41 0.84
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.57
Consensus pattern (44 bp):
AATCGATTTTTGCTTCTTTGAATTAATTCATTATTGTTGATTTA
Found at i:75136057 original size:44 final size:41
Alignment explanation
Indices: 75135983--75136101 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 41
75135973 CGATATGTGT
* * *
75135983 TTTCATGTAAGACTAGGTCTAGGACGTTGGCATCG-ACTTATGA
1 TTTCATGTAAGAC-ATGTCTGGGACATTGGCATCGTA-TT-TGA
75136026 TTTACATGTAAGATCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CATGTAAGA-CATGTCTGGGACATTGGCATCGTATTTGA
** *
75136069 TTTTGTGTAAGACACTGTCTGGGACAGTGGCAT
1 TTTCATGTAAGACA-TGTCTGGGACATTGGCAT
75136102 AGACAGTGGC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
41 2 0.03
42 24 0.36
43 9 0.14
44 29 0.44
45 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTCATGTAAGACATGTCTGGGACATTGGCATCGTATTTGA
Found at i:75142031 original size:22 final size:20
Alignment explanation
Indices: 75141989--75142033 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
75141979 TTATTTAATT
75141989 ATAAGAAAAATAATAAAATA
1 ATAAGAAAAATAATAAAATA
75142009 ATAATGAAAAGATAA-AAAGATA
1 ATAA-GAAAA-ATAATAAA-ATA
75142031 ATA
1 ATA
75142034 TATCAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (20 bp):
ATAAGAAAAATAATAAAATA
Found at i:75145188 original size:9 final size:9
Alignment explanation
Indices: 75145176--75145200 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
75145166 TATTTAGGCC
75145176 TTTTAAAAA
1 TTTTAAAAA
75145185 TTTTAAAAA
1 TTTTAAAAA
75145194 TTTTAAA
1 TTTTAAA
75145201 TTAGTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:75146851 original size:35 final size:35
Alignment explanation
Indices: 75146811--75146883 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
75146801 TAATCCTTGA
75146811 AATAGCTTTTTTGTTATAAGAAAAATTCAAACTAT
1 AATAGCTTTTTTGTTATAAGAAAAATTCAAACTAT
*
75146846 AATAGCTTTTTTGTTATAAGAAAAATTTAAACTAT
1 AATAGCTTTTTTGTTATAAGAAAAATTCAAACTAT
75146881 AAT
1 AAT
75146884 TTTTTTTACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (35 bp):
AATAGCTTTTTTGTTATAAGAAAAATTCAAACTAT
Found at i:75147840 original size:6 final size:6
Alignment explanation
Indices: 75147829--75147872 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
75147819 CAAATTTTTG
* * * *
75147829 AAAATC AAAATC AAAATC AAATTG AACATT AAAATC AAAATC AA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AA
75147873 GTACAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATC
Found at i:75147862 original size:24 final size:24
Alignment explanation
Indices: 75147826--75147872 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
75147816 GTCCAAATTT
75147826 TTGAAAATCAAAATCAAAATCAAA
1 TTGAAAATCAAAATCAAAATCAAA
* *
75147850 TTGAACATTAAAATCAAAATCAA
1 TTGAAAATCAAAATCAAAATCAA
75147873 GTACAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (24 bp):
TTGAAAATCAAAATCAAAATCAAA
Found at i:75148044 original size:147 final size:147
Alignment explanation
Indices: 75147852--75148144 Score: 394
Period size: 147 Copynumber: 2.0 Consensus size: 147
75147842 AAATCAAATT
*
75147852 GAACATTAAAATCAAAATCAAGTACAAAATATTATATTAAATCTAACCATAATACTAACATTTTT
1 GAACATTAAAATCAAAATCAAGTACAAAATACTATATTAAATCTAACCATAATACTAACATTTTT
***
75147917 GAAAATCTATTTACAACTAATGGGGCATTTGGTTCACCGAAT-AAATGTTACGACCCG-TAATGG
66 GAAAATCTATTTACAACTAATGAAACATTTGGTTCACCGAATGAAATGTTACGA--CGTTAATGG
75147980 GCCGTTTT-AAACTATTTTG
129 G-CGTTTTGAAACTATTTTG
** * * *
75147999 GAACATTGTAATCAAAATTAAGTACAAAATACTATATTAATTCTAACCATAATACTAATATTTTT
1 GAACATTAAAATCAAAATCAAGTACAAAATACTATATTAAATCTAACCATAATACTAACATTTTT
* * * * * *
75148064 GAAAATTTATTTATAGCTAATGAAATATTTGGTTCACCGAATGTAATGTTATGACGTTAATGGGC
66 GAAAATCTATTTACAACTAATGAAACATTTGGTTCACCGAATGAAATGTTACGACGTTAATGGGC
*
75148129 GTTTTGGAACTATTTT
131 GTTTTGAAACTATTTT
75148145 TAAATTTAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
146 8 0.06
147 110 0.87
148 9 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (147 bp):
GAACATTAAAATCAAAATCAAGTACAAAATACTATATTAAATCTAACCATAATACTAACATTTTT
GAAAATCTATTTACAACTAATGAAACATTTGGTTCACCGAATGAAATGTTACGACGTTAATGGGC
GTTTTGAAACTATTTTG
Found at i:75149262 original size:20 final size:20
Alignment explanation
Indices: 75149224--75149271 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
75149214 TAAATTCTAA
* **
75149224 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
75149244 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
75149264 AAA-ATAAA
1 AAAGATAAA
75149272 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:75149282 original size:19 final size:18
Alignment explanation
Indices: 75149258--75149301 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
75149248 ATAAATAAAG
75149258 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
75149278 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
75149295 ATAATTA
1 ATAATTA
75149302 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:75149297 original size:28 final size:27
Alignment explanation
Indices: 75149266--75149330 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
75149256 AGATAATTAA
75149266 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
75149294 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
75149322 AATATAAAT
1 AATA-AAAT
75149331 AAAATGGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:75149317 original size:16 final size:16
Alignment explanation
Indices: 75149296--75149326 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75149286 ATAATCCTAA
*
75149296 TAATTATCTTAATATT
1 TAATTATCCTAATATT
75149312 TAATTATCCTAATAT
1 TAATTATCCTAATAT
75149327 AAATAAAATG
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:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:75151200 original size:30 final size:30
Alignment explanation
Indices: 75151164--75151225 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
75151154 AATGAAAAAG
*
75151164 GATTAAATTGTAGAATAAATTGTAAAGTTT
1 GATTAAATTGTAGAATAAATTGTAAAATTT
75151194 GATTAAATTGTAGAATAAATTGTAAAATTT
1 GATTAAATTGTAGAATAAATTGTAAAATTT
75151224 GA
1 GA
75151226 GTAATAGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (30 bp):
GATTAAATTGTAGAATAAATTGTAAAATTT
Found at i:75152691 original size:18 final size:19
Alignment explanation
Indices: 75152655--75152696 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
75152645 TTGTTCATGC
*
75152655 CTTTCACTTCCAATCTCAA
1 CTTTCAATTCCAATCTCAA
75152674 -TTTCAATTCACAAT-TCAA
1 CTTTCAATTC-CAATCTCAA
75152692 CTTTC
1 CTTTC
75152697 TCATTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTCAATTCCAATCTCAA
Found at i:75154095 original size:30 final size:28
Alignment explanation
Indices: 75154040--75154101 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
75154030 ATTATTTAAT
75154040 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
75154068 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCT-TTTACTT-AATAATAAA
75154098 TAAT
1 TAAT
75154102 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:75159390 original size:12 final size:13
Alignment explanation
Indices: 75159373--75159405 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
75159363 TTAGACTGTT
75159373 ACACGGCCTA-CC
1 ACACGGCCTAGCC
75159385 ACACGGCCTAGCC
1 ACACGGCCTAGCC
75159398 ACACGGCC
1 ACACGGCC
75159406 GTGTGACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.24, C:0.48, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACGGCCTAGCC
Found at i:75168218 original size:5 final size:5
Alignment explanation
Indices: 75168208--75168235 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75168198 CTGTGTGTTC
75168208 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
75168236 CACAAATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:75174031 original size:2 final size:2
Alignment explanation
Indices: 75174024--75174092 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
75174014 AATATAAGGG
75174024 GA GA GA GA GA GA 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 GA GA GA GA GA GA
75174066 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
75174093 TGTGTGTGTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:75174097 original size:2 final size:2
Alignment explanation
Indices: 75174092--75174117 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75174082 GAGAGAGAGA
75174092 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
75174118 AACGACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:75192169 original size:11 final size:11
Alignment explanation
Indices: 75192153--75192190 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
75192143 TTTATATTTT
75192153 TAAAAAATATA
1 TAAAAAATATA
*
75192164 T-AAAAAT-TT
1 TAAAAAATATA
75192173 TAAAAAATATA
1 TAAAAAATATA
75192184 TAAAAAA
1 TAAAAAA
75192191 AGTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.09
10 12 0.52
11 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:75192175 original size:20 final size:20
Alignment explanation
Indices: 75192150--75192189 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
75192140 AAATTTATAT
75192150 TTTTAAAAAATATATAAAAA
1 TTTTAAAAAATATATAAAAA
75192170 TTTTAAAAAATATATAAAAA
1 TTTTAAAAAATATATAAAAA
75192190 AAGTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTTAAAAAATATATAAAAA
Found at i:75192184 original size:22 final size:21
Alignment explanation
Indices: 75192148--75192199 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
75192138 CAAAATTTAT
* *
75192148 ATTTTTAAAAAATATATAAAA
1 ATTTTAAAAAAATATAAAAAA
75192169 ATTTTAAAAAATATATAAAAAA
1 ATTTTAAAAAA-ATATAAAAAA
*
75192191 AGTTTAAAA
1 ATTTTAAAA
75192200 TTTTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTTAAAAAAATATAAAAAA
Found at i:75192184 original size:35 final size:35
Alignment explanation
Indices: 75192116--75192184 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
75192106 TAACAAAAAC
* * **
75192116 TTTAAAATATTTATAAAAATTTCAAAATTTATATT
1 TTTAAAAAATATATAAAAATTTCAAAAAATATATT
*
75192151 TTTAAAAAATATATAAAAATTTTAAAAAATATAT
1 TTTAAAAAATATATAAAAATTTCAAAAAATATAT
75192185 AAAAAAAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
TTTAAAAAATATATAAAAATTTCAAAAAATATATT
Found at i:75195073 original size:22 final size:23
Alignment explanation
Indices: 75195031--75195075 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
75195021 ATTTTCAAAA
* *
75195031 GCACTTCTCACTTTAAAAATTAT
1 GCACTTCTAACTTCAAAAATTAT
75195054 GCACTTCTAAC-TCAAAAATTAT
1 GCACTTCTAACTTCAAAAATTAT
75195076 TTGTTTAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
GCACTTCTAACTTCAAAAATTAT
Found at i:75195275 original size:6 final size:6
Alignment explanation
Indices: 75195264--75195288 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
75195254 TTTTATGTAA
75195264 AATTAT AATTAT AATTAT AATTAT A
1 AATTAT AATTAT AATTAT AATTAT A
75195289 CTTTTAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:75195687 original size:11 final size:11
Alignment explanation
Indices: 75195681--75195712 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
75195671 TGAAATTTTC
75195681 TCAAAATTCTA
1 TCAAAATTCTA
75195692 TCAAAATTCTA
1 TCAAAATTCTA
75195703 TCAAAATTCT
1 TCAAAATTCT
75195713 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:75195910 original size:48 final size:47
Alignment explanation
Indices: 75195846--75195957 Score: 154
Period size: 48 Copynumber: 2.3 Consensus size: 47
75195836 AGTGATAATT
*
75195846 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATTTTATTAATTTATGC-AATTATAA
* *
75195894 TTAAATTTACAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
75195942 TTAAAATTTCAATACT
1 TT-AAATTTCAATACT
75195958 GCTTTATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
47 7 0.12
48 45 0.78
49 6 0.10
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:75196975 original size:7 final size:7
Alignment explanation
Indices: 75196962--75196994 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
75196952 TAGTCGTTTC
75196962 GTATTTA
1 GTATTTA
*
75196969 ATATTTA
1 GTATTTA
75196976 GTATTTA
1 GTATTTA
75196983 GTATTTA
1 GTATTTA
75196990 GTATT
1 GTATT
75196995 ATGTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:75197611 original size:18 final size:18
Alignment explanation
Indices: 75197588--75197631 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
75197578 ATGCAAGGTG
**
75197588 TGTATCCTAGCCCTTATA
1 TGTATCCTAAACCTTATA
75197606 TGTATCCTAAACCTTATA
1 TGTATCCTAAACCTTATA
*
75197624 TGTTTCCT
1 TGTATCCT
75197632 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCCTAAACCTTATA
Found at i:75201332 original size:126 final size:126
Alignment explanation
Indices: 75201106--75201485 Score: 541
Period size: 126 Copynumber: 3.0 Consensus size: 126
75201096 TTATAGCCTC
* * * *
75201106 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAAC-TTTTTCATAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
* *
75201170 ACAGTGCATCCTGCTTGAA-CTGTTTTCGACAATATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGC-GTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
* * * *
75201231 ATTTTTCTACGAACTACTGTAGCAAAATAGCATTCACATGAGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
* * * * *
75201296 ACAGTGTATCATACTTGAAGCGTTTTCGACACTATTTGTTTAGAAATATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
* * *
75201357 ATTTTTCTACGAACTACTATA-CTAAAAGAACATCCACGTGGGAGCTTTTTTCAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGC-AAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCT
* *
75201421 AACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
75201483 ATT
1 ATT
75201486 CTTACAGAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
125 39 0.17
126 183 0.82
127 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
Found at i:75202049 original size:19 final size:19
Alignment explanation
Indices: 75202027--75202096 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
75202017 ACGATTATGT
*
75202027 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
75202046 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
75202065 ATCAA-T--CACTAATTTA
1 ATCAATTAACCCTAATTTA
75202081 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
75202097 ACCCTAACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.31
17 1 0.02
18 1 0.02
19 29 0.64
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:75202225 original size:22 final size:22
Alignment explanation
Indices: 75202166--75202216 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
75202156 CCCTTAAATT
*
75202166 TTAAACCCTAAAAACCATAACC
1 TTAAATCCTAAAAACCATAACC
*
75202188 TTAAATCCTAAAAACCCTAACC
1 TTAAATCCTAAAAACCATAACC
75202210 TTAAATC
1 TTAAATC
75202217 AATTAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAATCCTAAAAACCATAACC
Found at i:75206030 original size:23 final size:23
Alignment explanation
Indices: 75205942--75206046 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
75205932 TCAGCTCGTA
* *
75205942 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* *** *
75205966 GGAGCTTACCAATTCAGCTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
*
75205988 AAGAGCTTATTG-TTCAGCTCAAT
1 -AGAGCTTACTGTTTCAGCTCAAT
75206011 AGAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
75206034 AAAGTTTACTGTT
1 AGAGCTTACTGTT
75206047 CATCAGTTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
22 19 0.30
23 37 0.58
24 8 0.12
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:75206030 original size:45 final size:47
Alignment explanation
Indices: 75205932--75206019 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 47
75205922 TATCGATATA
* * * *
75205932 TCAGCTCGTAAGAGCTTACTGTTTTTAGCTCATTGGAGCTTACCAAT
1 TCAGCTCGTAAGAGCTTACTGTGTTCAGCTCAATAGAGCTTACCAAT
75205979 TCAGCTCGTAAGAGCTTA-T-TGTTCAGCTCAATAGAGCTTAC
1 TCAGCTCGTAAGAGCTTACTGTGTTCAGCTCAATAGAGCTTAC
75206020 TGTTTCAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 18 0.49
46 1 0.03
47 18 0.49
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (47 bp):
TCAGCTCGTAAGAGCTTACTGTGTTCAGCTCAATAGAGCTTACCAAT
Found at i:75213564 original size:23 final size:22
Alignment explanation
Indices: 75213501--75213605 Score: 70
Period size: 23 Copynumber: 4.5 Consensus size: 22
75213491 GACTCACCAT
*
75213501 AGCTCCTATGAGCTTACTGATATATC
1 AGCTCATA-GAGCTTACTG-T-T-TC
*
75213527 AGCTCGTAAGAGCTTACTGTTTC
1 AGCTCAT-AGAGCTTACTGTTTC
* *
75213550 AGCTCATTGATGCTTA-TCGATTC
1 AGCTCATAGA-GCTTACT-GTTTC
* *
75213573 AGCTTAATAGAGCTTACCGTTTC
1 AGC-TCATAGAGCTTACTGTTTC
75213596 AGCTCA-AGAG
1 AGCTCATAGAG
75213606 GAGCTTACCG
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.06
22 5 0.08
23 32 0.49
24 6 0.09
25 1 0.02
26 16 0.25
27 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (22 bp):
AGCTCATAGAGCTTACTGTTTC
Found at i:75216708 original size:20 final size:20
Alignment explanation
Indices: 75216683--75216744 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
75216673 AACAACATCG
75216683 AGTAAGCTTCGATTGAGCTT
1 AGTAAGCTTCGATTGAGCTT
*
75216703 AGTAAG-TTC-A-T-AG-GT
1 AGTAAGCTTCGATTGAGCTT
* *
75216718 AGAAAAGCTACGATTGAGCTT
1 AG-TAAGCTTCGATTGAGCTT
75216739 AGTAAG
1 AGTAAG
75216745 TTCATAGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 12
0.65 0.10 0.25
Matches are distributed among these distances:
15 3 0.10
16 5 0.16
17 3 0.10
18 2 0.06
19 4 0.13
20 11 0.35
21 3 0.10
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (20 bp):
AGTAAGCTTCGATTGAGCTT
Found at i:75216733 original size:36 final size:36
Alignment explanation
Indices: 75216686--75216759 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
75216676 AACATCGAGT
*
75216686 AAGCTTCGATTGAGCTTAGTAAGTTCATAGGTAGAA
1 AAGCTACGATTGAGCTTAGTAAGTTCATAGGTAGAA
75216722 AAGCTACGATTGAGCTTAGTAAGTTCATAGGTAGAA
1 AAGCTACGATTGAGCTTAGTAAGTTCATAGGTAGAA
75216758 AA
1 AA
75216760 ATAATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.28
Consensus pattern (36 bp):
AAGCTACGATTGAGCTTAGTAAGTTCATAGGTAGAA
Found at i:75219984 original size:30 final size:30
Alignment explanation
Indices: 75219950--75220010 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
75219940 TTCCCGAGCC
75219950 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
75219980 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
75220010 T
1 T
75220011 GAGTTAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:75226996 original size:26 final size:26
Alignment explanation
Indices: 75226965--75227072 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
75226955 TGAAATGCCC
* *
75226965 ATCATGGAACATGTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
75226991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
75227017 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
75227043 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75227069 ATCA
1 ATCA
75227073 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75228890 original size:19 final size:19
Alignment explanation
Indices: 75228868--75228998 Score: 82
Period size: 19 Copynumber: 6.8 Consensus size: 19
75228858 GATGCATCTC
75228868 GTGTGCTAGGATGCACTTT
1 GTGTGCTAGGATGCACTTT
* ** **
75228887 GTGTGCCAATATGTGCTTT
1 GTGTGCTAGGATGCACTTT
* *
75228906 GTGCGCTAGGAGTGCATTTT
1 GTGTGCTAGGA-TGCACTTT
* *
75228926 GTGTGATAGGATGCACTTC
1 GTGTGCTAGGATGCACTTT
* * * ** *
75228945 GTGTTCCAGTATGTGCTTC
1 GTGTGCTAGGATGCACTTT
*
75228964 GTGTGCTAGGAATGCATTTT
1 GTGTGCTAGG-ATGCACTTT
* *
75228984 GTGTTCTAGTATGCA
1 GTGTGCTAGGATGCA
75228999 TTATACGTAC
Statistics
Matches: 79, Mismatches: 31, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
19 52 0.66
20 27 0.34
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.38
Consensus pattern (19 bp):
GTGTGCTAGGATGCACTTT
Found at i:75228998 original size:58 final size:58
Alignment explanation
Indices: 75228859--75228998 Score: 181
Period size: 58 Copynumber: 2.4 Consensus size: 58
75228849 GTTGGCCAGG
* * * *
75228859 ATGCATCTCGTGTGCTAGGATGCACTTTGTGTGCCAATATGTGCTTTGTGCGCTAGGA
1 ATGCATTTTGTGTGCTAGGATGCACTTCGTGTGCCAATATGTGCTTCGTGCGCTAGGA
* * * * *
75228917 GTGCATTTTGTGTGATAGGATGCACTTCGTGTTCCAGTATGTGCTTCGTGTGCTAGGA
1 ATGCATTTTGTGTGCTAGGATGCACTTCGTGTGCCAATATGTGCTTCGTGCGCTAGGA
* *
75228975 ATGCATTTTGTGTTCTAGTATGCA
1 ATGCATTTTGTGTGCTAGGATGCA
75228999 TTATACGTAC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (58 bp):
ATGCATTTTGTGTGCTAGGATGCACTTCGTGTGCCAATATGTGCTTCGTGCGCTAGGA
Found at i:75232641 original size:15 final size:15
Alignment explanation
Indices: 75232623--75232658 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
75232613 TCAACTAGAA
75232623 GAACATCAAAGTTTC
1 GAACATCAAAGTTTC
75232638 GAACATCAAAGTTTC
1 GAACATCAAAGTTTC
*
75232653 AAACAT
1 GAACAT
75232659 TCCAAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (15 bp):
GAACATCAAAGTTTC
Found at i:75235699 original size:29 final size:30
Alignment explanation
Indices: 75235667--75235723 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
75235657 ACCATGAATA
* *
75235667 TAATTAAACTAATAA-ATTCAACCAAAAAC
1 TAATGAAACTAATAAGACTCAACCAAAAAC
*
75235696 TAATGACACTAATAAGACTCAACCAAAA
1 TAATGAAACTAATAAGACTCAACCAAAA
75235724 GCAATCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.19, G:0.04, T:0.21
Consensus pattern (30 bp):
TAATGAAACTAATAAGACTCAACCAAAAAC
Found at i:75236525 original size:55 final size:55
Alignment explanation
Indices: 75236434--75236558 Score: 160
Period size: 55 Copynumber: 2.3 Consensus size: 55
75236424 ATATGAGCAA
* * *
75236434 GCCCGTGTTATTTTGATAGTTTTGACCACGGATGGTGGGTACAGGCATGTCGTAC
1 GCCCGTGTTATTTTGACAGTTTCGACCACGGATGGTGGGCACAGGCATGTCGTAC
* * * * * *
75236489 TCCCGTGTTGTTTTGACAGTTTCGACCATGGGTGGTGGGCACGGGCGTGTCGTAC
1 GCCCGTGTTATTTTGACAGTTTCGACCACGGATGGTGGGCACAGGCATGTCGTAC
*
75236544 GCTCGTGTTATTTTG
1 GCCCGTGTTATTTTG
75236559 GCAGGATTGC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.34
Consensus pattern (55 bp):
GCCCGTGTTATTTTGACAGTTTCGACCACGGATGGTGGGCACAGGCATGTCGTAC
Found at i:75238427 original size:18 final size:18
Alignment explanation
Indices: 75238406--75238672 Score: 112
Period size: 18 Copynumber: 14.4 Consensus size: 18
75238396 AACAATTATC
75238406 TATTCAGTAACAGTCAGT
1 TATTCAGTAACAGTCAGT
* * * *
75238424 TATTCGGTAATAATCAAT
1 TATTCAGTAACAGTCAGT
* * **
75238442 TATTCAATAATAACCAGT
1 TATTCAGTAACAGTCAGT
*
75238460 TATTCAGTATCGATCAATTGATCGGT
1 TATTCAGTA---A-C-A--G-TCAGT
* * *
75238486 TATCCAGTAACAGTTAAT
1 TATTCAGTAACAGTCAGT
* *
75238504 TATTCAGTAA-AATCAGA
1 TATTCAGTAACAGTCAGT
* *
75238521 TATTCAGTAACAATTAAGT
1 TATTCAGTAAC-AGTCAGT
75238540 TAATT-AGTAACAGTCA-T
1 T-ATTCAGTAACAGTCAGT
* * *
75238557 TCATTTAGTGACAATCAGT
1 T-ATTCAGTAACAGTCAGT
* * *
75238576 TATTTAGTAA-TGATCATT
1 TATTCAGTAACAG-TCAGT
* * *
75238594 TATTCAGTAATATTTAGT
1 TATTCAGTAACAGTCAGT
*
75238612 TATTCAGTAACGGTCTA-T
1 TATTCAGTAACAGTC-AGT
* *
75238630 TATCCAGTAACAGTCAAT
1 TATTCAGTAACAGTCAGT
* *
75238648 TATTCGGTAACAGTCATT
1 TATTCAGTAACAGTCAGT
75238666 TATTCAG
1 TATTCAG
75238673 AAATAATCAA
Statistics
Matches: 183, Mismatches: 49, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
17 19 0.10
18 130 0.71
19 15 0.08
20 3 0.02
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
TATTCAGTAACAGTCAGT
Found at i:75238651 original size:72 final size:70
Alignment explanation
Indices: 75238485--75238677 Score: 181
Period size: 72 Copynumber: 2.7 Consensus size: 70
75238475 AATTGATCGG
* ** *
75238485 TTATCCAGTAACAGTTAATTATTCAGTAAAATCAGATATTCAGTAACAATTAAGTTAATTAGTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAATCATTTATTCAGTAA-TATTAAGTTAATTAGTAA
75238550 CAGTCA
65 CAGTCA
** * * * * * *
75238556 TTCATTTAGTGACAATCAGTTATTTAGTAATGATCATTTATTCAGTAATATTTAGTT-ATTCAGT
1 TT-ATCCAGTAACAGTCAATTATTCAGTAA-AATCATTTATTCAGTAATATTAAGTTAATT-AGT
*
75238620 AACGGTCTA
63 AACAGTC-A
* * *
75238629 TTATCCAGTAACAGTCAATTATTCGGTAACAGTCATTTATTCAGAAATA
1 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCATTTATTCAGTAATA
75238678 ATCAATTATT
Statistics
Matches: 94, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
71 5 0.05
72 72 0.77
73 17 0.18
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (70 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAATCATTTATTCAGTAATATTAAGTTAATTAGTAAC
AGTCA
Found at i:75239066 original size:16 final size:16
Alignment explanation
Indices: 75239037--75239070 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
75239027 TAATTCACTT
75239037 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
75239053 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
75239069 TT
1 TT
75239071 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:75240532 original size:15 final size:14
Alignment explanation
Indices: 75240495--75240546 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
75240485 TTACTCTGTG
* *
75240495 TTTCGTTTCATTATG
1 TTTCTTTTCATT-TT
75240510 TTTCTTTTCTATCTTT
1 TTTCTTTTC-AT-TTT
75240526 TTT-TTTTCATTTT
1 TTTCTTTTCATTTT
75240539 TTTCTTTT
1 TTTCTTTT
75240547 GTTTTACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 13 0.41
16 6 0.19
17 1 0.03
ACGTcount: A:0.08, C:0.13, G:0.04, T:0.75
Consensus pattern (14 bp):
TTTCTTTTCATTTT
Found at i:75240679 original size:28 final size:28
Alignment explanation
Indices: 75240639--75240701 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
75240629 GTCATTATCA
75240639 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
75240667 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
75240695 ACCCCAT
1 ACCCCAT
75240702 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:75246102 original size:28 final size:28
Alignment explanation
Indices: 75246062--75246123 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
75246052 GTCATTATCA
*
75246062 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCAAAAGTTATAAAACTCTTCCTAT
* * *
75246090 ACCCCAAAAGTTATGAGACTTTTCCTAT
1 ACCCCAAAAGTTATAAAACTCTTCCTAT
75246118 ACCCCA
1 ACCCCA
75246124 TTAATATGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (28 bp):
ACCCCAAAAGTTATAAAACTCTTCCTAT
Found at i:75246429 original size:31 final size:32
Alignment explanation
Indices: 75246373--75246435 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
75246363 CACACTTGTC
*
75246373 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
75246405 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
75246436 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:75246561 original size:5 final size:5
Alignment explanation
Indices: 75246553--75246588 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
75246543 AATTTATTTC
75246553 ATAAT ATAAT ATAAT ATAAT ATAAT ATTAAT -TAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT A
75246589 ATTATAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Done.